Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 167 of 206
Found at i:50820831 original size:14 final size:14
Alignment explanation
Indices: 50820812--50820849 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
50820802 GTGGTTCGAC
50820812 ATAACCTTTCTATG
1 ATAACCTTTCTATG
50820826 ATAACCTTTCTATG
1 ATAACCTTTCTATG
*
50820840 ATAACTTTTC
1 ATAACCTTTC
50820850 ATGTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (14 bp):
ATAACCTTTCTATG
Found at i:50826494 original size:14 final size:14
Alignment explanation
Indices: 50826475--50826501 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50826465 CAAACACAAA
50826475 GAATAAAAGTTAAT
1 GAATAAAAGTTAAT
50826489 GAATAAAAGTTAA
1 GAATAAAAGTTAA
50826502 AATTGAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
GAATAAAAGTTAAT
Found at i:50836328 original size:12 final size:12
Alignment explanation
Indices: 50836313--50836353 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
50836303 AGGCTGAATA
*
50836313 GGAGGCAGAGGT
1 GGAGGCAGAGTT
50836325 GGAGGCAGAGTT
1 GGAGGCAGAGTT
50836337 GG-GGCTAGAGTT
1 GGAGGC-AGAGTT
50836349 GGAGG
1 GGAGG
50836354 AGTTGTAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 3 0.12
12 21 0.81
13 2 0.08
ACGTcount: A:0.22, C:0.07, G:0.56, T:0.15
Consensus pattern (12 bp):
GGAGGCAGAGTT
Found at i:50839908 original size:7 final size:7
Alignment explanation
Indices: 50839896--50839924 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50839886 AGTGAGCCAT
50839896 TTATTGA
1 TTATTGA
50839903 TTATTGA
1 TTATTGA
50839910 TTATTGA
1 TTATTGA
50839917 TTATTGA
1 TTATTGA
50839924 T
1 T
50839925 CATAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTATTGA
Found at i:50842068 original size:25 final size:26
Alignment explanation
Indices: 50842021--50842080 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
50842011 TCAAGTTATT
* * *
50842021 TATATTATTATTTTGAAATTAAAATA
1 TATATAATTATTTTAAAAATAAAATA
50842047 TATATAATT-TTTTAAAAATAAAATA
1 TATATAATTATTTTAAAAATAAAATA
50842072 TATA-AATTA
1 TATATAATTA
50842081 GTAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 18 0.60
26 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TATATAATTATTTTAAAAATAAAATA
Found at i:50842085 original size:23 final size:25
Alignment explanation
Indices: 50842040--50842087 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
50842030 ATTTTGAAAT
**
50842040 TAAAATATATATAATTTTTTAAAAA
1 TAAAATATATATAATTTAGTAAAAA
50842065 TAAAATATATA-AA-TTAGTAAAAA
1 TAAAATATATATAATTTAGTAAAAA
50842088 AATATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 2 0.10
25 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
TAAAATATATATAATTTAGTAAAAA
Found at i:50842281 original size:19 final size:19
Alignment explanation
Indices: 50842245--50842292 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
50842235 GTTCTTTATT
* *
50842245 ATTTATTATTTATATTTTTA
1 ATTT-TTATATATATTTTAA
*
50842265 ATTTTTATATATTTTTTAA
1 ATTTTTATATATATTTTAA
*
50842284 AATTTTATA
1 ATTTTTATA
50842293 GGCTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTATATATATTTTAA
Found at i:50845750 original size:34 final size:32
Alignment explanation
Indices: 50845671--50845752 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 32
50845661 TTTTATGTAT
* * *
50845671 ATGTATGTAAAAATTATGTATTTAAAATATAG
1 ATGTATTTAAAAATTAAGTATTTAAAACATAG
* *
50845703 ATGTGTGTCTAAAAATTAAGTATTTAAAACACATGG
1 ATGTAT-T-TAAAAATTAAGTATTT-AAA-ACATAG
50845739 ATGTATTTAAAAAT
1 ATGTATTTAAAAAT
50845753 AAGACATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
32 5 0.12
34 22 0.55
35 4 0.10
36 9 0.22
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (32 bp):
ATGTATTTAAAAATTAAGTATTTAAAACATAG
Found at i:50847173 original size:31 final size:31
Alignment explanation
Indices: 50847138--50847197 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
50847128 TCAATTTGCC
50847138 TATAACAAAACACACATCC-ATATAAGTTCAT
1 TATAACAAAACACACA-CCAATATAAGTTCAT
50847169 TATAACAAAACACACACCAATATAAGTTC
1 TATAACAAAACACACACCAATATAAGTTC
50847198 GTAAGAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.23
Consensus pattern (31 bp):
TATAACAAAACACACACCAATATAAGTTCAT
Found at i:50847598 original size:67 final size:70
Alignment explanation
Indices: 50847515--50847647 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 70
50847505 ATACACAATA
* ** *
50847515 TAATGGTTTTGCCTTTTAAC-TTA-ATGA-GTAAACATTTATCAAAATAACGTAATTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
50847577 TAACT
66 TAACT
* * *
50847582 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAGCATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
50847647 T
66 T
50847648 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 19 0.34
68 3 0.05
69 2 0.04
70 32 0.57
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (70 bp):
TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAATTTTGCCTTT
TAACT
Found at i:50849029 original size:18 final size:19
Alignment explanation
Indices: 50848990--50849034 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
50848980 AACTTCTCAA
50848990 ATTCTATACCAGAACATGC
1 ATTCTATACCAGAACATGC
* *
50849009 ATTCTAT-CCATAACATTC
1 ATTCTATACCAGAACATGC
50849027 ATTC-ATAC
1 ATTCTATAC
50849035 AATTGCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (19 bp):
ATTCTATACCAGAACATGC
Found at i:50851511 original size:25 final size:25
Alignment explanation
Indices: 50851477--50851526 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
50851467 AATTACAACA
50851477 CTTAACTCAATTCATTCTTTGTTGT
1 CTTAACTCAATTCATTCTTTGTTGT
50851502 CTTAACTCAATTCATTCTTTGTTGT
1 CTTAACTCAATTCATTCTTTGTTGT
50851527 GTTTAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (25 bp):
CTTAACTCAATTCATTCTTTGTTGT
Found at i:50865573 original size:9 final size:10
Alignment explanation
Indices: 50865548--50865594 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
50865538 AGCCATTGTG
*
50865548 AAAATAAATTG
1 AAAA-AAATTC
50865559 AAAAAAA-TC
1 AAAAAAATTC
50865568 AAAAAAATTC
1 AAAAAAATTC
50865578 AAAAAAATTC
1 AAAAAAATTC
50865588 AAAAAAA
1 AAAAAAA
50865595 AAAGTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 8 0.24
10 22 0.65
11 4 0.12
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:50866757 original size:18 final size:18
Alignment explanation
Indices: 50866734--50866791 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
50866724 TGGAGAAATG
* *
50866734 AAAGAAAATGACATTGAA
1 AAAGAAAAAGAAATTGAA
**
50866752 AAAGAAAAAGAAATTTCA
1 AAAGAAAAAGAAATTGAA
*
50866770 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
50866788 AAAG
1 AAAG
50866792 TGAGTGAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.17, T:0.14
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:50866806 original size:17 final size:17
Alignment explanation
Indices: 50866786--50866877 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
50866776 AAGGAAATTG
*
50866786 AAAAAGTGAGTGAAAAA
1 AAAAAGAGAGTGAAAAA
*
50866803 AAAAAGAGATTGAAAAA
1 AAAAAGAGAGTGAAAAA
** * *
50866820 GAAATTGAAAGAGAAAAA
1 -AAAAAGAGAGTGAAAAA
* **
50866838 AAAAGAAAGAGTGGGAAA
1 AAAA-AGAGAGTGAAAAA
*
50866856 AGAAAGAGAGCCTGAAAAA
1 AAAAAGAGAG--TGAAAAA
50866875 AAA
1 AAA
50866878 TCAAGTGAAA
Statistics
Matches: 52, Mismatches: 19, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
17 23 0.44
18 22 0.42
19 7 0.13
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.09
Consensus pattern (17 bp):
AAAAAGAGAGTGAAAAA
Found at i:50868644 original size:20 final size:20
Alignment explanation
Indices: 50868588--50868635 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
50868578 TTTAGCTCGG
* *
50868588 TTCAACTCACATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
50868608 TTCAGCTCACATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
50868628 TTCAGCTC
1 TTCAGCTC
50868636 GTTTGAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:50872483 original size:17 final size:16
Alignment explanation
Indices: 50872448--50872479 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50872438 CCACATTAGC
