Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 50 of 52
Found at i:8061504 original size:57 final size:56
Alignment explanation
Indices: 8061434--8061546 Score: 129
Period size: 57 Copynumber: 2.0 Consensus size: 56
8061424 ATTAATCAAA
* * ** *
8061434 TTAATTAACTTTAATA-TCAATTCAATTATTTTAATTTTAAATTTAAAATCAATTAAT
1 TTAATCAACTTTAATATTAAATT-AATTAAATTAATTTTAAATTT-AAATAAATTAAT
* *
8061491 TTAATCAATTTTAATATTTAAATTAATTAAATTAATTTTTAATTTAAATAAATTAA
1 TTAATCAACTTTAATA-TTAAATTAATTAAATTAATTTTAAATTTAAATAAATTAA
8061547 ATCAATTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 24 0.51
58 18 0.38
59 5 0.11
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (56 bp):
TTAATCAACTTTAATATTAAATTAATTAAATTAATTTTAAATTTAAATAAATTAAT
Found at i:8061531 original size:21 final size:21
Alignment explanation
Indices: 8061501--8061546 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8061491 TTAATCAATT
*
8061501 TTAATATTTAAATTAATTAAA
1 TTAATATTTAAATTAAATAAA
* *
8061522 TTAATTTTTAATTTAAATAAA
1 TTAATATTTAAATTAAATAAA
8061543 TTAA
1 TTAA
8061547 ATCAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATATTTAAATTAAATAAA
Found at i:8061535 original size:26 final size:27
Alignment explanation
Indices: 8061484--8061553 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
8061474 ATTTAAAATC
*
8061484 AATTAATTTAATCAATTTTAATATTTA
1 AATTAATTAAATCAATTTTAATATTTA
* *
8061511 AATTAATTAAATTAATTTTTA-ATTTA
1 AATTAATTAAATCAATTTTAATATTTA
*
8061537 AATAAATTAAATCAATT
1 AATTAATTAAATCAATT
8061554 AAACTCACCG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTAATTAAATCAATTTTAATATTTA
Found at i:8063473 original size:34 final size:34
Alignment explanation
Indices: 8063434--8063509 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
8063424 TTGTAATTAT
* *
8063434 ATTTATAAGTAATATAGTAAGTGATTTTTGATAA
1 ATTTATAACTAATATAGTAAGGGATTTTTGATAA
*
8063468 ATTTATAACTTATATAGTAAGGGATTTTTGATAA
1 ATTTATAACTAATATAGTAAGGGATTTTTGATAA
8063502 ATTTATAA
1 ATTTATAA
8063510 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (34 bp):
ATTTATAACTAATATAGTAAGGGATTTTTGATAA
Found at i:8064819 original size:2 final size:2
Alignment explanation
Indices: 8064807--8064843 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8064797 ATAGTATTTG
8064807 TA TA T- TA TA TA TA TA TA TA TA -A TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8064844 CAGGAGAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8064831 original size:7 final size:7
Alignment explanation
Indices: 8064807--8064841 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
8064797 ATAGTATTTG
*
8064807 TATATTA
1 TATATAA
8064814 TATATATA
1 TATATA-A
8064822 TATATAA
1 TATATAA
8064829 TATATAA
1 TATATAA
8064836 TATATA
1 TATATA
8064842 TACAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
TATATAA
Found at i:8065554 original size:26 final size:27
Alignment explanation
Indices: 8065497--8065556 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
8065487 ATTTAAAAAT
* * *
8065497 AAATATAAAAATATAATTATATATAAA
1 AAATTTAAAAATATAAATATACATAAA
*
8065524 AAATTTAAAAAT-TAAATATACATATA
1 AAATTTAAAAATATAAATATACATAAA
*
8065550 TAATTTA
1 AAATTTA
8065557 TATTTAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATTTAAAAATATAAATATACATAAA
Found at i:8065810 original size:16 final size:16
Alignment explanation
Indices: 8065789--8065822 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8065779 TAAAAAGAAA
8065789 AATTATATATTATTTT
1 AATTATATATTATTTT
* *
8065805 AATTATTTATTTTTTT
1 AATTATATATTATTTT
8065821 AA
1 AA
8065823 AAATATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTATATATTATTTT
Found at i:8072255 original size:92 final size:88
Alignment explanation
Indices: 8072159--8072355 Score: 243
Period size: 92 Copynumber: 2.1 Consensus size: 88
8072149 AATTTTAGGA
8072159 TATAAACTTTATATTATAT-AAAAAATAATTAAATACAAAAAAATAATTACAAATTTAATATAAA
1 TATAAA-TTTATATTATATAAAAAAAT-ATT---TACAAAAAAATAATTACAAATTTAATATAAA
8072223 TATAAAAATATTTTAAAATTTATATAAT
61 TATAAAAATATTTTAAAATTTATATAAT
* * *** * *
8072251 TATAAATTATTACAGATTATTTAAAAAAATATTTTTTAAAAAATAATTATAAATTTGATATAAAT
1 TATAAA-T-TT--ATATTATATAAAAAAATATTTACAAAAAAATAATTACAAATTTAATATAAAT
8072316 ATAAAAATATTTTAAAATTTATATAAT
62 ATAAAAATATTTTAAAATTTATATAAT
8072343 TATAAATTTATAT
1 TATAAATTTATAT
8072356 AAATGTAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
88 3 0.03
90 2 0.02
91 1 0.01
92 67 0.73
93 2 0.02
95 10 0.11
96 7 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (88 bp):
TATAAATTTATATTATATAAAAAAATATTTACAAAAAAATAATTACAAATTTAATATAAATATAA
AAATATTTTAAAATTTATATAAT
Found at i:8072321 original size:28 final size:28
Alignment explanation
Indices: 8072289--8072348 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
8072279 ATATTTTTTA
8072289 AAAAATAATTAT-AAATTTGATATAAATAT
1 AAAAAT-ATTATAAAATTT-ATATAAATAT
* *
8072318 AAAAATATTTTAAAATTTATATAATTAT
1 AAAAATATTATAAAATTTATATAAATAT
8072346 AAA
1 AAA
8072349 TTTATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
AAAAATATTATAAAATTTATATAAATAT
Found at i:8072348 original size:34 final size:34
Alignment explanation
Indices: 8072309--8072376 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
8072299 ATAAATTTGA
* *
8072309 TATAAATATA-AAAATATTTTAAAATTTATATAAT
1 TATAAATATATAAAA-ATGTAAAAATTTATATAAT
* *
8072343 TATAAATTTATATAAATGTAAAAATTTATATAAT
1 TATAAATATATAAAAATGTAAAAATTTATATAAT
8072377 ACAGTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
TATAAATATATAAAAATGTAAAAATTTATATAAT
Found at i:8072367 original size:18 final size:17
Alignment explanation
Indices: 8072329--8072375 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
8072319 AAAATATTTT
8072329 AAAATTTATAT-AATTA
1 AAAATTTATATAAATTA
*
8072345 TAAATTTATATAAATGTA
1 AAAATTTATATAAAT-TA
8072363 AAAATTTATATAA
1 AAAATTTATATAA
8072376 TACAGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 3 0.11
18 14 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATTTATATAAATTA
Found at i:8072383 original size:20 final size:18
Alignment explanation
Indices: 8072329--8072389 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
8072319 AAAATATTTT
*
8072329 AAAATTTATAT--AATTA
1 AAAATTTATATAAAAGTA
* *
8072345 TAAATTTATATAAATGTA
1 AAAATTTATATAAAAGTA
8072363 AAAATTTATATAATACAGTA
1 AAAATTTATATAA-A-AGTA
8072383 AATAATT
1 AA-AATT
8072390 ATAAATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.29
18 15 0.43
19 1 0.03
20 5 0.14
21 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAATTTATATAAAAGTA
Found at i:8079725 original size:65 final size:65
Alignment explanation
Indices: 8079619--8079748 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
8079609 TTATTTACTT
* * * *
8079619 AATAATGATGTGAATGTGTCTATGACTGCAAATATCAATCCTTCTGTACAAGGAACTTGCTCTTG
1 AATAATGATATGAATGTGCCTATGACTGCAAATATCAATCCTTATGTACAAAGAACTTGCTCTTG
*
8079684 AATAATGATATGAATGTGCCTATGACTGCAGATAT-ACATCCTTATGTACAAAGAACTTGCTCTT
1 AATAATGATATGAATGTGCCTATGACTGCAAATATCA-ATCCTTATGTACAAAGAACTTGCTCTT
8079748 G
65 G
8079749 CTTTGAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 1 0.02
65 58 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (65 bp):
AATAATGATATGAATGTGCCTATGACTGCAAATATCAATCCTTATGTACAAAGAACTTGCTCTTG
Found at i:8083657 original size:14 final size:14
Alignment explanation
Indices: 8083638--8083666 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8083628 AACCCCATGT
