Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 115 of 203
Found at i:36215285 original size:194 final size:194
Alignment explanation
Indices: 36214956--36215343 Score: 695
Period size: 194 Copynumber: 2.0 Consensus size: 194
36214946 ATTGAGGATA
* * * *
36214956 TTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTC
1 TTACAGCTGGCAACCCATCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCACACCTC
36215021 AAATCAATAGTCTTGCTTTTGAAATTCACAACCGCATCATGCGCGGTCAACCAATCCAAACCAAG
66 AAATCAATAGTCTTGCTTTTGAAATTCACAACCGCATCATGCGCGGTCAACCAATCCAAACCAAG
36215086 AATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATT
131 AATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATT
36215150 TTACAGCTGGCAACCCATCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCACACCTC
1 TTACAGCTGGCAACCCATCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCACACCTC
* * * *
36215215 AAATCAATAGTCTTGCTTTTGCAGTTCACAACTGCATCATGCGCGGTCAGCCAATCCAAACCAAG
66 AAATCAATAGTCTTGCTTTTGAAATTCACAACCGCATCATGCGCGGTCAACCAATCCAAACCAAG
*
36215280 AATAACATCAAATTCATCAAATGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATT
131 AATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATT
36215344 ACTAGGGGAC
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 185 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (194 bp):
TTACAGCTGGCAACCCATCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCACACCTC
AAATCAATAGTCTTGCTTTTGAAATTCACAACCGCATCATGCGCGGTCAACCAATCCAAACCAAG
AATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATT
Found at i:36217234 original size:61 final size:61
Alignment explanation
Indices: 36217158--36217280 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
36217148 GAAACTAGAC
*
36217158 TCATATGTCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTA
1 TCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTA
36217219 TCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTA
1 TCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTA
36217280 T
1 T
36217281 TAGTCAAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (61 bp):
TCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTA
Found at i:36218497 original size:79 final size:81
Alignment explanation
Indices: 36218395--36218578 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
36218385 GCTCCTCGTT
* *
36218395 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
36218457 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
36218475 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
36218539 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
36218555 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36218579 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:36218512 original size:39 final size:41
Alignment explanation
Indices: 36218395--36218578 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
36218385 GCTCCTCGTT
* *
36218395 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
36218435 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
36218475 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
36218514 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
36218555 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36218579 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:36221973 original size:62 final size:62
Alignment explanation
Indices: 36221898--36222021 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
36221888 CAAAAACACA
36221898 TCCAAATGTTTAAATTTCTAATTTGGATATATTTTAGCTTAATAGTTTACTTATTATTTTTC
1 TCCAAATGTTTAAATTTCTAATTTGGATATATTTTAGCTTAATAGTTTACTTATTATTTTTC
36221960 TCCAAATGTTTAAATTTCTAATTTGGATATATTTTAGCTTAATAGTTTACTTATTATTTTTC
1 TCCAAATGTTTAAATTTCTAATTTGGATATATTTTAGCTTAATAGTTTACTTATTATTTTTC
36222022 AGTTTTAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (62 bp):
TCCAAATGTTTAAATTTCTAATTTGGATATATTTTAGCTTAATAGTTTACTTATTATTTTTC
Found at i:36222479 original size:9 final size:9
Alignment explanation
Indices: 36222465--36222579 Score: 76
Period size: 9 Copynumber: 12.6 Consensus size: 9
36222455 TAAAAATATA
36222465 ATAACCTAC
1 ATAACCTAC
36222474 ATAACCTAC
1 ATAACCTAC
*
36222483 ATATA-ATAC
1 ATA-ACCTAC
36222492 ATAACCTAC
1 ATAACCTAC
*
36222501 ATAACTTAC
1 ATAACCTAC
*
36222510 ATATA-ATAC
1 ATA-ACCTAC
*
36222519 ATATA-ATAC
1 ATA-ACCTAC
* *
36222528 ATAACTTATTA
1 ATAACCTA--C
36222539 ATAACCTAC
1 ATAACCTAC
*
36222548 ATAACTTAC
1 ATAACCTAC
*
36222557 ATATA-ATAC
1 ATA-ACCTAC
36222566 ATAACCTAC
1 ATAACCTAC
36222575 ATAAC
1 ATAAC
36222580 TTACCGGGAT
Statistics
Matches: 87, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.03
9 74 0.85
10 3 0.03
11 7 0.08
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAACCTAC
Found at i:36222494 original size:18 final size:18
Alignment explanation
Indices: 36222471--36222577 Score: 103
Period size: 18 Copynumber: 5.8 Consensus size: 18
36222461 TATAATAACC
36222471 TACATAACCTACATATAA
1 TACATAACCTACATATAA
*
36222489 TACATAACCTACATA-ACT
1 TACATAACCTACATATA-A
*
36222507 TACATATA-ATACATATAA
1 TACATA-ACCTACATATAA
* *
36222525 TACATAACTTA-TTAATAA
1 TACATAACCTACAT-ATAA
*
36222543 CCTACATAACTTACATATAA
1 --TACATAACCTACATATAA
36222563 TACATAACCTACATA
1 TACATAACCTACATA
36222578 ACTTACCGGG
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
17 3 0.04
18 53 0.72
19 2 0.03
20 15 0.20
21 1 0.01
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (18 bp):
TACATAACCTACATATAA
Found at i:36222496 original size:27 final size:27
Alignment explanation
Indices: 36222465--36222579 Score: 138
Period size: 27 Copynumber: 4.5 Consensus size: 27
36222455 TAAAAATATA
36222465 ATAACCTACATAACCTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
*
36222492 ATAACCTACATAACTTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
*
36222519 ATATA-ATACATAA-CT---TAT--TA-
1 ATA-ACCTACATAACCTACATATAATAC
*
36222539 ATAACCTACATAACTTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
36222566 ATAACCTACATAAC
1 ATAACCTACATAAC
36222580 TTACCGGGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
19 1 0.01
20 10 0.14
21 3 0.04
23 3 0.04
24 3 0.04
26 3 0.04
27 50 0.68
28 1 0.01
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (27 bp):
ATAACCTACATAACCTACATATAATAC
Found at i:36222550 original size:47 final size:47
Alignment explanation
Indices: 36222492--36222582 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 47
36222482 CATATAATAC
36222492 ATAACCTACATAACTTACATATAATACATATA-ATACATAACTTATTA
1 ATAACCTACATAACTTACATATAATACATA-ACATACATAACTTATTA
*
36222539 ATAACCTACATAACTTACATATAATACATAACCTACATAACTTA
1 ATAACCTACATAACTTACATATAATACATAACATACATAACTTA
36222583 CCGGGATGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (47 bp):
ATAACCTACATAACTTACATATAATACATAACATACATAACTTATTA
Found at i:36222634 original size:39 final size:40
Alignment explanation
Indices: 36222575--36222650 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
36222565 CATAACCTAC
*
36222575 ATAACTTACCGGGATGTATATTATATCTTAA-TTACACTT
1 ATAACTTACCGGGATATATATTATATCTTAACTTACACTT
36222614 ATAACTTACCGGGATATATATTATATCTTAACTTACA
1 ATAACTTACCGGGATATATATTATATCTTAACTTACA
36222651 TAACTTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (40 bp):
ATAACTTACCGGGATATATATTATATCTTAACTTACACTT
Found at i:36222654 original size:9 final size:9
Alignment explanation
Indices: 36222642--36222678 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36222632 TATTATATCT
36222642 TAACTTACA
1 TAACTTACA
36222651 TAACTTACA
1 TAACTTACA
36222660 TAACTTACA
1 TAACTTACA
*
36222669 TAGCTTACA
1 TAACTTACA
36222678 T
1 T
36222679 TATACTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (9 bp):
TAACTTACA
Found at i:36222792 original size:91 final size:88
Alignment explanation
Indices: 36222695--36222891 Score: 211
Period size: 91 Copynumber: 2.2 Consensus size: 88
36222685 TATTCCTACA
* * *
36222695 TACATAAACTTACATAA-TACATAG-CTTATATATCTTAAATTTATCAATCATATCATAATTTAC
1 TACAT-AACTTACATAACTACATAGACTTACATAACTTAAA-TAAT-AA-CATA-CATAATTTAC
36222758 ATACATAAATATTAATCATATCACAACT
61 ATACATAAATATTAATCATATCACAACT
* * *
36222786 TACATAA-TGAACATAACCTACATAGTAACTTACATAACTTACATAATAACTTACATAATTTACA
1 TACATAACT-TACATAA-CTACATAG--ACTTACATAACTTAAATAATAACATACATAATTTACA
* **
36222850 TACATAAATATTAATTATATCTTAACT
62 TACATAAATATTAATCATATCACAACT
36222877 TACATAACTTACATA
1 TACATAACTTACATA
36222892 GCTTAATTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 8 0.09
91 52 0.58
92 11 0.12
93 2 0.02
94 3 0.03
95 12 0.13
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (88 bp):
TACATAACTTACATAACTACATAGACTTACATAACTTAAATAATAACATACATAATTTACATACA
TAAATATTAATCATATCACAACT
Found at i:36222843 original size:12 final size:12
Alignment explanation
Indices: 36222798--36222844 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
36222788 CATAATGAAC
*
36222798 ATAACCTACATA
1 ATAACTTACATA
*
36222810 GTAACTTAC---
1 ATAACTTACATA
36222819 ATAACTTACATA
1 ATAACTTACATA
36222831 ATAACTTACATA
1 ATAACTTACATA
36222843 AT
1 AT
36222845 TTACATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.28
12 21 0.72
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:36222848 original size:21 final size:21
Alignment explanation
Indices: 36222796--36222891 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 21
36222786 TACATAATGA
* *
36222796 ACATAACCTACATAGTAACTT
1 ACATAACTTACATAATAACTT