50872448 AAAAATAAAATATTTT
1 AAAAATAAAATATTTT
*
50872464 AAAAATAGAATATTTT
1 AAAAATAAAATATTTT
50872480 TAAATAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATAAAATATTTT
Found at i:50898834 original size:22 final size:22
Alignment explanation
Indices: 50898806--50898878 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 22
50898796 TTGTGCCTAG
50898806 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
* *
50898828 CAGGCTTACTGCC-----TA-G
1 CAGGCTTAGTGCCGGTGTTATT
*
50898844 CAGGCTTAGTGCAGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
50898866 CAGGCTTAGTGCC
1 CAGGCTTAGTGCC
50898879 TAGCAGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
21 2 0.05
22 24 0.62
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (22 bp):
CAGGCTTAGTGCCGGTGTTATT
Found at i:50898841 original size:38 final size:38
Alignment explanation
Indices: 50898785--50898932 Score: 224
Period size: 38 Copynumber: 3.9 Consensus size: 38
50898775 AATCGTACTA
*
50898785 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
* *
50898823 TTATTCAGGCTTACTGCCTAGCAGGCTTAGTGCAGGTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
* **
50898861 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCACTG
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
* *
50898899 TTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCC
1 TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCC
50898933 TAGCAGGCTT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 99 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.34
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTG
Found at i:50898887 original size:16 final size:16
Alignment explanation
Indices: 50898866--50898984 Score: 94
Period size: 16 Copynumber: 6.7 Consensus size: 16
50898856 AGGTGTTATT
50898866 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
50898882 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTG-C-C---TA-G
*
50898904 CAGGCTTTGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
50898920 TAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
50898936 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCC-----TA-G
50898958 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
50898974 CAGGCTTAGTG
1 CAGGCTTAGTG
50898985 TCGGTGTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
16 48 0.58
17 5 0.06
18 1 0.01
20 1 0.01
21 5 0.06
22 23 0.28
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (16 bp):
CAGGCTTAGTGCCTAG
Found at i:50898910 original size:22 final size:21
Alignment explanation
Indices: 50898844--50898915 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
50898834 TACTGCCTAG
*
50898844 CAGGCTTAGTGCAGGTGTTATT
1 CAGGCTTAGTGCA-CTGTTATT
*
50898866 CAGGCTTAGTGC-C---TA-G
1 CAGGCTTAGTGCACTGTTATT
50898882 CAGGCTTAGTGTCACTGTTATT
1 CAGGCTTAGTG-CACTGTTATT
*
50898904 CAGGCTTTGTGC
1 CAGGCTTAGTGC
50898916 CTAGTAGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
16 11 0.28
17 3 0.08
18 1 0.03
21 3 0.08
22 22 0.55
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (21 bp):
CAGGCTTAGTGCACTGTTATT
Found at i:50898928 original size:54 final size:54
Alignment explanation
Indices: 50898866--50898984 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
50898856 AGGTGTTATT
* *
50898866 CAGGCTTAGTGCCTAGCAGGCTTAGTGTCACTGTTATTCAGGCTTTGTGCCTAG
1 CAGGCTTAGTGCCTAGCAGGCTTAGTGCCACTGTTATTCAGGCTTAGTGCCTAG
* **
50898920 TAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAGCAGGCTTAGTGCCACTGTTATTCAGGCTTAGTGCCTAG
50898974 CAGGCTTAGTG
1 CAGGCTTAGTG
50898985 TCGGTGTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (54 bp):
CAGGCTTAGTGCCTAGCAGGCTTAGTGCCACTGTTATTCAGGCTTAGTGCCTAG
Found at i:50898947 original size:92 final size:92
Alignment explanation
Indices: 50898829--50899015 Score: 329
Period size: 92 Copynumber: 2.0 Consensus size: 92
50898819 GGTGTTATTC
50898829 AGGCTTACTGCCTAGCAGGCTTAGTGCAGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGT
1 AGGCTTACTGCCTAGCAGGCTTAGTGCAGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGT
*
50898894 CACTGTTATTCAGGCTTTGTGCCTAGT
66 CACTGTTATTCAAGCTTTGTGCCTAGT
* *
50898921 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGT
1 AGGCTTACTGCCTAGCAGGCTTAGTGCAGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGT
**
50898986 CGGTGTTATTCAAGCTTTGTGCCTAGT
66 CACTGTTATTCAAGCTTTGTGCCTAGT
50899013 AGG
1 AGG
50899016 TTTTGTGTCA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (92 bp):
AGGCTTACTGCCTAGCAGGCTTAGTGCAGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGT
CACTGTTATTCAAGCTTTGTGCCTAGT
Found at i:50898963 original size:38 final size:38
Alignment explanation
Indices: 50898921--50899079 Score: 228
Period size: 38 Copynumber: 4.2 Consensus size: 38
50898911 TGTGCCTAGT
50898921 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
1 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
*
50898959 AGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTATTC
1 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
* * * * * * *
50898997 AAGCTTTGTGCCTAGTAGGTTTTGTGTCAGTGTTATTC
1 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
*
50899035 AGGCTTAGTGCCTAGCAGGCTTGGTGCCGGTGTTATTC
1 AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
*
50899073 AGACTTA
1 AGGCTTA
50899080 TTGCTGGTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.35
Consensus pattern (38 bp):
AGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTC
Found at i:50899024 original size:130 final size:130
Alignment explanation
Indices: 50898790--50899062 Score: 431
Period size: 130 Copynumber: 2.1 Consensus size: 130
50898780 TACTATTATT
*
50898790 CAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTACTGCCTAGCAGGCTTAGTG
1 CAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTACTGCCTAGCAGGCTTAGTG
* *
50898855 CAGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCACTGTTATTCAGGCTTTGTGCCTAG
66 CAGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTAGTGTCACTGTTATTCAGGCTTAGTGCCTAG
* *
50898920 TAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTG
1 CAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTACTGCCTAGCAGGCTTAGTG
* * * * *
50898985 TC-GGTGTTATTCAAGCTTTGTGCCTAGTAGGTTTTGTGTCAGTGTTATTCAGGCTTAGTGCCTA
66 -CAGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTAGTGTCACTGTTATTCAGGCTTAGTGCCTA
50899049 G
130 G
*
50899050 CAGGCTTGGTGCC
1 CAGGCTTAGTGCC
50899063 GGTGTTATTC
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
130 129 0.99
131 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (130 bp):
CAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTTATTCAGGCTTACTGCCTAGCAGGCTTAGTG
CAGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTAGTGTCACTGTTATTCAGGCTTAGTGCCTAG
Found at i:50899819 original size:12 final size:12
Alignment explanation
Indices: 50899802--50899832 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50899792 ACATGGGTAA
*
50899802 GGACACGGGCTG
1 GGACACAGGCTG
50899814 GGACACAGGCTG
1 GGACACAGGCTG
50899826 GGACACA
1 GGACACA
50899833 ACCATGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.42, T:0.06
Consensus pattern (12 bp):
GGACACAGGCTG
Found at i:50900018 original size:13 final size:13
Alignment explanation
Indices: 50900000--50900027 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50899990 CGATTTTGGG
50900000 ACAGTATGCATGT
1 ACAGTATGCATGT
50900013 ACAGTATGCATGT
1 ACAGTATGCATGT
50900026 AC
1 AC
50900028 TATGAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (13 bp):
ACAGTATGCATGT
Found at i:50905817 original size:43 final size:43
Alignment explanation
Indices: 50905769--50905916 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
50905759 TATCTGAGAT
* * * *
50905769 ATGGTCTTACATGTAATCTCGTATCGATGCCAATACCCCAGCC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATATCCCAGAC
* * *
50905812 ATGGTCTTACACGAAATCAT-ATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATC-TCATATCGATGCCAATATCCCAGAC
* * *
50905855 ATGGTCTTACATG-AAGTCTCATATCGATGCC-ATATCCCATAT
1 ATGGTCTTACACGTAA-TCTCATATCGATGCCAATATCCCAGAC
*
