Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 69 of 189
Found at i:19219281 original size:29 final size:29
Alignment explanation
Indices: 19219241--19219846 Score: 563
Period size: 29 Copynumber: 21.5 Consensus size: 29
19219231 AACCTAATTT
19219241 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
19219271 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219300 AACCCT-A----AACC----TTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
* *
19219321 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219343 AACCCT-A-----ACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19219366 AAACCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19219395 AACCCTAATCCTAACCTAATTTAATAATTTAATTAAA
1 AACCCTAACCCTAACC--------TAATTTAATTAAA
*
19219432 AACCCTACCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19219461 AACTCTAACCCTAACCTAATTTAATTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
19219491 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
19219520 AACCCTAACCCTAACCTAATTTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19219549 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219578 AACCCTAACCCTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19219606 AACCCTAAACCTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
19219634 AACCCTAAACCTTAACTTAA--AAACTCTAAA
1 AACCCT-AACCCTAACCTAATTTAA-T-TAAA
**
19219664 CCTTAACTTTAAAAACCCTAACCTAATTTAATTAAA
1 ----AACCCT---AACCCTAACCTAATTTAATTAAA
*
19219700 AACCCCAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219729 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
19219758 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
19219780 AACACTAA-CA-----TAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219803 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19219832 AACCCTAACCCTAAC
1 AACCCTAACCCTAAC
19219847 TTAAAAACCA
Statistics
Matches: 488, Mismatches: 35, Indels: 107
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.02
21 15 0.03
22 24 0.05
23 22 0.05
24 7 0.01
25 4 0.01
27 2 0.00
28 37 0.08
29 278 0.57
30 36 0.07
32 3 0.01
34 4 0.01
36 16 0.03
37 28 0.06
38 2 0.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:19219353 original size:21 final size:22
Alignment explanation
Indices: 19219295--19219350 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
19219285 CCTAATTTAA
19219295 TTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAAACCTTAACT
19219316 TTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACT
19219338 TTAAAAACCCTAA
1 TTAAAAACCCTAA
19219351 CCTAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
TTAAAAACCCTAAACCTTAACT
Found at i:19219353 original size:95 final size:89
Alignment explanation
Indices: 19219247--19219846 Score: 414
Period size: 95 Copynumber: 6.4 Consensus size: 89
19219237 ATTTAACCCT
19219247 AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
1 AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC-
* *
19219312 TAACTTAA-AAACCCTAAACCTTAACTTTAA
65 TAACCTAATAAA---T-AA-CTTAA-TTAAA
* *
19219342 AAACCCTAACCTAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAATCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* *
19219407 AACCTAATTTAATAATTTAATTAAA
66 AACCTAA-TAAATAACTTAATTAAA
*
19219432 AACCCTACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTAATTTAAAAA-CCT
1 AA----A-CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TTAAAAACCCT
*
19219496 AAACCCTAACCTAAT--TTAA-TTAA--AAA
60 AAA-CCTAACCTAATAAATAACTTAATTAAA
* * * *
19219522 CCCTAACCCTAACCTAATTTAATTACAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAC
1 ---AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
19219587 CCTAACCTAAT--TTAA-TTAA--AACCCT
63 CCTAACCTAATAAATAACTTAATTAA---A
* * * **
19219612 AAA-CCTAACCTAATTTAATT-AAAACCCTAAACCTTAACTTAA--AAACTCTAAACCTTAACTT
1 AAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAA-T-TAAA----AACCC
*
19219673 TAAAAACCCTAACCTAAT--TTAA-TTAA--AAA
59 T--AAA-CCTAACCTAATAAATAACTTAATTAAA
*
19219702 CCCCAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 ---AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
19219767 CCTTAACTTTAAAAACACTAACATAATTTAATTAAAA
63 CC-TAAC-CT----A-A-TAA-ATAACTTAATT-AAA
19219804 ACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 A----AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
19219847 TTAAAAACCA
Statistics
Matches: 420, Mismatches: 33, Indels: 96
0.77 0.06 0.17
Matches are distributed among these distances:
84 2 0.00
85 8 0.02
86 33 0.08
87 32 0.08
88 54 0.13
89 2 0.00
90 17 0.04
91 4 0.01
92 8 0.02
93 29 0.07
94 41 0.10
95 121 0.29
96 21 0.05
98 3 0.01
99 4 0.01
102 3 0.01
103 38 0.09
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (89 bp):
AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
AACCTAATAAATAACTTAATTAAA
Found at i:19219423 original size:66 final size:66
Alignment explanation
Indices: 19219353--19219846 Score: 307
Period size: 66 Copynumber: 7.9 Consensus size: 66
19219343 AACCCTAACC
*
19219353 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTA
1 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
19219418 A
66 A
* * *
19219419 TAATTTAATTAAAAACCCTACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAA-TT-
1 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
19219482 -
66 A
19219482 TAA--T--TT-AAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
1 TAATTTAATTAAAAAACCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
19219542 AA
65 AA
** *** **
19219544 T--TACAA--ACCCTAACCTTAA-CCTAATTTAA-TT----AAAAACCCTAACCCTAACC-----
1 TAATTTAATTA-AAAAACC-TAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
19219594 ---
64 TAA
* * * *
19219594 TAATTTAATT-AAAACCCTAAACCTAACCTAATTTAATT-AAAACCCTAAACCTTAACTTAAAAA
1 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCT---AA
*
19219657 CTCTAA
62 -TTTAA
** * *
19219663 -ACCTTAACTT--TAAA---AACCCTAACCTAATTTAATTAAAAACCCCAACCCTAACC------
1 TAATTTAA-TTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
19219716 --
65 AA
* * *
19219716 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAA
1 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAAC-CT----
* *
19219781 ACACTAACA
60 A-ATTTA-A
*
19219790 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
19219847 TTAAAAACCA
Statistics
Matches: 331, Mismatches: 39, Indels: 109
0.69 0.08 0.23
Matches are distributed among these distances:
50 1 0.00
51 3 0.01
52 14 0.04
53 4 0.01
54 5 0.02
55 2 0.01
56 8 0.02
57 8 0.02
58 54 0.16
59 50 0.15
60 2 0.01
61 1 0.00
62 3 0.01
63 11 0.03
64 6 0.02
65 30 0.09
66 64 0.19
68 7 0.02
69 2 0.01
73 8 0.02
74 48 0.15
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (66 bp):
TAATTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
A
Found at i:19219425 original size:37 final size:37
Alignment explanation
Indices: 19219382--19219456 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
19219372 AACCCTAACC
*
19219382 TAATTTAATTAAAAACCCTAATCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
19219419 TAATTTAATTAAAAACCCTACCCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
19219456 T
1 T
19219457 TAAAAACTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (37 bp):
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
Found at i:19219636 original size:21 final size:21
Alignment explanation
Indices: 19219612--19219694 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
19219602 TTAAAACCCT
19219612 AAACCT-AACC-TAATTTAATTA
1 AAACCTAAACCTTAATTTAA--A
*
19219633 AAACCCTAAACCTTAACTT-AA
1 AAA-CCTAAACCTTAATTTAAA
19219654 AAACTCTAAACCTTAACTTTAAA
1 AAAC-CTAAACCTTAA-TTTAAA
*
19219677 AACCCT-AACC-TAATTTAA
1 AAACCTAAACCTTAATTTAA
19219695 TTAAAAACCC
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.09
20 4 0.08
21 22 0.42
22 7 0.13
23 10 0.19
24 5 0.09
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (21 bp):
AAACCTAAACCTTAATTTAAA
Found at i:19219788 original size:74 final size:72
Alignment explanation
Indices: 19219710--19219854 Score: 254
Period size: 74 Copynumber: 2.0 Consensus size: 72
19219700 AACCCCAACC
* *
19219710 CTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACT
1 CTAACATAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAAC-
19219775 TTAAAAACA
64 TTAAAAACA
19219784 CTAACATAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTT
1 CTAACATAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTT
19219849 AAAAAC
66 AAAAAC
19219855 CAAGCCTTAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 8 0.12
73 8 0.12
74 53 0.77
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.28
Consensus pattern (72 bp):
CTAACATAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTT
AAAAACA
Found at i:19219852 original size:20 final size:21
Alignment explanation
Indices: 19219827--19219889 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
19219817 CCTAATTTAA
19219827 TTAAAAACCCTAACCCTAAC-
1 TTAAAAACCCTAACCCTAACT
*
19219847 TTAAAAA-CC-AAGCCTTAACT
1 TTAAAAACCCTAA-CCCTAACT
19219867 TTAAAAACCCTAA-CCTAA-T
1 TTAAAAACCCTAACCCTAACT
19219886 TTAA
1 TTAA
19219890 TTAAAAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 13 0.35
20 18 0.49
21 2 0.05
22 2 0.05
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (21 bp):
TTAAAAACCCTAACCCTAACT
Found at i:19219907 original size:23 final size:23
Alignment explanation
Indices: 19219867--19219913 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
19219857 AGCCTTAACT
* *
19219867 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAAACTAAGTTAA
19219890 TTAAAAACCCTAAACTAAGTTAA
1 TTAAAAACCCTAAACTAAGTTAA
19219913 T
1 T
19219914 AATTTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAAAACCCTAAACTAAGTTAA
Found at i:19220002 original size:37 final size:37
Alignment explanation
Indices: 19219961--19220128 Score: 99
Period size: 37 Copynumber: 4.4 Consensus size: 37
19219951 TTTTGACTGC
19219961 TACTAACAATTAATAATTTTATATAATTTGATAATTT
1 TACTAACAATTAATAATTTTATATAATTTGATAATTT
* * * *
19219998 TACTAACCATTAATACAATTTT-TA-GAGTTAATAATTT
1 TACTAACAATTAAT--AATTTTATATAATTTGATAATTT
* * ** * * * * * **
19220035 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATA-ATTTTATATAAT-TTGAT-AATTT
19220077 TACTAACAATTAATAATTTTATATAATTTGATAATTT
1 TACTAACAATTAATAATTTTATATAATTTGATAATTT
*
19220114 TACTAACCATTAATA
1 TACTAACAATTAATA
19220129 CAATTTTTTG
Statistics
Matches: 91, Mismatches: 29, Indels: 22
0.64 0.20 0.15
Matches are distributed among these distances:
37 44 0.48
38 13 0.14
39 17 0.19
40 8 0.09
41 2 0.02