36222817 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
* *
36222838 ACATAATTTACATACATAA-AT
1 ACATAACTTACATA-ATAACTT
* * **
36222859 A-TTAA-TTATATCTTAACTT
1 ACATAACTTACATAATAACTT
36222878 ACATAACTTACATA
1 ACATAACTTACATA
36222892 GCTTAATTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.05
19 7 0.12
20 6 0.10
21 39 0.66
22 4 0.07
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:36225684 original size:21 final size:20
Alignment explanation
Indices: 36225658--36225709 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
36225648 CTACAACTTA
*
36225658 AAGCAGAGGTGACAGCGAGGG
1 AAGCAGAGGTG-CAGCGAGAG
36225679 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
36225700 AAGCAGAGGT
1 AAGCAGAGGT
36225710 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:36225771 original size:21 final size:20
Alignment explanation
Indices: 36225745--36225796 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
36225735 CTACAACTTA
*
36225745 AAGCAGAGGTGACAGCGAGGG
1 AAGCAGAGGTG-CAGCGAGAG
36225766 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
36225787 AAGCAGAGGT
1 AAGCAGAGGT
36225797 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:36225858 original size:21 final size:20
Alignment explanation
Indices: 36225832--36225883 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
36225822 CTACAACTTA
*
36225832 AAGCAGAGGTGACAGCGAGGG
1 AAGCAGAGGTG-CAGCGAGAG
36225853 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
36225874 AAGCAGAGGT
1 AAGCAGAGGT
36225884 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:36225947 original size:87 final size:87
Alignment explanation
Indices: 36225618--36225925 Score: 598
Period size: 87 Copynumber: 3.5 Consensus size: 87
36225608 GAACACAGTT
*
36225618 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
36225683 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTGCAGCGAGAGAAGCA
36225705 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
36225770 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTGCAGCGAGAGAAGCA
36225792 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
36225857 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTGCAGCGAGAGAAGCA
*
36225879 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGA
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGA
36225926 TGCGGCATCG
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 219 1.00
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGACAGCGAGGGAAGC
AGAGGCTGCAGCGAGAGAAGCA
Found at i:36226349 original size:44 final size:44
Alignment explanation
Indices: 36226299--36226397 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 44
36226289 AGCATGACCA
*
36226299 TAGCGGCGTTTGTGGAAAAAAACACCG-TTAAAGAACATTA-CTT
1 TAGCGGCGTTTGTGG-AAAAAACACCGCTAAAAGAACATTACCTT
** *
36226342 GTAGCGGCGTTTGTGGAAAATGCGCCGCTAAAAGAACATTACCTT
1 -TAGCGGCGTTTGTGGAAAAAACACCGCTAAAAGAACATTACCTT
36226387 TAGCGGCGTTT
1 TAGCGGCGTTT
36226398 CTGAGAAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 8 0.16
44 38 0.78
45 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TAGCGGCGTTTGTGGAAAAAACACCGCTAAAAGAACATTACCTT
Found at i:36226428 original size:42 final size:41
Alignment explanation
Indices: 36226327--36226523 Score: 193
Period size: 42 Copynumber: 4.7 Consensus size: 41
36226317 AAAACACCGT
* *
36226327 TAAAGAACATTA-CTTGTAGCGGCGTTTGTG-GAAAATGCGCCGC
1 TAAAGAACATGACCTT-TAGCGGCGTTTTTGTG--AA-GCGCCGC
* * * *
36226370 TAAAAGAACATTACCTTTAGCGGCGTTTCTGAGAAAGTGCCGC
1 T-AAAGAACATGACCTTTAGCGGCGTTTTTGTG-AAGCGCCGC
* * * *
36226413 TAAAGAACATGACCTTTAACGG-GATTTTTTTTGAAGCGTCGT
1 TAAAGAACATGACCTTTAGCGGCG--TTTTTGTGAAGCGCCGC
*
36226455 TAAAGAACATGACCTTTAGCGGCGTTTTTTTTGAAGCGCCGC
1 TAAAGAACATGACCTTTAGCGGCG-TTTTTGTGAAGCGCCGC
36226497 TAAAGAACATGACCTTTAGCGGCGTTT
1 TAAAGAACATGACCTTTAGCGGCGTTT
36226524 ATTTCTGTAA
Statistics
Matches: 135, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
41 4 0.03
42 86 0.64
43 14 0.10
44 27 0.20
45 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (41 bp):
TAAAGAACATGACCTTTAGCGGCGTTTTTGTGAAGCGCCGC
Found at i:36231195 original size:4 final size:4
Alignment explanation
Indices: 36231186--36231235 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
36231176 ATTATCTAAC
36231186 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
36231234 GT
1 GT
36231236 GAAGCTATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:36235824 original size:38 final size:37
Alignment explanation
Indices: 36235754--36235826 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
36235744 CTTTCATAAT
*
36235754 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
36235791 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
36235827 TTCCACAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
Found at i:36236014 original size:51 final size:50
Alignment explanation
Indices: 36235947--36236142 Score: 184
Period size: 51 Copynumber: 3.9 Consensus size: 50
36235937 CAATGATGTT
* * *
36235947 CGGTTCACATAGTAGCCTGCACATAGTGCTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTA-CATC
* * * * *
36235998 CGATTA-ACGTAGTAGCCTGTACATAGTACTACACACGTGATCGA-AACTATC
1 CG-GTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATTAC-ATC
** * * * *
36236049 CGGTATGCATAGTAGCCTACACATAGTACTACACATGCGACCTATTA-TTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATTACATC
36236099 CGGTACACGTAGTAGCCTGCACATAGTACTACACACT-TGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACA-TGTGACCAT
36236143 CACTTTCACT
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.02
50 41 0.36
51 68 0.59
52 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACATC
Found at i:36247656 original size:22 final size:22
Alignment explanation
Indices: 36247601--36247659 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
36247591 ATACACGTAC
* *
36247601 ATATTTTTATA-ACTTATTTAT
1 ATATTTTTATATACATACTTAT
*
36247622 ATATATATT-TATACATACTTAT
1 ATAT-TTTTATATACATACTTAT
36247644 ATATTTTTATATACAT
1 ATATTTTTATATACAT
36247660 TATAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTTATATACATACTTAT
Found at i:36247672 original size:18 final size:18
Alignment explanation
Indices: 36247623--36247672 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
36247613 CTTATTTATA
*
36247623 TATATATTTATACATACT
1 TATATATTTATATATACT
*
36247641 TATATATTTTTATATACAT
1 TATATATTTATATATAC-T
36247660 TATA-ATTTATATA
1 TATATATTTATATA
36247673 CATAACGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATTTATATATACT
Found at i:36247808 original size:34 final size:37
Alignment explanation
Indices: 36247765--36247834 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
36247755 TACCCTTTTT
*
36247765 ACATATATTTTTT-T-TAT-TTTTATAATTCATATAC
1 ACATATATTTTTTATATATATTTTACAATTCATATAC
*
36247799 ACATATATTTTTTATATATATTTTACAATTTATATA
1 ACATATATTTTTTATATATATTTTACAATTCATATA
36247835 TATACATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 13 0.42
35 1 0.03
36 3 0.10
37 14 0.45
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (37 bp):
ACATATATTTTTTATATATATTTTACAATTCATATAC
Found at i:36249910 original size:26 final size:26
Alignment explanation
Indices: 36249862--36249911 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36249852 TAAATGTGTT
* *
36249862 AACTATGATAATTAATTCTTAAAAAA
1 AACTATGAGAATTAATGCTTAAAAAA
36249888 AACTATGAGAATTAA-GCTATAAAA
1 AACTATGAGAATTAATGCT-TAAAA
36249912 CAAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (26 bp):
AACTATGAGAATTAATGCTTAAAAAA
Found at i:36250284 original size:31 final size:31
Alignment explanation
Indices: 36250240--36250301 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
36250230 AATTATAAAT
*
36250240 TATATAAAAATTTAA-TTAAAAATATTTAATA
1 TATATAAAAATTTAAGTT-AAAACATTTAATA
**
36250271 TATATAATGATTTAAGTTAAAACATTTAATA
1 TATATAAAAATTTAAGTTAAAACATTTAATA
36250302 CTAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TATATAAAAATTTAAGTTAAAACATTTAATA
Found at i:36252411 original size:8 final size:8
Alignment explanation
Indices: 36252380--36252414 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
36252370 AAATGAAAGA
*
36252380 AAATGGGA
1 AAATGGGG
36252388 AAATGGGG
1 AAATGGGG
36252396 AAATGGGG
1 AAATGGGG
36252404 AAATGGGG
1 AAATGGGG
36252412 AAA
1 AAA
36252415 GTGGAGGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.43, T:0.11
Consensus pattern (8 bp):
AAATGGGG
Found at i:36254453 original size:11 final size:11
Alignment explanation
Indices: 36254437--36254465 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
36254427 TCGAAAACTC
36254437 AACTCGATTCG
1 AACTCGATTCG
36254448 AACTCGATTCG
1 AACTCGATTCG
36254459 AACTCGA
1 AACTCGA
36254466 AATTCGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (11 bp):
AACTCGATTCG
Found at i:36257182 original size:5 final size:5
Alignment explanation
Indices: 36257172--36257243 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
36257162 TGTTAAAAAA
* *
36257172 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
36257218 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
36257244 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:36257225 original size:19 final size:19
Alignment explanation
Indices: 36257201--36257243 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
36257191 ATTATGTTTT
36257201 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
