Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 21
Found at i:4624829 original size:50 final size:51
Alignment explanation
Indices: 4624771--4624886 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 51
4624761 TGTAACATTA
* * *
4624771 AGGG-TTAGGGTTAGAGAAAATGAACAGAGATAA-AAAAAGAGGTTTGGTT
1 AGGGTTTAGGGTTAGAGAAAATAAACAGAGAGAAGAAAAAGAGGTTAGGTT
* * * * *
4624820 TGGGTTTAGGGTTAGAGTAGATAAATAGAGAGAAGATAAAGAGGTTAGGTT
1 AGGGTTTAGGGTTAGAGAAAATAAACAGAGAGAAGAAAAAGAGGTTAGGTT
4624871 AGGGTTT-GGGATTAGA
1 AGGGTTTAGGG-TTAGA
4624887 TAGGATAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.05
50 27 0.49
51 25 0.45
ACGTcount: A:0.38, C:0.01, G:0.35, T:0.26
Consensus pattern (51 bp):
AGGGTTTAGGGTTAGAGAAAATAAACAGAGAGAAGAAAAAGAGGTTAGGTT
Found at i:4624946 original size:6 final size:6
Alignment explanation
Indices: 4624926--4625025 Score: 78
Period size: 6 Copynumber: 16.7 Consensus size: 6
4624916 GCTCGGTTAG
* * * * * *
4624926 GGTTTA GGGTTA GGTTTA GGTTTA TGTTTT GGTTTA GGATCA GGTTTG
1 GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA
* * * *
4624974 GGTTT- GAGTTTA GG-TTA GGGTTTG GGTTTG GGTTTA GGTTTG GGTTTG
1 GGTTTA G-GTTTA GGTTTA -GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA
4625022 GGTT
1 GGTT
4625026 CTGGTTTGAA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.05
6 69 0.91
7 3 0.04
ACGTcount: A:0.11, C:0.01, G:0.40, T:0.48
Consensus pattern (6 bp):
GGTTTA
Found at i:4625031 original size:24 final size:23
Alignment explanation
Indices: 4624920--4625032 Score: 102
Period size: 24 Copynumber: 4.7 Consensus size: 23
4624910 GAATAGGCTC
* *
4624920 GGTTAGGGTTTAGGGTTAGGTTTA
1 GGTTTGGGTTT-GGTTTAGGTTTA
* * * *
4624944 GGTTTATGTTTTGGTTTAGGATCA
1 GGTTT-GGGTTTGGTTTAGGTTTA
4624968 GGTTTGGGTTTGAGTTTAGG-TTA
1 GGTTTGGGTTTG-GTTTAGGTTTA
*
4624991 GGGTTTGGGTTTGGGTTTAGGTTTG
1 -GGTTTGGGTTT-GGTTTAGGTTTA
4625016 GGTTTGGGTTCTGGTTT
1 GGTTTGGGTT-TGGTTT
4625033 GAATTAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
23 7 0.10
24 58 0.79
25 8 0.11
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.48
Consensus pattern (23 bp):
GGTTTGGGTTTGGTTTAGGTTTA
Found at i:4625033 original size:18 final size:18
Alignment explanation
Indices: 4624920--4625025 Score: 86
Period size: 18 Copynumber: 5.9 Consensus size: 18
4624910 GAATAGGCTC
* * *
4624920 GGTTAGGGTTTAGGGTTA
1 GGTTTGGGTTTAGGTTTG
* * *
4624938 GGTTTAGGTTTATGTTTT
1 GGTTTGGGTTTAGGTTTG
* * *
4624956 GGTTTAGGATCAGGTTTG
1 GGTTTGGGTTTAGGTTTG
* *
4624974 GGTTTGAGTTTAGGTTAG
1 GGTTTGGGTTTAGGTTTG
* *
4624992 GGTTTGGGTTTGGGTTTA
1 GGTTTGGGTTTAGGTTTG
*
4625010 GGTTTGGGTTTGGGTT
1 GGTTTGGGTTTAGGTT
4625026 CTGGTTTGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.11, C:0.01, G:0.41, T:0.47
Consensus pattern (18 bp):
GGTTTGGGTTTAGGTTTG
Found at i:4625769 original size:61 final size:61
Alignment explanation
Indices: 4625667--4625802 Score: 218
Period size: 61 Copynumber: 2.2 Consensus size: 61
4625657 CCTAGTTTTT
4625667 AATTTGTTCAATTTAGTCCAAATATAATGATTCAATGTATTAATTTAAGCTTCATATTTAA
1 AATTTGTTCAATTTAGTCCAAATATAATGATTCAATGTATTAATTTAAGCTTCATATTTAA
* * * * *
4625728 AATTTGTTCAATTTATTCCAAATTTAATGTTTCAGTTTATTAATTTAAGCTTCATATTTAA
1 AATTTGTTCAATTTAGTCCAAATATAATGATTCAATGTATTAATTTAAGCTTCATATTTAA
*
4625789 AATTTATTCAATTT
1 AATTTGTTCAATTT
4625803 GATCCTTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (61 bp):
AATTTGTTCAATTTAGTCCAAATATAATGATTCAATGTATTAATTTAAGCTTCATATTTAA
Found at i:4625787 original size:21 final size:20
Alignment explanation
Indices: 4625697--4625787 Score: 64
Period size: 20 Copynumber: 4.5 Consensus size: 20
4625687 AATATAATGA
*
4625697 TTCAATGTATTAATTTAAGC
1 TTCAATTTATTAATTTAAGC
*
4625717 TTCATATTTA-AAATTT--G-
1 TTCA-ATTTATTAATTTAAGC
*
4625734 TTCAATTTATTCCAAATTTAATGT
1 TTCAATTTATT---AATTTAA-GC
*
4625758 TTCAGTTTATTAATTTAAGC
1 TTCAATTTATTAATTTAAGC
4625778 TTCATATTTA
1 TTCA-ATTTA
4625788 AAATTTATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 19
0.69 0.08 0.24
Matches are distributed among these distances:
16 5 0.09
17 4 0.07
18 1 0.02
20 19 0.35
21 15 0.27
23 1 0.02
24 10 0.18
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (20 bp):
TTCAATTTATTAATTTAAGC
Found at i:4625945 original size:18 final size:18
Alignment explanation
Indices: 4625893--4625947 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
4625883 ATAGTTTATA
*
4625893 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
4625913 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
4625931 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
4625948 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:4625950 original size:18 final size:17
Alignment explanation
Indices: 4625858--4625954 Score: 62
Period size: 18 Copynumber: 5.6 Consensus size: 17
4625848 TATCAATAAA
*
4625858 ATAA-TATATAGTTTAT
1 ATAACTATATAGTATAT
*
4625874 ATATACCATATAGT-T-T
1 ATA-ACTATATAGTATAT
4625890 AT-A-TATATAGTTCATAT
1 ATAACTATATAG-T-ATAT
*
4625907 GTAAACTATATAGTATAT
1 AT-AACTATATAGTATAT
4625925 ATAAACTATATATGTAGTAT
1 AT-AACTATATA-GTA-TAT
4625945 AT-ACTATATA
1 ATAACTATATA
4625955 AATAGTTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
13 6 0.09
14 2 0.03
16 7 0.11
17 4 0.06
18 30 0.45
19 5 0.08
20 12 0.18
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (17 bp):
ATAACTATATAGTATAT
Found at i:4625960 original size:18 final size:18
Alignment explanation
Indices: 4625908--4625960 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
4625898 AGTTCATATG
4625908 TAAACTATATAGTATA-TA
1 TAAACTATATA-TATAGTA
*
4625926 TAAACTATATATGTAGTA
1 TAAACTATATATATAGTA
* *
4625944 TATACTATATAAATAGT
1 TAAACTATATATATAGT
4625961 TTATTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (18 bp):
TAAACTATATATATAGTA
Found at i:4626051 original size:27 final size:27
Alignment explanation
Indices: 4626021--4626119 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 27
4626011 TTTGAATTTA
* * *
4626021 TATAGTATAAATTATATAAATATAAAT
1 TATAGTATATAGTATATAAATATCAAT
* *
4626048 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATCAAT
*
4626075 AATAGTATATAGTATATAAATATCAAT
1 TATAGTATATAGTATATAAATATCAAT
*
4626102 TATAGTATATAGTTTATA
1 TATAGTATATAGTATATA
4626120 TATAAACTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATCAAT
Found at i:4628430 original size:21 final size:22
Alignment explanation
Indices: 4628382--4628521 Score: 113
Period size: 28 Copynumber: 5.9 Consensus size: 22
4628372 ACATAGGATT
*
4628382 TGTCCCGAAGGACCGCATAGAAA
1 TGTCCCGAAGGACCACATAG-AA
*
4628405 TGTCCCGAAGAACCACATAG-A
1 TGTCCCGAAGGACCACATAGAA
*
4628426 TGTCCCGAAGGACCACATATAACACATA
1 TGTCCCGAAGGACCAC--AT---AGA-A
*
4628454 TGTCCCGAAGGACCACATATAACACATA
1 TGTCCCGAAGGACCAC--AT---AGA-A
4628482 TGTCCCGAAGGACCACATAG-A
1 TGTCCCGAAGGACCACATAGAA
4628503 TGTCCCGAAGGACCACATA
1 TGTCCCGAAGGACCACATA
4628522 TAACACATAT
Statistics
Matches: 105, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
21 36 0.34
23 21 0.20
26 3 0.03
28 45 0.43
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (22 bp):
TGTCCCGAAGGACCACATAGAA
Found at i:4628460 original size:28 final size:28
Alignment explanation
Indices: 4628425--4628595 Score: 275
Period size: 28 Copynumber: 6.4 Consensus size: 28
4628415 AACCACATAG
4628425 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACATATAACACAT
4628453 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACATATAACACAT
*
4628481 ATGTCCCGAAGGACCAC--AT-----AG
1 ATGTCCCGAAGGACCACATATAACACAT
4628502 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACATATAACACAT
4628530 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACATATAACACAT
4628558 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACATATAACACAT
*
4628586 ATATCCCGAA
1 ATGTCCCGAA
4628596 TGATCACTCC
Statistics
Matches: 133, Mismatches: 3, Indels: 14
0.89 0.02 0.09
Matches are distributed among these distances:
21 18 0.14
23 2 0.02
26 2 0.02
28 111 0.83
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.18
Consensus pattern (28 bp):
ATGTCCCGAAGGACCACATATAACACAT
Found at i:4628469 original size:49 final size:51
Alignment explanation
Indices: 4628404--4628580 Score: 165
Period size: 49 Copynumber: 3.4 Consensus size: 51
4628394 CCGCATAGAA
* *
4628404 ATGTCCCGAAGAACCAC-AT-AGATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACAATAATATGTCCCGAAGGACCACATATAACACAT
*
4628453 ATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCAC--AT-----AG
1 ATGTCCCGAAGGACCACA-AT---A-ATATGTCCCGAAGGACCACATATAACACAT
4628502 ATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCGAAGGACCACA-AT---A-ATATGTCCCGAAGGACCACATATAACACAT
4628558 ATGTCCCGAAGGACCACATATAA
1 ATGTCCCGAAGGACCACA-ATAA
4628581 CACATATATC
Statistics
Matches: 110, Mismatches: 4, Indels: 25
0.79 0.03 0.18
Matches are distributed among these distances:
49 62 0.56
51 4 0.04
52 1 0.01
53 1 0.01
54 2 0.02
56 40 0.36
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.17
Consensus pattern (51 bp):
ATGTCCCGAAGGACCACAATAATATGTCCCGAAGGACCACATATAACACAT
Found at i:4628487 original size:77 final size:77
Alignment explanation
Indices: 4628404--4628577 Score: 339
Period size: 77 Copynumber: 2.3 Consensus size: 77
4628394 CCGCATAGAA
*
4628404 ATGTCCCGAAGAACCACATAGATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCA
1 ATGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCA
4628469 CATATAACACAT
66 CATATAACACAT
4628481 ATGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCA
1 ATGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCA
4628546 CATATAACACAT