8083638 ACGATAACAAATGC
1 ACGATAACAAATGC
8083652 ACGATAACAAATGC
1 ACGATAACAAATGC
8083666 A
1 A
8083667 GGCTTGCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
ACGATAACAAATGC
Found at i:8084833 original size:19 final size:18
Alignment explanation
Indices: 8084809--8084943 Score: 75
Period size: 19 Copynumber: 7.2 Consensus size: 18
8084799 AAGTTAATTA
8084809 AAATATGATATAAATATAT
1 AAATAT-ATATAAATATAT
* *
8084828 AAATAT-TTTAAATTTTAT
1 AAATATATATAAA-TATAT
8084846 ATAATATTAATTATTAACATAT-T
1 A-AATA-T-A-TA-TAA-ATATAT
*
8084869 AAAATTTATATAAATATA-
1 -AAATATATATAAATATAT
*
8084887 AAATAT-TTTAAATATGAT
1 AAATATATATAAATAT-AT
*
8084905 -TATATATGATAAATATAT
1 AAATATAT-ATAAATATAT
8084923 AAATAT-TATATAATATAT
1 AAATATATATA-AATATAT
8084941 AAA
1 AAA
8084944 ACTTAAGTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 33
0.68 0.08 0.25
Matches are distributed among these distances:
16 8 0.09
17 18 0.20
18 23 0.26
19 24 0.27
20 3 0.03
21 1 0.01
22 1 0.01
23 5 0.06
24 6 0.07
25 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (18 bp):
AAATATATATAAATATAT
Found at i:8084892 original size:7 final size:8
Alignment explanation
Indices: 8084816--8084943 Score: 66
Period size: 8 Copynumber: 14.9 Consensus size: 8
8084806 TTAAAATATG
8084816 ATATAAAT
1 ATATAAAT
8084824 ATATAAAT
1 ATATAAAT
*
8084832 ATTTTAAATT
1 A-TATAAA-T
*
8084842 TTATATAAT
1 ATATA-AAT
*
8084851 AT-TAATT
1 ATATAAAT
8084858 AT-TAACAT
1 ATATAA-AT
8084866 AT-TAAAATTT
1 ATAT-AAA--T
8084876 ATATAAAT
1 ATATAAAT
8084884 ATA-AAAT
1 ATATAAAT
*
8084891 ATTTTAAAT
1 A-TATAAAT
*
8084900 ATGATTATAT
1 AT-A-TAAAT
8084910 ATGATAAAT
1 AT-ATAAAT
8084919 ATATAAAT
1 ATATAAAT
8084927 ATTATATAAT
1 A-TATA-AAT
8084937 ATATAAA
1 ATATAAA
8084944 ACTTAAGTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
7 12 0.12
8 31 0.32
9 31 0.32
10 21 0.22
11 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (8 bp):
ATATAAAT
Found at i:8086046 original size:2 final size:2
Alignment explanation
Indices: 8086039--8086078 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8086029 TGATAGTAAA
8086039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8086079 GAAATATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8086197 original size:20 final size:20
Alignment explanation
Indices: 8086172--8086211 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8086162 CCCGTCATCG
8086172 ACATCACTGTAATCAAGCAA
1 ACATCACTGTAATCAAGCAA
*
8086192 ACATCACTGTTATCAAGCAA
1 ACATCACTGTAATCAAGCAA
8086212 CTTTTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (20 bp):
ACATCACTGTAATCAAGCAA
Found at i:8086287 original size:2 final size:2
Alignment explanation
Indices: 8086280--8086311 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8086270 TACATGAATC
*
8086280 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8086312 GTCTGTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8088482 original size:30 final size:30
Alignment explanation
Indices: 8088438--8088498 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8088428 GCGTTCATAT
* * *
8088438 TAAAAAAAAAATTATATTTGTATTTAAATA
1 TAAAAAAAAAATTATAATTATATTCAAATA
* *
8088468 TAAATAAAATATTATAATTATATTCAAATA
1 TAAAAAAAAAATTATAATTATATTCAAATA
8088498 T
1 T
8088499 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
TAAAAAAAAAATTATAATTATATTCAAATA
Found at i:8088624 original size:26 final size:27
Alignment explanation
Indices: 8088588--8088641 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
8088578 AACGAGATTT
*
8088588 TTAATATTTATA-AATATTTA-ATTAAA
1 TTAATAATTATATAA-ATTTATATTAAA
8088614 TTAATAATTATATAAATTTATATTAAA
1 TTAATAATTATATAAATTTATATTAAA
8088641 T
1 T
8088642 GATTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTAATAATTATATAAATTTATATTAAA
Found at i:8088684 original size:17 final size:16
Alignment explanation
Indices: 8088644--8088678 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8088634 TATTAAATGA
*
8088644 TTATTATTTAAATATT
1 TTATAATTTAAATATT
8088660 TTATAATTTAAA-ATT
1 TTATAATTTAAATATT
8088675 TTAT
1 TTAT
8088679 GTAATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATAATTTAAATATT
Found at i:8089111 original size:23 final size:25
Alignment explanation
Indices: 8089069--8089131 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
8089059 TCAAGACACT
*
8089069 ATATAAATGA-AACATA-AAAAAATA
1 ATATAAAT-ATAATATATAAAAAATA
*
8089093 AT-TAAA-ATAGTATATAAAAAATA
1 ATATAAATATAATATATAAAAAATA
8089116 ATATAAATATAATATA
1 ATATAAATATAATATA
8089132 AACATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 14 0.44
24 6 0.19
25 7 0.22
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (25 bp):
ATATAAATATAATATATAAAAAATA
Found at i:8089119 original size:12 final size:12
Alignment explanation
Indices: 8089085--8089133 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
8089075 ATGAAACATA
8089085 AAAAAATAAT-T
1 AAAAAATAATAT
*
8089096 AAAATAGT-ATAT
1 AAAA-AATAATAT
8089108 AAAAAATAATAT
1 AAAAAATAATAT
*
8089120 -AAATATAATAT
1 AAAAAATAATAT
8089131 AAA
1 AAA
8089134 CATATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 18 0.58
12 13 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:8089410 original size:11 final size:11
Alignment explanation
Indices: 8089396--8089469 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
8089386 TTAACATAAC
8089396 ATAAATAAAAT
1 ATAAATAAAAT
*
8089407 ATAATTAAAAT
1 ATAAATAAAAT
8089418 ATAATATAAAA-
1 ATAA-ATAAAAT
8089429 ATAAAT-AAAT
1 ATAAATAAAAT
8089439 AT-AATACAAAT
1 ATAAATA-AAAT
* *
8089450 GTAAA-ATATAT
1 ATAAATA-AAAT
8089461 ATAAATAAA
1 ATAAATAAA
8089470 TAATTAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
9 6 0.12
10 4 0.08
11 32 0.64
12 8 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:8089410 original size:16 final size:16
Alignment explanation
Indices: 8089391--8089469 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
8089381 TAATATTAAC
*
8089391 ATAACATAAATAAAAT
1 ATAATATAAATAAAAT
*
8089407 ATAAT-TAAAATATAAT
1 ATAATAT-AAATAAAAT
*
8089423 ATAAAAATAAAT-AAAT
1 AT-AATATAAATAAAAT
*
8089439 ATAATACAAATGTAAAAT
1 ATAATATAAA--TAAAAT
8089457 AT-ATATAAATAAA
1 ATAATATAAATAAA
8089470 TAATTAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
15 11 0.22
16 19 0.38
17 13 0.26
18 7 0.14
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (16 bp):
ATAATATAAATAAAAT
Found at i:8089431 original size:13 final size:12
Alignment explanation
Indices: 8089360--8089444 Score: 67
Period size: 11 Copynumber: 7.3 Consensus size: 12
8089350 ATTATGAAAA
8089360 AATATAAAAT-T
1 AATATAAAATAT
*
8089371 AAT-TAAAACAT
1 AATATAAAATAT
*
8089382 AATATTAACATA-
1 AATA-TAAAATAT
8089394 ACATAAATAAAATAT
1 A-AT--ATAAAATAT
8089409 AAT-TAAAATAT
1 AATATAAAATAT
8089420 AATATAAAA-AT
1 AATATAAAATAT
8089431 AA-AT-AAATAT
1 AATATAAAATAT
8089441 AATA
1 AATA
8089445 CAAATGTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
9 3 0.05
10 11 0.18
11 23 0.38
12 6 0.10
13 7 0.12
14 8 0.13
15 2 0.03
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:8089465 original size:32 final size:32
Alignment explanation
Indices: 8089396--8089471 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
8089386 TTAACATAAC
*
8089396 ATAAATAAAATATAATTAAAATATAATATAAAA
1 ATAAAT-AAATATAATTAAAATATAAAATAAAA
* * *
8089429 ATAAATAAATATAA-TACAAATGTAAAATATAT
1 ATAAATAAATATAATTA-AAATATAAAATAAAA
8089461 ATAAATAAATA
1 ATAAATAAATA
