Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold330
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: 1763736
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 14
Found at i:336744 original size:21 final size:21
Alignment explanation
Indices: 336699--336749 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
336689 ACTAATTTCT
* * *
336699 TTTCTCTTCTAATTCATTTAT
1 TTTCTTTTCTAATTCACTTAA
*
336720 TTTCTTTTCTAATTCGCTTAA
1 TTTCTTTTCTAATTCACTTAA
336741 TTTCTTTTC
1 TTTCTTTTC
336750 AAGAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTCTTTTCTAATTCACTTAA
Found at i:338388 original size:36 final size:33
Alignment explanation
Indices: 338345--338428 Score: 125
Period size: 32 Copynumber: 2.5 Consensus size: 33
338335 TCTTTTTAAG
*
338345 GGCTAAGATAGAACCTTTTTCCCTATCTTTAACAAA
1 GGCTAAGATAGAACCTTTATCCCTATCTTT--C-AA
338381 GGCTAAGATAGAACC-TTATCCCTATCTTTCAA
1 GGCTAAGATAGAACCTTTATCCCTATCTTTCAA
338413 GGCTAAGATAGAACCT
1 GGCTAAGATAGAACCT
338429 CTCAATCACT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 17 0.37
33 1 0.02
35 13 0.28
36 15 0.33
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (33 bp):
GGCTAAGATAGAACCTTTATCCCTATCTTTCAA
Found at i:338420 original size:32 final size:31
Alignment explanation
Indices: 338302--338428 Score: 123
Period size: 32 Copynumber: 3.9 Consensus size: 31
338292 CCTTACAACA
* * *
338302 CTATCTTTTAAGGCTAAAATAGAAACC--TCT
1 CTATCTTTCAAGGCTAAGATAG-AACCTTTCC
*
338332 CTATCTTTTTAAGGGCTAAGATAGAACCTTTTTCC
1 CTATC-TTTCAA-GGCTAAGATAGAACC--TTTCC
338367 CTATCTTTAACAAAGGCTAAGATAGAACCTTATCC
1 CTATCTTT--C-AAGGCTAAGATAGAACCTT-TCC
338402 CTATCTTTCAAGGCTAAGATAGAACCT
1 CTATCTTTCAAGGCTAAGATAGAACCT
338429 CTCAATCACT
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
30 5 0.06
31 10 0.12
32 28 0.33
33 1 0.01
34 5 0.06
35 18 0.21
36 15 0.18
37 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (31 bp):
CTATCTTTCAAGGCTAAGATAGAACCTTTCC
Found at i:339138 original size:20 final size:21
Alignment explanation
Indices: 339113--339156 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
339103 GATACTTTGG
339113 ATTATTTTTAT-TTGAAAAAC
1 ATTATTTTTATCTTGAAAAAC
339133 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTAT-CTTGAAAAAC
339155 AT
1 AT
339157 CTATACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.50
22 11 0.50
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTATTTTTATCTTGAAAAAC
Found at i:345968 original size:51 final size:51
Alignment explanation
Indices: 345904--346018 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
345894 ATTTTTGAAA
* ** *
345904 GGATACTCTAACCCCGATTCTATGTTT-AAAATATTGATTTTTCACCATCGG
1 GGATACTCCAACCCCGATTCTAT-TTTCAAAATATCAATTTTCCACCATCGG
*
345955 GTATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGG
1 GGATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGG
346006 GGATACTCCAACC
1 GGATACTCCAACC
346019 TCGTTATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 3 0.05
51 54 0.95
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGG
Found at i:346073 original size:130 final size:130
Alignment explanation
Indices: 345829--346100 Score: 393
Period size: 130 Copynumber: 2.1 Consensus size: 130
345819 CCGAGTGGAC
* **
345829 ACTCTAACCCCGATTCTATTTTTAAAACATCAATTTTCCACCATCGGGGATACTTTAACCCCGTT
1 ACTCTAACCCCGATTCTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT
* * * *
345894 ATTTTTGAAAGGATACTCTAACCCCGATTCTATGTTTAAAATATTGATTTTTCACCATCGGGTAT
66 ATTTCTGAAAGGATACTCTAACCCCGATTCTATGTTTAAAAAATCGATTTTTCACCATCGGGGAT
* * *
345959 ACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCGTT
1 ACTCTAACCCCGATTCTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT
* * * * *
346024 ATTTCTGAAGGGATACTCCT-ACCCCGGTTTTATTTTTAAAAAATCGATTTTTCACCATGGGGGA
66 ATTTCTGAAAGGATACT-CTAACCCCGATTCTATGTTTAAAAAATCGATTTTTCACCATCGGGGA
346088 T
130 T
346089 ACTCTAACCCCG
1 ACTCTAACCCCG
346101 TTATTTCTAA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
130 123 0.98
131 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (130 bp):
ACTCTAACCCCGATTCTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT
ATTTCTGAAAGGATACTCTAACCCCGATTCTATGTTTAAAAAATCGATTTTTCACCATCGGGGAT
Found at i:346201 original size:78 final size:78
Alignment explanation
Indices: 345957--346255 Score: 310
Period size: 79 Copynumber: 3.8 Consensus size: 78
345947 ACCATCGGGT
* *
345957 ATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCG
1 ATACTCCAACCCCGGTTCTATTTTTAAAATATCAATTTT-CACCATCGGGGATACTCCAACCTCG
*
346022 TTATTTCTGAAGGG
65 TTATTTCTAAAGGG
* * * * * * *
346036 ATACTCCTACCCCGGTTTTATTTTTAAAAAATCGATTTTTCACCATGGGGGATACTCTAACCCCG
1 ATACTCCAACCCCGGTTCTATTTTTAAAATATC-AATTTTCACCATCGGGGATACTCCAACCTCG
***
346101 TTATTTCTAATCAG
65 TTATTTCTAAAGGG
* ** *
346115 ATACTCCAACCCCGGTTCTATTTTTGAAATATTGATTTTCACCATCGGGGATACTCCAACCTTGT
1 ATACTCCAACCCCGGTTCTATTTTTAAAATATCAATTTTCACCATCGGGGATACTCCAACCTCGT
* * *
346180 TATTTTTTAGGGG
66 TATTTCTAAAGGG
* * **** * * *
346193 ATATTCCAATCGTATTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGACACTCCAACCT
1 ATACTCCAACCCCGGTTCTATTTTTAAAATATC-AATTTTCACCATCGGGGATACTCCAACCT
346256 TGGTTTTATT
Statistics
Matches: 177, Mismatches: 41, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
78 57 0.32
79 115 0.65
80 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (78 bp):
ATACTCCAACCCCGGTTCTATTTTTAAAATATCAATTTTCACCATCGGGGATACTCCAACCTCGT
TATTTCTAAAGGG
Found at i:346244 original size:51 final size:51
Alignment explanation
Indices: 346189--346305 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
346179 TTATTTTTTA
* * *
346189 GGGGATATTCCAATCGTATTTTTA-TTTCTAAAATATCAAA-TTTTCACCATC
1 GGGGATACTCCAACCGTAGTTTTATTTTC-AAAATAT-AAATTTTTCACCATC
* * *
346240 GGGGACACTCCAACCTTGGTTTTATTTTCAAAATATAAATTTTTCACCATC
1 GGGGATACTCCAACCGTAGTTTTATTTTCAAAATATAAATTTTTCACCATC
*
346291 GGGGATACTTCAACC
1 GGGGATACTCCAACC
346306 CCGTTTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.05
51 49 0.88
52 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (51 bp):
GGGGATACTCCAACCGTAGTTTTATTTTCAAAATATAAATTTTTCACCATC
Found at i:346244 original size:157 final size:158
Alignment explanation
Indices: 345957--346254 Score: 382
Period size: 157 Copynumber: 1.9 Consensus size: 158
345947 ACCATCGGGT
345957 ATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCG
1 ATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCG
* * * * * *
346022 TTATTTCTGAAGGGATACTCCTACCCCGGTTTTATTTTTAAAAAATCGATTTTTCACCATGGGGG
66 TTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAAAATCAAATTTTCACCATCGGGG
* *
346087 ATACTCTAACCCCGTTATTTCTAATCAG
131 ACACTCCAACCCCGTTATTTCTAATCAG
* ** ** *
346115 ATACTCCAACCCCGGTTCTATTTTTGAAATATTGATTTT-CACCATCGGGGATACTCCAACCTTG
1 ATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCG
* * * * * ** * *
346179 TTATTTTTTAGGGGATATTCCAATCGTATTTTTATTTCTAAAATATCAAATTTTCACCATCGGGG
66 TTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAAAATCAAATTTTCACCATCGGGG
346244 ACACTCCAACC
131 ACACTCCAACC
346255 TTGGTTTTAT
Statistics
Matches: 117, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
157 83 0.71
158 34 0.29
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (158 bp):
ATACTCCAACCCCGATTCTATTTTCAAAATATCAATTTTCCACCATCGGGGATACTCCAACCTCG
TTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAAAATCAAATTTTCACCATCGGGG
ACACTCCAACCCCGTTATTTCTAATCAG
Found at i:346335 original size:51 final size:51
Alignment explanation
Indices: 346207--346335 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
346197 TCCAATCGTA
* * **
346207 TTTTTATTTCTAAAATATCAAATTTTCACCATCGGGGACACTCCAACCTTG
1 TTTTTATTTCCAAAATATTAAATTTTCACCATCGGGGACACTCCAACCCCG
* * * *
346258 GTTTTATTTTCAAAATA-TAAATTTTTCACCATCGGGGATACTTCAACCCCG
1 TTTTTATTTCCAAAATATTAAA-TTTTCACCATCGGGGACACTCCAACCCCG
*
346309 TTTTTATCTCCAAAATATTAAATTTTC
1 TTTTTATTTCCAAAATATTAAATTTTC
346336 CATTGGGGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 3 0.05
51 58 0.89
52 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (51 bp):
TTTTTATTTCCAAAATATTAAATTTTCACCATCGGGGACACTCCAACCCCG
Found at i:356543 original size:13 final size:13
Alignment explanation
Indices: 356527--356552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
356517 TAGCGCAACT
356527 TTGTATCGATACA
1 TTGTATCGATACA
356540 TTGTATCGATACA
1 TTGTATCGATACA
356553 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:357494 original size:49 final size:49
Alignment explanation
Indices: 357425--358030 Score: 357
Period size: 49 Copynumber: 12.9 Consensus size: 49
357415 TAGGAATGTT
357425 AAGGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
1 AAGG-TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * *
357475 AAGGTACCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * * *
357524 AAGATGCCAATGTACTGATTCAAGGCCGACG-TCATTGGACTTAAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGAT-ATCGGACTTAAAGAT-G
* * * *
357574 TTAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATG
1 --AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * *
357625 AAGGTGCCAATATGCCGATTCAAGGCCAGCGATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * * * * *
357667 ---GTGCCAATGTGCTGATTTAAGGCCTACGACATTGGTCTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * * *
357712 AAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* ** * * * *
357754 -A--TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGAT-
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * *
357799 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT-G
** *
357848 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT----A--
1 --AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * * * * *
357893 AAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTT-AA-A-G
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * * * *
357939 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
* * * *
357985 AAAGTGCCAATATGCTGATTCAAGGCGAGCGATATTGGACTTAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAG
358031 GTGCCACGGA
Statistics
Matches: 449, Mismatches: 68, Indels: 79
0.75 0.11 0.13
Matches are distributed among these distances:
39 60 0.13
40 2 0.00
41 1 0.00
43 73 0.16
44 2 0.00
45 4 0.01
46 1 0.00
47 7 0.02
48 64 0.14
49 150 0.33
50 4 0.01
51 40 0.09
52 41 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATG
Found at i:357689 original size:39 final size:39
Alignment explanation
Indices: 357628--357973 Score: 136
Period size: 43 Copynumber: 7.9 Consensus size: 39
357618 AAAGATGAAG
* *
357628 GTGCCAATATGCCGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
357667 GTGCCAATGTGCTGATTTAAGGCCTA-CGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCC-AGCGACATTGGGCTT
* * *
357706 AAAGACAAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
357754 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T
* *
357799 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGT
1 ---GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG------GCT--T
* * *
357849 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
357892 AAAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
*
357935 AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 ---G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGG
357974 TCTTAAAGAT
Statistics
Matches: 242, Mismatches: 37, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
39 62 0.26
40 2 0.01
42 3 0.01
43 70 0.29
45 2 0.01
47 1 0.00
48 62 0.26
50 2 0.01
51 37 0.15
53 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:357753 original size:87 final size:86
Alignment explanation
Indices: 357579--358022 Score: 439
Period size: 87 Copynumber: 5.0 Consensus size: 86
357569 GATGGTTAAG
* * *
357579 GTGCCAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCCGAT
1 GTGCCAATGTGCTGATTCAAGGCC-ATGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
357644 TCAAGGCCAGCGATATTGGGCTT
64 TCAAGGCCAGCGATATTGGGCTT
* * *
357667 GTGCCAATGTGCTGATTTAAGGCCTACGACATTGGTCTTAAAGACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCC-ATGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
357732 CAAGGCCAGCAATATTGGGCTT
65 CAAGGCCAGCGATATTGGGCTT
* * *
