Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 195 of 214
Found at i:57148841 original size:79 final size:78
Alignment explanation
Indices: 57148747--57149225 Score: 377
Period size: 79 Copynumber: 6.0 Consensus size: 78
57148737 GCTTATATAT
*
57148747 AAACTTGCATAACTTACGTAATAACATA-ACAACTTACATAATACATAGCATACATAACTTACAT
1 AAACTTACATAACTTAC-TAATAACATACACAACTTACATAATACATA-CATACATAACTTACAT
57148811 AACTTACATAATACA
64 AACTTACATAATACA
* *
57148826 AAACTTACATAACTTA--AATATCTTACACAACTTACATAACCTACATA-ATACATTTAACTTAC
1 AAACTTACATAACTTACTAATAACATACACAACTTACATAA--TACATACATACA--TAACTTAC
57148888 ATAACTTACATAATACA
62 ATAACTTACATAATACA
* *
57148905 AAACTTACATAACTTA--AATATCTTACACAACTTACATAACCTACATA-ATACATTTAACTTAC
1 AAACTTACATAACTTACTAATAACATACACAACTTACATAA--TACATACATACA--TAACTTAC
*
57148967 ATAACTTACATAGTACA
62 ATAACTTACATAATACA
* *
57148984 AAATTTACATAACTTA--AATATC-TCACACAACTTACATAACCTACATA-ATACATTTAACTTA
1 AAACTTACATAACTTACTAATAACAT-ACACAACTTACATAA--TACATACATACA--TAACTTA
57149045 CATAACTTACATAACTTACA
61 CATAACTTACATAA--TACA
* *
57149065 TAA--TACATAACTTACATAAT-ACATA-ATAACTTACAACTTAAATAACATACATTACTTTGAT
1 AAACTTACATAACTTAC-TAATAACATACACAACTTAC-A--T-AAT-ACATACA-TAC----AT
*
57149126 AACTTACCTAACTTACATAATACA
55 AACTTACATAACTTACATAATACA
* * * * *
57149150 CAACTTACATAGCTTACT--T-A-ATACATAACTTACGTAACT-TATACACGTACATAACTTACA
1 AAACTTACATAACTTACTAATAACATACACAACTTACATAA-TACATACA--TACATAACTTACA
* *
57149210 TAATTTACTTAATACA
63 TAACTTACATAATACA
57149226 TAAATATATA
Statistics
Matches: 354, Mismatches: 18, Indels: 59
0.82 0.04 0.14
Matches are distributed among these distances:
76 30 0.08
77 18 0.05
78 1 0.00
79 211 0.60
80 13 0.04
81 11 0.03
82 5 0.01
83 9 0.03
84 14 0.04
85 9 0.03
86 1 0.00
87 31 0.09
89 1 0.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (78 bp):
AAACTTACATAACTTACTAATAACATACACAACTTACATAATACATACATACATAACTTACATAA
CTTACATAATACA
Found at i:57148871 original size:52 final size:51
Alignment explanation
Indices: 57148748--57149190 Score: 299
Period size: 52 Copynumber: 8.3 Consensus size: 51
57148738 CTTATATATA
* * * *
57148748 AACTTGCATAACTTACGTAATAACATAACAACTTACATAA--TACATAGCATACAT
1 AACTTACATAACTTACATAAT-AC--AA-AACTTACATAACTTAAATA-CTTACAT
*
57148802 AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACAC
1 AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATA-CTTACAT
* * * * *
57148854 AACTTACATAACCTACATAATACATTTAACTTACATAACTTACATA-ATACAA
1 AACTTACATAACTTACATAATACA--AAACTTACATAACTTAAATACTTACAT
* * * * * *
57148906 AACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATA-ATACATTT
1 AACTTACATAACTTACATA--ATACAAAACTTACATAACTTAAATACTTACA--T
* * * *
57148960 AACTTACATAACTTACATAGTACAAAATTTACATAACTTAAATATCTCACAC
1 AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATA-CTTACAT
* * *
57149012 AACTTACATAACCTACATAATACATTTAACTTACATAACTTACATAACTTACAT
1 AACTTACATAACTTACATAATACA--AAACTTACATAACTTAAAT-ACTTACAT
*
57149066 AA--TACATAACTTACATAATACATAATAACTTACAACTTAA-ATAACATACATTACTTTGAT
1 AACTTACATAACTTACATAATAC--AA-AACTTAC-A--TAACTTAA-ATAC-TTAC----AT
* * * ** *
57149126 AACTTACCTAACTTACATAATACACAACTTACATAGCTTACTTA-ATACAT
1 AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATACTTACAT
*
57149176 AACTTACGTAACTTA
1 AACTTACATAACTTA
57149191 TACACGTACA
Statistics
Matches: 316, Mismatches: 45, Indels: 60
0.75 0.11 0.14
Matches are distributed among these distances:
50 27 0.09
51 2 0.01
52 137 0.43
53 9 0.03
54 90 0.28
55 5 0.02
56 13 0.04
57 2 0.01
58 1 0.00
59 7 0.02
60 5 0.02
62 18 0.06
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (51 bp):
AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATACTTACAT
Found at i:57148916 original size:158 final size:157
Alignment explanation
Indices: 57148747--57149165 Score: 519
Period size: 158 Copynumber: 2.6 Consensus size: 157
57148737 GCTTATATAT
*
57148747 AAACTTGCATAACTTACGTAATAACATAACAACTTACATAATACATAGCATACATAACTTACATA
1 AAACTTACATAACTTAC-TAATAACATAACAACTTACATAATACATA-CATACATAACTTACATA
*
57148812 ACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACCTACATAATAC
64 ACTTACATAATACAAAACTTACATAACTTAAATATCTCACACAACTTACATAACCTACATAATAC
57148877 ATTTAACTTACATAACTTACATAA-TACA
129 ATTTAACTTACATAACTTACATAACTACA
* *
57148905 AAACTTACATAACTTA--AATATCTTACACAACTTACATAACCTACATA-ATACATTTAACTTAC
1 AAACTTACATAACTTACTAATAACATA-ACAACTTACATAA--TACATACATACA--TAACTTAC
* *
57148967 ATAACTTACATAGTACAAAATTTACATAACTTAAATATCTCACACAACTTACATAACCTACATAA
61 ATAACTTACATAATACAAAACTTACATAACTTAAATATCTCACACAACTTACATAACCTACATAA
57149032 TACATTTAACTTACATAACTTACATAACTTACA
126 TACATTTAACTTACATAACTTACATAAC-TACA
* *
57149065 TAA--TACATAACTTACATAAT-ACATAATAACTTACAACTTAAATAACATACATTACTTTGATA
1 AAACTTACATAACTTAC-TAATAACATAACAACTTAC-A--T-AAT-ACATACA-TAC----ATA
* * *
57149127 ACTTACCTAACTTACATAATACACAACTTACATAGCTTA
55 ACTTACATAACTTACATAATACAAAACTTACATAACTTA
57149166 CTTAATACAT
Statistics
Matches: 225, Mismatches: 15, Indels: 34
0.82 0.05 0.12
Matches are distributed among these distances:
155 7 0.03
156 18 0.08
158 129 0.57
159 8 0.04
160 10 0.04
161 4 0.02
162 6 0.03
163 3 0.01
164 3 0.01
166 36 0.16
168 1 0.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (157 bp):
AAACTTACATAACTTACTAATAACATAACAACTTACATAATACATACATACATAACTTACATAAC
TTACATAATACAAAACTTACATAACTTAAATATCTCACACAACTTACATAACCTACATAATACAT
TTAACTTACATAACTTACATAACTACA
Found at i:57149138 original size:87 final size:87
Alignment explanation
Indices: 57148959--57149177 Score: 216
Period size: 87 Copynumber: 2.5 Consensus size: 87
57148949 ATAATACATT
* * * * * *
57148959 TAACTTACATAACTTACATAGTACAAAATTTACAT-A-ACTTAAATATCTCACACAACTTACATA
1 TAACTTACATAACTTACATAATACATAACTTACATAATACAT-AATAACT-ACACAACTTAAATA
*
57149022 ACCTACATAATACATTTAACTTACA
64 ACATACAT-ATACATTTAACTTACA
*
57149047 TAACTTACATAACTTACATAATACATAACTTACATAATACATAATAACT-TACAACTTAAATAAC
1 TAACTTACATAACTTACATAATACATAACTTACATAATACATAATAACTACACAACTTAAATAAC
* *
57149111 ATACAT-TACTTTGATAACTTACC
66 ATACATATACATT--TAACTTACA
* * *
57149134 TAACTTACATAA--TACACAACTTACATAGCTTACTTAATACATAA
1 TAACTTACATAACTTACATAA--TACATAACTTACATAATACATAA
57149178 CTTACGTAAC
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
85 11 0.10
87 59 0.53
88 32 0.29
89 7 0.06
90 3 0.03
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (87 bp):
TAACTTACATAACTTACATAATACATAACTTACATAATACATAATAACTACACAACTTAAATAAC
ATACATATACATTTAACTTACA
Found at i:57149171 original size:25 final size:25
Alignment explanation
Indices: 57149124--57149228 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
57149114 CATTACTTTG
* *
57149124 ATAACTTACCTAACTTACATAATAC
1 ATAACTTACATAACTTACTTAATAC
* *
57149149 ACAACTTACATAGCTTACTTAATAC
1 ATAACTTACATAACTTACTTAATAC
*
57149174 ATAACTTACGTAACTTA--TACACGTAC
1 ATAACTTACATAACTTACTTA-A--TAC
*
57149200 ATAACTTACATAATTTACTTAATAC
1 ATAACTTACATAACTTACTTAATAC
57149225 ATAA
1 ATAA
57149229 ATATATATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
23 2 0.03
24 1 0.02
25 42 0.64
26 18 0.27
27 1 0.02
28 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAACTTACATAACTTACTTAATAC
Found at i:57154748 original size:21 final size:21
Alignment explanation
Indices: 57154724--57154789 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
57154714 CTACAACTTA
*
57154724 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
57154745 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * *
57154766 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
57154787 AAG
1 AAG
57154790 TAGCGAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:57155269 original size:43 final size:42
Alignment explanation
Indices: 57155176--57155415 Score: 252
Period size: 42 Copynumber: 5.6 Consensus size: 42
57155166 AATCCCAAAA
* * * *
57155176 TTAGTGGCATTTTTTATAAAAGCGCCGCTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTTT-TGAAAGCGCCGCTAAAGAACATGATC-T
* * ** *
57155219 TTCGCGGCGTTCGTGATGAAAGCGCCGCTGAAGAACATGATCT
1 TTAGCGGCGTT-TTTTTGAAAGCGCCGCTAAAGAACATGATCT
*
57155262 TTAGCGGCGTTTTTCTT-TAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTT-TTGAAAGCGCCGCTAAAGAACATGATCT
* * *
57155304 TCAGTGGCGTTTTTTTGAAATCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
* * *
57155346 TTAGAGGCGTTTTTTTGTTAAGCGCCGCTAAAGAACATGATTT
1 TTAGCGGCGTTTTTTTG-AAAGCGCCGCTAAAGAACATGATCT
*
57155389 TTAGCGGCTTTTTTTTCG-AAGCGCCGC
1 TTAGCGGCGTTTTTTT-GAAAGCGCCGC
57155416 AAACACCTTT
Statistics
Matches: 165, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.01
42 83 0.50
43 77 0.47
44 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
Found at i:57155367 original size:85 final size:84
Alignment explanation
Indices: 57155195--57155415 Score: 284
Period size: 85 Copynumber: 2.6 Consensus size: 84
57155185 TTTTTTATAA
* * ** *
57155195 AAGCGCCGCTAAAGAACATTACTTTTC-GCGGCGTTCGTGATGAAAGCGCCGCTGAAGAACATGA
1 AAGCGCCGCTAAAGAACATGA-TTTTCAGCGGCGTT-TTTTTGAAAGCGCCGCTAAAGAACATGA
*
57155259 TCTTTAGCGGCGTTTTTCTTT
64 TCTTTAGAGGCGTTTTTCTTT
* * *
57155280 AAGCGCCGCTAAAGAACATGATCTTCAGTGGCGTTTTTTTGAAATCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATTTTCAGCGGCGTTTTTTTGAAAGCGCCGCTAAAGAACATGATC
*
57155345 TTTAGAGGCGTTTTTTTGTT
66 TTTAGAGGCGTTTTTCT-TT
* *
57155365 AAGCGCCGCTAAAGAACATGATTTTTAGCGGCTTTTTTTTCG-AAGCGCCGC
1 AAGCGCCGCTAAAGAACATGATTTTCAGCGGCGTTTTTTT-GAAAGCGCCGC
57155416 AAACACCTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 44 0.37
85 73 0.62
86 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATTTTCAGCGGCGTTTTTTTGAAAGCGCCGCTAAAGAACATGATC
TTTAGAGGCGTTTTTCTTT
Found at i:57155466 original size:22 final size:22
Alignment explanation
Indices: 57155435--57155478 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
57155425 TAGTGGCGCT
* *
57155435 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAACGCCGCTAAAAACCTA
57155457 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
57155479 TTCTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.27, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:57155817 original size:23 final size:21
Alignment explanation
Indices: 57155762--57155825 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
57155752 AAAATAAATT
*
57155762 TTATTTTAT-AACTTTTGAATA
1 TTATTTTATAAAATTTT-AATA
*
57155783 TTATTTAATAAAATTTTAATA
1 TTATTTTATAAAATTTTAATA
57155804 TCTACTTTTATAAATATTTTAA
1 T-TA-TTTTATAAA-ATTTTAA
57155826 AAAAATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 13 0.36