50905897 ATGGTCTTACACATAATCTC
1 ATGGTCTTACACGTAATCTC
50905917 GGTAACCCTA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.29
43 61 0.70
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATATCCCAGAC
Found at i:50907357 original size:26 final size:27
Alignment explanation
Indices: 50907306--50907357 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
50907296 TTACTTTTCT
*
50907306 TTATAACTGAAGTTGAATCCCTTTTGA
1 TTATAACTGAAGTTAAATCCCTTTTGA
* *
50907333 TTATAACTGATG-TAAATCCTTTTTG
1 TTATAACTGAAGTTAAATCCCTTTTG
50907358 TTTCCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (27 bp):
TTATAACTGAAGTTAAATCCCTTTTGA
Found at i:50913601 original size:17 final size:17
Alignment explanation
Indices: 50913590--50913621 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50913580 ATTTTAATGA
50913590 TTTTTAATTTTTAAAAT
1 TTTTTAATTTTTAAAAT
50913607 TTTTTAA-TTTTAAAA
1 TTTTTAATTTTTAAAA
50913622 AATTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAT
Found at i:50913622 original size:17 final size:17
Alignment explanation
Indices: 50913590--50913622 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50913580 ATTTTAATGA
*
50913590 TTTTTAATTTTTAAAAT
1 TTTTTAATTTTAAAAAT
50913607 TTTTTAATTTTAAAAA
1 TTTTTAATTTTAAAAA
50913623 ATTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATTTTAAAAAT
Found at i:50922559 original size:50 final size:48
Alignment explanation
Indices: 50922468--50922566 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 48
50922458 AAGAGTTTGC
** **
50922468 TCAGTTCAATAGCCTTTTGGATCTATTCTGACTGATGTGCTCAACTCTGT
1 TCAGTTCAATAGCCTTTCAGATCTATTCTGACTGAAATGCTC--CTCTGT
* *
50922518 TCAGTTCAATAGCCTTTCAGATCTATTTTGATTGAAATGCTCCTCTGT
1 TCAGTTCAATAGCCTTTCAGATCTATTCTGACTGAAATGCTCCTCTGT
50922566 T
1 T
50922567 TTGATTGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 7 0.16
50 36 0.84
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (48 bp):
TCAGTTCAATAGCCTTTCAGATCTATTCTGACTGAAATGCTCCTCTGT
Found at i:50937406 original size:21 final size:20
Alignment explanation
Indices: 50937382--50937422 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50937372 CTCTCAATCT
*
50937382 TTTTTTCGATTCTTTGCTTTG
1 TTTTTTCGATTCATTG-TTTG
*
50937403 TTTTTTCTATTCATTGTTTG
1 TTTTTTCGATTCATTGTTTG
50937423 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.07, C:0.12, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTTTCGATTCATTGTTTG
Found at i:50938168 original size:39 final size:38
Alignment explanation
Indices: 50938092--50938167 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 38
50938082 TCTATTTACC
*
50938092 TATATATATACACATGTGTTTATTATTTACTATTTTTAT
1 TATATATATACACATGTATTTATTATTTAC-ATTTTTAT
*
50938131 TATATATATACATATGTAATATATATTATTTA-ATTTT
1 TATATATATACACATGT-AT-T-TATTATTTACATTTT
50938168 AAACTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 16 0.50
40 6 0.19
41 1 0.03
42 9 0.28
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (38 bp):
TATATATATACACATGTATTTATTATTTACATTTTTAT
Found at i:50942781 original size:14 final size:14
Alignment explanation
Indices: 50942730--50942788 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
50942720 AATCAAAGTC
50942730 AAAAAAATGAAAAT
1 AAAAAAATGAAAAT
*
50942744 GAAAAAAAT--CAAT
1 -AAAAAAATGAAAAT
* *
50942757 --CAAAATCAAAAT
1 AAAAAAATGAAAAT
50942769 AAAAAAATGAAAAT
1 AAAAAAATGAAAAT
50942783 AAAAAA
1 AAAAAA
50942789 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
10 5 0.14
12 3 0.09
13 3 0.09
14 16 0.46
15 8 0.23
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAAAATGAAAAT
Found at i:50942801 original size:39 final size:40
Alignment explanation
Indices: 50942704--50942806 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 40
50942694 AAAAAAGAAG
*
50942704 AAAAAGAAAAAATTAAAATCAAAGTCAAAAAAATGAAAATGA
1 AAAAAGAAAAAA--AAAATCAAAATCAAAAAAATGAAAATGA
* **
50942746 AAAAA-ATCAATCAAAATCAAAAT-AAAAAAATGAAAAT-A
1 AAAAAGA-AAAAAAAAATCAAAATCAAAAAAATGAAAATGA
*
50942784 AAAAAGAAAAAGAAAAATAAAAA
1 AAAAAGAAAAA-AAAAATCAAAA
50942807 GGAGATGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
38 8 0.16
39 24 0.48
40 10 0.20
41 1 0.02
42 7 0.14
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.13
Consensus pattern (40 bp):
AAAAAGAAAAAAAAAATCAAAATCAAAAAAATGAAAATGA
Found at i:50943689 original size:7 final size:7
Alignment explanation
Indices: 50943674--50943706 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50943664 AAAAGGGAAA
50943674 AAAAGATG
1 AAAA-ATG
50943682 AAAAATG
1 AAAAATG
50943689 -AAAATG
1 AAAAATG
50943695 AAAAATG
1 AAAAATG
50943702 AAAAA
1 AAAAA
50943707 ATGGAGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 14 0.58
8 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:50943695 original size:13 final size:13
Alignment explanation
Indices: 50943679--50943705 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50943669 GGAAAAAAAG
50943679 ATGAAAAATGAAA
1 ATGAAAAATGAAA
50943692 ATGAAAAATGAAA
1 ATGAAAAATGAAA
50943705 A
1 A
50943706 AATGGAGAGG
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:50944772 original size:25 final size:25
Alignment explanation
Indices: 50944743--50944795 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
50944733 GTGTAACAAG
*
50944743 AAATTTTCATCAGAACTTAGTTACC
1 AAATTTTCATCAGAACTAAGTTACC
50944768 AAATTTTCATCAGAACTAAGTTACC
1 AAATTTTCATCAGAACTAAGTTACC
50944793 AAA
1 AAA
50944796 CTTAGGCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (25 bp):
AAATTTTCATCAGAACTAAGTTACC
Found at i:50948406 original size:20 final size:20
Alignment explanation
Indices: 50948383--50948422 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50948373 TAGTGAAAAA
* *
50948383 AGAGGCACGAATGTGCAATC
1 AGAGGCACCAAAGTGCAATC
50948403 AGAGGCACCAAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
50948423 CCAAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAATC
Found at i:50949123 original size:15 final size:15
Alignment explanation
Indices: 50949103--50949132 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50949093 AACTTTACAT
50949103 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
50949118 AGTTTCATATTAGCC
1 AGTTTCATATTAGCC
50949133 CCTAAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTTCATATTAGCC
Found at i:50949933 original size:44 final size:44
Alignment explanation
Indices: 50949870--50949958 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
50949860 TAAAGTCTGT
50949870 AATACAATTTTCAAGTATTGAGCATGCTTGAACTCTTCTTTGGA
1 AATACAATTTTCAAGTATTGAGCATGCTTGAACTCTTCTTTGGA
50949914 AATACAATTTTCAAGTATTGAGCATGCTTGAACTCTTCTTTGGA
1 AATACAATTTTCAAGTATTGAGCATGCTTGAACTCTTCTTTGGA
50949958 A
1 A
50949959 TATATCAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (44 bp):
AATACAATTTTCAAGTATTGAGCATGCTTGAACTCTTCTTTGGA
Found at i:50955756 original size:44 final size:44
Alignment explanation
Indices: 50955693--50955789 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
50955683 TTATATGCGG
* * *
50955693 ACTCATAAAATAAAATTCATGGATACAATGGCTCATACATGTGA
1 ACTCATAAAAGAAAATTCATAGATACAATGACTCATACATGTGA
* * ** *
50955737 ACTCATAGAAGAAGATTCATAGATTTAATGACTTATACATGTGA
1 ACTCATAAAAGAAAATTCATAGATACAATGACTCATACATGTGA
**
50955781 GTTCATAAA
1 ACTCATAAA
50955790 TAAATCATAT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (44 bp):
ACTCATAAAAGAAAATTCATAGATACAATGACTCATACATGTGA
Found at i:50970760 original size:25 final size:25
Alignment explanation
Indices: 50970722--50970774 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
50970712 AACCGATGGC
* *
50970722 TGGACTGGACTGATTGAGCCGTCAT
1 TGGACTGGACTGATCGAGCCATCAT
* *
50970747 TGGACTGGATTGATCGAGTCATCAT
1 TGGACTGGACTGATCGAGCCATCAT
50970772 TGG
1 TGG
50970775 CCCAAGCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (25 bp):
TGGACTGGACTGATCGAGCCATCAT
Found at i:50982664 original size:24 final size:25
Alignment explanation
Indices: 50982637--50982692 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
50982627 TGTATTACAT
*
50982637 GTTATTTTATAT-ATTTAATTTTTA
1 GTTATTTTATATAATGTAATTTTTA
* * *
50982661 GTTAATTTATATAATGTATTTTTTT