357754 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCA-TGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
357819 CAAGGCCAGCGATATTGGACTCAAGATGGT
65 CAAGGCCAGCGATATTGG------GCT--T
* * * * * *
357849 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT----A-AAGGTGCAAATGTGAT
1 ----GTGCCAATGTGCTGATTCAAGGCCA-TGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
* *
357909 GATTCAAGGCCAGCGACATTGGTCTT
61 GATTCAAGGCCAGCGATATTGGGCTT
* * *
357935 AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGC
1 ---G-TGCCAATGTGCTGATTCAAGGCCA-TGACATTGGTCTTAAAGA-CAAGGTGCCAATATGC
*
358000 TGATTCAAGGCGAGCGATATTGG
60 TGATTCAAGGCCAGCGATATTGG
358023 ACTTAAAGGT
Statistics
Matches: 299, Mismatches: 37, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
85 3 0.01
86 36 0.12
87 113 0.38
88 41 0.14
90 1 0.00
92 32 0.11
93 2 0.01
94 34 0.11
95 2 0.01
99 35 0.12
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (86 bp):
GTGCCAATGTGCTGATTCAAGGCCATGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTT
Found at i:357871 original size:51 final size:48
Alignment explanation
Indices: 357755--358025 Score: 242
Period size: 43 Copynumber: 5.8 Consensus size: 48
357745 ATTGGGCTTA
* * * *
357755 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGA-G-ATAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTCA-ATGTA-AAGG
*
357803 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTC-A-AT-GTAAAGG
* *
357854 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGA--C--T-TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTCAATGTAAAGG
* * * *
357897 TGCAAATGTGATGATTCAAGGCCAGCGACATTGG--TC--T-TAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTCAATGTAAAGG
* * * * *
357940 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTCAATG-TAAAGG
* *
357989 TGCCAATATGCTGATTCAAGGCGAGCGATATTGGACT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
358026 TAAAGGTGCC
Statistics
Matches: 190, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
43 74 0.39
45 2 0.01
48 33 0.17
49 41 0.22
51 39 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTCAATGTAAAGG
Found at i:358028 original size:135 final size:134
Alignment explanation
Indices: 357381--358034 Score: 486
Period size: 150 Copynumber: 4.7 Consensus size: 134
357371 AGAAGAACGT
* * *
357381 CAATGTGCTGAGAT-AAGGCCAGCGACATTGGGCTTAGGAATG-TTAAGGATGCCAATATGCTGA
1 CAATGTGCTGA-TTCAAGGCCAGCGACATTGGTCTTA--AA-GATAAAGG-TGCCAATATGCTGA
* * * * * * *
357444 TTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTACCAATATGTTGATTCAAGGCCAGCGATA
61 TTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCAAATGTGATGATTCAAGGCCAGCGACA
* *
357509 TCGGACTTAAAGATAAAGATGC
120 TTGGTC-T-----TAAAG-TGC
* * * * *
357531 CAATGTACTGATTCAAGGCC-GACGTCATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGAT
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGA---TAAAGGTGCCAATATGCTGAT
** * * * * * ** *
357595 TCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCCGATTCAAGGCCAGCGATAT
62 TCAAGGCCAGCGATATTGGACTT----A--AAGGTGCAAATGTGATGATTCAAGGCCAGCGACAT
*
357660 TGGGCTT---GTGC
121 TGGTCTTAAAGTGC
* * *
357671 CAATGTGCTGATTTAAGGCCTA-CGACATTGGTCTTAAAGA-CAAGGTGCTAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCC-AGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCA
* * * * *
357734 AGGCCAGCAATATTGGGCTT--A--TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAG
65 AGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTT--
357795 AGATAAGGTGC
128 --A-AA-GTGC
* * * * *
357806 CAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GATAAAGGTGCCAATATGCTGATTC
*
357871 AAGGCCAGTGATATTGGACTTAAAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTTA
64 AAGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTTA
357936 AAGATGC
129 AAG-TGC
*
357943 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
358008 GGCGAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
358035 CACGGAGTTG
Statistics
Matches: 425, Mismatches: 53, Indels: 67
0.78 0.10 0.12
Matches are distributed among these distances:
126 33 0.08
128 1 0.00
134 1 0.00
135 84 0.20
136 37 0.09
137 39 0.09
138 39 0.09
140 38 0.09
141 1 0.00
142 35 0.08
144 1 0.00
147 1 0.00
148 2 0.00
149 3 0.01
150 104 0.24
151 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (134 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGCAAATGTGATGATTCAAGGCCAGCGACATTGGTCTTAAA
GTGC
Found at i:358070 original size:34 final size:34
Alignment explanation
Indices: 358030--358258 Score: 270
Period size: 34 Copynumber: 6.8 Consensus size: 34
358020 TGGACTTAAA
*
358030 GGTGCCACGGAGTTGTGGACTT-ACAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
358063 GGATGCCACGGAGGTGTGGGCTTAAAAGGGAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
** *
358098 GGTGCCACGGAGTCATGGACTTAAAAAG-AAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
*
358130 GGTGCCACGGAGTTGTGGACTTAAAAGGAACAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
*
358163 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** * *
358197 AGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
*
358231 GGTGCCATGGAGTTGTGGACTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGG
358259 GTGTCATAGA
Statistics
Matches: 168, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
32 25 0.15
33 47 0.28
34 73 0.43
35 23 0.14
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.19
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
Found at i:358270 original size:27 final size:27
Alignment explanation
Indices: 358226--358279 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
358216 CTTTAAAAAG
*
358226 AAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCATAGAGTTGTGGACTT
* *
358253 AAAAGGGTGTCATAGAGTTGTGGACTT
1 AAAAAGGTGCCATAGAGTTGTGGACTT
358280 TGAAAAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (27 bp):
AAAAAGGTGCCATAGAGTTGTGGACTT
Found at i:358287 original size:61 final size:61
Alignment explanation
Indices: 358192--358313 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
358182 CTTAAAAGGA
* ** *
358192 AAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGAGTGCCATAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
* * * *
358253 AAAAGGGTGTCATAGAGTTGTGGACTTTGAAAAGACAAAGGTGCCACAGAGTCGTGGACTT
1 AAAAGAGTGCCATAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
358314 TAGGAAGAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (61 bp):
AAAAGAGTGCCATAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
Found at i:358339 original size:30 final size:31
Alignment explanation
Indices: 358294--358603 Score: 312
Period size: 30 Copynumber: 10.0 Consensus size: 31
358284 AAGACAAAGG
*
358294 TGCCACAGAGTCGTGGACTTTAG-GAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
* *
358324 TGCCACTGAGCCGTGGGCTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
* * *
358354 TTGCCACTAAGTCGTGGACTTT-GAAGAAAATA
1 -TGCCACTGAGTCGTGGACTTTAG-AGAAGAGA
* *
358386 TGCCACTGAGTTGTGGACTTT-GGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
* * *
358416 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTT--AGAGAAGAGA
* * * *
358449 TGCCACTAAGTCATGGAC-TTAGAAAAAAAGGA
1 TGCCACTGAGTCGTGGACTTTAG-AGAAGA-GA
* *
358481 TACCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTT-AGAGAAGAGA
*
358513 TGCCACTGAGTTGTGGACTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
* *
358543 TGCCACTGAGTCATGGACTTT-GGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
*
358573 TGCCACTGAGTCATGGACTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
358603 T
1 T
358604 ATTTGAAGAA
Statistics
Matches: 240, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.00
30 116 0.48
31 45 0.19
32 46 0.19
33 30 0.12
34 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAGAGAAGAGA
Found at i:358437 original size:92 final size:91
Alignment explanation
Indices: 358273--358603 Score: 385
Period size: 92 Copynumber: 3.5 Consensus size: 91
358263 CATAGAGTTG
* * * *
358273 TGGACTTTGAAAAGACAAAGGTGCCACAGAGTCGTGGACTTTAGGAAGAGATGCCACTGAGCCGT
1 TGGACTTTG--AAGA-AAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGT
* *
358338 GGGCTTTGAGAAGAGATTGCCACTAAGTCG
63 GGACTTTGAGAAGAGA-TGCCACTAAGTCA
* * *
358368 TGGACTTTGAAGAAAATATGCCACTGAGTTGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGA
*
358433 CTTTGAAGAAAAAAGATGCCACTAAGTCA
66 CTTTG-AG--AAGAGATGCCACTAAGTCA
* * * * *
358462 TGGACTTAGAAAAAAAGGATACCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGT
1 TGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTG-G-GAAGAGATGCCACTGAGTCGT
*
358527 GGACTTTGAGAAGAGATGCCACTGAGTCA
63 GGACTTTGAGAAGAGATGCCACTAAGTCA
* * * *
358556 TGGACTTTG-GGAAGAGATGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGAT
358604 ATTTGAAGAA
Statistics
Matches: 202, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
90 7 0.03
92 71 0.35
93 9 0.04
94 51 0.25
95 35 0.17
96 3 0.01
97 26 0.13
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (91 bp):
TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGA
CTTTGAGAAGAGATGCCACTAAGTCA
Found at i:358487 original size:32 final size:33
Alignment explanation
Indices: 358413--358592 Score: 142
Period size: 32 Copynumber: 5.7 Consensus size: 33
358403 CTTTGGGAAG
* *
358413 AGATGCCACTGAGTCATGGACTTTGAAGAAAAA
1 AGATACCACTGAGTCATGGACTTAGAAGAAAAA
* *
358446 AGATGCCACTAAGTCATGGACTTAGAA-AAAAA
1 AGATACCACTGAGTCATGGACTTAGAAGAAAAA
* * * *
358478 GGATACCACTGAGTCGTGGACTTTG-AGAAAAG
1 AGATACCACTGAGTCATGGACTTAGAAGAAAAA
* ** * *
358510 AGATGCCACTGAGTTGTGGACTTTG-AG--AAG
1 AGATACCACTGAGTCATGGACTTAGAAGAAAAA
* * * *
358540 AGATGCCACTGAGTCATGGACTTTG--G-GAAG
1 AGATACCACTGAGTCATGGACTTAGAAGAAAAA
*
358570 AGATGCCACTGAGTCATGGACTT
1 AGATACCACTGAGTCATGGACTT
358593 TGAGAAGAGA
Statistics
Matches: 132, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
29 1 0.01
30 52 0.39
31 1 0.01
32 53 0.40
33 25 0.19
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (33 bp):
AGATACCACTGAGTCATGGACTTAGAAGAAAAA
Found at i:358533 original size:127 final size:123
Alignment explanation
Indices: 358357--358592 Score: 366
Period size: 127 Copynumber: 1.9 Consensus size: 123
358347 GAAGAGATTG
* *
358357 CCACTAAGTCGTGGACTTTGAAGAAAATATGCCACTGAGTTGTGGACTTTGGGAAGAGATGCCAC
1 CCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCAC
358422 TGAGTCATGGACTTTGAAGAAAAAAGATGCCACTAAGTCATGGACTTAGAAAAAAAGGATA
66 TGAGTCATGGACTTTG--G-AAAAAGATGCCACTAAGTCATGGACTTAGAAAAAAAGGATA
*
358483 CCACTGAGTCGTGGACTTTG-AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCC
1 CCACTAAGTCGTGGACTTTGAAG-AAA-AGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCC
* * *
358547 ACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTT
64 ACTGAGTCATGGACTTTGGAAAAAGATGCCACTAAGTCATGGACTT
358593 TGAGAAGAGA
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
124 24 0.24
125 3 0.03
126 22 0.22
127 53 0.52
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (123 bp):
CCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCAC
TGAGTCATGGACTTTGGAAAAAGATGCCACTAAGTCATGGACTTAGAAAAAAAGGATA
Found at i:373539 original size:52 final size:49
Alignment explanation
Indices: 373383--373612 Score: 257
Period size: 49 Copynumber: 4.6 Consensus size: 49
373373 CCAATATGTA
* * * *
373383 GATTCAAGGCCAACAATATTGGACTTAAAGAGGAAGGTGCCAATGTACT
1 GATTCAAGGCCAACGACATCGGACTTAAAGAGGAAGGTGCCAATGTGCT
* * * *
373432 TATTCAAGGCCAGCGATATCGGACTTAAAGAGGAACGTGCCAATGTGCT
1 GATTCAAGGCCAACGACATCGGACTTAAAGAGGAAGGTGCCAATGTGCT
*
373481 GATTCAAGG-CAAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCT
1 GATTCAAGGCCAA-CGACATCGGACTTAAAGA-GG--AAGGTGCCAATGTGCT
* * * **
373533 GATTCAAGGCCAACGACATCGGTCTTAAAG-GTGAACGTGCCTATACGCT
1 GATTCAAGGCCAACGACATCGGACTTAAAGAG-GAAGGTGCCAATGTGCT
* *
373582 GATTCAAGGCCAATGATATCGGACTTAAAGA
1 GATTCAAGGCCAACGACATCGGACTTAAAGA
373613 TGAATGTCCA
Statistics
Matches: 154, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
48 2 0.01
49 106 0.69
50 3 0.02
51 1 0.01
52 39 0.25
53 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (49 bp):
GATTCAAGGCCAACGACATCGGACTTAAAGAGGAAGGTGCCAATGTGCT
Found at i:373541 original size:101 final size:99
