Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 121 of 410
Found at i:36442283 original size:68 final size:67
Alignment explanation
Indices: 36442138--36442289 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 67
36442128 CACCTGGAAC
* * *
36442138 CACACATGCAACCTAGCTACATC-T-A--TCTCGTAGCTCTCTTGTCTACATGGTGTACGCATAG
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATAC-CATAG
36442199 TAT
65 TAT
*
36442202 CACCCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTAC-ACATGGTATA-CATCC
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGT-CTACATGGTATACCAT--
*
36442265 CGTAT
63 AGTAT
* *
36442270 TACACATGTGACCTAGCTAC
1 CACACATGCGACCTAGCTAC
36442290 ATACCATCCG
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
64 20 0.27
65 1 0.01
66 4 0.05
68 47 0.64
69 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (67 bp):
CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACCATAGT
AT
Found at i:36446462 original size:27 final size:26
Alignment explanation
Indices: 36446445--36446682 Score: 278
Period size: 27 Copynumber: 8.8 Consensus size: 26
36446435 ATTATCAAAG
36446445 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * *
36446472 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
36446499 TACCCTCGATTTACAAAATTACTAGTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
36446526 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
36446553 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
36446580 TACCCTCGATTTACAAAATTACCATTC
1 TACCCTCGATTTACAAAATTA-CATTT
* *
36446607 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* *
36446634 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
36446661 TACCCTCGATTTAGAAAATTAC
1 TACCCTCGATTTACAAAATTAC
36446683 TAAAATACCC
Statistics
Matches: 187, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 184 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:36446691 original size:27 final size:27
Alignment explanation
Indices: 36446293--36446719 Score: 164
Period size: 27 Copynumber: 15.9 Consensus size: 27
36446283 AATACTTTAG
* * *
36446293 TTTACCAAATTACTGAAATATCCTC-A
1 TTTACAAAATTACTAAAATACCCTCGA
* ** *
36446319 GTTGTAAAATTAC-AAAAGTACCCTCGG
1 TTTACAAAATTACTAAAA-TACCCTCGA
* ** *
36446346 TTTATAAAATTACCCAAATATCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
** *
36446373 TTTGTAAAATTA-TCGAAATACCCTC-A
1 TTTACAAAATTACT-AAAATACCCTCGA
* * * *
36446399 GTTTGCAAAATTATTGAAATACCCTTGA
1 -TTTACAAAATTACTAAAATACCCTCGA
** ** *
36446427 CATGTAAAATTA-TCAAAGTACCCTCGA
1 TTTACAAAATTACT-AAAATACCCTCGA
* *** *
36446454 TTTACAAAATTACCATTTTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
* ****
36446481 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
***
36446508 TTTACAAAATTACTAGTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * *** *
36446535 TTTACAGAGTTACTATTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ***
36446562 ATTACAAAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ***
36446589 TTTACAAAATTACCATTCTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * ***
36446616 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * ***
36446643 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* *
36446670 TTTAGAAAATTACTAAAATACCC-CTGG
1 TTTACAAAATTACTAAAATACCCTC-GA
** *
36446697 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACTAAAATACCC
36446720 CTTGTAGGGT
Statistics
Matches: 327, Mismatches: 64, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
25 3 0.01
26 18 0.06
27 301 0.92
28 5 0.02
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:36446692 original size:54 final size:54
Alignment explanation
Indices: 36446445--36446684 Score: 336
Period size: 54 Copynumber: 4.4 Consensus size: 54
36446435 ATTATCAAAG
* * **
36446445 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* * *
36446499 TACCCTCGATTTACAAAATTACTAGTTTACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* * * *
36446553 TACCCTTGAATTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTC
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* * * *
36446607 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
*
36446661 TACCCTCGATTTAGAAAATTACTA
1 TACCCTCGATTTACAAAATTACTA
36446685 AAATACCCCT
Statistics
Matches: 163, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 163 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:36446692 original size:81 final size:81
Alignment explanation
Indices: 36446432--36446692 Score: 326
Period size: 81 Copynumber: 3.2 Consensus size: 81
36446422 CTTGACATGT
* * * *
36446432 AAAATTA-TCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACTG
1 AAAATTACT-AAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTA
36446496 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
*** * * * * *
36446513 AAAATTACTAGTTTACCCTCGATTTACAGAGTTACTATTTTACCCTTGAATTACAAAATTACTAT
1 AAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTAT
36446578 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** * * *
36446594 AAAATTACCATTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTAT
*
36446659 TTTACCCTCGATTTAG
66 TTTACCCTCGATTTAC
36446675 AAAATTACTAAAATACCC
1 AAAATTACTAAAATACCC
36446693 CTGGTTTGTA
Statistics
Matches: 152, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 151 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:36446743 original size:27 final size:26
Alignment explanation
Indices: 36446704--36446933 Score: 307
Period size: 27 Copynumber: 8.5 Consensus size: 26
36446694 TGGTTTGTAA
*
36446704 AATTACCAAAATACCCCTTGTAGGGTAG
1 AATTACC-GAATACCCC-TGTAGGGTAG
36446732 AATTACCGAATACCCCTGTAGGGTAG
1 AATTACCGAATACCCCTGTAGGGTAG
* *
36446758 AATTACCGAATACCCCTGTAGGGCAA
1 AATTACCGAATACCCCTGTAGGGTAG
36446784 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCG-AATACCCCTGTAGGGTAG
*
36446811 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCG-AATACCCCTGTAGGGTAG
* *
36446838 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCG-AATACCCCTGTAGGGTAG
36446865 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCG-AATACCCCTGTAGGGTAG
** *
36446892 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTAC-CGAATACCCCTGTAGGGTAG
36446919 AATTACCGAGATACC
1 AATTACCGA-ATACC
36446934 TTATGGGGTA
Statistics
Matches: 183, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
26 43 0.23
27 133 0.73
28 7 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (26 bp):
AATTACCGAATACCCCTGTAGGGTAG
Found at i:36446744 original size:54 final size:54
Alignment explanation
Indices: 36446704--36446933 Score: 338
Period size: 54 Copynumber: 4.3 Consensus size: 54
36446694 TGGTTTGTAA
*
36446704 AATTACCAAAATACCCCTTGTAGGGTAGAATTACCG-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
36446758 AATTACCG-AATACCCCTGTAGGGCAAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
36446811 AATTATCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** *
36446865 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
36446919 AATTACCGAGATACC
1 AATTACCGAAATACC
36446934 TTATGGGGTA
Statistics
Matches: 157, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
52 16 0.10
53 33 0.21
54 108 0.69
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:36446933 original size:81 final size:80
Alignment explanation
Indices: 36446700--36446951 Score: 348
Period size: 81 Copynumber: 3.1 Consensus size: 80
36446690 CCCCTGGTTT
* **
36446700 GTAAAATTACCAAAATACCCCTTGTAGGGTAGAATTAC-CGAATACCCCTGTAGGGTAGAATTAC
1 GTAAAATTACCGAAATACCCC-TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTAC
*
36446764 CGAATACCCCTGTAGG
65 CGAATACCCCTATAGG
* * *
36446780 GCAAAATTACCGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAGAATTAT
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTGTAGGGTAGAATTAC
36446844 CGCAATACCCCTATAGG
65 CG-AATACCCCTATAGG
* *
36446861 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACC
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACC
* *
36446926 GAGATA-CCTTATGGG
66 GA-ATACCCCTATAGG
36446941 GTAAAATTACC
1 GTAAAATTACC
36446952 ATTTTGCCCC
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
79 15 0.10
80 62 0.41
81 75 0.49
82 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (80 bp):
GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACC
GAATACCCCTATAGG
Found at i:36447240 original size:27 final size:26
Alignment explanation
Indices: 36447196--36447247 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36447186 CTCGCTGCAA
*
36447196 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
* *
36447223 TCTGGTGACTTTGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
36447248 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:36447375 original size:6 final size:6
Alignment explanation
Indices: 36447366--36447509 Score: 105
Period size: 6 Copynumber: 22.8 Consensus size: 6
36447356 TTCCATTCAC
* *
36447366 ATTCTG ATTCTG ATTCTG TTACCTGCTG ATTCTG ATTCT- ATTACCTA
1 ATTCTG ATTCTG ATTCTG --A--TTCTG ATTCTG ATTCTG ATT--CTG
* *
36447413 ATTCTG ATTCTG GTTCTG ATTCTG ATTCT- ATTACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
36447462 GTTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
36447510 AGTTATGATA
Statistics
Matches: 111, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
5 7 0.06
6 84 0.76
7 7 0.06
8 9 0.08
10 4 0.04
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:36447395 original size:22 final size:22
Alignment explanation
Indices: 36447369--36447411 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36447359 CATTCACATT
*
36447369 CTGATTCTGATTCTGTTACCTG
1 CTGATTCTGATTCTATTACCTG
36447391 CTGATTCTGATTCTATTACCT
1 CTGATTCTGATTCTATTACCT
36447412 AATTCTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (22 bp):