8089472 ATTAATGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 2 0.05
32 30 0.79
33 6 0.16
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (32 bp):
ATAAATAAATATAATTAAAATATAAAATAAAA
Found at i:8089534 original size:24 final size:23
Alignment explanation
Indices: 8089507--8089573 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
8089497 TTTTTATATT
*
8089507 TAATATATAAAAAATAACATAATA
1 TAATATATAAAAAATAA-ATAAAA
* *
8089531 TAATAT-TAAAAATTAATTAAAA
1 TAATATATAAAAAATAAATAAAA
*
8089553 TAAAATATAAAAAAGTAAATA
1 TAATATATAAAAAA-TAAATA
8089574 TAAAAACATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 9 0.26
23 15 0.43
24 11 0.31
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (23 bp):
TAATATATAAAAAATAAATAAAA
Found at i:8089571 original size:15 final size:13
Alignment explanation
Indices: 8089527--8089585 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
8089517 AAAATAACAT
*
8089527 AATATAATATTAAA
1 AATA-AATATAAAA
*
8089541 AATTAAT-TAAAA
1 AATAAATATAAAA
*
8089553 TA-AAATATAAAA
1 AATAAATATAAAA
8089565 AAGTAAATATAAAA
1 AA-TAAATATAAAA
8089579 ACATAAA
1 A-ATAAA
8089586 AATATTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 3 0.08
12 11 0.31
13 3 0.08
14 18 0.50
15 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (13 bp):
AATAAATATAAAA
Found at i:8089578 original size:21 final size:21
Alignment explanation
Indices: 8089548--8089587 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8089538 AAAAATTAAT
*
8089548 TAAAAT-AAAATATAAAAAAG
1 TAAAATAAAAACATAAAAAAG
8089568 TAAATATAAAAACATAAAAA
1 TAAA-ATAAAAACATAAAAA
8089588 TATTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 2 0.12
22 11 0.65
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAATAAAAACATAAAAAAG
Found at i:8089582 original size:56 final size:52
Alignment explanation
Indices: 8089522--8089625 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 52
8089512 TATAAAAAAT
8089522 AACATAATATAATATTA-AAAATTAATTAA-AATAAAATATAAAAAAGTAAATATAAA
1 AACATAA-A-AATATTATAAAATT--TTAATAATAAAA-ATAAAAAA-TAAATATAAA
* *
8089578 AACATAAAAATATTATAATATTTTAATAATAAAAATAATAAATAAATA
1 AACATAAAAATATTATAAAATTTTAATAATAAAAATAAAAAATAAATA
8089626 AATACATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
52 6 0.14
53 11 0.25
54 14 0.32
55 6 0.14
56 7 0.16
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (52 bp):
AACATAAAAATATTATAAAATTTTAATAATAAAAATAAAAAATAAATATAAA
Found at i:8089664 original size:18 final size:19
Alignment explanation
Indices: 8089641--8089691 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
8089631 ATAATAAATG
8089641 TTTTTTTTCTTTCC-TTTC
1 TTTTTTTTCTTTCCTTTTC
* *
8089659 TTTTTTTTCTTCCCTTTTT
1 TTTTTTTTCTTTCCTTTTC
8089678 TTTCTTTTTCTTTC
1 TTT-TTTTTCTTTC
8089692 TCTGCTGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.46
19 6 0.21
20 9 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTCCTTTTC
Found at i:8089873 original size:69 final size:69
Alignment explanation
Indices: 8089762--8089899 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
8089752 GTACCAACTG
8089762 ACTATTGCCCTAGTCCATTTAAGACATGTAAGATATTGCACCATCTTAAAAAACCTATAGACCTC
1 ACTATTGCCCTAGTCCATTTAAGACATGTAAGATATTGCACCATCTTAAAAAACCTATAGACCTC
8089827 AGCA
66 AGCA
8089831 ACTATTGCCCTAGTCCATTTAAGACATGTAAGATATTGCACCATCTTAAAAAACCTATAGACCTC
1 ACTATTGCCCTAGTCCATTTAAGACATGTAAGATATTGCACCATCTTAAAAAACCTATAGACCTC
8089896 AGCA
66 AGCA
8089900 GTCCTTTTCA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (69 bp):
ACTATTGCCCTAGTCCATTTAAGACATGTAAGATATTGCACCATCTTAAAAAACCTATAGACCTC
AGCA
Found at i:8090894 original size:14 final size:14
Alignment explanation
Indices: 8090869--8090902 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8090859 AATAATTCAA
8090869 TTAATT-TTTTAAT
1 TTAATTATTTTAAT
8090882 TTAATTATTTTAAT
1 TTAATTATTTTAAT
*
8090896 TAAATTA
1 TTAATTA
8090903 ATAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTATTTTAAT
Found at i:8090977 original size:19 final size:17
Alignment explanation
Indices: 8090953--8091000 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
8090943 TTTAAAAAAA
8090953 TTAATTAATCAAATTTAAT
1 TTAATTAAT-AAA-TTAAT
8090972 TTAATTTTAATAAATTAAT
1 TTAA--TTAATAAATTAAT
8090991 TTAATTAATA
1 TTAATTAATA
8091001 TTAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.22
19 13 0.48
20 3 0.11
21 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAATAAATTAAT
Found at i:8091009 original size:19 final size:19
Alignment explanation
Indices: 8090967--8091010 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8090957 TTAATCAAAT
*
8090967 TTAATTTAATTTTAATAAA
1 TTAATTTAATTATAATAAA
*
8090986 TTAATTTAATTAATATTAAA
1 TTAATTTAATT-ATAATAAA
8091006 -TAATT
1 TTAATT
8091011 ACCTACGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTTAATTATAATAAA
Found at i:8099768 original size:2 final size:2
Alignment explanation
Indices: 8099761--8099792 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8099751 AATGTATGTG
8099761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8099793 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8099797 original size:2 final size:2
Alignment explanation
Indices: 8099792--8099820 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8099782 ATATATATAT
8099792 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8099821 AATAAGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8101100 original size:36 final size:36
Alignment explanation
Indices: 8101053--8101126 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
8101043 TTGAATGGTG
*
8101053 ATTAAACTTGTATTGAATAATAATAGACAAAAAGTA
1 ATTAAACTTGTATTGAATAATAAAAGACAAAAAGTA
* * *
8101089 ATTAAATTTGTATTGAATAATAAAAGACAGAAGGTA
1 ATTAAACTTGTATTGAATAATAAAAGACAAAAAGTA
8101125 AT
1 AT
8101127 AGAGTGGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (36 bp):
ATTAAACTTGTATTGAATAATAAAAGACAAAAAGTA
Found at i:8102082 original size:20 final size:20
Alignment explanation
Indices: 8102057--8102115 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
8102047 ATTTGAAAAA
8102057 TTAAATTTATTATATTTTAT
1 TTAAATTTATTATATTTTAT
*
8102077 TTAAA--TA-TGTA--TTA-
1 TTAAATTTATTATATTTTAT
8102091 -TAAATTTATTATATTTTAT
1 TTAAATTTATTATATTTTAT
8102110 TTAAAT
1 TTAAAT
8102116 ATGTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 4 0.13
15 5 0.17
16 3 0.10
17 3 0.10
18 5 0.17
20 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTAAATTTATTATATTTTAT
Found at i:8102098 original size:33 final size:33
Alignment explanation
Indices: 8102058--8102123 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8102048 TTTGAAAAAT
8102058 TAAATTTATTATATTTTATTTAAATATGTATTA
1 TAAATTTATTATATTTTATTTAAATATGTATTA
8102091 TAAATTTATTATATTTTATTTAAATATGTATTA
1 TAAATTTATTATATTTTATTTAAATATGTATTA
8102124 AATATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
TAAATTTATTATATTTTATTTAAATATGTATTA
Found at i:8102102 original size:11 final size:11
Alignment explanation
Indices: 8102058--8102115 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
8102048 TTTGAAAAAT
8102058 TAAATTTATTA
1 TAAATTTATTA
*
8102069 T-ATTTTATT-
1 TAAATTTATTA
8102078 TAAATATGTATTA
1 TAAAT-T-TATTA
8102091 TAAATTTATTA
1 TAAATTTATTA
*
8102102 T-ATTTTATT-
1 TAAATTTATTA
8102111 TAAAT
1 TAAAT
8102116 ATGTATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
9 2 0.05
10 18 0.47
11 8 0.21
12 5 0.13
