Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold432
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: 1706767
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 187295 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:3699 original size:25 final size:25
Alignment explanation
Indices: 3671--3740 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 25
3661 GGAATCCTTT
*
3671 GCAAAAAAAAAAAAAAAACAAAAAA
1 GCAAAAAAAAAAAATAAACAAAAAA
* **
3696 GC-AAAAAAAAAATTAAA-AAAGCA
1 GCAAAAAAAAAAAATAAACAAAAAA
3719 GCAAAAAAAAAAAATAAACAAA
1 GCAAAAAAAAAAAATAAACAAA
3741 CAAAAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 6 0.16
24 27 0.71
25 5 0.13
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.04
Consensus pattern (25 bp):
GCAAAAAAAAAAAATAAACAAAAAA
Found at i:3703 original size:20 final size:19
Alignment explanation
Indices: 3678--3749 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
3668 TTTGCAAAAA
3678 AAAAAAAAAAACAAAAAAGC
1 AAAAAAAAAAA-AAAAAAGC
*
3698 AAAAAAAAAATTAAAAAAGC
1 AAAAAAAAAA-AAAAAAAGC
*
3718 AGCAAAAAAAAAAAATAAA-C
1 A--AAAAAAAAAAAAAAAAGC
3738 AAACAAAAAAAA
1 AAA-AAAAAAAA
3750 GGGAATAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.04
19 8 0.18
20 21 0.47
21 5 0.11
22 9 0.20
ACGTcount: A:0.83, C:0.08, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAGC
Found at i:5478 original size:31 final size:30
Alignment explanation
Indices: 5408--5480 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
5398 AAGTAGAGGA
* *
5408 AACCCTTCAAAGCCCACACAAGTTAGTGGC
1 AACCCTTCAAAACCCACACAAGTCAGTGGC
* * *
5438 AAACTTTCAAAACCCACACAAGTCCGATGGC
1 AACCCTTCAAAACCCACACAAGTCAG-TGGC
*
5469 ACCCCTTCAAAA
1 AACCCTTCAAAA
5481 ATCCCCAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.37, C:0.34, G:0.12, T:0.16
Consensus pattern (30 bp):
AACCCTTCAAAACCCACACAAGTCAGTGGC
Found at i:5602 original size:33 final size:31
Alignment explanation
Indices: 5416--5653 Score: 103
Period size: 33 Copynumber: 7.4 Consensus size: 31
5406 GAAACCCTTC
* * *
5416 AAAGCCCACACAAGTTAGTGGCAAACTT-TCA
1 AAAGCCC-CACAAGTTGGTGGCAACCTTCTTA
* * * *
5447 AAA-CCCACACAAGTCCGATGGCACCCCTTC-AA
1 AAAGCCC-CACAAGT-TGGTGGCA-ACCTTCTTA
* *
5479 AAATCCCCAACAAGCTTGGTGTCAACCCTTCTT-
1 AAAGCCCC-ACAAG-TTGGTGGCAA-CCTTCTTA
* * *
5512 -AAGCCGACAGCAAGTTGGTGGCCACACTT-TCA
1 AAAGCC-CCA-CAAGTTGGTGGCAAC-CTTCTTA
* *
5544 AAAG-CCCACACAGTTGGTCGTCAACCTTCTTT
1 AAAGCCCCACA-AGTTGGT-GGCAACCTTCTTA
* *
5576 AAAGCCCCACATTAGTTGGTGGCAACCGTCTTC
1 AAAGCCCCACA--AGTTGGTGGCAACCTTCTTA
* * *
5609 AAAGCAACAACAAGTTGGTGGCAAACCTTATTA
1 AAAGC-CCCACAAGTTGGTGGC-AACCTTCTTA
*
5642 AAAGCCTCACAA
1 AAAGCCCCACAA
5654 AAGTCCTTGG
Statistics
Matches: 154, Mismatches: 33, Indels: 39
0.68 0.15 0.17
Matches are distributed among these distances:
30 13 0.08
31 22 0.14
32 48 0.31
33 59 0.38
34 12 0.08
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (31 bp):
AAAGCCCCACAAGTTGGTGGCAACCTTCTTA
Found at i:11024 original size:13 final size:13
Alignment explanation
Indices: 11006--11032 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10996 TACAATGAAC
11006 ATGTATCGATACA
1 ATGTATCGATACA
11019 ATGTATCGATACA
1 ATGTATCGATACA
11032 A
1 A
11033 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:13564 original size:28 final size:28
Alignment explanation
Indices: 13524--13593 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
13514 TATTCAAATA
13524 GTATCGATACATCTGGGTTTTTCTAGAT
1 GTATCGATACATCTGGGTTTTTCTAGAT
13552 GTATCGATACATCTGGGTTTTTCTAGAT
1 GTATCGATACATCTGGGTTTTTCTAGAT
13580 GTATCGATACATCT
1 GTATCGATACATCT
13594 TTTCAATGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (28 bp):
GTATCGATACATCTGGGTTTTTCTAGAT
Found at i:19868 original size:52 final size:52
Alignment explanation
Indices: 19798--19918 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
19788 GAAAATTTAT
*
19798 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
19850 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
19902 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
19919 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:19931 original size:52 final size:52
Alignment explanation
Indices: 19798--19938 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
19788 GAAAATTTAT
*
19798 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
19850 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *
19902 CTGCATGTATCGATACA-AAGATCGGTGTATCTATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
19939 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:20033 original size:13 final size:13
Alignment explanation
Indices: 20015--20039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20005 CAAAAAAATA
20015 TGTATCGATACAT
1 TGTATCGATACAT
20028 TGTATCGATACA
1 TGTATCGATACA
20040 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20035 original size:33 final size:33
Alignment explanation
Indices: 19993--20059 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
19983 AGTAGCTTAA
19993 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
20026 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
20059 A
1 A
20060 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:20973 original size:67 final size:68
Alignment explanation
Indices: 20851--20977 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
20841 ATTGGGTTTT
* * *
20851 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAAATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAAATG
20916 AGA
66 AGA
* * * *
20919 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
20978 GAAAAATGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAAATG
AGA
Found at i:21027 original size:55 final size:52
Alignment explanation
Indices: 20927--21408 Score: 298
Period size: 49 Copynumber: 9.7 Consensus size: 52
20917 GAAAAGTGAT
* * * * * * **
20927 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* * *
20981 AAATGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAA-GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
21034 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
21081 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * *
21126 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G-
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
21176 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * *
21224 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT-TA-ATGG-
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
** * * * * *
21273 TGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A--GT
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
21322 AAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGAGTTAAAGAT---
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
21371 AAAGGTGCCAATATGCTGATTCAAGGCCATCTATATTG
1 AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTG
21409 GGCTTAGAAG
Statistics
Matches: 365, Mismatches: 46, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
43 35 0.10
44 3 0.01
45 1 0.00
47 2 0.01
48 4 0.01
49 234 0.64
50 4 0.01
51 2 0.01
52 34 0.09
53 4 0.01
54 4 0.01
55 38 0.10
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:21150 original size:49 final size:48
Alignment explanation
Indices: 20990--21414 Score: 509
Period size: 49 Copynumber: 8.8 Consensus size: 48
20980 AAAATGATGT
*
20990 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--GAAAAGGTGC
* * *
21042 CAATATGCTAATTCAAGGCCAGCTATATTGGACTT-----AAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGC
21085 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAGGTGC
* * **
21134 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GAAAAGGTGC
*
21183 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGC
* * * * ***
21232 CAATATGCTGATTCAAGGCTAGCTATATTGGACTTTAATGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGAAAAGGTGC
*
21281 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAAAAGGTGC
* * *
21330 CAATGTGCTAAGTCAAGGCCAGCTACATTGGAGTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGGTGC
* * * *
21379 CAATATGCTGATTCAAGGCCATCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
21415 GAAGGGTTGC
Statistics
Matches: 320, Mismatches: 42, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
43 40 0.12
48 8 0.03
49 235 0.73
50 6 0.02
52 31 0.10
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGGTGC
Found at i:21229 original size:98 final size:98
Alignment explanation
Indices: 20990--21414 Score: 589
Period size: 98 Copynumber: 4.4 Consensus size: 98
20980 AAAATGATGT
*
20990 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTAATT
21055 CAAGGCCAGCTATATTGGACTT--A----AAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
*
21085 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTAATTCA
21149 AGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
65 AGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
* *
21183 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTAATTCAA
* *
21248 GGCTAGCTATATTGGACTTTAATGGTG-AGGTGC
66 GGCCAGCTATATTGGAC-TTAAAGGTGAAGGTGC
* *
21281 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-AGTAAAGGTGCCAATGTGCTAAGTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TAAAGGTGCCAATATGCTAATTCA
* * * *
21345 AGGCCAGCTACATTGGAGTTAAAGATAAAGGTGC
65 AGGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
* * * *
21379 CAATATGCTGATTCAAGGCCATCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
21415 GAAGGGTTGC
Statistics
Matches: 300, Mismatches: 19, Indels: 19
0.89 0.06 0.06
Matches are distributed among these distances:
91 1 0.00
92 41 0.14
94 1 0.00
95 39 0.13
97 7 0.02
98 202 0.67
99 9 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTAATTCAA
GGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
Found at i:21262 original size:147 final size:146
Alignment explanation
Indices: 20990--21414 Score: 592
Period size: 147 Copynumber: 2.9 Consensus size: 146
20980 AAAATGATGT
* * * *
20990 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTAAGT
* * *
21055 CAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
63 CAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
21114 GGACTTAAAGAAGAAGGTGC
128 GGACTTAAAGAAG-AGGTGC
* * *
21134 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTAAGTCAA
*
21199 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGA
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* **
21264 CTTTAATGGTGAGGTGC
131 C-TTAAAGAAGAGGTGC
* *
21281 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGTAAAGGTGCCAATGTGCTAAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTAAGTCAA
* * *
21346 GGCCAGCTACATTGGAGTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCATCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
21411 CTTA
131 CTTA
21415 GAAGGGTTGC
Statistics
Matches: 251, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
141 36 0.14
142 1 0.00
143 1 0.00
144 37 0.15
146 3 0.01
147 167 0.67
148 6 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (146 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTAAGTCAA
GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
CTTAAAGAAGAGGTGC
Found at i:21466 original size:33 final size:31
Alignment explanation
Indices: 21407--21550 Score: 164
Period size: 33 Copynumber: 4.5 Consensus size: 31
21397 CCATCTATAT
*
21407 TGGGC-TTAGAAGGGTTGCTACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
* *
21437 TGGGCTTTAGAGAGTGGTTGCCACTGACTTATG
1 TGGGCTTTAGA-AG-GGTTGCCACCGACTTGTG
*
21470 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTG
* *
21503 TGGGCTTCAGGAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTA-GAAGGGTTGCCACCGACTTGTG
*
21535 TGGGTTTTAGGAAGGG
1 TGGGCTTTA-GAAGGG
21551 AGAAAGATGC
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
30 5 0.05
31 5 0.05
32 34 0.35
33 48 0.50
34 4 0.04
ACGTcount: A:0.18, C:0.16, G:0.37, T:0.29
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
Found at i:21608 original size:35 final size:35
Alignment explanation
Indices: 21546--23662 Score: 1169
Period size: 35 Copynumber: 66.1 Consensus size: 35
21536 GGGTTTTAGG
* * *
21546 AAGGGAGAAAGA-TGCCACGGAGTTGTGGACATAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
21580 AAGGGAAAAAGAGTGCCACGGAGCTGTGGGCTTTA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
21615 AA---AAAAAG-GTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
21646 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
21673 AAGGGAAAAGGAGTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
21708 AA--G-----G-GTGCCACGGAGTTGTGGACTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
21734 AAGATGAAAAA-AGTGCCACGGAGTTATGGGCTTAA
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
21769 AA--G-----G-GTGCCACGGAGTTGTGGGCTT--
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* ** * *
21794 -TGATAAGAAG-GTGCCACGGAGTTGTGGACTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* * *
21828 AAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTGAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
* *
21865 AA--GAAAAAG-GTTGCCACGAAATTGTGGGCTTTAA
1 AAGGGAAAAAGAG-TGCCACGGAGTTGTGGGC-TTAA
*
21899 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
21926 AA-GGAACAAGGGTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
21960 ATA--GATAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 A-AGGGA-AAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* *
21996 AA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22029 AA-GGAGAAAG-GTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22062 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
22089 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22124 AA--G-----G-GTGCCACGGAGTTGTGGACTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
22150 AAGACGAAAAA-AGTGCCACAGAGTTGTGGGCTTAA
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22185 AA--G-----G-GTGCCACAGAGTTGTGGGCTT--
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* ** * * * *
22210 -TGATAAGAAG-GTGCCACAGAGTCGTGGACTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* * *** *
22244 AAGGGAAAAATAGTGGCATAAAGTTGTGCGCTTTGAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
* *
22281 AAGGGAAAAATAGTTCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* * * *
22317 AA-AG-TAAA-AGTGCCACGGAGTGGTGGGCTTTGAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
*
22351 AA--GAAAAAG-GTTGCCACGGAATTGTGGGCTTTAA
1 AAGGGAAAAAGAG-TGCCACGGAGTTGTGGGC-TTAA
*
22385 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
22412 AA-GGAACAAGGGTGCCACGGAGTTGTGGGCTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
22445 AATGGATAAAAGAGTGCCACGGAGTTGTGGGCTTAG
1 AAGGGA-AAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22481 AA-GGAGAAAG-GTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22514 AA--G-----G-GTGCCACGGAGTTGTGGGCTTAC
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22541 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
22568 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22603 AA--G-----G-GTGCCACGGAGTTGTGGACTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22629 AAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTAA
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
22664 AA--G-----G-GTGCCACGGAGTTGTGGGCTT--
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* ** * ** *
22689 -TGATAAGAAG-GTGCCACGGAGTCATGGACTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
*
22723 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
* * * *
22760 GAGGGAAAAATAGTTCCACGGAGTTTTGGGCTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* * *
22796 AA-AG-AAAA-AGTGCCACGGAGTGGTGGGCTTTGAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
*
22830 AA--GAAAAAG-GTTGCCACGGAATTGTGGGCTTTAA
1 AAGGGAAAAAGAG-TGCCACGGAGTTGTGGGC-TTAA
* *
22864 AA--G-----G-GTGCCACGTAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* * * *
22891 AA-GGAACAAGGGTGCCATGGAGTTATGGGCTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22924 AATGGATAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGA-AAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* *
22961 AA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
22994 AA-GGAGAAAG-GTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23027 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
23054 AA--G-----G-GTGCCACGGAGTTGTGGACTTTA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23081 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23116 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23151 AA--G-----G-GTGCCACGGAGTTGTGGACTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
23177 AAGATGAAAAA-AGTCCCACGGAGTTGTGGGCTTAA
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
23212 AA--G-----G-GTGCCACGGAGTGGTGGGCTTTGAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
* *
23241 AA--GAAAAAG-GTTGCCACGAAATTGTGGGCTTTAA
1 AAGGGAAAAAGAG-TGCCACGGAGTTGTGGGC-TTAA
* *
23275 AA--G-----G-GTGCCACGTAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* * * *
23302 AA-GGAACAAGGGTGCCATGGAGTTATGGGCTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* * *
23335 AATGGATAAAAGAGTGCCATGGAGTTGTGAGCTTTAA
1 AAGGGA-AAAAGAGTGCCACGGAGTTGTGGGC-TTAA
* *
23372 AA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTAG
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23405 AA-GGAGAAAG-GTGCCACGGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23438 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23465 AA--G-----G-GTGCCACGGAGTTGTGGACTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
* *
23492 AAGGGAAAAAGAGTGGCACAGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23527 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23562 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23597 AA--G-----G-GTGCCACGGAGTTGTGGACTT-A
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
*
23623 AAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTAA
1 AAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
23658 AAGGG
1 AAGGG
23663 TGCCATGGAG
Statistics
Matches: 1714, Mismatches: 174, Indels: 390
0.75 0.08 0.17
Matches are distributed among these distances:
26 15 0.01
27 404 0.24
28 72 0.04
29 22 0.01
31 77 0.04
32 20 0.01
33 190 0.11
34 302 0.18
35 464 0.27
36 78 0.05
37 70 0.04
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (35 bp):
AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
Found at i:21653 original size:27 final size:27
Alignment explanation
Indices: 21586--21677 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
21576 ATAAAAGGGA
* *
21586 AAAAGAGTGCCACGGAGCTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
*
21614 AAAAAAAAGGTGCCACGGAGTTGTGGGCTT
1 ---AAAAGGGTGCCACGGAGTTGTGGGCTT
*
21644 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
21671 AAAAGGG
1 AAAAGGG
21678 AAAAGGAGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 32 0.57
30 2 0.04
31 22 0.39
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:21717 original size:27 final size:27
Alignment explanation
Indices: 21678--23682 Score: 400
Period size: 27 Copynumber: 64.0 Consensus size: 27
21668 CTTAAAAGGG
21678 AAAAGGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGG-GTGCCACGGAGTTGTGGGCTT
*
21706 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
21733 AAAGATGAAAAAAGTGCCACGGAGTTATGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
21767 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* *
21795 GATAAGAAGGTGCCACGGAGTTGTGGACTTT
1 -A-AA-AGGGTGCCACGGAGTTGTGGGC-TT
*
21826 AAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTT
1 AAAA-GG-------GTGCCACGGAGTTGTGGGC-TT
* * *
21862 GAGAAGAAAAAGGTTGCCACGAAATTGTGGGCTTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGC-TT
*
21897 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
21924 AAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTT
1 ------AA-AAGGGTGCCACGGAGTTGTGGGCTT
21958 AAATAGATAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAA-AG------G-GTGCCACGGAGTTGTGGGC-TT
21994 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGGCTT
22027 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
*
22060 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
22087 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
22122 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
22149 AAAGACGAAAAAAGTGCCACAGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
*
22183 AAAAGGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* * * *
22211 GATAAGAAGGTGCCACAGAGTCGTGGACTTT