42 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (37 bp):
TACTAACAATTAATAATTTTATATAATTTGATAATTT
Found at i:19220051 original size:116 final size:116
Alignment explanation
Indices: 19219907--19220146 Score: 444
Period size: 116 Copynumber: 2.1 Consensus size: 116
19219897 CCCTAAACTA
* *
19219907 AGTTAATAATTTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGCTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
19219972 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
*
19220023 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
*
19220088 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
19220139 AGTTAATA
1 AGTTAATA
19220147 CAATTTATCA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 120 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
Found at i:19220163 original size:17 final size:18
Alignment explanation
Indices: 19220122--19220163 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19220112 TTTACTAACC
* *
19220122 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
19220140 GTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
19220157 ATTAATA
1 ATTAATA
19220164 ATTGCACAAA
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:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:19223505 original size:126 final size:126
Alignment explanation
Indices: 19223176--19223652 Score: 726
Period size: 126 Copynumber: 3.8 Consensus size: 126
19223166 CCCAAACATG
* *** *
19223176 CTACTGTAGCAAAAGCGCGTCCACAAGGGCATGATTTCACAAATTCTTTTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * *
19223241 TAGAAACAATTTTATACTATTTGCTTAGAAACGTC-AAAAAA-AATTATTTCTTACATGGC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * * *
19223300 CTACTGTAGCAAAAGCGTGTCCACGA-GCCGTAATTTCACAAATTCTTCTCAAATAGCACCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
19223364 TAGTAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * *
19223425 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
19223490 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTGTTTCTTCCGTGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
19223551 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
19223616 TAGAAACGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAA
19223653 CTCGAAATTA
Statistics
Matches: 322, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
123 63 0.20
124 30 0.09
125 41 0.13
126 188 0.58
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:19224435 original size:9 final size:9
Alignment explanation
Indices: 19224417--19224462 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
19224407 TTGGGTAATT
19224417 TTCGGGTAA
1 TTCGGGTAA
*
19224426 TTCGGTTAA
1 TTCGGGTAA
* *
19224435 TTCGGTTGA
1 TTCGGGTAA
19224444 -TCGGGTAA
1 TTCGGGTAA
19224452 TTCGGGTAA
1 TTCGGGTAA
19224461 TT
1 TT
19224463 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:19224639 original size:12 final size:12
Alignment explanation
Indices: 19224622--19224646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19224612 AGCAATTTCG
19224622 GGTCGGTTAACC
1 GGTCGGTTAACC
19224634 GGTCGGTTAACC
1 GGTCGGTTAACC
19224646 G
1 G
19224647 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:19225113 original size:13 final size:13
Alignment explanation
Indices: 19225095--19225119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19225085 AATAAAGAAT
19225095 CAAATCCAAAATC
1 CAAATCCAAAATC
19225108 CAAATCCAAAAT
1 CAAATCCAAAAT
19225120 AAACGAAACA
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:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
CAAATCCAAAATC
Found at i:19232281 original size:5 final size:5
Alignment explanation
Indices: 19232266--19232317 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
19232256 TTTTTATGTT
19232266 TTATA -TATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-A TATATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA
19232315 TTA
1 TTA
19232318 AATAAACTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.14
5 36 0.82
6 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:19232924 original size:22 final size:24
Alignment explanation
Indices: 19232898--19232941 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
19232888 TATGACAATA
19232898 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
19232920 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
19232942 AGCTTGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:19233204 original size:24 final size:23
Alignment explanation
Indices: 19233177--19233223 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19233167 TAATCATGGG
19233177 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
19233201 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
19233224 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:19238767 original size:13 final size:14
Alignment explanation
Indices: 19238751--19238791 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
19238741 CTTACAGATA
19238751 CAGATA-ACAGAAT
1 CAGATATACAGAAT
19238764 CAGATATACAGAAT
1 CAGATATACAGAAT
*
19238778 -AGATATAGAGAAT
1 CAGATATACAGAAT
19238791 C
1 C
19238792 CTACCTCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:19240815 original size:26 final size:26
Alignment explanation
Indices: 19240769--19240825 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
19240759 ATATTTTCTC
*
19240769 AAAATTTTACCAGGGGCAAAATCGTT
1 AAAATTTTACCAAGGGCAAAATCGTT
* *
19240795 AAAATTTTACTAAGGGTAAAATCGTT
1 AAAATTTTACCAAGGGCAAAATCGTT
19240821 AAAAT
1 AAAAT
19240826 GTTGTTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAAGGGCAAAATCGTT
Found at i:19244427 original size:22 final size:20
Alignment explanation
Indices: 19244385--19244436 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
19244375 GATTTTTAAA
19244385 ATAAAAAAA-T-TAAAAATT
1 ATAAAAAAATTCTAAAAATT
* *
19244403 ATATATAAATTCTAAAAAGTAT
1 ATAAAAAAATTCTAAAAA-T-T
19244425 ATAAAAAAATTC
1 ATAAAAAAATTC
19244437 AAGCTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 6 0.23
21 1 0.04
22 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTCTAAAAATT
Found at i:19246077 original size:41 final size:41
Alignment explanation
Indices: 19246020--19246256 Score: 330
Period size: 41 Copynumber: 5.8 Consensus size: 41
19246010 TTTTGAGGCA
* * * *
19246020 TTTAGCGGCGCTTTTGAGAAAGCACCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
* * * *
19246061 TTTAGCAGCGTTTTTGAGAAAGCACCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
19246102 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
* *
19246143 TTTAGTGGCATTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
* * * * *
19246184 TTTAACGGCATTTTTAAAAAAGCGCCGCTAATGCTCGTGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
*
19246225 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAAT
19246257 AATAAAATCT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 179 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
Found at i:19247788 original size:12 final size:12
Alignment explanation
Indices: 19247771--19247803 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19247761 CGTGATTTAA
19247771 AATTTTAAAATG
1 AATTTTAAAATG
19247783 AATTTTAAAA-G
1 AATTTTAAAATG
19247794 -ATTTTAAAAT
1 AATTTTAAAAT
19247804 TTTTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (12 bp):
AATTTTAAAATG
Found at i:19247791 original size:20 final size:19
Alignment explanation
Indices: 19247769--19247831 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 19
19247759 TTCGTGATTT
19247769 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAAT--ATTTTA
* *
19247790 AAAGATTTTAAAATTTTTTC
1 AAA-ATTTTAAAATATTTTA
19247810 AAAATTTTAAAAATATTTTA
1 AAAATTTT-AAAATATTTTA
19247830 AA
1 AA
19247832 CTTTTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.14
20 18 0.50
21 3 0.08
22 10 0.28
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAATTTTAAAATATTTTA
Found at i:19247799 original size:10 final size:10
Alignment explanation
Indices: 19247772--19247831 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
19247762 GTGATTTAAA
19247772 ATTTTAAAATG
1 ATTTTAAAA-G
19247783 AATTTTAAAAG
1 -ATTTTAAAAG
*
19247794 ATTTTAAAAT
1 ATTTTAAAAG
* *
19247804 TTTTTCAAA-
1 ATTTTAAAAG
*
19247813 ATTTTAAAAAT
1 ATTTT-AAAAG
19247824 ATTTTAAA
1 ATTTTAAA
19247832 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 6 0.15
12 9 0.22
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:19247843 original size:25 final size:25
Alignment explanation
Indices: 19247813--19247862 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
19247803 TTTTTTCAAA
*
19247813 ATTTTAAAAATATTT-TAAACTTTT
1 ATTTTTAAAATATTTATAAACTTTT
* *
19247837 ATTTTTATAATATTTATATACTTTT
1 ATTTTTAAAATATTTATAAACTTTT
19247862 A
1 A
19247863 AAGAAAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTAAAATATTTATAAACTTTT
Found at i:19253009 original size:42 final size:42
Alignment explanation
Indices: 19252930--19253018 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
19252920 TAAATTTTTT
* * *
19252930 TAAAGGTTATGTTTTTAGTGGCGTTTTTGCGAGAAGCGTCGC
1 TAAAGGTTATGTTTTTAGTGGCGTTTTAGCGAAAAGCGCCGC
19252972 TAAAGGTT-TGTTCTTTAGTGGCGTTTGTAG-GAAAAGCGCCGC
1 TAAAGGTTATGTT-TTTAGTGGCGTTT-TAGCGAAAAGCGCCGC
19253014 TAAAG
1 TAAAG
19253019 ATAGTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
41 4 0.10
42 36 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.35
Consensus pattern (42 bp):
TAAAGGTTATGTTTTTAGTGGCGTTTTAGCGAAAAGCGCCGC
Found at i:19253045 original size:117 final size:118
Alignment explanation
Indices: 19252909--19253136 Score: 386
Period size: 117 Copynumber: 1.9 Consensus size: 118
19252899 GTAAATATTA
*
19252909 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGTGGCGTTTTTGCGAGAAGCGTCGCTA
1 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTA
* * *
19252974 AAGGT-TTGTTCTTTAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
66 AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
* *
19253026 TTTGATTAAAATAATTTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGTTGCTA
1 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTA
*
19253091 AAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
66 AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG
19253137 GTCGCGGTCT
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 67 0.65
118 36 0.35
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (118 bp):
TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGTCGCTA
AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
Found at i:19253109 original size:43 final size:43
Alignment explanation