13 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TAAATTTATTA
Found at i:8102142 original size:37 final size:33
Alignment explanation
Indices: 8102068--8102143 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
8102058 TAAATTTATT
* * **
8102068 ATATTTTATTTAAATATGTATTATAAATTTATT
1 ATATTTTATTTAAATATGTATTATAAAATAAAA
8102101 ATATTTTATTTAAATATGTATTAAATATAAATAACAA
1 ATATTTTATTTAAATATGTATT--ATA-AAATAA-AA
8102138 ATATTT
1 ATATTT
8102144 ATATAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 22 0.63
35 3 0.09
36 4 0.11
37 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (33 bp):
ATATTTTATTTAAATATGTATTATAAAATAAAA
Found at i:8103071 original size:2 final size:2
Alignment explanation
Indices: 8103064--8103099 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8103054 ACTCCATTGC
8103064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8103100 GCTAGCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8103497 original size:21 final size:20
Alignment explanation
Indices: 8103455--8103497 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
8103445 CTGTTAAATT
* * *
8103455 ATTATTTTTTAATTTATTTA
1 ATTATTTTTAAATTAATATA
8103475 ATTATTTTTAAAATTAATATA
1 ATTATTTTT-AAATTAATATA
8103496 AT
1 AT
8103498 ATTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATTTTTAAATTAATATA
Found at i:8122486 original size:19 final size:19
Alignment explanation
Indices: 8122462--8122500 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8122452 GAATTAAATT
8122462 AAATTTTAATATAT-ATTTA
1 AAATTTTAAT-TATGATTTA
*
8122481 AAATTTTTATTATGATTTA
1 AAATTTTAATTATGATTTA
8122500 A
1 A
8122501 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
AAATTTTAATTATGATTTA
Found at i:8122875 original size:22 final size:19
Alignment explanation
Indices: 8122850--8122894 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
8122840 ATATTTGTAT
8122850 TTAATTATAAAATATATAAATA
1 TTAA-TATAAAA-ATA-AAATA
*
8122872 TTAATATAAAAATAAAATT
1 TTAATATAAAAATAAAATA
8122891 TTAA
1 TTAA
8122895 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 7 0.32
22 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATATAAAAATAAAATA
Found at i:8131247 original size:45 final size:45
Alignment explanation
Indices: 8131191--8131311 Score: 188
Period size: 45 Copynumber: 2.7 Consensus size: 45
8131181 AATATTGTTC
*
8131191 CTCTATTATCCTAGTATTAGACAAATGCAAACACACAAATCATTG
1 CTCTATTATCCTAGTATTACACAAATGCAAACACACAAATCATTG
* *
8131236 CTCTGTTATCCTAGTATTACACAAATGCAAGCACACAAATCATTG
1 CTCTATTATCCTAGTATTACACAAATGCAAACACACAAATCATTG
* * *
8131281 CTTTATTATCCTAGCATTACACACATGCAAA
1 CTCTATTATCCTAGTATTACACAAATGCAAA
8131312 ATTGAAGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (45 bp):
CTCTATTATCCTAGTATTACACAAATGCAAACACACAAATCATTG
Found at i:8133981 original size:13 final size:13
Alignment explanation
Indices: 8133965--8134019 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
8133955 ATTCTATTAA
8133965 ATTTAATATTTAT
1 ATTTAATATTTAT
*
8133978 ATTTTAA-ATTTAA
1 A-TTTAATATTTAT
*
8133991 ATTTAAAATTTA-
1 ATTTAATATTTAT
8134003 ATTTAATTAATTTAT
1 ATTTAA-T-ATTTAT
8134018 AT
1 AT
8134020 AATCATTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.31
13 12 0.34
14 10 0.29
15 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTAATATTTAT
Found at i:8134133 original size:7 final size:7
Alignment explanation
Indices: 8134114--8134157 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
8134104 TTGAAGTTTA
8134114 AATTTTT
1 AATTTTT
8134121 ATATTTTT
1 A-ATTTTT
8134129 AATTTTTT
1 AA-TTTTT
8134137 AATTTTT
1 AATTTTT
* *
8134144 AAATTAT
1 AATTTTT
8134151 AATTTTT
1 AATTTTT
8134158 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:8134148 original size:8 final size:8
Alignment explanation
Indices: 8134110--8134148 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
8134100 TTAATTGAAG
8134110 TTTAAATT
1 TTTAAATT
*
8134118 TTTATATT
1 TTTAAATT
8134126 TTT-AATT
1 TTTAAATT
*
8134133 TTTTAATT
1 TTTAAATT
8134141 TTTAAATT
1 TTTAAATT
8134149 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTAAATT
Found at i:8134162 original size:23 final size:23
Alignment explanation
Indices: 8134114--8134158 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
8134104 TTGAAGTTTA
* *
8134114 AATTTTTATATTTTTAATTTTTT
1 AATTTTTATAATTATAATTTTTT
8134137 AATTTTTA-AATTATAATTTTTT
1 AATTTTTATAATTATAATTTTTT
8134159 TAATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
AATTTTTATAATTATAATTTTTT
Found at i:8136312 original size:2 final size:2
Alignment explanation
Indices: 8136307--8136338 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8136297 CAACAAGACG
*
8136307 GA GA GA GA GA GA GA GA GA GA GA GA TA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8136339 TGGGTAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:8138084 original size:246 final size:246
Alignment explanation
Indices: 8137649--8138138 Score: 917
Period size: 246 Copynumber: 2.0 Consensus size: 246
8137639 AACTCGTGGT
*
8137649 CGGAGCCCGCAAGACAGCAAAGACTCGACAAATTTGGAACCCAATGAGGACCTTGAAATGCATCG
1 CGGAGCCCGCAAGACAGCAAAGACTCGACAAATTTGGAACCCAATAAGGACCTTGAAATGCATCG
8137714 CTCTTGCATGCACAGCAGTGCAAGACCAGAAGGCAATTATGACGGGAGTGGAAGCACTGGTGAAG
66 CTCTTGCATGCACAGCAGTGCAAGACCAGAAGGCAATTATGACGGGAGTGGAAGCACTGGTGAAG
*
8137779 AGAGCTCCAATGGAATTGAAAACCATGGCTGCGGTGAGAGAGAAGCTGACGACGTTCTGGGACCA
131 AGAGCACCAATGGAATTGAAAACCATGGCTGCGGTGAGAGAGAAGCTGACGACGTTCTGGGACCA
8137844 TACGAGTGGCTCGACAATGAAATAAAGCGCCTCACTAGTGCTCCCCTGCGC
196 TACGAGTGGCTCGACAATGAAATAAAGCGCCTCACTAGTGCTCCCCTGCGC
* *
8137895 CGGAGCCTGCAAGACAGCAAAGACTCGACAAATTTGGAACCCGATAAGGACCTTGAAATGCATCG
1 CGGAGCCCGCAAGACAGCAAAGACTCGACAAATTTGGAACCCAATAAGGACCTTGAAATGCATCG
8137960 CTCTTGCATGCACAGCAGTGCAAGACCAGAAGGCAATTATGACGGGAGTGGAAGCACTGGTGAAG
66 CTCTTGCATGCACAGCAGTGCAAGACCAGAAGGCAATTATGACGGGAGTGGAAGCACTGGTGAAG
* *
8138025 AGAGCACCAATGGAATTGAAATCCATGGCTGCGGTGAGAGAGAAGCTGACGAGGTTCTGGGACCA
131 AGAGCACCAATGGAATTGAAAACCATGGCTGCGGTGAGAGAGAAGCTGACGACGTTCTGGGACCA
*
8138090 TACGAGTGGCTCGACAATGAAATAAAGCGCCTCACTGGTGCTCCCCTGC
196 TACGAGTGGCTCGACAATGAAATAAAGCGCCTCACTAGTGCTCCCCTGC
8138139 AACCAAGTGG
Statistics
Matches: 237, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
246 237 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (246 bp):
CGGAGCCCGCAAGACAGCAAAGACTCGACAAATTTGGAACCCAATAAGGACCTTGAAATGCATCG
CTCTTGCATGCACAGCAGTGCAAGACCAGAAGGCAATTATGACGGGAGTGGAAGCACTGGTGAAG
AGAGCACCAATGGAATTGAAAACCATGGCTGCGGTGAGAGAGAAGCTGACGACGTTCTGGGACCA
TACGAGTGGCTCGACAATGAAATAAAGCGCCTCACTAGTGCTCCCCTGCGC
Found at i:8140271 original size:20 final size:20
Alignment explanation
Indices: 8140246--8140283 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8140236 AAGCCACTAG
8140246 CTTCTATATTGAAACTATAC
1 CTTCTATATTGAAACTATAC
8140266 CTTCTATATTGAAACTAT
1 CTTCTATATTGAAACTAT
8140284 CTGTGCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (20 bp):
CTTCTATATTGAAACTATAC
Found at i:8140518 original size:78 final size:78
Alignment explanation
Indices: 8140384--8140538 Score: 222
Period size: 78 Copynumber: 2.0 Consensus size: 78
8140374 TACTGCATTC
* ** *
8140384 ATCAACTCCCTGAAGGTACCATATAAGCATTAAATATTGTTTCGTGAAATATTTTTGATACATTC
1 ATCAACTCACTGAAGGTACCATATAAGCATTAAATATCATTTCGTGAAATAATTTTGATACATTC
8140449 CATAGCAACACTA
66 CATAGCAACACTA
* **
8140462 ATCAACTCACTGAATGTACCATACT-AGCATTAAATATCATTTCGTGAAATAATTTTGATGTATT
