Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 124 of 185
Found at i:38871634 original size:18 final size:20
Alignment explanation
Indices: 38871588--38871630 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
38871578 CCTAACCTTA
38871588 ACCTAATTTAATTAAAAACTC
1 ACCTAATTTAATTAAAAAC-C
38871609 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
38871631 CTAAACCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:38871668 original size:183 final size:180
Alignment explanation
Indices: 38871465--38871821 Score: 470
Period size: 183 Copynumber: 2.0 Consensus size: 180
38871455 AATTAATTAC
*
38871465 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAAATTAATTACAAACCC
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAAATTAATTAAAAACCC
* ** *
38871530 T-AACCC-TAACCTAATTTAATTAAAAGCCCTAAACC-CTTAACTT-AAAACCCTAACCTTAACC
65 TAAACCCTTAACCTAA--AAACCAAAA--CCTAAACCACTTAA-TTAAAAACCCTAACCCTAACC
* *
38871591 TAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTCAA
125 TAATTTAATTAAAAACCCGAACCTAATTTAATTAAAAACCCT-AACCCTTAACTCAA
* * *
38871648 AAACCTTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCT
* ** * *
38871713 AAACCCTTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
66 AAACCCTTAACCTAAAAACCAAAACCTAAACC--ACTTAATTAAAAACCCTAACCCTAACCTAAT
38871778 TTAATTAAAAACCCGAACCTAATTTAATTAAAAACCCTAACCCT
129 TTAATTAAAAACCCGAACCTAATTTAATTAAAAACCCTAACCCT
38871822 AACCTAATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
180 7 0.05
182 37 0.24
183 102 0.67
184 7 0.05
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.27
Consensus pattern (180 bp):
AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCT
AAACCCTTAACCTAAAAACCAAAACCTAAACCACTTAATTAAAAACCCTAACCCTAACCTAATTT
AATTAAAAACCCGAACCTAATTTAATTAAAAACCCTAACCCTTAACTCAA
Found at i:38871709 original size:132 final size:129
Alignment explanation
Indices: 38871601--38871864 Score: 354
Period size: 132 Copynumber: 2.0 Consensus size: 129
38871591 TAATTTAATT
**
38871601 AAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-CTCAA-AAACCTT-AACCTTAA
1 AAAAACT-TAACCTAATTTAATTAAAAACCCT-AACCC-TAACCT-AATAAA--TTAAACCCGAA
*
38871663 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAA
60 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACCTAA
38871728 AAACC
125 AAACC
** * *
38871733 CTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCGAACCT
1 AAAAACTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA-TAAATT--AAACCCGAACCT
*
38871798 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAA
63 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACCTAAAAA
38871863 CC
128 CC
38871865 CTAACCTTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
129 7 0.06
130 7 0.06
131 26 0.22
132 80 0.67
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (129 bp):
AAAAACTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATAAATTAAACCCGAACCTAAT
TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACCTAAAAACC
Found at i:38871713 original size:80 final size:80
Alignment explanation
Indices: 38871393--38871851 Score: 553
Period size: 80 Copynumber: 5.6 Consensus size: 80
38871383 CTAACTTAAA
* *
38871393 TTAA-TTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAATCTAAA
1 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA--T---
*
38871457 TTAATTACAAACCCT-AACCC
60 TTAATTAAAAACCCTAAACCC
* * * *
38871477 TAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAAATTAATTACAAACCCTAACCCTAACCT
1 T----T-A---ACTTAAAAACCCTAA-CCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCT
*
38871542 AATTTAATTAAAAGCCCTAAACCC
57 AATTTAATTAAAAACCCTAAACCC
38871566 TTAACTT-AAAACCCTAACCTTAACCTAATTTAATTAAAAA--CT----CTAACCTAATTTAATT
1 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
38871624 AAAAACCCTAAACCC
66 AAAAACCCTAAACCC
* *
38871639 TTAACTCAAAAACCTTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
1 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
38871704 AAAAACCCTAAACCC
66 AAAAACCCTAAACCC
38871719 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
1 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
* *
38871784 AAAAACCC-GAACCTAAT
66 AAAAACCCTAAACC---C
*
38871801 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCT-AACCCT
38871852 TAACTTAAAA
Statistics
Matches: 336, Mismatches: 17, Indels: 46
0.84 0.04 0.12
Matches are distributed among these distances:
73 36 0.11
74 32 0.10
76 2 0.01
77 2 0.01
79 24 0.07
80 112 0.33
81 42 0.12
82 10 0.03
84 2 0.01
85 1 0.00
88 14 0.04
89 7 0.02
91 1 0.00
92 1 0.00
93 17 0.05
94 33 0.10
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (80 bp):
TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT
AAAAACCCTAAACCC
Found at i:38871730 original size:22 final size:20
Alignment explanation
Indices: 38871698--38871743 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
38871688 CTAACCTAAT
38871698 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
38871719 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
38871739 TTAAC
1 TTAAC
38871744 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:38871817 original size:18 final size:20
Alignment explanation
Indices: 38871771--38871813 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
38871761 CCTAACCCTA
38871771 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
38871792 GAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
38871814 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:38871819 original size:52 final size:52
Alignment explanation
Indices: 38871741--38871843 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
38871731 CCCTAACCTT
38871741 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCG
1 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCG
38871793 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
1 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
38871844 TAAACCCTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (52 bp):
AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCG
Found at i:38871862 original size:22 final size:20
Alignment explanation
Indices: 38871830--38871875 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
38871820 CTAACCTAAT
38871830 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
38871851 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
38871871 TTAAC
1 TTAAC
38871876 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:38872081 original size:116 final size:116
Alignment explanation
Indices: 38871877--38872094 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
38871867 AACCTTAACG
*
38871877 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTATTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
*
38871942 ATTTTACTAACTATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* *
38871993 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
38872058 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
38872095 CAATTTATCA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:38872111 original size:17 final size:18
Alignment explanation
Indices: 38872070--38872111 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
38872060 TTTACTAACC
* *
38872070 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
38872088 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
38872105 ATTAATA
1 ATTAATA
38872112 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:38875247 original size:125 final size:126
Alignment explanation
Indices: 38875104--38875456 Score: 557
Period size: 126 Copynumber: 2.8 Consensus size: 126
38875094 CCCAAACATG
38875104 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
38875169 TAAAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-ATTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACATGAC
* * * *
38875229 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCGATTTCACAAATTCTTCTTAAATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
38875293 CTAGAAGAGATTTTATACTATTTGCTCAGAAACATCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACATGAC
*
38875355 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
38875420 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
38875457 CTCGAAATTA
Statistics
Matches: 205, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
124 1 0.00
125 97 0.47
126 106 0.52
127 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTACATGAC
Found at i:38885397 original size:17 final size:17
Alignment explanation
Indices: 38885377--38885420 Score: 79
Period size: 17 Copynumber: 2.5 Consensus size: 17
38885367 CAGTCTTTAA
38885377 TTTAATTTTTCATTTTT
1 TTTAATTTTTCATTTTT
38885394 TTTAATTTTTCATTTTT
1 TTTAATTTTTCATTTTT
38885411 TTTAACTTTT
1 TTTAA-TTTT
38885421 AACTTTTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTAATTTTTCATTTTT
Found at i:38887889 original size:45 final size:45
Alignment explanation
Indices: 38887819--38888042 Score: 267
Period size: 45 Copynumber: 5.0 Consensus size: 45
38887809 TACGTGTACT
*
38887819 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACTC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC-C
*
38887865 -AGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * * * * *
38887909 GGGTACCATTAATTATAAAGGTGGTTGCTATGTGTTGACTCCACT
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* ** *
38887954 G-GAAATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACC
1 GAG-TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * *
38887999 GAATATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
38888042 G
1 G
38888043 TGTAATGGTT
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
43 7 0.05
44 14 0.09
45 131 0.86
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:38892896 original size:19 final size:19
Alignment explanation
Indices: 38892868--38892909 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38892858 TGAGAGCTAA
*
38892868 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
38892887 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
38892906 GAGA
1 GAGA
38892910 TGAGGGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:38892909 original size:17 final size:16
Alignment explanation
Indices: 38892874--38892919 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
38892864 CTAAGAGAGT
38892874 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
38892889 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
38892905 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
38892920 AGTGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 6 0.21
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.48, T:0.15
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:38896221 original size:18 final size:18
Alignment explanation
Indices: 38896198--38896233 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38896188 CCCCAAAGTG
38896198 AAGTGGTTTTGGTAAATC
1 AAGTGGTTTTGGTAAATC
38896216 AAGTGGTTTTGGTAAATC
1 AAGTGGTTTTGGTAAATC
38896234 GTTAAGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
AAGTGGTTTTGGTAAATC
Found at i:38897967 original size:29 final size:29
Alignment explanation
Indices: 38897934--38897999 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
38897924 ACCTTGTGAG
38897934 ACTTATGATGTGTATAGGCAATTAAATGA
1 ACTTATGATGTGTATAGGCAATTAAATGA
38897963 ACTTATGATGTGTATAGGCAATTAAATGA
1 ACTTATGATGTGTATAGGCAATTAAATGA
38897992 ACTTATGA
1 ACTTATGA
38898000 CCTTGATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (29 bp):
ACTTATGATGTGTATAGGCAATTAAATGA
Found at i:38903076 original size:21 final size:21
Alignment explanation
Indices: 38903043--38903130 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
38903033 TAAGGTCGTA
* **
38903043 TACCTCAGTCACACGGTTGTG
1 TACCTCAGCCACACGGCCGTG
*
38903064 TACCTTAGCCACACGGCCGTG
1 TACCTCAGCCACACGGCCGTG
*
38903085 TATCTCAGCCACACGGCCGTG