Indices: 19253062--19253369 Score: 356
Period size: 43 Copynumber: 7.3 Consensus size: 43
19253052 GTTATGTTTT
* * * ** * *
19253062 TAGCGGCGTTTTTGCGAGAAGCGTTGCTAAAGGTCGTGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
*
19253105 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
** *
19253148 TAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTC---G-CGA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * * *
19253187 TCGCGGCGTTTCTGGGAAAAGCCCCTCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
19253230 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * * *
19253273 TAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * * * *
19253316 TAGCGGCGTTTGTAGAAAAAGCGCCGTTAAAGGT-TTAGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGT-GGTCTA
19253359 TAGCGGCGTTT
1 TAGCGGCGTTT
19253370 TTAAAAAAAA
Statistics
Matches: 229, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.14
40 1 0.00
42 3 0.01
43 194 0.85
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
Found at i:19253217 original size:82 final size:84
Alignment explanation
Indices: 19253087--19253349 Score: 316
Period size: 82 Copynumber: 3.1 Consensus size: 84
19253077 GAGAAGCGTT
** *
19253087 GCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGGTCTATAGC
1 GCTAAAGGTCG-G-TCGATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATAGC
*
19253152 GGCGTTTGTGGGAAAAATGCC
64 GGCGTTTGTGGGAAAAACGCC
* * * *
19253173 GCTAAAGGTC-G-CGATCGCGGCGTTTCTGGGAAAAGCCCCTCTAAAGGTCGTGGTCTATAGCGG
1 GCTAAAGGTCGGTCGATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGG
*
19253236 CGTTTGTGGGAAAAGCGCC
66 CGTTTGTGGGAAAAACGCC
* * * * *
19253255 GCTAAAGGTCGTGGTCTATAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTTTTTAGC
1 GCTAAAGGTC--GGTCGATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATAGC
*
19253320 GGCGTTTGT-AGAAAAAGCGCC
64 GGCGTTTGTGGGAAAAA-CGCC
*
19253341 GTTAAAGGT
1 GCTAAAGGT
19253350 TTAGGTCTTT
Statistics
Matches: 151, Mismatches: 21, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
82 72 0.48
84 1 0.01
85 6 0.04
86 72 0.48
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (84 bp):
GCTAAAGGTCGGTCGATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGG
CGTTTGTGGGAAAAACGCC
Found at i:19258720 original size:20 final size:22
Alignment explanation
Indices: 19258697--19258745 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19258687 ACTTGTATTA
* *
19258697 GTACTTCTCC-AA-ATGTAGTT
1 GTACTTCTCCTAAGAAGTACTT
19258717 GTACTTCTCCTAAGAAGTACTT
1 GTACTTCTCCTAAGAAGTACTT
19258739 GTACTTC
1 GTACTTC
19258746 ACTAGAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (22 bp):
GTACTTCTCCTAAGAAGTACTT
Found at i:19265771 original size:50 final size:50
Alignment explanation
Indices: 19265616--19265772 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
19265606 CTTCACATGC
**
19265616 GACCTATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
1 GACCTATCATTTTGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
* ** * ** * ***
19265666 GTTCAAAGC-TATTTGGTATGCATAGTAGCCTGCACATAGTACTACACATGC
1 G-ACCTATCAT-TTTGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
*
19265717 GACCTATCATTTTGGTACACGTAGTAGCTTGCACATAGTACTACACACAT
1 GACCTATCATTTTGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
19265767 GACCTA
1 GACCTA
19265773 GCAACTTCAC
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
50 44 0.54
51 37 0.46
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
GACCTATCATTTTGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
Found at i:19269792 original size:13 final size:14
Alignment explanation
Indices: 19269765--19269806 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
19269755 CAAATTTACT
19269765 TTTTTAATAAGCAC
1 TTTTTAATAAGCAC
*
19269779 TTTTTCATAA-CAC
1 TTTTTAATAAGCAC
19269792 TTTTTAA-AAGCAC
1 TTTTTAATAAGCAC
19269805 TT
1 TT
19269807 CTCACTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 14 0.56
14 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (14 bp):
TTTTTAATAAGCAC
Found at i:19271053 original size:22 final size:22
Alignment explanation
Indices: 19271028--19271071 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19271018 ATTCATCATG
*
19271028 ATTTGAATAATAA-TATTAATAT
1 ATTTGAAT-ATAACTAATAATAT
*
19271050 ATTTTAATATAACTAATAATAT
1 ATTTGAATATAACTAATAATAT
19271072 TAATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTGAATATAACTAATAATAT
Found at i:19271633 original size:20 final size:18
Alignment explanation
Indices: 19271539--19271633 Score: 61
Period size: 20 Copynumber: 5.1 Consensus size: 18
19271529 AAAATTTAGC
*
19271539 TTTATAATTTCTTAATATT
1 TTTATAA-TTATTAATATT
*
19271558 TTTAATAATTATT-ATA-A
1 TTT-ATAATTATTAATATT
* **
19271575 TTTAT-ATTTTTACCATT
1 TTTATAATTATTAATATT
19271592 TTTATAATTATTAATAGCTT
1 TTTATAATTATTAATA--TT
*
19271612 TTTATGAATTTTTTAATATT
1 TTTAT-AA-TTATTAATATT
19271632 TT
1 TT
19271634 CCTATATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
15 5 0.09
16 3 0.05
17 8 0.14
18 10 0.17
19 7 0.12
20 15 0.26
21 2 0.03
22 8 0.14
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATAATTATTAATATT
Found at i:19281562 original size:25 final size:25
Alignment explanation
Indices: 19281528--19281577 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19281518 AGTAGAGACA
19281528 ATAAAATTGCATTTTATCCATATAC
1 ATAAAATTGCATTTTATCCATATAC
19281553 ATAAAATTGCATTTTATCCATATAC
1 ATAAAATTGCATTTTATCCATATAC
19281578 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
ATAAAATTGCATTTTATCCATATAC
Found at i:19285411 original size:59 final size:58
Alignment explanation
Indices: 19285319--19285468 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
19285309 GTACTTGTAG
* *
19285319 CTTGTGA-TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* * * *
19285376 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGTA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* *
19285435 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
19285469 TAGCAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
Found at i:19285563 original size:26 final size:26
Alignment explanation
Indices: 19285510--19285565 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19285500 AATGTCACAC
* *
19285510 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
19285536 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
19285562 ATTT
1 ATTT
19285566 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:19286618 original size:44 final size:45
Alignment explanation
Indices: 19286569--19286661 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
19286559 ACACCTCTAC
* * *
19286569 TACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCCAT
1 TACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCCAT
** *
19286613 TACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCAT
1 TACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCCAT
19286658 TACA
1 TACA
19286662 CCTCTAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 16 0.38
45 26 0.62
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TACATTCAACCAAACAGCAGATTTACTATTACACCTCTAATCCAT
Found at i:19286661 original size:16 final size:16
Alignment explanation
Indices: 19286642--19286693 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
19286632 GATTTGCTAT
*
19286642 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
19286658 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19286674 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19286690 TACA
1 TACA
19286694 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19292143 original size:34 final size:35
Alignment explanation
Indices: 19292100--19292165 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
19292090 CCCAAATCAA
19292100 CATCATTTGTTGTAT-CCTTTTCAATAGTTTACAG
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
*
19292134 CATCATTTGTTGTATCCCTTTTTAATAGTTTA
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTA
19292166 ACGGTACACC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.50
Consensus pattern (35 bp):
CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
Found at i:19292611 original size:21 final size:21
Alignment explanation
Indices: 19292587--19292642 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
19292577 AACATTGGTG
*
19292587 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19292608 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19292629 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
19292643 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:19300979 original size:20 final size:19
Alignment explanation
Indices: 19300954--19301009 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
19300944 GAAAATCATT
19300954 ATATTTGTAAAAATTTATAA
1 ATATTT-TAAAAATTTATAA
*
19300974 ATATTTTTAATAATTTA-AA
1 ATA-TTTTAAAAATTTATAA
*
19300993 AT-TTTTAAAAATATATA
1 ATATTTTAAAAATTTATA
19301010 TTAGGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.35
18 1 0.03
19 4 0.13
20 12 0.39
21 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATTTTAAAAATTTATAA
Found at i:19307280 original size:15 final size:15
Alignment explanation
Indices: 19307262--19307295 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19307252 ATCTTTTTAA
19307262 AAATAAAAAATAATT
1 AAATAAAAAATAATT
19307277 AAAT-AAAAATAATT
1 AAATAAAAAATAATT
*
19307291 TAATA
1 AAATA
19307296 CATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAAAAATAATT
Found at i:19314115 original size:7 final size:8
Alignment explanation
Indices: 19314094--19314121 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
19314084 CGGCAAAACA
19314094 TGAAAAAT
1 TGAAAAAT
19314102 TGAAAAAT
1 TGAAAAAT
19314110 TGAAAAAT
1 TGAAAAAT
19314118 TGAA
1 TGAA
19314122 GTGCTCGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (8 bp):
TGAAAAAT
Found at i:19318864 original size:3 final size:3
Alignment explanation
Indices: 19318856--19318892 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19318846 TGAAGGCATC
19318856 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19318893 TGAGATGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19319218 original size:18 final size:18
Alignment explanation
Indices: 19319184--19319219 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19319174 TATAATGTGT
*
19319184 TAAAAATTATATAATATA
1 TAAAAATTACATAATATA
*
19319202 TAAAAATTACATGATATA
1 TAAAAATTACATAATATA
19319220 AAGTATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAAATTACATAATATA
Found at i:19320574 original size:9 final size:9
Alignment explanation