1 ATCAACTCACTGAAGGTACCATA-TAAGCATTAAATATCATTTCGTGAAATAATTTTGATACATT
*
8140526 TCATAGCAACACT
65 CCATAGCAACACT
8140539 CACTTGTGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 67 0.99
79 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (78 bp):
ATCAACTCACTGAAGGTACCATATAAGCATTAAATATCATTTCGTGAAATAATTTTGATACATTC
CATAGCAACACTA
Found at i:8145990 original size:17 final size:17
Alignment explanation
Indices: 8145970--8146018 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
8145960 TATAATTTTA
8145970 ATATATATTTAATATAT
1 ATATATATTTAATATAT
*
8145987 ATATATATATAATATA-
1 ATATATATTTAATATAT
*
8146003 AT-T-TATTAAATATAT
1 ATATATATTTAATATAT
8146018 A
1 A
8146019 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.32
15 2 0.07
16 2 0.07
17 15 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATTTAATATAT
Found at i:8146778 original size:2 final size:2
Alignment explanation
Indices: 8146773--8146805 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8146763 GAGCTCCAGG
8146773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8146806 AAGACATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8149712 original size:19 final size:18
Alignment explanation
Indices: 8149676--8149787 Score: 76
Period size: 17 Copynumber: 6.3 Consensus size: 18
8149666 TTAGATACGA
*
8149676 AATA-AAAAAATA-ATAT
1 AATATAAAATATATATAT
8149692 AATATAAATATATATATAT
1 AATATAAA-ATATATATAT
*
8149711 AATAT-AAAT-TAT-TAA
1 AATATAAAATATATATAT
* *
8149726 AATATCAAAATTTATATAA
1 AATAT-AAAATATATATAT
8149745 AATATTTAAAATATA-ATTAT
1 AATA--TAAAATATATA-TAT
* *
8149765 AATACAAAA-AAATATAT
1 AATATAAAATATATATAT
8149782 AATATA
1 AATATA
8149788 CGTGAATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
15 7 0.09
16 7 0.09
17 19 0.24
18 14 0.18
19 17 0.22
20 13 0.17
21 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATAAAATATATATAT
Found at i:8149730 original size:24 final size:22
Alignment explanation
Indices: 8149682--8149730 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 22
8149672 ACGAAATAAA
8149682 AAAATA-ATATAATATAAATAT
1 AAAATATATATAATATAAATAT
8149703 ---ATATATATAATATAAATTATT
1 AAAATATATATAATATAAA-TA-T
8149724 AAAATAT
1 AAAATAT
8149731 CAAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 9
0.71 0.00 0.29
Matches are distributed among these distances:
18 3 0.14
19 12 0.55
20 2 0.09
21 1 0.05
24 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATATATATAATATAAATAT
Found at i:8151379 original size:2 final size:2
Alignment explanation
Indices: 8151372--8151399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8151362 TATTGACCGT
8151372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8151400 AACTGTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8161846 original size:8 final size:8
Alignment explanation
Indices: 8161819--8161852 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
8161809 TTAATGATTT
8161819 TTATTAAAA
1 TTATT-AAA
8161828 TTATATAAA
1 TTAT-TAAA
8161837 TTATTAAA
1 TTATTAAA
8161845 TTATTAAA
1 TTATTAAA
8161853 AAATAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 11 0.46
10 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTATTAAA
Found at i:8162446 original size:5 final size:5
Alignment explanation
Indices: 8162436--8162462 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8162426 TTCTGAAGGT
8162436 TGTCC TGTCC TGTCC TGTCC TGTCC TG
1 TGTCC TGTCC TGTCC TGTCC TGTCC TG
8162463 CAATTATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.22, T:0.41
Consensus pattern (5 bp):
TGTCC
Found at i:8164161 original size:16 final size:16
Alignment explanation
Indices: 8164142--8164228 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
8164132 TAATTATATG
8164142 TATATAATAATATAAA
1 TATATAATAATATAAA
* *
8164158 TATATAAATATTTTAAA
1 TATAT-AATAATATAAA
*
8164175 -ATTTATATAATATAAA
1 TATATA-ATAATATAAA
** *
8164191 -ATATTTTAAATATAAT
1 TATATAAT-AATATAAA
8164207 TATA-ATATAATA-AAA
1 TATATA-ATAATATAAA
8164222 TATATAA
1 TATATAA
8164229 ATCAATTATC
Statistics
Matches: 53, Mismatches: 12, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
15 9 0.17
16 31 0.58
17 13 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATAATAATATAAA
Found at i:8164210 original size:27 final size:26
Alignment explanation
Indices: 8164147--8164216 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 26
8164137 ATATGTATAT
8164147 AATAA-TATAAATATATAAATATTTTAA
1 AATAATTAT-AATATA-AAATATTTTAA
*
8164174 AAT-TTATATAATATAAAATATTTTAA
1 AATAAT-TATAATATAAAATATTTTAA
8164200 ATATAATTATAATATAA
1 A-ATAATTATAATATAA
8164217 TAAAATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 12 0.32
27 21 0.57
28 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAATTATAATATAAAATATTTTAA
Found at i:8164222 original size:30 final size:29
Alignment explanation
Indices: 8164147--8164224 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 29
8164137 ATATGTATAT
8164147 AATAA-TATAA-AT-ATATAAATATTTTAA
1 AATAATTATAATATAATA-AAATATTTTAA
8164174 AAT--TTAT-ATA-ATATAAAATATTTTAA
1 AATAATTATAATATA-ATAAAATATTTTAA
8164200 ATATAATTATAATATAATAAAATAT
1 A-ATAATTATAATATAATAAAATAT
8164225 ATAAATCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
25 1 0.02
26 16 0.38
27 8 0.19
29 4 0.10
30 12 0.29
31 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AATAATTATAATATAATAAAATATTTTAA
Found at i:8165985 original size:21 final size:20
Alignment explanation
Indices: 8165956--8166009 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
8165946 AAATTACATC
*
8165956 AGTTCAAATATATTTAATTAAA
1 AGTT-AAATAAATTTAA-TAAA
*
8165978 ATTTAAATTAAATTTAATAAA
1 AGTTAAA-TAAATTTAATAAA
8165999 AGTTAAATAAA
1 AGTTAAATAAA
8166010 ATAAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.14
21 13 0.46
22 11 0.39
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
AGTTAAATAAATTTAATAAA
Found at i:8166011 original size:21 final size:22
Alignment explanation
Indices: 8165967--8166011 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
8165957 GTTCAAATAT
* *
8165967 ATTTAATTAAAATTTAAATTAA
1 ATTTAATTAAAAGTTAAATAAA
8165989 ATTTAA-TAAAAGTTAAATAAA
1 ATTTAATTAAAAGTTAAATAAA
8166010 AT
1 AT
8166012 AAAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTAATTAAAAGTTAAATAAA
Found at i:8166017 original size:21 final size:21
Alignment explanation
Indices: 8165974--8166017 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8165964 TATATTTAAT
* * **
8165974 TAAAATTTAAATTAAATTTAA
1 TAAAAGTTAAATAAAATAAAA
8165995 TAAAAGTTAAATAAAATAAAA
1 TAAAAGTTAAATAAAATAAAA
8166016 TA
1 TA
8166018 TTATAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAGTTAAATAAAATAAAA
Found at i:8166941 original size:43 final size:43
Alignment explanation
Indices: 8166854--8166941 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
8166844 AATCTTTATT
* *
8166854 AAACTCAAGTAAAATATTAATTTTTGTCATTCAATTAATAATA
1 AAACTCAAGTAAAATATTAATTTTTATCATTCAATTAACAATA
* *
8166897 AAACTCGAGTAAAATATTAATTTTTATCATTCAATTAACGATA
1 AAACTCAAGTAAAATATTAATTTTTATCATTCAATTAACAATA
8166940 AA
1 AA
8166942 TTTAATCACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (43 bp):
AAACTCAAGTAAAATATTAATTTTTATCATTCAATTAACAATA
Found at i:8167332 original size:2 final size:2
Alignment explanation
Indices: 8167325--8167354 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8167315 ATATGAAAGA