66 CATATAACACAT
4628558 ATGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
4628578 TAACACATAT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 96 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (77 bp):
ATGTCCCGAAGGACCACATAGATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCA
CATATAACACAT
Found at i:4628500 original size:19 final size:19
Alignment explanation
Indices: 4628476--4628522 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
4628466 CCACATATAA
4628476 CACATATGTCCCGAAGGAC
1 CACATATGTCCCGAAGGAC
4628495 CACATAGATGTCCCGAAGGAC
1 CACAT--ATGTCCCGAAGGAC
4628516 CACATAT
1 CACATAT
4628523 AACACATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
21 19 0.73
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (19 bp):
CACATATGTCCCGAAGGAC
Found at i:4632564 original size:22 final size:22
Alignment explanation
Indices: 4632539--4632628 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 22
4632529 ACATAGGATT
*
4632539 TGTCCCGAAGGACCGCATAAAA
1 TGTCCCGAAGGACCACATAAAA
*
4632561 TGTCCCGAAGGACCACAT-AGA
1 TGTCCCGAAGGACCACATAAAA
4632582 TGTCCCGAAGGACCACATATAACATATA
1 TGTCCCGAAGGACCAC--AT-A-A-A-A
4632610 TGTCCCGAAGGACCACATA
1 TGTCCCGAAGGACCACATA
4632629 TAACACATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
21 18 0.31
22 17 0.29
23 2 0.03
25 1 0.02
26 3 0.05
28 17 0.29
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (22 bp):
TGTCCCGAAGGACCACATAAAA
Found at i:4632615 original size:28 final size:28
Alignment explanation
Indices: 4632575--4632653 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
4632565 CCGAAGGACC
*
4632575 ACATAGATGTCCCGAAGGACCACATATA
1 ACATATATGTCCCGAAGGACCACATATA
4632603 ACATATATGTCCCGAAGGACCACATATA
1 ACATATATGTCCCGAAGGACCACATATA
* *
4632631 ACACATATGTCCCGAAAGACCAC
1 ACATATATGTCCCGAAGGACCAC
4632654 TCCTTAAGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (28 bp):
ACATATATGTCCCGAAGGACCACATATA
Found at i:4636371 original size:21 final size:21
Alignment explanation
Indices: 4636345--4636387 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4636335 TATCGCGTAG
*
4636345 AAATGTCCCGAATGACCACAT
1 AAATGTCCCGAAGGACCACAT
*
4636366 AAATGTCCTGAAGGACCACAT
1 AAATGTCCCGAAGGACCACAT
4636387 A
1 A
4636388 TAACACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (21 bp):
AAATGTCCCGAAGGACCACAT
Found at i:4643234 original size:21 final size:21
Alignment explanation
Indices: 4643208--4643248 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4643198 GATTATGTCA
4643208 AATATTAAATGCAATCCACAT
1 AATATTAAATGCAATCCACAT
*
4643229 AATATTAACTGCAATCCACA
1 AATATTAAATGCAATCCACA
4643249 AAAATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (21 bp):
AATATTAAATGCAATCCACAT
Found at i:4645501 original size:17 final size:18
Alignment explanation
Indices: 4645479--4645518 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4645469 CCCATTTCGA
*
4645479 ATGCATT-TTATGCATCG
1 ATGCATTGTCATGCATCG
4645496 ATGCATTGTCATGCATCG
1 ATGCATTGTCATGCATCG
4645514 ATGCA
1 ATGCA
4645519 CTCAGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (18 bp):
ATGCATTGTCATGCATCG
Found at i:4645556 original size:46 final size:46
Alignment explanation
Indices: 4645491--4645608 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 46
4645481 GCATTTTATG
*
4645491 CATCG-ATGCATTGTCATGCATCGATGCACT-CAGAATT-TTATGGAAA
1 CATCGAATGCATT-TTATGCATCGATGCACTCCAGAATTGTT-T-GAAA
* **
4645537 CATCGAATGCATTTTATGCATCTATGCACTCCAGGCTTGTTTGAAA
1 CATCGAATGCATTTTATGCATCGATGCACTCCAGAATTGTTTGAAA
4645583 CATCGAATGCATTTTATGCATCGATG
1 CATCGAATGCATTTTATGCATCGATG
4645609 TACCCTTAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
46 49 0.77
47 13 0.20
48 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (46 bp):
CATCGAATGCATTTTATGCATCGATGCACTCCAGAATTGTTTGAAA
Found at i:4660717 original size:23 final size:23
Alignment explanation
Indices: 4660691--4660769 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
4660681 TTTTGTATAA
4660691 TGCATCGATGCATCCTATGAATG
1 TGCATCGATGCATCCTATGAATG
* *
4660714 TGCATCGATACA-CC-ATGAAGG
1 TGCATCGATGCATCCTATGAATG
* * *
4660735 TGCACCAATGAACTCCT-TGAATG
1 TGCATCGATGCA-TCCTATGAATG
*
4660758 TGCATCCATGCA
1 TGCATCGATGCA
4660770 CTCAGCAGTG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 14 0.33
22 2 0.05
23 27 0.63
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCATCCTATGAATG
Found at i:4662282 original size:27 final size:27
Alignment explanation
Indices: 4662252--4662342 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
4662242 ACTCCGGGAG
* *
4662252 CTAGTTCTTCATGAGCTCCTCCTGCAC
1 CTAGCTCTTCACGAGCTCCTCCTGCAC
*
4662279 CTAGCTCTTCACGAGCTCCTCCTTCAC
1 CTAGCTCTTCACGAGCTCCTCCTGCAC
* *
4662306 CTATCTCTTCACGAGATCCTCCTGCAC
1 CTAGCTCTTCACGAGCTCCTCCTGCAC
*
4662333 GTAGCTCTTC
1 CTAGCTCTTC
4662343 TAGTGATCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.15, C:0.40, G:0.13, T:0.32
Consensus pattern (27 bp):
CTAGCTCTTCACGAGCTCCTCCTGCAC
Found at i:4663466 original size:64 final size:65
Alignment explanation
Indices: 4663395--4663545 Score: 191
Period size: 65 Copynumber: 2.3 Consensus size: 65
4663385 ACCCCATTTT
* *
4663395 GAATGCATATTATGCATCGATGCACTG-CCATACATCGATGCACTCAAT-ATT-TTATAGAAACA
1 GAATGCATTTTATGCATCGATGCACAGACCATACATCGATGCACTCAATGATTGTT-T-GAAACA
4663457 TC
64 TC
* * * * *
4663459 GAATGCATTTTATGCATCGATGCACAGACCTTGCATCGATGCACTCCATGCTTGTTTGAACCATC
1 GAATGCATTTTATGCATCGATGCACAGACCATACATCGATGCACTCAATGATTGTTTGAAACATC
*
4663524 GAATGCATTTTATGCATTGATG
1 GAATGCATTTTATGCATCGATG
4663546 TACCCTTAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 25 0.33
65 46 0.61
66 3 0.04
67 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (65 bp):
GAATGCATTTTATGCATCGATGCACAGACCATACATCGATGCACTCAATGATTGTTTGAAACATC
Found at i:4663637 original size:21 final size:21
Alignment explanation
Indices: 4663608--4663663 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
4663598 TTTACACTTG
*
4663608 ATGCGTCGATGCACCTTGACT
1 ATGCATCGATGCACCTTGACT
4663629 ATGCATCGATGCACCTTGACT
1 ATGCATCGATGCACCTTGACT
*
4663650 ATGCATCAATGCAC
1 ATGCATCGATGCAC
4663664 ACATGCTCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGACT
Found at i:4671222 original size:18 final size:19
Alignment explanation
Indices: 4671181--4671227 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
4671171 TGAGCTTCAC
*
4671181 AAATGGAGGAAAACCCAGA
1 AAATGGAGGAAAACCCAAA
*
4671200 AAATGGAGGAAAA-GCAAA
1 AAATGGAGGAAAACCCAAA
4671218 AAATGGAGGA
1 AAATGGAGGA
4671228 GAATATGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.55, C:0.09, G:0.30, T:0.06
Consensus pattern (19 bp):
AAATGGAGGAAAACCCAAA
Found at i:4680773 original size:114 final size:116
Alignment explanation
Indices: 4680636--4680860 Score: 341
Period size: 114 Copynumber: 2.0 Consensus size: 116
4680626 TTAACAAGTG
* *
4680636 AATTAATGCCAGAAATTGATCTATCAAATTTAACTGTTATTGTTTAGATCAT-GACTGAAAATT-
1 AATTAATACCAGAAATTGATCTATCAAAATTAACTGTTATTGTTTAGATCATAG-CTG-AAATTC
* *
4680699 TGAATTTAAAAAA-AATAATAAAAGAATTAGAAATATCAA-TTAAAATACATT
64 AGAATTTAAAAAATAATAATAAAAGAACTAGAAATATCAATTTAAAATACATT
* *
4680750 AATTAATACCAGAAATTGATCTATCAAAATTAACTGTTATTGTTTGGATCATAGCTGAAGTTCAG
1 AATTAATACCAGAAATTGATCTATCAAAATTAACTGTTATTGTTTAGATCATAGCTGAAATTCAG
*
4680815 AATTTAAAAAATAATAATAAAAGACCTAGAAATATCAATTTAAAAT
66 AATTTAAAAAATAATAATAAAAGAACTAGAAATATCAATTTAAAAT
4680861 GCACTGATTA
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
113 4 0.04
114 64 0.64
115 25 0.25
116 7 0.07
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (116 bp):
AATTAATACCAGAAATTGATCTATCAAAATTAACTGTTATTGTTTAGATCATAGCTGAAATTCAG
AATTTAAAAAATAATAATAAAAGAACTAGAAATATCAATTTAAAATACATT
Found at i:4687555 original size:21 final size:22
Alignment explanation
Indices: 4687522--4687565 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4687512 TTTGCATTCG
*
4687522 ATTCTTTAAATTTTTATTAATT
1 ATTCTTTAAATTTTTATGAATT
*
4687544 ATTCTTT-GATTTTTATGAATT
1 ATTCTTTAAATTTTTATGAATT
4687565 A
1 A
4687566 ATCTAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
ATTCTTTAAATTTTTATGAATT
Found at i:4690764 original size:14 final size:14
Alignment explanation
Indices: 4690747--4690774 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4690737 TTTTTGCATC
4690747 ATATTCTTTATTCT
1 ATATTCTTTATTCT
4690761 ATATTCTTTATTCT
1 ATATTCTTTATTCT
4690775 TTCCATTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTCTTTATTCT
Found at i:4694240 original size:7 final size:7
Alignment explanation
Indices: 4694230--4694261 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4694220 AAAAAAAGAA
4694230 AAAAATT
1 AAAAATT
4694237 AAAAATT
1 AAAAATT
4694244 AAAAATT
1 AAAAATT
*
4694251 AAAAATG
1 AAAAATT
4694258 AAAA
1 AAAA
4694262 TGAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:4694278 original size:17 final size:17
Alignment explanation
Indices: 4694258--4694291 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4694248 ATTAAAAATG
4694258 AAAATGAAAAGAAAAGAA
1 AAAAT-AAAAGAAAAGAA
*
4694276 AAAATAAAATAAAAGA
1 AAAATAAAAGAAAAGA
4694292 GAGGAGAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAATAAAAGAAAAGAA
Found at i:4695616 original size:129 final size:134
Alignment explanation
Indices: 4695481--4695814 Score: 371
Period size: 137 Copynumber: 2.5 Consensus size: 134
4695471 ATTTCAAATG
* * *
4695481 AAGAGTTCACAATGAGAAGAAACTCGT-CGATGA-GG-GAAGAAGTTC-TAATGAG-AGAACTTG
1 AAGAGTTCACAATGAGAAG-AACTCATCCAATGAGGGAGAAGAAGTTCAAAATGAGAAGAACTTG
4695541 TTCAACCTTAGCTCGATTCAT-CATATGGAGTTGAATCAGCAA-ACCTCTCGAACGGTCAACATT