CTGATTCTGATTCTATTACCTG
Found at i:36447418 original size:19 final size:19
Alignment explanation
Indices: 36447394--36447460 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
36447384 TTACCTGCTG
36447394 ATTCTGATTCTATTACCTA
1 ATTCTGATTCTATTACCTA
* *
36447413 ATTCTGATTCTGGTT--CTG
1 ATTCTGATTCT-ATTACCTA
36447431 ATTCTGATTCTATTACCTA
1 ATTCTGATTCTATTACCTA
36447450 ATTCTGATTCT
1 ATTCTGATTCT
36447461 GGTTCTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 24 0.59
20 2 0.05
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTCTGATTCTATTACCTA
Found at i:36447439 original size:37 final size:37
Alignment explanation
Indices: 36447391--36447509 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
36447381 CTGTTACCTG
36447391 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
36447428 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
* * * * *
36447465 CTGATTTTGATTCTGTCACCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
*
36447502 TTGATTCT
1 CTGATTCT
36447510 AGTTATGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
Found at i:36448239 original size:93 final size:93
Alignment explanation
Indices: 36448071--36448257 Score: 279
Period size: 93 Copynumber: 2.0 Consensus size: 93
36448061 CATTATTAAG
*
36448071 AAGGGTTTTTAATGGAAACATGGTTTCTGAAAAACACTTCAATGTGACACGCCAAATTCGAGCCA
1 AAGGGTTTTTAATGAAAACATGGTTTCTGAAAAACACTTCAATGTGACACGCCAAATTCGAGCCA
* * *
36448136 AACTTTTAGGCCGGGTTTGGGGTGTTAC
66 AACGTCTAGGCCGAGTTTGGGGTGTTAC
* *
36448164 AAGGGTTTTTAATGAAAACATGGTTT-TCGTAAAACACTTCAATGTGACACGCCAGATTCGA-CC
1 AAGGGTTTTTAATGAAAACATGGTTTCT-GAAAAACACTTCAATGTGACACGCCAAATTCGAGCC
*
36448227 GTAACGTCTAGGCCGAGTTTGGGGTGTTAC
65 -AAACGTCTAGGCCGAGTTTGGGGTGTTAC
36448257 A
1 A
36448258 GACTCGGTGT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
92 3 0.04
93 82 0.96
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (93 bp):
AAGGGTTTTTAATGAAAACATGGTTTCTGAAAAACACTTCAATGTGACACGCCAAATTCGAGCCA
AACGTCTAGGCCGAGTTTGGGGTGTTAC
Found at i:36449304 original size:46 final size:47
Alignment explanation
Indices: 36449252--36449346 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
36449242 GTTGAATTTA
* *
36449252 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
36449298 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
36449345 AA
1 AA
36449347 AGAAAATCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 12 0.27
47 33 0.73
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:36450193 original size:45 final size:45
Alignment explanation
Indices: 36450129--36450300 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 45
36450119 TGCACAGTAT
**
36450129 TATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
36450174 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGGC-GGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAAT-GCTGGTGAGATAC
* * * *
36450219 TATTTGGGCTTTAGAGCCTAGCAGGCTATAATGTTGGTGAAATGA-
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTGGTGAGAT-AC
* * *
36450264 TA-TCGGGC-TTCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTGGTGA
36450301 ATGAATTCAA
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
42 10 0.09
43 15 0.13
44 6 0.05
45 79 0.70
46 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
Found at i:36454889 original size:28 final size:29
Alignment explanation
Indices: 36454857--36454971 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
36454847 TACCTATATT
* *
36454857 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
36454885 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
36454914 TGGCCAATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
36454943 TAGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
36454971 T
1 T
36454972 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:36454955 original size:58 final size:57
Alignment explanation
Indices: 36454848--36454958 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
36454838 AAATTCACAT
* * * *
36454848 ACCTATATTTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCAATTAAGCCCAATCACATTCATATAGCCCATTAGGCCCAAATC
* * * *
36454905 ACCTGTATATGGCCAATTAGGCCCAAATCACATTTATATAGCCCGTTAGGCCCA
1 ACCTATATATGGCCAATTAAGCCC-AATCACATTCATATAGCCCATTAGGCCCA
36454959 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCAATTAAGCCCAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:36455215 original size:16 final size:16
Alignment explanation
Indices: 36455164--36455198 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
36455154 GTAGCCAAAC
36455164 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
36455180 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
36455196 TTT
1 TTT
36455199 TTGGCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:36463331 original size:27 final size:28
Alignment explanation
Indices: 36463301--36463370 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
36463291 ATAATAAGTC
*
36463301 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
36463328 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
36463356 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36463371 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:36470170 original size:40 final size:39
Alignment explanation
Indices: 36470133--36470250 Score: 182
Period size: 40 Copynumber: 2.9 Consensus size: 39
36470123 GCTACTCGTT
* *
36470133 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
36470173 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCA
36470213 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCG
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCG
36470251 TATTTCATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 70 0.97
41 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:36470847 original size:38 final size:38
Alignment explanation
Indices: 36470796--36470885 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
36470786 AGGCTACCTA
*
36470796 TGGCCGAACATACACCTCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
36470834 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
*
36470872 TGGCCGAACGTACA
1 TGGCCGAACATACA
36470886 TGTCTATGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:36478195 original size:40 final size:40
Alignment explanation
Indices: 36478151--36478336 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
36478141 GCTACTCGTT
*
36478151 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
36478191 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36478231 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
36478271 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
36478312 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36478337 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36485325 original size:6 final size:6
Alignment explanation
Indices: 36485314--36485362 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
36485304 TTCAATTTTC
* *
36485314 TTTCTT TTTCTT TTTCTCT CTTTTTT TTTCTT GTTCTT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCT-T -TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
36485363 ATAGTATCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 31 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:36485328 original size:16 final size:16
Alignment explanation
Indices: 36485309--36485362 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
36485299 TTTTTTTCAA
36485309 TTTTCTTTCTTTTTCT
1 TTTTCTTTCTTTTTCT
*
36485325 TTTTCTCTC-TTTT-T
1 TTTTCTTTCTTTTTCT
36485339 TTTTCTTGTTCTTTTTCT
1 TTTTC-T-TTCTTTTTCT
36485357 TTTTCT
1 TTTTCT
36485363 ATAGTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 10 0.31
17 5 0.16
18 6 0.19
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTCTTTCTTTTTCT
Found at i:36487443 original size:11 final size:11
Alignment explanation
Indices: 36487427--36487463 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
36487417 TGATGCTGAA
36487427 ATTTTTTTCTG
1 ATTTTTTTCTG
36487438 ATTTTTTTCT-
1 ATTTTTTTCTG
36487448 A-TTTTTT-TG
1 ATTTTTTTCTG
36487457 ATTTTTT
1 ATTTTTT
36487464 GATAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.04
9 7 0.29
10 6 0.25
11 10 0.42
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.78
Consensus pattern (11 bp):
ATTTTTTTCTG
Found at i:36492813 original size:39 final size:39
Alignment explanation
Indices: 36492639--36492797 Score: 212
Period size: 39 Copynumber: 4.1 Consensus size: 39
36492629 TGTGAATATA
* * *
36492639 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCAGGACTTTAGGTCCGCAGGC
* * * * *
36492678 TATAAGCGAGAATTATATCCA-GACTTCATGTCTGCAAGC
1 TATATGCGAGAATTATAT-CAGGACTTTAGGTCCGCAGGC
* *
36492717 TATATGCGAGAATTATATCTGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCAGGACTTTAGGTCCGCAGGC
36492756 TATATGCGAGAATTATATCAGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCAGGACTTTAGGTCCGCAGGC
36492795 TAT
1 TAT
36492798 GTGCTGGACA
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 103 0.98
40 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCAGGACTTTAGGTCCGCAGGC
Found at i:36493175 original size:2 final size:2
Alignment explanation
Indices: 36493168--36493205 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36493158 TATGTTAGTG
36493168 TA TA TA 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
36493206 CGTAATTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36501965 original size:121 final size:121
Alignment explanation
Indices: 36501751--36501994 Score: 418
Period size: 121 Copynumber: 2.0 Consensus size: 121
36501741 AAACACATAC
* *
36501751 CTCAATCAAGCTTGGACCATGGTCAAATGCTTCAAGCAGTTAAACCCTATCTTTTCGTTTTATTT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACAGTTAAACCCTATCTTTTCGTTTTATTT