36257220 TATATTATATTATATTATA
1 TATATTATATTATATTATA
36257239 TATAT
1 TATAT
36257244 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:36258248 original size:46 final size:44
Alignment explanation
Indices: 36258188--36258302 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
36258178 ACAGGACAGA
* *
36258188 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
36258234 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
36258278 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
36258303 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:36258283 original size:44 final size:45
Alignment explanation
Indices: 36258188--36258321 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
36258178 ACAGGACAGA
* *
36258188 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
36258234 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
36258278 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
36258322 TAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:36265689 original size:19 final size:20
Alignment explanation
Indices: 36265644--36265690 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
36265634 AATTCTATAG
36265644 AAAAG-TTATTTAAAAAACT
1 AAAAGATTATTTAAAAAACT
* *
36265663 CAAA-ATTATTTAAAATA-T
1 AAAAGATTATTTAAAAAACT
36265681 AAAAGATTAT
1 AAAAGATTAT
36265691 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAGATTATTTAAAAAACT
Found at i:36267430 original size:22 final size:23
Alignment explanation
Indices: 36267404--36267450 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
36267394 GGATCCCTGT
*
36267404 TAGGATATTATT-TGGGATATTA
1 TAGGATATTATTATGAGATATTA
36267426 TAGGATATTATTATGAGATATTA
1 TAGGATATTATTATGAGATATTA
36267449 TA
1 TA
36267451 TTTTAGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (23 bp):
TAGGATATTATTATGAGATATTA
Found at i:36267433 original size:10 final size:11
Alignment explanation
Indices: 36267403--36267449 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
36267393 TGGATCCCTG
36267403 TTAGGATATTA
1 TTAGGATATTA
*
36267414 TTTGGGATATTA
1 -TTAGGATATTA
36267426 -TAGGATATTA
1 TTAGGATATTA
36267436 TTATGAGATATTA
1 TTA-G-GATATTA
36267449 T
1 T
36267450 ATTTTAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.30
11 2 0.07
12 11 0.37
13 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (11 bp):
TTAGGATATTA
Found at i:36269070 original size:21 final size:21
Alignment explanation
Indices: 36269041--36269084 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36269031 GTACTTCGTC
*
36269041 AACAGAAGCTCATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
36269062 AACAAAAGCTCATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
36269083 AA
1 AA
36269085 TAGAAACTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTG
Found at i:36275202 original size:21 final size:21
Alignment explanation
Indices: 36275176--36275232 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
36275166 ATATATAAAT
36275176 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
36275197 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
36275218 AGAAGCTCATAAGAG
1 AGAAGCTCGTAAGAG
36275233 TTGATCCACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:36277565 original size:19 final size:19
Alignment explanation
Indices: 36277541--36277579 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36277531 AAGTTCGTGT
36277541 AACTAAATTATGTATATTA
1 AACTAAATTATGTATATTA
36277560 AACTAAATTATGTATATTA
1 AACTAAATTATGTATATTA
36277579 A
1 A
36277580 TATGTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AACTAAATTATGTATATTA
Found at i:36279824 original size:42 final size:42
Alignment explanation
Indices: 36279777--36279896 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 42
36279767 CTTTCTTTTT
* * *
36279777 AGCTCTTTCGAGCTTCTGTTTAACTCATATGAGTTTTCGTTC
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
* * * *
36279819 AGCTCTTTTGTGCTTCTGTTTAACCCTTATTAGTTTCCATTC
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
* * * * * *
36279861 AGCTCTTACGAACTTCCGTTCAACCCTTATGGGTTT
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTT
36279897 TTGTTTAACT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (42 bp):
AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
Found at i:36286760 original size:44 final size:44
Alignment explanation
Indices: 36286692--36286781 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
36286682 TTAAGGGTAA
36286692 TCTACAAAAATAGTCACTTTTGTTTGCCTCAGGTTACATTTTAG
1 TCTACAAAAATAGTCACTTTTGTTTGCCTCAGGTTACATTTTAG
* *
36286736 TCTATAAAAATAGTCACTTTTGTTTGTCTCAGGTTACATTTTAG
1 TCTACAAAAATAGTCACTTTTGTTTGCCTCAGGTTACATTTTAG
36286780 TC
1 TC
36286782 ACTTATGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (44 bp):
TCTACAAAAATAGTCACTTTTGTTTGCCTCAGGTTACATTTTAG
Found at i:36303251 original size:20 final size:20
Alignment explanation
Indices: 36303226--36303269 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
36303216 AGAGATAAGA
*
36303226 GAGAGAAAGAAAGAGGGAGG
1 GAGAGAAAGAAAGAAGGAGG
* *
36303246 GAGAGAGAGAGAGAAGGAGG
1 GAGAGAAAGAAAGAAGGAGG
36303266 GAGA
1 GAGA
36303270 AAGCGTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAAAGAAGGAGG
Found at i:36303255 original size:24 final size:24
Alignment explanation
Indices: 36303223--36303268 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36303213 GAAAGAGATA
36303223 AGAGAGAGAAAGAAAGAGGGAGGG
1 AGAGAGAGAAAGAAAGAGGGAGGG
* *
36303247 AGAGAGAGAGAGAAGGAGGGAG
1 AGAGAGAGAAAGAAAGAGGGAG
36303269 AAAGCGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (24 bp):
AGAGAGAGAAAGAAAGAGGGAGGG
Found at i:36314861 original size:26 final size:26
Alignment explanation
Indices: 36314832--36314883 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36314822 ATTTACTGTT
36314832 TAAGTCCATTAATTTACATTTCCATA
1 TAAGTCCATTAATTTACATTTCCATA
36314858 TAAGTCCATTAATTTACATTTCCATA
1 TAAGTCCATTAATTTACATTTCCATA
36314884 GCCATTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAGTCCATTAATTTACATTTCCATA
Found at i:36316292 original size:9 final size:9
Alignment explanation
Indices: 36316198--36316291 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
36316188 GTAGTGATTC
*
36316198 AATTTGGTT
1 AATTCGGTT
*
36316207 AATTCAGTT
1 AATTCGGTT
*
36316216 AATTCGGAT
1 AATTCGGTT
36316225 AATTCGGTT
1 AATTCGGTT
*
36316234 AATTCGGGT
1 AATTCGGTT
36316243 AATTCGGTT
1 AATTCGGTT
*
36316252 AATTCGGGT
1 AATTCGGTT
*
36316261 AATTCAGTT
1 AATTCGGTT
36316270 AATTCGGTT
1 AATTCGGTT
*
36316279 AATTTGGTT
1 AATTCGGTT
36316288 AATT
1 AATT
36316292 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 73 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:36329296 original size:44 final size:44
Alignment explanation
Indices: 36329233--36329331 Score: 189
Period size: 44 Copynumber: 2.2 Consensus size: 44
36329223 CTAGGCATAC
*
36329233 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
36329277 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
36329321 GGATACCCTTC
1 GGATACCCTTC
36329332 TAGTCTCACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
Found at i:36332159 original size:15 final size:15
Alignment explanation
Indices: 36332139--36332167 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36332129 TTCTAGTGGT
36332139 TTAGGGTTTTATTAA
1 TTAGGGTTTTATTAA
36332154 TTAGGGTTTTATTA
1 TTAGGGTTTTATTA
36332168 CTAGCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTAGGGTTTTATTAA
Found at i:36335941 original size:57 final size:57
Alignment explanation
Indices: 36335868--36336003 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 57
36335858 AAAATCTGCC
*
36335868 TAAAAAAAGGAGAAGATAATCTTGGGATGTT-AGTTTTTATCCTAG-AAAAAATAATT
1 TAAAAAAAGGAGAAGATAATCTTGGGATGTTGA-TTTTTATCCTAGAAAAAAAGAATT
* * *
36335924 TAAATAAAAGGAAAAGATATTCTTGGGTTGTTGATTTTTATCCTAGAAAAAAAGAATT
1 TAAA-AAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
*
36335982 T-AGAAAAGGAGAAGATAATCTT
1 TAAAAAAAGGAGAAGATAATCTT
36336004 AGATTGTTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
56 21 0.30
57 37 0.53
58 12 0.17
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (57 bp):
TAAAAAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
Found at i:36336052 original size:41 final size:42
Alignment explanation
Indices: 36335971--36336053 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
36335961 TTATCCTAGA
* *
36335971 AAAAAAGAATTTAGAAAAGGAGAAGATAATCTTAGATTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
* * * *
36336013 AAAAAAGAATTTA-AAGAGGAGAATATAAACATGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
36336054 GATTTACCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
Found at i:36340105 original size:21 final size:22
Alignment explanation
Indices: 36340076--36340122 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
36340066 CTAGGGAAGT
*
36340076 TTTTTTTTC-CTATCTCATG-CA
1 TTTTATTTCTCTATC-CATGACA
*
36340097 TTTTATTTCTTTATCCATGACA
1 TTTTATTTCTCTATCCATGACA
36340119 TTTT
1 TTTT
36340123 CTGTGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.17, C:0.19, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTATTTCTCTATCCATGACA
Found at i:36341712 original size:57 final size:54
Alignment explanation
Indices: 36341638--36341778 Score: 201
Period size: 57 Copynumber: 2.6 Consensus size: 54
36341628 ATCTACTTAA
* * * *
