Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold171
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: 1364075
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.30
Warning! 108074 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:3340 original size:41 final size:41
Alignment explanation
Indices: 3275--3468 Score: 280
Period size: 41 Copynumber: 4.7 Consensus size: 41
3265 TGACCTTTTG
* *
3275 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
* * * *
3316 GGGGTTTAGCGGCGTTTTTTGAGAAGCACCGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
*
3357 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
*
3398 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
* * * *
3439 GTGCTTTAGCAGCGTTTTTGAAAAAGCGCC
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCC
3469 ACAAAAACAT
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
Found at i:5355 original size:16 final size:17
Alignment explanation
Indices: 5328--5365 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
5318 TAGGTTTTTA
5328 TTTCTATTTGGGGTTCT
1 TTTCTATTTGGGGTTCT
5345 TTTCT-TTTGGGGTTCT
1 TTTCTATTTGGGGTTCT
5361 TTTCT
1 TTTCT
5366 GGGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.03, C:0.13, G:0.21, T:0.63
Consensus pattern (17 bp):
TTTCTATTTGGGGTTCT
Found at i:8727 original size:43 final size:42
Alignment explanation
Indices: 8602--8812 Score: 201
Period size: 43 Copynumber: 4.9 Consensus size: 42
8592 TTTGCATGAT
* ** * **
8602 ATGTTTTTAGCGGCGTTTTTGCGAGAAGCGTTGCTAAAGGT-
1 ATGTTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTC
*
8643 TTGTTTTATAGCGGCGTTTGTGATAAAAAAGCGCCGCTAAAGGTC
1 ATGTTTT-TAGCGGCGTTTGTG--AAAAAAGCGCCGCTAAAGGTC
* *
8688 ATGTTCTTTAGCGGCGTTTGTGACAAAAGTGCCGCTAAAGGTC
1 ATGTT-TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTC
* **
8731 ATGTTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGTT-TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTC
* * ** *
8774 GTGGTTTATAGCGGCGTTTGTG-GGAAAGCGCCGCAAAAG
1 AT-GTTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAG
8813 TTAGCGACGG
Statistics
Matches: 145, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
41 6 0.04
42 28 0.19
43 73 0.50
44 18 0.12
45 18 0.12
46 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (42 bp):
ATGTTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTC
Found at i:13696 original size:29 final size:29
Alignment explanation
Indices: 13636--13696 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
13626 TATATTTTAA
* *
13636 TTAATTAAATTAACTTAATTAGCCTAAGT
1 TTAATTAAATTAACTTAATTAGACTAAAT
13665 TTAATTAAATTTAAGCTTAATTA-AC-AAAT
1 TTAATTAAA-TTAA-CTTAATTAGACTAAAT
13694 TTA
1 TTA
13697 GTGGGTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.54
30 5 0.18
31 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (29 bp):
TTAATTAAATTAACTTAATTAGACTAAAT
Found at i:14999 original size:20 final size:19
Alignment explanation
Indices: 14974--15042 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
14964 GTTGGAGTCT
14974 GAATCGAGTTAAACAACAAA
1 GAATCGA-TTAAACAACAAA
* * *
14994 GAATCGATTCAAAGAATAAT
1 GAATCGATT-AAACAACAAA
*
15014 GAATCGATTAAATAAGCAAA
1 GAATCGATTAAACAA-CAAA
15034 GAATCGATT
1 GAATCGATT
15043 TAAGAAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.22
Consensus pattern (19 bp):
GAATCGATTAAACAACAAA
Found at i:22504 original size:16 final size:14
Alignment explanation
Indices: 22474--22501 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22464 TAAATTAATA
22474 TGTGTACATTATAT
1 TGTGTACATTATAT
22488 TGTGTACATTATAT
1 TGTGTACATTATAT
22502 ATTATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TGTGTACATTATAT
Found at i:27741 original size:27 final size:25
Alignment explanation
Indices: 27683--27744 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
27673 GGACTTTGTT
* *
27683 TTAATTATAATAAAATAATTAATAT
1 TTAATTTTAATAAAATAATTAATAA
* *
27708 TTTATTTTAATAAAAATGATTGAATAA
1 TTAATTTTAAT-AAAATAATT-AATAA
27735 TTAATTTTAA
1 TTAATTTTAA
27745 AAATATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 9 0.30
26 8 0.27
27 13 0.43
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
TTAATTTTAATAAAATAATTAATAA
Found at i:29695 original size:12 final size:13
Alignment explanation
Indices: 29678--29706 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29668 CAAATTATTA
29678 TTTTTTCT-TTTT
1 TTTTTTCTCTTTT
29690 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
29703 TTTT
1 TTTT
29707 ATGCTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:30751 original size:9 final size:10
Alignment explanation
Indices: 30737--30779 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
30727 ATTAATATCC
30737 AAAT-AAGTA
1 AAATAAAGTA
*
30746 AAATAAAATA
1 AAATAAAGTA
30756 AAATAAAGTAA
1 AAATAAAGT-A
30767 TAAATAAAGTA
1 -AAATAAAGTA
30778 AA
1 AA
30780 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:30770 original size:13 final size:13
Alignment explanation
Indices: 30752--30802 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
30742 AGTAAAATAA
30752 AATAAAATAAAGT
1 AATAAAATAAAGT
30765 AAT-AAATAAAGT
1 AATAAAATAAAGT
* * *
30777 AAAGAAAAAAAAAT
1 -AATAAAATAAAGT
30791 AATAAAAATAAA
1 AAT-AAAATAAA
30803 AATTGGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
12 9 0.30
13 7 0.23
14 14 0.47
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AATAAAATAAAGT
Found at i:30773 original size:17 final size:16
Alignment explanation
Indices: 30750--30803 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
30740 TAAGTAAAAT
30750 AAAATAAAATAAAGTA
1 AAAATAAAATAAAGTA
*
30766 ATAAATAAAGTAAAG-A
1 A-AAATAAAATAAAGTA
30782 AAAA-AAAAT-AA-TA
1 AAAATAAAATAAAGTA
30795 AAAATAAAA
1 AAAATAAAA
30804 ATTGGGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 3 0.09
16 3 0.09
17 12 0.36
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAGTA
Found at i:37844 original size:56 final size:55
Alignment explanation
Indices: 37790--37899 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 55
37780 ATAGAAATTG
* *
37790 TGAAAATGGATAAATGAGAAATCATTTGGAAATGATTATGATTTTCTCCAAAATTAAGA
1 TGAAAAT-GAGAAATG-G-AATCATTTGGAAATGAATATGATTTTCTCCAAAATT-AGA
* * * *
37849 TGATAATGAGAAATGGAATCATTTGGAAATTAATGTGGTTTTCTCCAAAAT
1 TGAAAATGAGAAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAAT
37900 GAAAATGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 31 0.69
57 1 0.02
58 7 0.16
59 6 0.13
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (55 bp):
TGAAAATGAGAAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAATTAGA
Found at i:37919 original size:56 final size:56
Alignment explanation
Indices: 37809--37919 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 56
37799 ATAAATGAGA
* * * * * *
37809 AATCATTTGGAAATGATTATGATTTTCTCCAAAATTAAGATGATAATGAGAAATGG
1 AATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGACAATAAAAAATGG
* * *
37865 AATCATTTGGAAATTAATGTGGTTTTCTCCAAAATGAAAATGACCAA-AAAAAATG
1 AATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGA-CAATAAAAAATG
37920 AATTTATGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
56 43 0.96
57 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (56 bp):
AATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGACAATAAAAAATGG
Found at i:40799 original size:22 final size:21
Alignment explanation
Indices: 40766--40823 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
40756 GACAATAGGC
*
40766 TTGTCTCAAGACAATATGCT-A
1 TTGTCTCGAGACAAT-TGCTCA
40787 TGTGTCTCGAGACAATTGCTCGA
1 T-TGTCTCGAGACAATTGCTC-A
*
40810 TTTTCTCGAGACAA
1 TTGTCTCGAGACAA
40824 GGCTCCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 25 0.78
23 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
TTGTCTCGAGACAATTGCTCA
Found at i:49018 original size:19 final size:17
Alignment explanation
Indices: 48996--49031 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
48986 AAGGTTTCAA
48996 TAGGGTTTATTAGATTTTT
1 TAGGGTTTA--AGATTTTT
49015 TAGGGTTTAAGATTTTT
1 TAGGGTTTAAGATTTTT
49032 AAGGTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (17 bp):
TAGGGTTTAAGATTTTT
Found at i:57825 original size:22 final size:22
Alignment explanation
Indices: 57799--57847 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
57789 CTCGTTAACA
* *
57799 AATTTATTTATTTTTTATAAAC
1 AATTTAGTTAATTTTTATAAAC
*
57821 AATTT-GTTAATTTTTATAGAC
1 AATTTAGTTAATTTTTATAAAC
57842 AATTTA
1 AATTTA
57848 ATATTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (22 bp):
AATTTAGTTAATTTTTATAAAC
Found at i:57853 original size:20 final size:21
Alignment explanation
Indices: 57810--57854 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
57800 ATTTATTTAT
**
57810 TTTTTATAAACAATTTGTTAA
1 TTTTTATAAACAATTTAATAA
*
57831 TTTTTATAGACAATTTAAT-A
1 TTTTTATAAACAATTTAATAA
57851 TTTT
1 TTTT
57855 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTTATAAACAATTTAATAA
Found at i:59375 original size:160 final size:161
Alignment explanation
Indices: 59101--59423 Score: 639
Period size: 160 Copynumber: 2.0 Consensus size: 161
59091 CTACTTAATA
59101 TTAATTTTGAAATCCTTACATAAATATTATATAATTAATAATTTTAAAAAACTAACCTTCGCTTC
1 TTAATTTTGAAATCCTTACATAAATATTATATAATTAATAATTTTAAAAAACTAACCTTCGCTTC
59166 CGATTGTTGATCTAACAATAGCTGAATATCTTCGAGCTCCTCGGGTAGTCCCACATAACTTGCTC
66 CGATTGTTGATCTAACAATAGCTGAATATCTTCGAGCTCCTCGGGTAGTCCCACATAACTTGCTC
59231 TATGGTTCCACCTATTCAAATAATATGTTTT
131 TATGGTTCCACCTATTCAAATAATATGTTTT
59262 TTAATTTTG-AATCCTTACATAAATATTATATAATTAATAATTTTAAAAAACTAACCTTCGCTTC
1 TTAATTTTGAAATCCTTACATAAATATTATATAATTAATAATTTTAAAAAACTAACCTTCGCTTC
59326 CGATTGTTGATCTAACAATAGCTGAATATCTTCGAGCTCCTCGGGTAGTCCCACATAACTTGCTC
66 CGATTGTTGATCTAACAATAGCTGAATATCTTCGAGCTCCTCGGGTAGTCCCACATAACTTGCTC
59391 TATGGTTCCACCTATTCAAATAATATGTTTT
131 TATGGTTCCACCTATTCAAATAATATGTTTT
59422 TT
1 TT
59424 TGAATATAAT
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 153 0.94
161 9 0.06
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (161 bp):
TTAATTTTGAAATCCTTACATAAATATTATATAATTAATAATTTTAAAAAACTAACCTTCGCTTC