Indices: 19320560--19320596 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19320550 TATAGTTTGA
19320560 TATTCGAAT
1 TATTCGAAT
19320569 TATTCGAAT
1 TATTCGAAT
*
19320578 TATTCGAGT
1 TATTCGAAT
19320587 TATTCGAAT
1 TATTCGAAT
19320596 T
1 T
19320597 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19325237 original size:21 final size:22
Alignment explanation
Indices: 19325213--19325272 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
19325203 TCTTCTACTA
19325213 TTTCTGTTATTTCT-TTTCTTT
1 TTTCTGTTATTTCTCTTTCTTT
* *
19325234 TTTCTGCTATTT-TGTTT-TTT
1 TTTCTGTTATTTCTCTTTCTTT
*
19325254 TTTCTCTT-TTTCTCTTTCT
1 TTTCTGTTATTTCTCTTTCT
19325273 GTTTGTTGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 14 0.44
21 15 0.47
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTCTGTTATTTCTCTTTCTTT
Found at i:19325261 original size:29 final size:30
Alignment explanation
Indices: 19325205--19325266 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 30
19325195 CCAAAATCTC
19325205 TTCTACTATTTCTGTTATTTCTTTTCTTTT
1 TTCTACTATTTCTGTTATTTCTTTTCTTTT
*
19325235 TTCTGCTATTT-TGTT-TTT-TTTTCTCTTT
1 TTCTACTATTTCTGTTATTTCTTTTCT-TTT
19325263 TTCT
1 TTCT
19325267 CTTTCTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.20
28 10 0.33
29 4 0.13
30 10 0.33
ACGTcount: A:0.06, C:0.16, G:0.05, T:0.73
Consensus pattern (30 bp):
TTCTACTATTTCTGTTATTTCTTTTCTTTT
Found at i:19326360 original size:218 final size:217
Alignment explanation
Indices: 19326083--19326520 Score: 736
Period size: 218 Copynumber: 2.0 Consensus size: 217
19326073 GCTTACTCAG
* * *
19326083 TCTGCCCTACTGTGACTTCAGGGGGTAAGACTTGTCATCTTCGATCTGCCCTACTGCAACTTCAG
1 TCTGCCCTACTGTAACTTCAGGGGATAAGACTTGTCATCTTCGATCTGCCCCACTGCAACTTCAG
* * *
19326148 GGGGATAAGACCTGCTTACTCAGTCTGCTTCGCTGCAACTTCAGGGAGATAAGACCTGATGCGAT
66 GGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAAACCTGATGCAAT
*
19326213 CCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGG
131 CCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGG
19326278 GAGATAGGATTATCGGCTTCAA
196 GAGATAGGATTATCGGCTTCAA
*
19326300 TCTGCTCC-ACTGTAACTTCAGGGAGATAAGATTTG-CTATCTTCGATCTGCCCCACTGCAACTT
1 TCTGC-CCTACTGTAACTTCAGGG-GATAAGACTTGTC-ATCTTCGATCTGCCCCACTGCAACTT
* * *
19326363 CAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCTCTGCAACTTTAGGGAGATAAAATCTGATGC
63 CAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAAACCTGATGC
19326428 AATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTC
128 AATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTC
19326493 AGGGAGATAGGATTATCGGCTTCAA
193 AGGGAGATAGGATTATCGGCTTCAA
19326518 TCT
1 TCT
19326521 TCTTCCTTAC
Statistics
Matches: 207, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
217 20 0.10
218 187 0.90
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (217 bp):
TCTGCCCTACTGTAACTTCAGGGGATAAGACTTGTCATCTTCGATCTGCCCCACTGCAACTTCAG
GGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAAACCTGATGCAAT
CCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGG
GAGATAGGATTATCGGCTTCAA
Found at i:19326488 original size:44 final size:44
Alignment explanation
Indices: 19325954--19326501 Score: 282
Period size: 44 Copynumber: 12.6 Consensus size: 44
19325944 GATGCGATCT
* * * *
19325954 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * * *
19325998 GCTCCACTACAACCTCAGGGAGGTAGGAT-TATTGACTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATT-ACTTCAATCC
* * * * * * *
19326042 GCTTCACTGCAACCTCAGGGAGATAAGATTTGCTTAC-TCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCC
*** * * *
19326086 GC-CCTACTGTGACTTCAGGG-GGTAAGA-CT-TGTCATCTTCGATCT
1 GCTCC-ACTACAACTTCAGGGAGATAAGATCTAT-T-A-CTTCAATCC
* * * * * *
19326130 GC-CCTACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCT
1 GCTCC-ACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCC
* * * * * * *
19326174 GCTTCGCTGCAACTTCAGGGAGATAAGA-C-CTGA-TGCGATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * * * *
19326215 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* ** *
19326259 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTAT-TACTTCAATCC
** * ** * *
19326303 GCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTCGATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTA-CTTCAATCC
* * * * * * *
19326348 GCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCC
* * * * * *
19326392 GCTCCTCTGCAACTTTAGGGAGATAAAATC--TGA-TGCAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
* * * *
19326433 ACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
19326477 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTACAACTTCAGGGAGATA
19326502 GGATTATCGG
Statistics
Matches: 385, Mismatches: 94, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 59 0.15
42 3 0.01
43 20 0.05
44 246 0.64
45 47 0.12
46 7 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCC
Found at i:19326685 original size:128 final size:128
Alignment explanation
Indices: 19326491--19327359 Score: 1425
Period size: 128 Copynumber: 6.8 Consensus size: 128
19326481 CACTACAACT
* * * * **
19326491 TCAGGGAGATAGGA-TTATCGGCTTCAATCTTCTTCCTTACACTTGAAGATAAGATTTGCCGTCT
1 TCAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCT
* * * *
19326555 TCGATTTGCTCCGTTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTTCTGG
65 TCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
* * * **
19326619 TCAGGGACATAGGACATGTGGCTTAAATCTACTTCCTTACACATGAAGATAAGATTCGTCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
**
19326684 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAACCTATTCCACTGCTGG
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
*
19326747 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGATTCACCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
* * * * *
19326812 CGATCTACTCTGCTACTACTTAGAGAGACAATATCTGTAATTTCTAACCTATTCCACTGCTGG
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
19326875 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
* *
19326940 CGATCTGCTCTGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGG
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
*
19327003 TTAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
*
19327068 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
19327131 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
19327196 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
**
19327259 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTT
1 TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
** * *
19327324 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCT
66 CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCT
19327360 ACAATATTCA
Statistics
Matches: 693, Mismatches: 47, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
128 691 1.00
129 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
TCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTT
CGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGG
Found at i:19328563 original size:7 final size:7
Alignment explanation
Indices: 19328553--19328587 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
19328543 TACTTTTTCA
19328553 TCATTTT
1 TCATTTT
19328560 TCATTTT
1 TCATTTT
19328567 TCA-TTT
1 TCATTTT
19328573 TCATTTT
1 TCATTTT
*
19328580 CCATTTT
1 TCATTTT
19328587 T
1 T
19328588 TTACTCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TCATTTT
Found at i:19328575 original size:13 final size:13
Alignment explanation
Indices: 19328557--19328586 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19328547 TTTTCATCAT
*
19328557 TTTTCATTTTTCA
1 TTTTCATTTTCCA
19328570 TTTTCATTTTCCA
1 TTTTCATTTTCCA
19328583 TTTT
1 TTTT
19328587 TTTACTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTCCA
Found at i:19329527 original size:7 final size:8
Alignment explanation
Indices: 19329508--19329542 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
19329498 TTTCTTCTTT
19329508 TTTTTTGA
1 TTTTTTGA
19329516 TTTTTTGA
1 TTTTTTGA
19329524 TTTTTTGA
1 TTTTTTGA
19329532 TTTTTTTGA
1 -TTTTTTGA
19329541 TT
1 TT
19329543 GGATCTGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (8 bp):
TTTTTTGA
Found at i:19329527 original size:16 final size:17
Alignment explanation
Indices: 19329508--19329542 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19329498 TTTCTTCTTT
19329508 TTTTTTGA-TTTTTTGA
1 TTTTTTGATTTTTTTGA
19329524 TTTTTTGATTTTTTTGA
1 TTTTTTGATTTTTTTGA
19329541 TT
1 TT
19329543 GGATCTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (17 bp):
TTTTTTGATTTTTTTGA
Found at i:19334607 original size:15 final size:14
Alignment explanation
Indices: 19334585--19334617 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19334575 AAACGAAAAG
19334585 AAAA-AAAAATAAA
1 AAAAGAAAAATAAA
19334598 TAAAAGAAAAATAAA
1 -AAAAGAAAAATAAA
19334613 AAAAG
1 AAAAG
19334618 GAGCATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAATAAA
Found at i:19335501 original size:24 final size:24
Alignment explanation
Indices: 19335464--19335509 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19335454 GACTGTGGAC
*
19335464 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
19335488 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
19335510 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:19337456 original size:8 final size:8
Alignment explanation
Indices: 19337438--19337478 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
19337428 TCTTTATAGT
19337438 TATATACCA
1 TATATA-CA
19337447 TATATACA
1 TATATACA
*
19337455 TATATATA
1 TATATACA
19337463 TATATACA
1 TATATACA
19337471 TATATACA
1 TATATACA
19337479 ACAAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (8 bp):
TATATACA
Found at i:19339842 original size:20 final size:21
Alignment explanation
Indices: 19339808--19339847 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19339798 TTGTAATTAG
19339808 TATTTTTAAAAAAT-ATTTTT
1 TATTTTTAAAAAATAATTTTT
**
19339828 TATTTTTAATTAATAATTTT
1 TATTTTTAAAAAATAATTTT
19339848 AACACACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAAAAAATAATTTTT
Found at i:19340994 original size:41 final size:41
Alignment explanation
Indices: 19340937--19341211 Score: 433
Period size: 41 Copynumber: 6.7 Consensus size: 41
19340927 GTTTTTGGGG
19340937 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* *
19340978 CTTTAACGGCGTTTTTGAAGAAGCACCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
**
19341019 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTAGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* *