8167325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8167355 CATGGTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8170921 original size:3 final size:3
Alignment explanation
Indices: 8170915--8170940 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8170905 TTCCTTTTTT
8170915 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
8170941 TTTCATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8170998 original size:22 final size:23
Alignment explanation
Indices: 8170970--8171229 Score: 85
Period size: 23 Copynumber: 11.4 Consensus size: 23
8170960 ATTAAAAAAT
8170970 TAAAATAT-AATATTAAATATAA
1 TAAAATATAAATATTAAATATAA
8170992 TAAAATATAAATATTAAATATTAA
1 TAAAATATAAATATTAAATA-TAA
* *
8171016 -AAATTTATAAAAAATTAAA-A-AA
1 TAAA-ATAT-AAATATTAAATATAA
* *
8171038 TTTATAATAT-AATA-TAATATATTA
1 --TAAAATATAAATATTAA-ATATAA
*
8171062 TATAAATAT--ATATTAAAT-TATT
1 TA-AAATATAAATATTAAATATA-A
* *
8171084 TTAAATATAATTATATAAATATAA
1 TAAAATATAAATAT-TAAATATAA
* *
8171108 T-ATATA-AAATTGTTAAAATATAA
1 TAAAATATAAA-TATT-AAATATAA
* *
8171131 T-AAATATAAATATATATTTAAAATTTA
1 TAAAATATAAATAT-TA---AATA-TAA
8171158 TAAAATATAAATTATT-AATA-AA
1 TAAAATATAAAT-ATTAAATATAA
8171180 TTAAAAT-T-AATA-TAAATAT-A
1 -TAAAATATAAATATTAAATATAA
* *
8171200 TAATAA-ATAATTTTTAAA-A-AA
1 TAA-AATATAAATATTAAATATAA
8171221 TAAAATATA
1 TAAAATATA
8171230 TAAATAATTA
Statistics
Matches: 179, Mismatches: 23, Indels: 73
0.65 0.08 0.27
Matches are distributed among these distances:
19 4 0.02
20 11 0.06
21 23 0.13
22 31 0.17
23 54 0.30
24 24 0.13
25 13 0.07
26 3 0.02
27 3 0.02
28 11 0.06
29 2 0.01
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATATAAATATTAAATATAA
Found at i:8170999 original size:10 final size:10
Alignment explanation
Indices: 8170970--8171139 Score: 63
Period size: 10 Copynumber: 17.0 Consensus size: 10
8170960 ATTAAAAAAT
8170970 TAAAATATAA
1 TAAAATATAA
8170980 TATTAAATATAA
1 TA--AAATATAA
8170992 TAAAATATAAA
1 TAAAATAT-AA
8171003 TATTAAATATTAA
1 TA--AAATA-TAA
*
8171016 -AAATTTATAA
1 TAAA-ATATAA
8171026 -AAAAT-TAA
1 TAAAATATAA
8171034 -AAAATTTATAA
1 TAAAA--TATAA
*
8171045 TATAATATAA
1 TAAAATATAA
* *
8171055 TATATTAT-A
1 TAAAATATAA
*
8171064 TAAATATATAT
1 TAAA-ATATAA
* *
8171075 TAAATTAT-T
1 TAAAATATAA
*
8171084 TTAAATATAA
1 TAAAATATAA
* *
8171094 TTATATA-AA
1 TAAAATATAA
*
8171103 TATAATAT-A
1 TAAAATATAA
**
8171112 TAAAAT-TGT
1 TAAAATATAA
8171121 TAAAATATAA
1 TAAAATATAA
8171131 T-AAATATAA
1 TAAAATATAA
8171140 ATATATATTT
Statistics
Matches: 124, Mismatches: 19, Indels: 35
0.70 0.11 0.20
Matches are distributed among these distances:
8 8 0.06
9 38 0.31
10 43 0.35
11 13 0.10
12 14 0.11
13 7 0.06
14 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (10 bp):
TAAAATATAA
Found at i:8171012 original size:30 final size:26
Alignment explanation
Indices: 8170955--8171016 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 26
8170945 ATGTCATATA
8170955 ATTAAATTAAAAAATTAAAATATAAT
1 ATTAAATTAAAAAATTAAAATATAAT
8170981 ATTAAATATAATAAAA-TATAAATATTAAAT
1 ATTAAAT-TAA-AAAATTA-AAATA-T-AAT
8171011 ATTAAA
1 ATTAAA
8171017 AATTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.23
27 5 0.16
28 9 0.29
29 1 0.03
30 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTAAATTAAAAAATTAAAATATAAT
Found at i:8171091 original size:27 final size:27
Alignment explanation
Indices: 8171061--8171234 Score: 81
Period size: 27 Copynumber: 6.7 Consensus size: 27
8171051 ATAATATATT
8171061 ATATAAATATATATTAAATTATTTTAA
1 ATATAAATATATATTAAATTATTTTAA
8171088 ATAT-AAT-TATA-TAAA-TA---TAA
1 ATATAAATATATATTAAATTATTTTAA
* * **
8171108 TATATAAA-AT-TGTTAAAATATAATAA
1 -ATATAAATATATATTAAATTATTTTAA
8171134 ATATAAATATATATTTAAA--ATTTATAAA
1 ATATAAATATATA-TTAAATTATTT-T-AA
* **
8171162 ATATAAAT-TATTAATAAATTAAAATT-A
1 ATATAAATATA-TATTAAATT-ATTTTAA
* *
8171189 ATATAAATATATAATAAATAATTTTTAAA
1 ATATAAATATATATTAAATTA-TTTT-AA
*
8171218 AAATAAA-ATATA-TAAAT
1 ATATAAATATATATTAAAT
8171235 AATTATATCT
Statistics
Matches: 115, Mismatches: 11, Indels: 42
0.68 0.07 0.25
Matches are distributed among these distances:
20 3 0.03
21 5 0.04
22 7 0.06
23 4 0.03
24 4 0.03
25 11 0.10
26 11 0.10
27 36 0.31
28 24 0.21
29 8 0.07
30 2 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
ATATAAATATATATTAAATTATTTTAA
Found at i:8171153 original size:37 final size:35
Alignment explanation
Indices: 8171053--8171167 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 35
8171043 AATATAATAT
*
8171053 AATAT-ATTATATAAATATATA-TTAAATTATTTT-A
1 AATATAATAATATAAATATATATTTAAA--ATTTTAA
* *
8171087 AATATAATTATATAAATATAATATATAAAATTGTTAA
1 AATATAATAATATAAATAT-ATATTTAAAATT-TTAA
8171124 AATATAATAAATATAAATATATATTTAAAATTTATAA
1 AATATAAT-AATATAAATATATATTTAAAATTT-TAA
8171161 AATATAA
1 AATATAA
8171168 ATTATTAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
34 5 0.07
35 16 0.23
36 6 0.08
37 34 0.48
38 10 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (35 bp):
AATATAATAATATAAATATATATTTAAAATTTTAA
Found at i:8180147 original size:2 final size:2
Alignment explanation
Indices: 8180135--8180171 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8180125 CTAGTGAAAG
* *
8180135 TA TA TA AA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8180172 TAGAACATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8181032 original size:4 final size:4
Alignment explanation
Indices: 8181023--8181064 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
8181013 AACATATTAA
*
8181023 AAAT AAAT AAAT AAAT AAAT AACAT GAAA- AAAA AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT A
8181065 TAATTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
3 3 0.09
4 26 0.76
5 3 0.09
6 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:8183616 original size:18 final size:20
Alignment explanation
Indices: 8183589--8183631 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
8183579 TCACCGCATT
*
8183589 ATAAACAAAA-ATAA-ATAA
1 ATAAACAAAAGATAATAAAA
*
8183607 ATAAATAAAAGATAATAAAA
1 ATAAACAAAAGATAATAAAA
8183627 ATAAA
1 ATAAA
8183632 ATATTTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
ATAAACAAAAGATAATAAAA
Found at i:8183941 original size:3 final size:3
Alignment explanation
Indices: 8183933--8183967 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8183923 TGAAATTTGA
8183933 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8183968 AAGGATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8184114 original size:2 final size:2
Alignment explanation
Indices: 8184107--8184131 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8184097 CAGAAGCAGT
8184107 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
8184132 TGTGTGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8184371 original size:18 final size:18
Alignment explanation
Indices: 8184332--8184373 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8184322 ATCCCAATAT
8184332 TTAAAA-ATTAAATTTTA
1 TTAAAATATTAAATTTTA
*
8184349 ATAAAATATATAAA-TTTA
1 TTAAAATAT-TAAATTTTA
8184367 TTAAAAT
1 TTAAAAT
8184374 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATATTAAATTTTA
Found at i:8185162 original size:23 final size:24
Alignment explanation
Indices: 8185119--8185170 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
8185109 TCAAAATTTA
8185119 TAATAAATTTTAAAAACTAA-TATT
1 TAATAAATTTTAAAAACTAATTA-T
**
8185143 TAATAAA-TTTAAAATTTAATTAT
1 TAATAAATTTTAAAAACTAATTAT
8185166 TAATA
1 TAATA