CGATTGTTGATCTAACAATAGCTGAATATCTTCGAGCTCCTCGGGTAGTCCCACATAACTTGCTC
TATGGTTCCACCTATTCAAATAATATGTTTT
Found at i:61698 original size:19 final size:17
Alignment explanation
Indices: 61670--61704 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
61660 TATAATTTTT
61670 AAATAATTTTATTCATTA
1 AAATAATTTTA-TCATTA
61688 AAATAATTTTTATCATT
1 AAATAA-TTTTATCATT
61705 TTCTCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATAATTTTATCATTA
Found at i:66118 original size:16 final size:16
Alignment explanation
Indices: 66092--66138 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
66082 TAGAATTGGG
66092 TTGAGAAAATTAATTTA
1 TTGA-AAAATTAATTTA
* *
66109 TTGAAAAATTACTTAA
1 TTGAAAAATTAATTTA
66125 TT--AAAATTAATTTA
1 TTGAAAAATTAATTTA
66139 ATAATAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TTGAAAAATTAATTTA
Found at i:74383 original size:24 final size:24
Alignment explanation
Indices: 74311--74386 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
74301 AAATATCCCT
74311 GAAG-TAATCAGAGTTTAACTGGGA
1 GAAGATAA-CAGAGTTTAACTGGGA
* * *
74335 AAATATAACATAGTTTAACTGGGA
1 GAAGATAACAGAGTTTAACTGGGA
*
74359 GAAGATAACAGAGTTTAAATGGGA
1 GAAGATAACAGAGTTTAACTGGGA
74383 GAAG
1 GAAG
74387 GAGTTTGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 41 0.93
25 3 0.07
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (24 bp):
GAAGATAACAGAGTTTAACTGGGA
Found at i:75401 original size:24 final size:24
Alignment explanation
Indices: 75369--75434 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
75359 TAGAGTAATT
*
75369 AGAGTTTAACTAGGATAAAATAGC
1 AGAGTTTAACTAGGAGAAAATAGC
* *
75393 AGAGTTTAATTGGGAGAAAATAGC
1 AGAGTTTAACTAGGAGAAAATAGC
* *
75417 AGAGTTTTACTGGGAGAA
1 AGAGTTTAACTAGGAGAA
75435 GAAACTCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTAGGAGAAAATAGC
Found at i:85191 original size:18 final size:18
Alignment explanation
Indices: 85160--85195 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85150 TTCAGAATTG
*
85160 TAATTGCAATTTTTTTTA
1 TAATTGCAAATTTTTTTA
*
85178 TAATTTCAAATTTTTTTA
1 TAATTGCAAATTTTTTTA
85196 ATCGAGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTGCAAATTTTTTTA
Found at i:90747 original size:6 final size:7
Alignment explanation
Indices: 90730--90757 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
90720 AAAAACAGCA
90730 AAAAAAG
1 AAAAAAG
90737 AAAAAAG
1 AAAAAAG
90744 AAAAAAG
1 AAAAAAG
90751 AAAAAAG
1 AAAAAAG
90758 TGCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:100852 original size:18 final size:18
Alignment explanation
Indices: 100821--100879 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
100811 ATGACAATGC
* *
100821 TTTAAGTTTTCTTATTAT
1 TTTAACTTTACTTATTAT
100839 TTTAACTTTACTTATT-T
1 TTTAACTTTACTTATTAT
100856 TATT-ACTTTA-TTATTA-
1 T-TTAACTTTACTTATTAT
100872 TTTAACTT
1 TTTAACTT
100880 ATAATATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.06
16 10 0.28
17 8 0.22
18 16 0.44
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAACTTTACTTATTAT
Found at i:100855 original size:15 final size:15
Alignment explanation
Indices: 100832--100870 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
100822 TTAAGTTTTC
100832 TTATTATTTTA-ACT
1 TTATTATTTTATACT
100846 TTACTTATTTTATTACT
1 TTA-TTATTTTA-TACT
100863 TTATTATT
1 TTATTATT
100871 ATTTAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 5 0.23
17 6 0.27
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTTTATACT
Found at i:103990 original size:21 final size:21
Alignment explanation
Indices: 103952--103991 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
103942 TAAAATATCC
* **
103952 AAGTCTTAAATAGTAATAATT
1 AAGTCTAAAATAAAAATAATT
103973 AAGTCTAAAATAAAAATAA
1 AAGTCTAAAATAAAAATAA
103992 AAATTGTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTCTAAAATAAAAATAATT
Found at i:119462 original size:12 final size:11
Alignment explanation
Indices: 119445--119474 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
119435 TCGAAACAGG
119445 AGAAAAGAAAGA
1 AGAAAAGAAA-A
119457 AGAAAAGAAAA
1 AGAAAAGAAAA
119468 AGAAAAG
1 AGAAAAG
119475 GAACAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:120659 original size:23 final size:22
Alignment explanation
Indices: 120632--120717 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
120622 GCTTTGCCGA
*
120632 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TCATGTGTCGTATT
*
120655 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCA-CTCATGTGTCGTATT
*
120676 TCAGGCACGTCGTGTGTC--ATT
1 TCAGGCAC-TCATGTGTCGTATT
* *
120697 TCAGGTACTTATGTGTCGTAT
1 TCAGGCACTCATGTGTCGTAT
120718 ACTGATCAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
19 1 0.02
20 8 0.15
21 23 0.44
22 2 0.04
23 17 0.33
24 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TCAGGCACTCATGTGTCGTATT
Found at i:120679 original size:21 final size:22
Alignment explanation
Indices: 120644--120701 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
120634 AGGCACTTTA
120644 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
*
120667 TGTGTCGTA-TCAGGCACGTCG
1 TGTGTCGTATTCAGGCACCTCG
*
120688 TGTGTCAT-TTCAGG
1 TGTGTCGTATTCAGG
120702 TACTTATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 23 0.72
23 9 0.28
ACGTcount: A:0.14, C:0.22, G:0.29, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:125344 original size:125 final size:125
Alignment explanation
Indices: 125059--125323 Score: 530
Period size: 125 Copynumber: 2.1 Consensus size: 125
125049 TAAATAAGAA
125059 CAAGTGTATGGTGATGATAAAACACATGTGTAATAAATATATGTAAACATTTGTAGTATAATTAT
1 CAAGTGTATGGTGATGATAAAACACATGTGTAATAAATATATGTAAACATTTGTAGTATAATTAT
125124 TTATTTACTTATATTTTAAACTAAAGATATTTATTATAATAATAATTATTAAATTGAAGC
66 TTATTTACTTATATTTTAAACTAAAGATATTTATTATAATAATAATTATTAAATTGAAGC
125184 CAAGTGTATGGTGATGATAAAACACATGTGTAATAAATATATGTAAACATTTGTAGTATAATTAT
1 CAAGTGTATGGTGATGATAAAACACATGTGTAATAAATATATGTAAACATTTGTAGTATAATTAT
125249 TTATTTACTTATATTTTAAACTAAAGATATTTATTATAATAATAATTATTAAATTGAAGC
66 TTATTTACTTATATTTTAAACTAAAGATATTTATTATAATAATAATTATTAAATTGAAGC
125309 CAAGTGTATGGTGAT
1 CAAGTGTATGGTGAT
125324 AAAAATATAC
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 140 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (125 bp):
CAAGTGTATGGTGATGATAAAACACATGTGTAATAAATATATGTAAACATTTGTAGTATAATTAT
TTATTTACTTATATTTTAAACTAAAGATATTTATTATAATAATAATTATTAAATTGAAGC
Found at i:125492 original size:12 final size:13
Alignment explanation
Indices: 125471--125502 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
125461 AAAGTAAAAT
125471 AAAA-AAACAAAC
1 AAAACAAACAAAC
125483 -AAACAAACAAAC
1 AAAACAAACAAAC
125495 AAAACAAA
1 AAAACAAA
125503 GAAGAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAC
Found at i:126759 original size:23 final size:23
Alignment explanation
Indices: 126710--126759 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
126700 TGCCGATTAG
* *
126710 GCACTTTATGTGTCGTCTATCAG
1 GCACTTTATGTGTCGTATATCAA
* *
126733 GCACTTTATGTTTCGTATTTCAA
1 GCACTTTATGTGTCGTATATCAA
126756 GCAC
1 GCAC
126760 CTCGTATGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATATCAA
Found at i:126771 original size:23 final size:21
Alignment explanation
Indices: 126745--126790 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
126735 ACTTTATGTT
126745 TCGTATTTCAAGCACCTCGTATG
1 TCGTA-TT-AAGCACCTCGTATG
* *
126768 TCGTATTAGGCACCTCGTGTG
1 TCGTATTAAGCACCTCGTATG
126789 TC
1 TC
126791 ATTTTAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (21 bp):
TCGTATTAAGCACCTCGTATG
Found at i:126782 original size:21 final size:21
Alignment explanation
Indices: 126756--126801 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
126746 CGTATTTCAA
*
126756 GCACCTCGTATGTCGTATTAG
1 GCACCTCGTATGTCATATTAG
* *
126777 GCACCTCGTGTGTCATTTTAG
1 GCACCTCGTATGTCATATTAG
126798 GCAC
1 GCAC
126802 TTATGTGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (21 bp):
GCACCTCGTATGTCATATTAG
Found at i:130877 original size:28 final size:28
Alignment explanation
Indices: 130837--130947 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
130827 TTCTGAATTC
130837 ATAAATGAAGGCTTGTGTGAGCCAACTT
1 ATAAATGAAGGCTTGTGTGAGCCAACTT
*
130865 ATAAATGAAGGCTTGTGTGAGCTAACTT
1 ATAAATGAAGGCTTGTGTGAGCCAACTT
** * * *
130893 ATAAACAAAGGTTTGTGTAAGCTAA-TT
1 ATAAATGAAGGCTTGTGTGAGCCAACTT
* *
130920 CATAAATGAAAGCTTATGTGAG-CAACTT
1 -ATAAATGAAGGCTTGTGTGAGCCAACTT
130948 TGATCATTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.06
28 65 0.94
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (28 bp):
ATAAATGAAGGCTTGTGTGAGCCAACTT
Found at i:134009 original size:25 final size:25
Alignment explanation
Indices: 133981--134032 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
133971 AAGTATTATA
*
133981 CAAAGAACATAAATGTGCTAATAAT
1 CAAAGAACATAAATGTGCAAATAAT
* **
134006 CAAAGAGCATCGATGTGCAAATAAT
1 CAAAGAACATAAATGTGCAAATAAT
134031 CA
1 CA
134033 GAGAGCACGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (25 bp):
CAAAGAACATAAATGTGCAAATAAT
Found at i:135237 original size:50 final size:50
Alignment explanation
Indices: 135176--135370 Score: 329
Period size: 50 Copynumber: 3.9 Consensus size: 50
135166 ATAAATAACA
* *
135176 TGCCAAAGCCATGGTCCTAGACA-GGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCAT-GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
135226 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
135276 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
135326 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
135371 AATTTCAATA
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
49 9 0.07
50 129 0.93
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:135489 original size:42 final size:41
Alignment explanation
Indices: 135425--135506 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
135415 TGGCTTACAT
* * *
135425 ATCGATGTCGATGCCATGTCCCAAAAATGGTTTTATACGAG
1 ATCGATGTCGATACCATATCCCAAAAATGGTCTTATACGAG
* *
135466 ATCGCATGTCGATACCATATCCCAGATATGGTCTTATACGA