1 -A-AA-AGGGTGCCACGGAGTTGTGGGC-TT
* *** *
22242 AAAAGGGAAAAATAGTGGCATAAAGTTGTGCGCTTT
1 AAAA-GG-------GTGCCACGGAGTTGTGGGC-TT
22278 GAAAAGGGAAAAATAGTTCCACGGAGTTGTGGGCTTT
1 -AAAAGGG-----T-G--CCACGGAGTTGTGGGC-TT
* *
22315 AAAAAGTAAAAGTGCCACGGAGTGGTGGGCTTT
1 -AAAAG----GGTGCCACGGAGTTGTGGGC-TT
* *
22348 GAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGC-TT
*
22383 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
22410 AAAAGGAACAAGGGTGCCACGGAGTTGTGGGCTTAAATGGAT
1 ------AA-AAGGGTGCCACGGAGTTGTGGGC-----T---T
*
22452 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
22479 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
22512 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
22539 ACAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
22566 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
22601 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
22628 AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
22662 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* ** *
22690 GATAAGAAGGTGCCACGGAGTCATGGACTTT
1 -A-AA-AGGGTGCCACGGAGTTGTGGGC-TT
*
22721 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
** ** *** **
22756 TGAAGAGG-GAAAAATAGTTCCACGGAG-TT
1 AAAAG-GGTGCCACGGAGTT--GTGG-GCTT
** *** * * *** *
22785 --TTGGGCTTTAAAAAGAAAAAGT--GC-C
1 AAAAGGG---TGCCACGGAGTTGTGGGCTT
** * ****
22810 ACGGAGTGGTG----GG-CTT-TGAGAAGA
1 A-AAAG-GGTGCCACGGAGTTGTG-GGCTT
* *
22834 AAAAGGTTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* *
22862 AAAAGGGTGCCACGTAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
22889 AAAAGGAACAAGGGTGCCATGGAGTTATGGGCTTAAATGGAT
1 ------AA-AAGGGTGCCACGGAGTTGTGGGC-----T---T
*
22931 AAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
22959 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGGCTT
22992 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
*
23025 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
23052 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* *
23080 AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGCTT
*
23114 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
23149 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
23176 AAAGATGAAAAAAGTCCCACGGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
*
23210 AAAAGGGTGCCACGGAGTGGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
* * *
23238 GAGAAGAAAAAGGTTGCCACGAAATTGTGGGCTTT
1 -------AAAAGGGTGCCACGGAGTTGTGGGC-TT
* *
23273 AAAAGGGTGCCACGTAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
23300 AAAAGGAACAAGGGTGCCATGGAGTTATGGGCTTAAATGGAT
1 ------AA-AAGGGTGCCACGGAGTTGTGGGC-----T---T
* * *
23342 AAAAGAGTGCCATGGAGTTGTGAGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
23370 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGGCTT
23403 AGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
*
23436 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
23463 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
* *
23490 AAAAGGGAAAAAGAGTGGCACAGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
23525 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
23560 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAA--G-----G-GTGCCACGGAGTTGTGGGCTT
*
23595 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
23622 AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
*
23656 AAAAGGGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
23683 TGATAAGAAG
Statistics
Matches: 1554, Mismatches: 166, Indels: 515
0.70 0.07 0.23
Matches are distributed among these distances:
20 1 0.00
22 4 0.00
23 2 0.00
24 1 0.00
25 1 0.00
26 5 0.00
27 405 0.26
28 125 0.08
29 39 0.03
30 26 0.02
31 68 0.04
32 16 0.01
33 148 0.10
34 258 0.17
35 346 0.22
36 64 0.04
37 26 0.02
39 9 0.01
41 1 0.00
42 5 0.00
43 4 0.00
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:22750 original size:479 final size:461
Alignment explanation
Indices: 21623--23496 Score: 1978
Period size: 479 Copynumber: 3.9 Consensus size: 461
21613 TAAAAAAAAG
*
21623 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGAGTG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTG
*
21688 CCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCAC
66 CCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCAC
*
21753 GGAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGATAAG-AAGGTGCCACGGAGTT
131 GGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGATAAGAAAGGTGCCACGGAGTT
* * * *
21817 GTGGACTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCAC
196 GTGGGCTTTAAAA---AGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCAC
*
21882 GAAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGA
258 GGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGA
21947 GTTGTGGGCTTAAATAGATAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
323 GTTGTGGGCTT--AT-G-TAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
22012 CGGAGTTGTGGGCTTAGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAG
384 CGGAGTTGTGGGC---GAA--A-AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAG
22077 TTGTGGACTTAAAAGGGAAAAAGA
443 TTGTGGACTTAAAA-GG----AGA
*
22101 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAGACGAAAAA-AGT
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGAAAAAGAGT
* * * * *
22164 GCCACAGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGGCTT--TGAT-AAGAAGGTGCCA
65 GCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCA
* * * * *** * *
22226 CAGAGTCGTGGACTTTAAAAGGGAAAAATAGTGGCATAAAGTTGTGCGCTTTGAAAAGGGAAAAA
130 CGGAGTTGTGGGC-TTAAAA-GG-------GTGCCACGGAGTTGTGGGCTTTGATAA--G--AAA
* * *
22291 TAGTTCCACGGAGTTGTGGGCTTTAAAAAGTAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAA
182 -GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAA
22356 AAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAA
246 AAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAA
* *
22421 GGGTGCCACGGAGTTGTGGGCTTAAATGGATAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGG
311 GGGTGCCACGGAGTTGTGGGCTT--AT-G-TAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
* ** * *
22485 AGAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTACAAGGGTGCC
372 AAAAAGGTGCCACGGAGTTGTGGGCGAAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCC
22550 ACGGAGTTGTGGACTTAAAAGGGAAAAAGA
437 ACGGAGTTGTGGACTTAAAA-GG----AGA
*
22580 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAGATGAAAAA-AGT
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGAAAAAGAGT
* * * * *
22643 GCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTT--TGAT-AAGAAGGTGCCA
65 GCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCA
** * *
22705 CGGAGTCATGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA-AGAGGGAAAA
130 CGGAGTTGTGGGC-TTAAAA--G-----G-GTGCCACGGAGTTGTGGGCTTTGATA-A--G--AA
* * *
22769 ATAGTTCCACGGAGTTTTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGA
181 A-GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGA
*
22834 AAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGTAGTTGTGGACTTAAAAGGAACA
245 AAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACA
* *
22899 AGGGTGCCATGGAGTTATGGGCTTAAATGGATAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
310 AGGGTGCCACGGAGTTGTGGGCTT--AT-G-TAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
22964 GAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAGGAGAAAGGTGCCACGGAGTTGTGGGCTTAAAA
371 GAAAAAGGTGCCACGGAGTTGTGGGC---GAA--A-AAAGGTGCCACGGAGTTGTGGGCTTAAAA
23029 GGGTGCCACGGAGTTGTGGACTTAAAA-G-G-
430 GGGTGCCACGGAGTTGTGGACTTAAAAGGAGA
* * * *
23058 GTGCCACGGAGTTGTGGACTTTAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGAA
1 GTGCCACGGAGTTGTGGGC-TT-------AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAA
23123 AAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA
58 AAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA
* * *
23188 AGTCCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTT
123 AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGATAAG--AAAGG-T
* * * * * * * *
23253 GCCACGAAATTGTGGGCTTT-AAAAG----GGTGCCACGTAGTTGTGGAC-TT-AAAAGGAACAA
185 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAA-GAAAAA
* * * * * * *
23311 GGGTGCCATGGAGTTATGGGCTTAAATGGATAAAAGAGTGCCATGGAGTTGT-GAGCTTTAAAAA
249 GGTTGCCACGGAATTGTGGGC-T---T---TAAAAGGGTGCCACGGAGTTGTGGA-C-TTAAAAG
* * *
23375 GAA-AAAGGTGCCACGGAGTTGTGGGCTTAGAAGGAGAAAG-GTGCCACGGAGTTGTGGGC-TT-
305 GAACAAGGGTGCCACGGAGTTGTGGGCTT--ATGTA-AAAGAGTGCCACGGAGTTGTGGGCTTTA
* ** * *
23436 AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
367 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCGAAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
23496 G
432 G
23497 AAAAAGAGTG
Statistics
Matches: 1239, Mismatches: 101, Indels: 125
0.85 0.07 0.09
Matches are distributed among these distances:
465 30 0.02
466 1 0.00
468 1 0.00
471 19 0.02
472 3 0.00
473 24 0.02
474 36 0.03
475 9 0.01
476 7 0.01
477 53 0.04
478 98 0.08
479 448 0.36
480 77 0.06
481 32 0.03
482 3 0.00
483 22 0.02
484 1 0.00
485 33 0.03
486 236 0.19
487 52 0.04
488 2 0.00
489 33 0.03
490 19 0.02
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.21
Consensus pattern (461 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTG
CCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCAC
GGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGATAAGAAAGGTGCCACGGAGTT
GTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGA
ATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTT
GTGGGCTTATGTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTT
GTGGGCGAAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA
AGGAGA
Found at i:26924 original size:19 final size:19
Alignment explanation
Indices: 26880--26935 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
26870 CTGCCAATTT
**
26880 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
26900 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
26919 CATGTATTGATACAATG
1 CATGTATCGATACAATG
26936 TATCAATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:26964 original size:33 final size:32
Alignment explanation
Indices: 26901--26965 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