8185171 TTTACAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAAATTTTAAAAACTAATTAT
Found at i:8186542 original size:2 final size:2
Alignment explanation
Indices: 8186537--8186573 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8186527 TTAAACATTG
8186537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8186574 AAGAAGGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8189840 original size:126 final size:127
Alignment explanation
Indices: 8189601--8189840 Score: 306
Period size: 126 Copynumber: 1.9 Consensus size: 127
8189591 TGTGCTCTTC
* *
8189601 TATCGTTGTGCATATATGGATGATGATCATGGTCCTTCCATGTGATTTTGAAACATCTACTTTGC
1 TATCGTTGTGCATATATGGATGATGATCATGGTCCGTACATGTGATTTTGAAACATCTACTTTGC
* * * *
8189666 ATCAGAAAAAAATTAACGATTGGCTCTTGTTGAGAGTCGAACTTAAGACCTCTATACCCAGA
66 ATCACAAAAAAATTAACAATTGGCTCTCGTTGAGAGTCGAACTCAAGACCTCTATACCCAGA
* * * * * *
8189728 TATCGTTGTGCATATATGGGTGATGATCATGTTTCGTACATGTGA-TTTGAAACGTTTGCTTTGC
1 TATCGTTGTGCATATATGGATGATGATCATGGTCCGTACATGTGATTTTGAAACATCTACTTTGC
* * *
8189792 ATTACAAAAAGATT-ACTAATAT-GCTCTCGTTGAGAGTCGTACTCAAGAC
66 ATCACAAAAAAATTAAC-AAT-TGGCTCTCGTTGAGAGTCGAACTCAAGAC
8189841 GTCCCGGTTA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
125 2 0.02
126 53 0.55
127 41 0.43
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (127 bp):
TATCGTTGTGCATATATGGATGATGATCATGGTCCGTACATGTGATTTTGAAACATCTACTTTGC
ATCACAAAAAAATTAACAATTGGCTCTCGTTGAGAGTCGAACTCAAGACCTCTATACCCAGA
Found at i:8190855 original size:17 final size:17
Alignment explanation
Indices: 8190833--8190865 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8190823 TTAATATTTA
8190833 ATATTTATATTATATTC
1 ATATTTATATTATATTC
*
8190850 ATATTTTTATTATATT
1 ATATTTATATTATATT
8190866 AAAATTATTT
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:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTATATTATATTC
Found at i:8190909 original size:18 final size:18
Alignment explanation
Indices: 8190888--8190938 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
8190878 AAAATATTCT
8190888 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
8190906 ATATATTA-AT-AA-TTT-
1 ATAT-TTATATAAATTTTA
8190921 ATA-TTATATAAATTTTA
1 ATATTTATATAAATTTTA
8190938 A
1 A
8190939 AAAATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
13 3 0.11
14 2 0.07
15 5 0.18
16 6 0.21
17 3 0.11
18 6 0.21
19 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:8194431 original size:5 final size:5
Alignment explanation
Indices: 8194404--8194446 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
8194394 GGGAAATAAA
*
8194404 AAAGG AAATGG -AAGG AAAAG AAAGG AAAGG AAAGG AAAAGG AA
1 AAAGG AAA-GG AAAGG AAAGG AAAGG AAAGG AAAGG -AAAGG AA
8194447 GAGATCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 2 0.06
5 24 0.73
6 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (5 bp):
AAAGG
Found at i:8198530 original size:14 final size:16
Alignment explanation
Indices: 8198499--8198533 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
8198489 ATTTTACAAA
8198499 ATTTTTATATATTTAT
1 ATTTTTATATATTTAT
8198515 ATTTTT-TATA-TTAT
1 ATTTTTATATATTTAT
8198529 ATTTT
1 ATTTT
8198534 GCACCATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTATATATTTAT
Found at i:8199626 original size:19 final size:19
Alignment explanation
Indices: 8199604--8199640 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8199594 ATTTTGATCA
8199604 TTCATA-TATCATAATATTC
1 TTCATATTAT-ATAATATTC
8199623 TTCATATTATATAATATT
1 TTCATATTATATAATATT
8199641 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTCATATTATATAATATTC
Found at i:8199684 original size:27 final size:29
Alignment explanation
Indices: 8199626--8199683 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 29
8199616 AATATTCTTC
8199626 ATATTATATAATATTTTAATTATTTTTAT
1 ATATTATATAATATTTTAATTATTTTTAT
8199655 ATATTAT-TAA-A-TTT-ATTATTTTTAT
1 ATATTATATAATATTTTAATTATTTTTAT
8199680 ATAT
1 ATAT
8199684 AAGAGTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 15 0.52
26 3 0.10
27 1 0.03
28 3 0.10
29 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
ATATTATATAATATTTTAATTATTTTTAT
Found at i:8202232 original size:44 final size:44
Alignment explanation
Indices: 8202136--8202233 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
8202126 ATTTTTTTTT
* ** *
8202136 TAAATATTTATTTTTGACATTTATATTTTACATACATTTTGATT
1 TAAATATTTATTTTTGACATTTATATTTTACAAACATTTAAATA
* * *
8202180 TAAATATTTATTTTTTATATTTATATTTTACAAATATTTAAATA
1 TAAATATTTATTTTTGACATTTATATTTTACAAACATTTAAATA
*
8202224 TAATTATTTA
1 TAAATATTTA
8202234 AATTTAAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (44 bp):
TAAATATTTATTTTTGACATTTATATTTTACAAACATTTAAATA
Found at i:8202233 original size:14 final size:14
Alignment explanation
Indices: 8202211--8202247 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8202201 TATATTTTAC
8202211 AAATATTTAAATAT
1 AAATATTTAAATAT
* *
8202225 AATTATTTAAATTT
1 AAATATTTAAATAT
8202239 AAATATTTA
1 AAATATTTA
8202248 TTTTTGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATATTTAAATAT
Found at i:8203523 original size:32 final size:35
Alignment explanation
Indices: 8203446--8203523 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
8203436 TTAAATTTTT
8203446 ATTTAAATTTAATTATAATTATTAATATAAAATATA
1 ATTTAAATTTAATTATAATTATT-ATATAAAATATA
*
8203482 AGTTT-AATTT-ATTATTATTATT-T-T-AAATAATA
1 A-TTTAAATTTAATTATAATTATTATATAAAAT-ATA
8203514 ATTTAAATTT
1 ATTTAAATTT
8203524 TTAAATTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
31 7 0.18
32 10 0.26
33 1 0.03
35 11 0.29
36 6 0.16
37 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
ATTTAAATTTAATTATAATTATTATATAAAATATA
Found at i:8205297 original size:2 final size:2
Alignment explanation
Indices: 8205292--8205322 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8205282 GTTGTGTGTG
*
8205292 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8205323 GTGTGTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8205440 original size:3 final size:3
Alignment explanation
Indices: 8205434--8205467 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8205424 ATAAGACGAC
* *
8205434 GGA GGA GGA GGA GGA GGA GGG GGA GGA TGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
8205468 ATCTTTGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.68, T:0.03
Consensus pattern (3 bp):
GGA
Found at i:8207323 original size:2 final size:2
Alignment explanation
Indices: 8207316--8207345 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8207306 CCCCTGTGAA
8207316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8207346 TAGATTGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8211177 original size:2 final size:2
Alignment explanation
Indices: 8211170--8211207 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8211160 TGGCTAGGCC
8211170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8211208 AAGTCATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8211519 original size:32 final size:32
Alignment explanation
Indices: 8211477--8211539 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
8211467 TATATTATAT
*
8211477 TTATATAAATTTT-ATCATATTAATAATTTTTA
1 TTATAAAAATTTTAAT-ATATTAATAATTTTTA
* *
8211509 TTATAAAAATTTTAATATATTTATATTTTTT
1 TTATAAAAATTTTAATATATTAATAATTTTT
8211540 TAATATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TTATAAAAATTTTAATATATTAATAATTTTTA