22 8 0.22
23 8 0.22
24 7 0.19
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATTTTATAAAATTTTAATA
Found at i:57172329 original size:18 final size:19
Alignment explanation
Indices: 57172297--57172335 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
57172287 TAGCAATTCC
*
57172297 ATGCATGAAATTTCAACAA
1 ATGCATGAAAGTTCAACAA
*
57172316 ATGC-TGAAAGTTCAGCAA
1 ATGCATGAAAGTTCAACAA
57172334 AT
1 AT
57172336 CAAAGTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
ATGCATGAAAGTTCAACAA
Found at i:57177598 original size:18 final size:18
Alignment explanation
Indices: 57177575--57177667 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
57177565 CCCAACTACT
*
57177575 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
57177593 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
57177611 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
57177629 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
57177647 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
57177665 GTA
1 GTA
57177668 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:57177627 original size:36 final size:36
Alignment explanation
Indices: 57177575--57177667 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
57177565 CCCAACTACT
*
57177575 GTATACGTGAACAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
57177611 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
57177647 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
57177668 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:57178873 original size:15 final size:16
Alignment explanation
Indices: 57178848--57178878 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
57178838 CAAATAAATT
57178848 TTAATAAATATTTTAA
1 TTAATAAATATTTTAA
57178864 TTAA-AAATATTTTAA
1 TTAATAAATATTTTAA
57178879 AAATATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAAATATTTTAA
Found at i:57179800 original size:21 final size:22
Alignment explanation
Indices: 57179776--57179818 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
57179766 GCAGTATTTC
57179776 TTTTTTAAA-ACGA-AAGTTTTT
1 TTTTTTAAATACGAGAA-TTTTT
57179797 TTTTTTAAATACGAGAATTTTT
1 TTTTTTAAATACGAGAATTTTT
57179819 GAAAACACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 9 0.45
23 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTTTAAATACGAGAATTTTT
Found at i:57179868 original size:17 final size:17
Alignment explanation
Indices: 57179797--57179869 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 17
57179787 GAAAGTTTTT
* *
57179797 TTTTTTAAATACGAGAA
1 TTTTTGAAACACGAGAA
57179814 TTTTTGAAAACACGAGAA
1 TTTTTG-AAACACGAGAA
*
57179832 TTTGT-AAACACGA-ATA
1 TTTTTGAAACACGAGA-A
*
57179848 TTTTAGAAACACGA-AA
1 TTTTTGAAACACGAGAA
57179864 TTTTTG
1 TTTTTG
57179870 GAAAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 1 0.02
16 18 0.38
17 14 0.30
18 14 0.30
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (17 bp):
TTTTTGAAACACGAGAA
Found at i:57179873 original size:17 final size:18
Alignment explanation
Indices: 57179807--57179873 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
57179797 TTTTTTAAAT
*
57179807 ACGAGAATTTTTGAAAAC
1 ACGAGAATTTTTGGAAAC
*
57179825 ACGAGAA--TTTGTAAAC
1 ACGAGAATTTTTGGAAAC
*
57179841 AC--GAATATTTTAGAAAC
1 ACGAGAAT-TTTTGGAAAC
57179858 ACGA-AATTTTTGGAAA
1 ACGAGAATTTTTGGAAA
57179874 AAAAAAACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.08
16 10 0.25
17 17 0.43
18 10 0.25
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (18 bp):
ACGAGAATTTTTGGAAAC
Found at i:57180021 original size:18 final size:17
Alignment explanation
Indices: 57179968--57180243 Score: 122
Period size: 17 Copynumber: 15.4 Consensus size: 17
57179958 TTTTCTTAAA
* *
57179968 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
57179984 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
57180001 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
57180019 AAATATTTTTTTTTAAAACACG
1 AAA-A----TTTTTAAAACACG
* *
57180041 AAATTTTTTTTTGAAAACAAG
1 AAA---ATTTTT-AAAACACG
* *
57180062 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
57180079 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
57180096 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
** * *
57180113 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
** * *
57180131 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
57180149 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
57180166 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
57180183 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
57180201 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
57180220 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
57180238 AAAATT
1 AAAATT
57180244 CGAAAATTTC
Statistics
Matches: 202, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
16 7 0.03
17 81 0.40
18 66 0.33
19 16 0.08
20 5 0.02
21 10 0.05
22 4 0.02
23 12 0.06
24 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:57180043 original size:22 final size:22
Alignment explanation
Indices: 57180005--57180070 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 22
57179995 AACACGAAAA
57180005 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
57180028 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
* *
57180049 TTTTGAAAACAAGAAA-ATTTT
1 TTTTTAAAACACGAAATATTTT
57180070 T
1 T
57180071 GAAACACTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 23 0.57
22 5 0.12
23 12 0.30
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:57180210 original size:19 final size:19
Alignment explanation
Indices: 57180188--57180243 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
57180178 ATACGAGAAA
57180188 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
57180206 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
57180224 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
57180243 T
1 T
57180244 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:57180287 original size:18 final size:17
Alignment explanation
Indices: 57180238--57180288 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
57180228 TGAAAACGCG
57180238 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
57180255 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
57180273 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
57180289 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:57180798 original size:7 final size:7
Alignment explanation
Indices: 57180781--57180837 Score: 96
Period size: 7 Copynumber: 7.9 Consensus size: 7
57180771 TGAACCCCCT
57180781 TTTTCTTC
1 TTTT-TTC
57180789 TTTTTTC
1 TTTTTTC
57180796 TTTTTTC
1 TTTTTTC
57180803 TTTTTTCC
1 TTTTTT-C
57180811 TTTTTTC
1 TTTTTTC
57180818 TTTTTTC
1 TTTTTTC
57180825 TTTTTTC
1 TTTTTTC
57180832 TTTTTT
1 TTTTTT
57180838 TTCTGCTGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 37 0.77
8 11 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:57180813 original size:22 final size:22
Alignment explanation
Indices: 57180779--57180838 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
57180769 ATTGAACCCC
*
57180779 CTTTTTCTTCTTTTTTCTTTTTT
1 CTTTTT-TCCTTTTTTCTTTTTT
57180802 CTTTTTTCCTTTTTTCTTTTTT
1 CTTTTTTCCTTTTTTCTTTTTT
*
57180824 CTTTTTTCTTTTTTT
1 CTTTTTTCCTTTTTT
57180839 TCTGCTGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 29 0.83
23 6 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
CTTTTTTCCTTTTTTCTTTTTT
Found at i:57180976 original size:13 final size:13
Alignment explanation
Indices: 57180958--57180994 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
57180948 CTTTCCCTTC
57180958 TTTTTTTTTGCTT
1 TTTTTTTTTGCTT
57180971 TTTTTTTTTGCTT
1 TTTTTTTTTGCTT
57180984 TGATTTTTTTT
1 T--TTTTTTTT
57180995 TTGGGCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
15 8 0.36
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTGCTT
Found at i:57180985 original size:18 final size:19
Alignment explanation
Indices: 57180963--57181023 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
57180953 CCTTCTTTTT
57180963 TTTTGCTTTTTTTTTTTGC
1 TTTTGCTTTTTTTTTTTGC
* *
57180982 -TTTGATTTTTTTTTTGGGC
1 TTTTGCTTTTTTTTTT-TGC
*
57181001 TTGTTTCTTTTTTTTTTTG-
1 TT-TTGCTTTTTTTTTTTGC
57181020 TTTT
1 TTTT
57181024 TTCTTGGGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 16 0.47
19 4 0.12
20 2 0.06
21 12 0.35
ACGTcount: A:0.02, C:0.07, G:0.13, T:0.79
Consensus pattern (19 bp):
TTTTGCTTTTTTTTTTTGC
Found at i:57181026 original size:19 final size:20
Alignment explanation
Indices: 57180961--57181028 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
57180951 TCCCTTCTTT
57180961 TTTTTTGCTTTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTTTGC
** **
57180982 TTTGAT-TTTTTTTTTGGGC
1 TTTTTTCTTTTTTTTTTTGC
*
57181001 TTGTTTCTTTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTTTGC
57181020 TTTTTTCTT
1 TTTTTTCTT
57181029 GGGCTGCTGG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 22 0.61
20 10 0.28
21 4 0.11
ACGTcount: A:0.01, C:0.07, G:0.12, T:0.79
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTTGC
Found at i:57195203 original size:18 final size:18
Alignment explanation
Indices: 57195182--57195620 Score: 106
Period size: 17 Copynumber: 24.6 Consensus size: 18
57195172 GAAAGTTTTT
* *
57195182 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
57195200 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
57195218 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
57195234 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
57195251 TTTTTGGAAAAAAAACGA-AA
1 TTTTT-G--AAAACACGAGAA
* * *
57195271 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGAGA---A
*
57195293 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
57195310 TTTTT-AAAACAAGACAT
1 TTTTTGAAAACACGAGAA
57195327 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
57195341 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
* *
57195358 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
57195374 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
57195391 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
57195410 TTTTTTTTTAAAACACGA-AA
1 ---TTTTTGAAAACACGAGAA
* *
57195430 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTTGAAAACACGAGAA
*
57195452 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
57195469 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
* *
57195486 TTTTTG-AAACATGAGGA