* * *
36501816 TTGGTTGAAGATGAATGAACCAAATGAATTTTTAACTTTTGTTTTAATAATATTAA
66 TTCGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAATAATATTAA
*
36501872 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACATTTAAACCCTATCTTTTC-TTTCTATT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACAGTTAAACCCTATCTTTTCGTTT-TATT
36501936 TTTCGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAATAATATTAA
65 TTTCGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAATAATATTAA
36501993 CT
1 CT
36501995 TAAATTTACC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
120 3 0.03
121 113 0.97
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (121 bp):
CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACAGTTAAACCCTATCTTTTCGTTTTATTT
TTCGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAATAATATTAA
Found at i:36514970 original size:26 final size:26
Alignment explanation
Indices: 36514934--36514991 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
36514924 AACGTATCTG
36514934 AAGTACAAAGCTTTCTAAGGTCGGCC
1 AAGTACAAAGCTTTCTAAGGTCGGCC
* * *
36514960 AAGTACGAAGCTTTCTAAGGTTGGCT
1 AAGTACAAAGCTTTCTAAGGTCGGCC
36514986 AAGTAC
1 AAGTAC
36514992 CACCGCATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (26 bp):
AAGTACAAAGCTTTCTAAGGTCGGCC
Found at i:36518002 original size:38 final size:38
Alignment explanation
Indices: 36517960--36518039 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
36517950 GTGTTATTTG
* * *
36517960 GGCTCTGTGCCTAATAGGCTTTGTGCTGATGATATTCA
1 GGCTCTATGCCTAACAGGCTTTGTACTGATGATATTCA
* * * *
36517998 GGCTCTATGCCTAGCAGTCTTTGTACTGGTGTTATTCA
1 GGCTCTATGCCTAACAGGCTTTGTACTGATGATATTCA
36518036 GGCT
1 GGCT
36518040 TCGTGCTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (38 bp):
GGCTCTATGCCTAACAGGCTTTGTACTGATGATATTCA
Found at i:36520599 original size:26 final size:27
Alignment explanation
Indices: 36520549--36520630 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
36520539 ATCGGTAGTC
*
36520549 CTACCCTACAGGGGTATTTTAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
36520576 CTACCCTACA-GGGTATTTCGGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
*
36520602 CTACCTTACAGGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
36520629 CT
1 CT
36520631 GTAAATCGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 23 0.46
27 27 0.54
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCAGTAATT
Found at i:36522092 original size:24 final size:24
Alignment explanation
Indices: 36522035--36522082 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36522025 CGCATGAATT
36522035 TAAAAGTATGTTTCAATATTTTTA
1 TAAAAGTATGTTTCAATATTTTTA
36522059 TAAAAGTATGTTTCAATATTTTTA
1 TAAAAGTATGTTTCAATATTTTTA
36522083 CTTAAGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
TAAAAGTATGTTTCAATATTTTTA
Found at i:36524474 original size:20 final size:20
Alignment explanation
Indices: 36524449--36524486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36524439 GTTTATTCGC
*
36524449 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
36524469 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
36524487 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:36526137 original size:28 final size:28
Alignment explanation
Indices: 36526105--36526173 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
36526095 GCGTAGATCA
36526105 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
36526133 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
36526161 CGATA-TACCCCTA
1 CGAAATTACCCCTA
36526174 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:36529872 original size:15 final size:15
Alignment explanation
Indices: 36529852--36529913 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
36529842 TCTTGGGTTT
36529852 CTTTATTCTGGATTC
1 CTTTATTCTGGATTC
*
36529867 CTTTATTCTGGATTT
1 CTTTATTCTGGATTC
* *
36529882 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTC
*
36529897 CTTTATTC-GGTTTC
1 CTTTATTCTGGATTC
36529911 CTT
1 CTT
36529914 GTTATCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 29 0.73
16 2 0.05
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.56
Consensus pattern (15 bp):
CTTTATTCTGGATTC
Found at i:36535374 original size:15 final size:15
Alignment explanation
Indices: 36535354--36535415 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
36535344 TCTTGGGTTT
36535354 CTTTATTCTGGATTC
1 CTTTATTCTGGATTC
*
36535369 CTTTATTCTGGATTT
1 CTTTATTCTGGATTC
* *
36535384 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTC
*
36535399 CTTTATTC-GGTTTC
1 CTTTATTCTGGATTC
36535413 CTT
1 CTT
36535416 GTTATCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 29 0.73
16 2 0.05
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.56
Consensus pattern (15 bp):
CTTTATTCTGGATTC
Found at i:36540250 original size:15 final size:16
Alignment explanation
Indices: 36540230--36540259 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36540220 CTGTAAAGAT
36540230 TATACATT-TCATATG
1 TATACATTCTCATATG
36540245 TATACATTCTCATAT
1 TATACATTCTCATAT
36540260 CTCATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATG
Found at i:36540413 original size:42 final size:43
Alignment explanation
Indices: 36540326--36540518 Score: 160
Period size: 42 Copynumber: 4.5 Consensus size: 43
36540316 AATGCCTACA
* * * * * **
36540326 TCCCAGACGTGGTCTTACATGTAATTTAG-TGTCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGAAATTCAGAT-ACGATGCCAATG
* * *
36540369 TCCCCGATAAGGTCTTACACGAAATT-AGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATTCAGATACGATGCCAATG
* * *
36540411 TCCCAGACATGGTCTTACATG-TATTCAGATACGACGCCAATG
1 TCCCAGACATGGTCTTACACGAAATTCAGATACGATGCCAATG
* * * * *
36540453 TTCCAGACATGGTCTTACACGTAAATCTCAAAT-CAAGGCCTATG
1 TCCCAGACATGGTCTTACACG-AAAT-TCAGATACGATGCCAATG
*
36540497 TCCCAGACACGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
36540519 TATATCTGAT
Statistics
Matches: 121, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
41 3 0.02
42 62 0.51
43 22 0.18
44 29 0.24
45 5 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATTCAGATACGATGCCAATG
Found at i:36547580 original size:15 final size:16
Alignment explanation
Indices: 36547562--36547591 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36547552 ATGTAAAGAT
36547562 TATACATT-TCATATA
1 TATACATTCTCATATA
36547577 TATACATTCTCATAT
1 TATACATTCTCATAT
36547592 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:36547757 original size:42 final size:42
Alignment explanation
Indices: 36547657--36547850 Score: 178
Period size: 42 Copynumber: 4.5 Consensus size: 42
36547647 CAATGCCTAC
* * * * **
36547657 GTCCCAGACGTGGTCTTACATGTAATTCAG-TGTCGATGCCTCT
1 GTCCCAGACATGGTCTTACACG-AAATCAGAT-ACGATGCCAAT
* *
36547700 GTCCCCGACAGGGTCTTACACGAAATCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCAAT
* *
36547742 GTCCCAGACATGGTCTTACAC-ATAATTAGATAGGATGCCAAT
1 GTCCCAGACATGGTCTTACACGA-AATCAGATACGATGCCAAT
* * * *
36547784 GTCCCAGACATGGTCTTACATGAAAATCTCAAAT-CGAGGCCTAT
1 GTCCCAGACATGGTCTTACACG-AAA--TCAGATACGATGCCAAT
*
36547828 GTCCCAGACACGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
36547851 TATCTCTGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 70 0.56
43 22 0.18
44 28 0.22
45 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCAAT
Found at i:36549507 original size:36 final size:36
Alignment explanation
Indices: 36549459--36549559 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 36
36549449 CATTAGTCAG
36549459 AATAGATCCAAAAGGCTACTAAACTGAATCAATCAT
1 AATAGATCCAAAAGGCTACTAAACTGAATCAATCAT
* * *
36549495 AATAGATTCAAAAGGCTATTGAACTGAATCAATCAT
1 AATAGATCCAAAAGGCTACTAAACTGAATCAATCAT
* * * *
36549531 AATAGATCCGAAATGCTGCTAAATTGAAT
1 AATAGATCCAAAAGGCTACTAAACTGAAT
36549560 AGAGTTTACT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (36 bp):
AATAGATCCAAAAGGCTACTAAACTGAATCAATCAT
Found at i:36553070 original size:55 final size:54
Alignment explanation
Indices: 36552997--36553102 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 54
36552987 TCGTTGCCAA
* *
36552997 AACAGATAATGTGACAGAGTCAGCAGATACAAATAA-TCGTGGCAGAGCCACTAG
1 AACAGATAATGTGACAGAGCCACCAGAT-CAAATAATTCGTGGCAGAGCCACTAG
* * * *
36553051 AACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCAC
1 AACAGATA-ATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCAC
36553103 CAGGACGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 14 0.32
55 30 0.68
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCACTAG
Found at i:36553101 original size:28 final size:27
Alignment explanation
Indices: 36552997--36553105 Score: 105
Period size: 27 Copynumber: 4.0 Consensus size: 27
36552987 TCGTTGCCAA
* * *
36552997 AACAGATA-ATGTGACAGAGTCAGCAG
1 AACAGATATATGTGGCAGAGCCACCAG
* *
36553023 ATACAAATA-ATCGTGGCAGAGCCACTAG
1 A-ACAGATATAT-GTGGCAGAGCCACCAG
36553051 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATATATGTGGCAGAGCCACCAG
* * *
36553078 ATCAGATAATTTGTGGCATAGCCACCAG
1 AACAGAT-ATATGTGGCAGAGCCACCAG
36553106 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 35 0.51
28 33 0.48
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (27 bp):
AACAGATATATGTGGCAGAGCCACCAG
Found at i:36560270 original size:2 final size:2
Alignment explanation
Indices: 36560263--36560296 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36560253 CAGCTCTTGC
36560263 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
36560297 TTGCACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36561248 original size:40 final size:40
Alignment explanation
Indices: 36561010--36561267 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