26891 ACAATTGTGC
* * * *
26901 ATGTATCGATACAATGAACATGTATTGATACA
1 ATGTATCAATACAAAGAAAATGTATCGATACA
26933 ATGTATCAATACAAAGCAAAATGTATCGATACA
1 ATGTATCAATACAAAG-AAAATGTATCGATACA
26966 TCTAGATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (32 bp):
ATGTATCAATACAAAGAAAATGTATCGATACA
Found at i:27996 original size:20 final size:20
Alignment explanation
Indices: 27971--28047 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
27961 GTAAAAAGAC
*
27971 AGAATGTATCGATACATTGG
1 AGAATGTATCGATACATTGA
* *
27991 AGAATGTAACGATACATTCA
1 AGAATGTATCGATACATTGA
* *
28011 TA-CATGTATCGATACATCGA
1 -AGAATGTATCGATACATTGA
* *
28031 AAAAAGTATCGATACAT
1 AGAATGTATCGATACAT
28048 ATGGGTAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:33895 original size:2 final size:2
Alignment explanation
Indices: 33888--33917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33878 ACTTAGGATG
33888 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
33918 CTTAGTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37721 original size:2 final size:2
Alignment explanation
Indices: 37714--37756 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
37704 ATAGCCTATT
*
37714 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37756 T
1 T
37757 ACATAGACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:38975 original size:12 final size:11
Alignment explanation
Indices: 38928--38975 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
38918 GTAAAATTAA
38928 ATTAATTTTAT
1 ATTAATTTTAT
38939 A-TAA--TTAT
1 ATTAATTTTAT
38947 -TTAATTTTAT
1 ATTAATTTTAT
38957 ATATAATTTATAT
1 AT-TAATTT-TAT
38970 ATTAAT
1 ATTAAT
38976 AAATTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.23
10 7 0.23
11 2 0.06
12 10 0.32
13 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:39147 original size:8 final size:9
Alignment explanation
Indices: 39136--39231 Score: 56
Period size: 10 Copynumber: 10.2 Consensus size: 9
39126 TTTTATTTAT
39136 TTAA-AAAA
1 TTAATAAAA
39144 TTAATAAAAA
1 TTAAT-AAAA
39154 TATAATAAAA
1 T-TAATAAAA
39164 -T-ATAATAA
1 TTAATAA-AA
*
39172 TTAAATTAAA
1 TT-AATAAAA
*
39182 TAAATATAAA
1 TTAATA-AAA
39192 TTATATAAAAA
1 TTA-AT-AAAA
39203 TT-ATAAAA
1 TTAATAAAA
*
39211 ATATATAAAA
1 TTA-ATAAAA
*
39221 TTAATATAA
1 TTAATAAAA
39230 TT
1 TT
39232 TTATATAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
7 4 0.06
8 12 0.17
9 13 0.19
10 25 0.36
11 14 0.20
12 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAATAAAA
Found at i:39182 original size:28 final size:27
Alignment explanation
Indices: 39142--39226 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 27
39132 TTATTTAAAA
39142 AATTAATAAAAATATAATAAAATATAAT
1 AATT-ATAAAAATATAATAAAATATAAT
* *
39170 AATTA-AATTAAATAAATATAAATTATATAAA
1 AATTATAA--AAATATA-ATAAA--ATATAAT
39201 AATTATAAAAATAT-ATAAAAT-TAAT
1 AATTATAAAAATATAATAAAATATAAT
39226 A
1 A
39227 TAATTTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
25 4 0.09
26 4 0.09
27 1 0.02
28 15 0.32
29 5 0.11
30 5 0.11
31 11 0.23
32 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AATTATAAAAATATAATAAAATATAAT
Found at i:39200 original size:19 final size:19
Alignment explanation
Indices: 39178--39242 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
39168 ATAATTAAAT
39178 TAAATAAATATAAATTATA
1 TAAATAAATATAAATTATA
* *
39197 TAAA-AATTATAAAAATATA
1 TAAATAAATAT-AAATTATA
* *
39216 TAAAATTAATATAATTTTATA
1 T-AAATAAATATAA-ATTATA
39237 TAAATA
1 TAAATA
39243 TAAGTAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
18 5 0.14
19 12 0.34
20 9 0.26
21 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATAAATATAAATTATA
Found at i:39228 original size:21 final size:20
Alignment explanation
Indices: 39153--39244 Score: 59
Period size: 19 Copynumber: 4.7 Consensus size: 20
39143 ATTAATAAAA
39153 ATATAATAAA-ATATAATAATT
1 ATATAA-AAATATATAA-AATT
*
39174 AAATTAAATAA-ATAT-AAATT
1 ATA-TAAA-AATATATAAAATT
*
39194 ATATAAAAAT-TATAAAAAT
1 ATATAAAAATATATAAAATT
* *
39213 ATATAAAATTA-ATATAATT
1 ATATAAAAATATATAAAATT
* *
39232 TTATATAAATATA
1 ATATAAAAATATA
39245 AGTAAATTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
18 5 0.09
19 31 0.55
20 7 0.12
21 4 0.07
22 9 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAAATATATAAAATT
Found at i:39229 original size:11 final size:11
Alignment explanation
Indices: 39162--39229 Score: 51
Period size: 11 Copynumber: 6.6 Consensus size: 11
39152 AATATAATAA
39162 AATATAATAATT
1 AATATAA-AATT
* *
39174 AA-ATTAAATA
1 AATATAAAATT
39184 AATAT-AAATT
1 AATATAAAATT
39194 -ATATAAAAATT
1 AATAT-AAAATT
39205 -ATA-AAAA-T
1 AATATAAAATT
39213 -ATATAAAATT
1 AATATAAAATT
39223 AATATAA
1 AATATAA
39230 TTTTATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
8 4 0.09
9 12 0.26
10 10 0.21
11 19 0.40
12 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAAAATT
Found at i:39252 original size:21 final size:21
Alignment explanation
Indices: 39212--39262 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
39202 ATTATAAAAA
*
39212 TATATAAAATTAATATAATTT
1 TATATAAAATTAATATAATTG
39233 TATAT-AAATATAAGTA-AATTG
1 TATATAAAAT-TAA-TATAATTG
*
39254 AATATAAAA
1 TATATAAAA
39263 CTGTATTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.16
21 16 0.64
22 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
TATATAAAATTAATATAATTG
Found at i:41296 original size:29 final size:29
Alignment explanation
Indices: 41256--41319 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
41246 TAAAGTAACT
*
41256 CTAAAATGCATGAAATTATATAATAATAA
1 CTAAAATACATGAAATTATATAATAATAA
* *
41285 CTAAAATACATGAAATTATATAGTAATCA
1 CTAAAATACATGAAATTATATAATAATAA
41314 CTAAAA
1 CTAAAA
41320 ATGCACTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (29 bp):
CTAAAATACATGAAATTATATAATAATAA
Found at i:41484 original size:57 final size:58
Alignment explanation
Indices: 41347--41487 Score: 160
Period size: 57 Copynumber: 2.4 Consensus size: 58
41337 AAAAGTTCCT
* * *
41347 AAAATGCAAGAAATGACAAAAAAAATTTCTAAATCATAAAAAATGACTTTAATATCTCC
1 AAAATGCATGAAATGAC-ATAATAATTTCTAAATCATAAAAAATGACTTTAATATCTCC
* * * * * *
41406 AAAATACATGAAATGATATAATAATTTGTAAATCATAGAAACTGA-TTTAA-ATGTACC
1 AAAATGCATGAAATGACATAATAATTTCTAAATCATAAAAAATGACTTTAATATCT-CC
*
41463 CAAATGCATGAAATGACATAATAAT
1 AAAATGCATGAAATGACATAATAAT
41488 CTTTAGTATA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 3 0.04
57 29 0.42
58 23 0.33
59 14 0.20
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (58 bp):
AAAATGCATGAAATGACATAATAATTTCTAAATCATAAAAAATGACTTTAATATCTCC
Found at i:45858 original size:13 final size:13
Alignment explanation
Indices: 45840--45891 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
45830 AGCTTCGTAG
45840 CGATACATTGTAT
1 CGATACATTGTAT
45853 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
45872 CGATACATTGTAT
1 CGATACATTGTAT
45885 CGATACA
1 CGATACA
45892 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:45872 original size:19 final size:18
Alignment explanation
Indices: 45848--45910 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
45838 AGCGATACAT
45848 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
45867 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
45880 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
45899 TGTATCGATACA
1 TGTATCGATACA
45911 TAAATTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:45881 original size:32 final size:32
Alignment explanation
Indices: 45840--45911 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
45830 AGCTTCGTAG
45840 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
45872 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
45904 CGATACAT
1 CGATACAT
45912 AAATTGTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:47862 original size:23 final size:23
Alignment explanation
Indices: 47832--47886 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
47822 AGGAACAAAA
47832 GTTGATTTTGACTATAGTTGACT
1 GTTGATTTTGACTATAGTTGACT
47855 GTTGATTTTGACTATAGTTGACT
1 GTTGATTTTGACTATAGTTGACT
47878 -TCTGATTTT
1 GT-TGATTTT
47887 ACTTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.51
Consensus pattern (23 bp):
GTTGATTTTGACTATAGTTGACT
Found at i:52235 original size:52 final size:52
Alignment explanation
Indices: 52035--52215 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
52025 CGAAATATGA
* *
52035 AAATTCGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
52087 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
52139 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
52191 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
52216 AAGATCAGTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:52242 original size:13 final size:13
Alignment explanation
Indices: 52224--52248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52214 CAAAGATCAG
52224 TGTATCGATACAA
1 TGTATCGATACAA
52237 TGTATCGATACA
1 TGTATCGATACA
52249 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:52327 original size:32 final size:33
Alignment explanation
Indices: 52286--52354 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
52276 GGCAGTAGCT
52286 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
* *
52318 TACATTGTATCGATCCAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
52351 TACA
1 TACA
52355 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:58607 original size:21 final size:20
Alignment explanation
Indices: 58574--58614 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
58564 GAGGTGTTGG
58574 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
* *
58594 ACATATCTCAAAATGCTTGAA
1 ACATA-CTAAAAATGCATGAA
58615 CATGGGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:59571 original size:50 final size:51
Alignment explanation
Indices: 59517--59648 Score: 194
Period size: 51 Copynumber: 2.6 Consensus size: 51
59507 ATTTGCCTGT
* * * *
59517 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGT-AAAATCTAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCAAGA
* * *
59567 ATGTATCGATACAATAAAGAATATATCGATACATCTAGGTAAAAACCAAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCAAGA
59618 ATGTATCGATACAATGAATAATGTATCGATA
1 ATGTATCGATACAATGAATAATGTATCGATA
59649 TAAACAGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 35 0.49
51 36 0.51