1 TTTTTGAAAACACGAGAA
* * *
57195503 TTATTGAAAGCACGAGGA
1 TTTTTGAAAACACGAGAA
* *
57195521 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
57195539 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
57195556 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
57195574 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
57195591 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
57195610 CTTTTGAAAAC
1 TTTTTGAAAAC
57195621 GCGAAAATTC
Statistics
Matches: 327, Mismatches: 50, Indels: 88
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 2 0.01
15 6 0.02
16 29 0.09
17 111 0.34
18 102 0.31
19 12 0.04
20 15 0.05
21 26 0.08
22 13 0.04
23 7 0.02
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:57195221 original size:16 final size:16
Alignment explanation
Indices: 57195188--57195253 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
57195178 TTTTTTTTTT
*
57195188 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
57195206 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
57195222 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
57195238 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
57195254 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:57195392 original size:17 final size:17
Alignment explanation
Indices: 57195354--57195629 Score: 122
Period size: 17 Copynumber: 15.4 Consensus size: 17
57195344 TTTCTTAAAA
* *
57195354 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
57195370 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
57195387 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
57195405 AAATATTTTTTTTTAAAACACG
1 AAA-A----TTTTTAAAACACG
* *
57195427 AAATTTTTTTTTGAAAACAAG
1 AAA---ATTTTT-AAAACACG
* *
57195448 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
57195465 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
57195482 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
** * *
57195499 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
** * *
57195517 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
57195535 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
57195552 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
57195569 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
57195587 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
57195606 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
57195624 AAAATT
1 AAAATT
57195630 CGAAAATTTC
Statistics
Matches: 202, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
16 7 0.03
17 81 0.40
18 66 0.33
19 16 0.08
20 5 0.02
21 10 0.05
22 4 0.02
23 12 0.06
24 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:57195429 original size:22 final size:22
Alignment explanation
Indices: 57195391--57195456 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 22
57195381 AACACGAAAA
57195391 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
57195414 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
* *
57195435 TTTTGAAAACAAGAAA-ATTTT
1 TTTTTAAAACACGAAATATTTT
57195456 T
1 T
57195457 GAAACACTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 23 0.57
22 5 0.12
23 12 0.30
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:57195596 original size:19 final size:19
Alignment explanation
Indices: 57195574--57195629 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
57195564 ATACGAGAAA
57195574 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
57195592 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
57195610 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
57195629 T
1 T
57195630 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:57195673 original size:18 final size:17
Alignment explanation
Indices: 57195624--57195674 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
57195614 TGAAAACGCG
57195624 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
57195641 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
57195659 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
57195675 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:57196188 original size:7 final size:7
Alignment explanation
Indices: 57196171--57196227 Score: 96
Period size: 7 Copynumber: 7.9 Consensus size: 7
57196161 TGAACCCCCT
57196171 TTTTCTTC
1 TTTT-TTC
57196179 TTTTTTC
1 TTTTTTC
57196186 TTTTTTC
1 TTTTTTC
57196193 TTTTTTCC
1 TTTTTT-C
57196201 TTTTTTC
1 TTTTTTC
57196208 TTTTTTC
1 TTTTTTC
57196215 TTTTTTC
1 TTTTTTC
57196222 TTTTTT
1 TTTTTT
57196228 TTTCTGCTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 37 0.77
8 11 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:57196203 original size:22 final size:22
Alignment explanation
Indices: 57196169--57196228 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
57196159 ATTGAACCCC
*
57196169 CTTTTTCTTCTTTTTTCTTTTTT
1 CTTTTT-TCCTTTTTTCTTTTTT
57196192 CTTTTTTCCTTTTTTCTTTTTT
1 CTTTTTTCCTTTTTTCTTTTTT
*
57196214 CTTTTTTCTTTTTTT
1 CTTTTTTCCTTTTTT
57196229 TTCTGCTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 29 0.83
23 6 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
CTTTTTTCCTTTTTTCTTTTTT
Found at i:57196513 original size:14 final size:13
Alignment explanation
Indices: 57196496--57196532 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
57196486 TTTTTCTTTC
57196496 TTTCTTCTTCCTCT
1 TTTCTTCTTCCT-T
57196510 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
57196523 CTTCTTCTTC
1 TTTCTTCTTC
57196533 AAAGTCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:57196517 original size:21 final size:22
Alignment explanation
Indices: 57196487--57196531 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
57196477 ATTTCTTTTT
*
57196487 TTTTCTTTCTTTCTTCTTCCTC
1 TTTTCTTTCTTCCTTCTTCCTC
*
57196509 TTTTC-TTCTTCCTTCTTCTTC
1 TTTTCTTTCTTCCTTCTTCCTC
57196530 TT
1 TT
57196532 CAAAGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTCTTTCTTCCTTCTTCCTC
Found at i:57196623 original size:10 final size:10
Alignment explanation
Indices: 57196588--57196637 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
57196578 ACGCCGGTAC
57196588 TCTT-TCTTT
1 TCTTCTCTTT
* *
57196597 TCTTCTCCTC
1 TCTTCTCTTT
57196607 T-TTCTCTTT
1 TCTTCTCTTT
57196616 TCTTCTCTTT
1 TCTTCTCTTT
*
57196626 TCTTCTTTTT
1 TCTTCTCTTT
57196636 TC
1 TC
57196638 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:57196635 original size:19 final size:19
Alignment explanation
Indices: 57196592--57196634 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
57196582 CGGTACTCTT
57196592 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
57196611 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
57196628 TTCTTTT
1 -TCTTTT
57196635 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:57196916 original size:29 final size:29
Alignment explanation
Indices: 57196883--57196999 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
57196873 TGTAATTTTT
*
57196883 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
57196912 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
57196942 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
57196971 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
57197000 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:57196938 original size:30 final size:30
Alignment explanation
Indices: 57196898--57196999 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
57196888 ATTTAGGATT
*
57196898 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
57196928 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
57196958 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
57196988 AAAATGCAATTT
1 AAAATGAAATTT
57197000 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:57197022 original size:16 final size:17
Alignment explanation
Indices: 57196997--57197032 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
57196987 CAAAATGCAA
57196997 TTTTTATTTTTT-AAAT
1 TTTTTATTTTTTGAAAT
*
57197013 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
57197030 TTT
1 TTT
57197033 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:57197023 original size:17 final size:17
Alignment explanation
Indices: 57196997--57197032 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57196987 CAAAATGCAA
*
57196997 TTTTTATTTTTTAAATT
1 TTTTTATTTTTGAAATT
*
57197014 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
57197031 TT
1 TT
57197033 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:57197596 original size:54 final size:54
Alignment explanation
Indices: 57197532--57198112 Score: 989
Period size: 54 Copynumber: 10.9 Consensus size: 54
57197522 ACATTTCTTT
57197532 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
57197586 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
57197640 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
57197694 TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTT--TTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
57197745 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
57197799 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
57197853 TGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
57197907 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
57197961 TATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
57198011 TATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTC
1 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTC
*
57198068 TG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
57198113 GGCTCACGTG
Statistics
Matches: 503, Mismatches: 14, Indels: 19
0.94 0.03 0.04
Matches are distributed among these distances:
50 12 0.02
51 82 0.16
52 5 0.01
53 5 0.01
54 353 0.70
55 37 0.07
56 5 0.01
57 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
Found at i:57197901 original size:213 final size:215
Alignment explanation
Indices: 57197534--57198112 Score: 1001
Period size: 213 Copynumber: 2.7 Consensus size: 215
57197524 ATTTCTTTTG
57197534 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
57197599 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
66 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
*
57197664 TGCGAAAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTG
131 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTG
57197729 AGTTGAGCC-TTT-TTTCTA
196 AGTTGAGCCTTTTATTTCTA
57197747 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
*