36561000 CGGATGATAA
** * *
36561010 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
36561050 CTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36561090 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
36561130 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
36561170 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
36561210 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
36561250 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36561268 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 17 0.09
40 177 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36564778 original size:29 final size:29
Alignment explanation
Indices: 36564745--36564934 Score: 168
Period size: 29 Copynumber: 6.6 Consensus size: 29
36564735 GTGACGAGAT
36564745 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36564774 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
36564803 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
36564832 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
36564861 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
36564890 TGGCACTGTGTGTGCGGGCT-TAAAT-TGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATAT--A
36564919 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36564935 AAATCGAGTG
Statistics
Matches: 135, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 132 0.98
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:36572521 original size:29 final size:29
Alignment explanation
Indices: 36572488--36572677 Score: 159
Period size: 29 Copynumber: 6.6 Consensus size: 29
36572478 GTGACGAGAT
36572488 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36572517 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** *
36572546 AGGCACTAAGTGTGTATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
36572575 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
36572604 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
36572633 TGGCACTGTGTGTGCGGGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36572660 CGTGGCACTAAGTGTGCG
1 --TGGCACTAAGTGTGCG
36572678 AAATCGAGTA
Statistics
Matches: 133, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 129 0.97
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:36579275 original size:2 final size:2
Alignment explanation
Indices: 36579268--36579301 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36579258 CGGCTCTTGC
36579268 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
36579302 TTGCACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36580216 original size:40 final size:40
Alignment explanation
Indices: 36580016--36580195 Score: 317
Period size: 40 Copynumber: 4.5 Consensus size: 40
36580006 ATGATAACCA
36580016 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
36580056 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCG
36580096 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
36580136 GGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
36580176 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
36580196 CGAGGGAGTA
Statistics
Matches: 135, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:36583337 original size:27 final size:27
Alignment explanation
Indices: 36583306--36583439 Score: 155
Period size: 28 Copynumber: 4.9 Consensus size: 27
36583296 CTGCCAGAAT
* * *
36583306 AGATAATATGACAAAGCCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
36583333 AGATAATCGTGGCAGAGCCACCAGATAC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
36583361 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
36583388 AGATATATGTGGCAGAGCCACCAAAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
36583415 AGATAATTTATGGCATAGCCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
36583440 GACACTTCCT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.01
27 36 0.38
28 58 0.61
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:36583354 original size:28 final size:28
Alignment explanation
Indices: 36583320--36583439 Score: 165
Period size: 28 Copynumber: 4.3 Consensus size: 28
36583310 AATATGACAA
36583320 AGCCACCAGATACAGATAATCGTGGCAG
1 AGCCACCAGATACAGATAATCGTGGCAG
36583348 AGCCACCAGATACAGATAATCGTGGCAG
1 AGCCACCAGATACAGATAATCGTGGCAG
36583376 AGCCACCAGA-ACAGATATAT-GTGGCAG
1 AGCCACCAGATACAGATA-ATCGTGGCAG
* ** *
36583403 AGCCACCAAAT-CAGATAATTTATGGCAT
1 AGCCACCAGATACAGATAA-TCGTGGCAG
36583431 AGCCACCAG
1 AGCCACCAG
36583440 GACACTTCCT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.01
27 30 0.36
28 53 0.63
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (28 bp):
AGCCACCAGATACAGATAATCGTGGCAG
Found at i:36583390 original size:55 final size:56
Alignment explanation
Indices: 36583320--36583439 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 56
36583310 AATATGACAA
* *
36583320 AGCCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGATACAGATAA-TCGTGGCAG
1 AGCCACCAGATACAGATATAT-GTGGCAGAGCCACCAAAT-CAGATAATTCATGGCAG
* *
36583376 AGCCACCAGA-ACAGATATATGTGGCAGAGCCACCAAATCAGATAATTTATGGCAT
1 AGCCACCAGATACAGATATATGTGGCAGAGCCACCAAATCAGATAATTCATGGCAG
36583431 AGCCACCAG
1 AGCCACCAG
36583440 GACACTTCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
54 7 0.12
55 39 0.67
56 12 0.21
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (56 bp):
AGCCACCAGATACAGATATATGTGGCAGAGCCACCAAATCAGATAATTCATGGCAG
Found at i:36596933 original size:39 final size:40
Alignment explanation
Indices: 36596833--36597014 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
36596823 TCGAATGATG
* * *
36596833 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
36596873 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
36596913 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
36596951 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
36596992 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
36597015 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:36596978 original size:78 final size:80
Alignment explanation
Indices: 36596833--36597014 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
36596823 TCGAATGATG
* * * *
36596833 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
36596898 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
36596913 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
36596975 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
36596992 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
36597015 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:36601301 original size:28 final size:29
Alignment explanation
Indices: 36601270--36601330 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
36601260 GTGAGCATGA
36601270 ATAT-AAGGTGATTTGGGCCTAACAGGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
**
36601298 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
36601327 ATAT
1 ATAT
36601331 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACAGGCC
Found at i:36601343 original size:29 final size:29
Alignment explanation
Indices: 36601282--36601416 Score: 125
Period size: 28 Copynumber: 4.7 Consensus size: 29
36601272 ATAAGGTGAT
** * ** *
36601282 TTGGGCCTAACAGGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
36601311 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* *
36601340 TTGGGCC-GATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
36601368 TTGGGTCTGATGGGCGATAT-AA-ATGAGA
1 TTGGGCCTAATGGGCCATATGAATATGA-A
36601396 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
36601417 CATGTATGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.05
28 43 0.49
29 41 0.47
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:36601416 original size:57 final size:57
Alignment explanation
Indices: 36601294--36601421 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 57
36601284 GGGCCTAACA
* * * *
36601294 GGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGAATTGGGCCGATG
1 GGCCATATGAATGTGAATTGGGCCTAATGGGCCATATGAATATGAATTGGGCCAATG
* * *
36601351 GGCCATATGAATGTGAATTGGGTCTGATGGGCGATAT-AA-ATGAGATTGGGCCAAGTG
1 GGCCATATGAATGTGAATTGGGCCTAATGGGCCATATGAATATGA-ATTGGGCCAA-TG
*
36601408 GGCCATATGCATGT
1 GGCCATATGAATGT
36601422 ATGTAGGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.07
56 11 0.18
57 46 0.75
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (57 bp):
GGCCATATGAATGTGAATTGGGCCTAATGGGCCATATGAATATGAATTGGGCCAATG
Found at i:36603370 original size:42 final size:42
Alignment explanation
Indices: 36603319--36603409 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
36603309 TATGATACTA
*
36603319 GTGT-TATTGCTTTGATAGACCCTGGCTCTACTCGTTCATAT
1 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCATAT
*
36603360 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCGTAT
1 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCATAT
36603402 GTGTGTAT
1 GTGTGTAT
36603410 GAAATTGGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (42 bp):
GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCATAT
Found at i:36613838 original size:29 final size:29
Alignment explanation
Indices: 36613776--36613878 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
36613766 GTGACGAGAT
* * *
36613776 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
36613805 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
36613834 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
36613863 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36613879 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:36621849 original size:29 final size:29
Alignment explanation
Indices: 36621787--36621889 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
36621777 GTGACGAGAT
* * *