1 GTTATTTTATATAATGTAATTTTTA
50982686 GTTATTT
1 GTTATTT
50982693 ATTATTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (25 bp):
GTTATTTTATATAATGTAATTTTTA
Found at i:50982683 original size:25 final size:24
Alignment explanation
Indices: 50982637--50982701 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
50982627 TGTATTACAT
* *
50982637 GTTATTTTATATATTTAATTTTTA
1 GTTAATTTATATATGTAATTTTTA
* *
50982661 GTTAATTTATATAATGTATTTTTTT
1 GTTAATTTATAT-ATGTAATTTTTA
50982686 GTT-ATTTAT-TAT-TAAT
1 GTTAATTTATATATGTAAT
50982702 AATGATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 1 0.03
24 17 0.49
25 12 0.34
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
GTTAATTTATATATGTAATTTTTA
Found at i:50982730 original size:29 final size:29
Alignment explanation
Indices: 50982671--50982733 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
50982661 GTTAATTTAT
* * *
50982671 ATAATGTATTTTTTTGTTATTTATTATTA
1 ATAATGTATTTTTTTCTTAATTATTAATA
*
50982700 ATAATG-ATTTTTTTCTTAATTCTT-A-A
1 ATAATGTATTTTTTTCTTAATTATTAATA
50982726 ATAATGTA
1 ATAATGTA
50982734 CAAAATTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 1 0.03
28 15 0.52
29 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (29 bp):
ATAATGTATTTTTTTCTTAATTATTAATA
Found at i:50983415 original size:18 final size:17
Alignment explanation
Indices: 50983392--50983425 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50983382 TAAATTTATT
50983392 TTTTAAAAATTATTAAAG
1 TTTTAAAAATT-TTAAAG
*
50983410 TTTTAATAATTTTAAA
1 TTTTAAAAATTTTAAA
50983426 TATAATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTAAAAATTTTAAAG
Found at i:50993185 original size:34 final size:34
Alignment explanation
Indices: 50993136--50993200 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
50993126 TCTCTAACTT
50993136 GGGTCACACAGCCAAGTCACACGCCCGTGTGTAG
1 GGGTCACACAGCCAAGTCACACGCCCGTGTGTAG
*
50993170 GGGTCACAC-GACCAAGTCACACGTCCGTGTG
1 GGGTCACACAG-CCAAGTCACACGCCCGTGTG
50993201 CCATGACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.15
Consensus pattern (34 bp):
GGGTCACACAGCCAAGTCACACGCCCGTGTGTAG
Found at i:50994220 original size:27 final size:27
Alignment explanation
Indices: 50994190--50994247 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
50994180 ACATAATCGA
50994190 GAAGCTCTCACT-TGAGCCATATAACGG
1 GAAGCTCTCA-TATGAGCCATATAACGG
* *
50994217 GAAG--CTCATATGAGCCATGTAATGG
1 GAAGCTCTCATATGAGCCATATAACGG
50994242 GAAGCT
1 GAAGCT
50994248 TATCTGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
27 4 0.15
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (27 bp):
GAAGCTCTCATATGAGCCATATAACGG
Found at i:50994230 original size:25 final size:25
Alignment explanation
Indices: 50994202--50994321 Score: 82
Period size: 25 Copynumber: 4.9 Consensus size: 25
50994192 AGCTCTCACT
50994202 TGAGCCATATAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* * * *
50994227 TGAGCCATGTAATGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATA
* ** **
50994252 TGGGCTGTATAATAGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* * * * *
50994277 AGAGCCATAT-TCAGGAAGCTTATG
1 TGAGCCATATAACGGGAAGCTCATA
* *
50994301 CGAGCCA-ATAACGGGTAGCTC
1 TGAGCCATATAACGGGAAGCTC
50994322 CAAAGAGCCA
Statistics
Matches: 70, Mismatches: 24, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 2 0.03
24 23 0.33
25 45 0.64
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATA
Found at i:50997514 original size:16 final size:16
Alignment explanation
Indices: 50997493--50997528 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50997483 TTTGGTTCGC
50997493 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50997509 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50997525 TGTA
1 TGTA
50997529 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50997785 original size:18 final size:17
Alignment explanation
Indices: 50997764--50997798 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50997754 TTATTATTAA
*
50997764 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50997782 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50997799 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50997935 original size:156 final size:157
Alignment explanation
Indices: 50997651--50997966 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
50997641 TAGAATACCC
*
50997651 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
50997716 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
50997781 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
50997807 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
50997872 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
50997937 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
50997964 TTA
1 TTA
50997967 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 146 0.95
157 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:50997937 original size:16 final size:16
Alignment explanation
Indices: 50997900--50997941 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50997890 TTAATCATAT
*
50997900 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50997916 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50997931 TTAAAATATAT
1 TTAAAATATAT
50997942 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50997948 original size:14 final size:15
Alignment explanation
Indices: 50997909--50997950 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50997899 TTTAAACATA
*
50997909 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50997924 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50997938 A-TATAATTTAATA
1 ATTATAATTAAATA
50997951 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50998037 original size:120 final size:121
Alignment explanation
Indices: 50997898--50998195 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
50997888 ATTTAATCAT
*
50997898 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
50997963 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAC-AGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTA-TAAAAGA-AA
50998020 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
50998083 ATTAATATTCTTATATGAATTTACTCAAATCATATTATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
50998139 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
50998196 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 3 0.02
120 159 0.95
121 5 0.03
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:50998068 original size:14 final size:15
Alignment explanation
Indices: 50998019--50998070 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50998009 GTAAAATATA
50998019 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50998034 TATTAAATATATTAT
1 AATTAAATATATTAT
50998049 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
50998062 AATTTAATA
1 AATTAAATA
50998071 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:51000627 original size:6 final size:6
Alignment explanation
Indices: 51000616--51000656 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
51000606 TTGATGTTGG
*
51000616 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA AAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
51000657 TGGGGTAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:51001216 original size:12 final size:12
Alignment explanation
Indices: 51001201--51001225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51001191 TCATAGCCAC
51001201 GACCATAATTGT
1 GACCATAATTGT
51001213 GACCATAATTGT
1 GACCATAATTGT
51001225 G
1 G
51001226 GACGTGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GACCATAATTGT
Found at i:51003303 original size:27 final size:27
Alignment explanation
Indices: 51003273--51003342 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
51003263 GTCCCATCAA
*
51003273 ACTACCTCATGTTTAACATCCTT-TCGG
1 ACTACCTCATGTTTAACAT-CTTGTCAG
*
51003300 ACTAGCCT-ATTTTTAACATCTTGTCAG
1 ACTA-CCTCATGTTTAACATCTTGTCAG
* *
51003327 ACTACCCCGTGTTTAA
1 ACTACCTCATGTTTAA
51003343 TGTCTCATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.14
27 27 0.77
28 3 0.09