65 TTCAACCTTAGCTCGATTCATACATATGGAG-TGAATCAGCAACACCTCTCGAACGGTCAACATT
4695604 CCAGCA
129 CCAGCA
* *
4695610 AAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCAAAATGAGAATAACTTGT
1 AAGAGTTCACAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCAAAATGAGAAGAACTTGT
* * * * * *
4695675 TCAACCTTCGGTTGATTCATCACATATGGAGTGAATCAGCAACACCTCACTCG-AGGGATTAATA
66 TCAACCTTAGCTCGATTCAT-ACATATGGAGTGAATCAGCAACACCT--CTCGAACGG-TCAACA
* *
4695739 TTTCTAGTA
127 -TTCCAGCA
* * * * **
4695748 GAGAGTTCATAATGAG-AGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAGTTTGT
1 AAGAGTTCACAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCAAAATGAGAAGAACTTGT
4695812 TCA
66 TCA
4695815 CCTACGCTTG
Statistics
Matches: 174, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
128 6 0.03
129 23 0.13
130 2 0.01
131 10 0.06
132 6 0.03
133 25 0.14
134 11 0.06
135 13 0.07
136 3 0.02
137 54 0.31
138 21 0.12
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (134 bp):
AAGAGTTCACAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCAAAATGAGAAGAACTTGT
TCAACCTTAGCTCGATTCATACATATGGAGTGAATCAGCAACACCTCTCGAACGGTCAACATTCC
AGCA
Found at i:4695783 original size:137 final size:136
Alignment explanation
Indices: 4695464--4696076 Score: 506
Period size: 132 Copynumber: 4.6 Consensus size: 136
4695454 CTTGCTTAAT
* * *
4695464 GATTAACATTTCAAAT-GAAGAGTTCACAATGAGAAGAAACTCGT-CGATGA-GG-GAAGAAGTT
1 GATTAACATTTCAAGTAG-AGAGTTCATAATGAGAAG-AACTCATCCGATGAGGGAGAAGAAGTT
* *
4695525 C-TAATGAG-AGAACTTGTTCAACCTTAGCTCGATTCAT-CATATGGAGTTGAATCAGCAA-ACC
64 CATAATGAGAAGAACTTGTTCAACCTTCGCTTGATTCATACATATGGAG-TGAATCAGCAACACC
*
4695586 T-CTCGAACG
128 TCCTCG-AGG
* * * * *
4695595 G-TCAACA-TTCCAGCAAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCA
1 GATTAACATTTCAAGTAGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * *
4695658 AAATGAGAATAACTTGTTCAACCTTCGGTTGATTCATCACATATGGAGTGAATCAGCAACACCTC
66 TAATGAGAAGAACTTGTTCAACCTTCGCTTGATTCAT-ACATATGGAGTGAATCAGCAACACCTC
4695723 ACTCGAGG
130 -CTCGAGG
* *
4695731 GATTAATATTTCTAGTAGAGAGTTCATAATGAG-AGAACTCATCCGATGAGGGAGAAGAAGTTCA
1 GATTAACATTTCAAGTAGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
** * * * * ** *
4695795 TAATGAGAAGAGTTTGTTC-ACCTACGCTTGATTTATGACAT-T---TTAAATCAGTGACGCCTC
66 TAATGAGAAGAACTTGTTCAACCTTCGCTTGATTCAT-ACATATGGAGTGAATCAGCAACACCTC
* *
4695855 GTTGAGG
130 CTCGAGG
* * * *
4695862 TATTAACATTTCAAATGGAGAGTT-ATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
1 GATTAACATTTCAAGTAGAGAGTTCATAATGAGAAGAACTCATCCG-ATGAGGGAGAAGAAGTTC
** * * * * **
4695926 ATAATGAG-AG--CTTGTTCAACCTATAACTCGATTCACATCATTTCGA-T---TCAGTGACA-C
65 ATAATGAGAAGAACTTGTTCAACCT-TCGCTTGATTCATA-CATATGGAGTGAATCAGCAACACC
* *
4695983 TCATTTGAGG
128 TC-CTCGAGG
* * * *
4695993 GATTGACATTTTCAA-TGGAGAGTTCATAATGAGAAGAACTCATCCGACGGAGGGAGAGGAAGTT
1 GATTAACA-TTTCAAGTAGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTT
*
4696057 CATAATGAGAAGAGCTTGTT
64 CATAATGAGAAGAACTTGTT
4696077 TGACCTATTG
Statistics
Matches: 399, Mismatches: 54, Indels: 54
0.79 0.11 0.11
Matches are distributed among these distances:
128 6 0.02
129 32 0.08
130 23 0.06
131 89 0.22
132 95 0.24
133 27 0.07
134 12 0.03
135 20 0.05
136 21 0.05
137 53 0.13
138 21 0.05
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (136 bp):
GATTAACATTTCAAGTAGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTCGCTTGATTCATACATATGGAGTGAATCAGCAACACCTCC
TCGAGG
Found at i:4695933 original size:132 final size:135
Alignment explanation
Indices: 4695200--4696140 Score: 677
Period size: 131 Copynumber: 7.1 Consensus size: 135
4695190 GAAGATGAAC
* *
4695200 GATTAACATTTCAAGTGGAGAGTTCATAATGAGAATAA-TCATCTAAC-AAAG-GGGA-AAGAAG
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATC---CGAAAGAGGGAGAAGAAG
* * *
4695261 TTCATAATGAGAAGAGC-TGTT-GACCTATCAC-CGATTCA-CGTCATTTTGAAT-AGTGACGCC
63 TTCATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATC-ACATTTTGAATCAGTGACACC
*
4695321 TCGCTTAAGG
127 TCG-TTGAGG
* * *
4695331 GATTAACACTTCAAATGGAGAGTTCATAATGAGTAGAACTCATCC-AACAGAGGGAGAATAAGTT
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAA-AGAGGGAGAAGAAGTT
* * * * * * * *
4695395 CATAATGAGAAGAGATTATTCGACCAATCACTCAATTCATGGA-A-TTTGGATCAGTGA-ACCTT
65 CATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCAT-CACATTTTGAATCAGTGACACCTC
**
4695457 GCTT-AAT
129 G-TTGAGG
* * * *
4695464 GATTAACATTTCAAATGAAGAGTTCACAATGAGAAGAAACTCGT-CG-ATGA-GG-GAAGAAGTT
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAG-AACTCATCCGAAAGAGGGAGAAGAAGTT
* * * * *
4695525 C-TAATGAG-AGAACTTGTTCAACCT-T-AGCTCGATTCATCATATGGAGTTGAATCAG-CAAAC
65 CATAATGAGAAGAGCTTGTTCAACCTATCA-CTCGATTCATCACAT---TTTGAATCAGTGACAC
* *
4695585 CTC-TCGAACG
126 CTCGTTG-AGG
* * *
4695595 G-TCAACATTCCAGCAA---AGAGTTCATAATGAGAAGAACTCATCC-AATGAGGGAGAAGAAGT
1 GATTAACATTTCA--AATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGT
* * * ** * * **
4695655 TCAAAATGAGAATAACTTGTTCAACCT-TCGGTTGATTCATCACATATGGAGTGAATCAGCAACA
64 TCATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATCACAT-T---TTGAATCAGTGACA
* *
4695719 CCTCACTCGAGG
125 CCTC-GTTGAGG
* * * * *
4695731 GATTAATATTTCTAGTAGAGAGTTCATAATGAG-AGAACTCATCCG-ATGAGGGAGAAGAAGTTC
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
* * * * * * *
4695794 ATAATGAGAAGAGTTTGTTC-ACCTA-CGCTTGATTTATGACATTTTAAATCAGTGACGCCTCGT
66 ATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATCACATTTTGAATCAGTGACACCTCGT
4695857 TGAGG
131 TGAGG
*
4695862 TATTAACATTTCAAATGGAGAGTT-ATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
* * *
4695926 ATAAT--G-AGAGCTTGTTCAACCTATAACTCGATTCA-CATCATTTCGATTCAGTGACA-CTCA
66 ATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATCA-CATTTTGAATCAGTGACACCTC-
*
4695986 TTTGAGG
129 GTTGAGG
* ** *
4695993 GATTGACATTTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGACGGAGGGAGAGGAAGTT
1 GATTAACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTT
** *** * * **
4696057 CATAATGAGAAGAGCTTGTTTGACCTATTGTTCGATTCATAACACTTTGAATCAGACACACCTCA
65 CATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATCACATTTTGAATCAGTGACACCTC-
*
4696122 CTTGAGG
129 GTTGAGG
* *
4696129 GATCAATATTTC
1 GATTAACATTTC
4696141 TAGAAGAAAG
Statistics
Matches: 647, Mismatches: 108, Indels: 106
0.75 0.13 0.12
Matches are distributed among these distances:
126 2 0.00
127 11 0.02
128 17 0.03
129 43 0.07
130 41 0.06
131 145 0.22
132 117 0.18
133 66 0.10
134 37 0.06
135 61 0.09
136 37 0.06
137 55 0.09
138 15 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (135 bp):
GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTC
ATAATGAGAAGAGCTTGTTCAACCTATCACTCGATTCATCACATTTTGAATCAGTGACACCTCGT
TGAGG
Found at i:4700113 original size:128 final size:128
Alignment explanation
Indices: 4699862--4700121 Score: 504
Period size: 129 Copynumber: 2.0 Consensus size: 128
4699852 AGGGCCTCCA
4699862 TTTTTTTAAATGATCAGGATAAACCTTCTCTGTGATTCTTCGTGCTTCTTAGGAAGTTCGATTTC
1 TTTTTTTAAATGATCAGGATAAACCTTCTCTGTGATTCTTCGTGCTTCTTAGGAAGTTCGATTTC
4699927 GTCCCTATTTGTCTACCTTGTAATTTTTTATGTTACTTTTAATTTTCGGTCCCTATGTATTAC
66 GTCCCTATTTGTCTACCTTGTAATTTTTTATGTTACTTTTAATTTTCGGTCCCTATGTATTAC
4699990 TTTTTTTAAATGATCAGGGATAAACCTTCTCTGTGATTCTTCGTGCTTCTTAGGAAGTTCGATTT
1 TTTTTTTAAATGATCA-GGATAAACCTTCTCTGTGATTCTTCGTGCTTCTTAGGAAGTTCGATTT
4700055 CGTCCCTATTTGTCTACCTTGTAA-TTTTTATGTTACTTTTAATTTTCGGTCCCTATGTATTAC
65 CGTCCCTATTTGTCTACCTTGTAATTTTTTATGTTACTTTTAATTTTCGGTCCCTATGTATTAC
4700118 TTTT
1 TTTT
4700122 ATTTGGTGAA
Statistics
Matches: 131, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
128 59 0.45
129 72 0.55
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (128 bp):
TTTTTTTAAATGATCAGGATAAACCTTCTCTGTGATTCTTCGTGCTTCTTAGGAAGTTCGATTTC
GTCCCTATTTGTCTACCTTGTAATTTTTTATGTTACTTTTAATTTTCGGTCCCTATGTATTAC
Found at i:4700917 original size:2 final size:2
Alignment explanation
Indices: 4700905--4700946 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4700895 TTACATCCAT
*
4700905 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4700947 ATGCTCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4703515 original size:21 final size:21
Alignment explanation
Indices: 4703491--4703531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4703481 AGCTGAGCCG
*
4703491 TGTTGACCGTTGATCGAGTCA
1 TGTTAACCGTTGATCGAGTCA
*
4703512 TGTTAACTGTTGATCGAGTC
1 TGTTAACCGTTGATCGAGTC
4703532 GTAAATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (21 bp):
TGTTAACCGTTGATCGAGTCA
Found at i:4704861 original size:21 final size:21
Alignment explanation
Indices: 4704835--4704882 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
4704825 AAAAACAACT
4704835 AAAATCTAATTTTGGTTATGC
1 AAAATCTAATTTTGGTTATGC
4704856 AAAATCTAATTTTGGTTATGC
1 AAAATCTAATTTTGGTTATGC
*
4704877 CAAATC
1 AAAATC
4704883 ACTTATTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAATCTAATTTTGGTTATGC
Found at i:4715812 original size:17 final size:18
Alignment explanation
Indices: 4715790--4715825 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4715780 ATTGATATAC
4715790 TAATGTTAT-GACATTGT
1 TAATGTTATAGACATTGT
*
4715807 TAATGTTATAGCCATTGT
1 TAATGTTATAGACATTGT
4715825 T
1 T
4715826 GAGCACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (18 bp):
TAATGTTATAGACATTGT
Found at i:4718477 original size:12 final size:12
Alignment explanation
Indices: 4718460--4718485 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4718450 TAGAGTATAA
4718460 ATACATAGAAAT
1 ATACATAGAAAT
4718472 ATACATAGAAAT
1 ATACATAGAAAT
4718484 AT
1 AT