1 ATCG-ATGTCGATACCATATCCCAAAAATGGTCTTATACGA
135507 AAATCACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 4 0.11
42 31 0.89
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
ATCGATGTCGATACCATATCCCAAAAATGGTCTTATACGAG
Found at i:143709 original size:18 final size:18
Alignment explanation
Indices: 143686--143727 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
143676 AAGAACACCA
*
143686 CATGAGGATCTGTAAGTC
1 CATGAGGATCTATAAGTC
*
143704 CATGAGGATGTATAAGTC
1 CATGAGGATCTATAAGTC
143722 CATGAG
1 CATGAG
143728 ACTGAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
CATGAGGATCTATAAGTC
Found at i:150194 original size:6 final size:6
Alignment explanation
Indices: 150185--150221 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
150175 CTTGTGCTTG
150185 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA T
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA T
150222 ACTTCTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:160760 original size:28 final size:29
Alignment explanation
Indices: 160717--160771 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
160707 TATTTGCAAT
160717 AATTAGCTATCCTTTT-TGTAAATATTGA
1 AATTAGCTATCCTTTTCTGTAAATATTGA
* *
160745 AATTAGCTGTCTTTTTCTGTAAATATT
1 AATTAGCTATCCTTTTCTGTAAATATT
160772 TTAAAATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (29 bp):
AATTAGCTATCCTTTTCTGTAAATATTGA
Found at i:160855 original size:15 final size:16
Alignment explanation
Indices: 160835--160864 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
160825 TAACAACTAA
160835 TATATAAT-TATATTT
1 TATATAATATATATTT
160850 TATATAATATATATT
1 TATATAATATATATT
160865 AATTGTATTA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:160984 original size:7 final size:7
Alignment explanation
Indices: 160963--161000 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
160953 ATAACAAGTA
160963 ATATATT
1 ATATATT
160970 AATATATT
1 -ATATATT
*
160978 TTATATT
1 ATATATT
160985 ATATATT
1 ATATATT
160992 ATATATT
1 ATATATT
160999 AT
1 AT
161001 TGTCTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATATT
Found at i:169846 original size:27 final size:27
Alignment explanation
Indices: 169816--169891 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
169806 TTTTGGTAAT
* * *
169816 TTTACCCATTGAGGGTATTTCAATTAG
1 TTTACCCATCGAGGGTGTTTCAATAAG
* *
169843 TTTACCCATCGAGGGTGTTTCGATAAT
1 TTTACCCATCGAGGGTGTTTCAATAAG
169870 TTTACCCATCGAGGGTGTTTCA
1 TTTACCCATCGAGGGTGTTTCA
169892 GTAAAGTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
TTTACCCATCGAGGGTGTTTCAATAAG
Found at i:173654 original size:47 final size:47
Alignment explanation
Indices: 173585--173678 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
173575 GCTATTTATG
*
173585 TTTGTTTAAATAATTTTTTGACGCGCACTGAGCTTTTCATAAGCTCA
1 TTTGTTTAAATAATTGTTTGACGCGCACTGAGCTTTTCATAAGCTCA
173632 TTTGTTTAAATAATTGTTTGACGCGCACTGAGCTTTTCATAAGCTCA
1 TTTGTTTAAATAATTGTTTGACGCGCACTGAGCTTTTCATAAGCTCA
173679 CCTCCAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTGTTTAAATAATTGTTTGACGCGCACTGAGCTTTTCATAAGCTCA
Found at i:174354 original size:17 final size:17
Alignment explanation
Indices: 174334--174367 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
174324 ATATATTCAT
* *
174334 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
174351 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
174368 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:174365 original size:11 final size:11
Alignment explanation
Indices: 174351--174382 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
174341 ATTTTTTTAA
174351 TTTTAAAATAT
1 TTTTAAAATAT
174362 TTTTAAAATAT
1 TTTTAAAATAT
174373 TTTTAAAATA
1 TTTTAAAATA
174383 AATTTTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:180947 original size:34 final size:35
Alignment explanation
Indices: 180893--180959 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
180883 CAAACAGCAG
* *
180893 AAAATATTTTCTAGTAAATCATTTCACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTCACAGAAAAGT
* *
180928 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTCACAGAAAA
180960 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTCACAGAAAAGT
Found at i:180951 original size:14 final size:14
Alignment explanation
Indices: 180928--180967 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
180918 ACAGAAAAGT
*
180928 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
180942 AAATCATTTTACGG
1 AAAACATTTTACAG
180956 AAAACATTTTAC
1 AAAACATTTTAC
180968 TGGCAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:183965 original size:27 final size:27
Alignment explanation
Indices: 183925--184012 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
183915 CTTTAACTGA
*
183925 CGAACCCTAGTCCACCAAACCAATTGG
1 CGAACCCCAGTCCACCAAACCAATTGG
* *
183952 CGAACCCCAATCCACCAAACTAATTGG
1 CGAACCCCAGTCCACCAAACCAATTGG
*
183979 CGAACCCCAGTCCGCCAAACCAATTGG
1 CGAACCCCAGTCCACCAAACCAATTGG
*
184006 TGAACCC
1 CGAACCC
184013 AACTTGCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.33, C:0.39, G:0.15, T:0.14
Consensus pattern (27 bp):
CGAACCCCAGTCCACCAAACCAATTGG
Found at i:185388 original size:13 final size:13
Alignment explanation
Indices: 185349--185401 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
185339 AGTTCTTCAT
185349 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
185362 TAC-TGTGAAAAAG
1 TACTTTTG-AAAAG
*
185375 TACTTTTGAGAAG
1 TACTTTTGAAAAG
185388 TACTTTTGAAAAG
1 TACTTTTGAAAAG
185401 T
1 T
185402 TTGGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:196274 original size:20 final size:20
Alignment explanation
Indices: 196211--196276 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
196201 CACATATGTG
* *
196211 CCCCTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCAGTA
* * *
196231 CCCCTGA-ATGTACATACA-TG
1 CCCCT-ATTTGTAC-TTCAGTA
196251 CCCCTATTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
196271 CCCCTA
1 CCCCTA
196277 AATGCATATT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
21 2 0.06
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (20 bp):
CCCCTATTTGTACTTCAGTA
Found at i:197219 original size:20 final size:20
Alignment explanation
Indices: 197194--197255 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
197184 CTTGTACGAC
*
197194 TTTGCAATTTAGTGCCTCTG
1 TTTGCACTTTAGTGCCTCTG
*
197214 TTTGCACGTTAGTGCCTCTG
1 TTTGCACTTTAGTGCCTCTG
* *
197234 TTTTCACTTTTGTGCCTCTG
1 TTTGCACTTTAGTGCCTCTG
197254 TT
1 TT
197256 AGCATTTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (20 bp):
TTTGCACTTTAGTGCCTCTG
Found at i:200795 original size:26 final size:26
Alignment explanation
Indices: 200759--200833 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
200749 ACATATTTTC
200759 TCAAAATTTTACTAGGGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCG
* *
200785 TCAAAATTTTACCATGGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCG
*
200811 TC-AAATTTTA-TTGAGGGTAAAAT
1 TCAAAATTTTACTAG-GGGTAAAAT
200834 AGGGATGAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 17 0.40
26 26 0.60
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCG
Found at i:211445 original size:14 final size:15
Alignment explanation
Indices: 211428--211460 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
211418 TAAACTACTA
211428 AAAATAA-AGAAAAG
1 AAAATAACAGAAAAG
*
211442 AAAATAACTGAAAAG
1 AAAATAACAGAAAAG
211457 AAAA
1 AAAA
211461 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAATAACAGAAAAG
Found at i:213205 original size:36 final size:36
Alignment explanation
Indices: 213165--213238 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
213155 TATATAACAA
213165 AATAACAGATGAAAACTAAAATGAAAAGAGAAGAAG
1 AATAACAGATGAAAACTAAAATGAAAAGAGAAGAAG
213201 AATAACAGATGAAAACTAAAATGAAAAGAGAAGAAG
1 AATAACAGATGAAAACTAAAATGAAAAGAGAAGAAG
213237 AA
1 AA
213239 CACTTACTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.65, C:0.05, G:0.19, T:0.11
Consensus pattern (36 bp):
AATAACAGATGAAAACTAAAATGAAAAGAGAAGAAG
Found at i:225127 original size:42 final size:42
Alignment explanation
Indices: 225080--225315 Score: 207
Period size: 42 Copynumber: 5.6 Consensus size: 42
225070 AATAAAAAAG
* * *
225080 GGTTGCTAAGTGTTGATTCCCCGAATTATTGACTGTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGAATGTAAAGGT
* *
225122 GGTTGCTAAGTGCTGA-TCCCATCGTATC-TCTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCC--CGAATCAT-TGAATGT-AAAGGT
* * * *
225165 GGTTGCTAAGTGCTGATTCCTCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGAATGTAAAGGT
*
225207 GGTTGCTAAGTGCTGATTCCACCGAATCCTT-AATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATCATTGAA-TGT-AAAGGT
* * * *
225250 GATTGCTATGTGCTGATTCCCC-ATATCATTGAAT-TTATGGT
1 GGTTGCTAAGTGCTGATTCCCCGA-ATCATTGAATGTAAAGGT
*
225291 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
225316 GTAACGGATA
Statistics
Matches: 158, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
40 3 0.02
41 28 0.18
42 59 0.37
43 55 0.35
44 13 0.08
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGAATGTAAAGGT
Found at i:225176 original size:85 final size:84
Alignment explanation
Indices: 225079--225315 Score: 282
Period size: 85 Copynumber: 2.8 Consensus size: 84
225069 GAATAAAAAA
* * * *
225079 GGGTTGCTAAGTGTTGATTCCCCGAATTATTGACTGTAAAGGTGGTTGCTAAGTGCTGATCCCAT
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATCCCAC
* *
225144 CGTAT-CTCTGATTGTGAAAG
65 CGAATCCT-TAATTGTGAAAG
* * * *
225164 GGGTTGCTAAGTGCTGATTCCTCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATCCCAC
225229 CGAATCCTTAATTGTGAAAG
65 CGAATCCTTAATTGTGAAAG
* * * *
225249 GGATTGCTATGTGCTGATTCCCC-ATATCATTGAATTTATGGTGGTTGCTAAGTGCTGAAT-CCA
1 GGGTTGCTAAGTGCTGATTCCCCGA-ATCATTGAATTAAAGGTGGTTGCTAAGTGCTG-ATCCCA
225312 CCGA
64 CCGA
225316 GTAACGGATA
Statistics
Matches: 131, Mismatches: 18, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
84 27 0.21
85 102 0.78
86 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATCCCACC
GAATCCTTAATTGTGAAAG
Found at i:225178 original size:43 final size:43