36341638 AAAAAAGGAGAATATAATCCTGGGATGTTGGTTTTTATCCTAGAAAAGAAAATTTT
1 AAAAAAGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAA-AAAA-ATT
*
36341694 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAAAAAATT
1 AAAAA-AGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAAAAAAATT
*
36341749 AAAAAATGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGGAGAAGATAATCTTGGGTTGTTG
36341779 AAAAAAGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
54 23 0.30
55 7 0.09
56 9 0.12
57 38 0.49
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (54 bp):
AAAAAAGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAAAAAAATT
Found at i:36341783 original size:40 final size:43
Alignment explanation
Indices: 36341737--36341817 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
36341727 TTTTATCCTA
* * * *
36341737 GAAAAAA-AAATTAAAAA-ATGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
36341778 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTT
36341818 CGTGGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 7 0.21
42 9 0.26
43 18 0.53
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
Found at i:36345577 original size:32 final size:33
Alignment explanation
Indices: 36345513--36345577 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
36345503 TTTTCATAAA
* * *
36345513 TTAAATATTTATCATTTATATTATGTTTTTATT
1 TTAAATATTTATCATATATATTATATTATTATT
36345546 TTAAATA-TTATCATATA-ATTATATTAATTATT
1 TTAAATATTTATCATATATATTATATT-ATTATT
36345578 ATTTGTTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.25
32 14 0.50
33 7 0.25
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (33 bp):
TTAAATATTTATCATATATATTATATTATTATT
Found at i:36359496 original size:33 final size:33
Alignment explanation
Indices: 36359440--36359504 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
36359430 AATGATGAAT
36359440 TGCACATATGTGCCCTAGATTGTA-TTTCGGTAA
1 TGCACATATGTGCCCTAGATTGTACTTT-GGTAA
* *
36359473 TGCACATATGTGCCCTTGGTTGTACTTTGGTA
1 TGCACATATGTGCCCTAGATTGTACTTTGGTA
36359505 CCCCTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (33 bp):
TGCACATATGTGCCCTAGATTGTACTTTGGTAA
Found at i:36362520 original size:24 final size:24
Alignment explanation
Indices: 36362493--36362547 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
36362483 TATATGATGC
36362493 TATTGTGAATTGTAAAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
*
36362517 TATTGTGAATTGTAGAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
36362541 TATTGTG
1 TATTGTG
36362548 TTAAAATGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (24 bp):
TATTGTGAATTGTAAAAGAAAACA
Found at i:36366676 original size:20 final size:20
Alignment explanation
Indices: 36366653--36366728 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
36366643 GACATATGTT
36366653 CCCCTGATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* *
36366673 CCCCTGAGTTGCACATAC-GT-
1 CCCCTGA-TTGTAC-TTCGGTA
* *
36366693 GCCCTTATTCGTACTTCGGTA
1 CCCCTGATT-GTACTTCGGTA
36366714 CCCCTAGA-TGTACTT
1 CCCCT-GATTGTACTT
36366729 TTGTACTCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.10
20 23 0.55
21 12 0.29
22 3 0.07
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGTACTTCGGTA
Found at i:36374632 original size:21 final size:21
Alignment explanation
Indices: 36374591--36374632 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36374581 ACGAAAAATC
*
36374591 CAAGTATAGTGTGGAACTTGT
1 CAAGTATAGTGTGAAACTTGT
*
36374612 CAAGTAATAG-GTGAAATTTGT
1 CAAGT-ATAGTGTGAAACTTGT
36374633 ATACGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (21 bp):
CAAGTATAGTGTGAAACTTGT
Found at i:36377904 original size:22 final size:22
Alignment explanation
Indices: 36377879--36377921 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36377869 GGTATAATTG
* *
36377879 TAAATTAATAATAAAACTAAAT
1 TAAAATAATAATAAAAATAAAT
36377901 TAAAATAATAATAAAAATAAA
1 TAAAATAATAATAAAAATAAA
36377922 ATTTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAATAATAAAAATAAAT
Found at i:36379641 original size:23 final size:23
Alignment explanation
Indices: 36379615--36379687 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
36379605 ATAAGTGCCA
36379615 CACTTATATGTAGCCGAAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
* *
36379638 CACTGATATGTAGCCGTAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
* *
36379661 CA-TTGAAATGTAGTCGAAGCTAC
1 CACTT-ATATGTAGCCGAAGCTAC
36379684 CACT
1 CACT
36379688 GATCAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.02
23 40 0.95
24 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (23 bp):
CACTTATATGTAGCCGAAGCTAC
Found at i:36386361 original size:17 final size:17
Alignment explanation
Indices: 36386339--36386378 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
36386329 TCATTCATGT
*
36386339 AAACATATATAACACCC
1 AAACATATATAACACCA
36386356 AAACATATATAACACCA
1 AAACATATATAACACCA
36386373 AAACAT
1 AAACAT
36386379 GTTCTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATATATAACACCA
Found at i:36386911 original size:23 final size:23
Alignment explanation
Indices: 36386885--36386937 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
36386875 ATAAGTGCCA
*
36386885 CACTGATATGTAGCCGAAGGTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
36386908 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36386931 CACTGAT
1 CACTGAT
36386938 CAATAACACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36388673 original size:59 final size:60
Alignment explanation
Indices: 36388557--36388674 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 60
36388547 TTTACTTAGA
*
36388557 TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATATCCCTAAATGCACATACC
1 TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTAAATGCACATACC
* * * * * *
36388617 TACCCCTGAATGCTCAT-TGTGTCCTTGATTT-TACTTTGGTACCCCTGAATGTACATAC
1 TACCCCTGAATGCACATATGTGCCCTTG-TTTGTACTTCGATACCCCTAAATGCACATAC
36388675 GTGCCTCTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 31 0.62
60 19 0.38
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (60 bp):
TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTAAATGCACATACC
Found at i:36388699 original size:40 final size:40
Alignment explanation
Indices: 36388617--36388785 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
36388607 TGCACATACC
* * * *
36388617 TACCCCTGAATGCTCAT-TGTGTCCTTGATTT-TACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTG-TTTGTACTTTGG
* * *
36388656 TACCCCTGAATGTACATACGTGCCTCTTTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
36388696 TACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
36388736 TACCCCTGAATGCACTTACGTTCCCCTGTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
*
36388776 TACCTCTGAA
1 TACCCCTGAA
36388786 AGCATTATAT
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 18 0.16
40 93 0.84
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
Found at i:36388741 original size:20 final size:20
Alignment explanation
Indices: 36388718--36388779 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
36388708 CACATACATG
36388718 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * *
36388738 CCCCTGAATGCACTTAC-GTT
1 CCCCTGTTTGTACTT-CGGTA
*
36388758 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
36388778 CC
1 CC
36388780 TCTGAAAGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:36390658 original size:25 final size:25
Alignment explanation
Indices: 36390578--36390693 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
36390568 ACATACCACA
* * *
36390578 GCTCTTGCGAGCATCCTGATATTTT
1 GCTCTTGCGAGCTTCCTGATAATTG
** *
36390603 GCTCTTATGAGCTT-CTCG-TTATATG
1 GCTCTTGCGAGCTTCCT-GATAAT-TG
*
36390628 GTTCTTGCGAGCTTCCTGATAATTG
1 GCTCTTGCGAGCTTCCTGATAATTG
** *
36390653 GCTCTTTG-GAGCTTCCCAATAACTG
1 GCTC-TTGCGAGCTTCCTGATAATTG
**
36390678 GCTCTTATGAGCTTCC
1 GCTCTTGCGAGCTTCC
36390694 CAAATAATAG
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 6 0.09
25 56 0.80
26 8 0.11
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (25 bp):
GCTCTTGCGAGCTTCCTGATAATTG
Found at i:36390694 original size:25 final size:25
Alignment explanation
Indices: 36390636--36390718 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
36390626 TGGTTCTTGC
** *
36390636 GAGCTTCCTGATAATTGGCTCTTTG
1 GAGCTTCCCAATAACTGGCTCTTTG
36390661 GAGCTTCCCAATAACTGGCTCTTAT-
1 GAGCTTCCCAATAACTGGCTCTT-TG
*
36390686 GAGCTTCCCAAATAA-TAGCT-TTTCG
1 GAGCTTCCC-AATAACTGGCTCTTT-G
36390711 GAGCTTCC
1 GAGCTTCC
36390719 TGATATTGGC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 41 0.82
26 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCAATAACTGGCTCTTTG
Found at i:36398412 original size:73 final size:73
Alignment explanation
Indices: 36398303--36398455 Score: 234
Period size: 73 Copynumber: 2.1 Consensus size: 73
36398293 TAGCTCTCAC
* * * * * *
36398303 GAGCATCTCGATATTGGCTCTCTTGAGCTTCCTGATATATGGCACTTACGAGCTTTCTGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
36398368 GCTCTTGG
66 GCTCTTGG
*
36398376 GAGCATCTCGATATTGGCTCTCTTAAGCTTATTGATATATGACACTCACGAGCTTCCCGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
*
36398441 GCTCTTTG
66 GCTCTTGG
36398449 GAGCATC
1 GAGCATC
36398456 CTGATTGGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (73 bp):
GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
GCTCTTGG
Found at i:36398623 original size:25 final size:26