19341060 CTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* *
19341101 CTTTAGCGGCGTTTTTGAAGAAGAGCCGCTAATGCTTGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
*
19341142 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * * *
19341183 ATTTAGCGACGTTTTTAAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGC
19341212 AAAAAATATT
Statistics
Matches: 214, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 214 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
Found at i:19345239 original size:43 final size:42
Alignment explanation
Indices: 19345144--19345334 Score: 174
Period size: 42 Copynumber: 4.5 Consensus size: 42
19345134 AATTTATGCT
* * *
19345144 TTTAGTGGCGTTTGTGAAAAAGTGTCGCTAAAAGTCAAT-GT-
1 TTTAGTGGCGTTTGTGAAAAAGCGCCGCTAAAAGTC-CTGGTC
* * * * * * *
19345185 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGTTC
1 TTTAGTGGCGTTTGT-GAAAAAGCGCCGCTAAAAGTCCTGGTC
* *
19345228 TTTAGTGGCGTTTCTAAAAAAGCGCCGCTAAAAGTCCTGGTC
1 TTTAGTGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCCTGGTC
*
19345270 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCT-AAAGATCCTGGTC
1 TTTAGTGGCGTTTGT-GAAAAAGCGCCGCTAAAAG-TCCTGGTC
*
19345313 TTTAGCGGCAGTTT-TAGAAAAA
1 TTTAGTGGC-GTTTGT-GAAAAA
19345335 AAACCACTAA
Statistics
Matches: 122, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
41 14 0.11
42 58 0.48
43 46 0.38
44 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
TTTAGTGGCGTTTGTGAAAAAGCGCCGCTAAAAGTCCTGGTC
Found at i:19345315 original size:85 final size:83
Alignment explanation
Indices: 19345144--19345334 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 83
19345134 AATTTATGCT
* * *
19345144 TTTAGTGGCGTTTGTGAAAAAGTGTCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGC
1 TTTAGTGGCGTTT-TAAAAAAGCGCCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGC
* * * *
19345209 GTCGCTAAAGGTCTTGTTC
65 GCCGCTAAAGATCCTGGTC
* * *
19345228 TTTAGTGGCGTTTCTAAAAAAGCGCCGCTAAAAGTC-CTGGTCTTTAGTGGCGTTTGTGGGAAAA
1 TTTAGTGGCGTTT-TAAAAAAGCGCCGCTAAAAGTCAAT-GT-TATAGCGGCGTTTGTGGGAAAA
19345292 GCGCCGCTAAAGATCCTGGTC
63 GCGCCGCTAAAGATCCTGGTC
*
19345313 TTTAGCGGCAGTTTTAGAAAAA
1 TTTAGTGGC-GTTTTA-AAAAA
19345335 AAACCACTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 34 0.37
85 47 0.52
86 9 0.10
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (83 bp):
TTTAGTGGCGTTTTAAAAAAGCGCCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGCG
CCGCTAAAGATCCTGGTC
Found at i:19345448 original size:22 final size:22
Alignment explanation
Indices: 19345418--19345461 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19345408 TAGCGGCGCT
* *
19345418 AAAATGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
19345440 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
19345462 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:19345981 original size:63 final size:64
Alignment explanation
Indices: 19345884--19346017 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 64
19345874 ACATTCTTTC
19345884 TTTCATGAGTTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
1 TTTCATGAG-TTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
19345949 TTTCATGAG-TTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
1 TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
19346012 TTTCAT
1 TTTCAT
19346018 TCGAGTAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 60 0.87
65 9 0.13
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.49
Consensus pattern (64 bp):
TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
Found at i:19347876 original size:16 final size:16
Alignment explanation
Indices: 19347840--19347881 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
19347830 CTTAATTATC
*
19347840 AAATTATGAAAAAAAT
1 AAATTATTAAAAAAAT
*
19347856 AAATTATTAAAAATAT
1 AAATTATTAAAAAAAT
*
19347872 TAATT-TTAAA
1 AAATTATTAAA
19347882 TTAATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTATTAAAAAAAT
Found at i:19349916 original size:31 final size:31
Alignment explanation
Indices: 19349878--19349953 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
19349868 TTGGCTTGGT
* *
19349878 TCAATTATATACATAAAAGTTTGATTTTGAA
1 TCAATTATATACATAAAAATTTAATTTTGAA
* * *
19349909 TCAATTATGTATATAAAAATTTAATTTTGAT
1 TCAATTATATACATAAAAATTTAATTTTGAA
*
19349940 TCAATTGTATACAT
1 TCAATTATATACAT
19349954 GACATAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
TCAATTATATACATAAAAATTTAATTTTGAA
Found at i:19350291 original size:21 final size:21
Alignment explanation
Indices: 19350265--19350306 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19350255 TCTAAAGGAA
19350265 AAGGATGCAACTTTTCTCATG
1 AAGGATGCAACTTTTCTCATG
19350286 AAGGATGCAACTTTTCTCATG
1 AAGGATGCAACTTTTCTCATG
19350307 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
AAGGATGCAACTTTTCTCATG
Found at i:19355418 original size:22 final size:20
Alignment explanation
Indices: 19355396--19355435 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19355386 GAGTAGGAGA
19355396 AAAAAAATGAATTTTTTTAAG
1 AAAAAAAT-AATTTTTTTAAG
* *
19355417 AAATAAATAGTTTTTTTAA
1 AAAAAAATAATTTTTTTAA
19355436 ATCAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
AAAAAAATAATTTTTTTAAG
Found at i:19356690 original size:35 final size:34
Alignment explanation
Indices: 19356651--19356764 Score: 88
Period size: 35 Copynumber: 3.2 Consensus size: 34
19356641 AAACATATAC
19356651 ATAATATTAAATTTAAGTATTTAAGAAGTAAAAGA
1 ATAATATTAAATTTAAGTATTTAA-AAGTAAAAGA
* ** * * *
19356686 ATAATAAATAAGTAAATAAATCA-ATAAAA-CAAATATGA
1 ATAAT-ATTAA--ATTTAAGT-ATTTAAAAGTAAA-A-GA
19356724 ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGA
1 ATAATATTAAATTTAAGTATTT-AAAAGTAAAAGA
19356759 ATAATA
1 ATAATA
19356765 AACAAACAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
34 1 0.02
35 19 0.33
36 12 0.21
37 10 0.17
38 15 0.26
39 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (34 bp):
ATAATATTAAATTTAAGTATTTAAAAGTAAAAGA
Found at i:19356753 original size:73 final size:72
Alignment explanation
Indices: 19356588--19356853 Score: 367
Period size: 73 Copynumber: 3.7 Consensus size: 72
19356578 AAGTATTATC
* * *
19356588 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAGATAGATAAAAC--ATATAC
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAAATATA-
19356651 ATAATATT
65 ATAATATT
* *
19356659 AAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAGTAAATAAATCA-ATAAAACAAATATG
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAT-AGATAAAACAAATAT-
19356723 AATAATATT
64 AATAATATT
* * *
19356732 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAGATATAACAAATATAA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAAATAT-A
19356797 ATAATATT
65 ATAATATT
* * **
19356805 AAATTTAGGCATTTAAAAAGTAAAAGGGTAATAAATAAATAAATAAATA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATA
19356854 AAACAAATAT
Statistics
Matches: 173, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
71 50 0.29
72 2 0.01
73 120 0.69
74 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (72 bp):
AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAAATATAA
TAATATT
Found at i:19356879 original size:146 final size:143
Alignment explanation
Indices: 19356588--19356877 Score: 381
Period size: 144 Copynumber: 2.0 Consensus size: 143
19356578 AAGTATTATC
* * * * * *
19356588 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAGATAGATAAAACATATACAT
1 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAGATAAAAAATATAAAT
* * *
19356653 AATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAGTAAATAAATCAATAAAACAA
66 AATATTAAATTTAAGCATTTAAAAAGTAAAAGAATAAT-AATAAGTAAATAAATAAATAAAACAA
* *
19356718 ATATGAATAATATT
130 ATATAAAAAATATT
*
19356732 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAGATATAACAAATATAA
1 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAGATA-AA-AAATATAA
* **
19356797 ATAATATTAAATTTAGGCATTTAAAAAGTAAAAGGGTAAT-A-AA-TAAATAAATAAATAAAACA
64 ATAATATTAAATTTAAGCATTTAAAAAGTAAAAGAATAATAATAAGTAAATAAATAAATAAAACA
*
19356859 AATATAAAAAA-ATG
129 AATATAAAAAATATT
19356873 AAATT
1 AAATT
19356878 AATTGAACGA
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
141 7 0.05
142 27 0.21
143 2 0.02
144 49 0.38
145 2 0.02
146 41 0.32
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (143 bp):
AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAGATAAAAAATATAAAT
AATATTAAATTTAAGCATTTAAAAAGTAAAAGAATAATAATAAGTAAATAAATAAATAAAACAAA
TATAAAAAATATT
Found at i:19358970 original size:95 final size:96
Alignment explanation
Indices: 19358853--19359085 Score: 317
Period size: 95 Copynumber: 2.4 Consensus size: 96
19358843 GGAATTGTAG
* *
19358853 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTTTAACTTGTAGCTTTAATATGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
*
19358918 ACTATAACTTCA-GAGAAATAAGATTCGC-AT
66 ACTACAACTTCAGGA-AAATAAGATTCGCTAT
* * * * *
19358948 CTTCAATTTGCTCCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
* * *
19359013 ATTGCAACTTCAGGAAAATAAGATTTGCTAT
66 ACTACAACTTCAGGAAAATAAGATTCGCTAT
* * *
19359044 CTTCAATCTACTTCACTGCAACTTCAAGGAGATAAGATTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGT
19359086 TTTAATCTGC
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
95 79 0.66
96 40 0.34
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (96 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
ACTACAACTTCAGGAAAATAAGATTCGCTAT
Found at i:19359024 original size:51 final size:46
Alignment explanation
Indices: 19358821--19359266 Score: 274
Period size: 45 Copynumber: 9.6 Consensus size: 46
19358811 TCGTTCTAAC
* * *
19358821 CCACTGCAACTTCAGGG-GTATAGGAATTG--TAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGCTTAGCTTCAATCTGTT
* * * * *
19358865 CCACTGCAACTTCAAGGAGATAAAATTTTTAACTTGTAGCTTTAATATGTT
1 CCACTGCAACTTCAGGGAGATAAGA--TTT-GC-T-TAGCTTCAATCTGTT
** * * * * * *
19358916 CCACTATAACTTCAGAGAAATAAGATTCGC--ATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* *
19358960 CCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C-T-TAGCTTCAATCTGTT
* * * * *
19359011 CCATTGCAACTTCAGGAAAATAAGATTTGC-TATCTTCAATCTACTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCT-GTT
* *
19359057 -CACTGCAACTTCAAGGAGATAAGATTTG-TT---TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* *
19359097 ACACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCGTT-AATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C-T-TAGC-TTCAATCTGTT
* * * * *
19359148 CCACTGCAACTTCAGGGAAATAAGATTTAC-TATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* * * * * *