Alignment explanation
Indices: 373383--373614 Score: 299
Period size: 101 Copynumber: 2.3 Consensus size: 99
373373 CCAATATGTA
* * *
373383 GATTCAAGGCCAACAATATTGGACTTAAAGA-GGAAGGTGCCAATGTACTTATTCAAGGCCAGCG
1 GATTCAAGGCCAACGATATTGGACTTAAAGATGGAAGGTGCCAATGTACTGATTCAAGGCCAACG
* **
373447 ATATCGGACTTAAAGAG-GAACGTGCCAATGTGCT
66 ACATCGGACTTAAAG-GTGAACGTGCCAATACGCT
* *
373481 GATTCAAGG-CAAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCA
1 GATTCAAGGCCAA-CGATATTGGACTTAAAGATGG--AAGGTGCCAATGTACTGATTCAAGGCCA
* *
373545 ACGACATCGGTCTTAAAGGTGAACGTGCCTATACGCT
63 ACGACATCGGACTTAAAGGTGAACGTGCCAATACGCT
* *
373582 GATTCAAGGCCAATGATATCGGACTTAAAGATG
1 GATTCAAGGCCAACGATATTGGACTTAAAGATG
373615 AATGTCCAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
97 3 0.03
98 25 0.22
99 2 0.02
100 1 0.01
101 81 0.70
102 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (99 bp):
GATTCAAGGCCAACGATATTGGACTTAAAGATGGAAGGTGCCAATGTACTGATTCAAGGCCAACG
ACATCGGACTTAAAGGTGAACGTGCCAATACGCT
Found at i:373700 original size:33 final size:33
Alignment explanation
Indices: 373633--373975 Score: 308
Period size: 33 Copynumber: 10.5 Consensus size: 33
373623 ATATGCCATA
* * * * *
373633 GAGTCGTGAACTTAAAACG-AAAATGTGCTACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* * *
373665 GAGTTATGGATTTAAAAGGAATAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* * *
373698 GAGTTGTAGACTT-ACAGGAAAAAGGGATGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAA-GG-TGCCACG
* * * *
373732 AAGGTGTGGGCTTAAAAGGGAAAAAGGTACCACG
1 GAGTTGTGGACTTAAAA-GGAAAAAGGTGCCACG
* ** *
373766 AAGTCATGGACTTAAAAAG-AAAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
373798 GAGTTGTGGACTTAAAAGGAATAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
* * *
373831 GAGTTGTGGACTGAAAAGAAAAAAGATGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
373864 GAGTTGTGGACTTAAAA-G-----GGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
*
373891 AAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACG
* * ** *
373925 GAGTTGTGGGCTTTAAAAAGAAAAAAATGCCACT
1 GAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACG
*
373959 AAGTTGTGGACTTAAAA
1 GAGTTGTGGACTTAAAA
373976 TAGTGCCACA
Statistics
Matches: 249, Mismatches: 48, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
27 24 0.10
28 1 0.00
32 49 0.20
33 87 0.35
34 65 0.26
35 16 0.06
36 7 0.03
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (33 bp):
GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACG
Found at i:373888 original size:27 final size:27
Alignment explanation
Indices: 373857--373909 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
373847 AGAAAAAAGA
*
373857 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
373884 TGCCACGAAGTTGTGGACTTAAAAGG
1 TGCCACGAAGTTGTGGACTTAAAAGG
373910 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:373921 original size:34 final size:34
Alignment explanation
Indices: 373877--373975 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
373867 TTGTGGACTT
* *
373877 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAAGA
* *
373911 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGAAGTTGTGGAC-TTAAAAAGA
* *
373946 AAAA-AATGCCACTAAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAA
373976 TAGTGCCACA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
33 6 0.11
34 38 0.68
35 12 0.21
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGAAGTTGTGGACTTAAAAAGA
Found at i:373982 original size:95 final size:93
Alignment explanation
Indices: 373690--374028 Score: 301
Period size: 95 Copynumber: 3.6 Consensus size: 93
373680 AAGGAATAAG
* * * ** * * * *
373690 GTGCCACGGAGTTGTAGACTT-ACAGGAAAAAGGGATGCCACAAAGGTGTGGGCTTAAAAGGGAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAA-GG-TGCCACGGAGTTGTGGAC-TAAAAAGAAA
* * **
373754 AAAGGTACCACGAAGTCATGGACTTAAAAAGAAAA
63 AAAGATGCCACGAAGTTGTGGACTT-AAAAG---A
* * *
373789 GGTGCCACGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACGGAGTTGTGGACTGAAAAGAAAAA
1 -GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTAAAAAGAAAAA
* *
373854 AGATGCCACGGAGTTGTGGACTTAAAAGG
65 AGATGCCACGAAGTTGTGGACTTAAAAGA
*
373883 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC--TAAAAAGAAA
* *
373948 AAA-ATGCCACTAAGTTGTGGACTTAAAATA
63 AAAGATGCCACGAAGTTGTGGACTTAAAAGA
* ** * *
373978 GTGCCAC-AGAGTCGTGGACTTTGAAGGAAAAA--TGCCACTGAGTCGTGGACT
1 GTGCCACGA-AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACT
374029 TTGAAAAGAG
Statistics
Matches: 204, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
90 1 0.00
92 15 0.07
93 31 0.15
94 19 0.09
95 50 0.25
96 12 0.06
97 5 0.02
98 27 0.13
99 14 0.07
100 22 0.11
101 8 0.04
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.19
Consensus pattern (93 bp):
GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTAAAAAGAAAAAA
GATGCCACGAAGTTGTGGACTTAAAAGA
Found at i:374021 original size:31 final size:30
Alignment explanation
Indices: 373947--374122 Score: 182
Period size: 31 Copynumber: 5.9 Consensus size: 30
373937 TTAAAAAGAA
* *
373947 AAAAATGCCACTAAGTTGTGGAC-TT-AA-
1 AAAAATGCCACTGAGTCGTGGACTTTGAAG
* * *
373974 AATAGTGCCACAGAGTCGTGGACTTTGAAGG
1 AAAAATGCCACTGAGTCGTGGACTTTGAA-G
374005 AAAAATGCCACTGAGTCGTGGACTTTGAA-
1 AAAAATGCCACTGAGTCGTGGACTTTGAAG
*
374034 AAGAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AA-A-AATGCCACTGAGTCGTGGACTTTGAAG
* *
374066 AAAAAATACCACTGAGTCGTGGACTTTG-GG
1 -AAAAATGCCACTGAGTCGTGGACTTTGAAG
* *
374096 AAGAGATGCCACTGAGTCGTGGGCTTT
1 AA-AAATGCCACTGAGTCGTGGACTTT
374123 TGAAAAGGGT
Statistics
Matches: 125, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
27 18 0.14
28 2 0.02
29 6 0.05
30 23 0.18
31 73 0.58
32 1 0.01
33 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (30 bp):
AAAAATGCCACTGAGTCGTGGACTTTGAAG
Found at i:374061 original size:62 final size:61
Alignment explanation
Indices: 373911--374122 Score: 243
Period size: 62 Copynumber: 3.5 Consensus size: 61
373901 CTTAAAAGGA
* * * * * *
373911 AAAAGAG-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAATGCCACTAAGTTGTGGAC-TT-
1 AAAAGAGATGCCACTGAGTCGTGGACTTT--GAAG-AAAAAATGCCACTGAGTCGTGGACTTTG
* * *
373972 AAAATAG-TGCCACAGAGTCGTGGACTTTGAAGGAAAAATGCCACTGAGTCGTGGACTTTG
1 AAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTG
*
374032 AAAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAAATACCACTGAGTCGTGGACTTTG
1 AAAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTG
** *
374094 GGAAGAGATGCCACTGAGTCGTGGGCTTT
1 AAAAGAGATGCCACTGAGTCGTGGACTTT
374123 TGAAAAGGGT
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
58 21 0.16
59 5 0.04
60 6 0.05
61 44 0.33
62 56 0.42
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (61 bp):
AAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:374174 original size:29 final size:29
Alignment explanation
Indices: 374099--374300 Score: 273
Period size: 29 Copynumber: 7.0 Consensus size: 29
374089 CTTTGGGAAG
* *
374099 AGATGCCACTGAGTCGTGGGCTTTTGAAA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
*
374128 AGGGTGCCACTGACTTGTGGGCTTTTGAAA
1 A-GATGCCACTGACTTGTGGGCTTTTGAAA
*
374158 AGATGCCACTGACTTGTGGGCTTCTG-AA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
* * *
374186 GGTTGCCACTGACTTATGGGC-TTTGAAA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
* *
374214 AGGTGCCACTGACTTGTGCGCTTTTGAAA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
*
374243 AGATGCCACTAACTTGTGGGCTTTTGAAA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
* *
374272 AGATGCCACTGACTTATGGGCTTTGGAAA
1 AGATGCCACTGACTTGTGGGCTTTTGAAA
374301 GTGAGGAATG
Statistics
Matches: 151, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 3 0.02
28 39 0.26
29 83 0.55
30 26 0.17
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (29 bp):
AGATGCCACTGACTTGTGGGCTTTTGAAA
Found at i:374231 original size:85 final size:86
Alignment explanation
Indices: 374099--374301 Score: 300
Period size: 85 Copynumber: 2.3 Consensus size: 86
374089 CTTTGGGAAG
* ** *
374099 AGATGCCACTGAGTCGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGC
1 AGATGCCACTGACTTATGGGC-TTTGAAAA-GGTGCCACTGACTTGTGCGCTTTTGAAAAGATGC
*
374164 CACTGACTTGTGGGCTTCTG-AA
64 CACTAACTTGTGGGCTTCTGAAA
* *
374186 GGTTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTGTGCGCTTTTGAAAAGATGCCA
1 AGATGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTGTGCGCTTTTGAAAAGATGCCA
*
374251 CTAACTTGTGGGCTTTTGAAA
66 CTAACTTGTGGGCTTCTGAAA
*
374272 AGATGCCACTGACTTATGGGCTTTGGAAAG
1 AGATGCCACTGACTTATGGGCTTTGAAAAG
374302 TGAGGAATGT
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 51 0.49
86 37 0.36
87 16 0.15
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (86 bp):
AGATGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTGTGCGCTTTTGAAAAGATGCCA
CTAACTTGTGGGCTTCTGAAA
Found at i:389708 original size:20 final size:19
Alignment explanation
Indices: 389683--389757 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 19
389673 AAATTCCCAG
389683 ATGTATCGATACATTATTCA
1 ATGTATCGATACA-TATTCA
389703 ATGTATCGATACA-ATTCCTA
1 ATGTATCGATACATATT-C-A
* *
389723 GATGTATCGATACAAAGATCA
1 -ATGTATCGATACATA-TTCA
389744 ATGTATCGATACAT
1 ATGTATCGATACAT
389758 TTCCTTAGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 27 0.56
21 14 0.29
22 2 0.04
23 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATATTCA
Found at i:389729 original size:21 final size:20
Alignment explanation
Indices: 389674--389737 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
389664 ATCTGGGTAA
389674 AATTCCCAGATGTATCGATAC
1 AATT-CCAGATGTATCGATAC
389695 ATTATT-CA-ATGTATCGATAC
1 A--ATTCCAGATGTATCGATAC
389715 AATTCCTAGATGTATCGATAC
1 AATTCC-AGATGTATCGATAC
389736 AA
1 AA
389738 AGATCAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.08
19 1 0.03
20 14 0.37
21 17 0.45
23 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
AATTCCAGATGTATCGATAC
Found at i:389731 original size:41 final size:41
Alignment explanation
Indices: 389674--389762 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
389664 ATCTGGGTAA
* * *
389674 AATTCCCAGATGTATCGATACATTA-TTCAATGTATCGATAC
1 AATTCCTAGATGTATCGATACA-AAGATCAATGTATCGATAC
389715 AATTCCTAGATGTATCGATACAAAGATCAATGTATCGATAC
1 AATTCCTAGATGTATCGATACAAAGATCAATGTATCGATAC
*
389756 ATTTCCT
1 AATTCCT
389763 TAGCAGTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 42 0.98
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (41 bp):
AATTCCTAGATGTATCGATACAAAGATCAATGTATCGATAC
Found at i:393390 original size:13 final size:13
Alignment explanation
Indices: 393372--393429 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
393362 CATTATTCAA
393372 TGTATCGATACAT
1 TGTATCGATACAT
393385 TGTATCGATACA-
1 TGTATCGATACAT
*
393397 ---AT-GAT-CTT
1 TGTATCGATACAT
393405 TGTATCGATACAT
1 TGTATCGATACAT
*
393418 TGTACCGATACA
1 TGTATCGATACA
393430 ATGATCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.06
11 2 0.06
12 3 0.08
13 25 0.69
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:393394 original size:33 final size:32
Alignment explanation
Indices: 393352--393450 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 32
393342 GTCAAGGAAA
*
393352 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATGA-TCAATGTATCGATACAT
**
393385 TGTATCGATACAATGATCTTTGTATCGATACAT
1 TGTATCGATAC-ATGATCAATGTATCGATACAT
* **
393418 TGTACCGATACAATGATCTTTGTATCGATACAT
1 TGTATCGATAC-ATGATCAATGTATCGATACAT
393451 CTGGGAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 58 0.95
34 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATGATCAATGTATCGATACAT
Found at i:393409 original size:20 final size:20
Alignment explanation
Indices: 393384--393449 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
393374 TATCGATACA
393384 TTGTATCGATACAATGATCT
1 TTGTATCGATACAATGATCT
393404 TTGTATCGATAC----A---
1 TTGTATCGATACAATGATCT
*
393417 TTGTACCGATACAATGATCT
1 TTGTATCGATACAATGATCT
393437 TTGTATCGATACA
1 TTGTATCGATACA
393450 TCTGGGAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.30
16 1 0.03
17 1 0.03
20 24 0.65
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACAATGATCT
Found at i:395120 original size:21 final size:20