1 TACCTCAGCCACACGGCCGTG
* * *
38903106 TATCTCAGCCACATGGTCGTG
1 TACCTCAGCCACACGGCCGTG
38903127 TACC
1 TACC
38903131 CCTGTAACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.19, C:0.34, G:0.23, T:0.24
Consensus pattern (21 bp):
TACCTCAGCCACACGGCCGTG
Found at i:38913230 original size:25 final size:25
Alignment explanation
Indices: 38913181--38913261 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
38913171 ATACATGTAT
* *
38913181 GCTCATACAAGC-G-ATATACGATAA
1 GCTCATACGAGCTGAATA-ACGGTAA
* *
38913205 GCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
38913230 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
38913255 GCTCATA
1 GCTCATA
38913262 AAAGCTGGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 9 0.19
25 35 0.74
26 3 0.06
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:38913267 original size:25 final size:25
Alignment explanation
Indices: 38913214--38913278 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
38913204 AGCTCCTCCG
* * **
38913214 AGCTGAATAACGGTAAGCTCATACG
1 AGCTGAGTATCGGTAAGCTCATAAA
38913239 AGCTGAGTATCGGTAAGCTCATAAA
1 AGCTGAGTATCGGTAAGCTCATAAA
*
38913264 AGCTG-GAATCGGTAA
1 AGCTGAGTATCGGTAA
38913279 CCCTAATGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 9 0.26
25 26 0.74
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (25 bp):
AGCTGAGTATCGGTAAGCTCATAAA
Found at i:38917327 original size:19 final size:15
Alignment explanation
Indices: 38917280--38917322 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
38917270 ATGTAGGTGG
38917280 TTCGCATACAATCTA
1 TTCGCATACAATCTA
38917295 TTCGCATACAATCTA
1 TTCGCATACAATCTA
*
38917310 TTCGCATATAATC
1 TTCGCATACAATC
38917323 AATCTCGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.35
Consensus pattern (15 bp):
TTCGCATACAATCTA
Found at i:38919383 original size:3 final size:3
Alignment explanation
Indices: 38919375--38919401 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38919365 TTTTAAAATA
38919375 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
38919402 CAAGTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38920265 original size:27 final size:27
Alignment explanation
Indices: 38920205--38920266 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
38920195 TAATAATTTC
38920205 TTTAT-TTATATAGAAAAATAATAATA
1 TTTATATTATATAGAAAAATAATAATA
* * *
38920231 TGTA-ATTATATAATAAAAATAA-AATT
1 TTTATATTATAT-AGAAAAATAATAATA
38920257 TTTATATTAT
1 TTTATATTAT
38920267 TCATTATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTATATTATATAGAAAAATAATAATA
Found at i:38920716 original size:110 final size:108
Alignment explanation
Indices: 38920520--38920718 Score: 242
Period size: 109 Copynumber: 1.8 Consensus size: 108
38920510 TTTTCTTTAT
* * * * * *
38920520 ATATAATTTTTTATGTTATATGTTTATTTTTTTCACGTACATTGTGAGTATCGTAAATTTTAATA
1 ATATAATTTTATATGTTAAATATTTATTTTTTCCACCTACATTGTGAGTATCGTAAATTCTAATA
*
38920585 TAAAAAATTAATTAATCATTTCAAATATTATTGATTTTAATAA
66 TAAAAAATTAAATAATCATTTCAAATATTATTGATTTTAATAA
*
38920628 ATATAACTTTTATATG-TAAATATTTATATTTTTCCACCTACATTGT-AGGTAT-GATAGATTCT
1 ATATAA-TTTTATATGTTAAATATTTAT-TTTTTCCACCTACATTGTGA-GTATCG-TAAATTCT
* *
38920690 AATATTAAAAAATTAAATGATTATTTCAA
62 AATA-TAAAAAATTAAATAATCATTTCAA
38920719 TTATAATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
108 17 0.22
109 38 0.50
110 21 0.28
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (108 bp):
ATATAATTTTATATGTTAAATATTTATTTTTTCCACCTACATTGTGAGTATCGTAAATTCTAATA
TAAAAAATTAAATAATCATTTCAAATATTATTGATTTTAATAA
Found at i:38921011 original size:13 final size:13
Alignment explanation
Indices: 38920993--38921027 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
38920983 TATTTGATTC
*
38920993 ATAAAAATTATAT
1 ATAAAAAATATAT
38921006 ATAAAAAATATAT
1 ATAAAAAATATAT
38921019 ATAAAAAAT
1 ATAAAAAAT
38921028 TAGTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAAATATAT
Found at i:38931506 original size:31 final size:31
Alignment explanation
Indices: 38931471--38931532 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
38931461 AGGAAAATTA
38931471 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
38931502 CAAGAGTAATTGAATCTTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38931533 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:38937116 original size:26 final size:25
Alignment explanation
Indices: 38937080--38937135 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
38937070 TTTTTTGCGG
*
38937080 TTTTTTTTGCGCTTTTTGCTTTTTCT
1 TTTTTTTTGCGCTTTTTGCTTCTT-T
38937106 TTTTTTTTGCGCTTTTTGCTTCTTT
1 TTTTTTTTGCGCTTTTTGCTTCTTT
38937131 TTTTT
1 TTTTT
38937136 AAAGAATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.75
Consensus pattern (25 bp):
TTTTTTTTGCGCTTTTTGCTTCTTT
Found at i:38937122 original size:12 final size:12
Alignment explanation
Indices: 38937067--38937096 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38937057 AGGTAGACAA
38937067 CTTTTTTTTGCG
1 CTTTTTTTTGCG
*
38937079 GTTTTTTTTGCG
1 CTTTTTTTTGCG
38937091 CTTTTT
1 CTTTTT
38937097 GCTTTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.17, T:0.70
Consensus pattern (12 bp):
CTTTTTTTTGCG
Found at i:38937686 original size:31 final size:31
Alignment explanation
Indices: 38937648--38937740 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
38937638 AGGCAAATTA
38937648 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38937679 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
38937710 CAAGAGTAATTGAGTCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38937741 AAAATTATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:38942800 original size:79 final size:77
Alignment explanation
Indices: 38942601--38942923 Score: 416
Period size: 79 Copynumber: 4.1 Consensus size: 77
38942591 ATCAAAATTT
* * * *
38942601 AATAAATTCGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTAAATGGCGGG-ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
*
38942666 AAA-AAAAT-TTG
65 AAACAAAATATGG
* * **
38942677 AATAAAATCGTTAAACGGCTGGAATCAATCCCGAAATGGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTAAATGGC-GGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
*
38942742 AAAGCAAAATATAG
65 AAA-CAAAATATGG
**
38942756 AATAAAATCGTTAAATGGCAGGGATCAATCTTGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTAAATGGC-GGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
38942821 AAAACAAAATATGG
65 -AAACAAAATATGG
* * *
38942835 AAAAAAATCGTTAAATGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAAT
1 AATAAAATCGTTAAATGGCGGG-ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT
38942900 AAAATCAAAATAATGG
65 -AAA-CAAAAT-ATGG
38942916 AATAAAAT
1 AATAAAAT
38942924 TCATTGAACA
Statistics
Matches: 218, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
76 59 0.27
77 2 0.01
78 8 0.04
79 129 0.59
80 9 0.04
81 11 0.05
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (77 bp):
AATAAAATCGTTAAATGGCGGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATA
AACAAAATATGG
Found at i:38942899 original size:158 final size:157
Alignment explanation
Indices: 38942624--38942923 Score: 469
Period size: 158 Copynumber: 1.9 Consensus size: 157
38942614 AACGACGGGA
* *
38942624 ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAAAAATTTGAATAAAATCGTT
1 ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAAAAATTGGAAAAAAATCGTT
* * *
38942689 AAACGGCTGGAATCAATCCCGAAATGGATTTTATTTTACTCGTTTTTGGAAAT-AAAGCAAAAT-
66 AAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAAGCAAAATA
38942752 ATAGAATAAAATCGTTAAATGGCAGGG
131 ATAGAATAAAATCGTTAAATGGCAGGG
**
38942779 ATCAATCTTGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATATGGAAAAAAATC
1 ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT-AAA-AAAAT-TGGAAAAAAATC
* *
38942844 GTTAAATGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAATCAAA
63 GTTAAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAAGCAAA
*
38942909 ATAATGGAATAAAAT
128 ATAATAGAATAAAAT
38942924 TCATTGAACA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
155 40 0.31
156 3 0.02
157 5 0.04
158 62 0.48
159 9 0.07
160 11 0.08
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (157 bp):
ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAAAAATTGGAAAAAAATCGTT
AAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCATTTTTGGAAATAAAAGCAAAATA
ATAGAATAAAATCGTTAAATGGCAGGG
Found at i:38945259 original size:44 final size:43
Alignment explanation
Indices: 38945186--38945269 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
38945176 AAAGCTCGTA
* * *
38945186 CAATGCCAACGTCCTAGACAGGGTCTTACACGAAAGTCTCAAAT
1 CAATGCCAACGTCCCAGACAGGGTATTACACCAAA-TCTCAAAT
**
38945230 CAATGCCAACGTCCCAGACTTGGTATTACACCAAATCTCA
1 CAATGCCAACGTCCCAGACAGGGTATTACACCAAATCTCA
38945270 TATTGAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAGGGTATTACACCAAATCTCAAAT
Found at i:38955332 original size:50 final size:50
Alignment explanation
Indices: 38955257--38955355 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
38955247 TTTTTATGGA
38955257 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
1 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
*
38955307 AGATGTGCTTCTTAGCTGCTTGATTGGAATTGTTATGTATTGTGTTACT
1 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACT
38955356 ACCAGCTCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.46
Consensus pattern (50 bp):
AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
Found at i:38962287 original size:14 final size:15
Alignment explanation
Indices: 38962259--38962295 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
38962249 GTTATTTTAC
*
38962259 TTAATTTCA-TTAGT
1 TTAATTTAACTTAGT
38962273 TT-ATTTAACTTAGT
1 TTAATTTAACTTAGT
38962287 TTAATTTAA
1 TTAATTTAA
38962296 TTTCTACAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TTAATTTAACTTAGT
Found at i:38965791 original size:17 final size:19
Alignment explanation
Indices: 38965751--38965788 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
38965741 CACAGAAAGG
38965751 AATTGAAGTGGATAGAAAA
1 AATTGAAGTGGATAGAAAA
38965770 AATTGAAGT-GATAGAAAA
1 AATTGAAGTGGATAGAAAA
38965788 A
1 A
38965789 TTGCCATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (19 bp):
AATTGAAGTGGATAGAAAA
Found at i:38970471 original size:15 final size:15
Alignment explanation
Indices: 38970453--38970492 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
38970443 TCAAAGTTTT
*
38970453 TTGACTCAATTTGCC
1 TTGACTCAATTCGCC
38970468 TTGACTCAATTCGCC
1 TTGACTCAATTCGCC
38970483 TTGACTCAAT
1 TTGACTCAAT
38970493 CGAATACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.38
Consensus pattern (15 bp):
TTGACTCAATTCGCC
Found at i:38976061 original size:45 final size:45
Alignment explanation
Indices: 38975975--38976098 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 45
38975965 ATGTGATGCC
* * *
38975975 ATAGCGTCTTTCAGCCATGGTCTTACTCATTTCT-ATCATGATACT
1 ATAGCATCTTTCAGCTATGGTCATACTCATTT-TAATCATGATACT
* * **
38976020 ATATCATCTTTCAGCTATGGTCATACTCATTTTAATGATGATGTT
1 ATAGCATCTTTCAGCTATGGTCATACTCATTTTAATCATGATACT
* * * *
38976065 ATAGCGTCATTCAGCTATGGCCATACTCAATTTA
1 ATAGCATCTTTCAGCTATGGTCATACTCATTTTA
38976099 GGTGTGTAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 65 0.98
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
ATAGCATCTTTCAGCTATGGTCATACTCATTTTAATCATGATACT
Found at i:38978995 original size:17 final size:18
Alignment explanation
Indices: 38978973--38979011 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
38978963 CACACCTCTA
38978973 TTATTG-CATGCCAAGCT
1 TTATTGACATGCCAAGCT
38978990 TTATTGTCACATGCCAAGCT
1 TTATTG--ACATGCCAAGCT
38979010 TT
1 TT
38979012 CTTCATCCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
20 13 0.68
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTGACATGCCAAGCT
Found at i:38982518 original size:3 final size:3
Alignment explanation
Indices: 38982510--38982539 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
38982500 CAATTCTTAC
38982510 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38982540 AAACAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:38987900 original size:41 final size:41
Alignment explanation
Indices: 38987834--38987947 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
38987824 TTAATTTAAA
* * *
38987834 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* *
38987876 CCGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
38987917 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
38987948 AAGTCTGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 61 0.95
42 3 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:38990095 original size:11 final size:11
Alignment explanation
Indices: 38990073--38990124 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
38990063 AACTAATCCT
38990073 CTCTCAAATTTC
1 CTCTC-AATTTC
38990085 CTCTCAATTTC
1 CTCTCAATTTC
*
38990096 CTCTAAATTTC
1 CTCTCAATTTC
*
38990107 CTCTCAATTTG
1 CTCTCAATTTC
38990118 CTCTCAA
1 CTCTCAA
38990125 ATCCTTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
11 32 0.86
12 5 0.14
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:38990106 original size:22 final size:23
Alignment explanation
Indices: 38990073--38990126 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
38990063 AACTAATCCT
38990073 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
38990096 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
38990118 CTCTCAAAT
1 CTCTCAAAT
38990127 CCTTTCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:38990147 original size:11 final size:11
Alignment explanation
Indices: 38990072--38990148 Score: 65
Period size: 11 Copynumber: 6.9 Consensus size: 11
38990062 AAACTAATCC
38990072 TCTCTCAAATT
1 TCTCTCAAATT
38990083 TCCTCTC-AATT
1 T-CTCTCAAATT
38990094 TC-CTCTAAATT
1 TCTCTC-AAATT
38990105 TCCTCTC-AATT
1 T-CTCTCAAATT
38990116 TGCTCTCAAATCCT
1 T-CTCTCAAAT--T
38990130 T-TC-CAAATT
1 TCTCTCAAATT
38990139 TCTCTCAAAT
1 TCTCTCAAAT
38990149 CCATATTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 20
0.72 0.01 0.26
Matches are distributed among these distances:
9 5 0.09
10 3 0.05
11 31 0.56
12 11 0.20
13 3 0.05
14 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:38990166 original size:51 final size:51
Alignment explanation
Indices: 38990108--38990207 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
38990098 CTAAATTTCC
38990108 TCTCAATTTGCTCTCAA-ATCCT-TTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAGATCCTATT--AAATTTCTCTCAAATCCATATTTAA
* * *
38990159 TCTCAATTTGCTCTCAAGTTCCTATTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAGATCCTATTAAATTTCTCTCAAATCCATATTT
38990208 TTAAATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 38 0.86
52 4 0.09
53 2 0.05
ACGTcount: A:0.27, C:0.26, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAGATCCTATTAAATTTCTCTCAAATCCATATTTAA
Found at i:38990234 original size:13 final size:13
Alignment explanation
Indices: 38990216--38990242 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38990206 TTTTAAATAA
38990216 TTTTTAAATTTTT
1 TTTTTAAATTTTT
38990229 TTTTTAAATTTTT
1 TTTTTAAATTTTT
38990242 T
1 T
38990243 AAACCGTAAA
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTAAATTTTT
Found at i:38992040 original size:18 final size:18
Alignment explanation
Indices: 38992013--38992052 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38992003 TAGGTGCGTT
* *
38992013 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
38992031 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
38992049 TCCT
1 TCCT
38992053 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:38992686 original size:22 final size:22
Alignment explanation
Indices: 38992629--38993832 Score: 1215
Period size: 22 Copynumber: 55.0 Consensus size: 22
38992619 CCTTAACCCT
*
38992629 AACCCT-AACCCTTAACTTGAA
1 AACCCTAAACCCTTAACTTAAA
*
38992650 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38992671 AACCTTAAAACCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38992693 AACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
38992715 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
38992735 AACCCAAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
38992757 AACCCT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
* * *
38992779 ACCCCAAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38992801 AACCCTAAACCCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * * * *
38992823 AACCATAAACCATAAAC-CATA
1 AACCCTAAACCCTTAACTTAAA
* * *
38992844 AACCCTTAA-CCTAAAAACCTTAACCCTT
1 AACCCTAAACCCT--TAA-CTTAA----A
* *
38992872 AA-CTTAAAAACCCTAAACCCTTAAA
1 AACCCT--AAACCCTTAA--CTTAAA
*
38992897 TTAAAAACCCTAACCCCTTAACTTAAA
1 -----AACCCTAAACCCTTAACTTAAA
* *
38992924 AACCTTAACCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
38992946 AACCATAAACCTTTAACTTAGA
1 AACCCTAAACCCTTAACTTAAA
***
38992968 AATGATAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
38992989 AACCCATAACCCCTTAACTTAAA
1 AACCC-TAAACCCTTAACTTAAA
*
38993012 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993034 TACCCTAAACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
**
38993055 AACCCTAATA--CTTAACTTTGA
1 AACCCTAA-ACCCTTAACTTAAA
*
38993076 AACCCTAACCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993098 AACCTTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993120 AACCCTAAACCCATAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993142 AACCCAAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993164 ACCCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993185 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993207 AACCAT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
*
38993229 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
38993251 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
38993271 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993293 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
38993315 AACCCT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
** *
38993337 AACCCTAAATTCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993359 AACCTTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
38993381 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993402 AACCATAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993424 AACCCTAAACCTTTAGCTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993446 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
38993467 AACCCT-AACCTCTTAACTTAAA
1 AACCCTAAACC-CTTAACTTAAA
* * * *
38993489 AATCTTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993511 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* **
38993533 AACCTTAAACTTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993555 AGCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
38993576 AACCC-AAACCCTTAAACTTAAA
1 AACCCTAAACCCTT-AACTTAAA
* *
38993598 AACACTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
38993620 AACACTAAA-CTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
38993641 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993663 AACCCTAAACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
38993684 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
38993705 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993727 AACCGT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
38993748 AACACTAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
** * * *
38993770 AACTGT-AACTCTTAAATAAAA
1 AACCCTAAACCCTTAACTTAAA
*
38993791 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
38993812 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
38993833 TATAATTTGA
Statistics
Matches: 990, Mismatches: 147, Indels: 92
0.81 0.12 0.07
Matches are distributed among these distances:
20 35 0.04
21 294 0.30
22 592 0.60
23 32 0.03
24 1 0.00
27 8 0.01
28 5 0.01
29 16 0.02
30 5 0.01
31 2 0.00
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:38992725 original size:65 final size:66
Alignment explanation
Indices: 38992629--38993832 Score: 1362
Period size: 65 Copynumber: 18.7 Consensus size: 66
38992619 CCTTAACCCT
* * * *
38992629 AACCCT-AACCCTTAACTTGAAAACCCT-AACCCTTAAATTAAAAACCTTAAAACCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38992692 A
66 A
* * *
38992693 AACCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTT-AAAACCCAAAACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38992756 A
66 A
* * * *
38992757 AACCCT-AACCCTTTAACTTAAAACCCCAAAACTCTTAACTTAAAAACCCTAAACCCTTAATTTA
1 AACCCTAAACCC-TTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
38992821 AA
65 AA
* * * *
38992823 AACCATAAA-CC---A--T--AAACCATAAACCCTTAACCTAAAAA-CCTTAACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38992879 A
66 A
* * * *
38992880 AACCCTAAACCCTTAAATTAAAAACCCTAACCCCTTAACTTAAAAACCTTAACCCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38992945 A
66 A
* * * *** *
38992946 AACCATAAACCTTTAACTTAGAAATGATAAACCCTTAACTT-AAAACCCATAACCCCTTAACTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-TAAACCCTTAACTTA
38993010 AA
65 AA
* * * *
38993012 AACCCTAAACCCTTAAATTAAATACCCTAAACCTTTAACTT-AAAACCCTAATA--CTTAACTTT
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA-ACCCTTAACTTA
*
38993074 GA
65 AA
* * * * *
38993076 AACCCTAACCCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAACCCTAAACCCATAAATTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993141 A
66 A
* * * *
38993142 AACCCAAAACCTTTAACTTAAAACCCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993206 A
66 A
* *
38993207 AACCAT-AACCCTTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTT-
1 AACCCTAAACCC-TTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
38993269 AA
65 AA
* *
38993271 AACCCTAAACCCTTAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCT-AACCCTTTAACTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCC-TTAACTTA
38993335 AA
65 AA
** * * *
38993337 AACCCTAAATTCTTAAATTAAAAACCTTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993401 A
66 A
* * * * *
38993402 AACCATAAACCCTTAAATTAAAAACCCTAAACCTTTAGCTTAAAAACCCT-AACCCTTAACTTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993466 A
66 A
* * * * *
38993467 AACCCT-AACCTCTTAACTTAAAAATCTTAAACCTTTAAATTAAAAACCCTAAACCCTTAAATTA
1 AACCCTAAACC-CTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
38993531 AA
65 AA
* ** * *
38993533 AACCTTAAACTTTTAACTTAAAAGCCCT-AACCCTTAACTTTAAAACCC-AAACCCTTAAACTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTT-AACTTA
38993596 AA
65 AA
* * * * *
38993598 AACACTAAACCCTTAAATTAAAAACACTAAA-CTTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993662 A
66 A
* * *
38993663 AACCCTAAACCTTTAACTT-AAAACCCT-AACCCTTAACTTTAAAACCCTAAACCTTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993726 A
66 A
* * * * ** * * *
38993727 AACCGT-AACCCTTAAATTAAAAACACTAAACCCTTAACTTTAAAACTGT-AACTCTTAAATAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
38993790 A
66 A
*
38993791 AACCCT-AACACTTAACTTAAAAACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
38993833 TATAATTTGA
Statistics
Matches: 964, Mismatches: 143, Indels: 67
0.82 0.12 0.06
Matches are distributed among these distances:
57 25 0.03
58 22 0.02
60 1 0.00
61 1 0.00
62 1 0.00
63 32 0.03
64 235 0.24
65 366 0.38
66 276 0.29
67 5 0.01
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (66 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
A
Found at i:38992832 original size:7 final size:7
Alignment explanation
Indices: 38992822--38992847 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38992812 CTTAATTTAA
38992822 AAACCAT
1 AAACCAT
38992829 AAACCAT
1 AAACCAT
38992836 AAACCAT