19359193 CTATTACAACTTCAGGGAGATAAGATTTGC-TATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
*
19359238 CCACTGCAACTTCAGGGGGATAAGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
19359267 TGACTTTACT
Statistics
Matches: 313, Mismatches: 60, Indels: 57
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 31 0.10
42 2 0.01
44 56 0.18
45 111 0.35
46 5 0.02
47 2 0.01
48 3 0.01
49 2 0.01
51 100 0.32
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (46 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
Found at i:19359212 original size:137 final size:141
Alignment explanation
Indices: 19358917--19359272 Score: 467
Period size: 137 Copynumber: 2.6 Consensus size: 141
19358907 TAATATGTTC
* * * *
19358917 CACTATAACTTC-AGAGAAATAAGATTCGC-ATCTTCAATTTGCTCCACTACAACTTCAGGGAGA
1 CACTACAACTTCAAG-GAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGA
* * *
19358980 TAATATTTGTAACTTGTAGCTTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTGCTATC
65 TAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATC
19359045 TTCAATCTACTT
130 TTCAATCTACTT
* *
19359057 CACTGCAACTTCAAGGAGATAAGATTTG-T-T-TT-AATCTGCTACACTACAACTTCAGGGAGAT
1 CACTACAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
*
19359118 AAGATTTGTAACTTGTAGCGTT-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATC
66 AAGATTTGTAACTTGTAGC-TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATC
* *
19359182 TTCAATTTGC-T
130 TTCAATCTACTT
* * * * *
19359193 CTATTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGGGA
1 C-ACTACAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGA
*
19359258 TAAGATTTGTGACTT
65 TAAGATTTGTAACTT
19359273 TACTGATTTG
Statistics
Matches: 188, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
136 2 0.01
137 116 0.62
138 5 0.03
139 2 0.01
140 23 0.12
141 40 0.21
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (141 bp):
CACTACAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
AAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCT
TCAATCTACTT
Found at i:19362651 original size:18 final size:17
Alignment explanation
Indices: 19362606--19362661 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
19362596 ATCAAAGAAA
19362606 AATAA-AAT-CAATAAT
1 AATAATAATGCAATAAT
*
19362621 AAT-ACAATG-AATAAT
1 AATAATAATGCAATAAT
*
19362636 AATAATAATAGCAATAAC
1 AATAATAAT-GCAATAAT
19362654 AATAATAA
1 AATAATAA
19362662 AATAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 4 0.12
17 1 0.03
18 13 0.38
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATGCAATAAT
Found at i:19362813 original size:15 final size:15
Alignment explanation
Indices: 19362793--19362821 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19362783 AATTAAAGTT
19362793 GTAATAATAATAATG
1 GTAATAATAATAATG
19362808 GTAATAATAATAAT
1 GTAATAATAATAAT
19362822 ATAAAAAATG
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:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
GTAATAATAATAATG
Found at i:19364703 original size:17 final size:17
Alignment explanation
Indices: 19364681--19364713 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19364671 CGGTTTTGTT
*
19364681 TTTTATTTATTTATTTA
1 TTTTATTTATTCATTTA
19364698 TTTTATTTATTCATTT
1 TTTTATTTATTCATTT
19364714 CAAGCTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTCATTTA
Found at i:19364938 original size:12 final size:12
Alignment explanation
Indices: 19364915--19364970 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
19364905 GATTTATTCA
*
19364915 TTTATTTGTTTG
1 TTTATTTATTTG
*
19364927 TTTGTTTATTTG
1 TTTATTTATTTG
* *
19364939 TTCAATTATTTTG
1 TTTATTTA-TTTG
19364952 TTTCATTTATTTG
1 TTT-ATTTATTTG
19364965 TTTATT
1 TTTATT
19364971 AAAATGTGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
12 18 0.51
13 13 0.37
14 4 0.11
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:19371754 original size:43 final size:43
Alignment explanation
Indices: 19371706--19371841 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 43
19371696 ATGTCAGATT
19371706 TTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAAATGAAGCC
1 TTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAAATGAAGCC
* * * * * * * *
19371749 TTGCC-TCCAT-CGATTG-CAGTGGAGCTGGTTAAAGATAGCAGATC
1 TTGCCTTCC-TGC-ATTGACAGCGAAGCAGATCAAAAAT-GAAG-CC
* **
19371793 TTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCC
1 TTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAAATGAAGCC
19371836 TTGCCT
1 TTGCCT
19371842 CCATCGGTTG
Statistics
Matches: 67, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
42 18 0.27
43 20 0.30
44 13 0.19
45 16 0.24
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (43 bp):
TTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAAATGAAGCC
Found at i:19371791 original size:87 final size:87
Alignment explanation
Indices: 19371642--19372056 Score: 663
Period size: 87 Copynumber: 4.8 Consensus size: 87
19371632 AGAACAGATC
* * * *
19371642 AGCAGATCAAAAATAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-GTCAGATT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAG-CAGATC
19371706 TTGCCTTCCTGCATTGACAGCGA
65 TTGCCTTCCTGCATTGACAGCGA
* ** *
19371729 AGCAGATCAAAAATGAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19371794 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* *
19371816 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGATTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19371881 TGCCTTCCTGCATT-AGCAGCGA
66 TGCCTTCCTGCATTGA-CAGCGA
*
19371903 AGCAGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
19371968 TGCCTTCCTGCATTAACAGCAA
66 TGCCTTCCTGCATTGACAGCGA
* *
19371990 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGTAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19372055 TG
66 TG
19372057 TCCCTAAGCA
Statistics
Matches: 308, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
86 1 0.00
87 305 0.99
88 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTGACAGCGA
Found at i:19371928 original size:43 final size:42
Alignment explanation
Indices: 19371792--19371928 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 42
19371782 GATAGCAGAT
19371792 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTG-CAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
19371835 CTTGCC-TCCAT-CGGTTGTAGTGGAGCTGAT-TAAAGATAGCAGAT
1 CTTGCCTTCC-TGC-ATTGCAGCGAAGCAGATCGAAA-ACA-AAG-C
19371879 CTTGCCTTCCTGCATTAGCAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATT-GCAGCGAAGCAGATCGAAAACAAAGC
19371922 CTTGCCT
1 CTTGCCT
19371929 CTATCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 3 0.04
42 15 0.22
43 19 0.28
44 11 0.16
45 16 0.24
46 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGCAGCGAAGCAGATCGAAAACAAAGC
Found at i:19375903 original size:15 final size:16
Alignment explanation
Indices: 19375879--19375911 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19375869 GCTTTCTTCC
19375879 TTTTTATATT-TTTCT
1 TTTTTATATTCTTTCT
*
19375894 TTTTTTTATTCTTTCT
1 TTTTTATATTCTTTCT
19375910 TT
1 TT
19375912 AAAAGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATATTCTTTCT
Found at i:19376663 original size:41 final size:44
Alignment explanation
Indices: 19376548--19376664 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 44
19376538 CACTACCTTC
* *
19376548 AATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
*
19376592 AATC-GACTCCACTACAACTTCAGAGAGATAAGG-TT-T-GCTAT
1 AATCTG-CTCCACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
* * *
19376633 GATCTGCTCTACTGCAATTTCAGAGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAG
19376665 ATCTGTAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 30 0.47
42 2 0.03
43 3 0.05
44 29 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
Found at i:19376792 original size:89 final size:89
Alignment explanation
Indices: 19376677--19376854 Score: 232
Period size: 89 Copynumber: 2.0 Consensus size: 89
19376667 CTGTAATTTA
*** * *
19376677 TAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGCTATATTCAATCTACTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
*
19376742 ATAACCTT-AGGGAGATAAGACTTG
66 ACAA-CTTCAGGGAGATAAGACTTG
** * * *
19376766 TAGCTTCAATCTACCCCACTACAACTTCAGGGGGATAAGATCTGCTATCTTCATTCTGCTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
*
19376831 GCAACTTCAGGGAGATAAGACTTG
66 ACAACTTCAGGGAGATAAGACTTG
19376855 ATATGATTTG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 3 0.04
89 73 0.96
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
ACAACTTCAGGGAGATAAGACTTG
Found at i:19377022 original size:44 final size:43
Alignment explanation
Indices: 19376820--19377026 Score: 179
Period size: 44 Copynumber: 4.8 Consensus size: 43
19376810 CTATCTTCAT
* *
19376820 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GATATGA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGATTTTAG
* * * * * *
19376861 TTTGCTCTACTGTAACTTCAGAGAGATAATATCTGTA-ATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TAGATTTTAG
* * * * *** *
19376905 TCTGTTCCACTGCAACTTTAGAGAAATAA-ATCTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTAGAT-TTTAG
*
19376949 TCTGCTCCACTGAAACTTCAGGGAGATAAGACTTACGATTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTA-GATTTTAG
*
19376993 TCTGCTCCACTGCAATTTCAGGGAGATAAGACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
19377027 GTTATGGTAG
Statistics
Matches: 130, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
41 26 0.20
42 2 0.02
43 11 0.08
44 88 0.68
45 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGATTTTAG
Found at i:19377409 original size:182 final size:181
Alignment explanation
Indices: 19377090--19377441 Score: 449
Period size: 182 Copynumber: 1.9 Consensus size: 181
19377080 GTTTTAATCC
* * *
19377090 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCACTTTATAGCTTCAATCTGTTCCATTGCAATG
1 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAATG
* * * *
19377155 CCAGAGAAATAAGATTTGCTATCTTCAGTCTGTTCTGCTACAACTTCAGGGAGATAATACTGGTG
66 CCAGAGAAATAAGATTTGATATCTTCAGTCTGTTCTACTACAACTTCAGGGAGATAAGACTGGTA
* * *
19377220 GCTTCAATC-AGCTCCTCCGCAACTTCAAGGGGGATAAGATTTGATATGATTT
131 GCTTCAATCTA-CCCCACCGCAACTTC-AGAGGGATAAGATTTGATATGATTT
* * * *
19377272 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCATTATGTTCCACTGCAACT
1 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAA-T
** * * * *
19377337 -TTAGAGAAATGAGATTTGATATCTTCAGTCTGCTTC-ACTACAACTTTAGGGAGGTAAGACTTG
65 GCCAGAGAAATAAGATTTGATATCTTCAGTCTG-TTCTACTACAACTTCAGGGAGATAAGACTGG
* *
19377400 TATCTTCAATCTACCCCACTGCAACTTCAGAGGGATAAGATT
129 TAGCTTCAATCTACCCCACCGCAACTTCAGAGGGATAAGATT