4718486 TTTGTTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (12 bp):
ATACATAGAAAT
Found at i:4722274 original size:61 final size:61
Alignment explanation
Indices: 4722190--4722305 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
4722180 TTCAGGTGGA
4722190 GGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACCTAGTGTACATGGT
1 GGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACCTAGTGTACATGGT
* * * * * * *
4722251 GGGCACGACCTTGTGTTTCATATCTGGATTAGCACTATAGTGTAAGCTTAGTGTA
1 GGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACCTAGTGTA
4722306 GGTTTAACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (61 bp):
GGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACCTAGTGTACATGGT
Found at i:4730188 original size:13 final size:14
Alignment explanation
Indices: 4730153--4730190 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4730143 ACTATCTATT
*
4730153 TCCATCACCATCTT
1 TCCATCACCATCTC
*
4730167 TCAATCACCATC-C
1 TCCATCACCATCTC
4730180 TCCATCACCAT
1 TCCATCACCAT
4730191 TCACGCCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (14 bp):
TCCATCACCATCTC
Found at i:4734923 original size:45 final size:45
Alignment explanation
Indices: 4734872--4735002 Score: 212
Period size: 45 Copynumber: 2.9 Consensus size: 45
4734862 AATTTCTTAT
*
4734872 CAATATACTTACCATTTATCCCACAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTAC
* *
4734917 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTAATTTAC
1 CAATATACTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTAC
4734962 CAATATACTTACCA-TTAGT-CCATAAGCTTGTAAGCTTATTT
1 CAATATACTTACCATTTA-TCCCATAAGCTTGTAAGCTTATTT
4735003 GCATGATTAC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
44 23 0.29
45 57 0.71
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTAC
Found at i:4738767 original size:16 final size:17
Alignment explanation
Indices: 4738738--4738769 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4738728 TTTCTATGAA
4738738 AGAAATAGATTTGAATT
1 AGAAATAGATTTGAATT
4738755 AGAAATA-ATTTGAAT
1 AGAAATAGATTTGAAT
4738770 AAATAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (17 bp):
AGAAATAGATTTGAATT
Found at i:4740323 original size:17 final size:17
Alignment explanation
Indices: 4740301--4740340 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4740291 ACTTTTCTAG
* *
4740301 CTTTATCATTAAGGCAT
1 CTTTATCAATAAGACAT
4740318 CTTTATCAATAAGACAT
1 CTTTATCAATAAGACAT
4740335 CTTTAT
1 CTTTAT
4740341 GATGTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (17 bp):
CTTTATCAATAAGACAT
Found at i:4742002 original size:64 final size:64
Alignment explanation
Indices: 4741870--4742008 Score: 142
Period size: 64 Copynumber: 2.2 Consensus size: 64
4741860 GCACTAAGAG
* * ***
4741870 TGCATCGATGCATCAAGTGCATTCGATGTTCTAAAATAGTCAGAGTGCATCGATGCATGGTTGG
1 TGCATCGATGCATCAAATGCATTCGATGTTCTAAAATACTCAGAGTGCATCGATGCATGGTAAA
* *
4741934 TGCATCTATGCATCAAATGCATTCGATGTTTTTCATAAAATCCTCA-A-TGCATCGATGCAT-G-
1 TGCATCGATGCATCAAATGCATTCGATG---TTC-TAAAATACTCAGAGTGCATCGATGCATGGT
4741995 AAA
62 AAA
4741998 TGCATTCGATG
1 TGCA-TCGATG
4742009 TTCAATTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
64 30 0.48
65 6 0.10
66 13 0.21
67 4 0.06
68 9 0.15
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (64 bp):
TGCATCGATGCATCAAATGCATTCGATGTTCTAAAATACTCAGAGTGCATCGATGCATGGTAAA
Found at i:4744703 original size:44 final size:43
Alignment explanation
Indices: 4744646--4744738 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
4744636 GGCCTTGCAC
* *
4744646 ATCGAT-TCACATTCAAGGCGTGCATCGGTGCATCT-TCATGGTGT
1 ATCGATGTCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGT
*
4744690 ATCGATGT-ACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGTCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
4744732 ATCGATG
1 ATCGATG
4744739 CATGAAGCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 14 0.32
43 13 0.30
44 16 0.36
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
ATCGATGTCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
Found at i:4747935 original size:13 final size:13
Alignment explanation
Indices: 4747917--4747942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4747907 ATTTTTAATT
4747917 TGTGACCTTTTGA
1 TGTGACCTTTTGA
4747930 TGTGACCTTTTGA
1 TGTGACCTTTTGA
4747943 ATTATCACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTGACCTTTTGA
Found at i:4750615 original size:66 final size:66
Alignment explanation
Indices: 4750480--4750640 Score: 213
Period size: 66 Copynumber: 2.5 Consensus size: 66
4750470 TACACTAAGA
* * *
4750480 GTGCATCGATACATCAAGTGCATTCGATG--TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
4750543 G
66 G
* *
4750544 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCA-AAATAGCCACAGTGCATCGATGCATGGC
*
4750607 TAT
65 T-G
*
4750610 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
4750641 CAATTTAATT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
64 27 0.31
65 1 0.01
66 55 0.64
67 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
G
Found at i:4754010 original size:23 final size:23
Alignment explanation
Indices: 4753983--4754026 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
4753973 AACTAAAAAT
4753983 AACGAATAAAAA-TAAAAATTATA
1 AACGAA-AAAAATTAAAAATTATA
4754006 AACGAAAAAAATTAAAAATTA
1 AACGAAAAAAATTAAAAATTA
4754027 AAAATAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (23 bp):
AACGAAAAAAATTAAAAATTATA
Found at i:4755647 original size:513 final size:513
Alignment explanation
Indices: 4754677--4755707 Score: 2017
Period size: 513 Copynumber: 2.0 Consensus size: 513
4754667 CACGATTCGA
4754677 TACTTTCGCTTGCTCATTTGTTTGTGGATGGTAGGTCGTGGCAATTCTTTGAGTTACTCCAAATT
1 TACTTTCGCTTGCTCATTTGTTTGTGGATGGTAGGTCGTGGCAATTCTTTGAGTTACTCCAAATT
4754742 TATTCATGGGTGCCTCGATGATCCGATTAATAAAGTGAGTTATTCAATCACTAATTATCGCCCAT
66 TATTCATGGGTGCCTCGATGATCCGATTAATAAAGTGAGTTATTCAATCACTAATTATCGCCCAT
4754807 GGTGTGCCAAACCTAGAGAAAATAAAATTTTTCAGAAAATTAACAATCGTTTTGGCATCATTATT
131 GGTGTGCCAAACCTAGAGAAAATAAAATTTTTCAGAAAATTAACAATCGTTTTGGCATCATTATT
*
4754872 TCGGGTAGCTTTTGCTTTTACCCATTTAGAAACACAATCAACTGCAAGTAAAATATATGTATTTC
196 TCGGGTAGCTTTTGCTTTTACCCATTTAGAAACACAATCAACTGCAAGTAAAATATATATATTTC
4754937 CAAATGAAGAAGTAAAAGGACCCATATGAATTGAATTTTGAGGCATTTCGTTTCTTTGGCTTCAA
261 CAAATGAAGAAGTAAAAGGACCCATATGAATTGAATTTTGAGGCATTTCGTTTCTTTGGCTTCAA
4755002 TTACATGCATGTTGACACCTTTCACAAGTTTTAAAAATAAAAAAGTGTCACTAAAAATAGTAGGC
326 TTACATGCATGTTGACACCTTTCACAAGTTTTAAAAATAAAAAAGTGTCACTAAAAATAGTAGGC
4755067 TAAAAAACCACATTCTAAGATCTTATGAACAGTGTGCTTTGGTCCAAAATGACTACTGCAAGAGT
391 TAAAAAACCACATTCTAAGATCTTATGAACAGTGTGCTTTGGTCCAAAATGACTACTGCAAGAGT
4755132 AGGAATGATAGAAATTTATAATCGAATTTACCTCATCTTCGGCGATACATCACCGGAT
456 AGGAATGATAGAAATTTATAATCGAATTTACCTCATCTTCGGCGATACATCACCGGAT
4755190 TACTTTCGCTTGCTCATTTGTTTGTGGATGGTAGGTCGTGGCAATTCTTTGAGTTACTCCAAATT
1 TACTTTCGCTTGCTCATTTGTTTGTGGATGGTAGGTCGTGGCAATTCTTTGAGTTACTCCAAATT
4755255 TATTCATGGGTGCCTCGATGATCCGATTAATAAAGTGAGTTATTCAATCACTAATTATCGCCCAT
66 TATTCATGGGTGCCTCGATGATCCGATTAATAAAGTGAGTTATTCAATCACTAATTATCGCCCAT
4755320 GGTGTGCCAAACCTAGAGAAAATAAAATTTTTCAGAAAATTAACAATCGTTTTGGCATCATTATT
131 GGTGTGCCAAACCTAGAGAAAATAAAATTTTTCAGAAAATTAACAATCGTTTTGGCATCATTATT
4755385 TCGGGTAGCTTTTGCTTTTACCCATTTAGAAACACAATCAACTGCAAGTAAAATATATATATTTC
196 TCGGGTAGCTTTTGCTTTTACCCATTTAGAAACACAATCAACTGCAAGTAAAATATATATATTTC
4755450 CAAATGAAGAAGTAAAAGGACCCATATGAATTGAATTTTGAGGCATTTCGTTTCTTTGGCTTCAA
261 CAAATGAAGAAGTAAAAGGACCCATATGAATTGAATTTTGAGGCATTTCGTTTCTTTGGCTTCAA
*
4755515 TTACATGCATGTTGACACCTTTCACAAGTTTTAAAAATAAGAAAGTGTCACTAAAAATAGTAGGC
326 TTACATGCATGTTGACACCTTTCACAAGTTTTAAAAATAAAAAAGTGTCACTAAAAATAGTAGGC
* *
4755580 TAAAAAACCACATTCTAAGATCTTATGACCAGTGTGCTTTGGTCCAAAATGACTACTGCAGGAGT
391 TAAAAAACCACATTCTAAGATCTTATGAACAGTGTGCTTTGGTCCAAAATGACTACTGCAAGAGT
*
4755645 AGGAATGATAGAAATTTATAATCGAATTTACCTCATCTTCGGCGATACATCACTGGAT
456 AGGAATGATAGAAATTTATAATCGAATTTACCTCATCTTCGGCGATACATCACCGGAT
4755703 TACTT
1 TACTT
4755708 GATCAGAGCA
Statistics
Matches: 513, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
513 513 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (513 bp):
TACTTTCGCTTGCTCATTTGTTTGTGGATGGTAGGTCGTGGCAATTCTTTGAGTTACTCCAAATT
TATTCATGGGTGCCTCGATGATCCGATTAATAAAGTGAGTTATTCAATCACTAATTATCGCCCAT
GGTGTGCCAAACCTAGAGAAAATAAAATTTTTCAGAAAATTAACAATCGTTTTGGCATCATTATT
TCGGGTAGCTTTTGCTTTTACCCATTTAGAAACACAATCAACTGCAAGTAAAATATATATATTTC
CAAATGAAGAAGTAAAAGGACCCATATGAATTGAATTTTGAGGCATTTCGTTTCTTTGGCTTCAA
TTACATGCATGTTGACACCTTTCACAAGTTTTAAAAATAAAAAAGTGTCACTAAAAATAGTAGGC
TAAAAAACCACATTCTAAGATCTTATGAACAGTGTGCTTTGGTCCAAAATGACTACTGCAAGAGT
AGGAATGATAGAAATTTATAATCGAATTTACCTCATCTTCGGCGATACATCACCGGAT
Found at i:4760173 original size:20 final size:20
Alignment explanation
Indices: 4760145--4760182 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4760135 CCCACAGACA
*
4760145 ACAATTATTACTATAATGAT
1 ACAACTATTACTATAATGAT
4760165 ACAACTATTACTATAATG
1 ACAACTATTACTATAATG
4760183 TCAACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
ACAACTATTACTATAATGAT
Found at i:4760407 original size:17 final size:17
Alignment explanation
Indices: 4760385--4760427 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4760375 CATGGTATAG
4760385 TATCTTTTACTATATTA
1 TATCTTTTACTATATTA
* * *
4760402 TATCTTTTATTGTATTG
1 TATCTTTTACTATATTA
4760419 TATCTTTTA
1 TATCTTTTA
4760428 GTTTCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (17 bp):
TATCTTTTACTATATTA
Found at i:4760647 original size:47 final size:47
Alignment explanation