36621787 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
36621816 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
36621845 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
36621874 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36621890 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:36626387 original size:18 final size:18
Alignment explanation
Indices: 36626364--36626403 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36626354 GAGGACACTT
36626364 CAAGGTCCACAAAGAAAC
1 CAAGGTCCACAAAGAAAC
** *
36626382 CAAGGTCGGCAAAGAATC
1 CAAGGTCCACAAAGAAAC
36626400 CAAG
1 CAAG
36626404 AAGATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.23, T:0.07
Consensus pattern (18 bp):
CAAGGTCCACAAAGAAAC
Found at i:36627913 original size:21 final size:21
Alignment explanation
Indices: 36627875--36627950 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
36627865 AAATGAGAGA
***
36627875 AAAAGAAAAGAGTGAAAATGT
1 AAAAGAAAAGAAAAAAAATGT
*
36627896 AAAAGAAAAGAAAAAAAATAAT
1 AAAAGAAAAGAAAAAAAAT-GT
** *
36627918 AAAAGAGAGTGAAAAGAAAATGAG
1 AAAAGA-AAAGAAAA-AAAATG-T
36627942 AAAAGAAAA
1 AAAAGAAAA
36627951 AGATGAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
21 16 0.39
22 7 0.17
23 7 0.17
24 11 0.27
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAGAAAAAAAATGT
Found at i:36627946 original size:13 final size:14
Alignment explanation
Indices: 36627927--36627968 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
36627917 TAAAAGAGAG
*
36627927 TGAAAAGAAAATGA
1 TGAAAAGAAAAAGA
36627941 -GAAAAGAAAAAGA
1 TGAAAAGAAAAAGA
36627954 TGAAAAAGAAAAAGA
1 TG-AAAAGAAAAAGA
36627969 GGGTGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 1 0.04
15 12 0.48
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (14 bp):
TGAAAAGAAAAAGA
Found at i:36627956 original size:16 final size:15
Alignment explanation
Indices: 36627929--36627968 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36627919 AAAGAGAGTG
*
36627929 AAAAGAAAATGA-G-
1 AAAAGAAAAAGATGA
36627942 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
36627957 AAAAGAAAAAGA
1 AAAAGAAAAAGA
36627969 GGGTGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
15 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:36630288 original size:38 final size:38
Alignment explanation
Indices: 36630241--36630318 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
36630231 TCATATCGAA
*
36630241 TTTGCCTATAATGGATTAGTCCACTCGGCAACTAAATT
1 TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
*
36630279 TTTGCCTATAATCGATTAGTCCACTCGGTAACTAAATT
1 TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
36630317 TT
1 TT
36630319 CTCCTTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (38 bp):
TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
Found at i:36634030 original size:12 final size:14
Alignment explanation
Indices: 36634013--36634044 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36634003 GTAAGAACAC
36634013 ATGTGTA-G-TACT
1 ATGTGTAGGTTACT
36634025 ATGTGTAGGTTACT
1 ATGTGTAGGTTACT
36634039 ATGTGT
1 ATGTGT
36634045 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (14 bp):
ATGTGTAGGTTACT
Found at i:36634129 original size:50 final size:50
Alignment explanation
Indices: 36634000--36634311 Score: 230
Period size: 50 Copynumber: 6.2 Consensus size: 50
36633990 CGAATGATCC
* * * * * * ***
36634000 ATTGTAAGAACACATGTGTAGTACTATGTGTAGGTTACTATGTGTTTAAG
1 ATTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * *
36634050 ATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAG
1 AT--TGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * **
36634102 ATTGTTAGTTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCA-
1 ATTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAG
* * * * *
36634152 ATAGCTTCGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGG
1 ATTG-TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* ** * * * *
36634203 ATTGTTAGGTTGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCG
1 ATTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
* * * * * *
36634253 ATAGCTTCGATCACGTGTGTAGTAATAAGTGCAGGCTACTACATGTATCAG
1 ATTG-TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
*
36634304 ATGGTTAG
1 ATTGTTAG
36634312 GTCATGGGTA
Statistics
Matches: 201, Mismatches: 55, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
50 85 0.42
51 77 0.38
52 39 0.19
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
ATTGTTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
Found at i:36634181 original size:51 final size:51
Alignment explanation
Indices: 36634061--36634293 Score: 236
Period size: 50 Copynumber: 4.6 Consensus size: 51
36634051 TGGTTTTAGG
* * ** * * *
36634061 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTG-TTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
* * * * *
36634111 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCAATAGCTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
* * * * * * *
36634162 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTG-TTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
** * *
36634212 TTGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAGCTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
*
36634263 TCACGTGTGTAGTAATAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
36634294 CATGTATCAG
Statistics
Matches: 143, Mismatches: 38, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
50 74 0.52
51 69 0.48
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
Found at i:36634195 original size:101 final size:101
Alignment explanation
Indices: 36634061--36634313 Score: 384
Period size: 101 Copynumber: 2.5 Consensus size: 101
36634051 TGGTTTTAGG
36634061 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGTTA-GTTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGTTAGGTT-GCATGTGTAGTA
* *
36634125 CTAAGTGTAGGCTACTATGCATACCCAATAGCTTCGA
65 CTAAGTGCAGACTACTATGCATACCCAATAGCTTCGA
* **
36634162 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGTTAGGTTGCATGTGTAGTAC
* *
36634227 TAAGTGCAGACTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAGACTACTATGCATACCCAATAGCTTCGA
* * *
36634263 TCACGTGTGTAGTAATAAGTGCAGGCTACTACATGTATC-AGATGGTTAGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAAGATTGTTAGGT
36634314 CATGGGTATA
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
101 134 0.97
102 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATTGTTAGGTTGCATGTGTAGTAC
TAAGTGCAGACTACTATGCATACCCAATAGCTTCGA
Found at i:36641535 original size:9 final size:9
Alignment explanation
Indices: 36641521--36641551 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
36641511 AGAACTAAAC
36641521 TGTGAAATA
1 TGTGAAATA
36641530 TGTGAAATA
1 TGTGAAATA
36641539 TGTGAAATA
1 TGTGAAATA
36641548 TGTG
1 TGTG
36641552 GGGCAGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (9 bp):
TGTGAAATA
Found at i:36642413 original size:14 final size:14
Alignment explanation
Indices: 36642380--36642464 Score: 57
Period size: 15 Copynumber: 5.9 Consensus size: 14
36642370 CTATTTTAAT
*
36642380 GTTTATGGATTATGG
1 GTTTAGGGATTAT-G
36642395 GTTTAGGGATTATG
1 GTTTAGGGATTATG
36642409 GTTTAAGGG-TTGA-G
1 GTTT-AGGGATT-ATG
* *
36642423 GTTTAAGGATTAAG
1 GTTTAGGGATTATG
* * *
36642437 GGTTAGGGTTTCAAG
1 GTTTAGGGATT-ATG
*
36642452 GTTTAGGGTTTAT
1 GTTTAGGGATTAT
36642465 ATTTTAGGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
13 4 0.07
14 24 0.41
15 30 0.52
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:36642436 original size:21 final size:21
Alignment explanation
Indices: 36642411--36642461 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
36642401 GGATTATGGT
36642411 TTAAGGGTT-GAGGTTT-AAGG
1 TTAAGGGTTAG-GGTTTCAAGG
36642431 ATTAAGGGTTAGGGTTTCAAGG
1 -TTAAGGGTTAGGGTTTCAAGG
*
36642453 TTTAGGGTT
1 TTAAGGGTT
36642462 TATATTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.37, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTAGGGTTTCAAGG
Found at i:36642531 original size:4 final size:4
Alignment explanation
Indices: 36642522--36642557 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
36642512 TAGGGTTTAG
36642522 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
36642558 TAATTATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:36642719 original size:21 final size:23
Alignment explanation
Indices: 36642678--36642732 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
36642668 TAAAGTTTAT
* *
36642678 GATTTAG-GGTTTATGA-TTTGG
1 GATTTAGTGTTTTATGAGTTGGG
36642699 GATTTAGTGTTTTAT-AGTTGGG
1 GATTTAGTGTTTTATGAGTTGGG
*
36642721 GTTTTAGTGTTT
1 GATTTAGTGTTT
36642733 ATGGTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (23 bp):
GATTTAGTGTTTTATGAGTTGGG
Found at i:36643190 original size:7 final size:7
Alignment explanation
Indices: 36643177--36643244 Score: 64
Period size: 7 Copynumber: 9.3 Consensus size: 7
36643167 ATCTTCAAAA
36643177 AAAATTT
1 AAAATTT
*
36643184 TAAATTT
1 AAAATTT
36643191 AAAATTT
1 AAAATTT
**
36643198 AAAAATAA
1 -AAAATTT
*
36643206 AAAAATT
1 AAAATTT
36643213 AAAATTTT
1 AAAA-TTT
36643221 AAAATTTT
1 AAAA-TTT
36643229 AAAATTT
1 AAAATTT
*
36643236 AATATTT
1 AAAATTT
36643243 AA
1 AA
36643245 TTTTTTAGTC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
7 31 0.62
8 19 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:36643201 original size:22 final size:22
Alignment explanation
Indices: 36643176--36643244 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
36643166 AATCTTCAAA
36643176 AAAAATTTTAAATTTAAAATTT
1 AAAAATTTTAAATTTAAAATTT
*** *
36643198 AAAAATAAAAAAATTAAAATTT
1 AAAAATTTTAAATTTAAAATTT
* *
36643220 TAAAATTTTAAAATTTAATATTT