Alignment explanation
Indices: 395090--395128 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
395080 CACATTTTTG
395090 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
395110 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
395129 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:395267 original size:13 final size:13
Alignment explanation
Indices: 395249--395274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
395239 ACCAAGGAAA
395249 TGTATCGATACAT
1 TGTATCGATACAT
395262 TGTATCGATACAT
1 TGTATCGATACAT
395275 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:395338 original size:20 final size:19
Alignment explanation
Indices: 395313--395407 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 19
395303 TTTACCCAGA
*
395313 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
* *
395333 TGTATCAATACATGGCTCAT
1 TGTATCGATACAT-TCTCAT
395353 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
* *
395373 TGTATCGATACATTTTACAA
1 TGTATCGATACATTCT-CAT
395393 TGTATCGATACATTC
1 TGTATCGATACATTC
395408 AGGCATTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 62 0.97
21 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:397927 original size:28 final size:28
Alignment explanation
Indices: 397887--397961 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
397877 ATTTTTCATA
397887 ATCGAGGG-TACTCCAACCC-AGTTATGTC
1 ATCG-GGGATACTCCAACCCTA-TTATGTC
*
397915 ATCGGGGATACTCCAACCCTATTATTTC
1 ATCGGGGATACTCCAACCCTATTATGTC
***
397943 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
397962 CGATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 3 0.07
28 37 0.90
29 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTATTATGTC
Found at i:397997 original size:107 final size:107
Alignment explanation
Indices: 397811--398010 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
397801 TTTCACAATT
* * * * **
397811 GGGGATACTCTAACCCCGTTATTTCCGAGAGGATACTCCAACCTCGGTTTTATATCTAAAATATT
1 GGGGATACTCCAACCCCATTATTTCCGAGAGGATACTCCAACCCCGATTTTATATCTAAAATACC
* * *
397876 GATTTTTCATAATCGAGGG-TACTCCAACCCAGTTATGTCATC
66 AAATTTTCACAATCG-GGGATACTCCAACCCAGTTATGTCATC
* * *
397918 GGGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACC
1 GGGGATACTCCAACCCCATTATTTCCGAGAGGATACTCCAACCCCGATTTTATATCTAAAATACC
397983 AAATTTTCACAATCGGGGATACTCCAAC
66 AAATTTTCACAATCGGGGATACTCCAAC
398011 TCCGATTTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 3 0.04
107 77 0.96
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCATTATTTCCGAGAGGATACTCCAACCCCGATTTTATATCTAAAATACC
AAATTTTCACAATCGGGGATACTCCAACCCAGTTATGTCATC
Found at i:398007 original size:51 final size:51
Alignment explanation
Indices: 397946--398063 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
397936 TTATTTCCGA
*
397946 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAAATTTTC-ACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACC-AATTTTCTACAATC
* **
397997 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATGATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTACAATC
*
398048 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
398064 TGTTATTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 7 0.12
51 48 0.81
52 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTACAATC
Found at i:398080 original size:79 final size:78
Alignment explanation
Indices: 397997--398216 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 78
397987 TTTCACAATC
*
397997 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATGATCAGGGATACTCCAAC
1 GGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
398062 CCTGTTATTTTCGA
65 CCTGTTATTTTCGA
* * **
398076 GGGGATACTCCAACCCCGATTTTAGTTTCAAAATACTGATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
398141 CCTGTTATTTTCGA
65 CCTGTTATTTTCGA
* * * * * *
398155 GGGAATACTCCAACCTCGATTTT-TATTTCTAGAACATCGATTTTCCATAATCGGGGATACTC
1 GGGGATACTCCAACC-CGATTTTAT-TTTC-AAAACACCAATTTTCTATAATCAGGGATACTC
398217 TAGCCCCATT
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.02
79 95 0.77
80 27 0.22
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACC
CTGTTATTTTCGA
Found at i:398138 original size:237 final size:237
Alignment explanation
Indices: 397709--398169 Score: 610
Period size: 237 Copynumber: 1.9 Consensus size: 237
397699 TTTTCATCTC
* * * ** *
397709 GGGGATACTCCAATCCCGGTTCCATTTCCAAAATATCAAATTTTCTTAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTCCATTTCCAAAATACCAAATTTTCACAATCGGGGATACTCCAAC
** *
397774 TCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCTAACCCCGTTATTTCCGA
66 TCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCGA
* * *
397839 GAGGATACTCCAACCTCGGTTTTATATCTAAAATATTGATTTTTCATAATCGAGGGTACTCCAAC
131 GAGGATACTCCAACCCCGATTTTATATCTAAAATACTGATTTTTCATAATCGAGGGTACTCCAAC
397904 CCAGTTATGTCATCG-GGG-ATACTCCAACCCTATTATTTCCGA
196 CCAGTTAT-T-ATCGAGGGAATACTCCAACCCTATTATTTCCGA
** *
397946 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAAATTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTCCATTTCCAAAATACCAAATTTTCACAATCGGGGATACTCCAAC
* ** * *
398011 TCCGATTTTATTTTCAAAACACCAA-TTTTCTATGATCAGGGATACTCCAACCCTGTTATTTTCG
66 TCCGATTTTATTTCCAAAACACCAATTTTTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCG
* *
398075 AGGGGATACTCCAACCCCGATTTTAGTTTC-AAAATACTGA-TTTTCTATAATC-AGGGATACTC
130 AGAGGATACTCCAACCCCGATTTTA-TATCTAAAATACTGATTTTTC-ATAATCGAGGG-TACTC
* *
398137 CAACCCTGTTATTTTCGAGGGAATACTCCAACC
192 CAACCCAGTTATTATCGAGGGAATACTCCAACC
398170 TCGATTTTTA
Statistics
Matches: 194, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
235 3 0.02
236 18 0.09
237 170 0.88
238 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (237 bp):
GGGGATACTCCAACCCCGATTCCATTTCCAAAATACCAAATTTTCACAATCGGGGATACTCCAAC
TCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCGA
GAGGATACTCCAACCCCGATTTTATATCTAAAATACTGATTTTTCATAATCGAGGGTACTCCAAC
CCAGTTATTATCGAGGGAATACTCCAACCCTATTATTTCCGA
Found at i:399476 original size:22 final size:22
Alignment explanation
Indices: 399446--399511 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
399436 TTCTTTCTTT
399446 TCAAAAAAAAAAGAAAAAAAAA
1 TCAAAAAAAAAAGAAAAAAAAA
* **
399468 TCAACAAAAAAA-ACCAAAAAA
1 TCAAAAAAAAAAGAAAAAAAAA
*
399489 TGGAAAGAAAAAAAGAAAAAAAA
1 T-CAAA-AAAAAAAGAAAAAAAA
399512 CCTGCTTAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 8 0.24
22 13 0.38
23 7 0.21
24 6 0.18
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.05
Consensus pattern (22 bp):
TCAAAAAAAAAAGAAAAAAAAA
Found at i:400579 original size:61 final size:61
Alignment explanation
Indices: 400482--400994 Score: 514
Period size: 61 Copynumber: 8.3 Consensus size: 61
400472 AACCTTTTAT
*
400482 CCTTTTAGTCCTCAAAGAGCAGGACAC-TTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
400543 CATTTTAGTCCTTAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
400604 CCTTTTAGTCCTCAAAGAGTAGGACGCCTT-TCCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * **
400665 CCTTTTAGTCCTCAAAGAGCAAGATGCATTCTCCTTTTAAAGCCCATACAAGTTGGTGATA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * *
400726 CCTTTTAGTCCTTAAAGAGCAAAATACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** * * * * *
400787 CCTTTTAGTCCTTAAAGAGTAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTAGAA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *** ** * *
400848 CCTTTCAGTCCTTAAAAAATGGGATGCATT-TTCTTTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* ** * *
400909 CCTTTTAGTCCTCAAAAAGTGGGACAC-TTCTTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGC
1 CCTTTTAGTCCTCAAAGAGCAGGACACATTC-----TCCTTTTAAAGCCCACACAAGTTGGTGGC
400973 A
61 A
400974 -CTTTGTAGTCCTCAAAGAGCA
1 CCTTT-TAGTCCTCAAAGAGCA
400995 AGACGCCTCT
Statistics
Matches: 389, Mismatches: 52, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
60 8 0.02
61 332 0.85
62 4 0.01
64 4 0.01
65 34 0.09
66 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:400791 original size:183 final size:182
Alignment explanation
Indices: 400482--400920 Score: 590
Period size: 183 Copynumber: 2.4 Consensus size: 182
400472 AACCTTTTAT
** * *
400482 CCTTTTAGTCCTCAAAGAGCAGGACACTTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCATTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
** *
400547 TTAGTCCTTAAAGAGCAGGACACATTCTCCTTTTAAAGCCCACACAAGTTGGTGACACCTTTTAG
65 TTAGTCCTTAAAGAGCAAAACACATTCTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTTAG
* * * *
400612 TCCTCAAAGAGTAGGACGCCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCA
130 TCCTCAAAGAGTAAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTAGAA
* * **
400665 CCTTTTAGTCCTCAAAGAGCAAGATGCATTCTCCTTTTAAAGCCCATACAAGTTGGTGATACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCATT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
400730 TTAGTCCTTAAAGAGCAAAATACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAG
65 TTAGTCCTTAAAGAGCAAAACACATTCTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTTAG
* * *
400795 TCCTTAAAGAGTAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTAGAA
130 TCCTCAAAGAGTAAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTAGAA
* * * *** * *
400848 CCTTTCAGTCCTTAAAAAATGGGATGCATTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCATTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
400913 TTAGTCCT
65 TTAGTCCT
400921 CAAAAAGTGG
Statistics
Matches: 221, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
182 6 0.03
183 214 0.97
184 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (182 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
TAGTCCTTAAAGAGCAAAACACATTCTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTTTAGT
CCTCAAAGAGTAAGACGCCTTTCCCTTTCAAAGCCCACACAAGTTGGTAGAA
Found at i:400983 original size:65 final size:66
Alignment explanation
Indices: 400876--401045 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 66
400866 ATGGGATGCA
* ***
400876 TTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTGGGAC-ACT-TC
1 TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAAAGCAAGACGACTCTC
*
400939 TTT
64 TCT
* * *
400942 TTTTCTTTTAAAGCCCACACAAGCTGGTGGCACTTTGTAGTCCTCAAAGAGCAAGACGCCTCTCT
1 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TAGTCCTCAAAAAGCAAGACGACTCTCT
401007 CT
65 CT
*
401009 TTTTCTATCTTAAAGCCCACACAAGTTGGTGTCACTT
1 TTTTCT-T-TTAAAGCCCACACAAGTTGGTGGCACTT
401046 ATCTACTGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 4 0.04
65 37 0.42
66 11 0.12
67 10 0.11
68 1 0.01
69 26 0.29
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (66 bp):
TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAAAGCAAGACGACTCTCTC
T
Found at i:401522 original size:20 final size:19
Alignment explanation
Indices: 401469--401542 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 19
401459 TTCTACAATT
401469 TGTATCGATACAAATAGTAAA
1 TGTATCGATAC--ATAGTAAA
* * *
401490 TGTATTGAAACATGAGTGAA
1 TGTATCGATACAT-AGTAAA
*
401510 TGTATCGATACATACCTAAAA
1 TGTATCGATACATA-GT-AAA
*
401531 TATATCGATACA
1 TGTATCGATACA
401543 AAACTACCCT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.07
20 17 0.40
21 22 0.52
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATAGTAAA
Found at i:404223 original size:79 final size:77
Alignment explanation
Indices: 404092--404417 Score: 334
Period size: 79 Copynumber: 4.2 Consensus size: 77
404082 ACTTCTGAGG
* * * * *
404092 GGATACTCTAACCCCGTTATTTTCGAGAGGATACTCCAACCTTGGTTCTATTTTAAAAATATCGA
1 GGATACTCCAACCCCATTATTTCCGAG-GGATACTCCAACC-TAGTTCTATTTTTAAAATATCGA
404157 TTTTTCACCATCGA
64 TTTTTCACCATCGA
* ** * *
404171 GGATACTCCAACCCTATTATTTTTGAGGCGATACTCCAATCCTAGTTTTATTTTCAAAATATCGA
1 GGATACTCCAACCCCATTATTTCCGAGG-GATACTCCAA-CCTAGTTCTATTTTTAAAATATCGA
*
404236 TTTTCCACCATCG-
64 TTTTTCACCATCGA
** * * * *
404249 GGGCACTCCAACCCCATTATTTCCGAAGGGATACTCTAACCTAGTTTTATTTTTAAAATATCAAA
1 GGATACTCCAACCCCATTATTTCCG-AGGGATACTCCAACCTAGTTCTATTTTTAAAATATCGAT
*
404314 TTTTCACCATCGG
65 TTTTCACCATCGA
* * ** * *
404327 GGATACTCTAACCCTATTATTTCTAAGGGGATACTCCAATCC-CGATTCTATTTTTGAAATATCG
1 GGATACTCCAACCCCATTATTTCCGA-GGGATACTCCAA-CCTAG-TTCTATTTTTAAAATATCG
*
404391 A-TTTTGACCATCGA
63 ATTTTTCACCATCGA
404405 GGATACTCCAACC
1 GGATACTCCAACC