Indices: 4760576--4760675 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
4760566 AATGGTATAT
* * *
4760576 CACATTTAGTGCCCAGTATACAGTATAAACTGCCAATAACAATATTG
1 CACATTCAATGCCCAGTATACAGTATAAACTGCCAATAACAATATGG
* *
4760623 CACATTCAATGCCCAGTATGCAGTATAAACTGCCAGTAACAATATGG
1 CACATTCAATGCCCAGTATACAGTATAAACTGCCAATAACAATATGG
4760670 CACATT
1 CACATT
4760676 AAGTGCCAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATTCAATGCCCAGTATACAGTATAAACTGCCAATAACAATATGG
Found at i:4766339 original size:16 final size:15
Alignment explanation
Indices: 4766311--4766360 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
4766301 TTAAGAACAT
4766311 ATAAAAATAAATAATA
1 ATAAAAAT-AATAATA
*
4766327 ATTAAAATCAAT-ATA
1 ATAAAAAT-AATAATA
4766342 TATAAAAATAATAATA
1 -ATAAAAATAATAATA
4766358 ATA
1 ATA
4766361 CTCATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:4767625 original size:3 final size:3
Alignment explanation
Indices: 4767617--4767644 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4767607 AATTATTTAG
4767617 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4767645 CAAATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4775367 original size:18 final size:19
Alignment explanation
Indices: 4775344--4775388 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
4775334 TGTTTATATT
4775344 AAATAAATTAAATTTCA-A
1 AAATAAATTAAATTTCAGA
*
4775362 AAATAAATTGAATTTCAGA
1 AAATAAATTAAATTTCAGA
4775381 AAGATAAA
1 AA-ATAAA
4775389 CTTGGAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.67
19 3 0.12
20 5 0.21
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATAAATTAAATTTCAGA
Found at i:4779298 original size:9 final size:9
Alignment explanation
Indices: 4779275--4779305 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4779265 GAAAAATAAT
4779275 GAATGTAAA
1 GAATGTAAA
4779284 -AATGTAAA
1 GAATGTAAA
4779292 GAATGTAAA
1 GAATGTAAA
4779301 GAATG
1 GAATG
4779306 ATTTCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GAATGTAAA
Found at i:4787206 original size:11 final size:11
Alignment explanation
Indices: 4787192--4787237 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4787182 AACATAATTA
4787192 AAATAATTTAT
1 AAATAATTTAT
4787203 AAATAATTTAT
1 AAATAATTTAT
*
4787214 -AA-AATTTGT
1 AAATAATTTAT
*
4787223 AAATAGGTTTAT
1 AAATA-ATTTAT
4787235 AAA
1 AAA
4787238 CAAATATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 6 0.21
10 4 0.14
11 12 0.41
12 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
AAATAATTTAT
Found at i:4787219 original size:20 final size:21
Alignment explanation
Indices: 4787196--4787237 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4787186 TAATTAAAAT
4787196 AATTTATAAATA-ATTTATAA
1 AATTTATAAATAGATTTATAA
* *
4787216 AATTTGTAAATAGGTTTATAA
1 AATTTATAAATAGATTTATAA
4787237 A
1 A
4787238 CAAATATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
AATTTATAAATAGATTTATAA
Found at i:4788304 original size:20 final size:20
Alignment explanation
Indices: 4788275--4788312 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4788265 GTAAAGGGTG
* *
4788275 GCTATTTGGTGAGTCACCGA
1 GCTATGTGGTGACTCACCGA
4788295 GCTATGTGGTGACTCACC
1 GCTATGTGGTGACTCACC
4788313 CTAATAGCTG
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:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (20 bp):
GCTATGTGGTGACTCACCGA
Found at i:4813277 original size:27 final size:25
Alignment explanation
Indices: 4813225--4813272 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4813215 AAGAGATTGA
*
4813225 AGATGAAAGGAGTGTGTTGTGTAAG
1 AGATGAAAGGAGTGTGTTATGTAAG
*
4813250 AGATTAAAGGAGTGTGTTATGTA
1 AGATGAAAGGAGTGTGTTATGTA
4813273 CAAGATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (25 bp):
AGATGAAAGGAGTGTGTTATGTAAG
Found at i:4813278 original size:25 final size:24
Alignment explanation
Indices: 4813224--4813279 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
4813214 TAAGAGATTG
* *
4813224 AAGATGAAAGGAGTGTGTTGTGTA
1 AAGATTAAAGGAGTGTGTTATGTA
4813248 AGAGATTAAAGGAGTGTGTTATGTA
1 A-AGATTAAAGGAGTGTGTTATGTA
4813273 CAAGATT
1 -AAGATT
4813280 GAAGATGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (24 bp):
AAGATTAAAGGAGTGTGTTATGTA
Found at i:4813795 original size:13 final size:13
Alignment explanation
Indices: 4813777--4813801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4813767 ATTGACAATA
4813777 TAATATTAGACTG
1 TAATATTAGACTG
4813790 TAATATTAGACT
1 TAATATTAGACT
4813802 CAAGTATTGA
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:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TAATATTAGACTG
Found at i:4814594 original size:17 final size:17
Alignment explanation
Indices: 4814563--4814612 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
4814553 TCACGATCGT
*
4814563 GAACT-ATTTTCTAAAG
1 GAACTGATTTTTTAAAG
4814579 GATA-TGATTTTTTAAAAG
1 GA-ACTGATTTTTT-AAAG
*
4814597 GAACTGATTCTTTAAA
1 GAACTGATTTTTTAAA
4814613 TTGTAATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 14 0.50
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (17 bp):
GAACTGATTTTTTAAAG
Found at i:4815112 original size:81 final size:81
Alignment explanation
Indices: 4814985--4815445 Score: 636
Period size: 81 Copynumber: 5.7 Consensus size: 81
4814975 ATGAAAGGTC
* *** * *
4814985 AAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCTTGTAATACAAGTTAGATGAAATGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
*
4815050 CTTTGGAGGAAAGTTT
66 CTTTAGAGGAAAGTTT
* **
4815066 AAATGCCTAACTGTGCATTTGGTAGAAATATGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
4815131 CTTTAGAGGAAAGTTT
66 CTTTAGAGGAAAGTTT
* * * * *
4815147 AAATTCCTAACTTTGCATTTGGTAGAAATGTGCTCATAATGCAAGTTAGATGAAAGGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
*
4815212 ATTTAGAGGAAAGTTT
66 CTTTAGAGGAAAGTTT
* * * * * *
4815228 CAATGCCTAACCGTGCATTTTGCAGGAAGGTGCTCATAATCCAAGTTAGATGAAAGGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
4815293 CTTTAGAGGAAAGTTT
66 CTTTAGAGGAAAGTTT
*
4815309 AAATGTCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
1 AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
*
4815374 CTTTAGAGGAAAGTTA
66 CTTTAGAGGAAAGTTT
** * * *
4815390 AAATGGTTAACTGTGCATTTTGGTAGAAAGGTG-CCACTAATGCCAGTTAAATGAAA
1 AAATGCCTAACTGTGCA-TTTGGCAGAAAGGTGCCCA-TAATGCAAGTTAGATGAAA
4815446 AACAGTGTAT
Statistics
Matches: 340, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 309 0.91
82 31 0.09
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
AAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCCATAATGCAAGTTAGATGAAAGGTTAAATGC
CTTTAGAGGAAAGTTT
Found at i:4815223 original size:22 final size:22
Alignment explanation
Indices: 4815192--4815233 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4815182 ATAATGCAAG
*
4815192 TTAGATGAAAGGTTAAATGCAT
1 TTAGAGGAAAGGTTAAATGCAT
* *
4815214 TTAGAGGAAAGTTTCAATGC
1 TTAGAGGAAAGGTTAAATGC
4815234 CTAACCGTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (22 bp):
TTAGAGGAAAGGTTAAATGCAT
Found at i:4816517 original size:19 final size:19
Alignment explanation
Indices: 4816493--4816548 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4816483 TCTGCTTCAA
*
4816493 TTGCCAATGCAATTCCTAT
1 TTGCCAAAGCAATTCCTAT
*
4816512 TTGCCAAGGCAATTCCTAT
1 TTGCCAAAGCAATTCCTAT
*
4816531 TTGCCAAAACAATTCCTA
1 TTGCCAAAGCAATTCCTA
4816549 ATCTGCACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (19 bp):
TTGCCAAAGCAATTCCTAT
Found at i:4819403 original size:108 final size:109
Alignment explanation
Indices: 4819209--4819457 Score: 378
Period size: 108 Copynumber: 2.3 Consensus size: 109
4819199 GTTGCTAGTG
*
4819209 GGCACGATATCCTTCGTCGTGATGTTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCCTT
*
4819274 GAATTGTATATCCTTCGTCGTGAAGTTGAAATACAAAG-ATTGTT
66 GAATTGTATATCCTTCATCGTGAAGTTGAAAT-CAAAGTATTGTT
* * * * *
4819318 GGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATGGCTCCTT-TTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCCTT
*
4819382 GAATTAG-ATATCCTTCATCGTGAAGTTGAAATCCAAGTATTGTT
66 GAATT-GTATATCCTTCATCGTGAAGTTGAAATCAAAGTATTGTT
*
4819426 GACACGATATCCTTCGTCGTGAAGTTGAAATC
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATC
4819458 CAAGTATTGT
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
107 4 0.03
108 80 0.63
109 43 0.34
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (109 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCCTT
GAATTGTATATCCTTCATCGTGAAGTTGAAATCAAAGTATTGTT
Found at i:4819449 original size:43 final size:43
Alignment explanation
Indices: 4819388--4819500 Score: 208
Period size: 43 Copynumber: 2.6 Consensus size: 43
4819378 CTTTGAATTA
*
4819388 GATATCCTTCATCGTGAAGTTGAAATCCAAGTATTGTTGACAC
1 GATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGACAC
*
4819431 GATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGGCAC
1 GATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGACAC
4819474 GATATCCTTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
4819501 GTGGATGACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (43 bp):
GATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGACAC
Found at i:4819528 original size:260 final size:261
Alignment explanation
Indices: 4819209--4819718 Score: 801
Period size: 260 Copynumber: 2.0 Consensus size: 261
4819199 GTTGCTAGTG
* * *
4819209 GGCACGATATCCTTCGTCGTGATGTTGAAATCGTGGATGGCTCATTCATTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTGTGAAGTTGAGCCTT
* * *
4819274 GAATTGTATATCCTTCGTCGTGAAGTTGAAATACAAAG-ATTGTTGGCACGATATCCTTCATCAT
66 GAATTGGATATCCTTCATCGTGAAGTTAAAAT-CAAAGTATTGTTGGCACGATATCCTTCATCAT