1 AAACCAT
38992843 AAACC
1 AAACC
38992848 CTTAACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCAT
Found at i:38992869 original size:108 final size:106
Alignment explanation
Indices: 38992649--38993832 Score: 891
Period size: 108 Copynumber: 11.0 Consensus size: 106
38992639 CTTAACTTGA
* * * **
38992649 AAACCCTAACCCTTAAATTAAAAACCTTAAAA-CCTTAACTTAAAAACCATAAACCCTTAACCTA
1 AAACCCTAACCCTTAACTTAAAAACC-CAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTA
* **
38992713 AAAACCCT-AACCCTTAACTTAAAACCCAAAACCCT-TAACTT
65 AAAACCATAAACCCTTAACTTAAAACCCTTAA-CCTATAACTT
* * *
38992754 AAAAACCCTAACCCTTTAACTTAAAACCCCAAAACTCTTAACTTAAAAACCCTAAACCCTTAATT
1 --AAACCCTAACCC-TTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAAT
* * *
38992819 TAAAAACCATAAACCATAAAC-CATAAACCCTTAACC--TAA---
63 TAAAAACCATAAACCCTTAACTTA-AAACCCTTAACCTATAACTT
* * * * *
38992858 AAACCTTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAACCCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAA
* * * * *
38992923 AAACCTTAACCCCTTAACTTAAAAACCATAAACCTTTAACTT
66 AAACCATAAACCCTTAACTT-AAAACCCTTAACCTATAACTT
*** *
38992965 AGAAATGATAAACCCTTAACTT-AAAACCCATAACCCCTTAACTTAAAAACCCTAAACCCTTAAA
1 --AAACCCT-AACCCTTAACTTAAAAACCCA-AAACCCTTAACTTAAAAACCCTAAACCCTTAAA
* * * *
38993029 TTAAATACCCTAAACCTTTAACTTAAAACCC-TAATACT-TAACTTT
62 TTAAAAACCATAAACCCTTAACTTAAAACCCTTAA-CCTATAAC-TT
** * *
38993074 GAAACCCTAACCCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAACCCTAAACCCATAAATT
1 -AAACCCTAA-CCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATT
* *
38993139 AAAAACCCA-AAACCTTTAACTTAAAACCCCTAACCCT-TAACTT
64 AAAAA-CCATAAACCCTTAACTTAAAACCCTTAA-CCTATAACTT
* *
38993182 AAAAACCATAAACCCTTAACTTAAAAA-CCATAACCCTTTAACTTAAAAACCCTAAACCCTTAAA
1 --AAACCCT-AACCCTTAACTTAAAAACCCAAAACCC-TTAACTTAAAAACCCTAAACCCTTAAA
* * *
38993246 TTAAAAACCCT-AACCCTTAACTTAAAACCCTAAACCCT-TAAATT
62 TTAAAAACCATAAACCCTTAACTTAAAACCCTTAA-CCTATAACTT
* * **
38993290 AAAAACCCTAAACCTTTAACTTAAAAACCC-TAACCCTTTAACTTAAAAACCCTAAATTCTTAAA
1 --AAACCCT-AACCCTTAACTTAAAAACCCAAAACCC-TTAACTTAAAAACCCTAAACCCTTAAA
* *
38993354 TTAAAAACCTTAAACCCTTAAATTAAAAACCC-TAACCCT-TAACTT
62 TTAAAAACCATAAACCCTTAACTT-AAAACCCTTAA-CCTATAACTT
* * * * * *
38993399 AAAAACCATAAACCCTTAAATTAAAAACCCTAAACCTTTAGCTTAAAAACCCT-AACCCTTAACT
1 --AAACCCT-AACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAAT
* * ** * *
38993463 TTAAAACCCT-AACCTCTTAACTTAAAAATCTTAAACCTTTAAATT
63 TAAAAACCATAAACC-CTTAACTTAAAACCCTT-AACCTATAACTT
* ** ** * *
38993508 AAAAACCCTAAACCCTTAAATTAAAAACCTTAAACTTTTAACTTAAAAGCCCT-AACCCTTAACT
1 --AAACCCT-AACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAAT
* * * * *
38993572 TTAAAACC-CAAACCCTTAAACTTAAAAACACTAAACCCT-TAAATT
63 TAAAAACCATAAACCCTT-AACTT-AAAACCCTTAA-CCTATAACTT
* * * * * * *
38993617 AAAAACACTAAACTTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCTTTAACTT
1 --AAACCCTAACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATT
* * *
38993682 -AAAACCCT-AACCCTTAACTTTAAAACCCTAAACCTTTAACTT
64 AAAAACCATAAACCCTTAAC-TTAAAACCCTTAACCTATAACTT
* * * * * ** * *
38993724 AAAAACCGTAACCCTTAAATTAAAAACACTAAACCCTTAACTTTAAAACTGT-AACTCTTAAATA
1 --AAACCCTAACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATT
* *
38993788 AAAAACCCT-AACACTTAACTTAAAAACCC-TAACCCT-TAACTT
64 AAAAACCATAAACCCTTAACTT-AAAACCCTTAA-CCTATAACTT
38993830 AAA
1 AAA
38993833 TATAATTTGA
Statistics
Matches: 910, Mismatches: 123, Indels: 91
0.81 0.11 0.08
Matches are distributed among these distances:
101 61 0.07
102 21 0.02
103 1 0.00
104 6 0.01
106 21 0.02
107 119 0.13
108 315 0.35
109 283 0.31
110 83 0.09
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (106 bp):
AAACCCTAACCCTTAACTTAAAAACCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAA
AAACCATAAACCCTTAACTTAAAACCCTTAACCTATAACTT
Found at i:38993810 original size:26 final size:26
Alignment explanation
Indices: 38993780--38993834 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 26
38993770 AACTGTAACT
38993780 CTTAAATAAAAAACCCTAACACTTAA
1 CTTAAATAAAAAACCCTAACACTTAA
*
38993806 C-T---T-AAAAACCCTAACCCTTAA
1 CTTAAATAAAAAACCCTAACACTTAA
38993827 CTTAAATA
1 CTTAAATA
38993835 TAATTTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 10
0.68 0.03 0.29
Matches are distributed among these distances:
21 18 0.78
22 2 0.09
25 2 0.09
26 1 0.04
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (26 bp):
CTTAAATAAAAAACCCTAACACTTAA
Found at i:38996054 original size:126 final size:124
Alignment explanation
Indices: 38995800--38996476 Score: 680
Period size: 126 Copynumber: 5.5 Consensus size: 124
38995790 CCCAAGCATG
** * * * *
38995800 CTACTGTAGCAAAAGCGGGTCCATGTGGGTGCGATTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
38995865 TAGAAGC--GATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
66 T-TAAGCTTG-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
38995924 CTACTGTAGCAAAAGCACGTCCATGAGGACGCAATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* **
38995988 CTTACAACATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTTAGGAC
65 CTTA-AGC-TTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
38996050 CTACTGTAGCAAAAG-AGCGTCCACGTGGGCACGATTACACAAATTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCA-CGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
*
38996114 CTATAAGC--GATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTT-------
65 CT-TAAGCTTG-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
38996167 CT-C---A--TAAAG--CTTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
38996224 TTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCGAGGAC
66 TT-AAGC-TTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * ** * * *
38996285 CAACTATAGCAAAAGTGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAACGCATCCTGG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
38996350 TTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAATTTGAAATTATTTTTCCAGGAC
66 TT-AAGC-TTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * ** * *
38996410 CTACTTTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAAGCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
38996475 TT
66 TT
38996477 TGATTTTATC
Statistics
Matches: 471, Mismatches: 53, Indels: 57
0.81 0.09 0.10
Matches are distributed among these distances:
108 1 0.00
109 49 0.10
110 38 0.08
111 6 0.01
113 1 0.00
116 1 0.00
117 2 0.00
118 1 0.00
119 1 0.00
122 1 0.00
123 4 0.01
124 104 0.22
125 62 0.13
126 195 0.41
127 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTAAGCTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:38996978 original size:28 final size:28
Alignment explanation
Indices: 38996946--38996999 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
38996936 ATTCATGTTG
38996946 TTCAACGCTTTTT-TTATTTTAATTTTGT
1 TTCAA-GCTTTTTCTTATTTTAATTTTGT
**
38996974 TTCAATTTTTTTCTTATTTTAATTTT
1 TTCAAGCTTTTTCTTATTTTAATTTT
38997000 AATATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.69
Consensus pattern (28 bp):
TTCAAGCTTTTTCTTATTTTAATTTTGT
Found at i:38997768 original size:24 final size:26
Alignment explanation
Indices: 38997724--38997775 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
38997714 ACTTTAATTA
38997724 AAAATTAAAATAAAAAAGCTT-AAAC
1 AAAATTAAAATAAAAAAGCTTCAAAC
38997749 AAAATTAAAAT-AAAAAGCTTCAAAC
1 AAAATTAAAATAAAAAAGCTTCAAAC
38997774 AA
1 AA
38997776 CATGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (26 bp):
AAAATTAAAATAAAAAAGCTTCAAAC
Found at i:38997787 original size:24 final size:23
Alignment explanation
Indices: 38997732--38997788 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
38997722 TAAAAATTAA
*
38997732 AATAAAAAAGCTTAAACAAAATT
1 AATAAAAAAGCTTAAACAAAATG
* *
38997755 AAAATAAAAAGCTTCAAACAACATG
1 AATA-AAAAAGCTT-AAACAAAATG
38997780 AATAAAAAA
1 AATAAAAAA
38997789 AAGATCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 11 0.39
ACGTcount: A:0.67, C:0.11, G:0.05, T:0.18
Consensus pattern (23 bp):
AATAAAAAAGCTTAAACAAAATG
Found at i:38997788 original size:25 final size:23
Alignment explanation
Indices: 38997735--38997789 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
38997725 AAATTAAAAT
*
38997735 AAAAAAGCTTAAACAAAATTAAA
1 AAAAAAGCTTAAACAAAATGAAA
*
38997758 ATAAAAAGCTTCAAACAACATGAATA
1 A-AAAAAGCTT-AAACAAAATGAA-A
38997784 AAAAAA
1 AAAAAA
38997790 AGATCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 9 0.33
25 15 0.56
26 2 0.07
ACGTcount: A:0.67, C:0.11, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAAAGCTTAAACAAAATGAAA
Found at i:38999026 original size:9 final size:10
Alignment explanation
Indices: 38999015--38999067 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
38999005 AAAATATATA
38999015 AATAATTAA-
1 AATAATTAAT
*
38999024 AATAATGAA-
1 AATAATTAAT
*
38999033 AACAATATAAT
1 AATAAT-TAAT
38999044 AATAA-TAAT
1 AATAATTAAT
38999053 AATAA-TAAT
1 AATAATTAAT
38999062 AATAAT
1 AATAAT
38999068 AGTAACGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 31 0.84
10 2 0.05
11 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AATAATTAAT
Found at i:38999047 original size:3 final size:3
Alignment explanation
Indices: 38999039--38999068 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38999029 TGAAAACAAT
38999039 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38999069 GTAACGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39000992 original size:44 final size:45
Alignment explanation
Indices: 39000859--39001368 Score: 297
Period size: 44 Copynumber: 11.7 Consensus size: 45
39000849 TCTTCTGTCC
* * * * *
39000859 GCTCCACTGCAACTTTAGGGAGATAAGACT-G-GA--TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* * * ** * *
39000900 ACTCTACTGCAACTTCAGAGAGATAAGATCT-GTTGT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTCATCTTCAATCT
* * * **
39000944 GCTCCATTGCAACTTCAGGGAGATAGGATTAG-CTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* *
39000988 GCTCCACTGTAACTTCAGGGAGATAAGATTCGTCATCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* * * *
39001033 GCCCCACTGCAACTTCAGGGGGATAAGATCT-GT-TTGCTT-AGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTCAT-CTTCAATCT
*** * * * * *
39001077 GCTATGCTGCAACTTCAGAGTGATAAGACTAG--A--TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* * * *
39001118 GCT-CTCTGCAACTTCAGAGAGATAAGATCTA-TCAT-TTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTCATCTTCAATCT
* * * *** *
39001161 GCTCCACTACAACTTCAGGGATATAGGATTA-TTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* * * * * *
39001205 ACTCCACTGCAACTTTAAGGAGATAAGGCTT-GCCATCTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTAGTCATCTTCAATCT
* ***
39001250 GCTCCACTGCAACTTCAGGGAGATAGGATTA-TTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
* * *
39001294 GCTCCGCTGCAACTTCAGGGAGATAAGACTT-GCCATCTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTCATCTTCAATCT
* * *
39001339 GCTCCACTTCAACTTCAGGGAAATAGGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
39001369 TGTGGTTTTA
Statistics
Matches: 352, Mismatches: 96, Indels: 39
0.72 0.20 0.08
Matches are distributed among these distances:
40 22 0.06
41 32 0.09
42 3 0.01
43 13 0.04
44 175 0.50
45 106 0.30
46 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTAGTCATCTTCAATCT
Found at i:39001244 original size:217 final size:217
Alignment explanation
Indices: 39000865--39001323 Score: 586
Period size: 217 Copynumber: 2.1 Consensus size: 217
39000855 GTCCGCTCCA
* *
39000865 CTGCAACTTTAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
* ** * * * *
39000930 TGTTGTTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTAGCTTCTTCTGTCTGCTCCAC
66 TATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA-CTTCTTCTATCTACTCCAC
* * * * *
39000995 TGTAACTTCAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAG
130 TGCAACTTCAAGGAGATAAGATTCGCCATCTTCAATCCGCCCCACTGCAACTTCAGGGAGATAAG
* * * *
39001060 ATCTGTTTGCTT-AGTCTGCTATG
195 AT-TATTGGCTTCAATCTGCTACG
* * *
39001083 CTGCAACTTCAGAGTGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
*
39001147 TATCATTTTAATCCGCTCCACTACAACTTCAGGGATATAGGATTA-TTGGCTT-TAATCTACTCC
66 TATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTT--CTTCT-ATCTACTCC
* * *
39001210 ACTGCAACTTTAAGGAGATAAGGCTT-GCCATCTTCAATCCGCTCCACTGCAACTTCAGGGAGAT
128 ACTGCAACTTCAAGGAGATAA-GATTCGCCATCTTCAATCCGCCCCACTGCAACTTCAGGGAGAT
* *
39001274 AGGATTATTGGCTTCAATCTGCTCCG
192 AAGATTATTGGCTTCAATCTGCTACG
39001300 CTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
39001324 TGCCATCTTC
Statistics
Matches: 207, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
215 2 0.01
216 8 0.04
217 159 0.77
218 38 0.18
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
TATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTTCTTCTATCTACTCCACT
GCAACTTCAAGGAGATAAGATTCGCCATCTTCAATCCGCCCCACTGCAACTTCAGGGAGATAAGA
TTATTGGCTTCAATCTGCTACG
Found at i:39001276 original size:89 final size:89
Alignment explanation
Indices: 39001123--39001368 Score: 338
Period size: 89 Copynumber: 2.8 Consensus size: 89
39001113 GATCTGCTCT
* *
39001123 CTGCAACTTC-AGAGAGATAAGATCTAT--CAT-TTTAATCCGCTCCACTACAACTTCAGGGATA
1 CTGCAACTTCAAG-GAGATAAGA-CT-TGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAAA
*
39001184 TAGGATTATTGGCTTTAATCTACTCCA
63 TAGGATTATTGGCTTCAATCTACTCCA
* * * *
39001211 CTGCAACTTTAAGGAGATAAGGCTTGCCATCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAAATAG
* *
39001276 GATTATTGGCTTCAATCTGCTCCG
66 GATTATTGGCTTCAATCTACTCCA
* *
39001300 CTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTTCAACTTCAGGGAAATAG
1 CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAAATAG
39001365 GATT
66 GATT
39001369 TGTGGTTTTA
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 20 0.14
89 118 0.84
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (89 bp):
CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAAATAG
GATTATTGGCTTCAATCTACTCCA
Found at i:39002256 original size:26 final size:26
Alignment explanation
Indices: 39002216--39002265 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
39002206 AGTATCTTGA
*
39002216 AAAGAACAAAGTATTCCAAGAACAAC
1 AAAGAACAAAATATTCCAAGAACAAC
*
39002242 AAAGAATAAAATATTCCAAGAACA
1 AAAGAACAAAATATTCCAAGAACA
39002266 GCAAGTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAGAACAAAATATTCCAAGAACAAC
Found at i:39018616 original size:6 final size:6
Alignment explanation
Indices: 39018605--39018645 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
39018595 ATTTTTAAGT
39018605 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
39018646 TTATGAACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:39021153 original size:19 final size:19
Alignment explanation
Indices: 39021126--39021162 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39021116 AAAATATACC
*
39021126 AACATTTATATACCAACAA
1 AACAATTATATACCAACAA
39021145 AACAATTATATACCAACA
1 AACAATTATATACCAACA
39021163 TTGGCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (19 bp):
AACAATTATATACCAACAA
Found at i:39021684 original size:24 final size:25
Alignment explanation
Indices: 39021657--39021711 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
39021647 GTATTTGTAT
* *
39021657 GCTCATACGAGTTGTA-AACGGAAA
1 GCTCATACGAGCTGAATAACGGAAA
39021681 GCTCATACGAGCTGAATAACGGAAA
1 GCTCATACGAGCTGAATAACGGAAA
*
39021706 GTTCAT
1 GCTCAT
39021712 GCAAGCTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGAAA
Found at i:39025557 original size:2 final size:2
Alignment explanation
Indices: 39025550--39025598 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
39025540 TCTCTGTCAA
39025550 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
39025592 CT CT CT C
1 CT CT CT C
39025599 ATGGATTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:39028164 original size:14 final size:16
Alignment explanation
Indices: 39028145--39028177 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39028135 AAACTATAAG
39028145 TTAAATA-AA-TTAGA
1 TTAAATATAAGTTAGA
39028159 TTAAATATAAGTTAGA
1 TTAAATATAAGTTAGA
39028175 TTA
1 TTA
39028178 CTGATTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (16 bp):
TTAAATATAAGTTAGA
Found at i:39028776 original size:13 final size:12
Alignment explanation
Indices: 39028736--39028778 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
39028726 ATATTTTTAA
*
39028736 TTTTATATTAACT
1 TTTTATA-TAATT
39028749 TTTTATA-AATT
1 TTTTATATAATT
39028760 TTTTATATAATT
1 TTTTATATAATT
39028772 ATTTTAT
1 -TTTTAT
39028779 CCGTGTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
12 4 0.15
13 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:39030186 original size:42 final size:42
Alignment explanation
Indices: 39030107--39030186 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
39030097 TCAGATGCCT
*
39030107 CACGGCCTGGACACACGCCCATGTCCTTGCCCATGTGGCTTA
1 CACGGCCTGGACACACGCCCATGTCCTTACCCATGTGGCTTA
* *
39030149 CACGGCCT-GACACACGCCCATGTCGTCTACCCGTGTGG
1 CACGGCCTGGACACACGCCCATGTCCT-TACCCATGTGG
39030187 TTCTAAATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (42 bp):
CACGGCCTGGACACACGCCCATGTCCTTACCCATGTGGCTTA
Found at i:39030281 original size:42 final size:42
Alignment explanation
Indices: 39030222--39030319 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
39030212 ATGGCCTAGA
* *
39030222 CACACACCCATGTCCTTGCCCGTGTGGCTCACATAGCCTGGG
1 CACACGCCCATGTCCTTGCCCGTGTAGCTCACATAGCCTGGG
* *
39030264 CACACGCTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGG
1 CACACGCCCATGTCCTTGCCCGTGTAGCTCACATAGCCTGGG
39030306 CACACGCCCATGTC
1 CACACGCCCATGTC
39030320 ATCTGCCTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.17, C:0.38, G:0.22, T:0.22
Consensus pattern (42 bp):
CACACGCCCATGTCCTTGCCCGTGTAGCTCACATAGCCTGGG
Found at i:39030382 original size:147 final size:146
Alignment explanation
Indices: 39030111--39030435 Score: 407
Period size: 147 Copynumber: 2.2 Consensus size: 146
39030101 ATGCCTCACG
* * * *
39030111 GCCTGGACACACGCCCATGTCCTTGCCCATGTGGCTTACACGGCCTGACACACGCCCATGTCGTC
1 GCCTGGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCTGACACACGCCCATGTCATC
* * *
39030176 TACCCGTGTGGTTCTAAATCGTAAAAAATAAGTTACATGGCCTAGACACACACCCATGTCCTTGC
66 TACCCGTGTGATTCTAAATCATAAAAAATAAGTTACACGGCCTAGACACACACCCATGTCCTTGC
* *
39030241 CCGTGTGGCTCACATA
131 CCGTATGGCTCACACA
* * * *
39030257 GCCTGGGCACACGCTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGGCACACGCCCATGTCAT
1 GCCTGGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCT-GACACACGCCCATGTCAT
* * * * * * * * *
39030322 CTGCCTGTGTTATTCTAAATCATAAAAAGTGAGTTACACGGCTTGGACACACGCCTATGTCCTTG
65 CTACCCGTGTGATTCTAAATCATAAAAAATAAGTTACACGGCCTAGACACACACCCATGTCCTTG
39030387 CCCGTATGGCTCACACA
130 CCCGTATGGCTCACACA
* * * *
39030404 GCCTAGGCACACACCCATGTCCCTGGCCATGT
1 GCCTGGGCACACGCCCATGTCCTTGCCCATGT
39030436 GGTCTTAAAT
Statistics
Matches: 150, Mismatches: 28, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
146 40 0.27
147 110 0.73
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (146 bp):
GCCTGGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCTGACACACGCCCATGTCATC
TACCCGTGTGATTCTAAATCATAAAAAATAAGTTACACGGCCTAGACACACACCCATGTCCTTGC
CCGTATGGCTCACACA
Found at i:39030480 original size:104 final size:105
Alignment explanation
Indices: 39030264--39030491 Score: 275
Period size: 105 Copynumber: 2.2 Consensus size: 105
39030254 ATAGCCTGGG
* * * * * *
39030264 CACACG-CTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGGCACACGCCCATGTCATCTGCCT
1 CACACGCCT-ATGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCTGCCT
* * * *
39030328 GTGTTATTCTAAATCATAAAAAGTGAGTTACACGGCTTGGA
65 GTGGTACTCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
*
39030369 CACACGCCTATGTCCTTGCCCGTATGGCTCACACAGCCTAGGCACACACCCATGTC-CCTGGCCA
1 CACACGCCTATGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCT-GCC-
* *
39030433 TGTGGT-CT-TAAATCATAAACAGTGAGTTACACGGCCTATA
64 TGTGGTACTCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
*
39030473 CACACGCCCATGTCCTTGC
1 CACACGCCTATGTCCTTGC
39030492 TTGTGTGAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
104 48 0.45
105 51 0.48
106 7 0.07
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (105 bp):
CACACGCCTATGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCTGCCTG
TGGTACTCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
Found at i:39032973 original size:18 final size:19
Alignment explanation
Indices: 39032950--39032985 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
39032940 CCCATATTGT
39032950 ATTTATTAATT-TTTATTA
1 ATTTATTAATTATTTATTA
39032968 ATTTATTAATTATTTATT
1 ATTTATTAATTATTTATT
39032986 TCGAATGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTAATTATTTATTA
Found at i:39034961 original size:20 final size:19
Alignment explanation
Indices: 39034934--39034975 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
39034924 CCTTTCAAAT
39034934 TTTCTTATTTT-CATTTGCA
1 TTTCTTATTTTCCA-TTGCA
39034953 TTTCATTATTTTCCATTGCA
1 TTTC-TTATTTTCCATTGCA
39034973 TTT
1 TTT
39034976 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTCTTATTTTCCATTGCA
Found at i:39038531 original size:13 final size:14
Alignment explanation
Indices: 39038515--39038547 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
39038505 TTTTTCCATC
39038515 TTAATTATT-TATT
1 TTAATTATTCTATT
*
39038528 TTAATTATTCTTTT
1 TTAATTATTCTATT
39038542 TTAATT
1 TTAATT
39038548 TATAGATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTAATTATTCTATT
Found at i:39042067 original size:25 final size:25
Alignment explanation
Indices: 39042033--39042135 Score: 93
Period size: 25 Copynumber: 4.1 Consensus size: 25
39042023 TCATGTACAT
* *
39042033 GTATGCTCATACGAGCTGTGAATCA
1 GTATGCTCATACGAGCTATAAATCA
** *
39042058 GTATGCTCATTTGAGCTA-AAGATCG
1 GTATGCTCATACGAGCTATAA-ATCA
* *
39042083 GTATGCTC-TCACGAGCTATGAATCG
1 GTATGCTCAT-ACGAGCTATAAATCA
* *
39042108 GTATGCTCTTATGAGCTATAAATCA
1 GTATGCTCATACGAGCTATAAATCA
39042133 GTA
1 GTA
39042136 ACCCTAATGA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 2 0.03
25 59 0.94
26 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCA
Found at i:39049433 original size:25 final size:25
Alignment explanation
Indices: 39049352--39049442 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
39049342 ATGCTCAAAT
* * *
39049352 GAGCTGTGAATCGGTGTGCTCATT-T
1 GAGCTATGAATCGGTATGCTC-TTAC
* * *
39049377 GAGCTGAAG-ATCGATATGCTCTCAC
1 GAGCT-ATGAATCGGTATGCTCTTAC
39049402 GAGCTATGAATCGGTATGCTCTTAC
1 GAGCTATGAATCGGTATGCTCTTAC
*
39049427 GAGCTATAAATCGGTA
1 GAGCTATGAATCGGTA
39049443 ACTCTAATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 3 0.06
25 49 0.92
26 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (25 bp):
GAGCTATGAATCGGTATGCTCTTAC
Found at i:39053522 original size:15 final size:15
Alignment explanation
Indices: 39053502--39053538 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
39053492 ACTTAAGTAT
39053502 AAATCATTTGAGCCC
1 AAATCATTTGAGCCC
39053517 AAATCATTTGAGCCC
1 AAATCATTTGAGCCC
*
39053532 TAATCAT
1 AAATCAT
39053539 ATATGTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (15 bp):
AAATCATTTGAGCCC
Found at i:39057404 original size:16 final size:15
Alignment explanation
Indices: 39057375--39057403 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39057365 AAGTATAATA
39057375 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
39057390 AAATATTAAAAAAA
1 AAATATTAAAAAAA
39057404 AAAGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:39062766 original size:45 final size:46
Alignment explanation
Indices: 39062708--39062926 Score: 222