404418 GAGGGGATAT
Statistics
Matches: 208, Mismatches: 32, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
77 35 0.17
78 84 0.40
79 87 0.42
80 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (77 bp):
GGATACTCCAACCCCATTATTTCCGAGGGATACTCCAACCTAGTTCTATTTTTAAAATATCGATT
TTTCACCATCGA
Found at i:404317 original size:78 final size:75
Alignment explanation
Indices: 404090--404417 Score: 300
Period size: 78 Copynumber: 4.2 Consensus size: 75
404080 TTACTTCTGA
* * * *
404090 GGGGATACTCTAACCCCGTTATTTTCGAGAGGATACTCCAACCTTGGTTCTATTTTAAAAATATC
1 GGGG-TACTCCAACCCCATTATTTTCGAG-GGATACTCCAACC-TAGTTTTATTTTAAAAATATC
404155 GATTTTTCACCATC
63 GA-TTTTCACCATC
* * * *
404169 GAGGATACTCCAACCCTATTATTTTTGAGGCGATACTCCAATCCTAGTTTTATTTTCAAAATATC
1 G-GGGTACTCCAACCCCATTATTTTCGAGG-GATACTCCAA-CCTAGTTTTATTTTAAAAATATC
404234 GATTTTCCACCATC
63 GATTTT-CACCATC
* * * * *
404248 GGGGCACTCCAACCCCATTATTTCCGAAGGGATACTCTAACCTAGTTTTATTTTTAAAATATCAA
1 GGGGTACTCCAACCCCATTATTTTCG-AGGGATACTCCAACCTAGTTTTATTTTAAAAATATC-G
404313 ATTTTCACCATC
64 ATTTTCACCATC
* * * * * **
404325 GGGGATACTCTAACCCTATTA-TTTCTAAGGGGATACTCCAATCC-CGATTCTATTTTTGAAATA
1 GGGG-TACTCCAACCCCATTATTTTC-GA-GGGATACTCCAA-CCTAG-TTTTATTTTAAAAATA
*
404388 TCGATTTTGACCATC
61 TCGATTTTCACCATC
*
404403 GAGGATACTCCAACC
1 G-GGGTACTCCAACC
404418 GAGGGGATAT
Statistics
Matches: 208, Mismatches: 29, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
77 37 0.18
78 85 0.41
79 82 0.39
80 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (75 bp):
GGGGTACTCCAACCCCATTATTTTCGAGGGATACTCCAACCTAGTTTTATTTTAAAAATATCGAT
TTTCACCATC
Found at i:411360 original size:20 final size:19
Alignment explanation
Indices: 411335--411401 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
411325 ATGAAGACTT
*
411335 GATACATGCTACTTTGTATC
1 GATACATG-TACATTGTATC
*
411355 GATACATGTTCATTGTATC
1 GATACATGTACATTGTATC
*
411374 GATACATGGACAATTGTATC
1 GATACATGTAC-ATTGTATC
411394 GATACATG
1 GATACATG
411402 AAACTAGCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.43
20 24 0.57
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
GATACATGTACATTGTATC
Found at i:411372 original size:19 final size:20
Alignment explanation
Indices: 411348--411401 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
411338 ACATGCTACT
**
411348 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
411367 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
411387 TTGTATCGATACATG
1 TTGTATCGATACATG
411402 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:411456 original size:20 final size:20
Alignment explanation
Indices: 411431--411488 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
411421 TATCACTATT
411431 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
411451 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
411471 TGTATCGATACATGGTAT
1 TGTATCGATACATGGTAT
411489 CGATACATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:411490 original size:13 final size:13
Alignment explanation
Indices: 411472--411510 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
411462 ATGGTATAAT
411472 GTATCGATACATG
1 GTATCGATACATG
*
411485 GTATCGATACATT
1 GTATCGATACATG
411498 GTATCGATACATG
1 GTATCGATACATG
411511 AAGAAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:411791 original size:18 final size:19
Alignment explanation
Indices: 411764--411803 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
411754 AGATCAAAAC
411764 TTTCAAATTTCAAAGAG-T
1 TTTCAAATTTCAAAGAGCT
* *
411782 TTTCACATTTCCAAGAGCT
1 TTTCAAATTTCAAAGAGCT
411801 TTT
1 TTT
411804 GTTTTCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTCAAATTTCAAAGAGCT
Found at i:413121 original size:3 final size:3
Alignment explanation
Indices: 413113--413137 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
413103 TGAAGAGGAA
413113 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
413138 GTAATTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:417500 original size:29 final size:32
Alignment explanation
Indices: 417450--417518 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
417440 ATGTGATTTT
* *
417450 ATGATTTTTGATGATTCATGCTTTGTTGT-TGA
1 ATGAATTTTGATGATT-ATGCTATGTTGTATGA
417482 ATGAATTTTGATG-TT-TGCTATGTTGTATGA
1 ATGAATTTTGATGATTATGCTATGTTGTATGA
*
417512 TTGAATT
1 ATGAATT
417519 ATGTTTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 9 0.27
31 2 0.06
32 12 0.36
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.52
Consensus pattern (32 bp):
ATGAATTTTGATGATTATGCTATGTTGTATGA
Found at i:420188 original size:19 final size:20
Alignment explanation
Indices: 420145--420197 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
420135 CACACCTAGA
*
420145 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
*
420165 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
420184 TGTATCGATACATG
1 TGTATCGATACATG
420198 GACAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:420211 original size:20 final size:19
Alignment explanation
Indices: 420145--420213 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
420135 CACACCTAGA
*
420145 TGTATCGATACATGCTG-CTT
1 TGTATCGATACATG--GACAT
**
420165 TGTATCGATACATGTTCAT
1 TGTATCGATACATGGACAT
420184 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGAC-AT
*
420204 TTTATCGATA
1 TGTATCGATA
420214 GATGAAACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 17 0.40
20 25 0.60
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGGACAT
Found at i:421234 original size:122 final size:122
Alignment explanation
Indices: 421017--421260 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
421007 GCTTTCAAAG
421017 GTGAATTCATAAGTCTAAGGTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGATTTAGTA
1 GTGAATTCATAAGTCTAAGGTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGATTTAGTA
421082 AAAATATCGGCTAGTTGGTGCAAGGTATCTACAAGTTCTATTACAACATCCCTTTTT
66 AAAATATCGGCTAGTTGGTGCAAGGTATCTACAAGTTCTATTACAACATCCCTTTTT
421139 GTGAATTCATAAGTCTAAGGTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGATTTAGTA
1 GTGAATTCATAAGTCTAAGGTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGATTTAGTA
421204 AAAATATCGGCTAGTTGGTGCAAGGTATCTACAAGTTCTATTACAACATCCCTTTTT
66 AAAATATCGGCTAGTTGGTGCAAGGTATCTACAAGTTCTATTACAACATCCCTTTTT
421261 TGCACATGAT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (122 bp):
GTGAATTCATAAGTCTAAGGTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGATTTAGTA
AAAATATCGGCTAGTTGGTGCAAGGTATCTACAAGTTCTATTACAACATCCCTTTTT
Found at i:423669 original size:29 final size:29
Alignment explanation
Indices: 423625--423688 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
423615 TGTCATGACA
*
423625 ATGTTTATGGGATTAAAAGAATTTCTTTT
1 ATGTTTATGGGATTAAAAGAATTTCTTAT
*
423654 ATGTTTATGGGTTTAAAAGAATTTCTTAT
1 ATGTTTATGGGATTAAAAGAATTTCTTAT
423683 ATGTTT
1 ATGTTT
423689 GTGAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (29 bp):
ATGTTTATGGGATTAAAAGAATTTCTTAT
Found at i:427001 original size:19 final size:19
Alignment explanation
Indices: 426957--427012 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
426947 TTGCTAGTTT
**
426957 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
426977 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
*
426996 CATGTATTGATACAATG
1 CATGTATCGATACAATG
427013 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:427354 original size:12 final size:11
Alignment explanation
Indices: 427332--427383 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 11
427322 ATCCTAACAT
*
427332 AAAAAATAAAA
1 AAAAAACAAAA
427343 AAAAAACCAAAAAA
1 AAAAAA-C--AAAA
427357 TAAAAAACAAAA
1 -AAAAAACAAAA
427369 AAAATAACAAAA
1 AAAA-AACAAAA
427381 AAA
1 AAA
427384 GTCAAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 10 0.29
12 14 0.40
14 5 0.14
15 6 0.17
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:427359 original size:26 final size:27
Alignment explanation
Indices: 427330--427438 Score: 89
Period size: 26 Copynumber: 4.0 Consensus size: 27
427320 AGATCCTAAC
* *
427330 ATAAAAAATAAAAAAAA-AACCAAAAA
1 ATAAAAAACAAAAAAAATAACAAAAAA
427356 ATAAAAAACAAAAAAAATAACAAAAAA
1 ATAAAAAACAAAAAAAATAACAAAAAA
* * ** *
427383 AGTCAAAATC-AATCAAA-AACAAATAA
1 A-TAAAAAACAAAAAAAATAACAAAAAA
* *
427409 AGACAAAAACACAAAAAATCAACAAAAAA
1 ATA-AAAAACAAAAAAAAT-AACAAAAAA
427438 A
1 A
427439 AGAGAAGAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
26 30 0.48
27 18 0.29
28 6 0.10
29 9 0.14
ACGTcount: A:0.78, C:0.12, G:0.02, T:0.08
Consensus pattern (27 bp):
ATAAAAAACAAAAAAAATAACAAAAAA
Found at i:427363 original size:16 final size:17
Alignment explanation
Indices: 427327--427381 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
427317 CCAAGATCCT
*
427327 AACATAAAAAATAAAAA
1 AACAAAAAAAATAAAAA
*
427344 AAAAACCAAAAAAT-AAAA
1 AACAA--AAAAAATAAAAA
427362 AACAAAAAAAATAACAAA
1 AACAAAAAAAATAA-AAA
427380 AA
1 AA
427382 AAGTCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 13 0.42
19 7 0.23
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (17 bp):
AACAAAAAAAATAAAAA
Found at i:427371 original size:15 final size:14
Alignment explanation
Indices: 427339--427372 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
427329 CATAAAAAAT
*
427339 AAAAAAAAAACCAA
1 AAAAAAAAAAACAA
*
427353 AAAATAAAAAACAA
1 AAAAAAAAAAACAA
427367 AAAAAA
1 AAAAAA
427373 TAACAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:427380 original size:19 final size:18
Alignment explanation
Indices: 427327--427382 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
427317 CCAAGATCCT
*
427327 AACATAAAAAATAAAAAA
1 AACAAAAAAAATAAAAAA
427345 AA-AACCAAAAAAT--AAAA
1 AACAA--AAAAAATAAAAAA
427362 AACAAAAAAAATAACAAAA
1 AACAAAAAAAATAA-AAAA
427381 AA
1 AA
427383 AGTCAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 4 0.13
19 13 0.42
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (18 bp):
AACAAAAAAAATAAAAAA
Found at i:428891 original size:89 final size:88
Alignment explanation
Indices: 428750--429248 Score: 306
Period size: 89 Copynumber: 5.6 Consensus size: 88
428740 AAAAAGACTA
* * * ** *
428750 CACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCAGTGGCTTTCTTTTTTAAGGCCCACAA-T
1 CACAAGTCAGTGACACCTTTTCAAAGCCCACAAGTCAGTGGCTATCCCTTTTAAAGCCCACAAGT
428814 ACAATGG-AGAATTTTTCAAAGCC
66 -CAATGGCAGAATTTTTCAAAGCC
* *
428837 CACAAGTCAGTGACATCCCTTTTCAAAGTCCATAAGTCAGTGGC-ATCACCTTTTAAAGCCCACA
1 CACAAGTCAGTGACA--CCTTTTCAAAGCCCACAAGTCAGTGGCTATC-CCTTTTAAAGCCCACA
***
428901 AGTCAATGGCATCCTTTTTCAAAGCC
63 AGTCAATGGCAGAATTTTTCAAAGCC
* * * * * * *
428927 CATAAGTTAGTGGCGA-TTTTCTCAAAGCCCACCAGTTAGTGGC-AT-CCTTTTCAAAGCTCACA
1 CACAAGTCAGTGAC-ACCTTT-TCAAAGCCCACAAGTCAGTGGCTATCCCTTTT-AAAGCCCACA
* *** *
428989 AGTCAGTGGCATCCTTTTTC-AAGTC
63 AGTCAATGGCAGAATTTTTCAAAGCC
* * * * * * *
429014 CACAAGTTAATGGCACCCTTTTTTC-AAGTCCACAAGTTAATGGC-A-CCCTTTTTCAAAGTCCA
1 CACAAGTCAGTGACA-CC--TTTTCAAAGCCCACAAGTCAGTGGCTATCCC-TTTT-AAAGCCCA
* ** *** *
429076 GAAGTCAAAAGCATCTTTTTTCAAAGTC
61 CAAGTCAATGGCAGAATTTTTCAAAGCC
* * * *
429104 CAAAAGTCAAT-AGCATCCTTTTTAAAGCCCACAAGTCAGTGGC-ATCCCTTTTCAAAGCCTACA
1 CACAAGTCAGTGA-CA-CCTTTTCAAAGCCCACAAGTCAGTGGCTATCCCTTTT-AAAGCCCACA
* ***
429167 AGTCAGTGGCATCCTTTTT-AAAGCC
63 AGTCAATGGCAGAATTTTTCAAAGCC
* * * *
429192 CACAAGTTAGTGGCATCCTTTTTAAAGCCCACAAGTCAGTGGC-ATCCTTTTTCAAAG
1 CACAAGTCAGTGACA-CCTTTTCAAAGCCCACAAGTCAGTGGCTATCCCTTTT-AAAG
429249 TCTTTTTTAA
Statistics
Matches: 337, Mismatches: 56, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
86 1 0.00
87 36 0.11
88 112 0.33
89 138 0.41
90 49 0.15
91 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (88 bp):
CACAAGTCAGTGACACCTTTTCAAAGCCCACAAGTCAGTGGCTATCCCTTTTAAAGCCCACAAGT
CAATGGCAGAATTTTTCAAAGCC
Found at i:428970 original size:59 final size:58
Alignment explanation
Indices: 428750--429393 Score: 473
Period size: 59 Copynumber: 10.7 Consensus size: 58
428740 AAAAAGACTA
* * * *
428750 CACAAGTCAGTGGCA-CTTTTTCAAAGCCCACAAGTCAGTGGCTTTCTTTTTTAAGGCC
1 CACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * * * *
428808 CACAA-TACAATGGAGAAT-TTTTCAAAGCCCACAAGTCAGTGACATCCCTTTTCAAAGTC
1 CACAAGT-CAGT-G-GCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* *