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAATGTATCGATACATCTAGGTAAAAACCAAGA
Found at i:60731 original size:32 final size:31
Alignment explanation
Indices: 60695--60882 Score: 137
Period size: 32 Copynumber: 5.8 Consensus size: 31
60685 TAGAAGGAGA
*
60695 TGCCACCAACTTATGTGGGCTTTCGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAGGGT
*** *
60727 TGCCATTGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGA-AAGGGT
60759 T-CTCACCAACTTGTGTGGGCTTTGAAAAGAGGT
1 TGC-CACCAACTTGTGTGGGCTTTG-AAAG-GGT
*
60792 TGCCA-CATGACTTGTGTGGGCTTTTGAAAAGGT
1 TGCCACCA--ACTTGTGTGGGC-TTTGAAAGGGT
** * * * *
60825 TATCACGAGCTTGTGTAGGCTTCAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTT-TGAAAGGGT
* * * *
60857 TGTCACCGACTTGTGTAGGTTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTGAA
60883 GAAGGTTTCT
Statistics
Matches: 123, Mismatches: 23, Indels: 21
0.74 0.14 0.13
Matches are distributed among these distances:
31 7 0.06
32 82 0.67
33 13 0.11
34 17 0.14
35 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGGT
Found at i:60838 original size:66 final size:65
Alignment explanation
Indices: 60698--60889 Score: 207
Period size: 64 Copynumber: 3.0 Consensus size: 65
60688 AAGGAGATGC
* *
60698 CACCAACTTATGTGGGCTTTCG-AAAGGGTTGCCATTGACTTGTGTGGGC-TTT-AAGAAGGGTT
1 CACCAACTTGTGTGGGCTTT-GAAAAGGGTTGCCACTGACTTGTGTGGGCTTTTGAAGAA-GGTT
*
60760 CT
64 AT
60762 CACCAACTTGTGTGGGCTTTGAAAAGAGGTTGCCACATGACTTGTGTGGGCTTTTGAA-AAGGTT
1 CACCAACTTGTGTGGGCTTTGAAAAG-GGTTGCCAC-TGACTTGTGTGGGCTTTTGAAGAAGGTT
60826 AT
64 AT
* * * * * * *
60828 CACGAGCTTGTGTAGGC-TTCAGAAAGGGTTGTCACCGACTTGTGTAGG-TTTTGAAGAAGGTT
1 CACCAACTTGTGTGGGCTTTGA-AAAGGGTTGCCACTGACTTGTGTGGGCTTTTGAAGAAGGTT
60890 TCTCCACTAA
Statistics
Matches: 111, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
63 8 0.07
64 40 0.36
65 19 0.17
66 37 0.33
67 5 0.05
68 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (65 bp):
CACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACTGACTTGTGTGGGCTTTTGAAGAAGGTTAT
Found at i:61219 original size:14 final size:13
Alignment explanation
Indices: 61153--61231 Score: 61
Period size: 14 Copynumber: 5.9 Consensus size: 13
61143 GGGATTCATG
61153 TTGACAAACATTTC
1 TTGACAAA-ATTTC
* *
61167 TTGACGAAGTTTC
1 TTGACAAAATTTC
* *
61180 -TGACATATTTTC
1 TTGACAAAATTTC
*
61192 TTGACAAAAGTTC
1 TTGACAAAATTTC
*
61205 TTGGCAAAAATTTC
1 TTGAC-AAAATTTC
*
61219 TTAACAATAATTT
1 TTGACAA-AATTT
61232 TGCTGACAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
12 9 0.18
13 19 0.38
14 22 0.44
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:62469 original size:15 final size:14
Alignment explanation
Indices: 62438--62523 Score: 66
Period size: 14 Copynumber: 5.9 Consensus size: 14
62428 TTTTTCCTCC
**
62438 TTTTTTTTGATTGT
1 TTTTTTTTTTTTGT
* *
62452 TTTTATTTTTTTAT
1 TTTTTTTTTTTTGT
*
62466 TTTTTTCCTTTTTGT
1 TTTTTT-TTTTTTGT
62481 TTGTTTATTTTTTTGT
1 TT-TTT-TTTTTTTGT
*
62497 TGTTGTTTTTTTT-T
1 T-TTTTTTTTTTTGT
*
62511 TCTTTTTTTTTTG
1 TTTTTTTTTTTTG
62524 CGAAGGATGC
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
13 9 0.16
14 17 0.30
15 15 0.27
16 13 0.23
17 2 0.04
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTTTGT
Found at i:62477 original size:23 final size:23
Alignment explanation
Indices: 62451--62494 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
62441 TTTTTGATTG
*
62451 TTTTTATTTTTTTATTTTTTTCC
1 TTTTTATTTGTTTATTTTTTTCC
*
62474 TTTTTGTTTGTTTATTTTTTT
1 TTTTTATTTGTTTATTTTTTT
62495 GTTGTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (23 bp):
TTTTTATTTGTTTATTTTTTTCC
Found at i:62516 original size:23 final size:22
Alignment explanation
Indices: 62438--62517 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
62428 TTTTTCCTCC
** * *
62438 TTTTTTTTGATTGTTTTTATTT
1 TTTTTTTTTTTTGTTGTTGTTT
** *
62460 TTTTATTTTTTTCCTTTTTGTTT
1 TTTT-TTTTTTTTGTTGTTGTTT
* *
62483 GTTTATTTTTTTGTTGTTGTTT
1 TTTTTTTTTTTTGTTGTTGTTT
62505 TTTTTTTCTTTTT
1 TTTTTTT-TTTTT
62518 TTTTTGCGAA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
22 23 0.52
23 21 0.48
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.82
Consensus pattern (22 bp):
TTTTTTTTTTTTGTTGTTGTTT
Found at i:71990 original size:33 final size:33
Alignment explanation
Indices: 71953--72019 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
71943 TTCAACGATC
71953 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
71986 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
72019 T
1 T
72020 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:71991 original size:13 final size:13
Alignment explanation
Indices: 71973--71997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71963 CATAAAATGT
71973 TGTATCGATACAA
1 TGTATCGATACAA
71986 TGTATCGATACA
1 TGTATCGATACA
71998 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:72081 original size:13 final size:13
Alignment explanation
Indices: 72063--72087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72053 ATTACTCACA
72063 TGTATCGATACAT
1 TGTATCGATACAT
72076 TGTATCGATACA
1 TGTATCGATACA
72088 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72224 original size:52 final size:52
Alignment explanation
Indices: 72096--72216 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
72086 CACTGATCTT
*
72096 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
72148 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
72200 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
72217 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:78238 original size:78 final size:78
Alignment explanation
Indices: 78127--78327 Score: 224
Period size: 79 Copynumber: 2.6 Consensus size: 78
78117 AATAACGGGG
* * * * * * *
78127 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
78191 AAAAAAAATCGAGA
65 AAAAAAAACCGAGA
* * *
78205 TTGGAGTATCCCCTCGAAAATAACGGGTTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAG
* * * * *
78270 GAATAAAGCCGGGG
65 AAAAAAAACCGAGA
*
78284 TTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
78328 GAAATAACGA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 49 0.48
79 52 0.51
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAACCGAGA
Found at i:78312 original size:28 final size:27
Alignment explanation
Indices: 78279--78350 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
78269 GGAATAAAGC
78279 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
78307 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
78335 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
78351 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:78403 original size:52 final size:52
Alignment explanation
Indices: 78339--78461 Score: 158
Period size: 52 Copynumber: 2.4 Consensus size: 52
78329 AAATAACGAG
** * * *
78339 GTTGGAGTATCCTCGATT-GTGAAAAATTGTTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTAAAGAAAAATTGGT-GTTTTGAAAATAAAATCGGA
*
78391 GTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* *
78443 GTTGGAATATCCCCGATTA
1 GTTGGAGTATCCTCGATTA
78462 TGGAGAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 53 0.85
53 9 0.15
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:80842 original size:33 final size:33
Alignment explanation
Indices: 80804--80870 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
80794 AAAATTTCCA
***
80804 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
80837 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
80870 A
1 A
80871 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:80843 original size:13 final size:13
Alignment explanation
Indices: 80825--80850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80815 ACAAAGATCC
80825 ATGTATCGATACA
1 ATGTATCGATACA
80838 ATGTATCGATACA
1 ATGTATCGATACA
80851 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:80914 original size:19 final size:19
Alignment explanation
Indices: 80890--80944 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
80880 CAATAGCTAA
*
80890 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
80909 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
80928 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
80945 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:97500 original size:28 final size:29
Alignment explanation
Indices: 97465--97536 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
97455 GGAGTAAAGC
97465 CGGGGTTGGAGTATCCCCTCG-GAAG-TAA
1 CGGGGTTGGAGTATCCCC-CGAGAAGATAA
*
97493 CGGGGTTGGAGTAT-CCCCGATAAGATAA
1 CGGGGTTGGAGTATCCCCCGAGAAGATAA
*
97521 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
97537 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.05
27 6 0.15
28 30 0.77
29 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCCGAGAAGATAA
Found at i:97634 original size:53 final size:50
Alignment explanation
Indices: 97524--97910 Score: 201
Period size: 51 Copynumber: 7.4 Consensus size: 50
97514 AAGATAACGA
* * * *
97524 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTG-GAAAAATTGGT-GTTTTGAAAATAAAACCGG
*
97576 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GGAAAAATTGGTGTTTTGAAAATAAAACCGG
* * *
97629 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGA
1 GGTTGGAGTATCCCCGA-T-TGGAAAAATTGGTGTTTTGA-AAATAAAACCGG
* *** * ***
97681 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAAA-AAAGTTGG
1 GGTTGGAGTATCCCCGATT-GGAAAAATTGGTGTTTT-GAAAATAAAACCGG
** * ** ** *
97732 GGTTGGAGTATCCCC--TCAGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGGAAA-AA-----TTGGTGT-T--TTGAAAATAAAACCGG
* * *
97787 GGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTG-GAAAAATTGGTG--TTTTGAAAATAAAACCGG
* ** * * * *
97840 AGTTGGAGTATCCCCGATTATAGAAAATTAGTATCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGGA-AAAATTGGTGTTTTGAAAATAAAACCGG
* *
97891 AGTTGGAATATCCCCGATTG
1 GGTTGGAGTATCCCCGATTG
97911 TGGAGAATTG
Statistics
Matches: 256, Mismatches: 52, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 1 0.00
51 71 0.28
52 70 0.27
53 62 0.24
54 15 0.06
55 20 0.08
56 4 0.02
57 2 0.01
58 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGGAAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:97676 original size:52 final size:50
Alignment explanation
Indices: 97524--97909 Score: 219