* *
4819338 GAAGTTGAAATCGTGGATGGCTCC-TT-TTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATC
130 GAAGTTGAAATCATGGATGGC-CCATTCGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATC
4819401 GTGAAGTTGAAATCCAAGTATTGTTGACACGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATT
194 GTGAAGTTGAAATCCAAGTATTGTTGACACGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATT
4819466 GTT
259 GTT
* * * *
4819469 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTTAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTGTGAAGTTGAGCCTT
* * * *
4819534 GAATTGGATATCCTTCATTGTGAAGTTAAAATCCAAGTATTGTTGGTATGATATCCTTCATCATG
66 GAATTGGATATCCTTCATCGTGAAGTTAAAATCAAAGTATTGTTGGCACGATATCCTTCATCATG
* * *
4819599 AAGTTGAAATCATGGATGGCCCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGT
131 AAGTTGAAATCATGGATGGCCCATTCGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGT
*
4819664 GAAGTTGAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTGAAATC
196 GAAGTTGAAATCCAAGTATTGTTGACACGATATCCTTCGTCGTGAAGTTGAAATC
4819719 GTGGATGGCC
Statistics
Matches: 227, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
259 6 0.03
260 132 0.58
261 89 0.39
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (261 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTGTGAAGTTGAGCCTT
GAATTGGATATCCTTCATCGTGAAGTTAAAATCAAAGTATTGTTGGCACGATATCCTTCATCATG
AAGTTGAAATCATGGATGGCCCATTCGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGT
GAAGTTGAAATCCAAGTATTGTTGACACGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGT
T
Found at i:4819601 original size:152 final size:150
Alignment explanation
Indices: 4819281--4819610 Score: 498
Period size: 152 Copynumber: 2.2 Consensus size: 150
4819271 CTTGAATTGT
4819281 ATATCCTTCGTCGTGAAGTTGAAATACAAAGATTGTTGGCACGATATCCTTCATCATGAAGTTGA
1 ATATCCTTCGTCGTGAAGTTGAAAT-CAAAGATTGTTGGCACGATATCCTTCATCATGAAGTTGA
* * * *
4819346 AATCGTGGATGGCTCCTTTTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGTGAAGTTGA
65 AATCGTGGATGACCCCTTGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGTGAAGTTAA
4819411 AATCCAAGTATTGTTGACACG
130 AATCCAAGTATTGTTGACACG
* * *
4819432 ATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTGA
1 ATATCCTTCGTCGTGAAGTTGAAATCAAAG-ATTGTTGGCACGATATCCTTCATCATGAAGTTGA
* * *
4819497 AATCGTGGATGACCCCTTCGTTGTTAAGTTGAGCTTTGAATTGGATATCCTTCATTGTGAAGTTA
65 AATCGTGGATGACCCCTT-GTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGTGAAGTTA
** *
4819562 AAATCCAAGTATTGTTGGTATG
129 AAATCCAAGTATTGTTGACACG
* *
4819584 ATATCCTTCATCATGAAGTTGAAATCA
1 ATATCCTTCGTCGTGAAGTTGAAATCA
4819611 TGGATGGCCC
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
150 4 0.02
151 73 0.45
152 84 0.52
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (150 bp):
ATATCCTTCGTCGTGAAGTTGAAATCAAAGATTGTTGGCACGATATCCTTCATCATGAAGTTGAA
ATCGTGGATGACCCCTTGTTGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCGTGAAGTTAAA
ATCCAAGTATTGTTGACACG
Found at i:4819626 original size:109 final size:108
Alignment explanation
Indices: 4819431--4819795 Score: 586
Period size: 109 Copynumber: 3.4 Consensus size: 108
4819421 TTGTTGACAC
* *
4819431 GATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
1 GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
* *
4819496 AAATCGTGGATGACCCCTTCGTTGTTAAGTTGAGCTTTGAATTG
66 AAATCGTGGATG-GCCCTTCGTTGTGAAGTTGAGCTTTGAATTG
* * * * *
4819540 GATATCCTTCATTGTGAAGTTAAAATCCAAGTATTGTTGGTATGATATCCTTCATCATGAAGTTG
1 GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
*
4819605 AAATCATGGATGGCCCATTCGTTGTGAAGTTGAGCTTTGAATTG
66 AAATCGTGGATGGCCC-TTCGTTGTGAAGTTGAGCTTTGAATTG
*
4819649 GATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
1 GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
* *
4819714 AAATCGTGGATGGCCTCTTCATTGTGAAGTTGAGCTTTTAATTG
66 AAATCGTGGATGGCC-CTTCGTTGTGAAGTTGAGCTTTGAATTG
4819758 GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTT
1 GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTT
4819796 TCACCAAATT
Statistics
Matches: 234, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
108 3 0.01
109 230 0.98
110 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (108 bp):
GATATCCTTCGTTGTGAAGTTAAAATCCAAGTATTGTTGGCACGATATCCTTCGTCGTGAAGTTG
AAATCGTGGATGGCCCTTCGTTGTGAAGTTGAGCTTTGAATTG
Found at i:4820144 original size:146 final size:147
Alignment explanation
Indices: 4819871--4820229 Score: 513
Period size: 146 Copynumber: 2.4 Consensus size: 147
4819861 GTGTCACTTA
* * * *
4819871 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTATGAATTAAACTGGAAAGTTGTTTGTTG
1 GAGTCCAAGATCCTTCGCCGTGAAGTTGAAATTGACTATGAATGAAACTGGAAAGTTGTTTGTTG
* *
4819936 ACAGACGCCCCATCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATC
66 ACAGACGCCCCATCGCTGTGAAGTTGAGCTTTGAATTGGATATCCTTCATTGTGAAGTTGAAATC
*
4820001 CAATCTTGTGTTG-TTC
131 CAATATTGTGTTGTTTC
* * * *
4820017 GAGTCCAAGATCCTTTGCCGTGAATTTGAAATTGACTATGAATGAAACCGAAAAGTTGTTTGTTG
1 GAGTCCAAGATCCTTCGCCGTGAAGTTGAAATTGACTATGAATGAAACTGGAAAGTTGTTTGTTG
* * *
4820082 ACAGACTCCCCTTCGCTGTGAAGTTGGGCTTTGAATTGGATATCCTTCATTGTGAAGTTGAAATC
66 ACAGACGCCCCATCGCTGTGAAGTTGAGCTTTGAATTGGATATCCTTCATTGTGAAGTTGAAATC
*
4820147 CAATATTGTGTTGTTTT
131 CAATATTGTGTTGTTTC
* ** * * * *
4820164 GAGCCCAAGATCCTTCATCGTGAAGTTGAAGTTAACTCTGAATGAAACTGGAAAGTTATTTGTTG
1 GAGTCCAAGATCCTTCGCCGTGAAGTTGAAATTGACTATGAATGAAACTGGAAAGTTGTTTGTTG
4820229 A
66 A
4820230 GTCTAATATC
Statistics
Matches: 186, Mismatches: 26, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
146 129 0.69
147 57 0.31
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (147 bp):
GAGTCCAAGATCCTTCGCCGTGAAGTTGAAATTGACTATGAATGAAACTGGAAAGTTGTTTGTTG
ACAGACGCCCCATCGCTGTGAAGTTGAGCTTTGAATTGGATATCCTTCATTGTGAAGTTGAAATC
CAATATTGTGTTGTTTC
Found at i:4820289 original size:63 final size:63
Alignment explanation
Indices: 4820162--4820328 Score: 210
Period size: 63 Copynumber: 2.6 Consensus size: 63
4820152 TTGTGTTGTT
* * * * *
4820162 TTGAGCCCAAGATCCTTCATCGTGAAGTTGAAGTTAACTCTGAATGAAACTGGAAAGTTATTTG
1 TTGAGTCCAATATCCTTCGTTGTGAAGTT-AAATTAACTCTGAATGAAACTGGAAAGTTATTTG
* * *
4820226 TTGAGTCTAATATCCTTCGTTGTGAAGTTAAATTTACTCTGAATGAAACT-GAAACGTTGTTTG
1 TTGAGTCCAATATCCTTCGTTGTGAAGTTAAATTAACTCTGAATGAAACTGGAAA-GTTATTTG
* * *
4820289 TTGAGTCCAATATCTTTCGTTGTGAAGTGAAATTGACTCT
1 TTGAGTCCAATATCCTTCGTTGTGAAGTTAAATTAACTCT
4820329 AAAAGCTGCA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
62 4 0.04
63 62 0.69
64 24 0.27
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (63 bp):
TTGAGTCCAATATCCTTCGTTGTGAAGTTAAATTAACTCTGAATGAAACTGGAAAGTTATTTG
Found at i:4823899 original size:22 final size:20
Alignment explanation
Indices: 4823854--4823935 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 20
4823844 AGAAAATATT
*
4823854 AATATAATAATAACAAAATA
1 AATAAAATAATAACAAAATA
4823874 AATAAAATAGATAACAAAGATA
1 AATAAAATA-ATAACAAA-ATA
*
4823896 AATAAAAGTTAGTAA-AAAATA
1 AATAAAA--TAATAACAAAATA
* *
4823917 ATAAAAAATAATAATAAAA
1 A-ATAAAATAATAACAAAA
4823936 GGATCAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
20 13 0.25
21 16 0.31
22 18 0.35
23 3 0.06
24 2 0.04
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AATAAAATAATAACAAAATA
Found at i:4823921 original size:10 final size:10
Alignment explanation
Indices: 4823859--4823935 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 10
4823849 ATATTAATAT
4823859 AATAATAACAA
1 AATAATAA-AA
*
4823870 AATAA-ATAA
1 AATAATAAAA
4823879 AATAGATAACAA
1 AATA-ATAA-AA
4823891 AGATAAATAAAA
1 A-AT-AATAAAA
** *
4823903 GTTAGTAAAA
1 AATAATAAAA
4823913 AATAATAAAA
1 AATAATAAAA
4823923 AATAATAATAA
1 AATAATAA-AA
4823934 AA
1 AA
4823936 GGATCAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 6 0.12
10 23 0.44
11 11 0.21
12 5 0.10
13 6 0.12
14 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (10 bp):
AATAATAAAA
Found at i:4825270 original size:43 final size:43
Alignment explanation
Indices: 4825223--4825311 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 43
4825213 TTACAACATA
4825223 TAGCGGCGATT-G-TTCAACAAACGCCGCAAAAGGTATTGATATT
1 TAGCGGCGATTAGATT-AA-AAACGCCGCAAAAGGTATTGATATT
* * *
4825266 TAGCGGCGTTTAGAATTAAAAACGCCGCAATAGGTGTTGATATT
1 TAGCGGCGATTAG-ATTAAAAACGCCGCAAAAGGTATTGATATT
4825310 TA
1 TA
4825312 ACGGTATTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
43 10 0.25
44 26 0.65
45 2 0.05
46 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
TAGCGGCGATTAGATTAAAAACGCCGCAAAAGGTATTGATATT
Found at i:4825339 original size:43 final size:44
Alignment explanation
Indices: 4825239--4825359 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
4825229 CGATTGTTCA
* * * * *
4825239 ACAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTAGAATT
1 ACAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTAGAATG
* * * *
4825283 AAAAACGCCGCAATAGGTGTTGATATTTAACGGTATTTGGCA-G
1 ACAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTAGAATG
* *
4825326 ACAAACGCCGCAATA-GTCGTTGATGTTTAGCGGC
1 ACAAACGCCGCAATAGGT-GTTGATATTTAACGGC
4825360 GTTTTCTTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 27 0.43
44 34 0.54
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (44 bp):
ACAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTAGAATG
Found at i:4830913 original size:41 final size:40
Alignment explanation
Indices: 4830803--4830916 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 40
4830793 TTAAAGGACA
* * **
4830803 ATTACGGCGTTTATATTAAAAACGCCACAAAGGAACTATTCT
1 ATTACGGCG-TT-TATTACAAACGCCACTAAGGAACTACACT
* *