428867 CATAAGTCAGTGGCATCACCTTTT-AAAGCCCACAAGTCAATGGCATCCTTTTTCAAAGCC
1 CACAAGTCAGTGGCAT---CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * * * *
428927 CATAAGTTAGTGGCGAT-TTTCTCAAAGCCCACCAGTTAGTGGCATCC-TTTTCAAAGCT
1 CACAAGTCAGTGGC-ATCTTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * * * *
428985 CACAAGTCAGTGGCATCCTTTTTC-AAGTCCACAAGTTAATGGCACCCTTTTTTC-AAGTC
1 CACAAGTCAGTGGCAT-C-TTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTTTCAAAGCC
* * * * * *** * *
429044 CACAAGTTAATGGCACCCTTTTTCAAAGTCCAGAAGTCAAAAGCATCTTTTTTCAAAGTC
1 CACAAGTCAGTGGCA-TC-TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * * * *
429104 CAAAAGTCAATAGCATCCTTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCC
1 CACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * *
429163 TACAAGTCAGTGGCATCCTTTTTAAAGCCCACAAGTTAGTGGCATCCTTTTT-AAAGCC
1 CACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
429221 CACAAGTCAGTGGCATCCTTTTTCAAAGTCTTTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTT
1 CACAAGTCAGTGGCAT-C--TTT-----TC------AAAGCCCACAAGTCAGTGGCATCCTTTTT
*
429286 CAAAGTC
52 CAAAGCC
* * * *
429293 CACAAGTCAATGGCATCCTTTTTCAAAGTCCACAAGTTAGTGGCA-CCCTTTT-AAAGCC
1 CACAAGTCAGTGGCAT-C-TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
* * * * * *
429351 CATAAGTTAGTGGCACCTTTTTAAAGCCCTCAAGTTAGTGGCA
1 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA
429394 CCTCTTTAAG
Statistics
Matches: 478, Mismatches: 73, Indels: 72
0.77 0.12 0.12
Matches are distributed among these distances:
56 23 0.05
57 10 0.02
58 91 0.19
59 178 0.37
60 113 0.24
61 6 0.01
65 1 0.00
66 2 0.00
71 32 0.07
72 22 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (58 bp):
CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCC
Found at i:428999 original size:88 final size:87
Alignment explanation
Indices: 428825--429393 Score: 447
Period size: 88 Copynumber: 6.3 Consensus size: 87
428815 CAATGGAGAA
* * * * * *
428825 TTTTTCAAAGCCCACAAGTCAGTGACATCCCTTTTCAAAGTCCATAAGTCAGTGGCATCACCTTT
1 TTTTTCAAAGCCCACAAGTTAATGGCAT--CTTTTCAAAGCCCACAAGTTAGTGGCAT--CCTTT
* *
428890 T-AAAGCCCACAAGTCAATGGCATCC
62 TCAAAGCTCACAAGTCAGTGGCATCC
* * *
428915 TTTTTCAAAGCCCATAAGTTAGTGGCGAT-TTTCTCAAAGCCCACCAGTTAGTGGCATCCTTTTC
1 TTTTTCAAAGCCCACAAGTTAATGGC-ATCTTT-TCAAAGCCCACAAGTTAGTGGCATCCTTTTC
428979 AAAGCTCACAAGTCAGTGGCATCC
64 AAAGCTCACAAGTCAGTGGCATCC
* * * * *
429003 TTTTTC-AAGTCCACAAGTTAATGGCACCCTTTTTTC-AAGTCCACAAGTTAATGGCACCCTTTT
1 TTTTTCAAAGCCCACAAGTTAATGGCA---TCTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTT
* *** *
429066 TCAAAG-TCCAGAAGTCAAAAGCATCT
62 TCAAAGCT-CACAAGTCAGTGGCATCC
* * * * * *
429092 TTTTTCAAAGTCCAAAAGTCAATAGCATCCTTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTC
1 TTTTTCAAAGCCCACAAGTTAATGGCAT-CTTTTCAAAGCCCACAAGTTAGTGGCAT-CCTTTTC
429157 AAAGC-CTACAAGTCAGTGGCATCC
64 AAAGCTC-ACAAGTCAGTGGCATCC
* * *
429181 TTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTC
1 TTTTTCAAAGCCCACAAGTTAATGGCAT-CTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTTC
429245 AAAGTCTTTTTTAAAGCCCACAAGTCAGTGGCATCC
64 AAAG-C-----T------CACAAGTCAGTGGCATCC
* * * *
429281 TTTTTCAAAGTCCACAAGTCAATGGCATCCTTTTTCAAAGTCCACAAGTTAGTGGCACCCTTTT-
1 TTTTTCAAAGCCCACAAGTTAATGGCAT-C-TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTC
* * *
429345 AAAGCCCATAAGTTAGTGGCA-CC
64 AAAGCTCACAAGTCAGTGGCATCC
* *
429368 TTTTT-AAAGCCCTCAAGTTAGTGGCA
1 TTTTTCAAAGCCCACAAGTTAATGGCA
429394 CCTCTTTAAG
Statistics
Matches: 394, Mismatches: 54, Indels: 66
0.77 0.11 0.13
Matches are distributed among these distances:
86 18 0.05
87 32 0.08
88 124 0.31
89 95 0.24
90 45 0.11
91 2 0.01
99 1 0.00
100 26 0.07
101 26 0.07
102 25 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (87 bp):
TTTTTCAAAGCCCACAAGTTAATGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTCAA
AGCTCACAAGTCAGTGGCATCC
Found at i:429235 original size:29 final size:29
Alignment explanation
Indices: 428750--429248 Score: 443
Period size: 30 Copynumber: 16.9 Consensus size: 29
428740 AAAAAGACTA
428750 CACAAGTCAGTGGCA--CTTTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTTT-AAAGCC
* * *
428778 CACAAGTCAGTGGCTTTCTTTTTTAAGGCC
1 CACAAGTCAGTGGC-ATCCTTTTTAAAGCC
* ***
428808 CACAA-TACAATGG-AGAATTTTTCAAAGCC
1 CACAAGT-CAGTGGCATCCTTTTT-AAAGCC
* * *
428837 CACAAGTCAGTGACATCCCTTTTCAAAGTC
1 CACAAGTCAGTGGCAT-CCTTTTTAAAGCC
* *
428867 CATAAGTCAGTGGCATCACCTTTTAAAGCC
1 CACAAGTCAGTGGCATC-CTTTTTAAAGCC
*
428897 CACAAGTCAATGGCATCCTTTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTTT-AAAGCC
* * *
428927 CATAAGTTAGTGGCGAT--TTTCTCAAAGCC
1 CACAAGTCAGTGGC-ATCCTTT-TTAAAGCC
* * * *
428956 CACCAGTTAGTGGCATCCTTTTCAAAGCT
1 CACAAGTCAGTGGCATCCTTTTTAAAGCC
* *
428985 CACAAGTCAGTGGCATCCTTTTTCAAGTC
1 CACAAGTCAGTGGCATCCTTTTTAAAGCC
* * * * *
429014 CACAAGTTAATGGCACCCTTTTTTCAAGTC
1 CACAAGTCAGTGGCATCC-TTTTTAAAGCC
* * * *
429044 CACAAGTTAATGGCACCCTTTTTCAAAGTC
1 CACAAGTCAGTGGCATCCTTTTT-AAAGCC
* *** * *
429074 CAGAAGTCAAAAGCATCTTTTTTCAAAGTC
1 CACAAGTCAGTGGCATCCTTTTT-AAAGCC
* * *
429104 CAAAAGTCAATAGCATCCTTTTTAAAGCC
1 CACAAGTCAGTGGCATCCTTTTTAAAGCC
*
429133 CACAAGTCAGTGGCATCCCTTTTCAAAGCC
1 CACAAGTCAGTGGCAT-CCTTTTTAAAGCC
*
429163 TACAAGTCAGTGGCATCCTTTTTAAAGCC
1 CACAAGTCAGTGGCATCCTTTTTAAAGCC
*
429192 CACAAGTTAGTGGCATCCTTTTTAAAGCC
1 CACAAGTCAGTGGCATCCTTTTTAAAGCC
429221 CACAAGTCAGTGGCATCCTTTTTCAAAG
1 CACAAGTCAGTGGCATCCTTTTT-AAAG
429249 TCTTTTTTAA
Statistics
Matches: 393, Mismatches: 60, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
28 21 0.05
29 171 0.44
30 190 0.48
31 11 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (29 bp):
CACAAGTCAGTGGCATCCTTTTTAAAGCC
Found at i:429267 original size:42 final size:42
Alignment explanation
Indices: 429210--429292 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
429200 AGTGGCATCC
429210 TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTCT
1 TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTCT
429252 TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTC
1 TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTC
429293 CACAAGTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (42 bp):
TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTCT
Found at i:429358 original size:28 final size:28
Alignment explanation
Indices: 429252--429402 Score: 185
Period size: 28 Copynumber: 5.2 Consensus size: 28
429242 TTCAAAGTCT
*
429252 TTTTTAAAGCCCACAAGTCAGTGGCATCC
1 TTTTTAAAGCCCACAAGTTAGTGGCA-CC
* * *
429281 TTTTTCAAAGTCCACAAGTCAATGGCATCC
1 TTTTT-AAAGCCCACAAGTTAGTGGCA-CC
*
429311 TTTTTCAAAGTCCACAAGTTAGTGGCACC
1 TTTTT-AAAGCCCACAAGTTAGTGGCACC
* *
429340 CTTTTAAAGCCCATAAGTTAGTGGCACC
1 TTTTTAAAGCCCACAAGTTAGTGGCACC
*
429368 TTTTTAAAGCCCTCAAGTTAGTGGCACC
1 TTTTTAAAGCCCACAAGTTAGTGGCACC
*
429396 TCTTTAA
1 TTTTTAA
429403 GGTTCATACT
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
28 52 0.47
29 11 0.10
30 47 0.43
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (28 bp):
TTTTTAAAGCCCACAAGTTAGTGGCACC
Found at i:429363 original size:130 final size:128
Alignment explanation
Indices: 429122--429376 Score: 406
Period size: 130 Copynumber: 2.0 Consensus size: 128
429112 AATAGCATCC
*
429122 TTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCTACAAGTCAGTGGCATCCTTTTTA
1 TTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCTACAAGTCAATGGCATCCTTTTTA
*
429187 AAGCCCACAAGTTAGTGGCATCCTTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTCT
66 AAGCCCACAAGTTAGTGGCATCCCTTTTAAAGCCCACAAGTCAGTGGCA-CCTTTTT-AAAGTCT
*
429252 TTTTTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGTCC-ACAAGTCAATGGCATCCTTTTT
1 TTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAG-CCTACAAGTCAATGGCATCCTTTTT
* * *
429316 CAAAGTCCACAAGTTAGTGGCA-CCCTTTTAAAGCCCATAAGTTAGTGGCACCTTTTTAAAG
65 -AAAGCCCACAAGTTAGTGGCATCCCTTTTAAAGCCCACAAGTCAGTGGCACCTTTTTAAAG
429377 CCCTCAAGTT
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
128 4 0.03
129 7 0.06
130 84 0.72
131 22 0.19
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (128 bp):
TTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCTACAAGTCAATGGCATCCTTTTTA
AAGCCCACAAGTTAGTGGCATCCCTTTTAAAGCCCACAAGTCAGTGGCACCTTTTTAAAGTCT
Found at i:430223 original size:51 final size:51
Alignment explanation
Indices: 430166--430287 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 51
430156 TCTGGAAAGG
* * * * *
430166 AAATGTATATATACATTTTTTATTATATCGATACATTTTAGGTTTTGACCC
1 AAATGTATAGATACATTCTTTATTATATCAAGACAATTTAGGTTTTGACCC
* * * * *
430217 AAATGTATCGATACATTCTTTGTTGTATCAAGAGAATTTGGGTTTTGACCC
1 AAATGTATAGATACATTCTTTATTATATCAAGACAATTTAGGTTTTGACCC
* *
430268 AAATGTATCGAGACATTCTT
1 AAATGTATAGATACATTCTT
430288 CAATGTATTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (51 bp):
AAATGTATAGATACATTCTTTATTATATCAAGACAATTTAGGTTTTGACCC
Found at i:431321 original size:17 final size:17
Alignment explanation
Indices: 431299--431342 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
431289 TTGTTATTGT
431299 TCATATCATTTTCCATG
1 TCATATCATTTTCCATG
*
431316 TCATATCATTTTCCTTG
1 TCATATCATTTTCCATG
431333 TCATGATCAT
1 TCAT-ATCAT
431343 AATGGCATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (17 bp):
TCATATCATTTTCCATG
Found at i:435829 original size:18 final size:18
Alignment explanation
Indices: 435794--435828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
435784 AGTTATAAAT
435794 TATTTAAATAAATGAAAA
1 TATTTAAATAAATGAAAA
*
435812 TATTTAGATAAA-GAAAA
1 TATTTAAATAAATGAAAA
435829 AAGAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
TATTTAAATAAATGAAAA
Found at i:445818 original size:12 final size:13
Alignment explanation
Indices: 445793--445825 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
445783 ATGAAGAAGT
*
445793 AAAAAAAAACAAC
1 AAAAACAAACAAC
445806 AAAAACAAA-AAC
1 AAAAACAAACAAC
445818 AAAAACAA
1 AAAAACAA
445826 GGGCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAACAAC
Found at i:445834 original size:25 final size:24
Alignment explanation
Indices: 445805--445873 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
445795 AAAAAAACAA
445805 CAAAAACAAAAA-CAAAAACAAGGG
1 CAAAAACAAAAATCAAAAA-AAGGG
* * *
445829 CAAAAAAATAAAATGAAAAAAAGTG
1 CAAAAACA-AAAATCAAAAAAAGGG
445854 CAAAAAC-AAAAT-AAAAAAAG
1 CAAAAACAAAAATCAAAAAAAG
445874 AGGACAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 8 0.21
23 5 0.13
24 7 0.18
25 14 0.36
26 5 0.13
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.06
Consensus pattern (24 bp):
CAAAAACAAAAATCAAAAAAAGGG
Found at i:447092 original size:30 final size:31
Alignment explanation
Indices: 447049--447152 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 31
447039 TCTTTTTCCA
* *
447049 AAAGGCCAAGACTCCATGGCACCTTTCTTT-
1 AAAGTCCACGACTCCATGGCACCTTTCTTTC
* *
447079 AAAGTCCACGACT-CAGTGGCATCTTTTTTTC
1 AAAGTCCACGACTCCA-TGGCACCTTTCTTTC
* * *
447110 CAAGTCCACGACTCCGTGG--CGTTTCTTTTC
1 AAAGTCCACGACTCCATGGCACCTTTC-TTTC
*
447140 CAAGTCCACGACT
1 AAAGTCCACGACT
447153 TAGTGGCATC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 5 0.08
30 40 0.66
31 15 0.25
32 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCCATGGCACCTTTCTTTC
Found at i:447159 original size:30 final size:31
Alignment explanation
Indices: 447080--447209 Score: 140
Period size: 30 Copynumber: 4.2 Consensus size: 31
447070 CCTTTCTTTA
*
447080 AAGTCCACGACTCAGTGGCATCTTTTTTTCC
1 AAGTCCACGACTCAGTGGCATCTTCTTTTCC
* *
447111 AAGTCCACGACTCCGTGGCGT-TTCTTTTCC
1 AAGTCCACGACTCAGTGGCATCTTCTTTTCC
*
447141 AAGTCCACGACTTAGTGGCATCATT-TTTCTCC
1 AAGTCCACGACTCAGTGGCATC-TTCTTT-TCC
* * *
447173 TAAAGCCCACGACTCAGCGGCATC-TCTTCTCC
1 --AAGTCCACGACTCAGTGGCATCTTCTTTTCC
447205 AAGTC
1 AAGTC
447210 TACAACTCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
30 30 0.37
31 22 0.27
32 9 0.11
33 2 0.02
34 19 0.23
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.31
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTCTTTTCC
Found at i:447224 original size:64 final size:61
Alignment explanation
Indices: 447080--447224 Score: 148
Period size: 64 Copynumber: 2.3 Consensus size: 61
447070 CCTTTCTTTA
* * * * * * * * *