Period size: 52 Copynumber: 7.4 Consensus size: 50
97514 AAGATAACGA
* * * *
97524 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTT-GAAATAAAACCGG
* *
97576 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTGTTTTG-AAATAAAACCGG
* * * *
97629 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGA
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTT-GAAATAAAACCGG
*** * **
97681 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAA-AAAAGTTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAATAAAA-CCGG
* * ** * *
97732 GGTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TTGGTGT-T--TTGA-AATAAAACCGG
* * *
97787 GGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG--TTTT-GAAATAAAACCGG
* * * * *
97840 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTATCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTG-AAATAAAACCGG
* *
97891 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
97910 GTGGAGAATT
Statistics
Matches: 260, Mismatches: 47, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
50 5 0.02
51 67 0.26
52 73 0.28
53 64 0.25
54 14 0.05
55 18 0.07
56 2 0.01
57 5 0.02
58 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAATAAAACCGG
Found at i:97792 original size:27 final size:28
Alignment explanation
Indices: 97730--97804 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
97720 AAAAAAAGTT
*
97730 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
97758 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
97785 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
97805 TGTGAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:100309 original size:13 final size:13
Alignment explanation
Indices: 100291--100316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100281 ACAAAGATCC
100291 ATGTATCGATACA
1 ATGTATCGATACA
100304 ATGTATCGATACA
1 ATGTATCGATACA
100317 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:100312 original size:33 final size:33
Alignment explanation
Indices: 100270--100336 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
100260 AAAATTTCCA
***
100270 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
100303 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
100336 A
1 A
100337 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:100380 original size:19 final size:18
Alignment explanation
Indices: 100356--100423 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
100346 CAGTAGCTAA
100356 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
100375 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
100390 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
100407 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
100424 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:100396 original size:13 final size:13
Alignment explanation
Indices: 100378--100402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100368 ACAATACTTA
100378 TGTATCGATACAT
1 TGTATCGATACAT
100391 TGTATCGATACA
1 TGTATCGATACA
100403 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:100400 original size:32 final size:32
Alignment explanation
Indices: 100359--100421 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
100349 TAGCTAATTA
*
100359 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
100391 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
100422 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:102243 original size:3 final size:3
Alignment explanation
Indices: 102235--102268 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
102225 AACCTTCAAA
*
102235 GAT GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
102269 GAGAAGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:103606 original size:13 final size:13
Alignment explanation
Indices: 103588--103613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103578 CAATTTTTTG
103588 TGTATCGATACAT
1 TGTATCGATACAT
103601 TGTATCGATACAT
1 TGTATCGATACAT
103614 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103678 original size:21 final size:21
Alignment explanation
Indices: 103652--103727 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
103642 CTGCCAAGAA
*
103652 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
103673 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
103693 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
103714 ATGTATCGATACAT
1 ATGTATCGATACAT
103728 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:103698 original size:20 final size:20
Alignment explanation
Indices: 103673--103745 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
103663 CATCTTTTTT
103673 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
103693 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
103714 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
103734 ATGTATCGATAC
1 ATGTATCGATAC
103746 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:103709 original size:41 final size:41
Alignment explanation
Indices: 103652--103745 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
103642 CTGCCAAGAA
*
103652 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
103693 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
103734 ATGTATCGATAC
1 ATGTATCGATAC
103746 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:104408 original size:35 final size:35
Alignment explanation
Indices: 104364--104431 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
104354 CCCCCGTTTT
104364 AAAAAAAAATCTCCCCCTTAATCAAGTAATTCAAA
1 AAAAAAAAATCTCCCCCTTAATCAAGTAATTCAAA
104399 AAAAAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAAAAATCTCCCCCTTAATCAAGTAATTCA
104432 TATCAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (35 bp):
AAAAAAAAATCTCCCCCTTAATCAAGTAATTCAAA
Found at i:106243 original size:13 final size:13
Alignment explanation
Indices: 106225--106263 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
106215 ATAATCACCC
*
106225 TGTATCGATACAG
1 TGTATCGATACAA
106238 TGTATCGATACAA
1 TGTATCGATACAA
106251 TGTATCGATACAA
1 TGTATCGATACAA
106264 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106274 original size:20 final size:20
Alignment explanation
Indices: 106249--106327 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
106239 GTATCGATAC
106249 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
106269 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
106294 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
106313 ACATGTATCGATACA
1 A-ATGTATCGATACA
106328 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:108362 original size:15 final size:15
Alignment explanation
Indices: 108342--108372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108332 ATTTCGTTTG
*
108342 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
108357 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
108372 G
1 G
108373 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:112452 original size:13 final size:13
Alignment explanation
Indices: 112434--112459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112424 CAATTTTTTG
112434 TGTATCGATACAT
1 TGTATCGATACAT
112447 TGTATCGATACAT
1 TGTATCGATACAT
112460 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:112524 original size:21 final size:21
Alignment explanation
Indices: 112498--112573 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
112488 CTGCCAAGAA
*
112498 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
112519 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
112539 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
112560 ATGTATCGATACAT
1 ATGTATCGATACAT
112574 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:112544 original size:20 final size:20
Alignment explanation
Indices: 112519--112591 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
112509 CATCTTTTTT
112519 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
112539 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
112560 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
112580 ATGTATAGATAC
1 ATGTATCGATAC
112592 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:112555 original size:41 final size:41
Alignment explanation
Indices: 112498--112591 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
112488 CTGCCAAGAA
*
112498 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
112539 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
112580 ATGTATAGATAC
1 ATGTATCGATAC
112592 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:115592 original size:13 final size:13
Alignment explanation
Indices: 115574--115598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115564 ACATAAGTGT
115574 TGTATCGATACAA
1 TGTATCGATACAA
115587 TGTATCGATACA
1 TGTATCGATACA
115599 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:115598 original size:32 final size:32
Alignment explanation
Indices: 115555--115625 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
115545 AAACAGTAAC
*
115555 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
115587 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
115619 TGCATCG
1 TGTATCG
115626 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:115611 original size:19 final size:19
Alignment explanation
Indices: 115532--115617 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
115522 ATTTCAACTA
*
115532 TTTGTATCGATACAAACAGT
1 TTTGTATCGATACATA-AGT
** *
115552 AACTGTATCAATACATAAGT
1 -TTTGTATCGATACATAAGT
*
115572 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
115587 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
115604 TTTGTATCGATACA
1 TTTGTATCGATACA
115618 ATGCATCGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 11 0.21
15 2 0.04
17 2 0.04
19 22 0.42
20 3 0.06
21 12 0.23
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:122261 original size:22 final size:23
Alignment explanation
Indices: 122219--122270 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
122209 TTTGGAAACA
*
122219 AAAAAGGGGATAGATATTTTT-G
1 AAAAAGGGGATAAATATTTTTAG
*
122241 AAAAAGGGGATAAAT-TGTTTTAT
1 AAAAAGGGGATAAATAT-TTTTAG
122264 AAAAAGG
1 AAAAAGG
122271 ACTATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (23 bp):
AAAAAGGGGATAAATATTTTTAG
Found at i:122278 original size:67 final size:67