Period size: 45 Copynumber: 4.9 Consensus size: 46
39062698 TAATTACACT
*
39062708 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGTTATCCGA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
* * *
39062754 G-GGAACCAGCACTTAGCAACCACC-TTACT-TACATGGATATCC-A
1 GTGGAATCAGCACTTAGCAACCACCTTTA-TATTCAAGGATATCCGA
* * *
39062797 GTGGAATCATCACTTAGCAACCACCTTTATATTCGAGGATATCTG-
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
* * * * *
39062842 GTGGAATTAGCACTTAACAACCACC--TACT-TACATGGATATCTG-
1 GTGGAATCAGCACTTAGCAACCACCTTTA-TATTCAAGGATATCCGA
* * *
39062885 GTGGAATTAGCGCTTAGCAACCACCTTTATATTCGAGGATAT
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATAT
39062927 TTGGTCTAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
43 38 0.27
44 37 0.26
45 67 0.47
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (46 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
Found at i:39062893 original size:43 final size:43
Alignment explanation
Indices: 39062761--39062910 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 43
39062751 CGAGGGAACC
** *
39062761 AGCACTTAGCAACCACCTTACTTACATGGATATCCAGTGGAATC
1 AGCACTTAGCAACCACC-TACTTACATGGATATCTGGTGGAATT
* *
39062805 ATCACTTAGCAACCACCT--TTATATTCGAGGATATCTGGTGGAATT
1 AGCACTTAGCAACCACCTACTTACA-T---GGATATCTGGTGGAATT
*
39062850 AGCACTTAACAACCACCTACTTACATGGATATCTGGTGGAATT
1 AGCACTTAGCAACCACCTACTTACATGGATATCTGGTGGAATT
*
39062893 AGCGCTTAGCAACCACCT
1 AGCACTTAGCAACCACCT
39062911 TTATATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 34 0.38
44 16 0.18
45 30 0.33
46 1 0.01
47 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AGCACTTAGCAACCACCTACTTACATGGATATCTGGTGGAATT
Found at i:39062914 original size:88 final size:89
Alignment explanation
Indices: 39062708--39062931 Score: 317
Period size: 89 Copynumber: 2.5 Consensus size: 89
39062698 TAATTACACT
* * * *
39062708 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGTTATCCGAG-GGAACCAGCACTTAGCA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTG-GTGGAACCAGCACTTAACA
39062772 ACCACCTTACTTACATGGATATCCA
65 ACCACCTTACTTACATGGATATCCA
* **
39062797 GTGGAATCATCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAATTAGCACTTAACAA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAACCAGCACTTAACAA
**
39062862 CCACC-TACTTACATGGATATCTG
66 CCACCTTACTTACATGGATATCCA
* * *
39062885 GTGGAATTAGCGCTTAGCAACCACCTTTATATTCGAGGATATTTGGT
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGT
39062932 CTAATCCGAG
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
88 60 0.50
89 61 0.50
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (89 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAACCAGCACTTAACAA
CCACCTTACTTACATGGATATCCA
Found at i:39067650 original size:8 final size:8
Alignment explanation
Indices: 39067637--39067663 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
39067627 AAAAAAATCG
39067637 AAATAATA
1 AAATAATA
39067645 AAATAATA
1 AAATAATA
39067653 AAATAATA
1 AAATAATA
39067661 AAA
1 AAA
39067664 GCTGATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:39070185 original size:15 final size:16
Alignment explanation
Indices: 39070165--39070195 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39070155 ATTTTTTTAT
39070165 GAATCAT-ATCACATC
1 GAATCATAATCACATC
39070180 GAATCATAATCACATC
1 GAATCATAATCACATC
39070196 ATGTCTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
GAATCATAATCACATC
Found at i:39071010 original size:22 final size:22
Alignment explanation
Indices: 39070980--39071022 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
39070970 ACACCAAAAC
*
39070980 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
39071002 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
39071023 AACGCCGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:39072469 original size:21 final size:20
Alignment explanation
Indices: 39072422--39072473 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
39072412 TATGTAGGTA
** *
39072422 TAATAATAATAATATTATAT
1 TAATAATAATAATACAAAAT
39072442 TATATAATAATAATAACAAAAT
1 TA-ATAATAATAAT-ACAAAAT
39072464 TAATAA-AATA
1 TAATAATAATA
39072474 GACTAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 15 0.56
22 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAATAATAATACAAAAT
Found at i:39072716 original size:19 final size:21
Alignment explanation
Indices: 39072678--39072716 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
39072668 CCTTTTTTAA
*
39072678 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
39072699 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
39072717 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:39072949 original size:21 final size:21
Alignment explanation
Indices: 39072923--39072996 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
39072913 TCATATCTTG
39072923 TAAGATTGTATATATCATATC
1 TAAGATTGTATATATCATATC
*
39072944 TAAGATTGCATATATCATATC
1 TAAGATTGTATATATCATATC
*
39072965 TAAGATTG--CATATCATATC
1 TAAGATTGTATATATCATATC
39072984 TAAGATTGTATAT
1 TAAGATTGTATAT
39072997 CCTCGAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
21 30 0.62
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
TAAGATTGTATATATCATATC
Found at i:39072956 original size:19 final size:19
Alignment explanation
Indices: 39072934--39072997 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
39072924 AAGATTGTAT
39072934 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
39072953 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
39072974 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
39072993 ATATC
1 ATATC
39072998 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:39073764 original size:132 final size:132
Alignment explanation
Indices: 39073527--39075153 Score: 2527
Period size: 132 Copynumber: 12.3 Consensus size: 132
39073517 TTCACTGCAA
* * *
39073527 CTTCAACCTACTCCGCTACTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
*
39073592 CTTGGAAAGATAAGATTTGCCGA-CTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTAC
66 CTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
39073656 AAT
130 AAT
* * *
39073659 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
*
39073724 CTTGGAAAGATTAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39073789 AT
131 AT
* * *
39073791 CTTCAATCTACTCCGCTGCTGCTCAGAGAGACAAAGCTTGGTGGCTTAAATATGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
** * *
39073856 CTTGGAAAGATAAGATTTTACGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39073921 AT
131 AT
* * *
39073923 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * *
39073988 CTTGGAAAGATAAGATTTGTCATCTTTGATCTGCTCCACTACTACTTAAGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074053 AT
131 AT
* * * *
39074055 CTTTAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * *
39074120 CTTGGAAAGATAAGATTTGCCATCTTTAATCTACTCCACTACTGCTTAAGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074185 AT
131 AT
* * *
39074187 CTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * * * *
39074252 CTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCTACTACTACTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074317 AT
131 AT
* ** * * * *
39074319 CTTTAACCTTTTCTGTTGCTGTTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
39074384 CTTGGAAAGATAAGATTTGCCATCTTTGATCTACTTCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074449 AT
131 AT
* * * * *
39074451 CTTCAACCTACTCCACTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTACTTTCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * *
39074516 CTTGGAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074581 AT
131 AT
* *
39074583 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
39074648 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074713 AT
131 AT
* *
39074715 CTTCAACCTACTCCGCTGCTGCTCAGGGAGACATGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
39074780 CTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074845 AT
131 AT
* * *
39074847 CTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGCGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * *
39074912 CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39074977 AT
131 AT
* * ** * *
39074979 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTATGGCTTAAATCTGTTTCCTACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
*
39075044 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
39075109 AT
131 AT
* * * * *
39075111 CTTTAATCTACTACACTGCTGCTCAGGGAGACAAGGCTTGGTG
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTG
39075154 TTTCACCGGT
Statistics
Matches: 1365, Mismatches: 129, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 1364 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
AT
Found at i:39073793 original size:44 final size:44
Alignment explanation
Indices: 39073615--39074189 Score: 132
Period size: 44 Copynumber: 13.1 Consensus size: 44
39073605 GATTTGCCGA
* *
39073615 CTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
39073659 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGA-CT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * *
39073701 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATTAGATTTGCCAT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAAT
*
39073747 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
39073791 CTTCAATCTACTCCGCTGCTGCTCAGAGAGACAA-AGCT-TGGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * *
39073833 GGCTTAAATATGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTTAC-GT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGA-TCTACAAT
* *
39073879 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
39073923 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGA-CT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * *
39073965 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGTC-AT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* * *
39074011 CTTTGATCTGCTCCACTACTACTTAAGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
39074055 CTTTAACCTTCTCCGCTGCTGCTCAGAGAGACAAG-GCT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * *
39074097 GGCTTAAATCTGCTTCCTACTA-T-CTT-GGAAAGATAAGATTTGCCAT
1 --CTTTAATCTGC-TCC-ACTACTGCTTAGG-GAGATAAGATCTACAAT
* *
39074143 CTTTAATCTACTCCACTACTGCTTAAGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
39074187 CTT
1 CTT
39074190 CAACCTACTC
Statistics
Matches: 356, Mismatches: 131, Indels: 88
0.62 0.23 0.15
Matches are distributed among these distances:
42 26 0.07
43 28 0.08
44 262 0.74
45 20 0.06
46 20 0.06
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
Found at i:39074573 original size:44 final size:44
Alignment explanation
Indices: 39074523--39075103 Score: 145
Period size: 44 Copynumber: 13.2 Consensus size: 44
39074513 TATCTTGGAA
*
39074523 AGATAAGATTTGTCATCTTCGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * * * * * * *
39074567 AGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
* * ** * *
39074611 AGACAAGGCTTTGT-GGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAA-GATTTGTCATCTTCAATCTGC-TCCACTACT-TCTTAGG-G
* ** *
39074655 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * * * * *
39074699 AGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-ATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * ** * *
39074743 AGACATGGCTTGGT-GGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATA-AGATTTGTCATCTTCAATCTGC-TCCACTACT-TCTTAGG-G
* * ** * *
39074787 AGATAAGATTTGCCGTCTTTGATCTGCTTCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * * * * *
39074831 AGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-ATCTTCAATCTGCTCCACTACTTCTTAGGG
* ** * ** * * *
39074875 AGACAAGGCTTGGCGGCTTAAATCTACTTCC-C-ACTATCTT-GGAA
1 AGATAAGATTTGTCATCTTCAATCTGC-TCCACTACT-TCTTAGG-G
* * *