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (27 bp):
ACTACCTCATGTTTAACATCTTGTCAG
Found at i:51006145 original size:25 final size:25
Alignment explanation
Indices: 51006081--51006151 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 25
51006071 GCGGAGACAC
*
51006081 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTATGAGCTTACCGATT
*
51006106 -TCAGCTCGTGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
51006130 CACAGCTCGTATGAGCTTACCG
1 CACAGCTCGTATGAGCTTACCG
51006152 TTATTCAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:51006160 original size:25 final size:24
Alignment explanation
Indices: 51006083--51006162 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 24
51006073 GGAGACACCA
*
51006083 CAGCTCGTATGAGCTTACTG-ATTT
1 CAGCTCGTATGAGCTTACCGTA-TT
51006107 CAGCTCGTGA-GAGCTTACCG-ATT
1 CAGCTCGT-ATGAGCTTACCGTATT
51006130 CACAGCTCGTATGAGCTTACCGTTATT
1 --CAGCTCGTATGAGCTTACCG-TATT
51006157 CAGCTC
1 CAGCTC
51006163 AGAAGAGCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
23 2 0.04
24 19 0.39
25 25 0.51
27 3 0.06
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGTATT
Found at i:51013866 original size:25 final size:26
Alignment explanation
Indices: 51013798--51013872 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 26
51013788 GCGGAGACAC
**
51013798 CACAGCTTGTATGAGCTTACCGATTT
1 CACAGCTCATATGAGCTTACCGATTT
* *
51013824 TAGCTCGCTCATGA-GAGCTTACCGA-TT
1 CA-C-AGCTCAT-ATGAGCTTACCGATTT
51013851 CACAGCTCATATGAGCTTACCG
1 CACAGCTCATATGAGCTTACCG
51013873 TTATTCAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
24 1 0.03
25 16 0.41
26 2 0.05
27 4 0.10
28 15 0.38
29 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (26 bp):
CACAGCTCATATGAGCTTACCGATTT
Found at i:51017358 original size:12 final size:12
Alignment explanation
Indices: 51017341--51017368 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51017331 TCACACGCTT
51017341 GTGTGCTAGGCC
1 GTGTGCTAGGCC
51017353 GTGTGCTAGGCC
1 GTGTGCTAGGCC
51017365 GTGT
1 GTGT
51017369 AACTGCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:51019154 original size:15 final size:16
Alignment explanation
Indices: 51019127--51019156 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51019117 TAGAACTCTA
51019127 ATTTAGCTCATTTTTT
1 ATTTAGCTCATTTTTT
51019143 ATTTAG-TCATTTTT
1 ATTTAGCTCATTTTT
51019157 ATCGATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTTAGCTCATTTTTT
Found at i:51022077 original size:21 final size:21
Alignment explanation
Indices: 51022029--51022077 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
51022019 GGTTGGAAGC
*
51022029 CATCGAAAGGATTATGAACGA
1 CATCGACAGGATTATGAACGA
51022050 CATCGACAGGATTATGAACGA
1 CATCGACAGGATTATGAACGA
51022071 CATCGAC
1 CATCGAC
51022078 TGCACTCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
CATCGACAGGATTATGAACGA
Found at i:51032550 original size:8 final size:8
Alignment explanation
Indices: 51032537--51032575 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
51032527 GAATTTCAAG
51032537 TTATTTCA
1 TTATTTCA
51032545 TTATTTCA
1 TTATTTCA
51032553 GTATATTTCA
1 -T-TATTTCA
51032563 TTATTTCA
1 TTATTTCA
51032571 -TATTT
1 TTATTT
51032576 ATGAGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 15 0.52
9 2 0.07
10 7 0.24
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (8 bp):
TTATTTCA
Found at i:51032552 original size:18 final size:19
Alignment explanation
Indices: 51032529--51032570 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
51032519 AGATTATTGA
51032529 ATTTCAAGT-TATTTCATT
1 ATTTCAAGTATATTTCATT
51032547 ATTTC-AGTATATTTCATT
1 ATTTCAAGTATATTTCATT
51032565 ATTTCA
1 ATTTCA
51032571 TATTTATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTCAAGTATATTTCATT
Found at i:51035067 original size:22 final size:21
Alignment explanation
Indices: 51035034--51035079 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
51035024 TAAAAATGTT
*
51035034 TATAATATGAAAATGTATATA
1 TATAATATGAAAATGAATATA
* *
51035055 TATACTATAGAAAATGAATGTA
1 TATAATAT-GAAAATGAATATA
51035077 TAT
1 TAT
51035080 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (21 bp):
TATAATATGAAAATGAATATA
Found at i:51035406 original size:25 final size:23
Alignment explanation
Indices: 51035378--51035424 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
51035368 AAATATAAAA
51035378 ATAATAATAAATGATAATAAATAAT
1 ATAATAAT-AATGATAA-AAATAAT
51035403 ATAATAATAATGATAAAAATAA
1 ATAATAATAATGATAAAAATAA
51035425 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATAATAATGATAAAAATAAT
Found at i:51036011 original size:16 final size:16
Alignment explanation
Indices: 51035975--51036016 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
51035965 ATTTCAAACG
51035975 AAAAATAAATAAAAAT
1 AAAAATAAATAAAAAT
*
51035991 GAAAATGAAA-AAAAAT
1 AAAAAT-AAATAAAAAT
*
51036007 AAAAAAAAAT
1 AAAAATAAAT
51036017 GACAAAACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAAATAAATAAAAAT
Found at i:51039759 original size:47 final size:47
Alignment explanation
Indices: 51039702--51039792 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
51039692 TTCCAATTGT
*
51039702 CTTTAATGATAGTACTAACTTATAAAAGGTTAACAAAAAATTTAGGG
1 CTTTAATGATAGTACTAACATATAAAAGGTTAACAAAAAATTTAGGG
* **
51039749 CTTTAGTGATAGTACTAACATATAAAAGGTTAACCGAAAATTTA
1 CTTTAATGATAGTACTAACATATAAAAGGTTAACAAAAAATTTA
51039793 AGGACATAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (47 bp):
CTTTAATGATAGTACTAACATATAAAAGGTTAACAAAAAATTTAGGG
Found at i:51041774 original size:31 final size:29
Alignment explanation
Indices: 51041731--51041818 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 29
51041721 TGAAATAGTT
51041731 TAAATTTTAAATTAGCTTAAAATTTATTATC
1 TAAATTTTAAATTAG-TTAAAA-TTATTATC
* *
51041762 TAAAATTTAAATT--TTAAACTTATTATC
1 TAAATTTTAAATTAGTTAAAATTATTATC
51041789 TAAATTTTAAATTAGTTTCAAAATTATTAT
1 TAAATTTTAAATTAG-TT-AAAATTATTAT
51041819 TGATTAACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 20 0.41
28 5 0.10
30 2 0.04
31 22 0.45
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (29 bp):
TAAATTTTAAATTAGTTAAAATTATTATC
Found at i:51041846 original size:14 final size:15
Alignment explanation
Indices: 51041827--51041865 Score: 62
Period size: 14 Copynumber: 2.6 Consensus size: 15
51041817 ATTGATTAAC
51041827 TAAATTTTAAAG-TT
1 TAAATTTTAAAGATT
51041841 TAAATTTTAAAGAATT
1 TAAATTTTAAAG-ATT
51041857 TAAATTTTA
1 TAAATTTTA
51041866 TTATCTACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TAAATTTTAAAGATT
Found at i:51044151 original size:260 final size:260
Alignment explanation
Indices: 51043690--51044212 Score: 983
Period size: 260 Copynumber: 2.0 Consensus size: 260
51043680 CGGCCATGTG
51043690 AAAGACTGTGTCACAGGTTATATGTGCCCAAAAACACCTTTAAATACAAACCATCTCACACACTA
1 AAAGACTGTGTCACAGGTTATATGTGCCCAAAAACACCTTTAAATACAAACCATCTCACACACTA
* *
51043755 AAACTTAGGCTGCAAGCTATGCTTTAACCAACATTGAAACCTATTAAAAATGTGTCAAAACATGC
66 AAACTTAGGCTCCAAGCTATGCTTTAACCAACATTGAAACCTATTAAAAATGTGCCAAAACATGC
*
51043820 AAAAACATACCAATTCACAGTCAACCTATGTGCCTAACCAATATTCTCTAATTGGAACCACAATT
131 AAAAACATACCAATTCACAATCAACCTATGTGCCTAACCAATATTCTCTAATTGGAACCACAATT
51043885 TAAACATAAACAACAACTATCCAAAGTAAAATAAACTCAACATGTCAACCTTATTCAATCATCAA
196 TAAACATAAACAACAACTATCCAAAGTAAAATAAACTCAACATGTCAACCTTATTCAATCATCAA
*
51043950 AAAGACTGTGTCACAGGTTATATGTGCCCAAAAACACCTTTAAATTCAAACCATCTCACACACTA
1 AAAGACTGTGTCACAGGTTATATGTGCCCAAAAACACCTTTAAATACAAACCATCTCACACACTA
*
51044015 AAACTTAGGCTCCAAGCTATGCTTTAACCAACATTGAAATCTATTAAAAATGTGCCAAAACATGC
66 AAACTTAGGCTCCAAGCTATGCTTTAACCAACATTGAAACCTATTAAAAATGTGCCAAAACATGC
51044080 AAAAACATACCAATTCACAATCAACCTATGTGCCTAACCAATATTCTCTAATTGGAACCACAATT
131 AAAAACATACCAATTCACAATCAACCTATGTGCCTAACCAATATTCTCTAATTGGAACCACAATT
* *
51044145 TAAACATAAACAACAACTATCCAAAGTAAAATAAACTTAACATGTCAGCCTTATTCAATCATCAA
196 TAAACATAAACAACAACTATCCAAAGTAAAATAAACTCAACATGTCAACCTTATTCAATCATCAA
51044210 AAA
1 AAA
51044213 ATTCACAAAT
Statistics
Matches: 256, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
260 256 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.25