Found at i:8211540 original size:19 final size:21
Alignment explanation
Indices: 8211518--8211558 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8211508 ATTATAAAAA
8211518 TTTTAATA-TAT-TTATATTT
1 TTTTAATATTATATTATATTT
8211537 TTTTAATATTATATTATATTT
1 TTTTAATATTATATTATATTT
8211558 T
1 T
8211559 AATAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATATTATATTATATTT
Found at i:8211564 original size:21 final size:19
Alignment explanation
Indices: 8211521--8211573 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
8211511 ATAAAAATTT
**
8211521 TAATATATTTATATTTTTT
1 TAATATATTTATATTTTAA
8211540 TAATATTATATTATATTTTAA
1 TAATA-TAT-TTATATTTTAA
*
8211561 TAAT-TCTTTATAT
1 TAATATATTTATAT
8211574 AATATTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 7 0.24
20 3 0.10
21 13 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATATATTTATATTTTAA
Found at i:8211573 original size:18 final size:18
Alignment explanation
Indices: 8211529--8211562 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8211519 TTTAATATAT
8211529 TTATATT-T-TTTTAATA
1 TTATATTATATTTTAATA
8211545 TTATATTATATTTTAATA
1 TTATATTATATTTTAATA
8211563 ATTCTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTATATTTTAATA
Found at i:8214182 original size:14 final size:15
Alignment explanation
Indices: 8214156--8214185 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8214146 TATAACCAAA
8214156 TCAATTAATTTTAAT
1 TCAATTAATTTTAAT
8214171 TCAATT-ATTTTAAT
1 TCAATTAATTTTAAT
8214185 T
1 T
8214186 ATTTGGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TCAATTAATTTTAAT
Found at i:8215491 original size:23 final size:23
Alignment explanation
Indices: 8215449--8215514 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
8215439 TATTATTTAA
*
8215449 AAATATTAAAATAATATTTTTATAT
1 AAATATTTAAAT-A-ATTTTTATAT
*
8215474 AAATATTTATAT-ATTTTTAT-T
1 AAATATTTAAATAATTTTTATAT
*
8215495 AATAAATTTAAATAATTTTT
1 AA-ATATTTAAATAATTTTT
8215515 TTTATTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.09
22 16 0.46
23 6 0.17
25 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATTTAAATAATTTTTATAT
Found at i:8215503 original size:22 final size:22
Alignment explanation
Indices: 8215461--8215524 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
8215451 ATATTAAAAT
*
8215461 AATATTTTTATATAA-ATATTTA
1 AATATTTTTAT-TAATAAATTTA
*
8215483 TATATTTTTATTAATAAATTTA
1 AATATTTTTATTAATAAATTTA
* *
8215505 AATAATTTTTTTTATTAAAT
1 AAT-ATTTTTATTAATAAAT
8215525 AAATAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.09
22 18 0.51
23 14 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATATTTTTATTAATAAATTTA
Found at i:8217746 original size:13 final size:13
Alignment explanation
Indices: 8217728--8217752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8217718 TTATTTGTAA
8217728 GATTTGTAAATTC
1 GATTTGTAAATTC
8217741 GATTTGTAAATT
1 GATTTGTAAATT
8217753 TTTATGGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
GATTTGTAAATTC
Found at i:8218402 original size:2 final size:2
Alignment explanation
Indices: 8218395--8218420 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8218385 AGAAAAATTC
8218395 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8218421 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8218974 original size:31 final size:33
Alignment explanation
Indices: 8218928--8218989 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
8218918 ATTTTTACAT
8218928 AATTATAAATATAAAT-ATA-ATATATTATATC
1 AATTATAAATATAAATGATATATATATTATATC
* * *
8218959 AATTATTAATTTAAATGATATTTATATTATA
1 AATTATAAATATAAATGATATATATATTATA
8218990 AATAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 14 0.54
32 3 0.12
33 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
AATTATAAATATAAATGATATATATATTATATC
Found at i:8223885 original size:23 final size:22
Alignment explanation
Indices: 8223842--8223885 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
8223832 TAAAATTAAT
* *
8223842 ATGATAAAATTTATCTCATTTA
1 ATGATAAAATATATATCATTTA
*
8223864 ATGAGTAAAATATATATTATTT
1 ATGA-TAAAATATATATCATTT
8223886 TATTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (22 bp):
ATGATAAAATATATATCATTTA
Found at i:8224522 original size:18 final size:19
Alignment explanation
Indices: 8224494--8224529 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8224484 AGTATTGTTC
8224494 TAAAAATAAAAAAATAAAT
1 TAAAAATAAAAAAATAAAT
*
8224513 TAAAAA-AAAAAGATAAA
1 TAAAAATAAAAAAATAAA
8224530 AGGATAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
TAAAAATAAAAAAATAAAT
Found at i:8227438 original size:35 final size:35
Alignment explanation
Indices: 8227387--8227460 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
8227377 TGTGTTGGAT
* *
8227387 TTTATTTTATTTTTTAAGATAA-ATTTAA-ATAAAAA
1 TTTATTTTATTATTTAAAATAATA-TTAATA-AAAAA
8227422 TTTATTTTATTATTTAAAATAATATTAATAAAAAA
1 TTTATTTTATTATTTAAAATAATATTAATAAAAAA
8227457 TTTA
1 TTTA
8227461 AAAACTTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
TTTATTTTATTATTTAAAATAATATTAATAAAAAA
Found at i:8228617 original size:14 final size:14
Alignment explanation
Indices: 8228600--8228626 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8228590 TTATGAAATT
8228600 ATTTTATTTTTTAA
1 ATTTTATTTTTTAA
8228614 ATTTTATTTTTTA
1 ATTTTATTTTTTA
8228627 TAAATGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTATTTTTTAA
Found at i:8229677 original size:20 final size:20
Alignment explanation
Indices: 8229612--8229686 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
8229602 TTATATTAAT
8229612 TTTATAATTAAATTTAAATAAA
1 TTTA-AATTAAA-TTAAATAAA
*
8229634 TATTTAATT-AATTAAATAATAA
1 T-TTAAATTAAATTAAAT-A-AA
*
8229656 TTTAAATTAAATTAAATCAA
1 TTTAAATTAAATTAAATAAA
*
8229676 TTTAATTTAAA
1 TTTAAATTAAA
8229687 AAAAACTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.40
21 9 0.20
22 16 0.36
23 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAATTAAATTAAATAAA
Found at i:8231799 original size:21 final size:26
Alignment explanation
Indices: 8231783--8231838 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 26
8231773 TAAAATTATT
*
8231783 ATTTAATTAATAAAAATAATTAATTTAA
1 ATTTAATT-AT-AAAATTATTAATTTAA
8231811 ATTTAATTATAAAATTATGTAATATTAA
1 ATTTAATTATAAAATTAT-TAAT-TTAA
8231839 TATATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 6 0.24
28 12 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTAATTATAAAATTATTAATTTAA
Found at i:8236002 original size:2 final size:2
Alignment explanation
Indices: 8235997--8236036 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8235987 CCTGAAGAAG
8235997 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8236037 AAGTTTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8241591 original size:2 final size:2
Alignment explanation
Indices: 8241584--8241608 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8241574 AAGAGGAAAC
8241584 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8241609 AGTTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8249654 original size:21 final size:20
Alignment explanation
Indices: 8249630--8249670 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
8249620 TTTTTAATTA
8249630 ATCAAATATTTATATATTTAT
1 ATCAAATATTTATAT-TTTAT
*
8249651 ATCATATATTTATATTTTAT
1 ATCAAATATTTATATTTTAT
8249671 TTATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
ATCAAATATTTATATTTTAT
Done.