39074919 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * * * * * *
39074963 AGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGTC-ATCTTCAATCTGCTCCACTACTTCTTAGGG
* * * * * *
39075007 AGACAAGACTT-T-ATGGCTTAAATCTGTTTC-CTACTATCTT-GGAA
1 AGATAAGATTTGTCAT--CTTCAATCTGCTCCACTACT-TCTTAGG-G
* **
39075051 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
39075095 AGATAAGAT
1 AGATAAGAT
39075104 CTACAATCTT
Statistics
Matches: 367, Mismatches: 135, Indels: 70
0.64 0.24 0.12
Matches are distributed among these distances:
42 2 0.01
43 36 0.10
44 289 0.79
45 38 0.10
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGTCATCTTCAATCTGCTCCACTACTTCTTAGGG
Found at i:39076389 original size:11 final size:10
Alignment explanation
Indices: 39076375--39076421 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
39076365 TTGCTTCTCT
39076375 TTTCATTTTTC
1 TTTC-TTTTTC
39076386 TTTCTTTTTC
1 TTTCTTTTTC
*
39076396 TTT-TCTTTC
1 TTTCTTTTTC
39076405 TTTC-TTTTC
1 TTTCTTTTTC
39076414 TTT-TTTTT
1 TTTCTTTTT
39076422 TTAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 19 0.59
10 9 0.28
11 4 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:39076390 original size:18 final size:17
Alignment explanation
Indices: 39076369--39076418 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
39076359 CTCCTTTTGC
39076369 TTCTCTTTTCATTTTTCT
1 TTCTCTTTTC-TTTTTCT
39076387 TTCT-TTTTC-TTTTCT
1 TTCTCTTTTCTTTTTCT
39076402 TTCTTTCTTTTCTTTTT
1 TTC--TCTTTTCTTTTT
39076419 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.32
17 6 0.21
18 9 0.32
19 4 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTCTTTTCTTTTTCT
Found at i:39076418 original size:19 final size:19
Alignment explanation
Indices: 39076382--39076417 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
39076372 TCTTTTCATT
39076382 TTTCTTTCTTTTTCTTTTC
1 TTTCTTTCTTTTTCTTTTC
39076401 TTTCTTTC-TTTTCTTTT
1 TTTCTTTCTTTTTCTTTT
39076418 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTCTTTTTCTTTTC
Found at i:39080845 original size:51 final size:52
Alignment explanation
Indices: 39080789--39080901 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 52
39080779 TATAAAACTT
* *
39080789 ATATATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAA
1 ATATATATATATAAAATACATTAATGCATTTA-CAAAAAAAGGAAATATATAA
* * * *
39080840 ATATATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATATATAA
1 ATATATATATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAA
*
39080892 GTATA-ATATA
1 ATATATATATA
39080902 AAACGTGGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
51 32 0.62
52 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (52 bp):
ATATATATATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAA
Found at i:39081669 original size:23 final size:24
Alignment explanation
Indices: 39081639--39081685 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
39081629 AAATTAAATC
39081639 TCTAAGATTATA-AAATCATATCT
1 TCTAAGATTATATAAATCATATCT
* *
39081662 TCTAAGATTGTATATATCATATCT
1 TCTAAGATTATATAAATCATATCT
39081686 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAAGATTATATAAATCATATCT
Found at i:39081688 original size:21 final size:21
Alignment explanation
Indices: 39081662--39081737 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
39081652 AATCATATCT
39081662 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
39081683 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
39081704 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
39081723 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
39081738 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:39081697 original size:19 final size:19
Alignment explanation
Indices: 39081675--39081738 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
39081665 AAGATTGTAT
39081675 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
39081694 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
39081715 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
39081734 ATATC
1 ATATC
39081739 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:39081881 original size:43 final size:42
Alignment explanation
Indices: 39081833--39082207 Score: 258
Period size: 43 Copynumber: 8.7 Consensus size: 42
39081823 ATAAACGCTG
* * *
39081833 CTAAAGACCAAGACCTTTAGCGGCGC-TTTCGCCACAAATGCCT
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCG--ACAAACGCCA
* ** * *
39081876 CTAAAGGCCATGGTCTTTAGTGGCGCTTTTCAGACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTC-GACAAACGCCA
39081919 CTAAAGACCATGACCTTTAGCGGCGCTTATTCGGA-AAACGCCA
1 CTAAAGACCATGACCTTTAGCGGCGCTT-TTC-GACAAACGCCA
* * *
39081962 CTAAAGACCATGACCTTTTAGCGGCGCATTTCCTG-CAAACGTCG
1 CTAAAGACCATGACC-TTTAGCGGCGC-TTTTC-GACAAACGCCA
* * * * *
39082006 CTAAAGACCCTAATCTTTAACGACGCTTTTACAGA-AAACG-CA
1 CTAAAGACCATGACCTTTAGCGGCGCTTTT-C-GACAAACGCCA
* * * *
39082048 GCTAAATACCCTGATCTTTAGCGGCGCTTTTCTCG-CAAACGCCG
1 -CTAAAGACCATGACCTTTAGCGGCGC-TTT-TCGACAAACGCCA
* * * * * *
39082092 CTAAAGACCATTATCTTTAGCGACGCTTTTACCACAAATGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTT-CGACAAACGCCA
* * * * * *
39082135 CTAAAGATCATTATCTTTAGCGACGCTTTTACCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTT-CGACAAACGCCA
* * *
39082178 CTAAAGACCATTATCTTTAGCGGAGCTTTT
1 CTAAAGACCATGACCTTTAGCGGCGCTTTT
39082208 TTTTAAAACG
Statistics
Matches: 276, Mismatches: 41, Indels: 30
0.80 0.12 0.09
Matches are distributed among these distances:
41 1 0.00
42 8 0.03
43 217 0.79
44 46 0.17
45 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
CTAAAGACCATGACCTTTAGCGGCGCTTTTCGACAAACGCCA
Found at i:39081966 original size:86 final size:85
Alignment explanation
Indices: 39081825--39082207 Score: 330
Period size: 86 Copynumber: 4.4 Consensus size: 85
39081815 TTTTAGAAAT
* * * * * * *
39081825 AAACGCTGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCGCCACAAATGCCTCTAAAGGCCATGG
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCG-CA-AAACGCCACTAAAGACCATGA
*
39081889 TCTTTAGTGGCGCTTTTCAGAC
64 TCTTTAGCGGCGCTTTTCAGAC
* * *
39081911 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTATTCGGAAAACGCCACTAAAGACCATGAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTT-TTCGCAAAACGCCACTAAAGACCATGAT
* *
39081976 CTTTTAGCGGCGCATTTCCTG-C
65 C-TTTAGCGGCGC-TTTTCAGAC
* * * * * * *
39081998 AAACGTCGCTAAAGACCCTAATCTTTAACGACGCTTTTACAG-AAAACG-CAGCTAAATACCCTG
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTT-C-GCAAAACGCCA-CTAAAGACCATG
*
39082061 ATCTTTAGCGGCGCTTTTCTCG-C
63 ATCTTTAGCGGCGCTTTTC-AGAC
* * * * * *
39082084 AAACGCCGCTAAAGACCATTATCTTTAGCGACGCTTTTAC-CACAAATGCCGCTAAAGATCATTA
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTT-CGCA-AAACGCCACTAAAGACCATGA
* *
39082148 TCTTTAGCGACGCTTTT-ACCAC
64 TCTTTAGCGGCGCTTTTCA-GAC
* *
39082170 AAACGCCGCTAAAGACCATTATCTTTAGCGGAGCTTTT
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTT
39082208 TTTTAAAACG
Statistics
Matches: 247, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
85 5 0.02
86 169 0.68
87 63 0.26
88 10 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCGCAAAACGCCACTAAAGACCATGATC
TTTAGCGGCGCTTTTCAGAC
Found at i:39082601 original size:21 final size:21
Alignment explanation
Indices: 39082545--39082615 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
39082535 TTTTATGCTG
* * *
39082545 CTCTGTTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGTTGCAGC
*
39082566 CTCTACTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGTTGCAGC
* *
39082587 CTCTGCTTCTCTCGTTGCCGC
1 CTCTGCTTCCCTCGTTGCAGC
*
39082608 ATCTGCTT
1 CTCTGCTT
39082616 TAAGCAGCTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.06, C:0.39, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGTTGCAGC
Found at i:39087003 original size:9 final size:9
Alignment explanation
Indices: 39086986--39087254 Score: 194
Period size: 9 Copynumber: 31.0 Consensus size: 9
39086976 TATGTATTAA
*
39086986 GTAAATTAT
1 GTAAGTTAT
39086995 GTAAGTTAT
1 GTAAGTTAT
39087004 GTACA-TGTA-
1 GTA-AGT-TAT
39087013 -TAAGTTAT
1 GTAAGTTAT
39087021 GTAAGTTAT
1 GTAAGTTAT
*
39087030 GT-A-TTAA
1 GTAAGTTAT
*
39087037 GTAAGCTAT
1 GTAAGTTAT
* *
39087046 GTAACTTGT
1 GTAAGTTAT
39087055 GT-A-TTAT
1 GTAAGTTAT
39087062 GTAAGTTAT
1 GTAAGTTAT
39087071 GTAAGTTAT
1 GTAAGTTAT
** *
39087080 CAAAGTAAT
1 GTAAGTTAT
**
39087089 GTATCTTAT
1 GTAAGTTAT
39087098 GTAAG-T-T
1 GTAAGTTAT
39087105 GTAAGTTAT
1 GTAAGTTAT
*
39087114 -TATGTATTAT
1 GTAAG--TTAT
39087124 GTAAGTTAT
1 GTAAGTTAT
39087133 GTAAGTTAT
1 GTAAGTTAT
39087142 GT-A-TTAT
1 GTAAGTTAT
*
39087149 GTAGGTTAT
1 GTAAGTTAT
*
39087158 GTAAGATAT
1 GTAAGTTAT
*
39087167 TTAAGTTAT
1 GTAAGTTAT
*
39087176 GTAAGTTTT
1 GTAAGTTAT
39087185 GT-A-TTAT
1 GTAAGTTAT
39087192 GTAAGTTAT
1 GTAAGTTAT
39087201 GTAAGTTAT
1 GTAAGTTAT
* *
39087210 GTATGCTAT
1 GTAAGTTAT
39087219 GT-A-TTAT
1 GTAAGTTAT
39087226 GTAAGTTGTTAT
1 GTAA---GTTAT
*
39087238 GTTA-TTAT
1 GTAAGTTAT
39087246 GTAAGTTAT
1 GTAAGTTAT
39087255 ACAAGTTTAT
Statistics
Matches: 202, Mismatches: 34, Indels: 48
0.71 0.12 0.17
Matches are distributed among these distances:
7 35 0.17
8 23 0.11
9 127 0.63
10 7 0.03
11 3 0.01
12 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:39087006 original size:25 final size:25
Alignment explanation
Indices: 39086975--39087232 Score: 170
Period size: 25 Copynumber: 10.1 Consensus size: 25
39086965 TGATATATAT
*
39086975 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAATTATGTAAG
*
39087000 TTATGTA-CATGTATAAGTTATGTAAG
1 TTATGTATTATGTA-AA-TTATGTAAG
* ** *
39087026 TTATGTATTAAGTAAGCTATGTAAC
1 TTATGTATTATGTAAATTATGTAAG
* *
39087051 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAATTATGTAAG
** * **
39087076 TTATCAAAGTAATGTATCTTATGTAAG
1 TTAT-GTA-TTATGTAAATTATGTAAG
*
39087103 TTGTAAGTTATTATGT--ATTATGTAAG
1 -T-TATG-TATTATGTAAATTATGTAAG
*
39087129 TTATGTAAGTTATGT--ATTATGTAGG
1 TTATGT-A-TTATGTAAATTATGTAAG
* * *
39087154 TTATGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAATTATGTAAG
* *
39087181 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAATTATGTAAG
39087206 TTATGTATGCTATGT--ATTATGTAAG
1 TTATGTAT--TATGTAAATTATGTAAG
39087231 TT
1 TT
39087233 GTTATGTTAT
Statistics
Matches: 186, Mismatches: 33, Indels: 28
0.75 0.13 0.11
Matches are distributed among these distances:
23 1 0.01
24 8 0.04
25 103 0.55
26 28 0.15
27 37 0.20
28 6 0.03
29 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGTAAATTATGTAAG
Found at i:39087092 original size:34 final size:32
Alignment explanation
Indices: 39086990--39087232 Score: 157
Period size: 34 Copynumber: 7.4 Consensus size: 32
39086980 TATTAAGTAA
39086990 ATTATGTAAGTTATGTACA-TGTA-TAAGTTATGT
1 ATTATGTAAGTTATGTA-AGT-TATTAAG-TATGT
* * * *
39087023 AAGTTATGT-A-TTAAGTAAGCTATGTAACTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTAT-TAA-GTATGT
*
39087057 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAGT-ATGT
39087091 ATCTTATGTAAG-T-TGTAAGTTA-T---TATGT
1 A--TTATGTAAGTTATGTAAGTTATTAAGTATGT
*
39087119 ATTATGTAAGTTATGTAAGTTATGT-ATTATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAGTATGT
* * *
39087151 AGGTTATGTAAGATATTTAAGTTATGTAAGTTTTGT
1 A--TTATGTAAGTTATGTAAGTTAT-TAAG-TATGT
*
39087187 ATTATGTAAGTTATGTAAGTTATGTATGCTATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAG-TATGT
39087221 ATTATGTAAGTT
1 ATTATGTAAGTT
39087233 GTTATGTTAT
Statistics
Matches: 169, Mismatches: 20, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.05
27 1 0.01
28 14 0.08
29 1 0.01
30 1 0.01
32 15 0.09
33 9 0.05
34 97 0.57
35 8 0.05
36 14 0.08
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (32 bp):
ATTATGTAAGTTATGTAAGTTATTAAGTATGT
Found at i:39087118 original size:19 final size:19
Alignment explanation
Indices: 39087094--39087132 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39087084 GTAATGTATC