19377442 AGTGGCTTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
181 13 0.09
182 127 0.88
183 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (181 bp):
GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAATG
CCAGAGAAATAAGATTTGATATCTTCAGTCTGTTCTACTACAACTTCAGGGAGATAAGACTGGTA
GCTTCAATCTACCCCACCGCAACTTCAGAGGGATAAGATTTGATATGATTT
Found at i:19377425 original size:44 final size:45
Alignment explanation
Indices: 19377326--19377431 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 45
19377316 TCATTATGTT
* * * * *
19377326 CCACTGCAACTTTAGAGAAATGAGATTTGATATCTTCAGTCTGCT
1 CCACTGCAACTTTAGAGAAATAAGACTTGATATCTTCAATCTACC
* * * **
19377371 TCACTACAACTTTAGGGAGGTAAGACTTG-TATCTTCAATCTACC
1 CCACTGCAACTTTAGAGAAATAAGACTTGATATCTTCAATCTACC
*
19377415 CCACTGCAACTTCAGAG
1 CCACTGCAACTTTAGAG
19377432 GGATAAGATT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
44 25 0.53
45 22 0.47
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
CCACTGCAACTTTAGAGAAATAAGACTTGATATCTTCAATCTACC
Found at i:19377439 original size:44 final size:44
Alignment explanation
Indices: 19377372--19377481 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
19377362 CAGTCTGCTT
* * * *
19377372 CACTACAACTTTAGGGAGGTAAGACTT-GTATCTTCAATCTACCC
1 CACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTACCC
* * * *
19377416 CACTGCAACTTCAGAGG-GATAAGATTAGTGGCTTTAATCTGCTC
1 CACTGCAACTTCAG-GGAGATAAGATTAGTAGCTTCAATCTACCC
19377460 CACTGCAACTTCAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAA
19377482 TATTCGCCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
43 4 0.07
44 49 0.89
45 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACCC
Found at i:19378388 original size:30 final size:30
Alignment explanation
Indices: 19378354--19378418 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
19378344 TGGCCTCTCC
19378354 TTTTTCTTTTT-CTTTT-CTTCCTCTCCTTTT
1 TTTTTCTTTTTCCTTTTACTT--TCTCCTTTT
*
19378384 TTTTTCTTTTTCCTTTTACTTTTTCCTTTT
1 TTTTTCTTTTTCCTTTTACTTTCTCCTTTT
19378414 TTTTT
1 TTTTT
19378419 ATTTATGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 24 0.75
31 5 0.16
32 3 0.09
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTCTTTTTCCTTTTACTTTCTCCTTTT
Found at i:19378405 original size:13 final size:13
Alignment explanation
Indices: 19378384--19378413 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19378374 CTCTCCTTTT
*
19378384 TTTTTCTTTTTCC
1 TTTTACTTTTTCC
19378397 TTTTACTTTTTCC
1 TTTTACTTTTTCC
19378410 TTTT
1 TTTT
19378414 TTTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTACTTTTTCC
Found at i:19382871 original size:18 final size:17
Alignment explanation
Indices: 19382826--19382881 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
19382816 ATCAAAGAAA
19382826 AATAA-AAT-CAATAAT
1 AATAATAATGCAATAAT
*
19382841 AAT-ACAATG-AATAAT
1 AATAATAATGCAATAAT
*
19382856 AATAATAATAGCAATAAC
1 AATAATAAT-GCAATAAT
19382874 AATAATAA
1 AATAATAA
19382882 AATAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 4 0.12
17 1 0.03
18 13 0.38
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATGCAATAAT
Found at i:19383030 original size:12 final size:12
Alignment explanation
Indices: 19383013--19383038 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19383003 ATTAAAGTTG
19383013 TAGTAATAATAA
1 TAGTAATAATAA
19383025 TAGTAATAATAA
1 TAGTAATAATAA
19383037 TA
1 TA
19383039 ATATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAGTAATAATAA
Found at i:19384002 original size:15 final size:16
Alignment explanation
Indices: 19383976--19384005 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19383966 GCTTTCTTCC
19383976 TTTTTATATTTTTCTT
1 TTTTTATATTTTTCTT
19383992 TTTTTAT-TTTTTCT
1 TTTTTATATTTTTCT
19384006 GTAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATATTTTTCTT
Found at i:19384378 original size:6 final size:6
Alignment explanation
Indices: 19384369--19384394 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19384359 GCAAATTAGT
19384369 TTTGGG TTTGGG TTTGGG TTTGGG TT
1 TTTGGG TTTGGG TTTGGG TTTGGG TT
19384395 AGGTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TTTGGG
Found at i:19392522 original size:17 final size:19
Alignment explanation
Indices: 19392500--19392539 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19392490 TCCTCCCTCA
19392500 TCTTTTC-TTTTCTTCTT-
1 TCTTTTCATTTTCTTCTTC
*
19392517 TCTTTTCATTTTTTTCTTC
1 TCTTTTCATTTTCTTCTTC
19392536 TCTT
1 TCTT
19392540 GTTGCGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TCTTTTCATTTTCTTCTTC
Found at i:19393534 original size:27 final size:27
Alignment explanation
Indices: 19393448--19393856 Score: 420
Period size: 27 Copynumber: 15.2 Consensus size: 27
19393438 CGATTTGTGA
*
19393448 TAAAATTACCGAAGTACCC-CTGAAGGG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* * * *
19393475 TAAAATTATCAAAATATCC-CAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19393501 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
19393528 TAAAATTATCAAAATATCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
** *
19393555 TAAAATTACTAAAATA-CCTCCAAAGGG
1 TAAAATTACCGAAATACCCT-CGAAGGG
* *
19393582 TAAAATTACCAAAATACCC-CTAAAGGG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* *
19393609 TAAAATTACCGAAATACCCTCAAAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19393636 TAAAATTACCGAAAT-CCTCTCGAAGGG
1 TAAAATTACCGAAATACC-CTCGAAGGG
* *
19393663 TAAAATTACC-AAATACCCCCGAAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
19393689 TAAAATTATCGAAATACCCCCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
19393716 TAAAATTATCAAAATACCCTCGAAGAG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * **
19393743 TAAAATGACTGTTATACCCTCAGAA-GG
1 TAAAATTACCGAAATACCCTC-GAAGGG
* *
19393770 TAAAATTATCGAAATCCCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
*
19393797 TAAAATTAGCGAAATA-CCTCCGAAGGG
1 TAAAATTACCGAAATACCCT-CGAAGGG
* *
19393824 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
19393851 TAAAAT
1 TAAAAT
19393857 GACTATTATA
Statistics
Matches: 324, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 53 0.16
27 262 0.81
28 9 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Found at i:19394760 original size:20 final size:20
Alignment explanation
Indices: 19394735--19394772 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19394725 TTTCTAAAAT
19394735 TAAGAAACGAGTTTTATCGA
1 TAAGAAACGAGTTTTATCGA
19394755 TAAGAAACGAGTTTTATC
1 TAAGAAACGAGTTTTATC
19394773 AACAAGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
TAAGAAACGAGTTTTATCGA
Found at i:19399805 original size:38 final size:38
Alignment explanation
Indices: 19399754--19399832 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
19399744 TATTAGCATG
19399754 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
1 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
19399792 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
1 AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
19399830 AAG
1 AAG
19399833 TACATCCTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (38 bp):
AAGGGCTTTTGAGTCTCTTCCGTATAGGGTCCAATTAT
Found at i:19402290 original size:23 final size:23
Alignment explanation
Indices: 19402256--19402300 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19402246 AAGCTTGTTC
*
19402256 GGTTGAAAGATATGATCGACTTT
1 GGTTGAAAGATAGGATCGACTTT
19402279 GGTT-AAACGATAGGATCGACTT
1 GGTTGAAA-GATAGGATCGACTT
19402301 GATTCTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (23 bp):
GGTTGAAAGATAGGATCGACTTT
Found at i:19410289 original size:34 final size:35
Alignment explanation
Indices: 19410223--19410291 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
19410213 TGGTCTGATA
* *
19410223 TGACATTCTGATATGATATATGTGTTTCTGAAAATT
1 TGACAATCTGATATGATATA-GTGTTTATGAAAATT
*
19410259 TGACAATCTGGTATGATATA-TGTTTATGAAAAT
1 TGACAATCTGATATGATATAGTGTTTATGAAAAT
19410292 ATGATATTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 12 0.40
36 18 0.60
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (35 bp):
TGACAATCTGATATGATATAGTGTTTATGAAAATT
Found at i:19413252 original size:16 final size:16
Alignment explanation
Indices: 19413214--19413247 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
19413204 AAACCTTCTT
19413214 TTATAAATGTTATATA
1 TTATAAATGTTATATA
19413230 TTATAAAT-TT-TATA
1 TTATAAATGTTATATA
19413244 TTAT
1 TTAT
19413248 TTAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:19416454 original size:3 final size:3
Alignment explanation
Indices: 19416446--19416478 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19416436 ATACATGGCG
19416446 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19416479 CAATATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19417826 original size:27 final size:27
Alignment explanation
Indices: 19417796--19417852 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
19417786 TCTACTGTGT
**
19417796 CTTGTTGCTTCAATTTACTCCACTGCA
1 CTTGTTGCTTCAATCCACTCCACTGCA
*
19417823 CTTGTTGCTTCGATCCACTCCACTGCA
1 CTTGTTGCTTCAATCCACTCCACTGCA
19417850 CTT
1 CTT
19417853 CAGAAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.39
Consensus pattern (27 bp):
CTTGTTGCTTCAATCCACTCCACTGCA
Found at i:19418001 original size:44 final size:44
Alignment explanation
Indices: 19417938--19418223 Score: 199
Period size: 44 Copynumber: 6.5 Consensus size: 44
19417928 TCCACTACTA
* *
19417938 CAACTTCAGAGG-TATAAGATTCATCGTTTTAATCCGCTCCACTG
1 CAACTTCAG-GGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
*
19417982 CAACTTCAGGGAGATAAGATTGGTATC--TTCAA-CCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATT--CATCGTTTCAATCC-GCTCCACTG
* ** ** * *
19418026 CAACTTCAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTCATCGT-TTCAATCCGCTCCACTG
* ** * * *
19418071 CAACTTCAGGGAGATAAGAATGGTAGATTT-AATCCAAC-CTACTG
1 CAACTTCAGGGAGATAAGATTCATCG-TTTCAATCC-GCTCCACTG
* * * * * * *
19418115 TAACTTCAGAGG-TATAGGATTCATCATTTTAATCTGCTCCATTG
1 CAACTTCAG-GGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
* * * * *
19418159 CAACTTCAGGGAGATATGATTAATAGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
19418203 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
19418224 GGTATCCTCA
Statistics
Matches: 189, Mismatches: 39, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.01
43 10 0.05
44 133 0.70
45 40 0.21
46 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTCATCGTTTCAATCCGCTCCACTG
Found at i:19418138 original size:177 final size:176
Alignment explanation
Indices: 19417939--19418260 Score: 486
Period size: 177 Copynumber: 1.8 Consensus size: 176