Alignment explanation
Indices: 36398555--36398626 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 26
36398545 TGGTTATTGT
* * *
36398555 GAGCTTCCT-AATAATTGACTTTTCA
1 GAGCTTCCTGAATAACTGGCTTTACA
*
36398580 GAGCTTCCCG-ATAACTGGCTCTTAC-
1 GAGCTTCCTGAATAACTGGCT-TTACA
36398605 GAGCTTCCTGAATAA-TGGCTTT
1 GAGCTTCCTGAATAACTGGCTTT
36398627 CTAGAGATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 2 0.05
25 30 0.77
26 7 0.18
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (26 bp):
GAGCTTCCTGAATAACTGGCTTTACA
Found at i:36398696 original size:25 final size:25
Alignment explanation
Indices: 36398644--36398696 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
36398634 TAGTTGATAT
* *
36398644 TGGCTCGCATGAACTTCCCGTTACA
1 TGGCTCACATGAACTTCCCATTACA
* * *
36398669 TGGCTCACATGAGCTTCTCATTATA
1 TGGCTCACATGAACTTCCCATTACA
36398694 TGG
1 TGG
36398697 ATTAAGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
TGGCTCACATGAACTTCCCATTACA
Found at i:36404047 original size:21 final size:21
Alignment explanation
Indices: 36404021--36404061 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36404011 ACTAACATGT
*
36404021 ATGTCTCTAGA-TTAGAGTGCC
1 ATGTCTCAAGACTTA-AGTGCC
36404042 ATGTCTCAAGACTTAAGTGC
1 ATGTCTCAAGACTTAAGTGC
36404062 AAAGGACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (21 bp):
ATGTCTCAAGACTTAAGTGCC
Found at i:36445231 original size:51 final size:51
Alignment explanation
Indices: 36445176--36445336 Score: 116
Period size: 51 Copynumber: 3.1 Consensus size: 51
36445166 CATAATAATT
36445176 TTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATTTGTCATAATATAC
1 TTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATTTGTCATAATATAC
* * ***** * * * *
36445227 TTCTCAATGTTG-GCA--TAACTCAAAATTTCCCTT--TTTGTTACTTAATAATAATT
1 TTCTCACTTTTGCG-ATTTAA-TCCTTCCTTGCATTAATTTG-T-CATAAT-AT-A-C
*
36445280 TTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATATGTCATAATATAC
1 TTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATTTGTCATAATATAC
36445331 TTCTCA
1 TTCTCA
36445337 ATGTTGGCAT
Statistics
Matches: 75, Mismatches: 23, Indels: 24
0.61 0.19 0.20
Matches are distributed among these distances:
48 4 0.05
49 4 0.05
50 13 0.17
51 19 0.25
52 2 0.03
53 13 0.17
54 13 0.17
55 4 0.05
56 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (51 bp):
TTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATTTGTCATAATATAC
Found at i:36445284 original size:104 final size:104
Alignment explanation
Indices: 36445167--36445373 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 104
36445157 CTCTTGGGCC
*
36445167 ATAATAATTTTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATTTGTCATAATATACTTCTC
1 ATAATAATTTTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATATGTCATAATATACTTCTC
36445232 AATGTTGGCATAACTCAAAATTTCCCTTTTTGTTACTTA
66 AATGTTGGCATAACTCAAAATTTCCCTTTTTGTTACTTA
36445271 ATAATAATTTTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATATGTCATAATATACTTCTC
1 ATAATAATTTTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATATGTCATAATATACTTCTC
36445336 AATGTTGGCATAACTCAAAATTTCCCTTTTTGTTACTT
66 AATGTTGGCATAACTCAAAATTTCCCTTTTTGTTACTT
36445374 TATTTCCTTA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (104 bp):
ATAATAATTTTCTCACTTTTGCGATTTAATCCTTCCTTGCATTAATATGTCATAATATACTTCTC
AATGTTGGCATAACTCAAAATTTCCCTTTTTGTTACTTA
Found at i:36445681 original size:188 final size:187
Alignment explanation
Indices: 36445363--36445736 Score: 712
Period size: 188 Copynumber: 2.0 Consensus size: 187
36445353 AAATTTCCCT
*
36445363 TTTTGTTACTTTATTTCCTTATTTTACTATACCAAGGATAATATCTTACTGTAGAAATTTTCAAA
1 TTTTGTTACTTTACTTCCTTATTTTACTATACCAAGGATAATATCTTACTGTAGAAATTTTCAAA
36445428 ATATTACATTTGTGGTCCCGAAACCACTATTTCGACTAGGCCCAAATTCGGGCTATTACAACTCT
66 ATATTACATTTGTGGTCCCGAAACCACTATTTCGACTAGGCCCAAATTCGGGCTATTACAACTCT
36445493 CCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTTCCAAGAGTAGTTACTCCCAGCA
131 -CCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTTCCAAGAGTAGTTACTCCCAGCA
*
36445551 TTTTGTTACTTTACTTCCTTATTTTACTATACCAAGGATAATATCTTACTGTAGAAATTTTCAAT
1 TTTTGTTACTTTACTTCCTTATTTTACTATACCAAGGATAATATCTTACTGTAGAAATTTTCAAA
*
36445616 ATATTACATTTGTGGTCCCGAAACCACTATTTCGACTAGGCCCAAATTCGGGCTATTATAACTCT
66 ATATTACATTTGTGGTCCCGAAACCACTATTTCGACTAGGCCCAAATTCGGGCTATTACAACTCT
36445681 CCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTTCCAAGAGTAGTTACTCCCAGC
131 CCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTTCCAAGAGTAGTTACTCCCAGC
36445737 TCTCATGAAA
Statistics
Matches: 183, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 56 0.31
188 127 0.69
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (187 bp):
TTTTGTTACTTTACTTCCTTATTTTACTATACCAAGGATAATATCTTACTGTAGAAATTTTCAAA
ATATTACATTTGTGGTCCCGAAACCACTATTTCGACTAGGCCCAAATTCGGGCTATTACAACTCT
CCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTTCCAAGAGTAGTTACTCCCAGCA
Found at i:36446110 original size:79 final size:79
Alignment explanation
Indices: 36446017--36446171 Score: 301
Period size: 79 Copynumber: 2.0 Consensus size: 79
36446007 ATGCAGCTCG
36446017 CACACAATCTTTCAAAATTATTTTAGCATGCAAATCACCAGAATCACCACATTTTAGCTCTGGAA
1 CACACAATCTTTCAAAATTATTTTAGCATGCAAATCACCAGAATCACCACATTTTAGCTCTGGAA
36446082 TTTCATCGTAGACA
66 TTTCATCGTAGACA
*
36446096 CACACAATCTTTCAAAATTCTTTTAGCATGCAAATCACCAGAATCACCACATTTTAGCTCTGGAA
1 CACACAATCTTTCAAAATTATTTTAGCATGCAAATCACCAGAATCACCACATTTTAGCTCTGGAA
36446161 TTTCATCGTAG
66 TTTCATCGTAG
36446172 CAAAACAATT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (79 bp):
CACACAATCTTTCAAAATTATTTTAGCATGCAAATCACCAGAATCACCACATTTTAGCTCTGGAA
TTTCATCGTAGACA
Found at i:36447574 original size:49 final size:49
Alignment explanation
Indices: 36447503--36447631 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
36447493 GGGCTTGAAA
* * * *** *
36447503 ATATCTTATGTTCCTCAACCATTCTGATAAGCGTGTTAAGTGTGGGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
* *
36447552 ATATTTTATGTTTCTCAGCCATTCTAATAAGTACATTAAGTGTGAGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
*
36447601 ATATTTTATGTTTCTCAGCCATTTTGATAAG
1 ATATTTTATGTTTCTCAGCCATTCTGATAAG
36447632 GTAAGTATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (49 bp):
ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
Found at i:36465923 original size:21 final size:20
Alignment explanation
Indices: 36465899--36465947 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36465889 GTTGTGACTA
36465899 CATCTGATTCTAG-TGTGGATG
1 CATCTGATT-T-GTTGTGGATG
*
36465920 CATCTAGCTTTGTTGTGGATG
1 CATCT-GATTTGTTGTGGATG
36465941 CATCTGA
1 CATCTGA
36465948 GTGTGCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (20 bp):
CATCTGATTTGTTGTGGATG
Found at i:36469095 original size:15 final size:16
Alignment explanation
Indices: 36469075--36469107 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36469065 TTTTAGTTAA
36469075 TTAAATA-TTTTTATT
1 TTAAATATTTTTTATT
36469090 TTAAATATTTTTTATT
1 TTAAATATTTTTTATT
36469106 TT
1 TT
36469108 CCTAGTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAAATATTTTTTATT
Found at i:36484285 original size:8 final size:8
Alignment explanation
Indices: 36484272--36484303 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
36484262 TTCCATCCAA
36484272 ACAAATAT
1 ACAAATAT
36484280 ACAAATAT
1 ACAAATAT
36484288 ACAAATAT
1 ACAAATAT
*
36484296 ACATATAT
1 ACAAATAT
36484304 GTTCAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
ACAAATAT
Found at i:36494778 original size:20 final size:20
Alignment explanation
Indices: 36494744--36494781 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36494734 ATCAATCAAT
**
36494744 GATAATTAATTATTTAATTA
1 GATAATTAAGGATTTAATTA
36494764 GATAATTAAGGATTTAAT
1 GATAATTAAGGATTTAAT
36494782 CGATTATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:36497767 original size:15 final size:15
Alignment explanation
Indices: 36497747--36497775 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36497737 TAAAATGATC
36497747 GAAATACCCTCGATT
1 GAAATACCCTCGATT
36497762 GAAATACCCTCGAT
1 GAAATACCCTCGAT
36497776 GGATAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
GAAATACCCTCGATT
Found at i:36497793 original size:27 final size:27
Alignment explanation
Indices: 36497762--36498055 Score: 201
Period size: 27 Copynumber: 11.0 Consensus size: 27
36497752 ACCCTCGATT
* *
36497762 GAAATACCCTCGATGGATAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
36497789 AAAATA-CCT-AATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
*
36497814 GAAATACCCTCGAAGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGATC
* *
36497841 GAAATACCCTCGAAGGGTAAAATGGTC
1 GAAATACCCTCGATGGGTAAAATGATC
* * * *
36497868 GAAGTATCCTTGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
36497895 GAAATGCCC-CTATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* ** * *
36497922 AAAATACCCTCGCCGAGTAGAAT-ATC
1 GAAATACCCTCGATGGGTAAAATGATC
*
36497948 GAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
36497975 GTAATACCC-CTG-TAGAGTAAAATGACC
1 GAAATACCCTC-GAT-GGGTAAAATGATC
* * *
36498002 GTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
36498029 GTAATGCCC-CAATAGGGTAAAATGATC
1 GAAATACCCTCGAT-GGGTAAAATGATC
36498056 ATAATAACCC
Statistics
Matches: 210, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
25 17 0.08
26 28 0.13
27 164 0.78