57197812 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTTATAT
66 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
* *
57197877 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
131 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTG
57197942 AGTTGAGCCTTTTAATTTCTA
196 AGTTGAGCCTTTT-ATTTCTA
* *
57197963 TTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCTATTTTTCAAAAA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC-AAAA
*
57198024 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTG-TTTTCAAAAATCAACTCA
65 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTGTTTTTCAAAAATCAACTCA
*
57198088 TATTGCGAGAAGTGAGTTGAGCCTT
128 TATTGCGAGAGGTGAGTTGAGCCTT
57198113 GGCTCACGTG
Statistics
Matches: 351, Mismatches: 9, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
212 11 0.03
213 240 0.68
214 46 0.13
215 7 0.02
216 47 0.13
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (215 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTG
AGTTGAGCCTTTTATTTCTA
Found at i:57198007 original size:267 final size:268
Alignment explanation
Indices: 57197532--57198112 Score: 1087
Period size: 267 Copynumber: 2.2 Consensus size: 268
57197522 ACATTTCTTT
57197532 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
57197597 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
66 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
57197662 ATTGCGAAAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGG
131 ATTGCGAAAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGG
57197727 TGAGTTGAGCCTTTTTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
196 TGAGTTGAGCC-TTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
*
57197791 TT-AATTTC
260 TTCAAATTC
57197799 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
*
57197864 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
66 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
*
57197929 ATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGG
131 ATTGCGAAAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGG
57197994 TGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
196 TGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
57198059 TGCAAATTC
261 T-CAAATTC
*
57198068 TG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
57198113 GGCTCACGTG
Statistics
Matches: 307, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
266 14 0.05
267 244 0.79
268 42 0.14
269 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (268 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAA
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
ATTGCGAAAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGG
TGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
TCAAATTC
Found at i:57198383 original size:18 final size:20
Alignment explanation
Indices: 57198354--57198390 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57198344 TTTAATTTTC
57198354 AAAATTTCAAAAA-AAAAAA
1 AAAATTTCAAAAATAAAAAA
57198373 AAAATTT-AAAAATAAAAA
1 AAAATTTCAAAAATAAAAA
57198391 TTGCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATTTCAAAAATAAAAAA
Found at i:57198428 original size:30 final size:29
Alignment explanation
Indices: 57198388--57198503 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
57198378 TTAAAAATAA
* *
57198388 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
57198418 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
57198448 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
57198478 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
57198504 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:57198768 original size:10 final size:10
Alignment explanation
Indices: 57198749--57198798 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
57198739 TTTTTCGAAG
*
57198749 GAAAAAAGAA
1 GAAAAGAGAA
57198759 GAAAAGAGAA
1 GAAAAGAGAA
57198769 GAAAAGAGAA
1 GAAAAGAGAA
* *
57198779 -AGAGGAGAA
1 GAAAAGAGAA
57198788 GAAAAGA-AA
1 GAAAAGAGAA
57198797 GA
1 GA
57198799 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:57198799 original size:17 final size:19
Alignment explanation
Indices: 57198752--57198794 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
57198742 TTCGAAGGAA
57198752 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
57198770 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
57198789 AAAAGA
1 AAAAGA
57198795 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:57198860 original size:3 final size:3
Alignment explanation
Indices: 57198854--57198899 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
57198844 GCTAGACTTT
57198854 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA -AA GGAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA -GAA GAA GAA
57198900 AGAAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 27 0.69
4 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57198872 original size:10 final size:10
Alignment explanation
Indices: 57198857--57198885 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
57198847 AGACTTTGAA
57198857 GAAGAAGAAG
1 GAAGAAGAAG
57198867 GAAGAAGAAG
1 GAAGAAGAAG
57198877 GAAGAAGAA
1 GAAGAAGAA
57198886 AAAAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:57199038 original size:17 final size:17
Alignment explanation
Indices: 57199018--57199050 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57199008 GAAACAAGCC
*
57199018 CAAAAAAAAAATCAAAG
1 CAAAAAAAAAAGCAAAG
57199035 CAAAAAAAAAAGCAAA
1 CAAAAAAAAAAGCAAA
57199051 AAAAAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAAAGCAAAG
Found at i:57199057 original size:11 final size:12
Alignment explanation
Indices: 57199031--57199056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57199021 AAAAAAAATC
57199031 AAAGCAAAAAAA
1 AAAGCAAAAAAA
57199043 AAAGCAAAAAAA
1 AAAGCAAAAAAA
57199055 AA
1 AA
57199057 GAAGGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAAAAAA
Found at i:57199207 original size:7 final size:7
Alignment explanation
Indices: 57199191--57199251 Score: 97
Period size: 7 Copynumber: 8.6 Consensus size: 7
57199181 AGCCCAGCAG
57199191 AAAA-AA
1 AAAAGAA
57199197 AAAAGAA
1 AAAAGAA
57199204 AAAAGAA
1 AAAAGAA
57199211 AAAAGAA
1 AAAAGAA
57199218 AAAAGGAA
1 AAAA-GAA
57199226 AAAAGAA
1 AAAAGAA
57199233 AAAAGAA
1 AAAAGAA
57199240 AAAAGAA
1 AAAAGAA
57199247 GAAAA
1 -AAAA
57199252 AGGGGGTTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 4 0.08
7 37 0.71
8 11 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:57199226 original size:22 final size:21
Alignment explanation
Indices: 57199191--57199251 Score: 97
Period size: 22 Copynumber: 2.9 Consensus size: 21
57199181 AGCCCAGCAG
57199191 AAAA-AAAAAAGAAAAAAGAA
1 AAAAGAAAAAAGAAAAAAGAA
57199211 AAAAGAAAAAAGGAAAAAAGAA
1 AAAAGAAAAAA-GAAAAAAGAA
57199233 AAAAGAAAAAAGAAGAAAA
1 AAAAGAAAAAAGAA-AAAA
57199252 AGGGGGTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 25 0.66
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAAAAGAA
Found at i:57199866 original size:37 final size:37
Alignment explanation
Indices: 57199793--57199866 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
57199783 GAAATTTTCG
* * * *
57199793 AATTTTCGCGTTTTCAAAAGTTTTCGTGTTTGAAAAA
1 AATTTTCGCGTTTTAAAAAATTTTCGTATTTCAAAAA
57199830 AATTTTCGCG-TTTAAAAAATTTCTCGTATTTCAAAAA
1 AATTTTCGCGTTTTAAAAAATTT-TCGTATTTCAAAAA
57199867 TTGTCGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 10 0.31
37 22 0.69
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (37 bp):
AATTTTCGCGTTTTAAAAAATTTTCGTATTTCAAAAA
Found at i:57199946 original size:17 final size:17
Alignment explanation
Indices: 57199804--57199988 Score: 104
Period size: 18 Copynumber: 10.5 Consensus size: 17
57199794 ATTTTCGCGT
* *
57199804 TTTCAAAAGTTTTCGTG
1 TTTCAAAAATCTTCGTG
* * *
57199821 TTTGAAAAAAATTTTCGCG
1 TTT--CAAAAATCTTCGTG
* * *
57199840 TTTAAAAAATTTCTCGTA
1 TTTCAAAAATCT-TCGTG
*
57199858 TTTCAAAAAT-TGTCGTT
1 TTTCAAAAATCT-TCGTG
* *
57199875 TTTTATAAATCTTCGTG
1 TTTCAAAAATCTTCGTG
* *
57199892 CTTTCAATAATCCTCGTG
1 -TTTCAAAAATCTTCGTG
* * *
57199910 CTTTCAATAATCCTCATG
1 -TTTCAAAAATCTTCGTG
57199928 TTTCAAAAATCTTCGTG
1 TTTCAAAAATCTTCGTG
* *
57199945 TTTTCAAAATTC-TAGTG
1 -TTTCAAAAATCTTCGTG
* *
57199962 TTTCAAAAATTTTCTTG
1 TTTCAAAAATCTTCGTG
57199979 TTTTCAAAAA
1 -TTTCAAAAA
57199989 AAAATTTCGT
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
16 9 0.07
17 50 0.37
18 62 0.46
19 14 0.10
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATCTTCGTG
Found at i:57199969 original size:34 final size:34
Alignment explanation
Indices: 57199858--57199987 Score: 113
Period size: 35 Copynumber: 3.8 Consensus size: 34
57199848 ATTTCTCGTA
* * *
57199858 TTTCAAAAAT-TGTCGT-TTTTTATAAATCTTCGTG
1 TTTCAAAAATCT-TCGTGTTTTCA-AAATCCTCATG
* * *
57199892 CTTTCAATAATCCTCGTGCTTTCAATAATCCTCATG
1 -TTTCAAAAATCTTCGTGTTTTCAA-AATCCTCATG
*
57199928 TTTCAAAAATCTTCGTGTTTTCAAAATTCT-AGTG
1 TTTCAAAAATCTTCGTGTTTTCAAAATCCTCA-TG
* *
57199962 TTTCAAAAATTTTCTTGTTTTCAAAA
1 TTTCAAAAATCTTCGTGTTTTCAAAA
57199988 AAAAATTTCG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
33 1 0.01
34 31 0.39
35 35 0.44
36 12 0.15
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (34 bp):
TTTCAAAAATCTTCGTGTTTTCAAAATCCTCATG
Found at i:57199994 original size:22 final size:21
Alignment explanation
Indices: 57199966--57200049 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 21
57199956 CTAGTGTTTC
*
57199966 AAAAATTTTCTTGTTTTCAAAA
1 AAAAATTTTCGTGTTTT-AAAA
57199988 AAAAA-TTTCGTGTTTTAAAAA
1 AAAAATTTTCGTGTTTT-AAAA
57200009 AAAAATATTTCCGTGTTTT----
1 AAAAAT-TTT-CGTGTTTTAAAA
57200028 AAAAATTTTCGTGTTTTAAAA
1 AAAAATTTTCGTGTTTTAAAA
57200049 A
1 A
57200050 TTCTCGTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
17 8 0.15
18 3 0.06
19 6 0.11
21 20 0.38
22 5 0.09
23 3 0.06
24 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (21 bp):
AAAAATTTTCGTGTTTTAAAA
Found at i:57200009 original size:17 final size:17
Alignment explanation
Indices: 57199814--57200242 Score: 66
Period size: 18 Copynumber: 24.0 Consensus size: 17
57199804 TTTCAAAAGT
*
57199814 TTTCGTGTTTGAAAAAAA
1 TTTCGTGTTT-TAAAAAA
*
57199832 TTTTCGCG-TTTAAAAAA
1 -TTTCGTGTTTTAAAAAA
*
57199849 TTTC-TCGTATTTCAAAAA
1 TTTCGT-GT-TTTAAAAAA
* *
57199867 TTGTCGT-TTTTTATAAA
1 TT-TCGTGTTTTAAAAAA
* * *
57199884 TCTTCGTGCTTTCAATAA
1 T-TTCGTGTTTTAAAAAA
* * * *
57199902 TCCTCGTGCTTTCAATAA
1 T-TTCGTGTTTTAAAAAA
* * *