Consensus pattern (260 bp):
AAAGACTGTGTCACAGGTTATATGTGCCCAAAAACACCTTTAAATACAAACCATCTCACACACTA
AAACTTAGGCTCCAAGCTATGCTTTAACCAACATTGAAACCTATTAAAAATGTGCCAAAACATGC
AAAAACATACCAATTCACAATCAACCTATGTGCCTAACCAATATTCTCTAATTGGAACCACAATT
TAAACATAAACAACAACTATCCAAAGTAAAATAAACTCAACATGTCAACCTTATTCAATCATCAA
Found at i:51047290 original size:24 final size:25
Alignment explanation
Indices: 51047233--51047290 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
51047223 ATACTCAGTC
51047233 CGTATGAGCTTACCGTTATTCAGCT
1 CGTATGAGCTTACCGTTATTCAGCT
* * *
51047258 CGGAGGAGCTTACCATT-TAT-AGCT
1 CGTATGAGCTTACCGTTAT-TCAGCT
51047282 CGTATGAGC
1 CGTATGAGC
51047291 ATACATGTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
CGTATGAGCTTACCGTTATTCAGCT
Found at i:51050435 original size:23 final size:23
Alignment explanation
Indices: 51050409--51050461 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
51050399 TCAGTCATCC
51050409 CTACACACCATATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
51050432 CTACACACCATATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
*
51050455 CGACACA
1 CTACACA
51050462 TATCAGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.30
Consensus pattern (23 bp):
CTACACACCATATTGTGTCATTA
Found at i:51058762 original size:26 final size:27
Alignment explanation
Indices: 51058705--51058761 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
51058695 ACTCTATTTT
**
51058705 TTTTATAAAATTTTAATTTTTTTTATA
1 TTTTATAAAATTTTAATTAATTTTATA
51058732 TTTTATAAAATTTT-ATTAATTTTATCA
1 TTTTATAAAATTTTAATTAATTTTAT-A
51058759 TTT
1 TTT
51058762 AAATTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTATAAAATTTTAATTAATTTTATA
Found at i:51058896 original size:28 final size:28
Alignment explanation
Indices: 51058849--51058925 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
51058839 AAAAATTTTA
* * *
51058849 TAATAATTTAATATTATATTTCATA-TTT
1 TAATAATTT-TTATAATATTTAATAGTTT
51058877 TCAA-AATATTTTATAATATTTAATAGTTT
1 T-AATAAT-TTTTATAATATTTAATAGTTT
*
51058906 TAATAGTTTTTATAATATTT
1 TAATAATTTTTATAATATTT
51058926 TTGATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 31 0.76
29 10 0.24
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (28 bp):
TAATAATTTTTATAATATTTAATAGTTT
Found at i:51058922 original size:21 final size:20
Alignment explanation
Indices: 51058897--51058937 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51058887 TTATAATATT
51058897 TAATAGTTTTAATAGTTTTTA
1 TAATAGTTTTAATA-TTTTTA
* *
51058918 TAATATTTTTGATATTTTTA
1 TAATAGTTTTAATATTTTTA
51058938 AATCTTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TAATAGTTTTAATATTTTTA
Found at i:51061730 original size:93 final size:93
Alignment explanation
Indices: 51061563--51061739 Score: 248
Period size: 93 Copynumber: 1.9 Consensus size: 93
51061553 ATGGTATTTA
* * *
51061563 TTGACCAAGATAGCTTTTCTTGTAAAGGTTCATGGACACTGAACTTAAACATCGACTCTTCTAGC
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGAAACTGAACTTAAACATCGACTCTTCTAGC
*
51061628 GGTTCTTTATTATGCATGTATGTGATTG
66 GGTTCTTTATGATGCATGTATGTGATTG
* * * * * *
51061656 TTGACGAAGATAGCTTTTCTTGTAGAGGCTCATAGAAACTGGACTTAAATATTGACTCTTCTAGT
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGAAACTGAACTTAAACATCGACTCTTCTAGC
51061721 GG-TCATTTATGATGCATGT
66 GGTTC-TTTATGATGCATGT
51061740 GTTGCGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (93 bp):
TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGAAACTGAACTTAAACATCGACTCTTCTAGC
GGTTCTTTATGATGCATGTATGTGATTG
Found at i:51070800 original size:51 final size:51
Alignment explanation
Indices: 51070719--51070831 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 51
51070709 CGGATCACAT
* *
51070719 TTATCTCTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
* * * *
51070770 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGTTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
51070821 TTATCACTTGT
1 TTATCACTTGT
51070832 TACTGATCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
Found at i:51075326 original size:14 final size:15
Alignment explanation
Indices: 51075307--51075342 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
51075297 TCTATTATCC
51075307 TTAAAAT-AAATACA
1 TTAAAATAAAATACA
*
51075321 TTAAAATAAAATTCA
1 TTAAAATAAAATACA
51075336 TTAAAAT
1 TTAAAAT
51075343 TTTTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAATAAAATACA
Found at i:51078926 original size:16 final size:16
Alignment explanation
Indices: 51078901--51078951 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
51078891 TTTAGATTTG
51078901 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
51078917 AAACTGTAGACTGTGA
1 AAACTATAGACTGTGA
* * *
51078933 AAAATCTAGATTGTGA
1 AAACTATAGACTGTGA
51078949 AAA
1 AAA
51078952 TGATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:51083620 original size:22 final size:22
Alignment explanation
Indices: 51083581--51083623 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
51083571 TTCCATTAGT
51083581 GTAATTTTTAAAGTTAGGTAAGG
1 GTAATTTTTAAAG-TAGGTAAGG
51083604 GTAATTTTGTAAA-TAGGTAA
1 GTAATTTT-TAAAGTAGGTAA
51083624 TTAAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (22 bp):
GTAATTTTTAAAGTAGGTAAGG
Found at i:51084551 original size:25 final size:25
Alignment explanation
Indices: 51084506--51084609 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 25
51084496 GTCATTAGGG
* **
51084506 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCAGATGAGC
51084530 TTACCGATACTCAGCTC-GTATGAGC
1 TTACCGATACTCAGCTCAG-ATGAGC
* * *
51084555 TTACCGTTATTCAGCTCAGAGGAGC
1 TTACCGATACTCAGCTCAGATGAGC
* * *
51084580 TTACCGTTATTCAGCTCAGAAGAGC
1 TTACCGATACTCAGCTCAGATGAGC
51084605 TTACC
1 TTACC
51084610 ATTTATAGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
24 9 0.13
25 61 0.86
26 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (25 bp):
TTACCGATACTCAGCTCAGATGAGC
Found at i:51085799 original size:21 final size:21
Alignment explanation
Indices: 51085774--51085813 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51085764 TATAAGTAGC
51085774 CTTGTAATGGTTGATATATGA
1 CTTGTAATGGTTGATATATGA
*
51085795 CTTGTTATGGTTGATATAT
1 CTTGTAATGGTTGATATAT
51085814 TAGAAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (21 bp):
CTTGTAATGGTTGATATATGA
Found at i:51092141 original size:50 final size:49
Alignment explanation
Indices: 51092021--51092153 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 49
51092011 TACGTAGCAG
* *
51092021 TTTATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTTTCGTGGCAA
1 TTTATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTATCATGGCAA
* * * *
51092070 TATATATATGCATA-T-GTGGTGGCGTGTCCACTAAGTGTTATCAATGGCAA
1 T-T-TATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTATC-ATGGCAA
* *
51092120 TTTATCTACAAATTAGTGGTGGCTTGTCCACAAA
1 TTTATCTGCAAATTAGTGGTGGCCTGTCCACAAA
51092154 TGGTGTTTCG
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
48 7 0.10
49 27 0.40
50 26 0.38
51 8 0.12
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (49 bp):
TTTATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTATCATGGCAA
Found at i:51103154 original size:27 final size:28
Alignment explanation
Indices: 51103124--51103189 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
51103114 AGAGCATCTT
* *
51103124 GCACTTTGA-CACTTGTGGAGACAACTC
1 GCACTTTCACCACTTGTAGAGACAACTC
*
51103151 GCAC-TTCACCACTTGTAGAGACAGCTC
1 GCACTTTCACCACTTGTAGAGACAACTC
*
51103178 ACAC-TTCACCAC
1 GCACTTTCACCAC
51103190 GAGCTGCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (28 bp):
GCACTTTCACCACTTGTAGAGACAACTC
Found at i:51105421 original size:22 final size:21
Alignment explanation
Indices: 51105377--51105426 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
51105367 TTGGTCATTC
*
51105377 AATTATTAATTTTTTCAATTT
1 AATTATTAATTTTTTCAAATT
51105398 AATTACTTAA-TTTTTCGAAATT
1 AATTA-TTAATTTTTTC-AAATT
51105420 AATTATT
1 AATTATT
51105427 TGAGTCACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTATTAATTTTTTCAAATT
Found at i:51108630 original size:30 final size:30