447080 AAGTCCACGACTCAGTGGCATCTTTTTTTCCAAGTCCACGACTCCGTGGCGTTTCTTTTCC
1 AAGTCCACAACTTAGTGGCATCTTTTTCTCCAAGCCCACGACTCAGCGGCATCTCTTCTCC
*
447141 AAGTCCACGACTTAGTGGCATCATTTTTCTCCTAAAGCCCACGACTCAGCGGCATCTCTTCTCC
1 AAGTCCACAACTTAGTGGCATC-TTTTTCTCC--AAGCCCACGACTCAGCGGCATCTCTTCTCC
*
447205 AAGTCTACAACTCTA-TGGCA
1 AAGTCCACAACT-TAGTGGCA
447225 CCCTTTTCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
61 21 0.30
62 8 0.11
64 39 0.56
65 2 0.03
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (61 bp):
AAGTCCACAACTTAGTGGCATCTTTTTCTCCAAGCCCACGACTCAGCGGCATCTCTTCTCC
Found at i:447258 original size:34 final size:31
Alignment explanation
Indices: 447205--447615 Score: 240
Period size: 34 Copynumber: 13.2 Consensus size: 31
447195 TCTCTTCTCC
* **
447205 AAGTCTACAACTCTATGGCACCCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CTTTT
*
447238 AAGGTCCATAACTCCGTGGCA-C--TT-TTTT
1 AA-GTCCACAACTCCGTGGCACCTTTTCTTTT
** *
447266 AAGTCCACAACTCTTTAGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCTTTT
* * * * * *
447298 AAGCCCATAACTCAGTGGCAGCTCTTC-TCT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTT
* *
447328 AAGTCCACAACTCCATGGTA-C-TTT-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTT
* **
447356 AAGTCCACAACTCCATGGCACCTTGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT---TTCTTTT
* *
447390 AAGTCAATAACTCCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT--CTTTT
* **
447424 AAG-CCTATAACTCCGTCCCA-C-TTTCTTTT
1 AAGTCC-ACAACTCCGTGGCACCTTTTCTTTT
* *
447453 AAGTCCACAACTCCGTAGCACCTTTTCCTCTT
1 AAGTCCACAACTCCGTGGCACCTTTT-CTTTT
* ** * * *
447485 AAGCCCACAACTGAGTGGCATCTCTTC-TCT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTT
*
447515 AAGTCCACAACTCTGTGGCA-C-TTT-TTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCTTTT
447543 AAGTCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC-TTTT
* ** * *
447575 AAATCCATGACTCCATGGCATCTTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-C-CTTTTC-TTTT
447609 AAGTCCA
1 AAGTCCA
447616 AGATACATTT
Statistics
Matches: 292, Mismatches: 58, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
27 14 0.05
28 53 0.18
29 23 0.08
30 44 0.15
31 13 0.04
32 66 0.23
33 4 0.01
34 71 0.24
35 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (31 bp):
AAGTCCACAACTCCGTGGCACCTTTTCTTTT
Found at i:447464 original size:187 final size:185
Alignment explanation
Indices: 447220--447566 Score: 527
Period size: 187 Copynumber: 1.9 Consensus size: 185
447210 TACAACTCTA
** **
447220 TGGCACCCTTTTCCTTTTAAGGTCCATAACTCCGTGGCACTTTTTTAAGTCCACAACTCTTTAGC
1 TGGCACCCTTTTCCTTTTAAGGTCCATAACTCCGTCCCACTTTTTTAAGTCCACAACTCCGTAGC
* * * *
447285 ACCTTTTTCTTTTAAGCCCATAACTCAGTGGCAGCTCTTCTCTAAGTCCACAACTCCATGGTACT
66 ACCTTTTCCTCTTAAGCCCACAACTCAGTGGCAGCTCTTCTCTAAGTCCACAACTCCATGGCACT
447350 TTTTTTAAGTCCACAACTCCATGGCACCTTGCACCCTTTTAAGTCAATAACTCCG
131 TTTTTTAAGTCCACAACTCCATGGCACCTTGCACCCTTTTAAGTCAATAACTCCG
447405 TGGCACCCTTTTCCCTTTTAA-G-CCTATAACTCCGTCCCACTTTCTTTTAAGTCCACAACTCCG
1 TGGCACCCTTTT-CCTTTTAAGGTCC-ATAACTCCGTCCCAC-TT-TTTTAAGTCCACAACTCCG
* * **
447468 TAGCACCTTTTCCTCTTAAGCCCACAACTGAGTGGCATCTCTTCTCTAAGTCCACAACTCTGTGG
62 TAGCACCTTTTCCTCTTAAGCCCACAACTCAGTGGCAGCTCTTCTCTAAGTCCACAACTCCATGG
*
447533 CACTTTTTTTAAGTCCACAACTCCGTGGCACCTT
127 CACTTTTTTTAAGTCCACAACTCCATGGCACCTT
447567 TTCTTTTTAA
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
184 2 0.01
185 26 0.18
186 10 0.07
187 107 0.74
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (185 bp):
TGGCACCCTTTTCCTTTTAAGGTCCATAACTCCGTCCCACTTTTTTAAGTCCACAACTCCGTAGC
ACCTTTTCCTCTTAAGCCCACAACTCAGTGGCAGCTCTTCTCTAAGTCCACAACTCCATGGCACT
TTTTTTAAGTCCACAACTCCATGGCACCTTGCACCCTTTTAAGTCAATAACTCCG
Found at i:447520 original size:62 final size:61
Alignment explanation
Indices: 447175--447563 Score: 246
Period size: 62 Copynumber: 6.3 Consensus size: 61
447165 TTTTCTCCTA
* * * * *
447175 AAGCCCACGACTCAGCGGCATCTCTTCTCCAAGTCTACAACTCTATGGCACCCTTTTCCTTTT
1 AAGCCCACAACTCAGTGGCA-CTCTTCTCTAAGTCCACAACTCCATGGCA-CCTTTTCCTTTT
* * * * ** * *
447238 AAGGTCCATAACTCCGTGGCACT-TT-TTTAAGTCCACAACTCTTTAGCACCTTTTTCTTTT
1 AA-GCCCACAACTCAGTGGCACTCTTCTCTAAGTCCACAACTCCATGGCACCTTTTCCTTTT
* *
447298 AAGCCCATAACTCAGTGGCAGCTCTTCTCTAAGTCCACAACTCCATGGTA-C-TTT--TTTT
1 AAGCCCACAACTCAGTGGCA-CTCTTCTCTAAGTCCACAACTCCATGGCACCTTTTCCTTTT
* * * * *
447356 AAGTCCACAACTCCA-TGGCAC-CTTGCACCCTTTTAAGTCAATAACTCCGTGGCACCCTTTTCC
1 AAGCCCACAACT-CAGTGGCACTCTT-----C-TCTAAGTCCACAACTCCATGGCA-CCTTTT-C
447419 CTTTT
57 CTTTT
* * * ** * * * *
447424 AAGCCTATAACTCCGTCCCACT-TTCTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTCTT
1 AAGCCCACAACTCAGTGGCACTCTTC-TCTAAGTCCACAACTCCATGGCACCTTTTCCTTTT
* **
447485 AAGCCCACAACTGAGTGGCATCTCTTCTCTAAGTCCACAACTCTGTGGCA-C-TTT--TTTT
1 AAGCCCACAACTCAGTGGCA-CTCTTCTCTAAGTCCACAACTCCATGGCACCTTTTCCTTTT
* *
447543 AAGTCCACAACTCCGTGGCAC
1 AAGCCCACAACTCAGTGGCAC
447564 CTTTTCTTTT
Statistics
Matches: 257, Mismatches: 48, Indels: 48
0.73 0.14 0.14
Matches are distributed among these distances:
56 3 0.01
57 2 0.01
58 39 0.15
59 18 0.07
60 21 0.08
61 42 0.16
62 66 0.26
63 29 0.11
64 14 0.05
65 3 0.01
67 1 0.00
68 19 0.07
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (61 bp):
AAGCCCACAACTCAGTGGCACTCTTCTCTAAGTCCACAACTCCATGGCACCTTTTCCTTTT
Found at i:447554 original size:28 final size:28
Alignment explanation
Indices: 447432--447568 Score: 121
Period size: 28 Copynumber: 4.6 Consensus size: 28
447422 TTAAGCCTAT
**
447432 AACTCCGTCCCACTTTCTTTTAAGTCCAC
1 AACTCCGTGGCACTTT-TTTTAAGTCCAC
* *
447461 AACTCCGTAGCACCTTTTCCTCTTAAGCCCAC
1 AACTCCGTGGCA-CTTTT--T-TTAAGTCCAC
** * *
447493 AACTGAGTGGCATCTCTTCTCTAAGTCCAC
1 AACTCCGTGGCA-CT-TTTTTTAAGTCCAC
*
447523 AACTCTGTGGCACTTTTTTTAAGTCCAC
1 AACTCCGTGGCACTTTTTTTAAGTCCAC
*
447551 AACTCCGTGGCACCTTTT
1 AACTCCGTGGCACTTTTT
447569 CTTTTTAAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
28 28 0.32
29 13 0.15
30 22 0.25
31 2 0.02
32 20 0.23
33 2 0.02
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (28 bp):
AACTCCGTGGCACTTTTTTTAAGTCCAC
Found at i:447588 original size:32 final size:34
Alignment explanation
Indices: 447538--447615 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 34
447528 TGTGGCACTT
*
447538 TTTTTAAGTCCACAACTCCGTGGCA-C-CTTTTC
1 TTTTTAAGTCCACAACTCCATGGCATCTCTTTTC
* ** *
447570 TTTTTAAATCCATGACTCCATGGCATCTTTTTTC
1 TTTTTAAGTCCACAACTCCATGGCATCTCTTTTC
447604 TTTTTAAGTCCA
1 TTTTTAAGTCCA
447616 AGATACATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 21 0.55
33 1 0.03
34 16 0.42
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.44
Consensus pattern (34 bp):
TTTTTAAGTCCACAACTCCATGGCATCTCTTTTC
Found at i:447597 original size:90 final size:90
Alignment explanation
Indices: 447241--447576 Score: 352
Period size: 90 Copynumber: 3.7 Consensus size: 90
447231 TCCTTTTAAG
* ** *
447241 GTCCATAACTCCGTGGCAC-TTTTTTAAGTCCACAACTCTTTAGCACCTTTTTCTTTTAAGCCCA
1 GTCCACAACTCCGTGGCACTTTTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTTTAAGCCCA
*
447305 TAACTCAGTGGCAGCTCTTCTCTAA
66 TAACTCAGTGGCATCTCTTCTCTAA
* * * * ** *
447330 GTCCACAACTCCATGGTACTTTTTTTAAGTCCACAACTCCATGGCACCTTGCACCCTTTTAAGTC
1 GTCCACAACTCCGTGGCACTTTTTTTAAGTCCACAACTCCGTAGCACCTT--TTCCTTTTAAGCC
* * * * *
447395 AATAACTCCGTGGCACCCTTTTCCCTTTTAA
64 CATAACTCAGTGGCA-TCTCTT--C-TCTAA
* ** *
447426 G-CCTATAACTCCGTCCCACTTTCTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTCTTAAGCC
1 GTCC-ACAACTCCGTGGCACTTT-TTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTTTAAGCC
* *
447490 CACAACTGAGTGGCATCTCTTCTCTAA
64 CATAACTCAGTGGCATCTCTTCTCTAA
* * *
447517 GTCCACAACTCTGTGGCACTTTTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAA
1 GTCCACAACTCCGTGGCACTTTTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTTTAA
447577 ATCCATGACT
Statistics
Matches: 197, Mismatches: 40, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
89 16 0.08
90 62 0.31
91 19 0.10
92 25 0.13
93 4 0.02
94 4 0.02
95 23 0.12
96 18 0.09
97 26 0.13
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (90 bp):
GTCCACAACTCCGTGGCACTTTTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTTTAAGCCCA
TAACTCAGTGGCATCTCTTCTCTAA
Found at i:454677 original size:20 final size:20
Alignment explanation
Indices: 454634--454707 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
454624 ATGGTGGTTT
***
454634 TGTATCGATACATTTCAGGCA
1 TGTATCGATACA-TTCACTTA
454655 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* * * *
454675 TGTATCAATATATTTACTATT
1 TGTATCGATACATTCACT-TA
454696 TGTATCGATACA
1 TGTATCGATACA
454708 AATTGTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 20 0.47
21 23 0.53
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:457539 original size:32 final size:33
Alignment explanation
Indices: 457480--457541 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
457470 TAGTATATAC
* *
457480 ATAAAAAATATGTTATATATATTTTAAAATTTA
1 ATAAAAAATATATTAAATATATTTTAAAATTTA
457513 ATAAAAAAT-TATTAAAT-TATTCTTAAAAT
1 ATAAAAAATATATTAAATATATT-TTAAAAT
457542 AAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 13 0.50
33 9 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (33 bp):
ATAAAAAATATATTAAATATATTTTAAAATTTA
Found at i:457553 original size:20 final size:20
Alignment explanation
Indices: 457526--457571 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
457516 AAAAATTATT
*
457526 AAAT-TATTCTTAAAATAA-A
1 AAATATATT-TTAAAAAAATA
457545 AAATATATTTTAAAAAAATA
1 AAATATATTTTAAAAAAATA
457565 AAATATA
1 AAATATA
457572 AAATAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATATTTTAAAAAAATA
Found at i:457647 original size:21 final size:20
Alignment explanation
Indices: 457608--457647 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
457598 TTATTTTTTT
*
457608 ATAAAATATAAATTAATTTA
1 ATAAAATATAAATTTATTTA
*
457628 ATAAAATTTAAAATTTATTT
1 ATAAAATAT-AAATTTATTT
457648 TTTAAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATAAATTTATTTA
Found at i:463585 original size:20 final size:20
Alignment explanation
Indices: 463560--463727 Score: 81
Period size: 20 Copynumber: 7.8 Consensus size: 20
463550 AAAAAGAGAT
*
463560 AGAATGTATTGATACATTGA
1 AGAATGTATCGATACATTGA
* * * *
463580 AGAATGCATCAATACAGTCA
1 AGAATGTATCGATACATTGA
*
463600 TA-TATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
463620 AAAATGTATCGATACATTTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
*
463650 TAGAATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
* *
463671 AGAATGTATCGATACAGTCA
1 AGAATGTATCGATACATTGA
*
463691 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
463711 A-AAAGATATCGATACAT
1 AGAATG-TATCGATACAT
463728 CTGGGTAAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
19 4 0.04
20 84 0.75
21 4 0.04
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 14 0.12
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:463666 original size:51 final size:50
Alignment explanation
Indices: 463603--463778 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
463593 ACAGTCATAT
*
463603 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATGTATCGATACA-TTGGGTAAAAAGATAGA
* * *
463654 ATGTATCAATACATTGAAGAATGTATCGATACA----GT-----CATA-C
1 ATGTATCAATACATTGAAAAATGTATCGATACATTGGGTAAAAAGATAGA
*
463694 ATGTATCGATACATTGAAAAA-GATATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCAATACATTGAAAAATG-TATCGATACAT-TGGGTAAAAAGATAGA
* *
463745 ACGTATCAATACATTGAAGAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACAT
463779 CCATACATGT
Statistics
Matches: 101, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
39 1 0.01
40 29 0.29
41 3 0.03
45 2 0.02
46 2 0.02
50 3 0.03
51 60 0.59
52 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (50 bp):
ATGTATCAATACATTGAAAAATGTATCGATACATTGGGTAAAAAGATAGA
Found at i:463686 original size:91 final size:91
Alignment explanation
Indices: 463511--463807 Score: 436
Period size: 91 Copynumber: 3.3 Consensus size: 91
463501 TTTTAACTAG
* * * * **
463511 ATGTATTGATACATCGAAAAATATATCGATACATCTGGGAAAAAGAGATAGAATGTATTGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAA-AGATAGAATGTATCAATACA
* * *
463576 TTGAAGAATGCATCAATACAGTCATAT
65 TTGAAGAATGTATCGATACAGTCATAC