28 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGATC
Found at i:36497886 original size:54 final size:54
Alignment explanation
Indices: 36497762--36498134 Score: 192
Period size: 54 Copynumber: 7.0 Consensus size: 54
36497752 ACCCTCGATT
* * * * ** *
36497762 GAAATACCCTCGATGGATAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
*
36497814 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAATGGTC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
36497868 GAAGTATCCTTGATGGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
* ** * * *
36497922 AAAATACCCTCGCCGAGTAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
36497975 GTAATACCC-CTGTAGAGTAAAATGACCGTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * *
36498029 GTAATGCCC-CAATAGGGTAAAATGATC-ATAATAACCCTG-TAAGGTAAAATGACC
1 GAAATACCCTCGA-AGGGTAAAATGATCGA-AAT-ACCCCGATAGGGTAAAATGATC
* * * * * * * **
36498083 GTACTGCCCTTGTAGGGTAAAATGA-CTGTAATGCCCATATAGGGTAAAATGA
1 GAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCCGATAGGGTAAAATGA
36498135 CCGTACTGCC
Statistics
Matches: 253, Mismatches: 53, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
52 30 0.12
53 50 0.20
54 169 0.67
55 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (54 bp):
GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
Found at i:36497995 original size:80 final size:81
Alignment explanation
Indices: 36497779--36498244 Score: 232
Period size: 81 Copynumber: 5.8 Consensus size: 81
36497769 CCTCGATGGA
* * * * * * *
36497779 TAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATTGAAATA-CCCTCGAAGGGTAAAATGATC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCT-GTAGAGTAAAATGACC
* ** *
36497841 GAAATACCCTCGAAGGG
65 AAAATACCCTCGCCGAG
** * *** * * * * *
36497858 TAAAATGGTCGAAGTATCCTTGAT-GGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 TAAAATGACCGAAATA-CCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
36497922 AAAATACCCTCGCCGAG
65 AAAATACCCTCGCCGAG
* * *
36497939 TAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACCGTAATACCCCTGTAGAGTAAAATGACC
1 TAAAATGACCGAAATACCC-CAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
** * * *
36498002 GTAATACCCTTGTCGGG
65 AAAATACCCTCGCCGAG
* * * *
36498019 TAAAATGACCGTAATGCCCCAATAGGGTAAAATGATCATAATAACCCTGTA-AGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGACC
** * * * ** *
36498083 GTACTGCCCTTGTAGGG
65 AAAATACCCTCGCCGAG
* * * * * *
36498100 TAAAATGACTGTAAT-GCCCATATAGGGTAAAATGACCGTACTGCCCCTGTA-AGGTAAAATGAC
1 TAAAATGACCGAAATACCCCA-ATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGAC
*** * ** *
36498163 TTTAATGCCCAT-GTAGGG
64 CAAAATACCC-TCGCCGAG
* * ** * * * *
36498181 TAAAATGATCGTAATACCCCTGTAAGGTAAAATGATTGTAATACCCTTGTAGGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
36498245 GTAATGCCTT
Statistics
Matches: 312, Mismatches: 63, Indels: 22
0.79 0.16 0.06
Matches are distributed among these distances:
79 16 0.05
80 64 0.21
81 224 0.72
82 8 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACCA
AAATACCCTCGCCGAG
Found at i:36498060 original size:27 final size:27
Alignment explanation
Indices: 36497960--36498252 Score: 325
Period size: 27 Copynumber: 10.9 Consensus size: 27
36497950 AATACCCTCA
*
36497960 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
36497987 TAGAGTAAAATGACCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* **
36498014 TCGGGTAAAATGACCGTAATGCCCCAA
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * **
36498041 TAGGGTAAAATGATCATAATAACCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
36498068 TAAGGTAAAATGACCGTACTGCCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
36498095 TAGGGTAAAATGACTGTAATGCCCATA
1 TAGGGTAAAATGACCGTAATGCCCCTG
*
36498122 TAGGGTAAAATGACCGTACTGCCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** *
36498149 TAAGGTAAAATGACTTTAATGCCCATG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* *
36498176 TAGGGTAAAATGATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** * *
36498203 TAAGGTAAAATGATTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
36498230 TAGGGTAAAATGACCGTAATGCC
1 TAGGGTAAAATGACCGTAATGCC
36498253 TTGGTGGGTA
Statistics
Matches: 217, Mismatches: 49, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATGCCCCTG
Found at i:36498365 original size:24 final size:24
Alignment explanation
Indices: 36498290--36498371 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
36498280 CTCGAGGTCA
* * *
36498290 AATGATTGATTTGTCTATGGTTA-
1 AATGACTGATTTGTCTGTGATTAG
* * *
36498313 AATGACTGATTTGTGTGTGTTTGG
1 AATGACTGATTTGTCTGTGATTAG
* * *
36498337 TATGATTGATTTGTTTGTGATTAG
1 AATGACTGATTTGTCTGTGATTAG
36498361 AATGACTGATT
1 AATGACTGATT
36498372 CTGAGCATGA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 18 0.39
24 28 0.61
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTAG
Found at i:36498587 original size:32 final size:32
Alignment explanation
Indices: 36498546--36498745 Score: 224
Period size: 32 Copynumber: 6.3 Consensus size: 32
36498536 GCGATGCTAT
* *
36498546 TGATGGCTTTGTGTCGATTATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
36498578 TGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * **
36498610 TGATGGCTTTATGCCGGTCATATTACCACTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* *
36498642 TGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * * * *
36498674 TGATGG-TTGTGTGCCGGTTATATCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATATTACCGTTAC
* *
36498706 TGATGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
36498737 TTATGGCTT
1 TGATGGCTT
36498746 GTAGCCGTTC
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
31 13 0.09
32 128 0.90
33 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACCGTTAC
Found at i:36498650 original size:64 final size:64
Alignment explanation
Indices: 36498546--36498745 Score: 251
Period size: 64 Copynumber: 3.1 Consensus size: 64
36498536 GCGATGCTAT
* * * * *
36498546 TGATGGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * *
36498610 TGATGGCTTTATGCCGGTCATATTACCACTACTGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * *
36498674 TGATGG-TTGTGTGCCGGTTATATCACTGCTACTGATGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTT-TGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
*
36498737 TTATGGCTT
1 TGATGGCTT
36498746 GTAGCCGTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
63 10 0.09
64 106 0.91
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
Found at i:36498714 original size:96 final size:96
Alignment explanation
Indices: 36498550--36498731 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
36498540 TGCTATTGAT
* * * * *
36498550 GGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTACTGATG
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
**
36498615 GCTTTATGCCGGTCATATTACCACTACTGAC
66 GCTTTATGCCAATCATATTACCACTACTGAC
* *
36498646 GGCTTTGTGCCGATCATATTACAGTTACTGATGG-TTGTGTGCCGGTTATATCACTGCTACTGAT
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTT-TGTGCCGGTCATATCACCGCTACTGAT
*
36498710 GGCTTTGTGCCAATCATATTAC
65 GGCTTTATGCCAATCATATTAC
36498732 TGTACTTATG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 2 0.03
96 73 0.97
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (96 bp):
GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
GCTTTATGCCAATCATATTACCACTACTGAC
Found at i:36500398 original size:15 final size:16
Alignment explanation
Indices: 36500378--36500407 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36500368 TAGTGCCTTG
36500378 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
36500393 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
36500408 AGCATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:36502406 original size:21 final size:19
Alignment explanation
Indices: 36502378--36502421 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
36502368 TGAATAGAAG
36502378 GTTTCTAAATTGATTT-TTAA
1 GTTTCTAAA-T-ATTTCTTAA
36502398 GTTTGCTAAATATTTCTTAA
1 GTTT-CTAAATATTTCTTAA
36502418 GTTT
1 GTTT
36502422 TAATGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (19 bp):
GTTTCTAAATATTTCTTAA
Found at i:36505978 original size:27 final size:27
Alignment explanation
Indices: 36505947--36506001 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
36505937 GTGTAAGCTT
* *
36505947 TCTCACACTGTTGTTTTAATATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
*
36505974 TCTCATACCGTTGTTTTAACATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
36506001 T
1 T
36506002 GTGTGCTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (27 bp):
TCTCACACCGTTGTTTTAACATGTGAA
Found at i:36512626 original size:27 final size:27
Alignment explanation
Indices: 36512549--36513033 Score: 378
Period size: 27 Copynumber: 18.1 Consensus size: 27
36512539 TTACACTGTT
* ** *
36512549 ATGACGAAAATACCTTCATAGGATAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
*
36512576 ATAACCAAAATA-CCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
36512602 ATGACCGAAATACCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
36512629 ATGATCGAAATA-CCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
36512655 ATAACAAAAATACCCCCATCGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
36512682 A-GACCAAAATA-TCCCAGTAGAGTAAA
1 ATGACCAAAATACCCCCA-TAGGGTAAA
* * **
36512708 ATGAACGAAATACCCTTATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * **
36512735 ATGACCGAAATGCCCTTATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
36512762 ATAACCGAAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
36512789 ATGACCAAAATAACCCAATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
36512816 ATGACTAAAATACCCCCACAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * * **
36512843 AAGACCAAAATACCCTCAAAATGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * * *
36512870 ATGATCGAAATACCCCTGA-AGGGTCAA
1 ATGACCAAAATACCCC-CATAGGGTAAA
** *
36512897 ATGACCGTAATACCCTCGA-AGGGTAAA
1 ATGACCAAAATACCC-CCATAGGGTAAA
* *
36512924 ATGACCAAAATGCCCCCGA-AGGGTGAA
1 ATGACCAAAATACCCCC-ATAGGGTAAA
* ** * *
36512951 ATGATCGGAATACCCCTGA-AGGGTGAA
1 ATGACCAAAATACCCC-CATAGGGTAAA
* *
36512978 ATGATCAAAATACCCCCGA-AGGGTCAA
1 ATGACCAAAATACCCCC-ATAGGGTAAA
* *
36513005 ATGATCTAAATACCCCC-TAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
36513031 ATG
1 ATG
36513034 GCTGTTATAC
Statistics
Matches: 374, Mismatches: 73, Indels: 23
0.80 0.16 0.05
Matches are distributed among these distances:
25 4 0.01
26 69 0.18
27 297 0.79
28 4 0.01
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAGGGTAAA
Found at i:36513409 original size:28 final size:28
Alignment explanation
Indices: 36513369--36513478 Score: 168
Period size: 28 Copynumber: 4.0 Consensus size: 28
36513359 ACTGTACTGG
36513369 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
36513397 TTACTATATTGGGCCAAGGCCCACAGTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
36513425 TTACTGTATTGGGCTAAGGCCTACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
36513453 TTACTGTATTGGGCTAATG-CCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
36513479 GTACTGTTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 6 0.08
28 67 0.92
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:36525244 original size:15 final size:15
Alignment explanation
Indices: 36525224--36525258 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
36525214 CCATCCAAAC
36525224 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
36525239 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
36525254 GTTTC
1 GTTTC
36525259 CTTCGACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (15 bp):
GTTTCAAACTAACTT
Found at i:36527412 original size:54 final size:54
Alignment explanation
Indices: 36527318--36527465 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 54
36527308 ATGTCCTAGC
* *
36527318 CCGTGTGCTAGGTCGTGTAACTCAT-TGAATTGCTC-TACACGCCCGTGTACCAGG
1 CCGTGTGCTAGGTCGTGTAACTC-TCTGAGTTGC-CACACACGCCCGTGTACCAGG
* * * *
36527372 TCGTGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGG
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
* * *
36527426 CCATGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACAC
36527466 TCTCCTGTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 79 0.98
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
Found at i:36527475 original size:54 final size:54
Alignment explanation
Indices: 36527375--36527502 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
36527365 TACCAGGTCG
* * * *
36527375 TGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTGTGCCAGGCCA
*
36527429 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC-TCTCCTGTGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGC-CCTGTGCCAGGCCA
* * *
36527483 TGAGTTCGGATGTGTAACTC
1 TGTGTTAGGACGTGTAACTC
36527503 ATTGACTTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTGTGCCAGGCCA
Found at i:36545486 original size:29 final size:29
Alignment explanation
Indices: 36545452--36545510 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
36545442 TCTACCTTGA
* * * *
36545452 CACGAATTCTCAATGAATAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
36545481 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
36545510 C
1 C
36545511 TCTTCCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:36554566 original size:20 final size:21
Alignment explanation
Indices: 36554538--36554580 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36554528 GTGAGAGTTT
36554538 TATTCTCTA-AATATA-AATTC
1 TATTCTCTAGAATA-ACAATTC
*
36554558 TATTTTCTAGAATAACAATTC
1 TATTCTCTAGAATAACAATTC
36554579 TA
1 TA
36554581 CTGGTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (21 bp):
TATTCTCTAGAATAACAATTC
Found at i:36568813 original size:29 final size:28
Alignment explanation
Indices: 36568777--36568854 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
36568767 TCATGAGATT
36568777 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
36568807 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
36568834 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
36568855 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:36569073 original size:175 final size:175
Alignment explanation
Indices: 36568807--36569310 Score: 965
Period size: 175 Copynumber: 2.9 Consensus size: 175
36568797 AAATTGTACA
*
36568807 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
36568872 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
36568937 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
36568982 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
36569047 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
36569112 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
36569157 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
36569222 TGTGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
36569287 TTTTGGACAGCGG-AAAAGGTAAGT
131 TTTTGGACAGCGGAAAAAGGTAAGT
36569311 ACCTTGAGTT
Statistics
Matches: 325, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
174 11 0.03
175 314 0.97
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:36575149 original size:29 final size:29
Alignment explanation
Indices: 36575110--36575170 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
36575100 CGATGAATGA
36575110 AAAGGAATAGCTTCAGCTATC-AATTTATG
1 AAAGGAATAGCTTCAGCTATCGAA-TTATG
* *
36575139 AAAGGGATAGCTTCGGCTATCGAATTATG
1 AAAGGAATAGCTTCAGCTATCGAATTATG
36575168 AAA
1 AAA
36575171 ATGGATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (29 bp):
AAAGGAATAGCTTCAGCTATCGAATTATG
Found at i:36575228 original size:30 final size:30
Alignment explanation
Indices: 36575194--36575266 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
36575184 ACCATCAAAT
* *
36575194 TATGAAAAGGGATAGCTTTGGCTATGGAAC
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
* *
36575224 TATGAAAAGGGATAACTTTGGTTATCGAAT
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
*
36575254 TACGAAAAGGGAT
1 TATGAAAAGGGAT
36575267 GTGATAACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTTGGCTATCGAAC
Found at i:36582739 original size:13 final size:13
Alignment explanation
Indices: 36582721--36582745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36582711 ATTGTAAGTA
36582721 ATAAACTCATGTG
1 ATAAACTCATGTG
36582734 ATAAACTCATGT
1 ATAAACTCATGT
36582746 AATATATGTT
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:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
ATAAACTCATGTG
Found at i:36582946 original size:19 final size:19
Alignment explanation
Indices: 36582922--36582959 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36582912 GTTATACAAA
36582922 CTTACTAAGCACTTATGCT
1 CTTACTAAGCACTTATGCT
*
36582941 CTTACTAAGCATTTATGCT
1 CTTACTAAGCACTTATGCT
36582960 TACTCTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (19 bp):
CTTACTAAGCACTTATGCT
Found at i:36592797 original size:50 final size:50
Alignment explanation
Indices: 36592699--36592797 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
36592689 TACCAATTTG
* *** * * * *
36592699 CAGCCCGTATGAGCTTACCGATTTTTGACTCGTGTGAACTTACTGATTCT
1 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTCT
*
36592749 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAGCATACCGATTC
1 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTC
36592798 ATAGCTTATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (50 bp):
CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTCT
Found at i:36597525 original size:35 final size:35
Alignment explanation
Indices: 36597486--36597555 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
36597476 AGAAATCACT
*
36597486 ATACACAAAAAACTCTTTCCTAGGTCCAAGTTGAG
1 ATACACAAAAAACTCTTTCCCAGGTCCAAGTTGAG
36597521 ATACACAAAAAACTCTTTCCCAGGTCCAAGTTGAG
1 ATACACAAAAAACTCTTTCCCAGGTCCAAGTTGAG
36597556 TTAGAACTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (35 bp):
ATACACAAAAAACTCTTTCCCAGGTCCAAGTTGAG
Found at i:36605983 original size:43 final size:43
Alignment explanation
Indices: 36605931--36606040 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
36605921 CTAGCACGTA
36605931 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
1 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
* * * * * *
36605974 AGTGCATCATTGGATATATCGGAGTAACTTTACTGGCACACAT
1 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
*
36606017 AGTGCATTATC-AGATATACCGAAG
1 AGTGCATCATCGA-ATATACCGAAG
36606041 GATCATTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (43 bp):
AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
Found at i:36607516 original size:14 final size:14
Alignment explanation
Indices: 36607492--36607526 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