Alignment explanation
Indices: 51108570--51108640 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
51108560 AGATCATATC
* * * *
51108570 TTTATAATTTTTAAAGGGTTAAATCAAATT
1 TTTATTATTTTTAAAAGCTAAAATCAAATT
51108600 TTTATTATTTTTAAAAGCTAAAAT-ATAATT
1 TTTATTATTTTTAAAAGCTAAAATCA-AATT
51108630 TTATCATTATT
1 TT-T-ATTATT
51108641 AAATTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 26 0.76
31 1 0.03
32 6 0.18
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTATTATTTTTAAAAGCTAAAATCAAATT
Found at i:51113419 original size:38 final size:38
Alignment explanation
Indices: 51113366--51113456 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
51113356 GGTTATTACG
* *
51113366 AAGGACCAGTTGATAACCGTCAACACGGTGTCGCCCCA
1 AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
* ** * *
51113404 AAGGACCAGTGGATAATTGTCAACATGGTGTCACCTCA
1 AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
51113442 AAGGACCAGTAGATA
1 AAGGACCAGTAGATA
51113457 TTCATTTCGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (38 bp):
AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
Found at i:51115296 original size:30 final size:30
Alignment explanation
Indices: 51115262--51115324 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
51115252 ACTTATTTTA
51115262 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
51115292 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
51115322 TTG
1 TTG
51115325 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:51115462 original size:11 final size:11
Alignment explanation
Indices: 51115446--51115476 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51115436 TATATATATT
51115446 TAAAAATTATA
1 TAAAAATTATA
*
51115457 TAAAAATAATA
1 TAAAAATTATA
51115468 TAAAAATTA
1 TAAAAATTA
51115477 ATGCGAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:51118981 original size:94 final size:94
Alignment explanation
Indices: 51118820--51119256 Score: 360
Period size: 95 Copynumber: 4.6 Consensus size: 94
51118810 TTTTAGCCTT
* * * * * *
51118820 ACAAAGTTATAAAGCTGACACCTCGAGAGGAAAATGCTCGTTAAGTTTACTAGAAGAATCGTTTC
1 ACAAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTC
*
51118885 TAGCCTTTTAAGGTACTTAGCTAAATTGA
66 TAGCCTTTTAAGGCACTTAGCTAAATTGA
* * *
51118914 ACAAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTC
1 ACAAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTC
* **
51118979 TAGCCTCTTAAGGCACTTAGCTAAATTTT
66 TAGCCTTTTAAGGCACTTAGCTAAATTGA
* * * * * *
51119008 ACAAAGTTACAAAACAAACACCCCAAATAGGAAGTTGCTCGATAAGTTTAATAGAAGAATCGCTT
1 ACAAAGTTATAAAGCAGACACCTC-AAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTT
* * * *
51119073 CTAGCATTTTAATGCACTTAGGCAAAATTTA
65 CTAGCCTTTTAAGGCACTTA-GCTAAATTGA
* ** * * * * * * * * *
51119104 A-TATTTTCA-AAAGCCGACACCCCAAAGAGAAAACTACTTGCTAAGTTTAATAGAAGAAACACT
1 ACAAAGTT-ATAAAGCAGACACCTC-AAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCT
* ** * * *
51119167 TCTAGCCTCTTAAAACATTTAGCCAAAATTCA
64 TCTAGCCTTTTAAGGCACTTAG-CTAAATTGA
* * * * * *
51119199 ATATAA--TCTAAAGCTGACACCTCAAAGAGGAAACTGTTTGATAAGTTTAATAGAAGAA
1 ACA-AAGTTATAAAGCAGACACCTC-AAGAGGAAATTGCTCGATAAGTTTAATAGAAGAA
51119257 CCACTTCAAC
Statistics
Matches: 280, Mismatches: 56, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
94 103 0.37
95 166 0.59
96 10 0.04
97 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (94 bp):
ACAAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTC
TAGCCTTTTAAGGCACTTAGCTAAATTGA
Found at i:51119681 original size:9 final size:9
Alignment explanation
Indices: 51119661--51119718 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
51119651 GTAGTGATTC
*
51119661 AATTTGGTT
1 AATTCGGTT
*
51119670 AATTCGGGT
1 AATTCGGTT
51119679 AATTCGGTT
1 AATTCGGTT
*
51119688 AATTCGGGT
1 AATTCGGTT
51119697 AATTCGGTT
1 AATTCGGTT
51119706 AATTCGGTT
1 AATTCGGTT
51119715 AATT
1 AATT
51119719 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:51119687 original size:18 final size:18
Alignment explanation
Indices: 51119661--51119718 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
51119651 GTAGTGATTC
*
51119661 AATTTGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
51119679 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
51119697 AATTCGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
51119715 AATT
1 AATT
51119719 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:51121172 original size:41 final size:40
Alignment explanation
Indices: 51121127--51121235 Score: 150
Period size: 40 Copynumber: 2.7 Consensus size: 40
51121117 ACCAGAGTGT
51121127 AAACAAGGGAATGTATGTGCAATTCAGGGGTACCGAAGTAC
1 AAACAAGGGAA-GTATGTGCAATTCAGGGGTACCGAAGTAC
*
51121168 AAACAGGGGCAAGTATGTGCAA-TCAGGGGTACCGAAGTAC
1 AAACAAGGG-AAGTATGTGCAATTCAGGGGTACCGAAGTAC
* *
51121208 AAACATGGCACA-TATGTGCAATTCAGGG
1 AAACAAGGGA-AGTATGTGCAATTCAGGG
51121236 AATAATTAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 10 0.16
40 32 0.52
41 18 0.29
42 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (40 bp):
AAACAAGGGAAGTATGTGCAATTCAGGGGTACCGAAGTAC
Found at i:51121174 original size:20 final size:20
Alignment explanation
Indices: 51121151--51121212 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
51121141 ATGTGCAATT
51121151 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
51121171 CAGGGGCA-AGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
51121191 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
51121211 CA
1 CA
51121213 TGGCACATAT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.31, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:51121205 original size:40 final size:41
Alignment explanation
Indices: 51121139--51121235 Score: 155
Period size: 40 Copynumber: 2.4 Consensus size: 41
51121129 ACAAGGGAAT
51121139 GTATGTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCA-A
1 GTATGTGCAATTCAGGGGTACCGAAGTACAAACA-GGGCACA
*
51121180 GTATGTGCAA-TCAGGGGTACCGAAGTACAAACATGGCACA
1 GTATGTGCAATTCAGGGGTACCGAAGTACAAACAGGGCACA
51121220 -TATGTGCAATTCAGGG
1 GTATGTGCAATTCAGGG
51121236 AATAATTAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
39 13 0.25
40 30 0.57
41 10 0.19
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.20
Consensus pattern (41 bp):
GTATGTGCAATTCAGGGGTACCGAAGTACAAACAGGGCACA
Found at i:51123473 original size:32 final size:33
Alignment explanation
Indices: 51123427--51123488 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
51123417 TCATGTTATC
*
51123427 TAAATTTTATTATTTTTATATATATATTTGAAA
1 TAAATTTTATTATTTTAATATATATATTTGAAA
* *
51123460 TAAA-TTTATTATTTTAATATTTATGTTTG
1 TAAATTTTATTATTTTAATATATATATTTG
51123489 TTTCTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (33 bp):
TAAATTTTATTATTTTAATATATATATTTGAAA
Found at i:51126367 original size:9 final size:9
Alignment explanation
Indices: 51126349--51126390 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
51126339 TTTGGTTAAA
51126349 AATTAACCG
1 AATTAACCG
*
51126358 AATTACCCG
1 AATTAACCG
51126367 AATTAACCG
1 AATTAACCG
*
51126376 AATTACCCG
1 AATTAACCG
51126385 AATTAA
1 AATTAA
51126391 ATCACTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:51126372 original size:18 final size:18
Alignment explanation
Indices: 51126349--51126390 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
51126339 TTTGGTTAAA
51126349 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51126367 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51126385 AATTAA
1 AATTAA
51126391 ATCACTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:51126439 original size:6 final size:6
Alignment explanation
Indices: 51126428--51126462 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
51126418 ATTTTTAGAC
*
51126428 TTTAGT TTTAGT TTTAGT TTTCGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
51126463 AATTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:51126543 original size:18 final size:18
Alignment explanation
Indices: 51126503--51126546 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
51126493 AATTTTTATG