1 AAAAATTTT-AAATTTAAAATTT
36643243 AA
1 AA
36643245 TTTTTTAGTC
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 23 0.66
23 12 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATTTTAAATTTAAAATTT
Found at i:36643210 original size:30 final size:30
Alignment explanation
Indices: 36643174--36643233 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36643164 AAAATCTTCA
*
36643174 AAAAAAATTTTAAA-TTTAAAATTTAAAAAT
1 AAAAAAA-TTAAAATTTTAAAATTTAAAAAT
*
36643204 AAAAAAATTAAAATTTTAAAATTTTAAAAT
1 AAAAAAATTAAAATTTTAAAATTTAAAAAT
36643234 TTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAAAATTAAAATTTTAAAATTTAAAAAT
Found at i:36643222 original size:8 final size:8
Alignment explanation
Indices: 36643177--36643235 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 8
36643167 ATCTTCAAAA
36643177 AAAATTTT
1 AAAATTTT
36643185 -AAA-TTT
1 AAAATTTT
36643191 AAAA-TTT
1 AAAATTTT
* *
36643198 AAAA-ATA
1 AAAATTTT
**
36643205 AAAAAATT
1 AAAATTTT
36643213 AAAATTTT
1 AAAATTTT
36643221 AAAATTTT
1 AAAATTTT
36643229 AAAATTT
1 AAAATTT
36643236 AATATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 3 0.07
7 18 0.41
8 23 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AAAATTTT
Found at i:36646910 original size:23 final size:22
Alignment explanation
Indices: 36646884--36647262 Score: 280
Period size: 23 Copynumber: 16.5 Consensus size: 22
36646874 CAACTCATGT
* * *
36646884 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGTA
*
36646907 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGTA
36646930 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGTA
*
36646953 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGTA
* *
36646976 AATTGAAGTGTTTGAATGCCGTA
1 AATTGAAGTG-TTAAATGCTGTA
36646999 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGTA
* * *
36647022 AATTTAAGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGTA
* * * *
36647045 AATTGAGGTGTTTAAGTACTGCA
1 AATTGAAGTG-TTAAATGCTGTA
** *
36647068 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTG-TTAAATGCTGTA
* **
36647091 CATTG-AGATGTTTTATCGCTGT-
1 AATTGAAG-TGTTAAAT-GCTGTA
* * *
36647113 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGTA
*
36647136 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGTA
* * *
36647159 AATTGAAATGTTAAAGTACTGCA
1 AATTGAAGTGTTAAA-TGCTGTA
*
36647182 AATTGAAGTGTTTAAATGCTATA
1 AATTGAAGTG-TTAAATGCTGTA
*
36647205 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGTA
* *
36647228 AATTGAAGTATTTGAATGCTGTA
1 AATTGAAGT-GTTAAATGCTGTA
36647251 AATTGAAGTGTT
1 AATTGAAGTGTT
36647263 TAAGTACTTA
Statistics
Matches: 287, Mismatches: 52, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
22 38 0.13
23 228 0.79
24 21 0.07
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (22 bp):
AATTGAAGTGTTAAATGCTGTA
Found at i:36647004 original size:69 final size:68
Alignment explanation
Indices: 36646917--36647265 Score: 321
Period size: 69 Copynumber: 5.1 Consensus size: 68
36646907 AATTGAGATG
* *
36646917 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
1 TTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAA-TGCTGCAAATTGA
36646982 AGTGT
64 AGTGT
* * * * * *
36646987 TTGAATGCCGTAAATTGAAGTGTTTAAATGCTGTAAATTTAAGTGCTTAAATGTTGCAAATTGAG
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-TTAAATGCTGCAAATTGAA
36647052 GTGT
65 GTGT
* * * ** * * ** *
36647056 TTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTG-AGATGTTTTATCGCTG-TAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTAAAT-GCTGCAAATTGA
*
36647119 GGTGT
64 AGTGT
* * * * *
36647124 ATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAATGTTAAAGTACTGCAAATTG
1 TTAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGCAAATTGAAGTGTTAAA-TGCTGCAAATTG
36647187 AAGTGT
63 AAGTGT
* * * *
36647193 TTAAATGCTATAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTATTTGAATGCTGTAAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGT-GTTAAATGCTGCAAATTGA
36647257 AGTGT
64 AGTGT
36647262 TTAA
1 TTAA
36647266 GTACTTATTT
Statistics
Matches: 224, Mismatches: 45, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
67 5 0.02
68 48 0.21
69 156 0.70
70 15 0.07
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (68 bp):
TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAATGCTGCAAATTGAAG
TGT
Found at i:36648168 original size:42 final size:43
Alignment explanation
Indices: 36648094--36648199 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
36648084 AAAAGTCATG
* * *
36648094 TAGCGGCGC-TTTCCTCACCAACGCCGCTAAAGGCCATGACTTT
1 TAGCGGCGCTTTTCC-CACAAATGCTGCTAAAGGCCATGACTTT
*
36648137 TAGCGGCG-TTTTTCCACAAATGCTGCTAAAGGCCATGACTTT
1 TAGCGGCGCTTTTCCCACAAATGCTGCTAAAGGCCATGACTTT
*
36648179 TAGCGGTGCTTTTCCCACAAA
1 TAGCGGCGCTTTTCCCACAAA
36648200 CGCCGGTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 32 0.58
43 23 0.42
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCACAAATGCTGCTAAAGGCCATGACTTT
Found at i:36650854 original size:40 final size:40
Alignment explanation
Indices: 36650800--36651024 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
36650790 CTTGCACAAG
* * *
36650800 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
36650840 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
36650880 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
36650920 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
36650960 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
**
36651001 GCCTTCAAGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
36651025 CATTCGAATA
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 129 0.80
41 27 0.17
42 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:36650913 original size:80 final size:80
Alignment explanation
Indices: 36650768--36651024 Score: 304
Period size: 80 Copynumber: 3.2 Consensus size: 80
36650758 AAGTAATCTT
* * * * * *
36650768 GGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTCACT
1 GGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT
*
36650831 AGCACAGATGCCTTC
66 AGCACAAATGCCTTC
* * *
36650846 GGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCGC
1 GGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAC
36650910 TAGCACAAATGCCTTC
65 TAGCACAAATGCCTTC
* * * * * *
36650926 GGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGTCACC
1 GGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCA-C
*
36650991 TAGCACAAAAGCCTTC
65 TAGCACAAATGCCTTC
**
36651007 AAGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
36651025 CATTCGAATA
Statistics
Matches: 152, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 8 0.05
79 16 0.11
80 97 0.64
81 31 0.20
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
GGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT
AGCACAAATGCCTTC
Found at i:36652846 original size:9 final size:9
Alignment explanation
Indices: 36652832--36652862 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
36652822 AGAACTAAAC
36652832 TGTGAAATA
1 TGTGAAATA
36652841 TGTGAAATA
1 TGTGAAATA
36652850 TGTGAAATA
1 TGTGAAATA
36652859 TGTG
1 TGTG
36652863 GGCAGAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (9 bp):
TGTGAAATA
Found at i:36653740 original size:21 final size:20
Alignment explanation
Indices: 36653716--36653765 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36653706 GGGATTATGT
36653716 TTAAGGGTTGAGGTTT-AAGG
1 TTAAGGGTT-AGGTTTCAAGG
36653736 ATTAAGGGTTAGGTTTCAAGG
1 -TTAAGGGTTAGGTTTCAAGG
*
36653757 TTTAGGGTT
1 TTAAGGGTT
36653766 TATATTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (20 bp):
TTAAGGGTTAGGTTTCAAGG
Found at i:36653834 original size:4 final size:4
Alignment explanation
Indices: 36653825--36653860 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
36653815 TAGGGTTTAG
36653825 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
36653861 TAATTATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:36654021 original size:21 final size:22
Alignment explanation
Indices: 36653981--36654034 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
36653971 TAAAGTTTAT
*
36653981 GATTTAG-GGTTTATGATT-GG
1 GATTTAGTGTTTTATGATTGGG
36654001 GATTTAGTGTTTTAT-AGTTGGG
1 GATTTAGTGTTTTATGA-TTGGG
*
36654023 GTTTTAGTGTTT
1 GATTTAGTGTTT
36654035 ATGGTTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.28
21 8 0.28
22 13 0.45
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (22 bp):
GATTTAGTGTTTTATGATTGGG
Found at i:36654490 original size:7 final size:7
Alignment explanation
Indices: 36654477--36654544 Score: 64
Period size: 7 Copynumber: 9.3 Consensus size: 7
36654467 ATCTTCAAAA
36654477 AAAATTT
1 AAAATTT
*
36654484 TAAATTT
1 AAAATTT
36654491 AAAATTT
1 AAAATTT
**
36654498 AAAAATAA
1 -AAAATTT
*
36654506 AAAAATT
1 AAAATTT
36654513 AAAATTTT
1 AAAA-TTT
36654521 AAAATTTT
1 AAAA-TTT
36654529 AAAATTT
1 AAAATTT
*
36654536 AATATTT
1 AAAATTT
36654543 AA
1 AA
36654545 TTTTTAGTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
7 31 0.62
8 19 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:36654501 original size:22 final size:22
Alignment explanation
Indices: 36654476--36654544 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
36654466 AATCTTCAAA
36654476 AAAAATTTTAAATTTAAAATTT
1 AAAAATTTTAAATTTAAAATTT
*** *
36654498 AAAAATAAAAAAATTAAAATTT
1 AAAAATTTTAAATTTAAAATTT
* *
36654520 TAAAATTTTAAAATTTAATATTT
1 AAAAATTTT-AAATTTAAAATTT
36654543 AA
1 AA
36654545 TTTTTAGTCT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 23 0.66
23 12 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATTTTAAATTTAAAATTT
Found at i:36654510 original size:30 final size:30
Alignment explanation