57199920 TCCTCATG-TTTCAAAAA
1 T-TTCGTGTTTTAAAAAA
*
57199937 TCTTCGTGTTTT-CAAAA
1 T-TTCGTGTTTTAAAAAA
* * *
57199954 TTCTAGTGTTTCAAAAAT
1 TT-TCGTGTTTTAAAAAA
*
57199972 TTTCTTGTTTTCAAAAAAAAA
1 TTTCGTGTTTT----AAAAAA
57199993 TTTCGTGTTTTAAAAAAAAAATA
1 TTTCGTGTTTT-----AAAAA-A
*
57200016 TTTCCGTGTTTTAAAAAT
1 TTT-CGTGTTTTAAAAAA
57200034 TTTCGTGTTTT-AAAAA
1 TTTCGTGTTTTAAAAAA
*
57200050 TTCTCGT-ATTT--AAAA
1 TT-TCGTGTTTTAAAAAA
*
57200065 TTT--TTTTTTAAGAAAAAA
1 TTTCGTGTTTT---AAAAAA
*
57200083 TTT--TGTTTCAAAAAAA
1 TTTCGTGTTT-TAAAAAA
* *
57200099 TGTCTTGTTTT-AAAAA
1 TTTCGTGTTTTAAAAAA
* *
57200115 TTCCCGTGTTTCAAAAAAAAA
1 TT-TCGTGTTT---TAAAAAA
*
57200136 TGTCGTGTTTTAAGAAAA
1 TTTCGTGTTTTAA-AAAA
* *
57200154 TTTCGTTTTTTTTTCCAAAAAT
1 TTTCG---TGTTTT--AAAAAA
*
57200176 TTTCGTGTTTCTAAAATA
1 TTTCGTGTTT-TAAAAAA
*
57200194 -TTCGTG-TTT-ACAAA
1 TTTCGTGTTTTAAAAAA
*
57200208 TTCTCGTGTTTTCAAAAA
1 TT-TCGTGTTTTAAAAAA
*
57200226 TTCTCGT-ATTTAAAAAA
1 TT-TCGTGTTTTAAAAAA
57200243 AAAACTTTCG
Statistics
Matches: 315, Mismatches: 52, Indels: 88
0.69 0.11 0.19
Matches are distributed among these distances:
12 1 0.00
13 3 0.01
14 4 0.01
15 8 0.03
16 36 0.11
17 87 0.28
18 94 0.30
19 17 0.05
20 9 0.03
21 26 0.08
22 16 0.05
23 6 0.02
24 8 0.03
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (17 bp):
TTTCGTGTTTTAAAAAA
Found at i:57200010 original size:23 final size:24
Alignment explanation
Indices: 57199984--57200032 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
57199974 TCTTGTTTTC
57199984 AAAAAAAAATTT-CGTGTTTTAAA
1 AAAAAAAAATTTCCGTGTTTTAAA
*
57200007 AAAAAAATATTTCCGTGTTTTAAA
1 AAAAAAAAATTTCCGTGTTTTAAA
57200031 AA
1 AA
57200033 TTTTCGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAAAAAAATTTCCGTGTTTTAAA
Found at i:57200061 original size:16 final size:17
Alignment explanation
Indices: 57200020--57200064 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
57200010 AAAATATTTC
* *
57200020 CGTGTTTTAAAAATTTT
1 CGTGATTTAAAAATTCT
*
57200037 CGTGTTTTAAAAATTCT
1 CGTGATTTAAAAATTCT
57200054 CGT-ATTTAAAA
1 CGTGATTTAAAA
57200065 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (17 bp):
CGTGATTTAAAAATTCT
Found at i:57200191 original size:18 final size:17
Alignment explanation
Indices: 57200170--57200241 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 17
57200160 TTTTTTTTCC
*
57200170 AAAAATTTTCGTGTTTCT
1 AAAAATTCTCGTGTTT-T
57200188 -AAAATAT-TCGTG-TTT
1 AAAAAT-TCTCGTGTTTT
*
57200203 ACAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
*
57200220 CAAAAATTCTCGT-ATTT
1 -AAAAATTCTCGTGTTTT
57200237 AAAAA
1 AAAAA
57200242 AAAAACTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.04
16 16 0.35
17 16 0.35
18 12 0.26
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTT
Found at i:57200214 original size:16 final size:16
Alignment explanation
Indices: 57200170--57200241 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 16
57200160 TTTTTTTTCC
*
57200170 AAAAATTTTCGTGTTT
1 AAAAATTCTCGTGTTT
*
57200186 CTAAAATAT-TCGTGTTT
1 -AAAAAT-TCTCGTGTTT
*
57200203 ACAAATTCTCGTGTTTT
1 AAAAATTCTCGTG-TTT
*
57200220 CAAAAATTCTCGTATTT
1 -AAAAATTCTCGTGTTT
57200237 AAAAA
1 AAAAA
57200242 AAAAACTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 14 0.30
17 19 0.41
18 12 0.26
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (16 bp):
AAAAATTCTCGTGTTT
Found at i:57200253 original size:21 final size:20
Alignment explanation
Indices: 57200221--57200267 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
57200211 TCGTGTTTTC
57200221 AAAAATTCTCGTATTTAAAAA
1 AAAAATTCTCGT-TTTAAAAA
57200242 AAAAACTT-TCGTTTTAAAAA
1 AAAAA-TTCTCGTTTTAAAAA
*
57200262 AGAAAT
1 AAAAAT
57200268 ACTGCGCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 9 0.38
22 2 0.08
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (20 bp):
AAAAATTCTCGTTTTAAAAA
Found at i:57200724 original size:23 final size:24
Alignment explanation
Indices: 57200684--57200738 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
57200674 AATATAATAT
*
57200684 AGAAA-AAATAATTAAAACAAAAC
1 AGAAATAAATAAATAAAACAAAAC
*
57200707 AGAAATAAATAAAT-AAACACAAC
1 AGAAATAAATAAATAAAACAAAAC
*
57200730 ACAAATAAA
1 AGAAATAAA
57200739 AATAACTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (24 bp):
AGAAATAAATAAATAAAACAAAAC
Found at i:57200741 original size:25 final size:24
Alignment explanation
Indices: 57200686--57200748 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
57200676 TATAATATAG
*
57200686 AAAAAATAATTAAAACAAAACAGA
1 AAAAAATAAATAAAACAAAACAGA
* *
57200710 AATAAATAAATAAACACAACACA-A
1 AAAAAATAAATAAA-ACAAAACAGA
*
57200734 ATAAAAATAACTAAA
1 A-AAAAATAAATAAA
57200749 TTTGGAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.14
Consensus pattern (24 bp):
AAAAAATAAATAAAACAAAACAGA
Found at i:57201876 original size:42 final size:44
Alignment explanation
Indices: 57201813--57201931 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
57201803 TTACAGAAAT
* *
57201813 AAATGTCGCTAAAGGTCATGTTCTTTAGCGA-CG-CTTCCTCGA-
1 AAATGCCGCTAAAGGTAATGTTCTTTAGCGAGCGTCTTCCTC-AC
* * *
57201855 AAATGCCGCTAAAGGTAATGTTCTTTAG-TAGCGTTTTCTTCAC
1 AAATGCCGCTAAAGGTAATGTTCTTTAGCGAGCGTCTTCCTCAC
* *
57201898 AAACGCCGCTAAAAGTAATGTTCTTTAGCG-GCGT
1 AAATGCCGCTAAAGGTAATGTTCTTTAGCGAGCGT
57201932 TCTTTTCCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 35 0.54
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
AAATGCCGCTAAAGGTAATGTTCTTTAGCGAGCGTCTTCCTCAC
Found at i:57201916 original size:43 final size:44
Alignment explanation
Indices: 57201859--57201952 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
57201849 CCTCGAAAAT
* *
57201859 GCCGCTAAAGGTAATGTTCTTTAGTAGCGTT-TTCTT-CACAAAC
1 GCCGCTAAAAGTAATGTTCTTTAGCAGCGTTCTT-TTCCACAAAC
* *
57201902 GCCGCTAAAAGTAATGTTCTTTAGCGGCGTTCTTTTCCACCAAC
1 GCCGCTAAAAGTAATGTTCTTTAGCAGCGTTCTTTTCCACAAAC
57201946 GCCGCTA
1 GCCGCTA
57201953 TAGAACATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 30 0.67
44 15 0.33
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (44 bp):
GCCGCTAAAAGTAATGTTCTTTAGCAGCGTTCTTTTCCACAAAC
Found at i:57202693 original size:26 final size:26
Alignment explanation
Indices: 57202655--57202713 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
57202645 ATTACAATTT
*
57202655 AATTATTTTATAAGCTATAGAGTAAG
1 AATTATTTGATAAGCTATAGAGTAAG
57202681 AATTATTTGATAAGCTATAGAGTAAG
1 AATTATTTGATAAGCTATAGAGTAAG
57202707 AATTATT
1 AATTATT
57202714 ATGCAACGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (26 bp):
AATTATTTGATAAGCTATAGAGTAAG
Found at i:57203018 original size:18 final size:18
Alignment explanation
Indices: 57202995--57203037 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57202985 ACCCAATCTA
**
57202995 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
57203013 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
57203031 AACCCAA
1 AACCCAA
57203038 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:57204429 original size:16 final size:16
Alignment explanation
Indices: 57204392--57204431 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57204382 ATTTACCCTA
*
57204392 GCGACGGCAGAGGAGT
1 GCGACGGTAGAGGAGT
*
57204408 GCGACGGTAGAGGATT
1 GCGACGGTAGAGGAGT
*
57204424 GTGACGGT
1 GCGACGGT
57204432 CGACGAGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.47, T:0.15
Consensus pattern (16 bp):
GCGACGGTAGAGGAGT
Found at i:57204541 original size:24 final size:22
Alignment explanation
Indices: 57204514--57204566 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 22
57204504 TCTAGATTTG
*
57204514 GGGGAATTTTGGGGAAAATTTAGA
1 GGGGAAATTTGGGGAAAA-TT-GA
57204538 GGGGAAATTTGGGGAAAATTGA
1 GGGGAAATTTGGGGAAAATTGA
57204560 GGGGAAA
1 GGGGAAA
57204567 ACTGAGGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.42, T:0.23
Consensus pattern (22 bp):
GGGGAAATTTGGGGAAAATTGA
Found at i:57204565 original size:12 final size:12
Alignment explanation
Indices: 57204524--57204574 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
57204514 GGGGAATTTT
57204524 GGGGAAAATTTAGA
1 GGGGAAAA-TT-GA
*
57204538 GGGG-AAATT-T
1 GGGGAAAATTGA
57204548 GGGGAAAATTGA
1 GGGGAAAATTGA
*
57204560 GGGGAAAACTGA
1 GGGGAAAATTGA
57204572 GGG
1 GGG
57204575 ATTTTCGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 4 0.12
11 5 0.16
12 16 0.50
13 3 0.09
14 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.43, T:0.18
Consensus pattern (12 bp):
GGGGAAAATTGA
Found at i:57204845 original size:20 final size:20
Alignment explanation
Indices: 57204820--57204857 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57204810 AGTAATGCAT
*
57204820 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
57204840 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
57204858 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:57205083 original size:15 final size:16
Alignment explanation
Indices: 57205053--57205086 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
57205043 ATATTTTTAA
*
57205053 ATATTAATTTATATTT
1 ATATTAATTTACATTT
57205069 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
57205084 ATA
1 ATA
57205087 GTCTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:57205262 original size:21 final size:21
Alignment explanation
Indices: 57205212--57205269 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
57205202 TGTAAGCCTT
* *
57205212 AACCGTAAATCTTAAACCCCA
1 AACCATAAATCCTAAACCCCA
*
57205233 AACTATAAATCCTAAACCCCA
1 AACCATAAATCCTAAACCCCA
* *
57205254 AACCCTAAATCGTAAA
1 AACCATAAATCCTAAA
57205270 ACTTAAACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (21 bp):
AACCATAAATCCTAAACCCCA
Found at i:57205383 original size:21 final size:22
Alignment explanation
Indices: 57205365--57205407 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
57205355 ACCGTAAATC
57205365 TTAAACCC-TAAACCATAAACA
1 TTAAACCCGTAAACCATAAACA
*
57205386 TTAAACCCGTAAACCACAAACA
1 TTAAACCCGTAAACCATAAACA
57205408 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (22 bp):
TTAAACCCGTAAACCATAAACA
Found at i:57205916 original size:16 final size:16
Alignment explanation
Indices: 57205895--57205963 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
57205885 TTTGGTTCGC
57205895 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57205911 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57205927 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