Alignment explanation
Indices: 122169--122323 Score: 231
Period size: 67 Copynumber: 2.3 Consensus size: 67
122159 TGAAAATAAA
* * *
122169 TTTGAAAAATAGGGAGAAATTGTTTTATAAAAAAGATTATTTTGGAAACAAAAAAGGGGATAGAT
1 TTTGAAAAA-GGGGAGAAATTGTTTTATAAAAAAGACTATTTTGGAAACAAAAAAGGGGAAAGAT
122234 ATT
65 ATT
* * *
122237 TTTGAAAAAGGGGATAAATTGTTTTATAAAAAGGACTATTTTGGAAACAAAAAGGGGGAAAGATA
1 TTTGAAAAAGGGGAGAAATTGTTTTATAAAAAAGACTATTTTGGAAACAAAAAAGGGGAAAGATA
122302 TT
66 TT
122304 TTT-AAAAAGGGGAAGAAATT
1 TTTGAAAAAGGGG-AGAAATT
122324 TTATTAATAG
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
66 9 0.11
67 61 0.77
68 9 0.11
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.29
Consensus pattern (67 bp):
TTTGAAAAAGGGGAGAAATTGTTTTATAAAAAAGACTATTTTGGAAACAAAAAAGGGGAAAGATA
TT
Found at i:122324 original size:20 final size:22
Alignment explanation
Indices: 122285--122325 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
122275 TTTTGGAAAC
*
122285 AAAAAGGGGGAAAGATATTTTT
1 AAAAAGGGGGAAAGAAATTTTT
122307 AAAAA-GGGG-AAGAAATTTT
1 AAAAAGGGGGAAAGAAATTTT
122326 ATTAATAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (22 bp):
AAAAAGGGGGAAAGAAATTTTT
Found at i:122330 original size:22 final size:21
Alignment explanation
Indices: 122286--122347 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
122276 TTTGGAAACA
* *
122286 AAAAGGGGGAAAGATATTTT-TA
1 AAAAGGGAGAAA-A-ATTTTATT
122308 AAAAGGG-GAAGAAATTTTATT
1 AAAAGGGAGAA-AAATTTTATT
*
122329 AATAGGGAGAAAAATTTTA
1 AAAAGGGAGAAAAATTTTA
122348 AATTAAGGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 5 0.14
21 19 0.54
22 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (21 bp):
AAAAGGGAGAAAAATTTTATT
Found at i:122972 original size:20 final size:21
Alignment explanation
Indices: 122941--122979 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
122931 AGGTCAAAAC
*
122941 CCTAGAAAGTATTGATACAAA
1 CCTAGAAAGTATCGATACAAA
122962 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
122980 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAAA
Found at i:125189 original size:34 final size:35
Alignment explanation
Indices: 125121--125192 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
125111 ATGTTTGTGA
*
125121 AAAGAATAAGCACAAAGGAATACAAATGAGCTTTG
1 AAAGAATAAGCACAAAGGAATACAAAAGAGCTTTG
125156 AAAGAATAA-CAACAAA-GAATACAAAAGCA-CTTTG
1 AAAGAATAAGC-ACAAAGGAATACAAAAG-AGCTTTG
125190 AAA
1 AAA
125193 TGTAGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.15
Consensus pattern (35 bp):
AAAGAATAAGCACAAAGGAATACAAAAGAGCTTTG
Found at i:125500 original size:13 final size:13
Alignment explanation
Indices: 125482--125506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125472 ACAATCCTTA
125482 TGTATCGATACAT
1 TGTATCGATACAT
125495 TGTATCGATACA
1 TGTATCGATACA
125507 ACATGAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126232 original size:21 final size:22
Alignment explanation
Indices: 126208--126250 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
126198 CAATATATAA
126208 CTCCCCCTTAAT-AAAATTTTT
1 CTCCCCCTTAATAAAAATTTTT
126229 CTCCCCCTTAATAAAAATTTTT
1 CTCCCCCTTAATAAAAATTTTT
126251 AATGCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCCCCCTTAATAAAAATTTTT
Found at i:126395 original size:19 final size:19
Alignment explanation
Indices: 126344--126396 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
126334 TTAAAAATAT
* *
126344 CTCTCCCCCTGTTTATTAA
1 CTCTCCCCCTTTTTATAAA
126363 -TC-CTCCCCTATTTTATAAA
1 CTCTC-CCCCT-TTTTATAAA
126382 CTCTCCCCCTTTTTA
1 CTCTCCCCCTTTTTA
126397 CAAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.04
18 7 0.25
19 12 0.43
20 7 0.25
21 1 0.04
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.43
Consensus pattern (19 bp):
CTCTCCCCCTTTTTATAAA
Found at i:134097 original size:20 final size:20
Alignment explanation
Indices: 134051--134106 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
134041 CAAAAACCCA
134051 GAATGTATCGATACA-AAGC
1 GAATGTATCGATACATAAGC
* * *
134070 AAATTGTATCGATACATATGG
1 GAA-TGTATCGATACATAAGC
*
134091 GAATGTATCTATACAT
1 GAATGTATCGATACAT
134107 TTACTTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.80
21 4 0.13
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
GAATGTATCGATACATAAGC
Found at i:136041 original size:20 final size:20
Alignment explanation
Indices: 136018--136090 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
136008 ACAATTCAAA
136018 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
136038 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
136059 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
136079 GTATCGATACAT
1 GTATCGATACAT
136091 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:136062 original size:21 final size:21
Alignment explanation
Indices: 136036--136111 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
136026 ACATGTTGCA
136036 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
136057 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
136075 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
136098 ATGTATCGATACAT
1 ATGTATCGATACAT
136112 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:136069 original size:41 final size:41
Alignment explanation
Indices: 136018--136111 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
136008 ACAATTCAAA
* *
136018 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
136059 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
136100 GTATCGATACAT
1 GTATCGATACAT
136112 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:136165 original size:13 final size:13
Alignment explanation
Indices: 136147--136172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
136137 TACAGCAAGT
136147 ATGTATCGATACA
1 ATGTATCGATACA
136160 ATGTATCGATACA
1 ATGTATCGATACA
136173 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:138419 original size:21 final size:21
Alignment explanation
Indices: 138386--138430 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
138376 TTGCAAGTTG
*
138386 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
138408 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
138428 AAA
1 AAA
138431 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:142340 original size:20 final size:21
Alignment explanation
Indices: 142271--142348 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
142261 AATGTCCAAA
*
142271 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
142291 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
142316 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
142336 TTGTATCGATACA
1 ATGTATCGATACA
142349 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:142355 original size:13 final size:13
Alignment explanation
Indices: 142337--142374 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
142327 CATTTTTCTT
142337 TGTATCGATACAA
1 TGTATCGATACAA
*
142350 TGTATCGATACAC
1 TGTATCGATACAA
142363 TGTATCGATACA
1 TGTATCGATACA
142375 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:144845 original size:20 final size:20
Alignment explanation
Indices: 144822--144894 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
144812 ACAATTCAAA
144822 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
144842 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
144863 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
144883 GTATCGATACAT
1 GTATCGATACAT
144895 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:144866 original size:21 final size:21
Alignment explanation
Indices: 144840--144915 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
144830 ACATGTTGCA
144840 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
144861 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
144879 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
144902 ATGTATCGATACAT
1 ATGTATCGATACAT
144916 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:144873 original size:41 final size:41
Alignment explanation
Indices: 144822--144915 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
144812 ACAATTCAAA
* *
144822 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
144863 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
144904 GTATCGATACAT
1 GTATCGATACAT
144916 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:144972 original size:13 final size:13
Alignment explanation
Indices: 144954--144979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144944 TATAGCAAGT
144954 ATGTATCGATACA
1 ATGTATCGATACA
144967 ATGTATCGATACA
1 ATGTATCGATACA
144980 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:148527 original size:13 final size:13
Alignment explanation
Indices: 148509--148538 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
148499 ATACATTGTT
148509 CATTGTATCGATA
1 CATTGTATCGATA
148522 CATTGTATCGATA
1 CATTGTATCGATA
148535 CATT
1 CATT
148539 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:148581 original size:20 final size:20
Alignment explanation
Indices: 148556--148607 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
148546 TACCCAGATG
148556 TATCGATACATTGCTCATTA
1 TATCGATACATTGCTCATTA
* *
148576 TATCGATGCATTGCTCATTG
1 TATCGATACATTGCTCATTA
148596 TATCGATACATT
1 TATCGATACATT
148608 TTACAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (20 bp):
TATCGATACATTGCTCATTA
Found at i:151008 original size:50 final size:50
Alignment explanation
Indices: 150932--151096 Score: 152
Period size: 51 Copynumber: 3.3 Consensus size: 50
150922 TTTCATCTTG
* ** **
150932 GGGATACTCCAA-TCTCGGTTCCATTTCCAAAACATCAATTTTTCTTAATT
1 GGGATACTCCAACTC-CGATTTTATTTCCAAAACATCAATTTTTCACAATT
* * * ** * *
150982 GGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAATC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATT
* * * *
151032 GGAGATACTCCAACTCTGATTTTACTCCCAAAACACCAATTTTTCACAATT
1 GG-GATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATT
151083 GGGGATACTCCAAC
1 -GGGATACTCCAAC
151097 CCCGTTATTT
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
50 38 0.42
51 50 0.56
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATT
Found at i:151115 original size:28 final size:27
Alignment explanation
Indices: 151083--151156 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