39087094 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
39087113 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
39087132 T
1 T
39087133 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:39087179 original size:43 final size:43
Alignment explanation
Indices: 39087017--39087205 Score: 170
Period size: 43 Copynumber: 4.4 Consensus size: 43
39087007 CATGTATAAG
* ** * *
39087017 TTATGTAAGTTATGT-A-TTAAGTAAGCTATGTAACTTGTGTA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
* * * *
39087058 TTATGTAAGTTATGTAAGTTATCAAAGTAATGTATCTTATGTAA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGT-A
* * * *
39087102 GT-TGTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAG-A-TATCTAAGTTATGTAACTTATGTA
* * * *
39087145 TTATGTAGGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
39087188 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
39087206 TTATGTATGC
Statistics
Matches: 120, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
41 15 0.12
42 4 0.03
43 68 0.57
44 30 0.25
45 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
Found at i:39087359 original size:16 final size:16
Alignment explanation
Indices: 39087335--39087389 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
39087325 TATAAAAAAT
*
39087335 TTATATAAGTTATGTA
1 TTATGTAAGTTATGTA
39087351 TTATGTAAG----GTA
1 TTATGTAAGTTATGTA
**
39087363 ACATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
39087379 TTATGTAAGTT
1 TTATGTAAGTT
39087390 TACATATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
12 10 0.33
16 20 0.67
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:39087611 original size:13 final size:13
Alignment explanation
Indices: 39087593--39087757 Score: 109
Period size: 13 Copynumber: 12.5 Consensus size: 13
39087583 TAAATTTTAG
*
39087593 TAAGTAATGTATT
1 TAAGTAATATATT
*
39087606 TAAGTAACATATT
1 TAAGTAATATATT
*
39087619 TAAGTAATAAATT
1 TAAGTAATATATT
** *
39087632 TAAACAA-ATTTT
1 TAAGTAATATATT
*
39087644 AGTAAGTAATGTATT
1 --TAAGTAATATATT
* **
39087659 TGAGTAGCATATT
1 TAAGTAATATATT
*
39087672 TAAGTAATAAATT
1 TAAGTAATATATT
** *
39087685 TAACCAA-ATTTT
1 TAAGTAATATATT
* *
39087697 AGTAAGTAGTGTATT
1 --TAAGTAATATATT
*
39087712 TAAGTAATTTATT
1 TAAGTAATATATT
39087725 TAAGTAATATATT
1 TAAGTAATATATT
*
39087738 CAAGTAATATATT
1 TAAGTAATATATT
*
39087751 AAAGTAA
1 TAAGTAA
39087758 ATTTTAGTAA
Statistics
Matches: 112, Mismatches: 34, Indels: 12
0.71 0.22 0.08
Matches are distributed among these distances:
12 6 0.05
13 91 0.81
14 9 0.08
15 6 0.05
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:39087642 original size:23 final size:23
Alignment explanation
Indices: 39087611--39087701 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 23
39087601 GTATTTAAGT
*
39087611 AACATATTTAAGTAATAAATTTA
1 AACAAATTTAAGTAATAAATTTA
*
39087634 AACAAATTTTAGTAAGTAATGTATTTGA
1 AACAAATTTAAGTAA-TAA---ATTT-A
* *
39087662 GTAGCATATTTAAGTAATAAATTTA
1 --AACAAATTTAAGTAATAAATTTA
* *
39087687 ACCAAATTTTAGTAA
1 AACAAATTTAAGTAA
39087702 GTAGTGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
23 25 0.47
24 3 0.06
25 1 0.02
26 4 0.08
27 4 0.08
28 1 0.02
29 3 0.06
30 12 0.23
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (23 bp):
AACAAATTTAAGTAATAAATTTA
Found at i:39087649 original size:53 final size:53
Alignment explanation
Indices: 39087584--39087733 Score: 246
Period size: 53 Copynumber: 2.8 Consensus size: 53
39087574 ATATATACTT
39087584 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* * *
39087637 AAATTTTAGTAAGTAATGTATTTGAGTAGCATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* **
39087690 AAATTTTAGTAAGTAGTGTATTTAAGTAATTTATTTAAGTAATA
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
39087734 TATTCAAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 89 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
Found at i:39087869 original size:13 final size:13
Alignment explanation
Indices: 39087851--39087875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39087841 TAAATTTTAA
39087851 AAAATTATATATT
1 AAAATTATATATT
39087864 AAAATTATATAT
1 AAAATTATATAT
39087876 ATATTAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTATATATT
Found at i:39087919 original size:20 final size:19
Alignment explanation
Indices: 39087896--39087944 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
39087886 TAAGTATAAA
*
39087896 GAAAATTGTAAAAATATATT
1 GAAAATTATAAAAA-ATATT
*
39087916 GAAAA-TATAATAAATATT
1 GAAAATTATAAAAAATATT
39087934 GAAAATATATA
1 GAAAAT-TATA
39087945 TTAACTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
GAAAATTATAAAAAATATT
Found at i:39090609 original size:84 final size:81
Alignment explanation
Indices: 39090288--39090648 Score: 248
Period size: 83 Copynumber: 4.3 Consensus size: 81
39090278 TATAAAAACA
* * * * * * *
39090288 TTGCGGCGTTTTAGTAAAAAATGCCACTAT-AAAATATTTCCAACT-CCGAAATGGCGCCGCATT
1 TTGCGGCGTTTT-CTAAAAAACGCCACTATCCAAATTTTTTCAACTACAGAAACGGCG-CGCATT
* * *
39090351 GTGAAAATGTATTAAATAT
64 GAG-AAATTTAATAAATAT
* * * *
39090370 TTCCGGCGTTTTCTCAAAAAACGCTAGTATCCAAATTTTTTC-ACTAAAGAAACGGCGTCGCATT
1 TTGCGGCGTTTTCT-AAAAAACGCCACTATCCAAATTTTTTCAACTACAGAAACGGCG-CGCATT
* *
39090434 GAGAGACTTAATAAATCAT
64 GAGAAATTTAATAAAT-AT
* * * * * * * *
39090453 TTGTGGTGTTTTCCTAAAAAACGCCACTATCCAATTTTATTTCCAGTACATAAACGACGC-CAAT
1 TTGCGGCGTTTT-CTAAAAAACGCCACTATCCAAATTT-TTTCAACTACAGAAACGGCGCGCATT
*
39090517 CAGGAAATTTAATAAATCAT
64 GA-GAAATTTAATAAAT-AT
* * * *
39090537 TTGCGGCGTTTCCGTAAAAAACGCCACTAT-CAATTTTTTTCAAATACGGAAACGGCGACGCATT
1 TTGCGGCGTTTTC-TAAAAAACGCCACTATCCAAATTTTTTCAACTACAGAAACGGCG-CGCATT
* *
39090601 G-GCAAAATTTAGTAAGTAT
64 GAG--AAATTTAATAAATAT
**
39090620 TTGCGGCGTTTTCTTTCAAAACGCCACTA
1 TTGCGGCGTTTTC-TAAAAAACGCCACTA
39090649 AAATATTTCA
Statistics
Matches: 219, Mismatches: 47, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
81 1 0.00
82 51 0.23
83 95 0.43
84 61 0.28
85 11 0.05
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (81 bp):
TTGCGGCGTTTTCTAAAAAACGCCACTATCCAAATTTTTTCAACTACAGAAACGGCGCGCATTGA
GAAATTTAATAAATAT
Found at i:39091374 original size:14 final size:14
Alignment explanation
Indices: 39091345--39091388 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39091335 GACCCTTAAC
*
39091345 CCCTAAATCCTAAA
1 CCCTAAACCCTAAA
* *
39091359 CCATAAACCCTTAA
1 CCCTAAACCCTAAA
*
39091373 CCCTTAACCCTAAA
1 CCCTAAACCCTAAA
39091387 CC
1 CC
39091389 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCCTAAA
Found at i:39092138 original size:41 final size:41
Alignment explanation
Indices: 39092064--39092446 Score: 423
Period size: 41 Copynumber: 9.4 Consensus size: 41
39092054 ACACTTCGCC
* * * * *
39092064 AAAAACACCGCTAAAGGTTTGCGCACTAGCGGCGCTTCTTT
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * *
39092105 AAAAACGCCGCTAAAGGTCTGTTCATTAACGGCGTTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* *
39092146 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCCTCATG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * *
39092187 AAAAAAGACGCTAAAGGTCTGCTCATTAGCGGGGC-TCAATG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTC-TTG
* * * *
39092228 AAAAACGCCGCTAAAGATCTACTCATTAGCGGCGTTTCTTA
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * * *
39092269 AAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCCTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * *
39092310 -AAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCCTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
*
39092350 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * *
39092391 AAAAATGCCGCTAAATGTCTACTCATTAGCGACGCTT-TT-
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
39092430 AAAGAAGCGCCGCTAAA
1 AAA-AA-CGCCGCTAAA
39092447 TACCCTAAAG
Statistics
Matches: 292, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.01
40 41 0.14
41 246 0.84
42 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
Found at i:39092373 original size:122 final size:123
Alignment explanation
Indices: 39092105--39092425 Score: 457
Period size: 122 Copynumber: 2.6 Consensus size: 123
39092095 GCGCTTCTTT
** * * *
39092105 AAAAACGCCGCTAAAGGTCTGTTCATTAACGGCGTTTCTTGAAAAACGCCGCTAAAGGTCTGCTC
1 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTC
* * * * *
39092170 ATTAGCGGCGCCTCATGAAAAAAGACGCTAAAGGTCTGCTCATTAGCGGGGCTCAATG
66 ATTAGCGACGCATCATGAAAAAAGACACTAAAGGTCTGCTCATTAGCAGCGCTCAATG
* *
39092228 AAAAACGCCGCTAAAGATCTACTCATTAGCGGCGTTTCTTAAAAAATGCCGCTAAAGGTCTACTC
1 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTC
* * * *
39092293 ATTAGCGACGCATCCTG-AAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATC-CTG
66 ATTAGCGACGCATCATGAAAAAAGACACTAAAGGTCTGCTCATTAGCAGCGC-TCAATG
* *
39092350 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGCTTCTTGAAAAATGCCGCTAAATGTCTACTC
1 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTC
39092415 ATTAGCGACGC
66 ATTAGCGACGC
39092426 TTTTAAAGAA
Statistics
Matches: 177, Mismatches: 20, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
122 103 0.58
123 74 0.42
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (123 bp):
AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTC
ATTAGCGACGCATCATGAAAAAAGACACTAAAGGTCTGCTCATTAGCAGCGCTCAATG
Found at i:39092444 original size:163 final size:162
Alignment explanation
Indices: 39092102--39092446 Score: 435
Period size: 163 Copynumber: 2.1 Consensus size: 162
39092092 GCGGCGCTTC
** * ** * *
39092102 TTTAAAAACGCCGCTAAAGGTCTGTTCATTAACGGCGTTTCTTGAAAAACGCCGCTAAAGGTCTG
1 TTTAAAAACGCCGCTAAAGGTCTACTCATTAACGACGCATCCTGAAAAACGCCACTAAAGGTCTG
* * * *
39092167 CTCATTAGCGGCGCCTCATGAAAAAAGACGCTAAAGGTCTGCTCATTAGCGGGGCTCAATGAAAA
66 CTCATTAGCAGCGCATCATGAAAAAAGACGCTAAAGGTCTACTCATTAGCGGCGCTCAATGAAAA
* *
39092232 ACGCCGCTAAAGATCTACTCATTAGCGGCGTT
131 ACGCCGCTAAAGATCTACTCATTAGCGACGCT
* *
39092264 TCTTAAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCCTG-AAAACGCCACTAAAGGTC
1 T-TT-AAAAACGCCGCTAAAGGTCTACTCATTAACGACGCATCCTGAAAAACGCCACTAAAGGTC
* * * *
39092328 TGCTCATTAGCAGCGCATCCTGAAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGCTTC-TTGA
64 TGCTCATTAGCAGCGCATCATGAAAAAAGACGCTAAAGGTCTACTCATTAGCGGCGC-TCAATGA
*
39092392 AAAATGCCGCTAAATG-TCTACTCATTAGCGACGCT
128 AAAACGCCGCTAAA-GATCTACTCATTAGCGACGCT
39092427 TTTAAAGAAGCGCCGCTAAA
1 TTTAAA-AA-CGCCGCTAAA
39092447 TACCCTAAAG
Statistics
Matches: 156, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
161 3 0.02
162 5 0.03
163 112 0.72
164 36 0.23
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (162 bp):
TTTAAAAACGCCGCTAAAGGTCTACTCATTAACGACGCATCCTGAAAAACGCCACTAAAGGTCTG
CTCATTAGCAGCGCATCATGAAAAAAGACGCTAAAGGTCTACTCATTAGCGGCGCTCAATGAAAA
ACGCCGCTAAAGATCTACTCATTAGCGACGCT
Found at i:39093758 original size:43 final size:43
Alignment explanation
Indices: 39093680--39093802 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
39093670 TTTTCGATAA
*
39093680 GTGTTTTCGTGTAAGACCAC-ATCTAGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACC-CTATCTGGGACGTTGGCATCGATC-T
39093723 GTGTTTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCGATCT
1 GTGTTTTCGTGTAAGACCCTATCTGGGAC-GTTGGCATCGATCT
* * *
39093766 GTGATTACATGTAAGA-CCTCATCTGGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCCT-ATCTGGGACGTTGGCAT
39093803 TGTACGAGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 5 0.07
43 64 0.90
44 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCCTATCTGGGACGTTGGCATCGATCT
Found at i:39096820 original size:16 final size:17
Alignment explanation
Indices: 39096788--39096821 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
39096778 ATTATATAAT
39096788 TAATGATGATTAAATTA
1 TAATGATGATTAAATTA
*
39096805 TAATGAT-ATTAGATTA
1 TAATGATGATTAAATTA
39096821 T
1 T
39096822 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATGATGATTAAATTA
Done.