57205944 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57205960 TGTA
1 TGTA
57205964 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:57205941 original size:33 final size:32
Alignment explanation
Indices: 57205895--57205963 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
57205885 TTTGGTTCGC
57205895 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
57205927 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
57205960 TGTA
1 TGTA
57205964 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:57206028 original size:44 final size:45
Alignment explanation
Indices: 57205944--57206034 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
57205934 GGATTAGAGG
* * *
57205944 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
57205989 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
57206033 TG
1 TG
57206035 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:57206220 original size:18 final size:17
Alignment explanation
Indices: 57206199--57206233 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57206189 TTATTATTAA
*
57206199 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57206217 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57206234 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57206280 original size:61 final size:61
Alignment explanation
Indices: 57206214--57206401 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
57206204 TTTTAATTAA
57206214 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
57206275 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
57206334 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
57206395 AATATAT
1 AATATAT
57206402 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:57206347 original size:14 final size:15
Alignment explanation
Indices: 57206298--57206349 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57206288 ATAAAATATA
57206298 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57206313 TATTAAATATATTAT
1 AATTAAATATATTAT
57206328 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57206341 AATTTAATA
1 AATTAAATA
57206350 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57206395 original size:120 final size:121
Alignment explanation
Indices: 57206182--57206474 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
57206172 ATCATATTTA
57206182 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
57206247 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
57206302 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
57206367 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
57206423 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
57206475 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:57206521 original size:101 final size:93
Alignment explanation
Indices: 57206415--57206697 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
57206405 ACTATAAAAG
* * * *
57206415 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
57206479 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
57206516 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
57206579 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
57206607 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
57206670 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
57206698 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:57206544 original size:26 final size:28
Alignment explanation
Indices: 57206515--57206575 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
57206505 TATGAATTTG
*
57206515 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
57206541 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
57206569 TAAAATT
1 TATAATT
57206576 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:57206573 original size:47 final size:46
Alignment explanation
Indices: 57206522--57206665 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
57206512 TTGTATAATT
57206522 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
57206569 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
57206613 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
57206660 TAAAAT
1 TAAAAT
57206666 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:57206585 original size:91 final size:90
Alignment explanation
Indices: 57206490--57206697 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
57206480 TAATTATAAC
* * * *
57206490 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
57206555 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
57206581 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
57206646 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
57206672 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
57206698 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:57206657 original size:44 final size:43
Alignment explanation
Indices: 57206515--57206657 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
57206505 TATGAATTTG
* *
57206515 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
57206559 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
57206606 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
57206650 TATAATTT
1 TATAATTT
57206658 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:57206672 original size:47 final size:47
Alignment explanation
Indices: 57206540--57206678 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
57206530 TTATTATTAC
* *
57206540 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
57206587 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
57206631 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
57206678 A
1 A
57206679 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:57210872 original size:114 final size:113
Alignment explanation
Indices: 57210723--57211441 Score: 982
Period size: 114 Copynumber: 6.4 Consensus size: 113
57210713 CTATTGGCTT
* *
57210723 TATACCTCAAGACCAAACGCTGCATTTTGGTTAAGATATTTTGCGGTGCTTTTTATAATGCGTCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCG-CG
57210788 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
65 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * * **
57210837 TATACATCAAGACCAAACGTTGCATTTTGGTTAAGATATTTTGTTGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCG-CG
*
57210902 CTAATGATGTGCTTTAGCGGTGTTTTCTCATAAGCGCCACTAATTCTAA
65 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * * *
57210951 TATACATCAAGACCAAATGCTGCGTTTTGGTTAAGATATTTTGCGGTGTTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCG-CG
57211016 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAAA
65 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCT-AA
* * *
57211066 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGTGACACTTTTTATAATGCGCTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGC-G
* * * *
57211131 CTAATGCTGTTCTTTAGCGGCATTTTTTCATAAGCGCCACTAATTCTAA
65 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
*
57211180 TATACCTCAAGCCCAAACGCTGC-----------G-T-TTTTGCGGCGCTTTTTATAATGCGCTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGC-G
* * * *
57211232 CTAAT-TTCGTGCTTTAGCGCCGTTTTTTCATAAGTGCCACTAATTCTAA
65 CTAATGAT-GTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* *
57211281 TATACCTCAAGACCAAGCGCTGCGTTTTGGTTAAGATATTTTGCGGCGC-TTTTATAAAGGCGTC
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTAT-AATGCG-C
* *
57211345 GCTAATTATGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAA
64 GCTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* *
57211395 TATACCTCAAGACCAAACGTTGCGTTTTGGTTACGATATTTTGCGGC
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC
57211442 ACTTACAAGT
Statistics
Matches: 542, Mismatches: 44, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
100 1 0.00
101 87 0.16
102 1 0.00
103 1 0.00
112 1 0.00
113 7 0.01
114 341 0.63
115 103 0.19
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (113 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCGC
TAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
Found at i:57211279 original size:101 final size:101
Alignment explanation
Indices: 57211114--57211422 Score: 356
Period size: 101 Copynumber: 2.9 Consensus size: 101
57211104 TTTTGTGACA
* * *
57211114 CTTTTTATAATGCGCTGCTAA-TGCTGTTCTTTAGCGGCATTTTTTCATAAGCGCCACTAATTCT
1 CTTTTTATAATGCGCTGCTAATTTC-GTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCT
*
57211178 AATATACCTCAAGCCCAAACGCTGCGTTTTTGCGGCG
65 AATATACCTCAAGACCAAACGCTGCGTTTTTGCGGCG
* *
57211215 CTTTTTATAATGCGCTGCTAATTTCGTGCTTTAGCGCCGTTTTTTCATAAGTGCCACTAATTCTA
1 CTTTTTATAATGCGCTGCTAATTTCGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTA
*
57211280 ATATACCTCAAGACCAAGCGCTGCGTTTTGGTTAAGATATTTTGCGGCG
66 ATATACCTCAAGACCAAACGCTGC-----------G-T-TTTTGCGGCG
*
57211329 C-TTTTATAAAG-GCGTCGCTAATTAT-GTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATT
1 CTTTTTATAATGCGC-T-GCTAATT-TCGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATT
*
57211391 CTAATATACCTCAAGACCAAACGTTGCGTTTT
63 CTAATATACCTCAAGACCAAACGCTGCGTTTT
57211423 GGTTACGATA
Statistics
Matches: 179, Mismatches: 12, Indels: 34
0.80 0.05 0.15
Matches are distributed among these distances:
101 82 0.46
102 3 0.02
103 1 0.01
112 3 0.02
113 11 0.06
114 78 0.44
115 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (101 bp):
CTTTTTATAATGCGCTGCTAATTTCGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTA
ATATACCTCAAGACCAAACGCTGCGTTTTTGCGGCG
Found at i:57211358 original size:330 final size:335
Alignment explanation
Indices: 57210723--57211445 Score: 996
Period size: 330 Copynumber: 2.2 Consensus size: 335
57210713 CTATTGGCTT
* ***
57210723 TATACCTCAAGACCAAACGCTGCATTTTGGTTAAGATATTTTGCGGTGCTTTTTATAATGCGTCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGACACTTTTTATAATGCGTCG
*
57210788 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
66 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
**
57210853 ACGTTGCATTTTGGTTAAGATATTTTGTTGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
131 AC--TGC---TTGG-T-AGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
** *
57210918 GCGGTGTTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAAATGCTGCGTTTTGGTT
189 GCGCCGTTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTT
* * *
57210983 AAGATATTTTGCGGTGTTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCGTTTTCTCATA
254 AAGATATTTTGCGGCGTTTTATATAAGGCGCCGCTAATGATGTGCTTTAGCGGCGTTTTCTCATA
57211048 AGCGCCACTAATTCTAAA
319 AGCGCCACTAATTCT-AA