151073 TTTCACAATT
151083 GGGGATACTCCAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
151109 TCGGGGATACTCCAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
*
151139 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
151157 GCTTTATATC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 38 0.88
29 4 0.09
30 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:151288 original size:107 final size:107
Alignment explanation
Indices: 151061--151310 Score: 315
Period size: 107 Copynumber: 2.3 Consensus size: 107
151051 TTTTACTCCC
* * * *
151061 AAAACACCAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACC
1 AAAATACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAACC
* *
151126 CCGTTATTTTCGAGGGGATACTCTAACCCCGGCTTTATATCT
66 CCGTTATTTTCGAGAGGATACTCTAACCCCGACTTTATATCT
*** * * *
151168 AAAATATTGATTTTTCATAATCAAGGG-TACTCCAACCCCGTTATGTCATCGAGGATACTCCAAT
1 AAAATACCAATTTTTCACAATC-GGGGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAAC
* * * *
151232 CCCGTTATTTTCGAGAGGATACT-TCAACCCTGATTTTATTTTT
65 CCCGTTATTTTCGAGAGGATACTCT-AACCCCGACTTTATATCT
*
151275 AAAATACCAATTTTCCACAATCGGGGATACTCCAAC
1 AAAATACCAATTTTTCACAATCGGGGATACTCCAAC
151311 TTCGATTTTA
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
106 4 0.03
107 111 0.94
108 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (107 bp):
AAAATACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAACC
CCGTTATTTTCGAGAGGATACTCTAACCCCGACTTTATATCT
Found at i:151304 original size:51 final size:51
Alignment explanation
Indices: 151248--151416 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
151238 ATTTTCGAGA
* * *
151248 GGATACTTCAACCCTGATTTTATTTTTAAAATACCAATTTTCCACAATCGG
1 GGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTTTCCACAATCGG
* *
151299 GGATACTCCAA-CTTCGATTTTATTTCCAAAACACCAA-TTTCTCACAATCGG
1 GGATACTCCAACCCT-GATTTTATTTCTAAAACACCAATTTTC-CACAATCGG
* * ** * * * *
151350 GGACACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTTCACAATCGG
1 GGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTTTCCACAATCGG
151401 GGATACTCCAACCCTG
1 GGATACTCCAACCCTG
151417 TTATTTTTGA
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
50 6 0.06
51 87 0.90
52 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTTTCCACAATCGG
Found at i:163740 original size:16 final size:15
Alignment explanation
Indices: 163718--163789 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 15
163708 CACTTTTTTT
163718 AAAAAAAAACAAAAA
1 AAAAAAAAACAAAAA
*
163733 ATAAAAAAACAAAAA
1 AAAAAAAAACAAAAA
*
163748 AGCAAAAAAACAACAAA
1 A-AAAAAAAACAA-AAA
*
163765 AAATAAAAACAAAACA
1 AAAAAAAAACAAAA-A
163781 AAGAAAAAA
1 AA-AAAAAA
163790 GAGAGAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
15 17 0.35
16 22 0.46
17 9 0.19
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAAAAAACAAAAA
Found at i:163756 original size:34 final size:33
Alignment explanation
Indices: 163718--163789 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
163708 CACTTTTTTT
163718 AAAAAAAAACAAAAAATAAAAA-AACAAAAAAGCA
1 AAAAAAAAACAAAAAATAAAAACAA-AAAAAAG-A
* *
163752 AAAAAACAACAAAAAATAAAAACAAAACAAAGA
1 AAAAAAAAACAAAAAATAAAAACAAAAAAAAGA
163785 AAAAA
1 AAAAA
163790 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 6 0.17
34 27 0.77
35 2 0.06
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (33 bp):
AAAAAAAAACAAAAAATAAAAACAAAAAAAAGA
Found at i:163788 original size:15 final size:15
Alignment explanation
Indices: 163720--163778 Score: 75
Period size: 15 Copynumber: 3.8 Consensus size: 15
163710 CTTTTTTTAA
*
163720 AAAAAAACAAAAAAT
1 AAAAAAACAAAAAAC
163735 AAAAAAACAAAAAAGC
1 AAAAAAACAAAAAA-C
163751 AAAAAAACAACAAAA-
1 AAAAAAACAA-AAAAC
163766 AATAAAAACAAAA
1 AA-AAAAACAAAA
163779 CAAAGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 18 0.45
16 18 0.45
17 4 0.10
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.03
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:164963 original size:55 final size:55
Alignment explanation
Indices: 164873--165006 Score: 202
Period size: 55 Copynumber: 2.5 Consensus size: 55
164863 CTTCTTTCAC
164873 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
164927 CCTTTCAGTCCTCAAAGAGCAGGACGCCATTT-AAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
164982 -CTTCCCAATCCTCAAAGAGCAGGAC
1 CCTT-TCAGTCCTCAAAGAGCAGGAC
165007 ACTCTCTTCT
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
54 8 0.11
55 63 0.85
56 3 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:165031 original size:94 final size:94
Alignment explanation
Indices: 164927--165099 Score: 267
Period size: 94 Copynumber: 1.8 Consensus size: 94
164917 GTTGGTGGCA
*
164927 CCTTTCAGTCCTCAAAGAGCAGGACGCCATTTAAAGCCCACATAAGTTGGTGGCACTTCCCAATC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCATTTAAAGCCCACACAAGTTGGTGGC-CTTCCCAATC
164992 CTCAAAGAGCAGGACACTCTCTTCTTTCAC
65 CTCAAAGAGCAGGACACTCTCTTCTTTCAC
* * * * * *
165022 CCTTT-AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCTTTTCTAGTCC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCATTTAAAGCCCACACAAGTTGGTGGCCTTCCCAATCC
165086 TCAAAGAGCAGGAC
66 TCAAAGAGCAGGAC
165100 GCCTTTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 21 0.30
94 45 0.63
95 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (94 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCATTTAAAGCCCACACAAGTTGGTGGCCTTCCCAATCC
TCAAAGAGCAGGACACTCTCTTCTTTCAC
Found at i:165050 original size:149 final size:147
Alignment explanation
Indices: 164774--165159 Score: 513
Period size: 149 Copynumber: 2.5 Consensus size: 147
164764 TCCTTTCACT
*
164774 TTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTTCT
1 TTTCAGTCCTCAAAGAGCAGGACG-----TCCTTTTAAAGCCCACAAAAGTTGGTGGCA-CTTCC
* * *
164839 AGTCCTTAAAGAGTAGGACGCTCTCTTCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC
60 AGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC
164904 AAAGCCCACACAAGTTGGTGGCACC
125 AAAGCCCACACAAGTTGGTGG--CC
* * *
164929 TTTCAGTCCTCAAAGAGCAGGACG-CCATTTAAAGCCCACATAAGTTGGTGGCACTTCCCAATCC
1 TTTCAGTCCTCAAAGAGCAGGACGTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTT-CCAGTCC
* *
164993 TCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGC
65 TCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
*
165058 CCACACAAGTTGGTGGCT
130 CCACACAAGTTGGTGGCC
* *
165076 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 TTTC-AGTCCTCAAAGAGCAGGACG-----TCCTTTTAAAGCCCACAAAAGTTGGTGGCA-CTTC
165141 CAGTCCTCAAAGAGCAGGA
59 CAGTCCTCAAAGAGCAGGA
165160 TGCTTTCTCT
Statistics
Matches: 208, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
147 5 0.02
148 23 0.11
149 108 0.52
154 46 0.22
155 26 0.12
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (147 bp):
TTTCAGTCCTCAAAGAGCAGGACGTCCTTTTAAAGCCCACAAAAGTTGGTGGCACTTCCAGTCCT
CAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
CACACAAGTTGGTGGCC
Found at i:165178 original size:61 final size:59
Alignment explanation
Indices: 165027--165282 Score: 281
Period size: 61 Copynumber: 4.3 Consensus size: 59
165017 TTCACCCTTT
*
165027 AGTCCTCAAAGAGCAGGATGC---CTTTT-AAAGCCCACACAAGTTGGTGGC-TTTTCT
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
165081 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATG-C-TTT-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
165142 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTAGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCTTTCT-TTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* ** * * **
165203 AGTCCTCAAAGAGCAAGACACCTTTCTTTTTCAAAGCCCACGCGAGTTGGTGGCACTTTTTT
1 AGTCCTCAAAGAGCAGGA-TGCTTTC-TTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
165265 TGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
165283 CGCACTTTAT
Statistics
Matches: 171, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
54 19 0.11
55 1 0.01
58 2 0.01
59 6 0.04
60 28 0.16
61 88 0.51
62 26 0.15
63 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGATGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:165239 original size:122 final size:116
Alignment explanation
Indices: 165027--165282 Score: 318
Period size: 122 Copynumber: 2.2 Consensus size: 116
165017 TTCACCCTTT
* ** *
165027 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCTTTTCTAGTCCTCAAAG
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTAGTGGCCCTTCCAGTCCTCAAAG
* *
165092 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
66 AGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
165142 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTAGTGGCACCTTCCAGTC
1 AGTCCTCAAAGAGCAGGATGC---CT-TTT--AAAGCCCACACAAGTTAGTGGC-CCTTCCAGTC
* * * **
165207 CTCAAAGAGCAAGACACC-TTTCTTTTTCAAAGCCCACGCGAGTTGGTGGCACTTTTTT
59 CTCAAAGAGCAAGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCC
*
165265 TGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
165283 CGCACTTTAT
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
115 21 0.17
118 2 0.02
119 3 0.03
121 29 0.24
122 44 0.37
123 21 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (116 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTAGTGGCCCTTCCAGTCCTCAAAG
AGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:165322 original size:42 final size:42
Alignment explanation
Indices: 165263--165455 Score: 183
Period size: 42 Copynumber: 4.5 Consensus size: 42
165253 TGGCACTTTT
165263 TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTCTCC
1 TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTCTCC
* * * * *
165305 TTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCTCT
1 TTTGTCCTCAAAGAGCAGGACGCACTTTATT---TTCCTCTCTCC
* *
165350 TTTGTCCTCAAAGAGCAGGACGTACTTTATTTTCCTCT-TTC
1 TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTCTCC
* * * * * *
165391 TTTCATCCTCAAAGAGTAAGACGCA-TTTCGTTTTCCTTTTTTCC
1 TTT-GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCC-TCTCTCC
* *
165435 TTTATCCTCAAAAAGCAGGAC
1 TTTGTCCTCAAAGAGCAGGAC
165456 ATACTCTTTT
Statistics
Matches: 122, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 7 0.06
42 57 0.47
43 17 0.14
44 5 0.04
45 36 0.30
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (42 bp):
TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTCTCC
Done.