Indices: 36654474--36654533 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36654464 AAAATCTTCA
*
36654474 AAAAAAATTTTAAA-TTTAAAATTTAAAAAT
1 AAAAAAA-TTAAAATTTTAAAATTTAAAAAT
*
36654504 AAAAAAATTAAAATTTTAAAATTTTAAAAT
1 AAAAAAATTAAAATTTTAAAATTTAAAAAT
36654534 TTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAAAATTAAAATTTTAAAATTTAAAAAT
Found at i:36654522 original size:8 final size:8
Alignment explanation
Indices: 36654477--36654535 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 8
36654467 ATCTTCAAAA
36654477 AAAATTTT
1 AAAATTTT
36654485 -AAA-TTT
1 AAAATTTT
36654491 AAAA-TTT
1 AAAATTTT
* *
36654498 AAAA-ATA
1 AAAATTTT
**
36654505 AAAAAATT
1 AAAATTTT
36654513 AAAATTTT
1 AAAATTTT
36654521 AAAATTTT
1 AAAATTTT
36654529 AAAATTT
1 AAAATTT
36654536 AATATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 3 0.07
7 18 0.41
8 23 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AAAATTTT
Found at i:36656749 original size:40 final size:40
Alignment explanation
Indices: 36656656--36656879 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
36656646 CTTGCACAAG
*
36656656 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36656695 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36656735 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36656775 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
36656815 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
36656856 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
36656880 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.21
40 99 0.61
41 29 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:36656749 original size:79 final size:80
Alignment explanation
Indices: 36656620--36656879 Score: 330
Period size: 80 Copynumber: 3.3 Consensus size: 80
36656610 CTCAAGTAAT
* * * * * *
36656620 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
36656683 CACTAGCAC-AATGC
66 CACTAGCACAAATGC
* *
36656697 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
36656761 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
36656777 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
36656842 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
36656858 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36656880 CATTCGAATA
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
77 12 0.08
78 15 0.09
79 37 0.23
80 61 0.39
81 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:36669970 original size:40 final size:40
Alignment explanation
Indices: 36669877--36670100 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
36669867 CTTGCACAAG
*
36669877 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36669916 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36669956 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36669996 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
36670036 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
36670077 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
36670101 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.21
40 99 0.61
41 29 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:36669970 original size:79 final size:80
Alignment explanation
Indices: 36669842--36670100 Score: 321
Period size: 80 Copynumber: 3.3 Consensus size: 80
36669832 CTCAAGTAAT
* * * * * *
36669842 CTTC-GGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
36669904 CACTAGCAC-AATGC
66 CACTAGCACAAATGC
* *
36669918 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
36669982 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
36669998 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
36670063 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
36670079 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36670101 CATTCGAATA
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
76 4 0.03
77 7 0.04
78 15 0.10
79 37 0.24
80 61 0.39
81 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:36678063 original size:40 final size:40
Alignment explanation
Indices: 36677973--36678233 Score: 289
Period size: 40 Copynumber: 6.5 Consensus size: 40
36677963 CTCAAGTAAT
* * * *
36677973 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
36678011 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
36678051 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
36678091 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
36678131 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
36678171 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
36678212 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36678234 CATTCGAATA
Statistics
Matches: 190, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.09
40 131 0.69
41 27 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:36678104 original size:80 final size:80
Alignment explanation
Indices: 36677973--36678233 Score: 321
Period size: 80 Copynumber: 3.3 Consensus size: 80
36677963 CTCAAGTAAT
* * * * * *
36677973 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
36678036 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
36678051 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
36678115 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
36678131 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
36678196 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
36678212 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36678234 CATTCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 97 0.62
81 32 0.20
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:36680251 original size:40 final size:40
Alignment explanation
Indices: 36680177--36680396 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
36680167 AGCCCAAGTA
* * *
36680177 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * * * *
36680216 CCTTCAGGTCTTAGCCCGGATATGGTTAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
36680256 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
36680296 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
36680336 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
36680376 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
36680397 GTCATTCGAA
Statistics
Matches: 161, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.06
40 149 0.93
41 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:36686851 original size:46 final size:46
Alignment explanation
Indices: 36686799--36686970 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
36686789 TGGGCATTCA
*
36686799 AACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * *
36686845 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* * * *
36686892 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * **
36686938 AGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36686971 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 55 0.54
47 28 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:36690997 original size:30 final size:30
Alignment explanation
Indices: 36690935--36690997 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
36690925 ATTTATTTTA
* *
36690935 TTGTTAATTTTTTTATTATTGTAGAAATAT
1 TTGTTAATTTTGTTATTATTGTAGAAACAT
*
36690965 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAA-ACAT
36690995 TTG
1 TTG
36690998 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTGTAGAAACAT
Found at i:36694997 original size:24 final size:21
Alignment explanation
Indices: 36694953--36694998 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
36694943 TTTGTAACAT
*
36694953 AAATAATATTTATTTAATAGA
1 AAATAATATTTATCTAATAGA
36694974 AAATAATATTCTACTCTAAGTAGA
1 AAATAATATT-TA-TCTAA-TAGA
36694998 A
1 A
36694999 TGGGGTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 4 0.19
24 5 0.24
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATAATATTTATCTAATAGA
Found at i:36698790 original size:37 final size:37
Alignment explanation
Indices: 36698731--36698836 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
36698721 AGCTCAGACG
* * *
36698731 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
36698768 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
36698805 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
36698837 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:36698957 original size:48 final size:48
Alignment explanation
Indices: 36698884--36699412 Score: 783
Period size: 48 Copynumber: 11.0 Consensus size: 48
36698874 TGTTACAACA
* * * *
36698884 TTCACATTAGCCATTCGGCTATACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
36698932 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
36698979 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * * *
36699027 TTCATATTAGCTATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
36699075 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACTCATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
36699123 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
* * * *
36699171 TTCATATTAGCTATTCGGCTTTACCACATATACATATCACACATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
36699219 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
36699267 TTCACATTGGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
** *
36699315 TTCACATTAGCCGCTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
36699363 TTCATATTAGCTATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
36699411 TT
1 TT
36699413 ATTTATCTTG
Statistics
Matches: 436, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
47 46 0.11
48 390 0.89
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:36707993 original size:49 final size:47
Alignment explanation
Indices: 36707813--36708035 Score: 293