*
57211066 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGTGACACTTTTTATAATGCG-CT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGACACTTTTTATAATGCGTC-
* * * * *
57211130 GCTAATGCTGTTCTTTAGCGGCATTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGCCCA
65 GCTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCA
* * *
57211195 AAC-GC-T-G-CG-T-TTTTGCGGCGCTTTTTATAATGCGCTGCTAAT-TTCGTGCTTTAGCGCC
130 AACTGCTTGGTAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGAT-GTGCTTTAGCGCC
* * * *
57211253 GTTTTTTCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAGCGCTGCGTTTTGGTTAAGAT
194 GTTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGAT
* * *
57211318 ATTTTGCGGCGCTTTTATA-AAGGCGTCGCTAATTATGTGCTTTAGCGGCGTTTTTTCATAAGCG
259 ATTTTGCGGCG-TTTTATATAAGGCGCCGCTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCG
57211382 CCACTAATTCTAA
323 CCACTAATTCTAA
* * *
57211395 TATACCTCAAGACCAAACGTTGCGTTTTGGTTACGATATTTTGCGGCACTT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGACACTT
57211446 ACAAGTAAAC
Statistics
Matches: 344, Mismatches: 33, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
329 50 0.15
330 162 0.47
331 7 0.02
332 1 0.00
335 1 0.00
336 1 0.00
340 2 0.01
342 1 0.00
343 119 0.35
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (335 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGACACTTTTTATAATGCGTCG
CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
ACTGCTTGGTAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGCCGT
TTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATAT
TTTGCGGCGTTTTATATAAGGCGCCGCTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCA
CTAATTCTAA
Found at i:57211482 original size:114 final size:113
Alignment explanation
Indices: 57211240--57211485 Score: 309
Period size: 114 Copynumber: 2.2 Consensus size: 113
57211230 TGCTAATTTC
* * * *
57211240 GTGCTTTAGCGCCGTTTTTTCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAGCGCTGCG
1 GTGCTTTAACGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG
* ** * *
57211305 TTTTGGTTAAGATATTTTGCGGCGCTTTTATAAAGGCGTCGCTAATTAT
66 TTTTGGTTAAGATATTTTGCGGCACTTCAATAAA-GCGCCGCTAAATAT
* *
57211354 GTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCG
1 GTGCTTTAACGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG
*
57211419 TTTTGGTTACGATATTTTGCGGCACTTACAAGTAAA-CGCCGC-AAAT-T
66 TTTTGGTTAAGATATTTTGCGGCACTT-CAA-TAAAGCGCCGCTAAATAT
*
57211466 GTGCTATTTAATGGCGTTTT
1 GTGC--TTTAACGGCGTTTT
57211486 GTAGTGCGCT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
112 5 0.04
113 3 0.03
114 103 0.89
115 1 0.01
116 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (113 bp):
GTGCTTTAACGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG
TTTTGGTTAAGATATTTTGCGGCACTTCAATAAAGCGCCGCTAAATAT
Found at i:57219054 original size:11 final size:10
Alignment explanation
Indices: 57219038--57219120 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 10
57219028 CATATTCAAT
57219038 GAAAAAAAAA
1 GAAAAAAAAA
57219048 GGAAAAAAGAAAA
1 -G-AAAAA-AAAA
57219061 GAACAAAAAAA
1 GAA-AAAAAAA
*
57219072 GAAAAAAGAA
1 GAAAAAAAAA
* *
57219082 -CAAAAAGAA
1 GAAAAAAAAA
* *
57219091 CAAAAAACAA
1 GAAAAAAAAA
*
57219101 -AAACAAAAA
1 GAAAAAAAAA
57219110 GAAATAAAAAA
1 GAAA-AAAAAA
57219121 ACCTCTACAG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
9 15 0.25
10 16 0.27
11 15 0.25
12 9 0.15
13 4 0.07
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:57219069 original size:9 final size:9
Alignment explanation
Indices: 57219057--57219096 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
57219047 AGGAAAAAAG
57219057 AAAAGAACA
1 AAAAGAACA
*
57219066 AAAA-AAGAA
1 AAAAGAA-CA
57219075 AAAAGAACA
1 AAAAGAACA
57219084 AAAAGAACA
1 AAAAGAACA
57219093 AAAA
1 AAAA
57219097 ACAAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGAACA
Found at i:57219069 original size:16 final size:16
Alignment explanation
Indices: 57219050--57219112 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
57219040 AAAAAAAAGG
57219050 AAAAAAGAAAAGAACA
1 AAAAAAGAAAAGAACA
57219066 AAAAAAGAAAAAAGAACA
1 AAAAAAG--AAAAGAACA
*
57219084 AAAAGAACAAAA-AACA
1 AAAA-AAGAAAAGAACA
*
57219100 AAAACA-AAAAGAA
1 AAAAAAGAAAAGAA
57219113 ATAAAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.10
15 3 0.07
16 15 0.37
17 4 0.10
18 13 0.32
19 2 0.05
ACGTcount: A:0.83, C:0.08, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAACA
Found at i:57219633 original size:8 final size:8
Alignment explanation
Indices: 57219622--57219672 Score: 58
Period size: 7 Copynumber: 6.9 Consensus size: 8
57219612 GTGAAAAATG
57219622 TGAAAAAA
1 TGAAAAAA
57219630 TG--AAAA
1 TGAAAAAA
57219636 TG-AAAAA
1 TGAAAAAA
57219643 TGAAAAAA
1 TGAAAAAA
57219651 TG-AAAAA
1 TGAAAAAA
57219658 TGGAAAAAA
1 T-GAAAAAA
57219667 T-AAAAA
1 TGAAAAA
57219673 TGGAGAGGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.15
7 17 0.44
8 10 0.26
9 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (8 bp):
TGAAAAAA
Found at i:57219642 original size:7 final size:7
Alignment explanation
Indices: 57219625--57219674 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 7
57219615 AAAAATGTGA
57219625 AAAAATG
1 AAAAATG
57219632 -AAAATG
1 AAAAATG
57219638 AAAAATG
1 AAAAATG
57219645 AAAAAATG
1 -AAAAATG
57219653 AAAAATGG
1 AAAAAT-G
57219661 AAAAAAT-
1 -AAAAATG
57219668 AAAAATG
1 AAAAATG
57219675 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 12 0.32
7 12 0.32
8 8 0.21
9 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:57219675 original size:15 final size:16
Alignment explanation
Indices: 57219632--57219676 Score: 76
Period size: 15 Copynumber: 2.9 Consensus size: 16
57219622 TGAAAAAATG
57219632 AAAATGAAAAAT-GAA
1 AAAATGAAAAATGGAA
57219647 AAAATGAAAAATGGAA
1 AAAATGAAAAATGGAA
57219663 AAAAT-AAAAATGGA
1 AAAATGAAAAATGGA
57219677 GAGGCTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 21 0.72
16 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (16 bp):
AAAATGAAAAATGGAA
Found at i:57221236 original size:100 final size:100
Alignment explanation
Indices: 57221109--57222006 Score: 1314
Period size: 100 Copynumber: 9.0 Consensus size: 100
57221099 CTTTGACATT
* *
57221109 GCAATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCCCTGGTGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
57221174 GAAATCACAACGGTAGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * * *
57221209 ACAATTAAAAAGATTGAGGCCACAACGGCGGATCTTACTTCTCTGGCGGTGCAGTGAAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
57221274 GAAGTCACAACGGTAGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* *
57221309 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAATGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
57221374 GAAGTCACAACGGCATATCTGGTTTCTCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * *
57221409 GTAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
57221474 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* *
57221509 GCAATTAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
57221574 GAAGTCACAACGACAGATCTGGTTTCCCCGACAGG
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* *
57221609 GCAATTAAAAAGATTGAAGTCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
57221674 GAAGTCACAACGGCAGATTTGGTTTCCCCGACGGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
*
57221709 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* * *
57221774 GAAGTCACAACAGTAGATCTGGTTTCTCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * * * * *
57221809 GCAATTAAAAAGATTGAAGCCACAATGGTGGGTCTTACTTTCCTGGCGGCGCAGTGAAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
57221874 GAAGTCACAATGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * * * * * * * * *
57221909 GTAATT-AAAAGAATTGAAGCCATAACGACGAATTTTACCTCCTTAGCGGTGCAGTTGAACAGAT
1 GCAATTAAAAAG-ATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGAT
* * * *
57221973 TGAAG-CTACGACGGCGGATCTTGTTTCCTCGACA
65 TGAAGTC-ACAACGGCAGATCTGGTTTCCCCGACA
57222007 TTGTAATTGG
Statistics
Matches: 718, Mismatches: 78, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
99 6 0.01
100 712 0.99
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
Found at i:57223501 original size:3 final size:3
Alignment explanation
Indices: 57223493--57223523 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
57223483 AATCCTTAAT
57223493 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
57223524 ATACACGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57223773 original size:14 final size:14
Alignment explanation
Indices: 57223754--57223795 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
57223744 ACGTTTTTTG
*
57223754 TTATATAT-TTCATT
1 TTATATATATACA-T
57223768 TTATATATATACAT
1 TTATATATATACAT
*
57223782 TTATATACATACAT
1 TTATATATATACAT
57223796 ATTTTCACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATATATATACAT
Found at i:57231627 original size:21 final size:23
Alignment explanation
Indices: 57231592--57231635 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
57231582 TTTTTGAACT
*
57231592 TTTTTCATCTTCTTCTTCCTTTC
1 TTTTTCATCTTCTTCTCCCTTTC
57231615 TTTTTC-T-TTCTTCTCCCTTTC
1 TTTTTCATCTTCTTCTCCCTTTC
57231636 ATAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTCATCTTCTTCTCCCTTTC
Found at i:57234561 original size:43 final size:43
Alignment explanation
Indices: 57234495--57234609 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
57234485 AACTCGTATA
* * * *
57234495 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATA-TCT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTCG
*
57234538 ATGCC-ACTGTCCCAGACGGGGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
*
57234581 ATGCCAACGTCCCTGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
57234610 AAAAAACACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 3 0.05
43 57 0.92
44 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
Found at i:57251635 original size:21 final size:21
Alignment explanation
Indices: 57251609--57251649 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57251599 ATCTGCTCAA
* *
57251609 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57251630 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57251650 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57253507 original size:14 final size:14
Alignment explanation
Indices: 57253488--57253526 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