Alignment explanation
Indices: 225116--225269 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 43
225106 TATTGACTGT
*
225116 AAAGGTGGTTGCTAAGTGCTGATCCCATCGTATCTCTGATTGTG
1 AAAGGTGGTTGCTAAGTGCTGATTCCATCGTATC-CTGATTGTG
* *
225160 AAAGG-GGTTGCTAAGTGCTGATTCC-TCGTATCACTGAATAT-
1 AAAGGTGGTTGCTAAGTGCTGATTCCATCGTATC-CTGATTGTG
* * *
225201 AAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCCTTAATTGTG
1 AAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCC-TGATTGTG
* *
225245 AAAGG-GATTGCTATGTGCTGATTCC
1 AAAGGTGGTTGCTAAGTGCTGATTCC
225270 CCATATCATT
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
41 5 0.05
42 34 0.36
43 46 0.48
44 10 0.11
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
AAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCCTGATTGTG
Found at i:226625 original size:14 final size:14
Alignment explanation
Indices: 226606--226634 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
226596 ACTCTATTCC
226606 GACAAGGAACACGG
1 GACAAGGAACACGG
226620 GACAAGGAACACGG
1 GACAAGGAACACGG
226634 G
1 G
226635 TAAGGGGTTT
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:0.41, C:0.21, G:0.38, T:0.00
Consensus pattern (14 bp):
GACAAGGAACACGG
Found at i:233098 original size:25 final size:24
Alignment explanation
Indices: 233041--233098 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
233031 ATTCAACTCA
*
233041 TCTTAGTTTAATTCATAAGTGTTT
1 TCTTAATTTAATTCATAAGTGTTT
* * *
233065 TGTTGAATTTATTTTATAAGTGTTGT
1 TCTT-AATTTAATTCATAAGTGTT-T
233091 TCTTAATT
1 TCTTAATT
233099 AATCTAGTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (24 bp):
TCTTAATTTAATTCATAAGTGTTT
Found at i:238039 original size:15 final size:16
Alignment explanation
Indices: 238007--238039 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
237997 CGTGGAGTAA
238007 ATCGCAAAATTACAAT
1 ATCGCAAAATTACAAT
238023 ATCGCAAAATT-CAAT
1 ATCGCAAAATTACAAT
238038 AT
1 AT
238040 TTTGCACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (16 bp):
ATCGCAAAATTACAAT
Found at i:238275 original size:26 final size:26
Alignment explanation
Indices: 238239--238288 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
238229 TTGAATAAAA
238239 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
238265 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTGCTGATTCCC
238289 TGAATTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:238368 original size:43 final size:42
Alignment explanation
Indices: 238268--238494 Score: 210
Period size: 43 Copynumber: 5.4 Consensus size: 42
238258 TTCCCCGAGG
* * * *
238268 GGTTGCTAAGTGCTGATTCCCTGAATTATTGACTGTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAAAGGT
* * *
238310 GGTTTCTAAGTGCTGATCCCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGT-AAAGGT
* * * *
238353 GGTTGCTAAGTGCTGATTCCTCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAAAGGT
* * * *
238395 GGTTGCTAAGTGCTGATTCCACTGAATCCTTAATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGT-AAAGGT
* * * *
238438 GGTTGCTATGTGTTGATTCCCCGTATCATTGAATT-T-ATGGC
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTG-ATTGTAAAGGT
238479 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
238495 ATCCACCGAG
Statistics
Matches: 147, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
40 3 0.02
41 19 0.13
42 57 0.39
43 58 0.39
44 10 0.07
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTAAAGGT
Found at i:238398 original size:85 final size:82
Alignment explanation
Indices: 238265--238503 Score: 280
Period size: 85 Copynumber: 2.8 Consensus size: 82
238255 TGATTCCCCG
* * * *
238265 AGGGGTTGCTAAGTGCTGATTCCCTGAATTATTGACTGTAAAGGTGGTTTCTAAGTGCTGATCCC
1 AGGGGTTGCTAAGTGCTGATTCCC-GTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGAT-CC
* * *
238330 ACCGTATCTTTGATTGTGAA
63 ACCGAATCCTTAATTGTGAA
*
238350 AGGGGTTGCTAAGTGCTGATTCCTCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC-CGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGA-TCC
*
238415 ACTGAATCCTTAATTGTGAA
63 ACCGAATCCTTAATTGTGAA
* * * * *
238435 AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAATTTATGGCGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTAAGTGCTGATT-CCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTG-ATCCA
238500 CCGA
64 CCGA
238504 GTAACGGATA
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
84 26 0.20
85 103 0.77
86 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (82 bp):
AGGGGTTGCTAAGTGCTGATTCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATCCACC
GAATCCTTAATTGTGAA
Found at i:238399 original size:42 final size:41
Alignment explanation
Indices: 238265--238494 Score: 212
Period size: 42 Copynumber: 5.5 Consensus size: 41
238255 TGATTCCCCG
* * * *
238265 AGGGGTTGCTAAGTGCTGATTCCCTGAATTATTGACTGTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAA
* * * *
238306 AGGTGGTTTCTAAGTGCTGATCCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AA
* * *
238350 AGGGGTTGCTAAGTGCTGATTCCTCGTATCACTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAA
* * *
238391 AGGTGGTTGCTAAGTGCTGATTCCACTGAATCCTT-AATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAA-TGT-AA
* * *
238435 AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAAT-TTA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAA
*
238475 TGGCGGTTGCTAAGTGCTGA
1 AGG-GGTTGCTAAGTGCTGA
238495 ATCCACCGAG
Statistics
Matches: 151, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
40 3 0.02
41 23 0.15
42 59 0.39
43 56 0.37
44 10 0.07
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAA
Found at i:253506 original size:30 final size:30
Alignment explanation
Indices: 253458--253648 Score: 158
Period size: 30 Copynumber: 6.4 Consensus size: 30
253448 TGGTTGACAC
* * *
253458 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAGTTCGATAACCGAAGCT
* * *
253488 ATCTCTTTTTATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAACCGAAGCT
* * *
253518 ATCCTTTTTCATTA-TTTGATAGCCGAAGCT
1 ATCCCTTTTCA-TAGTTCGATAACCGAAGCT
* *
253548 ATCCCTTTTCATAGATCGATATA-CGAAGCC
1 ATCCCTTTTCATAGTTCGATA-ACCGAAGCT
* * * *
253578 ATCCCTTTTCATAGTTCGATGATCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAACCG-AAGCT
* *
253608 ATCCATTTTCAT-GATT-GATAGCCGAAGCT
1 ATCCCTTTTCATAG-TTCGATAACCGAAGCT
253637 ATCCCTTTTCAT
1 ATCCCTTTTCAT
253649 TCGTCGATAA
Statistics
Matches: 129, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
28 1 0.01
29 21 0.16
30 104 0.81
31 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAACCGAAGCT
Found at i:253592 original size:90 final size:89
Alignment explanation
Indices: 253458--253648 Score: 219
Period size: 90 Copynumber: 2.1 Consensus size: 89
253448 TGGTTGACAC
* ** * * *
253458 ATCCCTTTTCGTAATTCGATAACCGAAGTTATCTCTTTTTATAGTTCGAT-AGCCG-AAGCTATC
1 ATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTTTCATAGTTCGATGA-CCGTAA-CCATC
* *
253521 CTTTTTCATTATTTGATAGCCGAAGCT
64 CATTTTCATGA-TTGATAGCCGAAGCT
* *
253548 ATCCCTTTTCATAGA-TCGATATA-CGAAGCCATCCCTTTTCATAGTTCGATGATCGTCACCATC
1 ATCCCTTTTCATA-ATTCGATA-ACCGAAGCCATCCCTTTTCATAGTTCGATGACCGTAACCATC
253611 CATTTTCATGATTGATAGCCGAAGCT
64 CATTTTCATGATTGATAGCCGAAGCT
253637 ATCCCTTTTCAT
1 ATCCCTTTTCAT
253649 TCGTCGATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
89 27 0.31
90 56 0.64
91 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (89 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTTTCATAGTTCGATGACCGTAACCATCCA
TTTTCATGATTGATAGCCGAAGCT
Found at i:260380 original size:30 final size:30
Alignment explanation
Indices: 260339--260565 Score: 196
Period size: 30 Copynumber: 7.6 Consensus size: 30
260329 ACCATATTGT
*
260339 ACCATCACTTTTCATAATTTGATAGTCGTC
1 ACCATCCCTTTTCATAATTTGATAGTCGTC
* *
260369 ACCATCCCTTTTCATAATTTGATGGTCGAC
1 ACCATCCCTTTTCATAATTTGATAGTCGTC
* ** * * *
260399 ATCATCCCTTTTCATTGTTCGATGGTCATC
1 ACCATCCCTTTTCATAATTTGATAGTCGTC
* *
260429 ACCATCCATTTTCATAATTTGATAG-C-TGA
1 ACCATCCCTTTTCATAATTTGATAGTCGT-C
* * * *
260458 AGCTATCCCTTTTAATAGA-TCGATAGTCG-A
1 A-CCATCCCTTTTCATA-ATTTGATAGTCGTC
* * *
260488 AGCCATCCCTTTTCATAGTTTGATGGTCATC
1 A-CCATCCCTTTTCATAATTTGATAGTCGTC
*
260519 ACCATTCCTTTTCAT--TGTTGATAGTCGTC
1 ACCATCCCTTTTCATAAT-TTGATAGTCGTC
260548 ACCATCCCTTTTCATAAT
1 ACCATCCCTTTTCATAAT
260566 CGATAGCTGG
Statistics
Matches: 156, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
28 2 0.01
29 26 0.17
30 124 0.79
31 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
ACCATCCCTTTTCATAATTTGATAGTCGTC
Found at i:260432 original size:60 final size:60
Alignment explanation
Indices: 260339--260565 Score: 223
Period size: 60 Copynumber: 3.8 Consensus size: 60
260329 ACCATATTGT
* ** * *
260339 ACCATCACTTTTCATAATTTGATAGTCGTCACCATCCCTTTTCATAATTTGATGGTCGAC
1 ACCATCCCTTTTCATTGTTCGATAGTCATCACCATCCCTTTTCATAATTTGATGGTCGAC
* * * *
260399 ATCATCCCTTTTCATTGTTCGATGGTCATCACCATCCATTTTCATAATTTGATAG-CTGA-
1 ACCATCCCTTTTCATTGTTCGATAGTCATCACCATCCCTTTTCATAATTTGATGGTC-GAC
* * * * *
260458 AGCTATCCCTTTTAATAGATCGATAGTCGA--AGCCATCCCTTTTCATAGTTTGATGGTC-ATC
1 A-CCATCCCTTTTCATTGTTCGATAGTC-ATCA-CCATCCCTTTTCATAATTTGATGGTCGA-C
* *
260519 ACCATTCCTTTTCATTGTT-GATAGTCGTCACCATCCCTTTTCATAAT
1 ACCATCCCTTTTCATTGTTCGATAGTCATCACCATCCCTTTTCATAAT
260566 CGATAGCTGG
Statistics
Matches: 133, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
59 27 0.20
60 103 0.77
61 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (60 bp):
ACCATCCCTTTTCATTGTTCGATAGTCATCACCATCCCTTTTCATAATTTGATGGTCGAC
Found at i:260583 original size:29 final size:30
Alignment explanation
Indices: 260551--260621 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
260541 AGTCGTCACC
260551 ATCCCTTTTCATAAT-CGATAG-CTGGAA-CT
1 ATCCCTTTTCATAATACGATAGCCT--AAGCT
* *
260580 ATCCCTTTCCGT-ATACGATAGCCTAAGCT
1 ATCCCTTTTCATAATACGATAGCCTAAGCT
260609 ATCCCTTTTCATA
1 ATCCCTTTTCATA
260622 CGTCGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 4 0.12
29 28 0.82
30 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.35
Consensus pattern (30 bp):