**
51126503 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
51126521 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
51126539 CTTGGGTT
1 ATTGGGTT
51126547 TGAATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:51131222 original size:25 final size:25
Alignment explanation
Indices: 51131183--51131295 Score: 99
Period size: 25 Copynumber: 4.5 Consensus size: 25
51131173 GGACACACCA
51131183 CAGCTCGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGCTTACCGATTCT
** * *
51131207 GCAGCTCGTAAAAGCTTACAGGTTCT
1 -CAGCTCGTATGAGCTTACCGATTCT
*
51131233 CAGCTCGTATGAGCTTACCG-GTCT
1 CAGCTCGTATGAGCTTACCGATTCT
* *
51131257 ACAGCTCGTGA-GAGCATACTGATTCAT
1 -CAGCTCGT-ATGAGCTTACCGATTC-T
51131284 -AGCTCGTATGAG
1 CAGCTCGTATGAG
51131296 TATACATGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
24 4 0.06
25 62 0.87
26 4 0.06
27 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:51131288 original size:50 final size:50
Alignment explanation
Indices: 51131183--51131295 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 50
51131173 GGACACACCA
* * * *
51131183 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTAAAAGCTTACAGGTTCT
1 CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATTCT
* * * *
51131233 CAGCTCGTATGAGCTTACCGGTCTACAGCTCGTGAGAGCATACTGATTCAT
1 CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATTC-T
51131284 -AGCTCGTATGAG
1 CAGCTCGTATGAG
51131296 TATACATGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATTCT
Found at i:51134177 original size:26 final size:26
Alignment explanation
Indices: 51134124--51134175 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51134114 ATTTTAAATA
*
51134124 AATTAAAACCCTAATTCTCCTAATTT
1 AATTAAAACCCTAATTATCCTAATTT
* *
51134150 AATTTAAACTCCTAATTATCTTAATT
1 AATTAAAAC-CCTAATTATCCTAATT
51134176 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAAAACCCTAATTATCCTAATTT
Found at i:51134281 original size:90 final size:92
Alignment explanation
Indices: 51134060--51134296 Score: 298
Period size: 90 Copynumber: 2.6 Consensus size: 92
51134050 TTGAGAAACC
* * ** * *** *
51134060 TTAAACTCCTAATTATCTTAATTAAAATCTAAATTATCATCTAAATTATTAAGTATTTTAAATAA
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGT-CATAA
* *
51134125 ATTAAAACCCTAATTCTCCTAATTTAAT
65 ATTAAAACCCTAATTCACCTAATTCAAT
* *
51134153 TTAAACTCCTAATTATCTTAATTAAAATCTAAATTATTATTTAACCTATTAATTAAAGTCATAAA
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGTCATAAA
*
51134218 TT-AAACTCTAATT-ACCTAATTCAAT
66 TTAAAACCCTAATTCACCTAATTCAAT
* * *
51134243 TTAAACTCCTATTTATCTCAATTAAAATTTATATTATTATCTAACCTATTAATT
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATT
51134297 TAATTTCTCA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
90 59 0.46
91 10 0.08
92 7 0.06
93 51 0.40
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (92 bp):
TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGTCATAAA
TTAAAACCCTAATTCACCTAATTCAAT
Found at i:51135426 original size:22 final size:22
Alignment explanation
Indices: 51135379--51135425 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
51135369 TTTAAGTATG
* *
51135379 TTTACTATTTTATTTAATTTCT
1 TTTACTATTTTATTTAAATACT
*
51135401 TTTAGTATTATTATTTAAATACT
1 TTTACTATT-TTATTTAAATACT
51135424 TT
1 TT
51135426 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTACTATTTTATTTAAATACT
Found at i:51141110 original size:9 final size:9
Alignment explanation
Indices: 51141091--51141127 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
51141081 TGAGTTTTCG
51141091 AATTCGAAT
1 AATTCGAAT
51141100 AACTT-GAAT
1 AA-TTCGAAT
51141109 AATTCGAAT
1 AATTCGAAT
51141118 AATTCGAAT
1 AATTCGAAT
51141127 A
1 A
51141128 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51142228 original size:14 final size:14
Alignment explanation
Indices: 51142209--51142237 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51142199 GGTACCAGTT
51142209 GCCTAACAATTAGG
1 GCCTAACAATTAGG
51142223 GCCTAACAATTAGG
1 GCCTAACAATTAGG
51142237 G
1 G
51142238 TCTGATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (14 bp):
GCCTAACAATTAGG
Found at i:51142436 original size:58 final size:57
Alignment explanation
Indices: 51142372--51142495 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 57
51142362 GAAAAAGTTG
*
51142372 TTTTACATATATT--AATAAATTTATGTACATATTAAT-AAATTTTTATATTTTAAATTGT
1 TTTTACATATATTACAAT-AATTT-TGT--ATATAAATAAAATTTTTATATTTTAAATTGT
* *
51142430 TTTTACATATATTACAATGATTTTGTTTATAAATAAAATTTTTATATTTTAAATTGT
1 TTTTACATATATTACAATAATTTTGTATATAAATAAAATTTTTATATTTTAAATTGT
51142487 TTTTACATA
1 TTTTACATA
51142496 GTCATGCTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
56 6 0.10
57 31 0.52
58 16 0.27
59 4 0.07
60 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (57 bp):
TTTTACATATATTACAATAATTTTGTATATAAATAAAATTTTTATATTTTAAATTGT
Found at i:51143953 original size:28 final size:28
Alignment explanation
Indices: 51143922--51143990 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
51143912 AAAGATGAAA
* *
51143922 TATATAAAAATGGCTT-TTAAAAGTATAT
1 TATATAAAAATAG-TTATTAAAAATATAT
*
51143950 TATA-AAATAAAAGTTATTAAAAATATAT
1 TATATAAA-AATAGTTATTAAAAATATAT
51143978 TATATAACAAATA
1 TATATAA-AAATA
51143991 ATTCATCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 5 0.15
28 22 0.67
29 5 0.15
30 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (28 bp):
TATATAAAAATAGTTATTAAAAATATAT
Found at i:51143962 original size:18 final size:16
Alignment explanation
Indices: 51143939--51143974 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
51143929 AAATGGCTTT
51143939 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
51143957 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
51143973 TA
1 TA
51143975 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:51144976 original size:17 final size:17
Alignment explanation
Indices: 51144954--51144990 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
51144944 AATATCTTTT
51144954 TTGTTTCTTTTTTCTCA
1 TTGTTTCTTTTTTCTCA
51144971 TTGTTTCTTTTTTCTCA
1 TTGTTTCTTTTTTCTCA
51144988 TTG
1 TTG
51144991 CTGCTGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.16, G:0.08, T:0.70
Consensus pattern (17 bp):
TTGTTTCTTTTTTCTCA
Found at i:51145308 original size:15 final size:15
Alignment explanation
Indices: 51145285--51145332 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
51145275 CTTTTAATAA
51145285 TTTTGTTTTTTATTT
1 TTTTGTTTTTTATTT
51145300 TTATT-TTTTTATATATT
1 TT-TTGTTTTT-TAT-TT
51145317 TTTTGTTTATTTATTT
1 TTTTGTTT-TTTATTT
51145333 GATTTGGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 7 0.25
16 9 0.32
17 10 0.36
18 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTGTTTTTTATTT
Found at i:51145591 original size:50 final size:50
Alignment explanation
Indices: 51145534--51145663 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 50
51145524 TCGAAACTTT
** * *
51145534 AATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGTTGTTGTAGCTTC
1 AATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTATTGCAGCTTC
** ** * * * *
51145584 AATCTGTTCCACTGCACCGACTGGGCAGTAAGATTTACTATTGCAGCTTC
1 AATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTATTGCAGCTTC
*
51145634 AATCT-TTCTAACTGCAATGTTGGGGAAGTA
1 AATCTGTT-TAACTGCAATGTCGGGGAAGTA
51145664 GGATCCACCG
Statistics
Matches: 59, Mismatches: 20, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
49 2 0.03
50 57 0.97
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (50 bp):
AATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTATTGCAGCTTC
Found at i:51145979 original size:46 final size:46
Alignment explanation
Indices: 51145912--51145999 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
51145902 TCCAATTAGG
51145912 AATTCTTCGGTCTATTCCACTGTAATCTAAAGGAGATAAGACTTGT
1 AATTCTTCGGTCTATTCCACTGTAATCTAAAGGAGATAAGACTTGT
* *
51145958 AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGAC
1 AATTCTTCGGTCTATTCCACTGTAATCTAAAGGAGATAAGAC
51146000 CTGATGCGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (46 bp):
AATTCTTCGGTCTATTCCACTGTAATCTAAAGGAGATAAGACTTGT
Done.