Period size: 47 Copynumber: 4.7 Consensus size: 47
36707803 CCCTTCGGGA
* * * * * *
36707813 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36707860 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36707907 CTTATCACACATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36707954 CTTATTACATATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
* *
36708003 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
36708036 GCGTAGAATC
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
47 97 0.62
49 55 0.35
51 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36712323 original size:27 final size:27
Alignment explanation
Indices: 36712269--36712348 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
36712259 TTAGAATACT
* *
36712269 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
36712297 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
36712324 -TCGATTTGTAAAATTACTGAAATAC
1 TTAG-TTTGTAAAATTACTGAAATAC
36712349 TTTCGACTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.04
27 37 0.80
28 7 0.15
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:36712354 original size:27 final size:27
Alignment explanation
Indices: 36712278--36712367 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
36712268 TTTAGTTTAC
* *
36712278 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
36712305 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
* *
36712332 TAAAATTACTGAAATACTTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
36712359 TAAAATTAC
1 TAAAATTAC
36712368 CAAAGTACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:36712584 original size:27 final size:27
Alignment explanation
Indices: 36712373--36712583 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
36712363 ATTACCAAAG
*
36712373 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
36712400 TACCCCCGATTTATATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36712427 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
36712454 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36712481 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
36712508 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
36712535 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
36712562 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
36712584 TAAAATACCC
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:36712585 original size:54 final size:54
Alignment explanation
Indices: 36712380--36712583 Score: 291
Period size: 54 Copynumber: 3.8 Consensus size: 54
36712370 AAGTACCCCC
* * * * *
36712380 GATTTACAGAATTACCGTTTTACCCCCGATTTATATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
* * *
36712434 GATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
* * *
36712488 GATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
* *
36712542 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
36712584 TAAAATACCC
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
Found at i:36712592 original size:27 final size:27
Alignment explanation
Indices: 36712454--36712786 Score: 154
Period size: 27 Copynumber: 12.3 Consensus size: 27
36712444 ATTATCGTTT
* * * ***
36712454 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* ***
36712481 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * * * ***
36712508 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *****
36712535 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
36712562 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** *
36712589 TACCCTT-AGTTTGTAAAAGTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* **
36712616 TACCCCT-AGTTTTTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
36712643 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
36712670 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
36712697 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
*
36712724 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * **
36712753 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
36712780 TACCCTT
1 TACCCTT
36712787 AGTTTGTAGA
Statistics
Matches: 255, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 226 0.89
28 7 0.03
29 19 0.07
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:36712724 original size:54 final size:53
Alignment explanation
Indices: 36712576--36712814 Score: 205
Period size: 54 Copynumber: 4.4 Consensus size: 53
36712566 CTCGATTTAC
* * * * *
36712576 AAAATTACTAAAATACCCTTAGTTTGTA-AAAGTACCA-AAATACCCCTAGTTTTT
1 AAAATTACCAAAATACCCTT-GGTT-TACAAATTA-CAGAAATACCCTTAGTTTGT
** * *
36712630 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAATACCCTTAGTTTGT
* * * *
36712684 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAATACCCTT-AGTTTGT
* * *
36712739 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAATACCCTTAGTTTGT
* * *
36712794 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
36712815 TAGGATGAAA
Statistics
Matches: 149, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 90 0.60
55 12 0.08
56 36 0.24
57 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAATACCCTTAGTTTGT
Found at i:36712725 original size:81 final size:81
Alignment explanation
Indices: 36712577--36712731 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
36712567 TCGATTTACA
* * *
36712577 AAATTACTAAAATACCCTTAGTTTGTAAAAGTACCAAAATACCCCTAGTTTTTAAAATTACCAAA
1 AAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTATTTAAAATTACCAAA
36712642 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
36712658 AAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-G-ATTTACAAAGTTA-CA
1 AAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTATTTA-AAA-TTACCA
36712720 GAAATACCCTTG
64 -AAATACCCTTG
36712732 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 4 0.06
80 6 0.09
81 56 0.85
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTAATTTGTAAAAGTACCAAAATACCCCTAGTATTTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:36712909 original size:27 final size:27
Alignment explanation
Indices: 36712832--36712909 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
36712822 AAATGACTAA
* *
36712832 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
36712859 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
36712886 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
36712910 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:36714094 original size:25 final size:24
Alignment explanation
Indices: 36714061--36714108 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
36714051 TTATAACATG
* * *
36714061 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
36714085 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
36714109 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:36714170 original size:20 final size:20
Alignment explanation
Indices: 36714145--36714207 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
36714135 ATTTTGATAA
*
36714145 ACATGATATATATGATATGC
1 ACATGATATGTATGATATGC
*
36714165 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
36714185 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
36714205 ACA
1 ACA
36714208 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:36714318 original size:24 final size:23
Alignment explanation
Indices: 36714262--36714428 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
36714252 GAGGAAGTGA
36714262 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
36714285 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
36714308 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
36714332 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
36714356 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
36714379 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
36714404 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
36714428 A
1 A
36714429 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:36714331 original size:47 final size:47
Alignment explanation
Indices: 36714262--36714428 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
36714252 GAGGAAGTGA
*
36714262 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
36714308 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
36714356 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
36714404 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
36714429 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:36714378 original size:71 final size:71
Alignment explanation
Indices: 36714262--36714427 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
36714252 GAGGAAGTGA
* *
36714262 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
36714327 GTTATC
66 GTTATC
*
36714333 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
36714398 GTTATT
66 GTTATC
*
36714404 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
36714428 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:36714656 original size:31 final size:31
Alignment explanation
Indices: 36714621--36714684 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
36714611 CGTTTACCGT
*
36714621 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
36714652 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
36714683 AA
1 AA
36714685 TATGAGAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:36716096 original size:17 final size:18
Alignment explanation
Indices: 36716054--36716102 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
36716044 AGTTGAAAAG
36716054 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
36716073 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
36716090 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
36716103 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Done.