ATCCCTTTTCATAATACGATAGCCTAAGCT
Found at i:272946 original size:24 final size:23
Alignment explanation
Indices: 272917--272965 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
272907 ATACATTATT
272917 AAAATATA-GAAAATAGCAAATTGA
1 AAAATA-ACGAAAA-AGCAAATTGA
*
272941 AAAATAACGAAAAATCAAATTGA
1 AAAATAACGAAAAAGCAAATTGA
272964 AA
1 AA
272966 TATCCCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.18
Consensus pattern (23 bp):
AAAATAACGAAAAAGCAAATTGA
Found at i:274202 original size:50 final size:50
Alignment explanation
Indices: 274127--274502 Score: 367
Period size: 50 Copynumber: 7.5 Consensus size: 50
274117 TTTGAAAAGT
* * *
274127 AAGATTTGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * ** ** * * *
274177 AAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * *
274227 AAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * ** * ** * * *
274277 AAGATTTGCCGTTGT-GACTTTAATCTGTTCCACTGTACCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAG-CTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
274327 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * ** * * * * *
274377 AAGATTCACCGCTGTGGCTTTAATCTATTCCACTGTACTGCCTGGGAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
***
274427 AAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
*
274477 AAGATTCGCCGTTGTGGCTTTAATCT
1 AAGATTCGCCGTTGTAGCTTTAATCT
274503 GTTCCACTAT
Statistics
Matches: 250, Mismatches: 74, Indels: 4
0.76 0.23 0.01
Matches are distributed among these distances:
49 1 0.00
50 248 0.99
51 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:274298 original size:100 final size:100
Alignment explanation
Indices: 274123--274533 Score: 633
Period size: 100 Copynumber: 4.1 Consensus size: 100
274113 AACTTTTGAA
** * *
274123 AAGTAAGATTTGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCCG
1 AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
274188 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGTACCGCCTGGG
* *
274223 AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTTGCCG
1 AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
274288 TTGTGACTTTAATCTGTTCCACTGTACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGTACCGCCTGGG
* * *
274323 AAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
274388 CTGTGGCTTTAATCTATTCCACTGTACTGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGTACCGCCTGGG
***
274423 AAGTAAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* * * *
274488 TTGTGGCTTTAATCTGTTCCACTATACTGCCAGGA
66 TTGTGGCTTTAATCTGTTCCACTGTACCGCCTGGG
274523 AAGTAAGATTC
1 AAGTAAGATTC
274534 GCTATTCTCA
Statistics
Matches: 287, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 287 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
TTGTGGCTTTAATCTGTTCCACTGTACCGCCTGGG
Found at i:274716 original size:44 final size:44
Alignment explanation
Indices: 274632--274717 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
274622 GATGTGATCT
* * *
274632 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATTC
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTCAATTC
* * *
274676 ACTCCACTGCAACTTCAGGGAGATAGGAT-TACTGGCTTCAAT
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTA-TGACTTCAAT
274718 GTACCCCGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTCAATTC
Found at i:274827 original size:44 final size:44
Alignment explanation
Indices: 274779--275362 Score: 164
Period size: 44 Copynumber: 13.3 Consensus size: 44
274769 ACTACTGCTT
* *
274779 AGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTGCTACCC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* *
274823 AGGGAGAT-AGA-AT-TACTTCTTCAATCTACTCCACTG-TAACCTC
1 AGGGAGATAAGATATGTA-ATCTTCAATCTATTCCACTGCT-ACC-C
* * * * ** * * * * **
274866 AGGAAGGTAAAATTTGCCATCTTCGATCTGTTCCACTACTGCTT
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* * *
274910 AGGGAGATGAGATATGTAATTTTAAATCTATTCCACTGCTACCC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* * * *
274954 AAGGAGAT-AGA-AT-TACTGGCTTCAATCTACTCTACTG-TAACCTC
1 AGGGAGATAAGATATGTAAT--CTTCAATCTATTCCACTGCT-ACC-C
** * * ** ** * ** * * **
274998 AAAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* * *
275042 AGTGAGATAAGATCTTTAATCTTCAATCTATTCCACTGCTGA-CC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCT-ACCC
* *
275086 AGGGAGAT-AGA-AT-TACTGGCTTCAATCTACTCCACTG-TAACCTC
1 AGGGAGATAAGATATGTAAT--CTTCAATCTATTCCACTGCT-ACC-C
* * * * * ** * * **
275130 AGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* * *
275174 AGGGAGATAAGATCTTTAATCTTCAATCTATTTCACTGCTGA-CC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCT-ACCC
* * * *
275218 GGGGAGAT-AGA-AT-TACTGGATTCAATCTACTCCACTG-TAACCTC
1 AGGGAGATAAGATATGTAAT--CTTCAATCTATTCCACTGCT-ACC-C
* * * ** ** * * ** * **
275262 AAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTATTGCTT
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
* * *
275306 AGGGAGATAAGATCTTTAATCTTCAACCTATTCCACTGCTGA-CC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCT-ACCC
275350 AGGGAGAT-AGATA
1 AGGGAGATAAGATA
275363 GGACTTGTGG
Statistics
Matches: 371, Mismatches: 135, Indels: 69
0.65 0.23 0.12
Matches are distributed among these distances:
41 12 0.03
42 30 0.08
43 74 0.20
44 176 0.47
45 70 0.19
46 5 0.01
47 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTACCC
Found at i:274874 original size:131 final size:130
Alignment explanation
Indices: 274691--276016 Score: 1260
Period size: 131 Copynumber: 10.1 Consensus size: 130
274681 ACTGCAACTT
* * * * * * * *
274691 CAGGGAGATAGGATTACTGGCTTCAATGTAC-CCCGCGTA-TCCTTAGGGAGGTAAAATCCGCCA
1 CAGGGAGATAGAATTACTGGCTTAAATCTACTTCC-C-TACTCCTCAGGAAGATAAAATTCGCCA
* * **
274754 TCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTGCT
64 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTGCT
274819 -ACC
128 GA-C
* * * * *
274822 CAGGGAGATAGAATTACT-TCTTCAATCTAC-TCCACTGTA-ACCTCAGGAAGGTAAAATTTGCC
1 CAGGGAGATAGAATTACTGGCTTAAATCTACTTCC-C--TACTCCTCAGGAAGATAAAATTCGCC
* * * * *
274884 ATCTTCGATCTGTTCCACTACTGCTTAGGGAGATGAGATATGTAATTTTAAATCTATTCCACTGC
63 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAACCTATTCCACTGC
274949 T-ACC
127 TGA-C
* * ** * *
274953 CAAGGAGATAGAATTACTGGCTTCAATCTACTCTACTGTA-ACCTCA--AAGAGGTAAAATCCGC
1 CAGGGAGATAGAATTACTGGCTTAAATCTACT-T-CCCTACTCCTCAGGAAGA--TAAAATTCGC
* * *
275015 CATCTTCGATCTGCTCCACTACTGCTTAGTGAGATAAGATCTTTAATCTTCAATCTATTCCACTG
62 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTG
275080 CTGAC
126 CTGAC
* * * * *
275085 CAGGGAGATAGAATTACTGGCTTCAATCTAC-TCCACTGTA-ACCTCAGGGAGGTAAAA-TCTGT
1 CAGGGAGATAGAATTACTGGCTTAAATCTACTTCC-C--TACTCCTCAGGAAGATAAAATTC-GC
* * *
275147 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCAATCTATTTCACTG
62 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTG
275212 CTGAC
126 CTGAC
* * * * * *
275217 CGGGGAGATAGAATTACTGGATTCAATCTAC-TCCACTGTA-ACCTCAAGG-AGGTAAAATCCGC
1 CAGGGAGATAGAATTACTGGCTTAAATCTACTTCC-C--TACTCCTC-AGGAAGATAAAATTCGC
* * *
275279 CATCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTTTAATCTTCAACCTATTCCACTG
62 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTG
275344 CTGAC
126 CTGAC
** * * *
275349 CAGGGAGATAGATAGGACTTGTGGCTTAAATTTGCTTCCCTACTCCT-AGGTAAGATAAGATTCG
1 CAGGGAGATAGA-ATTAC---TGGCTTAAATCTACTTCCCTACTCCTCAGG-AAGATAAAATTCG
* * *
275413 TCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTATTCCACT
61 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTATTCCACT
275478 GCTGAC
125 GCTGAC
* * * * * *
275484 CAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCT-AGGGAAGATAAGATTTGCCG
1 CAGGGAGATA-GAATTACTGGCTTAAATCTACTTCCCTACTCCTCA-GGAAGATAAAATTCGCCA
*
275547 TCTTCGATCTGCTCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTATTCCACTGCT
64 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTATTCCACTGCT
275612 GAC
128 GAC
* * * ** * * *
275615 CAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGT
1 CAGGGAGATA-GAATTACTGGCTTAAATCTACTTCCCTACTCCTCAGGAAGATAAAATTCGCCAT
* *
275679 CTTTGATCTGCTCCACTACTCCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAACCTATTCCACTGCTG
275744 AC
129 AC
* * * * * *
275746 CAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCT-GGGAAGATAAGATTCGTCAT
1 CAGGGAGATA-GAATTACTGGCTTAAATCTACTTCCCTACTCCTCAGGAAGATAAAATTCGCCAT
* *
275809 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCCG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTATTCCACTGCTG
275874 AC
129 AC
* * * * * ** * **
275876 CAGGGAGATAGGACTT-GTGGCTTAAATCTGCATCCTTACTCCTGGGGAAGATAAGATTCGCCGC
1 CAGGGAGATA-GAATTACTGGCTTAAATCTACTTCCCTACTCCTCAGGAAGATAAAATTCGCCAT
* * * * *
275940 CTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGTTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAACCTATTCCACTGCTG
276005 -C
129 AC
276006 TCAGGGAGATA
1 -CAGGGAGATA
276017 AGGTCTACAA
Statistics
Matches: 1070, Mismatches: 90, Indels: 70
0.87 0.07 0.06
Matches are distributed among these distances:
129 2 0.00
130 141 0.13
131 470 0.44
132 336 0.31
133 11 0.01
134 8 0.01
135 86 0.08
136 13 0.01
137 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (130 bp):
CAGGGAGATAGAATTACTGGCTTAAATCTACTTCCCTACTCCTCAGGAAGATAAAATTCGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTATTCCACTGCTGAC
Found at i:275476 original size:44 final size:44
Alignment explanation
Indices: 275428--275608 Score: 113
Period size: 44 Copynumber: 4.1 Consensus size: 44
275418 TTCGATCTAC
275428 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTAT
* * * *** * *
275472 TCCACTGCTGAC-CAGGGAGATAGGA-CTTGTGGCTT-AAATCTGCT
1 TCCACTACTG-CTTAGGGAGATAAGATC-TGTAATTTCAAACCT-AT
* * *** * * **
275516 TCC-CTACT-CCTAGGGAAGATAAGATTTGCCGTCTTC-GATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCTGTAAT-TTCAAACCTAT
*
275559 TCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTAT
275603 TCCACT
1 TCCACT
275609 GCTGACCAGG
Statistics
Matches: 98, Mismatches: 28, Indels: 22
0.66 0.19 0.15
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 26 0.27
44 60 0.61