36607482 AAACACCATG
36607492 TAATGTCCTATCATA
1 TAAT-TCCTATCATA
36607507 TAATTCCTATCATA
1 TAATTCCTATCATA
36607521 TAATTC
1 TAATTC
36607527 AGGCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (14 bp):
TAATTCCTATCATA
Found at i:36625199 original size:74 final size:73
Alignment explanation
Indices: 36625029--36625201 Score: 201
Period size: 74 Copynumber: 2.4 Consensus size: 73
36625019 TTTAGCCTGG
* * * *
36625029 ATGGGTAACGTGACATGTATATATCTTCAAATTGGTTAAGTAATTGAATATGTCGTTATAAAGGT
1 ATGGGTAACTTGACATG-ATATATATTCAAATTGGTTAAGCAATCGAATATGTCGTTATAAAGGT
36625094 TTAACCCAA
65 TTAACCCAA
** *
36625103 ATAGGG-AACTTAGCACAT-ATATATATTCAGCTTGGTTAAGCAATCGAA-AGTGTCGTTATAAC
1 AT-GGGTAACTT-G-ACATGATATATATTCAAATTGGTTAAGCAATCGAATA-TGTCGTTATAAA
*
36625165 GGTTTAGCCCAA
62 GGTTTAACCCAA
36625177 ATGGGTAACTTGACATGA-ATATATT
1 ATGGGTAACTTGACATGATATATATT
36625202 TAGCTCGAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
72 11 0.13
73 6 0.07
74 60 0.71
75 4 0.05
76 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (73 bp):
ATGGGTAACTTGACATGATATATATTCAAATTGGTTAAGCAATCGAATATGTCGTTATAAAGGTT
TAACCCAA
Found at i:36630879 original size:40 final size:40
Alignment explanation
Indices: 36630829--36631143 Score: 490
Period size: 40 Copynumber: 7.9 Consensus size: 40
36630819 TTGAATGCTG
* * * * * *
36630829 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
36630869 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
36630909 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36630949 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36630989 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36631029 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36631069 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36631109 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
36631144 AGGAGCTATA
Statistics
Matches: 260, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 251 0.97
41 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:36637930 original size:40 final size:40
Alignment explanation
Indices: 36637847--36638869 Score: 1845
Period size: 40 Copynumber: 25.6 Consensus size: 40
36637837 TTGAATGCTG
* * * * * *
36637847 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
36637887 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
36637927 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36637967 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638007 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638047 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638087 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638127 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638167 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638207 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638247 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638287 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638327 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638367 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638407 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638447 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638487 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638527 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638567 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638607 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638647 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638687 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36638727 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
36638767 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36638807 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36638846 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36638870 TGAACGAGGA
Statistics
Matches: 961, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 35 0.04
40 918 0.96
41 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:36654584 original size:6 final size:6
Alignment explanation
Indices: 36654534--36654585 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
36654524 TCTAAAACTC
*
36654534 ATAAAA ATAAA- ATAAA- ATAAA- ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
36654579 ATAAAT A
1 ATAAAT A
36654586 GTCATATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 15 0.33
6 30 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
ATAAAT
Found at i:36669128 original size:3 final size:3
Alignment explanation
Indices: 36669120--36669946 Score: 1654
Period size: 3 Copynumber: 275.7 Consensus size: 3
36669110 GAAGAATTCA
36669120 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669168 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669216 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669264 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669312 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669360 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669408 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669456 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669504 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669552 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669600 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669648 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669696 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669744 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669792 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669840 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669888 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
36669936 CTT CTT CTT CT
1 CTT CTT CTT CT
36669947 AAGCCAACAT
Statistics
Matches: 824, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 824 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:36671601 original size:3 final size:3
Alignment explanation
Indices: 36671587--36671669 Score: 107
Period size: 3 Copynumber: 27.7 Consensus size: 3
36671577 CAAATAAAAC
*
36671587 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
36671633 TAA TAA TAA TAG TAA TAA -AA CTAA T-T TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
36671670 GAAATAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
2 3 0.04
3 62 0.89
4 5 0.07
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36674635 original size:17 final size:17
Alignment explanation
Indices: 36674613--36674648 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36674603 TGTTGACTAG
36674613 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
36674630 ATTGGTTAAGTGCAATT
1 ATTGGTTAAGTGCAATT
36674647 AT
1 AT
36674649 CAATGACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (17 bp):
ATTGGTTAAGTGCAATT
Found at i:36675261 original size:11 final size:11
Alignment explanation
Indices: 36675245--36675269 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36675235 CACCCTTAAT
36675245 GAATACAAAAG
1 GAATACAAAAG
36675256 GAATACAAAAG
1 GAATACAAAAG
36675267 GAA
1 GAA
36675270 GTACGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (11 bp):
GAATACAAAAG
Found at i:36677591 original size:29 final size:28
Alignment explanation
Indices: 36677558--36677658 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 28
36677548 TTACATTTTG
*
36677558 TATAA-TTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTTA-GA-TTTATAAAATTT
* * *
36677587 TATAATTTTTTTTTATATTTCTATATATTT
1 TATAA-TTTTTTTTAGATTTATA-AAATTT
*
36677617 TATAATTTTTTTAAGATTTTTATAAAATTT
1 TATAATTTTTTTTAGA--TTTATAAAATTT
*
36677647 TATAACTTTTTT
1 TATAATTTTTTT
36677659 ATATTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 19 0.33
30 27 0.47
31 12 0.21
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TATAATTTTTTTTAGATTTATAAAATTT
Found at i:36677619 original size:30 final size:30
Alignment explanation
Indices: 36677583--36677717 Score: 108
Period size: 30 Copynumber: 4.7 Consensus size: 30
36677573 ACTTTATAAA
*
36677583 ATTTTATAATTTTTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTTTTATATTTTTATAT
* * *
36677613 ATTTTATAA-TTTTTTTAAGATTTTTATAAA
1 ATTTTATAATTTTTTTTTATATTTTTAT-AT
* *
36677643 ATTTTATAACTTTTTTATAT-TTTTTACTAT
1 ATTTTATAATTTTTTTTTATATTTTTA-TAT
*
36677673 -TTTTAT-A-TTTTTTCTA-ATTTTTA-AT
1 ATTTTATAATTTTTTTTTATATTTTTATAT
36677698 -TTTTA-ATATTTTATTTTTAT
1 ATTTTATA-ATTTT-TTTTTAT
36677718 TAAAATTTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
25 7 0.08
26 1 0.01
27 17 0.20
28 6 0.07
29 21 0.24
30 26 0.30
31 8 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (30 bp):
ATTTTATAATTTTTTTTTATATTTTTATAT
Found at i:36677626 original size:9 final size:9
Alignment explanation
Indices: 36677596--36677695 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
36677586 TTATAATTTT
36677596 TTTTTAT-A
1 TTTTTATAA
*
36677604 TTTCTAT-A
1 TTTTTATAA
36677612 TATTTTATAA
1 T-TTTTATAA
*
36677622 TTTTTTTAAGA
1 TTTTTAT-A-A
36677633 TTTTTATAAA
1 TTTTTAT-AA
*
36677643 ATTTTATAA
1 TTTTTATAA
*
36677652 CTTTTTTATAT
1 --TTTTTATAA
36677663 TTTTTACT-A
1 TTTTTA-TAA
*
36677672 TTTTTATAT
1 TTTTTATAA
*
36677681 TTTTTCTAA
1 TTTTTATAA
36677690 TTTTTA
1 TTTTTA
36677696 ATTTTTAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
8 9 0.12
9 36 0.50
10 11 0.15
11 16 0.22
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Done.