19417929 CCACTACTAC
* *
19417939 AACTTCAGAGGTATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTG
1 AACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTA
* * * * *
19418004 GTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTC-AGTCTGCTCCA
66 ATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCCTCAACT-TGCTCCA
19418068 CTGC-AACTTCAGGGAGATAAGAATGGTAGATTTAATCCAACCTACTGT
129 CT-CTAACTTCAGGGAGATAAGAATGGTAGATTTAATCCAACCTACTGT
* * * *
19418116 AACTTCAGAGGTATAGGATTCATCATTTTAATCTGCTCCATTGCAACTTCAGGGAGATATGATTA
1 AACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTA
* *
19418181 ATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTCAACTTGTTCCACT
66 ATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTCAACTTGCTCCACT
19418246 CTAACTTCAGGGAGA
131 CTAACTTCAGGGAGA
19418261 CAAGGTTGGT
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
175 1 0.01
176 27 0.21
177 102 0.78
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (176 bp):
AACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTA
ATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTCAACTTGCTCCACT
CTAACTTCAGGGAGATAAGAATGGTAGATTTAATCCAACCTACTGT
Found at i:19418244 original size:44 final size:44
Alignment explanation
Indices: 19417968--19418357 Score: 353
Period size: 44 Copynumber: 8.8 Consensus size: 44
19417958 TCATCGTTTT
*
19417968 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* *
19418012 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTC
* * ** *
19418057 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAATGGTAGATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* * * * ** *
19418101 AATC--CAACCTACTGTAACTTCAGAGG-TATAGGATTCATCAT-TTT
1 AATCTGC-TCC-ACTGCAACTTCAG-GGAGATAAGATTGGT-ATCTTC
* * ** *
19418145 AATCTGCTCCATTGCAACTTCAGGGAGATATGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
*
19418189 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* * * *
19418233 AA-CTTGTTCCACT-CTAACTTCAGGGAGACAAGGTTGGTTATCTTT
1 AATC-TGCTCCACTGC-AACTTCAGGGAGATAAGATTGG-TATCTTC
* * *
19418278 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTGT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTAT-CT-TC
* * *
19418324 GATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
19418358 CTACTATCTT
Statistics
Matches: 281, Mismatches: 48, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.00
43 7 0.02
44 157 0.56
45 79 0.28
46 36 0.13
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
Found at i:19418299 original size:177 final size:178
Alignment explanation
Indices: 19417918--19418300 Score: 472
Period size: 177 Copynumber: 2.2 Consensus size: 178
19417908 GATTCGTGGT
* *
19417918 TTTAGTCTGCTCCACTACTACAACTTCAGAGGTATAAGATTCATCGTTTTAATCCGCTCCACTGC
1 TTTAGTCTGCT-C-CTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGC
** * *
19417983 AACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTG
64 AACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTG
* * *
19418048 GTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAATGGTAGA
129 GTTATCCTCACTCTGCTCCACTGCAACTTCAGGGAGACAAGAATGGTAGA
* * * * * *
19418098 TTTAATC--CAACCTACTGTAACTTCAGAGGTATAGGATTCATCATTTTAATCTGCTCCATTGCA
1 TTTAGTCTGC-TCCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGCA
* *
19418161 ACTTCAGGGAGATATGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
65 ACTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
* ** **
19418226 -TATCCTCAACT-TGTTCCACT-CTAACTTCAGGGAGACAAGGTTGGTTATC
130 TTATCCTC-ACTCTGCTCCACTGC-AACTTCAGGGAGACAAGAATGG-TAGA
19418275 TTTAGTCTGCTCC-ACTGCAACTTCAG
1 TTTAGTCTGCTCCTACTGCAACTTCAG
19418301 GGAGATAAGA
Statistics
Matches: 172, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
175 1 0.01
176 33 0.19
177 127 0.74
178 4 0.02
179 1 0.01
180 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (178 bp):
TTTAGTCTGCTCCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAAGATTAATAGCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT
TATCCTCACTCTGCTCCACTGCAACTTCAGGGAGACAAGAATGGTAGA
Found at i:19418958 original size:123 final size:123
Alignment explanation
Indices: 19418739--19418961 Score: 322
Period size: 123 Copynumber: 1.8 Consensus size: 123
19418729 GATTCACTAC
* * * *
19418739 CTTCAGCTTTAATCTGCTCCGCTGCAATGTCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
* * *
19418804 TATTCCACTGTAACGCTAAGGAGATAGGATTCGATGCCTTCAACTTTAATCCGCTTCA
66 TATTCCACTGTAAAGCTAAGGAAATAAGATTCGATGCCTTCAACTTTAATCCGCTTCA
* * *
19418862 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
* *
19418927 TGTTCCACTGTAAAG-TCAGGGAAATAAGATTCGAT
66 TATTCCACTGTAAAGCT-AAGGAAATAAGATTCGAT
19418962 ATCTTCGATC
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 86 0.99
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCTTTAATC
TATTCCACTGTAAAGCTAAGGAAATAAGATTCGATGCCTTCAACTTTAATCCGCTTCA
Found at i:19419229 original size:88 final size:88
Alignment explanation
Indices: 19419124--19419583 Score: 632
Period size: 88 Copynumber: 5.2 Consensus size: 88
19419114 CTGCTTAGGG
* * ** * * * * *
19419124 AGACAGGATCTACAATCTTCGACCTACTTTACTGCTACTTAAGGAGATAGGGCTAGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19419189 TCTGCTTCACTGCCAGTATAGGA
66 TCTACTTCACTGCCAGTACAGGA
* * * *
19419212 AGACAAGATCTACAATCTTCAACCTACTCCACTGTTACTCGGGGAGATAAAGCTGGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
19419277 TCTACTTCACTGCCAGTACAGGA
66 TCTACTTCACTGCCAGTACAGGA
* *
19419300 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCATGGAGATAAGGCTGGTGTTATCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19419365 TCTACTTCACTGCTAGTACAAGA
66 TCTACTTCACTGCCAGTACAGGA
* * * * *
19419388 AGACAAGATATACAATCTTCAACCTACTCCATTACTGCTTAGGGAGATAAGGCTAGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
*
19419453 TCTACTTCACTGCCAGCACAGGA
66 TCTACTTCACTGCCAGTACAGGA
* * * *
19419476 AGGCAAGATCTATAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCCGGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
* *
19419541 TCTACTTCATTGCCAGTATAGGA
66 TCTACTTCACTGCCAGTACAGGA
*
19419564 AAACAAGATCTACAATCTTC
1 AGACAAGATCTACAATCTTC
19419584 TTCAATCCAT
Statistics
Matches: 328, Mismatches: 44, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 328 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (88 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGTTTTCGA
TCTACTTCACTGCCAGTACAGGA
Found at i:19419928 original size:24 final size:24
Alignment explanation
Indices: 19419890--19419950 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
19419880 CGGATTGCCC
*
19419890 CCACTGTAATCTTCAAGGTCCAAT
1 CCACTGTAATTTTCAAGGTCCAAT
* *
19419914 CCATTGTAATTTTCAAGGTTCAAT
1 CCACTGTAATTTTCAAGGTCCAAT
19419938 CCACTGTAATTTT
1 CCACTGTAATTTT
19419951 GGGACATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (24 bp):
CCACTGTAATTTTCAAGGTCCAAT
Found at i:19426984 original size:47 final size:47
Alignment explanation
Indices: 19426919--19427009 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
19426909 CACATTTCAT
*
19426919 TGAAACCGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
1 TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
* * * *
19426966 TGAAACAGTAATTGAGCTTTGTCTATACTTTTGCAAACTCATTT
1 TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTT
19427010 TTTTAAACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (47 bp):
TGAAACAGTAATTAAGCTTTGTCTACAATCTTGCAAACTCATTTGCC
Found at i:19429475 original size:72 final size:72
Alignment explanation
Indices: 19429358--19429502 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
19429348 GTGTTACATA
*
19429358 TGCTCAAGTCTACACAAAACCTAACATTGCATTTGCAATTGGAATGTTTGGAAGATATCAGAGTA
1 TGCTCAAGTCTACACAAAACCTAACATTGCATTTACAATTGGAATGTTTGGAAGATATCAGAGTA
19429423 ATCCAAG
66 ATCCAAG
*
19429430 TGCTCAAGTCTACACAAAACCTAACATTGCATTTACAATTTGAATGTTTGGAAGATATCAGAGTA
1 TGCTCAAGTCTACACAAAACCTAACATTGCATTTACAATTGGAATGTTTGGAAGATATCAGAGTA
19429495 ATCCAAG
66 ATCCAAG
19429502 T
1 T
19429503 ACTGGCCATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (72 bp):
TGCTCAAGTCTACACAAAACCTAACATTGCATTTACAATTGGAATGTTTGGAAGATATCAGAGTA
ATCCAAG
Found at i:19432009 original size:2 final size:2
Alignment explanation
Indices: 19432002--19432029 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19431992 TGAAGGGAAA
19432002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19432030 CAGCATCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19435137 original size:46 final size:47
Alignment explanation
Indices: 19435087--19435181 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
19435077 ATCATATATA
*
19435087 TGTGGTCAAGCCACTAT-ATTGCAGCCAAGCTGCCAAAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
* * *
19435133 TGTGGTCGAGCCACTATAACTGCAGTCAAGCTGCCATAACAGAAATG
1 TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
19435180 TG
1 TG
19435182 GTTAAATCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 16 0.36
47 28 0.64
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (47 bp):
TGTGGTCAAGCCACTATAACTGCAGCCAAGCTGCCAAAACAGAAATG
Found at i:19439561 original size:15 final size:15
Alignment explanation
Indices: 19439541--19439572 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19439531 GAACGATCAG
19439541 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
19439556 CTGAAAGATCCTCCT
1 CTGAAAGATCCTCCT
19439571 CT
1 CT
19439573 AAGGGGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.28
Consensus pattern (15 bp):
CTGAAAGATCCTCCT
Found at i:19451514 original size:37 final size:37
Alignment explanation
Indices: 19451462--19451554 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
19451452 TAGTGCTGAA
* *
19451462 GCGTGTTATTGGTTGGATTAGCTCTTATGAGCGTTTG
1 GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
*
19451499 GCGTGTTATCAGTTGGATTAGCTCTCATGAGCGTTTG
1 GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
*
19451536 GTGTGTT-TCGGTTGGATTA
1 GCGTGTTATCGGTTGGATTA
19451555 CTTAGTACTC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 11 0.22
37 40 0.78
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (37 bp):
GCGTGTTATCGGTTGGATTAGCTCTCATGAGCGTTTG
Found at i:19452145 original size:13 final size:13
Alignment explanation
Indices: 19452127--19452153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19452117 TCTTCCCTAT
19452127 CAACATGTTTTCA
1 CAACATGTTTTCA
19452140 CAACATGTTTTCA
1 CAACATGTTTTCA
19452153 C
1 C
19452154 GTCAATTTCT
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:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CAACATGTTTTCA
Done.