45 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTAT
Found at i:275863 original size:392 final size:393
Alignment explanation
Indices: 274754--276016 Score: 1348
Period size: 392 Copynumber: 3.2 Consensus size: 393
274744 AAATCCGCCA
* * **
274754 TCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTGCT
** * * **
274819 -ACCCAGGGAGATAGAATTACT-TCTTCAATCTACTCCACTGTAACCTC-AGGAAGGTAAAATTT
65 GA-CCAGGGAGATAGAATTACTGGATTAAATCTACTCCAC-GTAACCTCAAGG-AGATAAAATCC
** * * * * * *
274881 GCCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATGAGATATGTAATTTTAAATCTATTCCAC
127 GCCATCTTCGATCTACTCCACTACTCCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCAC
* * * * * ** * **
274946 TGCT-ACCCA---AGGAGATA-GAATTACTGGCTTCAATCTACTCTACTGTA-ACCTCAAAG-AG
192 TGCTGA-CCAGGGAGAAGATAGGACTT-GTGGCTTAAATCTGCT-T-CCCTACTCCT-AGGGAAG
* * * * * * *
275004 GTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGTGAGATAAGATCTTTAATCTTCAAT
252 ATAAGATTCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAAC
* * * * *
275069 CTATTCCACTGCTGACCAGGGAGATA-GAATTACTGGCTTCAATCTACTCCACTGTA-ACCTCAG
316 CTATTCCACTGCTGACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTCC-C--TACTCCT-AG
* * * * *
275132 GG-AGGTAAAATCTGTCA
376 GGAAGATAAGATTTGCCG
* * *
275149 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTTAATCTTCAATCTATTTCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTATTCCACTGCT
* * *
275214 GACCGGGGAGATAGAATTACTGGATTCAATCTACTCCACTGTAACCTCAAGGAGGTAAAATCCGC
65 GACCAGGGAGATAGAATTACTGGATTAAATCTACTCCAC-GTAACCTCAAGGAGATAAAATCCGC
* * *
275279 CATCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTTTAATCTTCAACCTATTCCACTG
129 CATCTTCGATCTACTCCACTACTCCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTG
* *
275344 CTGACCAGGGAGATAGATAGGACTTGTGGCTTAAATTTGCTTCCCTACTCCTAGGTAAGATAAGA
194 CTGACCAGGGAGA-AGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGA
* *
275409 TTCGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTATTC
258 TTCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTATTC
275474 CACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAG
322 CACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC-TCCCTACTCCTAGGGAAGATAAG
275539 ATTTGCCG
386 ATTTGCCG
*
275547 TCTTCGATCTGCTCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTATTCCACTGCT
* * * * * ** * *
275612 GACCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCC-C-TACTCCT-GGGGAAGATAAGATT
65 GACCAGGGAGATA-GAATTACTGGATTAAATCTAC-TCCACGTA-ACCTCAAGG-AGATAAAATC
* * * *
275673 CGTCGTCTTTGATCTGCTCCACTACTCCTTAGGGAGATAAGATCTGTAAT-TTCCAACCTATTCC
126 CGCCATCTTCGATCTACTCCACTACTCCTTAGGGAGATAAGATCTGTAATCTT-CAACCTATTCC
275737 ACTGCTGACCA-GG-G-AGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCT-GGGAAGATA
190 ACTGCTGACCAGGGAGAAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATA
*
275798 AGATTCGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTA
255 AGATTCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AACCTA
* * *
275863 TTCCACTGCCGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCATCCTTACTCCTGGGGAAGAT
319 TTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC-TCCCTACTCCTAGGGAAGAT
*
275928 AAGATTCGCCG
383 AAGATTTGCCG
* * * * * *
275939 CCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGTT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAACCTATTCCACTGCT
276004 G-CTCAGGGAGATA
65 GAC-CAGGGAGATA
276017 AGGTCTACAA
Statistics
Matches: 753, Mismatches: 91, Indels: 51
0.84 0.10 0.06
Matches are distributed among these distances:
391 1 0.00
392 204 0.27
393 41 0.05
395 79 0.10
396 105 0.14
397 88 0.12
398 101 0.13
399 106 0.14
400 24 0.03
401 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (393 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTATTCCACTGCTG
ACCAGGGAGATAGAATTACTGGATTAAATCTACTCCACGTAACCTCAAGGAGATAAAATCCGCCA
TCTTCGATCTACTCCACTACTCCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCT
GACCAGGGAGAAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTC
GTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTATTCCACT
GCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTCCCTACTCCTAGGGAAGATAAGATTTG
CCG
Found at i:275995 original size:44 final size:44
Alignment explanation
Indices: 275947--276235 Score: 180
Period size: 44 Copynumber: 6.6 Consensus size: 44
275937 CGCCTTTGAT
* *
275947 CTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAAC
1 CTACTCCACTGCTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* * * *
275991 CTACTCCACTGTTGCTCAGGGAGATAAGGTCTACAATCTTCAAC
1 CTACTCCACTGCTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* * * * * * * *
276035 ATATTCCACTGTTG-TCCAGGGAGATAGGAT-T--AGTGGCTTAAAT
1 CTACTCCACTGCTGCT-TAGGGAGATAAGATCTGCAAT--CTTCAAC
* * * * * ** * *
276078 TTGCTTCC-CTACTTC-TGGGGAAGATAAGAT-TCGCTGTCTTCGAT
1 CTAC-TCCACTGCTGCTTAGGG-AGATAAGATCT-GCAATCTTCAAC
* * * *
276122 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAAC
1 CTACTCCACTGCTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
* * *
276166 CTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAATCTTCAAC
1 CTACTCCACTGCTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
*
276210 CTATTCCACTGCTG-TCTAGGGAGATA
1 CTACTCCACTGCTGCT-TAGGGAGATA
276236 GGACTAGTGG
Statistics
Matches: 191, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 24 0.13
44 156 0.82
45 4 0.02
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
CTACTCCACTGCTGCTTAGGGAGATAAGATCTGCAATCTTCAAC
Found at i:276014 original size:175 final size:175
Alignment explanation
Indices: 275819--276336 Score: 797
Period size: 175 Copynumber: 3.0 Consensus size: 175
275809 CTTTGATCTG
* * ** * *
275819 CTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCTAACCTATTCCACTGCCGACCAGGGAG
1 CTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTC-AACCTATTCCACTGCTGTCCAGGGAG
* * * * *
275883 ATAGGACTTGTGGCTTAAATCTGCATCCTTACTCCTGGGGAAGATAAGATTCGCCGCCTTTGATC
65 ATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATC
*
275948 TACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
130 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
* * * *
275994 CTCCACTGTTGCTCAGGGAGATAAGGTCTACAATCTTCAACATATTCCACTGTTGTCCAGGGAGA
1 CTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGA
* *
276059 TAGGA-TTAGTGGCTTAAATTTGCTTCCCTACTTCTGGGGAAGATAAGATTCGCTGTCTTCGATC
66 TAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATC
*
276123 TGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
130 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
* *
276169 CTCCACTGCTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGA
1 CTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGA
*
276234 TAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCT
*
276299 GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
131 GCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTT
276337 TAAATTGCTC
Statistics
Matches: 310, Mismatches: 30, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
174 2 0.01
175 304 0.98
176 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (175 bp):
CTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGA
TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCTGTCTTCGATCT
GCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
Found at i:278588 original size:8 final size:8
Alignment explanation
Indices: 278555--278631 Score: 52
Period size: 8 Copynumber: 9.6 Consensus size: 8
278545 TTTTCTTTTC
278555 TTTTTCTT
1 TTTTTCTT
*
278563 TTTATCATT
1 TTTTTC-TT
**
278572 TTGAT-TT
1 TTTTTCTT
278579 TTTTTCTT
1 TTTTTCTT
278587 TTTTTCTT
1 TTTTTCTT
278595 TCTTTT-TT
1 T-TTTTCTT
*
278603 GTTTT-TT
1 TTTTTCTT
*
278610 TCTTTCTT
1 TTTTTCTT
*
278618 ATTTTCATT
1 TTTTTC-TT
278627 TTTTT
1 TTTTT
278632 GATTTTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
7 14 0.26
8 24 0.44
9 16 0.30
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:278600 original size:19 final size:19
Alignment explanation
Indices: 278578--278631 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
278568 CATTTTGATT
278578 TTTTTTCTTTTTTTCTTTC
1 TTTTTTCTTTTTTTCTTTC
*
278597 TTTTTTGTTTTTTTCTTTC
1 TTTTTTCTTTTTTTCTTTC
278616 TTATTTTCATTTTTTT
1 TT-TTTTC-TTTTTTT
278632 GATTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.65
20 4 0.13
21 7 0.23
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTCTTTTTTTCTTTC
Found at i:278641 original size:19 final size:19
Alignment explanation
Indices: 278570--278658 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 19
278560 CTTTTTATCA
278570 TTTTGATTTTTTTTC-TTT
1 TTTTGATTTTTTTTCATTT
* **
278588 TTTT-CTTTCTTTTTTGTTT
1 TTTTGATTT-TTTTTCATTT
**
278607 TTTTCTTTCTTATTTTCATTT
1 TTTTGATT-TT-TTTTCATTT
278628 TTTTGATTTTTTTT-A-TT
1 TTTTGATTTTTTTTCATTT
**
278645 GATTGATTTTTTTT
1 TTTTGATTTTTTTT
278659 ATATTTCGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.30
18 10 0.18
19 11 0.19
20 5 0.09
21 14 0.25
ACGTcount: A:0.08, C:0.07, G:0.06, T:0.80
Consensus pattern (19 bp):
TTTTGATTTTTTTTCATTT
Found at i:278669 original size:17 final size:16
Alignment explanation
Indices: 278630--278674 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
278620 TTTCATTTTT
278630 TTGATTTTTTTTATTGA
1 TTGATTTTTTTTATT-A
278647 TTGATTTTTTTTA-TA
1 TTGATTTTTTTTATTA
278662 TTTCGATTTTTTT
1 -TT-GATTTTTTT
278675 ATTGAATCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 22 0.85
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (16 bp):
TTGATTTTTTTTATTA
Found at i:279487 original size:25 final size:25
Alignment explanation
Indices: 279437--279502 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
279427 AAGAAAATCC
* *
279437 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATAAAAGAATAATTACTCA
*
279462 AAAAGAATAAAAGAAT-ATTGGCTCA
1 AAAAGAATAAAAGAATAATT-ACTCA
279487 AAAACGAATACAAAGA
1 AAAA-GAATA-AAAGA
279503 TGCATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.18
Consensus pattern (25 bp):
AAAAGAATAAAAGAATAATTACTCA
Found at i:285688 original size:11 final size:11