*
463603 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGATAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
463668 TGAAGAATGTATCGATACAGTCATAC
66 TGAAGAATGTATCGATACAGTCATAC
*
463694 ATGTATCGATACATTGAAAAA-GATATCGATACATCTGGGTAAAAAGATAGAACGTATCAATACA
1 ATGTATCGATACATTGAAAAATG-TATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACA
463758 TTGAAGAATGTATCGATACA-TCCATAC
65 TTGAAGAATGTATCGATACAGT-CATAC
* *
463785 ATGTATTGATACATTGAAGAATG
1 ATGTATCGATACATTGAAAAATG
463808 ATCCTCTACC
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
90 2 0.01
91 146 0.78
92 40 0.21
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
TGAAGAATGTATCGATACAGTCATAC
Found at i:464707 original size:13 final size:13
Alignment explanation
Indices: 464689--464714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
464679 CAATTTTTTG
464689 TGTATCGATACAT
1 TGTATCGATACAT
464702 TGTATCGATACAT
1 TGTATCGATACAT
464715 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:464800 original size:20 final size:20
Alignment explanation
Indices: 464775--464847 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
464765 ATCTTTTTTT
464775 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
464795 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
464816 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
464836 ATGTATCGATAC
1 ATGTATCGATAC
464848 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:464826 original size:41 final size:42
Alignment explanation
Indices: 464753--464847 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
464743 CTGCCAAGAA
*
464753 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
464795 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
464836 ATGTATCGATAC
1 ATGTATCGATAC
464848 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:465485 original size:16 final size:16
Alignment explanation
Indices: 465454--465499 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
465444 CTCTCCTTTG
465454 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
465472 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
465488 TCTCCCCCTTAA
1 TCTCCCCCTTAA
465500 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:467323 original size:13 final size:13
Alignment explanation
Indices: 467305--467343 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
467295 ATAATCACCC
*
467305 TGTATCGATACAG
1 TGTATCGATACAA
467318 TGTATCGATACAA
1 TGTATCGATACAA
467331 TGTATCGATACAA
1 TGTATCGATACAA
467344 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:467354 original size:20 final size:20
Alignment explanation
Indices: 467329--467407 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
467319 GTATCGATAC
467329 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
467349 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
467374 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
467393 ACATGTATCGATACA
1 A-ATGTATCGATACA
467408 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:469462 original size:15 final size:15
Alignment explanation
Indices: 469426--469463 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
469416 TACATCAATT
* *
469426 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
469441 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
469456 TCATTTTG
1 TCATTTTG
469464 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:473541 original size:13 final size:13
Alignment explanation
Indices: 473523--473548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
473513 CAATTTTTTG
473523 TGTATCGATACAT
1 TGTATCGATACAT
473536 TGTATCGATACAT
1 TGTATCGATACAT
473549 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:473634 original size:20 final size:20
Alignment explanation
Indices: 473609--473681 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
473599 ATCTTTTTTT
473609 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
473629 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
473650 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
473670 ATGTATCGATAC
1 ATGTATCGATAC
473682 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:473660 original size:41 final size:42
Alignment explanation
Indices: 473587--473681 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
473577 CTGCCAAGAA
*
473587 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
473629 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
473670 ATGTATCGATAC
1 ATGTATCGATAC
473682 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:475315 original size:392 final size:394
Alignment explanation
Indices: 474788--475575 Score: 1267
Period size: 393 Copynumber: 2.0 Consensus size: 394
474778 ATGTTGTTTT
*
474788 ACATAAAATCACTAACATTCAAAAATTATATAAAAAAAAGTAAATCATTTAAATTTGATGCTTAC
1 ACATAAAATCACTAACATTCAAAAATTATAT-AAAAAAAGTAAATCATTTAAATTTGATGCTTAA
* * *
474853 CTTGATTTGTACAACTATCTTTAAGAGATGTCATTTAACATGTTGTAGATTCGAATCTGAACATG
65 CTTGATTTGTACAACCATCTTTAAGAGATGTCATTTAACATATTGTAGATTCGAATCTCAACATG
*
474918 ATGCGAAAACTCAAAG-AACAATGTCTTAAAACCCTCGAACAACAATTTGGATCAAAGGTTAGAA
130 ATGCGAAAACTCAAAGAAACAATGTCCTAAAACCCTCGAACAACAATTTGGATCAAAGGTTAGAA
* * * * *
474982 ACCTAGAAAAAAGAATAAGAAGCAAAATAGGATTCTTGACCTAGCAATTTAAATACAAAACACAA
195 ACCCACAAAAAACAAAAAAAAGCAAAATAGGATTCTTGACCTAGCAATTTAAATACAAAACACAA
*
475047 ACT-AGAAATTCTAAGGGAATTGAAAACTTAAACTGATGCTTTAGTATCAATTGCAAACTAAGAA
260 ACTAAG-AATGCTAAGGGAATTGAAAACTTAAACTGATGCTTTAGTATCAATTGCAAACTAAGAA
* * *
475111 TATCCTAAGTTGAACACCACAAGATTAAATTAAACTTGATAAGTTCTGATAGAGTCCAAAAAAGG
324 TATCCTAAGTTGAACACCACAAGATTAAACTAAACTTGATAAGTTATGATAGAGTCCAAAAAAGA
475176 ACTCAA
389 ACTCAA
475182 ACATAAAATCACTAACATTCAAAAATTATAT-AAAAAAGTAAATCATTTAAATTTGATGCTTAAC
1 ACATAAAATCACTAACATTCAAAAATTATATAAAAAAAGTAAATCATTTAAATTTGATGCTTAAC
* * *
475246 TTGGTTTGTACAACCATCTTTAAGAGGTGTTATTTAACATATTGTAGATTCGAATCTCAACATGA
66 TTGATTTGTACAACCATCTTTAAGAGATGTCATTTAACATATTGTAGATTCGAATCTCAACATGA
* *
475311 TGCGAAAACTCAAAGAAACGATGTCCTAAAACCTTCGAACAACAATTTGGATCAAAGGTTAGAAA
131 TGCGAAAACTCAAAGAAACAATGTCCTAAAACCCTCGAACAACAATTTGGATCAAAGGTTAGAAA
* ******
475376 CCCCCCCCCCCCAAAAAAAAGCAAAATAGGATTCTTGACCTAGCAATTTAAATACAAAACACAAA
196 CCCACAAAAAACAAAAAAAAGCAAAATAGGATTCTTGACCTAGCAATTTAAATACAAAACACAAA
*
475441 CTAAGAATGCTAAGGGAATTGATAACTTAAACTGATGCTTTAGTATCAATTGCAAACTAAGAATA
261 CTAAGAATGCTAAGGGAATTGAAAACTTAAACTGATGCTTTAGTATCAATTGCAAACTAAGAATA
* * *
475506 TCCTAAGTTGAACATCACAAGATTAAACTAAATTTGATAAGTTATGCTAGAGTCCAAAAAAGAAC
326 TCCTAAGTTGAACACCACAAGATTAAACTAAACTTGATAAGTTATGATAGAGTCCAAAAAAGAAC
475571 TCAA
391 TCAA
475575 A
1 A
475576 TGAGTTTGCC
Statistics
Matches: 362, Mismatches: 30, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
392 106 0.29
393 223 0.62
394 33 0.09
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (394 bp):
ACATAAAATCACTAACATTCAAAAATTATATAAAAAAAGTAAATCATTTAAATTTGATGCTTAAC
TTGATTTGTACAACCATCTTTAAGAGATGTCATTTAACATATTGTAGATTCGAATCTCAACATGA
TGCGAAAACTCAAAGAAACAATGTCCTAAAACCCTCGAACAACAATTTGGATCAAAGGTTAGAAA
CCCACAAAAAACAAAAAAAAGCAAAATAGGATTCTTGACCTAGCAATTTAAATACAAAACACAAA
CTAAGAATGCTAAGGGAATTGAAAACTTAAACTGATGCTTTAGTATCAATTGCAAACTAAGAATA
TCCTAAGTTGAACACCACAAGATTAAACTAAACTTGATAAGTTATGATAGAGTCCAAAAAAGAAC
TCAA
Found at i:479697 original size:13 final size:13
Alignment explanation
Indices: 479679--479703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
479669 AAAGAACTCA
479679 GTATCGATACTAT
1 GTATCGATACTAT
479692 GTATCGATACTA
1 GTATCGATACTA
479704 AGAGCGCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACTAT
Found at i:480158 original size:9 final size:9
Alignment explanation
Indices: 480120--480213 Score: 65
Period size: 8 Copynumber: 10.7 Consensus size: 9
480110 TATAGTAATA
480120 AAAAAAATC
1 AAAAAAATC
480129 --AAAAATC
1 AAAAAAATC
*
480136 -ATAAAATC
1 AAAAAAATC
480144 ATAAAAAAATC
1 --AAAAAAATC
*
480155 -AAAAAGT-
1 AAAAAAATC
* *
480162 TAAAATATC
1 AAAAAAATC
480171 AAAAAAATC
1 AAAAAAATC
*
480180 AACAAAAAAAC
1 -A-AAAAAATC
480191 AAAAAAATC
1 AAAAAAATC
480200 AAAAAAA-C
1 AAAAAAATC
480208 AAAAAA
1 AAAAAA
480214 TTGGAAAACC
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 7 0.10
8 24 0.35
9 21 0.31
10 2 0.03
11 14 0.21
ACGTcount: A:0.76, C:0.11, G:0.01, T:0.13
Consensus pattern (9 bp):
AAAAAAATC
Found at i:480158 original size:25 final size:25
Alignment explanation
Indices: 480120--480204 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
480110 TATAGTAATA
480120 AAAAAAATCAAAAATCATAAAATCAT-
1 AAAAAAATCAAAAA-CATAAAAT-ATC
**
480146 AAAAAAATCAAAAAGTTAAAATATC
1 AAAAAAATCAAAAACATAAAATATC
*
480171 AAAAAAATC---AACA-AAAA-AAC
1 AAAAAAATCAAAAACATAAAATATC
480191 AAAAAAATCAAAAA
1 AAAAAAATCAAAAA
480205 AACAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
20 11 0.22
21 4 0.08
22 2 0.04
23 2 0.04
24 2 0.04
25 15 0.30
26 14 0.28
ACGTcount: A:0.74, C:0.11, G:0.01, T:0.14
Consensus pattern (25 bp):
AAAAAAATCAAAAACATAAAATATC
Found at i:480193 original size:20 final size:19
Alignment explanation
Indices: 480170--480247 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 19
480160 GTTAAAATAT
480170 CAAAAAAATCAACAAAAAAA
1 CAAAAAAATCAA-AAAAAAA
480190 CAAAAAAATCAAAAAAACAA
1 CAAAAAAATCAAAAAAA-AA
* *
480210 AAAATTGGAAAACCAAAAAAGAAA
1 CAAA----AAAATCAAAAAA-AAA
480234 CAAAAAAATCAAAA
1 CAAAAAAATCAAAA
480248 TAATTGAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
19 5 0.10
20 26 0.54
24 16 0.33
25 1 0.02
ACGTcount: A:0.77, C:0.13, G:0.04, T:0.06
Consensus pattern (19 bp):
CAAAAAAATCAAAAAAAAA
Found at i:480238 original size:35 final size:34
Alignment explanation
Indices: 480187--480264 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
480177 ATCAACAAAA
*
480187 AAAC-AAAAA-AATCAAAAAAA-CAAAA-AATTGG
1 AAACAAAAAAGAAACAAAAAAATCAAAATAATT-G
480218 AAAACCAAAAAAGAAACAAAAAAATCAAAATAATTG
1 -AAA-CAAAAAAGAAACAAAAAAATCAAAATAATTG
480254 AAACAAAAAAG
1 AAACAAAAAAG
480265 TATTATTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
32 3 0.08
33 1 0.03
34 13 0.32
35 13 0.32
36 6 0.15
37 4 0.10
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.09
Consensus pattern (34 bp):
AAACAAAAAAGAAACAAAAAAATCAAAATAATTG
Found at i:480324 original size:19 final size:20
Alignment explanation
Indices: 480300--480337 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
480290 TAAAATAATA
480300 AAACAAAAAAACAA-AAAAG
1 AAACAAAAAAACAATAAAAG
*
480319 AAACAACAAAACAATAAAA
1 AAACAAAAAAACAATAAAA
480338 AAATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (20 bp):
AAACAAAAAAACAATAAAAG
Found at i:481674 original size:18 final size:18
Alignment explanation
Indices: 481650--481700 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
481640 AACAAAACAG
481650 CACCACCAACAGCACCAC
1 CACCACCAACAGCACCAC
* *
481668 GACCACCCGCAACAACACCAC
1 CACCA--C-CAACAGCACCAC
481689 CACCACCAACAG
1 CACCACCAACAG
481701 TAGCTGAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 1 0.04
21 15 0.58
ACGTcount: A:0.39, C:0.53, G:0.08, T:0.00
Consensus pattern (18 bp):
CACCACCAACAGCACCAC
Found at i:481680 original size:21 final size:21
Alignment explanation
Indices: 481656--481695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
481646 ACAGCACCAC
* *
481656 CAACAGCACCACGACCACCCG
1 CAACAACACCACCACCACCCG
481677 CAACAACACCACCACCACC
1 CAACAACACCACCACCACC
481696 AACAGTAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.55, G:0.07, T:0.00
Consensus pattern (21 bp):
CAACAACACCACCACCACCCG
Found at i:485906 original size:18 final size:18
Alignment explanation
Indices: 485883--485918 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
485873 ACACTTATTC
485883 ATGCATCCATCCATATAT
1 ATGCATCCATCCATATAT
**
485901 ATGCATGTATCCATATAT
1 ATGCATCCATCCATATAT
485919 GCATTACTTT
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:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (18 bp):
ATGCATCCATCCATATAT
Found at i:488093 original size:11 final size:10
Alignment explanation
Indices: 488068--488092 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
488058 AGGTGCTTAC
488068 AAAAACAAAA
1 AAAAACAAAA
488078 AAAAACAAAA
1 AAAAACAAAA
488088 AAAAA
1 AAAAA
488093 AGGAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Done.