57253478 ATTTTGACTG
57253488 TTTTTCTTCAAAAA
1 TTTTTCTTCAAAAA
57253502 TTTTTCTTCAAAAA
1 TTTTTCTTCAAAAA
57253516 TTTTTCTTCAA
1 TTTTTCTTCAA
57253527 GTGCCACCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTTCTTCAAAAA
Found at i:57258328 original size:15 final size:15
Alignment explanation
Indices: 57258308--57258338 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57258298 CCAAAAATAA
*
57258308 CATTAAAACCCATTT
1 CATTAAAACACATTT
57258323 CATTAAAACACATTT
1 CATTAAAACACATTT
57258338 C
1 C
57258339 TAATCAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
CATTAAAACACATTT
Found at i:57259803 original size:35 final size:35
Alignment explanation
Indices: 57259753--57259821 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
57259743 ACTTGCCTCT
*
57259753 TCCCACTCTCTCATGCTGTCTGCCACCAACACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCAC
*
57259788 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
57259822 TCACACACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.19, C:0.49, G:0.10, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAACACCAC
Found at i:57261077 original size:20 final size:18
Alignment explanation
Indices: 57261042--57261087 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 18
57261032 GATTCATTCA
57261042 ATTTTTTTATTTTTTATT
1 ATTTTTTTATTTTTTATT
57261060 ATTATTTTTATTTATTTATT
1 ATT-TTTTTATTT-TTTATT
57261080 ATTTTTTT
1 ATTTTTTT
57261088 TCTTCTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTTATTTTTTATT
Found at i:57261080 original size:17 final size:16
Alignment explanation
Indices: 57261054--57261085 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57261044 TTTTTTATTT
57261054 TTTATTATTATTTTTA
1 TTTATTATTATTTTTA
57261070 TTTATTTATTATTTTT
1 TTTA-TTATTATTTTT
57261086 TTTCTTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTATTATTTTTA
Found at i:57261088 original size:20 final size:19
Alignment explanation
Indices: 57261043--57261088 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
57261033 ATTCATTCAA
57261043 TTTTTTTATTTTTTATTAT
1 TTTTTTTATTTTTTATTAT
*
57261062 TATTTTTATTTATTTATTAT
1 TTTTTTTATTT-TTTATTAT
57261082 TTTTTTT
1 TTTTTTT
57261089 CTTCTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTTATTTTTTATTAT
Found at i:57261275 original size:3 final size:3
Alignment explanation
Indices: 57261269--57261300 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
57261259 CTACTACGCG
57261269 TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
57261301 TCTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57269367 original size:88 final size:89
Alignment explanation
Indices: 57269214--57269859 Score: 481
Period size: 88 Copynumber: 7.3 Consensus size: 89
57269204 ATAGGTCCTA
* * * * * *
57269214 TCTTCCTATATTGGTAG-GAAGTAGATCAAAGAT-GCAGATCTTGTCTTTCC-ATATTGGTGGCG
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATC-TTCCTATATTGGTAG-G
* * *
57269276 AAGTAGATCGCAGAAAACAGATATTG
64 AAGTAGATCGAAGAAAGCAGATCTTG
* * *
57269302 TCTTCATGTATTGG-CGTGAAGAAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAA
* *
57269366 GTGGATCGAAG-ATGCAGATCTTG
66 GTAGATCGAAGAAAGCAGATCTTG
** * * * * * * * * * *
57269389 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAA
* ** * *
57269454 GAAGATCGAAGGTAGCAGATCCTA
66 GTAGATCGAAGAAAGCAGATCTTG
* * * * * * *
57269478 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GA
*
57269541 AGTAGATCGCAGAAAGCAGATCTTG
65 AGTAGATCGAAGAAAGCAGATCTTG
* * * * *
57269566 TCTTAATGTATTGG-CATGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAA
* *
57269630 GTAGATCAAAG-ATGCAGATCTTG
66 GTAGATCGAAGAAAGCAGATCTTG
** * * * * * * * * *
57269653 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GA
* ** * *
57269717 AGAAGATCGAAGGTAGCAGATCCTA
65 AGTAGATCGAAGAAAGCAGATCTTG
* * * * * * * *
57269742 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCACATTGGTGGCGA
1 TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GA
* *
57269805 AGTAGATCGAGGAAAGCAGATCTTA
65 AGTAGATCGAAGAAAGCAGATCTTG
* *
57269830 TCTTTC-TATATTGGTGGCGAAGTAGATCGA
1 TC-TTCATATATTGGTCGTGAAGTAGATCGA
57269860 GGAAATCAGA
Statistics
Matches: 437, Mismatches: 107, Indels: 27
0.77 0.19 0.05
Matches are distributed among these distances:
87 84 0.19
88 253 0.58
89 100 0.23
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (89 bp):
TCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAA
GTAGATCGAAGAAAGCAGATCTTG
Found at i:57269843 original size:132 final size:132
Alignment explanation
Indices: 57269209--57269833 Score: 1090
Period size: 132 Copynumber: 4.7 Consensus size: 132
57269199 CGTAAATAGG
* * *
57269209 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAGATCTTGTCTTTCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
57269274 CGAAGTAGATCGCAGAAAACAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
57269339 GA
131 GA
57269341 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
57269406 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
57269471 GA
131 GA
57269473 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
57269538 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTAATGTATTGGCATGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
*
57269603 GG
131 GA
* * *
57269605 TCCTATCTTCCTATATTGATAGGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
57269670 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
57269735 GA
131 GA
*
57269737 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCACATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
57269802 CGAAGTAGATCG-AGGAAAGCAGATCTTATCTT
66 CGAAGTAGATCGCA-GAAAGCAGATCTTGTCTT
57269834 TCTATATTGG
Statistics
Matches: 469, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
131 1 0.00
132 468 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
GA
Found at i:57270235 original size:134 final size:134
Alignment explanation
Indices: 57269991--57270600 Score: 990
Period size: 134 Copynumber: 4.6 Consensus size: 134
57269981 AGAATAGATT
* * * * *
57269991 GCAGGTCGAAGACGGCAGACTTTACCTCCCTAACTACAGTGGAGTACGTTGAAGCCGATAACTCT
1 GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
57270056 ATCTCCCTGTA-TTGAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCA
66 ATCTCCCTGTATTTG-GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCA
*
57270120 ACGAA
130 GCGAA
* *
57270125 GCAGGTCAAAGATGTCAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
57270190 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAAATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
57270255 CGAA
131 CGAA
* * *
57270259 GCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACGTTGAAGCCGATAATTCT
1 GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
57270324 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
57270389 CGAA
131 CGAA
*
57270393 GCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
57270458 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
57270523 CGAA
131 CGAA
* * * * * * **
57270527 GCAGGTCGAAGATGGCGGATTTTACCTCCTTGATTACGGTGGAGTACATTAAAGCC-AGTAGTTC
1 GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGA-TAACTC
57270591 TATCTCCCTG
65 TATCTCCCTG
57270601 GGCAACAGTA
Statistics
Matches: 447, Mismatches: 27, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
133 1 0.00
134 443 0.99
135 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (134 bp):
GCAGGTCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
CGAA
Found at i:57270253 original size:46 final size:46
Alignment explanation
Indices: 57270058--57270522 Score: 211
Period size: 46 Copynumber: 10.4 Consensus size: 46
57270048 ATAACTCTAT
*
57270058 CTCCCTGTA-TTGAGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTG-GCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* ** * * ** *
57270104 CTTCCTGTATTTGGCA-ACGAAGCAGGTCAAAGA-TGTCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTAC
* * * ** * * *
57270150 CTCCCTG-ACTAT---AGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTA-TTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
57270192 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAAATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
57270238 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * ** * *
57270284 CTCCCTG-A-CT-ACAGTGGAGTACG-TTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATA-GATTGAAGATTGCA-GATCT-TAC
*
57270326 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
57270372 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
57270418 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
57270460 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
*
57270506 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
57270523 CGAAGCAGGT
Statistics
Matches: 291, Mismatches: 95, Indels: 66
0.64 0.21 0.15
Matches are distributed among these distances:
41 8 0.03
42 33 0.11
43 27 0.09
44 12 0.04
45 60 0.21
46 138 0.47
47 13 0.04
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:57270356 original size:45 final size:45
Alignment explanation
Indices: 57270162--57270357 Score: 102
Period size: 45 Copynumber: 4.4 Consensus size: 45
57270152 CCCTGACTAT
* * *
57270162 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGC
1 AGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGGC
** *
57270207 AGTGGAATAGATTGAAGATTGCA-AA-TCT-TGCCTTCCTGTATTTGGC
1 AGTGGAATAGATTGAAG-CCG-ATAATTCTAT--CTCCCTGTATTTGGC
* * ** ** ** * * * *
57270253 AG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-AC
1 AGTGGAA-TAGATTGAAGCCGATA-ATTCTATCTCCCTGTATTTGGC
*
57270296 AGTGGAGTACG-TTGAAGCCGATAATTCTATCTCCCTGTATTTGGC
1 AGTGGAATA-GATTGAAGCCGATAATTCTATCTCCCTGTATTTGGC
57270341 AGTGGAATAGATTGAAG
1 AGTGGAATAGATTGAAG
57270358 ATTGCAGATC
Statistics
Matches: 106, Mismatches: 30, Indels: 30
0.64 0.18 0.18
Matches are distributed among these distances:
42 12 0.11
43 11 0.10
44 7 0.07
45 40 0.38
46 33 0.31
47 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
AGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGGC
Found at i:57272286 original size:10 final size:10
Alignment explanation
Indices: 57272271--57272300 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
57272261 ATTCATTCAA
57272271 TTTTTTATTT
1 TTTTTTATTT
57272281 TTTTTTATTT
1 TTTTTTATTT
*
57272291 TTATTTATTT
1 TTTTTTATTT
57272301 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTATTT
Done.