Alignment explanation
Indices: 285672--285698 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
285662 CTTAGAATTC
285672 TTTAACGAAAG
1 TTTAACGAAAG
285683 TTTAACGAAAG
1 TTTAACGAAAG
285694 TTTAA
1 TTTAA
285699 AAACCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (11 bp):
TTTAACGAAAG
Found at i:288795 original size:46 final size:46
Alignment explanation
Indices: 288725--288816 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
288715 CAAAGAAAAG
288725 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
288771 ACCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
288817 TCGCCACACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:294764 original size:24 final size:24
Alignment explanation
Indices: 294724--294769 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
294714 GCCACATGGT
*
294724 CGTGTGTCAGGCCGTGTGGTAGGC
1 CGTGTGTCAGGCCGTGTAGTAGGC
*
294748 CGTGTGTC-GAGCGGTGTAGTAG
1 CGTGTGTCAG-GCCGTGTAGTAG
294770 ACCATGTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.11, C:0.17, G:0.46, T:0.26
Consensus pattern (24 bp):
CGTGTGTCAGGCCGTGTAGTAGGC
Found at i:295909 original size:5 final size:5
Alignment explanation
Indices: 295901--295943 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
295891 TATCTTCAAC
* *
295901 TCTGT TCTGT TCTAT TCTAT TCTGT TCTGT TCTGT TCTGT TCT
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCT
295944 TTTTGTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.05, C:0.21, G:0.14, T:0.60
Consensus pattern (5 bp):
TCTGT
Found at i:295932 original size:20 final size:20
Alignment explanation
Indices: 295881--295943 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
295871 CATTCGCTGC
* * * *
295881 TCTGTTCTGTTATCTTCAAC
1 TCTGTTCTGTTCTATTCTAT
295901 TCTGTTCTGTTCTATTCTAT
1 TCTGTTCTGTTCTATTCTAT
* *
295921 TCTGTTCTGTTCTGTTCTGT
1 TCTGTTCTGTTCTATTCTAT
295941 TCT
1 TCT
295944 TTTTGTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.08, C:0.22, G:0.13, T:0.57
Consensus pattern (20 bp):
TCTGTTCTGTTCTATTCTAT
Found at i:297964 original size:100 final size:98
Alignment explanation
Indices: 297780--297964 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 98
297770 TTACCAAAAG
*
297780 AAAAAAGAAAAGAAATAAAACCTAAAAGGAAATAGGCTATTGACATATTACAAATATATACAAAA
1 AAAAAAGAAAAGAAATAAAACCTAAAAGGAAATAGGATATTGACATATTACAAATATATACAAAA
* *
297845 CCAGAATCGGTACCCATCCTAAACTTGACTCCA
66 CCAGAATCAGTACACATCCTAAACTTGACTCCA
* * *
297878 AAAAAATGAAAATGAAATAAAGCCTAAAATGAAATAGTATATTGACATATTACAAATATATACAA
1 AAAAAA-GAAAA-GAAATAAAACCTAAAAGGAAATAGGATATTGACATATTACAAATATATACAA
*
297943 AACCAGAATCAGTATACATCCT
64 AACCAGAATCAGTACACATCCT
297965 CAATTGCCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 6 0.08
99 5 0.06
100 67 0.86
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.22
Consensus pattern (98 bp):
AAAAAAGAAAAGAAATAAAACCTAAAAGGAAATAGGATATTGACATATTACAAATATATACAAAA
CCAGAATCAGTACACATCCTAAACTTGACTCCA
Found at i:300495 original size:2 final size:2
Alignment explanation
Indices: 300483--300511 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
300473 CACATCATAA
300483 AT AT A- 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
300512 TAAAAGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:301802 original size:9 final size:9
Alignment explanation
Indices: 301785--301815 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
301775 NNGAGTTGAT
301785 TCGAATAAC
1 TCGAATAAC
*
301794 TCGATTAAC
1 TCGAATAAC
301803 TCGAATAAC
1 TCGAATAAC
301812 TCGA
1 TCGA
301816 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:302748 original size:10 final size:10
Alignment explanation
Indices: 302726--302775 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
302716 AATTTTTAAT
302726 TTAAAAATT-
1 TTAAAAATTA
302735 TTAAAAATTA
1 TTAAAAATTA
302745 TT-AAAA-TA
1 TTAAAAATTA
302753 TATAAAAATTA
1 T-TAAAAATTA
* *
302764 TAAAAAAATA
1 TTAAAAATTA
302774 TT
1 TT
302776 TTTATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 3 0.09
9 14 0.41
10 14 0.41
11 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:302750 original size:19 final size:20
Alignment explanation
Indices: 302726--302774 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
302716 AATTTTTAAT
*
302726 TTAAAAAT-TTTAAAAATTA
1 TTAAAAATATATAAAAATTA
302745 TT-AAAATATATAAAAATTA
1 TTAAAAATATATAAAAATTA
*
302764 -TAAAAAAATAT
1 TTAAAAATATAT
302775 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAAAAATATATAAAAATTA
Found at i:303067 original size:31 final size:31
Alignment explanation
Indices: 303030--303097 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
303020 TTACGTTTGA
*
303030 GGGTGGGTTTGGATGGACGATTAGGTGCGGT
1 GGGTGGGTTTGGATGGACGATGAGGTGCGGT
303061 GGGTGGGTTTGGATGGACGATGAGGTGCGGT
1 GGGTGGGTTTGGATGGACGATGAGGTGCGGT
303092 GCGGTG
1 G-GGTG
303098 CGGTGCGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.12, C:0.07, G:0.54, T:0.26
Consensus pattern (31 bp):
GGGTGGGTTTGGATGGACGATGAGGTGCGGT
Found at i:308276 original size:18 final size:18
Alignment explanation
Indices: 308237--308278 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
308227 AATACTTTCT
*
308237 AATTTATTTTAAATAATT
1 AATTTATTTTAAATAATA
*
308255 AATTTATTTT-AGTAAGTA
1 AATTTATTTTAAATAA-TA
308273 AATTTA
1 AATTTA
308279 GTGAGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
AATTTATTTTAAATAATA
Found at i:308353 original size:20 final size:20
Alignment explanation
Indices: 308302--308358 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
308292 ATCTAATAAC
*
308302 GAGCTC-AATGAGTTGAATT
1 GAGCTCGAATGAGCTGAATT
* ** *
308321 GAGCTTGTGTGAGCTGACTT
1 GAGCTCGAATGAGCTGAATT
308341 GAGCTCGAATGAGCTGAA
1 GAGCTCGAATGAGCTGAA
308359 CCGCATGGAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGAATT
Found at i:308718 original size:19 final size:18
Alignment explanation
Indices: 308684--308722 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
308674 TTAGAAAGGC
308684 ATTTTAAATAATATATAA
1 ATTTTAAATAATATATAA
308702 ATTTTATAATATCATATATAA
1 ATTTTA-AATA--ATATATAA
308723 TATTACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
21 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAATAATATATAA
Found at i:313633 original size:21 final size:19
Alignment explanation
Indices: 313586--313633 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
313576 TCAAAAATTT
*
313586 AAAATTAAAATTCAGAAAA
1 AAAATAAAAATTCAGAAAA
*
313605 AAATATAAAAAGTTCATAAAA
1 AAA-ATAAAAA-TTCAGAAAA
313626 ATAAATAA
1 A-AAATAA
313634 TATTAGCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 6 0.25
21 13 0.54
22 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAATAAAAATTCAGAAAA
Found at i:315633 original size:2 final size:2
Alignment explanation
Indices: 315628--315656 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
315618 CAAGATGGTG
315628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
315657 CAACCATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:317985 original size:76 final size:76
Alignment explanation
Indices: 317891--318031 Score: 171
Period size: 76 Copynumber: 1.9 Consensus size: 76
317881 CAATATATGT
* *
317891 TAACCAAAACGCAGCGTTTGGCCTAGAG-GTATGTTACAATTTA-TGGCGCTT-ATGGGAAAACG
1 TAACCAAAACGCACCGTTTGGCCTAG-GTGTATGTTAC-AGTTAGTGGCGCTTAAT-GGAAAACG
317953 CCGCAAAAATATCC
63 CCGCAAAAATATCC
** * * *
317967 TAACCAAAGTGCACCGTTTGGTCTTGGTGTATGTTACAGTTAGTGGCGCTTAATGTAAAACGCCG
1 TAACCAAAACGCACCGTTTGGCCTAGGTGTATGTTACAGTTAGTGGCGCTTAATGGAAAACGCCG
318032 GTAAAGTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
75 5 0.09
76 48 0.87
77 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (76 bp):
TAACCAAAACGCACCGTTTGGCCTAGGTGTATGTTACAGTTAGTGGCGCTTAATGGAAAACGCCG
CAAAAATATCC
Found at i:324957 original size:21 final size:21
Alignment explanation
Indices: 324933--324981 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
324923 GGCAGAGAAG
*
324933 GAAGCAGAGGCTACAGCGAGA
1 GAAGCAGAGGCCACAGCGAGA
* *
324954 GAAGCAGATGCCGCAGCGAGA
1 GAAGCAGAGGCCACAGCGAGA
324975 GAAGCAG
1 GAAGCAG
324982 CGAGAGAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.39, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCCACAGCGAGA
Found at i:324983 original size:12 final size:12
Alignment explanation
Indices: 324966--325026 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
324956 AGCAGATGCC
324966 GCAGCGAGAGAA
1 GCAGCGAGAGAA
324978 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* **
324990 GCA--AAG-GCT
1 GCAGCGAGAGAA
324999 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
325011 GCAGCGAGGGAA
1 GCAGCGAGAGAA
325023 GCAG
1 GCAG
325027 AGGTTCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 4 0.10
10 2 0.05
11 2 0.05
12 31 0.79
ACGTcount: A:0.38, C:0.18, G:0.43, T:0.02
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:324983 original size:33 final size:33
Alignment explanation
Indices: 324946--325029 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
324936 GCAGAGGCTA
*
324946 CAGCGAGAGAAGCAGATGCCGCAGCGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
* *
324979 CAGCGAGAGAAGCAAAGGCTGCAGCGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
*
325012 CAGCGAGGGAAGCAGAGG
1 CAGCGAGAGAAGCAGAGG
325030 TTCAAAAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.42, T:0.02
Consensus pattern (33 bp):
CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
Found at i:325844 original size:42 final size:44
Alignment explanation
Indices: 325782--325881 Score: 141
Period size: 42 Copynumber: 2.3 Consensus size: 44
325772 NNNNNNNNNN
* * *
325782 AAGCGCCGCTAAAGAGCATGATCTTTAGGGGCGTTT-TTT-TCT
1 AAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTATCT
*
325824 AAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTATGT
1 AAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTATCT
*
325868 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
325882 TTAGCGACGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 33 0.65
43 3 0.06
44 15 0.29
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
AAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTATCT
Found at i:334717 original size:50 final size:50
Alignment explanation
Indices: 334589--334796 Score: 206
Period size: 50 Copynumber: 4.2 Consensus size: 50
334579 GATAATAACA
* * * *
334589 TGCCAAAGTCATGTCCTAGACATGGTCTTACATGGGATGTT-TCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
334638 TGCCAATGCTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
334688 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** ** * *
334738 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
334788 TGCCAATGC
1 TGCCAATGC
334797 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 4 0.03
49 36 0.27
50 92 0.70
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:335546 original size:13 final size:13
Alignment explanation
Indices: 335528--335553 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
335518 AAAACGGGGC
335528 CTAGAATCACTTA
1 CTAGAATCACTTA
335541 CTAGAATCACTTA
1 CTAGAATCACTTA
335554 TGAGCTTGAG
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:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
CTAGAATCACTTA
Found at i:338955 original size:42 final size:42
Alignment explanation
Indices: 338867--339026 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 42
338857 CTAGTTAGAT
* * * * ***
338867 ATGATGCACAGAGGTGCCAAATATATTGCTTC-GAACTTTTGG
1 ATGATGCACTGAAGTGCCAGATATATTACTTCAGAA-TTTCCA
* * *
338909 ATGATGCACTGAAGTGCCAGATATATTTCTTTAGAATTTCTA
1 ATGATGCACTGAAGTGCCAGATATATTACTTCAGAATTTCCA
* * ** * *
338951 ATGATGCATTGAGGTGCTGGATATATTACTTCAGACTTTCCG
1 ATGATGCACTGAAGTGCCAGATATATTACTTCAGAATTTCCA
* *
338993 ATAATGCACT-AAGGTGCCAAATATATTACTTCAG
1 ATGATGCACTGAA-GTGCCAGATATATTACTTCAG
339027 TTATATTTCA
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 89 0.96
43 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (42 bp):
ATGATGCACTGAAGTGCCAGATATATTACTTCAGAATTTCCA
Found at i:344928 original size:24 final size:24
Alignment explanation
Indices: 344901--344950 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
344891 AAGGGATGCT
344901 AGAACTGGGAAAGAAATGAGCCAG
1 AGAACTGGGAAAGAAATGAGCCAG
344925 AGAACTGGGAAAGAAATGAGCCAG
1 AGAACTGGGAAAGAAATGAGCCAG
344949 AG
1 AG
344951 GCTATTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.34, T:0.08
Consensus pattern (24 bp):
AGAACTGGGAAAGAAATGAGCCAG
Found at i:352757 original size:103 final size:104
Alignment explanation
Indices: 352567--352775 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 104
352557 ATAGATTTCT
352567 TGATTGGGCTGGAATTCGCTTATTGGGTCTCGCCTTCAAGACTTTGGGCTTGTGATCTATCTTCT
1 TGATTGGGCTGGAATTCGCTTATTGGGTCTCGCCTTCAAGACTTTGGGCTTGTGATCTATCTTCT
352632 ACCAAATTTAGGTCGTTGATGCTCGTAACGGAGATCCAA
66 ACCAAATTTAGGTCGTTGATGCTCGTAACGGAGATCCAA
352671 TGATTGGGCT-GAATTCGCTTATTGGGTCTCGCCTTCAAGACTTTGGGCTTGTGATCTATCTTCT
1 TGATTGGGCTGGAATTCGCTTATTGGGTCTCGCCTTCAAGACTTTGGGCTTGTGATCTATCTTCT
*
352735 ACCAAATTTAGGTCGTTGATGCTCGTAACGGGGATCCAA
66 ACCAAATTTAGGTCGTTGATGCTCGTAACGGAGATCCAA
352774 TG
1 TG
352776 CACTTTGGCT
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
103 94 0.90
104 10 0.10
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (104 bp):
TGATTGGGCTGGAATTCGCTTATTGGGTCTCGCCTTCAAGACTTTGGGCTTGTGATCTATCTTCT
ACCAAATTTAGGTCGTTGATGCTCGTAACGGAGATCCAA
Found at i:356781 original size:42 final size:42
Alignment explanation
Indices: 356639--356779 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 42
356629 GAACGGTACT
* *
356639 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTCTGATAAAAGCGCCGCTAAAG-TCATGTTC
*
356682 TTTAGCAGCGTTTCTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTCTGATAAAAGCGCCGCTAAA-GTCATGTTC
** * * * *
356725 TTTAATGGCATTT-TTATAAAAGCACCGCTACAAGTCATGCTC
1 TTTAGCGGCGTTTCTGATAAAAGCGCCGCTA-AAGTCATGTTC
*
356767 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
356780 TTCACATAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.39
43 49 0.60
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTCTGATAAAAGCGCCGCTAAAGTCATGTTC
Found at i:362736 original size:27 final size:27
Alignment explanation
Indices: 362706--362903 Score: 177
Period size: 27 Copynumber: 7.3 Consensus size: 27
362696 CCTTGGGCTA
*
362706 TAAAATTATTGAAATACCCTCAATGGG
1 TAAAATTACTGAAATACCCTCAATGGG
* * * *
362733 TAAAATTACCGAAATACCATTAATGGA
1 TAAAATTACTGAAATACCCTCAATGGG
* **
362760 TAAAATTATTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCAATGGG
* * **
362787 TAAAATTAC-CATAATACCTTTGATGGG
1 TAAAATTACTGA-AATACCCTCAATGGG
*
362814 TAAAATTACTGAAATACCCTCAATGAG
1 TAAAATTACTGAAATACCCTCAATGGG
*
362841 -AAAATTTACTGAAATACCCTCGATGGG
1 TAAAA-TTACTGAAATACCCTCAATGGG
** ** *
362868 TGGAATTACCAAAATACTCCTGAA-GGG
1 TAAAATTACTGAAATAC-CCTCAATGGG
362895 TAAAATTAC
1 TAAAATTAC
362904 CATTATACCC
Statistics
Matches: 138, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 5 0.04
27 126 0.91
28 7 0.05
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCAATGGG
Found at i:362787 original size:54 final size:54
Alignment explanation
Indices: 362705--362846 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
362695 CCCTTGGGCT
362705 ATAAAATTATTGAAATACCCTCAATGGGTAAAATTACCGA-AATACCATTAATGG
1 ATAAAATTATTGAAATACCCTCAATGGGTAAAATTACC-ATAATACCATTAATGG
** * *
362759 ATAAAATTATTGAAATACCCTTGATGGGTAAAATTACCATAATACCTTTGATGG
1 ATAAAATTATTGAAATACCCTCAATGGGTAAAATTACCATAATACCATTAATGG
* * *
362813 GTAAAATTACTGAAATACCCTCAATGAG-AAAATT
1 ATAAAATTATTGAAATACCCTCAATGGGTAAAATT
362847 TACTGAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (54 bp):
ATAAAATTATTGAAATACCCTCAATGGGTAAAATTACCATAATACCATTAATGG
Found at i:362830 original size:81 final size:81
Alignment explanation
Indices: 362728--362904 Score: 223
Period size: 81 Copynumber: 2.2 Consensus size: 81
362718 AATACCCTCA
* * *
362728 ATGGGTAAAATTACCGAAATACCATTAATG-GATAAAATTATTGAAATACCCTTGATGGGTAAAA
1 ATGGGTAAAATTACCGAAATACCATCAATGAGA-AAAATTACTGAAATACCCTCGATGGGTAAAA
* *
362792 TTACCATAATAC-CTTTG
65 TTACCAAAATACTC-CTG
* * * **
362809 ATGGGTAAAATTACTGAAATACCCTCAATGAGAAAATTTACTGAAATACCCTCGATGGGTGGAAT
1 ATGGGTAAAATTACCGAAATACCATCAATGAGAAAAATTACTGAAATACCCTCGATGGGTAAAAT
362874 TACCAAAATACTCCTG
66 TACCAAAATACTCCTG
*
362890 AAGGGTAAAATTACC
1 ATGGGTAAAATTACC
362905 ATTATACCCG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 79 0.96
82 3 0.04
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (81 bp):
ATGGGTAAAATTACCGAAATACCATCAATGAGAAAAATTACTGAAATACCCTCGATGGGTAAAAT
TACCAAAATACTCCTG
Found at i:363672 original size:19 final size:19
Alignment explanation
Indices: 363631--363674 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
363621 TTCAAATAAG
*
363631 TTTTCACAACAAACATTGT
1 TTTTCACAACAAACATCGT
*
363650 TTTTCATAACAAACA-CGT
1 TTTTCACAACAAACATCGT
363668 ATTTTCA
1 -TTTTCA
363675 ACTTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTTCACAACAAACATCGT
Found at i:368873 original size:81 final size:81
Alignment explanation
Indices: 368735--369130 Score: 453
Period size: 81 Copynumber: 4.9 Consensus size: 81
368725 GGCTTGGGCT
* * * **
368735 GTAAAATTATCGAAATACTATTGATGGATAAAATTACCGAAATACGTTCGATGGGTAAAATTACT
1 GTAAAATTATCGAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACT
368800 GAAATACCCTCGATGG
66 GAAATACCCTCGATGG
*
368816 GTAAAATTATCGAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATAGGTAAAATTACT
1 GTAAAATTATCGAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACT
* *
368881 -AATATACCCTTGATAG
66 GAA-ATACCCTCGATGG
* * * * * * *
368897 CTAAAATTATCGAAATGCCATCGATAGGTAAAATTACCAAAATACCTTCAAAGGG-AAAATTACT
1 GTAAAATTATCGAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACT
368961 GAAATACCCTCGATGG
66 GAAATACCCTCGATGG
* * * ** * *
368977 G-AAAATTTATCGAAATACCCTCGATAGG-AAAATTTATCGAAATACCCTTAATGGGTGATATTA
1 GTAAAA-TTATCGAAATACCATCGATGGGTAAAA-TTACCGAAATACCCTCGATGGGTAAAATTA
* *
369040 CTAAAATACCCTTGATGG
64 CTGAAATACCCTCGATGG
* * * *
369058 GTAAAATTA-CTGAAATACCCTTGATGGG-AAAATTATCGAAATACCCTCGATGGGTGAAATTAC
1 GTAAAATTATC-GAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTAC
*
369121 CGAAATACCC
65 TGAAATACCC
369131 CTAAAGGGTA
Statistics
Matches: 271, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.03
80 96 0.35
81 163 0.60
82 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCATCGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACT
GAAATACCCTCGATGG
Found at i:369130 original size:27 final size:27
Alignment explanation
Indices: 368735--369149 Score: 392
Period size: 27 Copynumber: 15.4 Consensus size: 27
368725 GGCTTGGGCT
* ** *
368735 GTAAAATTATCGAAATACTATTGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* **
368762 ATAAAATTACCGAAATACGTTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
368789 GTAAAATTACTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
368816 GTAAAATTATCGAAATACCATCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
368843 GTAAAATTACCGAAATACCCTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
368870 GTAAAATTA-CTAATATACCCTTGATAG
1 GTAAAATTACCGAA-ATACCCTCGATGG
* * * * *
368897 CTAAAATTATCGAAATGCCATCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* * * *
368924 GTAAAATTACCAAAATACCTTCAAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
368951 G-AAAATTACTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
368977 G-AAAATTTATCGAAATACCCTCGATAG
1 GTAAAA-TTACCGAAATACCCTCGATGG
* **
369004 G-AAAATTTATCGAAATACCCTTAATGG
1 GTAAAA-TTACCGAAATACCCTCGATGG
* * ** *
369031 GTGATATTACTAAAATACCCTTGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
369058 GTAAAATTACTGAAATACCCTTGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
369085 G-AAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
369111 GTGAAATTACCGAAATACCC-CTAAAGG
1 GTAAAATTACCGAAATACCCTC-GATGG
369138 GTAAAATTACCG
1 GTAAAATTACCG
369150 TTATACCCCT
Statistics
Matches: 324, Mismatches: 58, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 52 0.16
27 267 0.82
28 5 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGATGG
Done.