4830845 ATTACGGCGTTTATTACGAAAATGCCACTAAGGGAC-ACACT
1 ATTACGGCGTTTATTAC--AAACGCCACTAAGGAACTACACT
*
4830886 ATTGCGGCGTTTATGTCACAAACGCCACTAA
1 ATTACGGCGTTTAT-T-ACAAACGCCACTAA
4830917 AATACAACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
40 5 0.08
41 29 0.48
42 24 0.40
43 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (40 bp):
ATTACGGCGTTTATTACAAACGCCACTAAGGAACTACACT
Found at i:4831372 original size:40 final size:42
Alignment explanation
Indices: 4831328--4831437 Score: 172
Period size: 41 Copynumber: 2.7 Consensus size: 42
4831318 GTTTATACAA
*
4831328 AAAAAACGCCACTATTGATT-ACACTATTGTGGCGATTGT-T
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGATTATCT
* *
4831368 AAAAAACGCCACTATTGATTAAAACTATTGTGGCGTTTATCT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGATTATCT
4831410 -AAAAACGCCACTATTGATTAACACTATT
1 AAAAAACGCCACTATTGATTAACACTATT
4831438 ACGGCGTTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 20 0.31
41 43 0.67
42 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
AAAAAACGCCACTATTGATTAACACTATTGTGGCGATTATCT
Found at i:4838350 original size:2 final size:2
Alignment explanation
Indices: 4838343--4838378 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4838333 TATTTTATGA
4838343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4838379 TATGTAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4838942 original size:16 final size:16
Alignment explanation
Indices: 4838921--4838953 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4838911 ACTTAATGAG
4838921 ACATTAAATTCTAATA
1 ACATTAAATTCTAATA
4838937 ACATTAAATTCTAATA
1 ACATTAAATTCTAATA
4838953 A
1 A
4838954 TAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ACATTAAATTCTAATA
Found at i:4843383 original size:17 final size:16
Alignment explanation
Indices: 4843349--4843383 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4843339 CGTAAACACG
*
4843349 AATATATATATATCAA
1 AATATATATATATAAA
4843365 AATATTATATATATAAA
1 AATA-TATATATATAAA
4843382 AA
1 AA
4843384 ATTGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATATATATATAAA
Found at i:4845399 original size:30 final size:31
Alignment explanation
Indices: 4845330--4845405 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
4845320 TAAAATGCTA
*
4845330 AATTACTGATTTACCCTTAAAATTAAAATAT
1 AATTACTAATTTACCCTTAAAATTAAAATAT
* * ** *
4845361 ATTTACTAATTTACCCTT-GAATTTCATTAT
1 AATTACTAATTTACCCTTAAAATTAAAATAT
*
4845391 AATTACTAAATTACC
1 AATTACTAATTTACC
4845406 ATGCTTTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 21 0.57
31 16 0.43
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (31 bp):
AATTACTAATTTACCCTTAAAATTAAAATAT
Found at i:4848625 original size:13 final size:12
Alignment explanation
Indices: 4848608--4848648 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4848598 TGAAATATAG
4848608 ATTTGATTTAGT
1 ATTTGATTTAGT
4848620 GATTTGA-TTA-T
1 -ATTTGATTTAGT
4848631 ATGTTGATTTAGT
1 AT-TTGATTTAGT
4848644 ATTTG
1 ATTTG
4848649 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 2 0.08
11 5 0.20
12 9 0.36
13 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (12 bp):
ATTTGATTTAGT
Found at i:4848711 original size:2 final size:2
Alignment explanation
Indices: 4848696--4848729 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4848686 ATTTGATTTA
* *
4848696 AT AT AT AC AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4848730 TATTTTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4848782 original size:21 final size:20
Alignment explanation
Indices: 4848739--4848782 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4848729 TTATTTTGAT
*
4848739 ATTTTGTTTGATATTTATAA
1 ATTTTGTTTGATATATATAA
* *
4848759 ATTTATGTTTGGTATATATTA
1 ATTT-TGTTTGATATATATAA
4848780 ATT
1 ATT
4848783 AATTCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (20 bp):
ATTTTGTTTGATATATATAA
Found at i:4854460 original size:20 final size:20
Alignment explanation
Indices: 4854419--4854460 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4854409 TTTTAATGTT
* *
4854419 TTAATATAATTTATTTTCTA
1 TTAATAAAATTTATTTTATA
4854439 TTAATAAAATTTCA-TTTATA
1 TTAATAAAATTT-ATTTTATA
4854459 TT
1 TT
4854461 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATAAAATTTATTTTATA
Found at i:4854634 original size:21 final size:21
Alignment explanation
Indices: 4854610--4854683 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
4854600 ATATTTATCG
4854610 ATATTTTTAATAATATAATAT
1 ATATTTTTAATAATATAATAT
* * *
4854631 ATATTTTTAACATTATATTA-
1 ATATTTTTAATAATATAATAT
4854651 ATATTTAATTACATTAA-ATAATATT
1 ATATTT--TTA-A-TAATATAATA-T
4854676 ATATTTTT
1 ATATTTTT
4854684 TATTTAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 6 0.15
21 17 0.41
22 3 0.07
23 8 0.20
24 1 0.02
25 6 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTTAATAATATAATAT
Found at i:4865396 original size:23 final size:23
Alignment explanation
Indices: 4865352--4865397 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4865342 TTTTATAAAC
**
4865352 CTTTTATATTATTTAATCAATTA
1 CTTTTATATTATAAAATCAATTA
4865375 CTTTTATATTATAAACAT-AATTA
1 CTTTTATATTATAAA-ATCAATTA
4865398 ATAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (23 bp):
CTTTTATATTATAAAATCAATTA
Found at i:4865767 original size:24 final size:25
Alignment explanation
Indices: 4865731--4865787 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4865721 TATATTAAAA
*
4865731 ATTATTATGTTAA-TTTTATATTAT
1 ATTATTATGTTAATTTTTATATAAT
4865755 ATTATTTAT-TTAATTTTTATATAAT
1 ATTA-TTATGTTAATTTTTATATAAT
*
4865780 ATAATTAT
1 ATTATTAT
4865788 ATATTGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTATTATGTTAATTTTTATATAAT
Found at i:4866835 original size:17 final size:17
Alignment explanation
Indices: 4866820--4866859 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4866810 GAGAAAAAAG
4866820 AAGTAATGGAAAAAAATA
1 AAGTAA-GGAAAAAAATA
4866838 AAGTAAGGAAAATAAAATA
1 AAGTAAGG-AAA-AAAATA
4866857 AAG
1 AAG
4866860 AAGATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (17 bp):
AAGTAAGGAAAAAAATA
Found at i:4866893 original size:21 final size:19
Alignment explanation
Indices: 4866832--4866915 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 19
4866822 GTAATGGAAA
*
4866832 AAAATAAAGTAAGGAA-AAT
1 AAAATAAAG-AAAGAATAAT
4866851 AAAATAAAG-AAG-AT--T
1 AAAATAAAGAAAGAATAAT
*
4866866 AAGATAAAGAAAGTAAATAAT
1 AAAATAAAGAAAG--AATAAT
*
4866887 AAAATAAA-AAAGGATAAT
1 AAAATAAAGAAAGAATAAT
4866905 AAAA-AAAGAAA
1 AAAATAAAGAAA
4866916 AGAAAAGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
15 9 0.17
16 4 0.08
17 5 0.09
18 12 0.23
19 11 0.21
20 4 0.08
21 8 0.15
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATAAAGAAAGAATAAT
Found at i:4867968 original size:7 final size:7
Alignment explanation
Indices: 4867956--4867992 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
4867946 AAAGAAATGC
4867956 ATAAATA
1 ATAAATA
4867963 ATAAATA
1 ATAAATA
4867970 ATAAAT-
1 ATAAATA
4867976 A-AAATA
1 ATAAATA
4867982 ATAAA-A
1 ATAAATA
4867988 ATAAA
1 ATAAA
4867993 ATAAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.14
6 8 0.29
7 16 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAATA
Found at i:4867975 original size:14 final size:14
Alignment explanation
Indices: 4867956--4867992 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
4867946 AAAGAAATGC
4867956 ATAAATAATAAATA
1 ATAAATAATAAATA
4867970 ATAAAT-A-AAATA
1 ATAAATAATAAATA
4867982 ATAAA-AATAAA
1 ATAAATAATAAA
4867993 ATAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.52
13 4 0.19
14 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAATAATAAATA
Found at i:4867982 original size:19 final size:19
Alignment explanation
Indices: 4867958--4867998 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4867948 AGAAATGCAT
4867958 AAATAATAAATAAT-AAATA
1 AAATAATAAA-AATAAAATA
4867977 AAATAATAAAAATAAAATA
1 AAATAATAAAAATAAAATA
4867996 AAA
1 AAA
4867999 AAGAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAATAAAAATAAAATA
Found at i:4867993 original size:14 final size:14
Alignment explanation
Indices: 4867966--4868000 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4867956 ATAAATAATA
4867966 AATAATAAATAAAAT
1 AATAA-AAATAAAAT
4867981 AATAAAAATAAAAT
1 AATAAAAATAAAAT
4867995 AA-AAAA
1 AATAAAA
4868001 GAATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:4868050 original size:38 final size:38
Alignment explanation
Indices: 4868006--4868324 Score: 148
Period size: 35 Copynumber: 8.6 Consensus size: 38
4867996 AAAAAGAATA
4868006 TTTAAAAATCATAT-TTATATATGTTTTTTAAAAATATT
1 TTTAAAAATCATATATTATATAT-TTTTTTAAAAATATT
* * *
4868044 TTT-AAAATCATATA--ATATATATTTTCAAATAACA-T
1 TTTAAAAATCATATATTATATATTTTTTTAAA-AATATT
* * *
4868079 TTT-AAAACCATAT-TATATATATATATTTTAAAAAT-GT
1 TTTAAAAATCATATAT-TATATAT-TTTTTTAAAAATATT
* * * * * *
4868116 TTTCAAAATTATATATTGTATA--GTTTTCAAAATGTT
1 TTTAAAAATCATATATTATATATTTTTTTAAAAATATT
* * * **
4868152 TTAAAAAATTATATATTATATATATTTTTCCAAATATTT
1 TTTAAAAATCATATATTATATATTTTTTTAAAAATA-TT
* * * *
4868191 TTTAAAAACCATATATTATATATATTTTT-AAATTGTT
1 TTTAAAAATCATATATTATATATTTTTTTAAAAATATT
** * * * *
4868228 TTCGAAAA-C-TATATTATATA-TATTTCAAAATGTTTT
1 TTTAAAAATCATATATTATATATTTTTTTAAAA-ATATT
** * * * *
4868264 TTTAAAAAAAACTATATAATATATATGTTTTCAAAATGTT
1 TTTAAAAATCA-TATATTATATAT-TTTTTTAAAAATATT
*
4868304 TTCAAAAA-C-TATATTATATAT
1 TTTAAAAATCATATATTATATAT
4868325 ATATATATTT
Statistics
Matches: 216, Mismatches: 45, Indels: 41
0.72 0.15 0.14
Matches are distributed among these distances:
34 3 0.01
35 43 0.20
36 39 0.18
37 41 0.19
38 34 0.16
39 39 0.18
40 10 0.05
41 7 0.03
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (38 bp):
TTTAAAAATCATATATTATATATTTTTTTAAAAATATT
Found at i:4868100 original size:73 final size:73
Alignment explanation
Indices: 4868005--4868146 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 73
4867995 AAAAAAGAAT
* * * *
4868005 ATTTAAAAATCATATTTATATATGTTTTTTAAAAATATTTTTAAAATCATATAATATATA-TTTT
1 ATTTAAAAACCATATTTATATATATATTTTAAAAATATTTTCAAAATCATATAATATATAGTTTT
4868069 CAAATAAC
66 CAAATAAC
* * * * *
4868077 ATTTTAAAACCATATTATATATATATATTTTAAAAATGTTTTCAAAATTATATATTGTATAGTTT
1 ATTTAAAAACCATATT-TATATATATATTTTAAAAATATTTTCAAAATCATATAATATATAGTTT
4868142 TCAAA
65 TCAAA
4868147 ATGTTTTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 14 0.24
73 37 0.63
74 8 0.14
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (73 bp):
ATTTAAAAACCATATTTATATATATATTTTAAAAATATTTTCAAAATCATATAATATATAGTTTT
CAAATAAC
Found at i:4868205 original size:39 final size:38
Alignment explanation
Indices: 4868006--4868415 Score: 211
Period size: 39 Copynumber: 10.9 Consensus size: 38
4867996 AAAAAGAATA
* * *
4868006 TTTAAAAATCATAT-TTATATATGTTTTTTAAAAATATT
1 TTTAAAAATCATATATTATATATATTTTTCAAATAT-TT
**
4868044 TTT-AAAATCATATA--ATATATA-TTTTCAAATAACAT
1 TTTAAAAATCATATATTATATATATTTTTCAAAT-ATTT
* * *
4868079 TTT-AAAACCATAT-TATATATATATATTTT-AAAAATGT
1 TTTAAAAATCATATAT-TATATATAT-TTTTCAAATATTT
* * * *
4868116 TTTCAAAATTATATA-T-TGTATAGTTTTCAAA-ATGTT
1 TTTAAAAATCATATATTATATATATTTTTCAAATAT-TT
* *
4868152 TTAAAAAATTATATATTATATATATTTTTCCAAATATTT
1 TTTAAAAATCATATATTATATATATTTTT-CAAATATTT
*
4868191 TTTAAAAACCATATATTATATATATTTTT-AAAT-TGTT
1 TTTAAAAATCATATATTATATATATTTTTCAAATAT-TT
** *
4868228 TTCGAAAA-C-TATATTATATATA--TTTCAAAATGTTTT
1 TTTAAAAATCATATATTATATATATTTTTC-AAAT-ATTT
** *
4868264 TTTAAAAAAAACTATATAATATATATGTTTTCAAA-ATGTT
1 TTTAAAAATCA-TATATTATATATAT-TTTTCAAATAT-TT
* * *
4868304 TTCAAAAA-CTATATTATATATATATATATTTCCAAAATGTTTT
1 TTTAAAAATC-ATA-TAT-TATATATAT-TTTTC-AAAT-ATTT
*
4868347 TTTAAAAA-C-TATATAATATATATGTTTTCAAA-ATGCTT
1 TTTAAAAATCATATATTATATATAT-TTTTCAAATAT--TT
* * *
4868385 TTTAAAAAAC-TATA-TATATATCTATTTCAAA
1 TTTAAAAATCATATATTATATATATTTTTCAAA
4868416 AACCATTAGC
Statistics
Matches: 294, Mismatches: 42, Indels: 73
0.72 0.10 0.18
Matches are distributed among these distances:
33 3 0.01
35 43 0.15
36 40 0.14
37 44 0.15
38 43 0.15
39 68 0.23
40 18 0.06
41 17 0.06
42 7 0.02
43 10 0.03
44 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTAAAAATCATATATTATATATATTTTTCAAATATTT
Found at i:4869155 original size:84 final size:84
Alignment explanation
Indices: 4869057--4870265 Score: 1421
Period size: 84 Copynumber: 14.5 Consensus size: 84
4869047 TCAAGGGGTT
* * * * * * * *
4869057 TTTTTTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGTTACAAATAATGTGCCTTGGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
4869122 GTAATCAAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * * *
4869141 TTTAGTTAGCAGATAGCCCTTCTTGCCTTGAGCTATTCTGCAAATGATGTGCCTTTGAGTTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4869206 GTAATCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * *
4869225 TTTTGTTGACAGATAACCCTTCTAGCCTTTG-GTTATGCTGCAAATAATGTGCCTTGGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTTGCC-TTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* *
4869289 CGTAGTGGAACTTGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* *
4869309 TTTTGTTGGCAAATAACCCTTCTTTCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4869374 GTAGTTGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * *
4869393 TTTGGTTGGAAGATAACCCTTCTAGTCTTGAGTTATGCTACAAATGATATGCCTTTGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
4869458 GTAGTCGAACTCAAAGGTA
66 GTAGTCGAACTCGAAGGTC
* * * *
4869477 TTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAAC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4869542 GTAGCCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
4869561 TTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTT-----TGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4869621 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * *
4869640 TTTCGTTGGCAAATAACTCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4869705 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * ** * * * * *
4869724 TTTGGTTGGCAGATAAACTTTCTAACCTTGAGTTATACTGCAAATGATATGTCTTTGAGCTAAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4869789 GTAGTCAAACTC-AAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * ** * *
4869807 TTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTGCCTTGGAGTTAAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4869872 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
4869891 -TTTGATTGGCAGATAACCCTTATAGCCTTGAGTT-TGCTGCAAATGATATGCCTTTGAGCTGAG
1 TTTTG-TTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
4869954 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
4869974 TTTTGTTGGTAAATAGCCCTTCTTGCCTTGAGCTATGTTACAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4870039 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * *
4870058 TTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
4870123 GTAGTCGAACTTGAAGGTT
66 GTAGTCGAACTCGAAGGTC
* * * * * * *
4870142 TTTTTTGTGGCAGATAGCTCTTTTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAG
1 TTTTGT-TGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* * *
4870207 TGTAATCGAACTCGACGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * *
4870227 -TTGGCTGACAGATAACTCTTCTCGCCTTGAGTTATGCTG
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTG
4870266 TCTATAGTTT
Statistics
Matches: 955, Mismatches: 158, Indels: 25
0.84 0.14 0.02
Matches are distributed among these distances:
79 69 0.07
83 170 0.18
84 646 0.68
85 70 0.07
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:4869875 original size:167 final size:168
Alignment explanation
Indices: 4869062--4870265 Score: 1627
Period size: 168 Copynumber: 7.2 Consensus size: 168
4869052 GGGTTTTTTT
* * * * * * * * * *
4869062 TTGGCAGATAGCCCTTCTCGCCTTGAGCTATGTTACAAATAATGTGCCTTGGAGCTGAGTGTAAT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* * * *
4869127 CAAACTCGAAGGTCTTTAGTTAGCAGATAGCCCTTCTTGCCTTGAGCTAT-TCTGCAAATGATGT
66 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGT-TGCAAATGATGT
* * * * *
4869191 GCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTTG
130 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * *
4869230 TTGACAGATAACCCTTCTAGCCTTTG-GTTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGCC-TTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAG
* * * * * *
4869294 TGGAACTTGAAGGTCTTTTGTTGGCAAATAACCCTTCTTTCCTTGAGTTATGCTGCAAATGATGT
65 TCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
*
4869359 GCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGG
130 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * *
4869398 TTGGAAGATAACCCTTCTAGTCTTGAGTTATGCTACAAATGATATGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* * *
4869463 CGAACTCAAAGGTATTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
* *
4869528 CCTTGGAGCTGAACGTAGCCGAACTCGAAGGTCTTTGG
131 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
4869566 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAG-T----GTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* * *
4869626 CGAACTCGAAGGTCTTTCGTTGGCAAATAACTCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
4869691 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
131 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * *
4869729 TTGGCAGATAAACTTTCTAACCTTGAGTTATACTGCAAATGATATGTCTTTGAGCTAAGCGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* *
4869794 CAAACTC-AAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
* * *
4869858 CCTTGGAGTTAAGCGTAGTCGAACTCGAAGGTCTTTGA
131 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
4869896 TTGGCAGATAACCCTTATAGCCTTGAGTT-TGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* *
4869960 CGAACTCGAAGGTCTTTTGTTGGTAAATAGCCCTTCTTGCCTTGAGCTATGTTACAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
4870025 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
131 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * *
4870063 TTGGCAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTGGAGCTGAGTGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
* * * * * * * *
4870128 CGAACTTGAAGGTTTTTTTTGTGGCAGATAGCTCTTTTTGCCTTGAGCTATGCTACAAATGATGT
66 CGAACTCGAAGGTCTTTTGT-TGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
* * * *
4870193 GCCTTTGAGCTGAGTGTAATCGAACTCGACGGTC-TTGG
130 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * *
4870231 CTGACAGATAACTCTTCTCGCCTTGAGTTATGCTG
1 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
4870266 TCTATAGTTT
Statistics
Matches: 922, Mismatches: 103, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
163 149 0.16
164 1 0.00
166 38 0.04
167 234 0.25
168 428 0.46
169 72 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (168 bp):
TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:4871548 original size:88 final size:88
Alignment explanation
Indices: 4871439--4871618 Score: 279
Period size: 88 Copynumber: 2.0 Consensus size: 88
4871429 ATTGTATAGA
* * * *
4871439 TATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCTGGGGCATTTAACCAGTTT
1 TATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTAGGGCATTTAACCAATTG
4871504 CTCTAAAGGGACAACTCAAGCTT
66 CTCTAAAGGGACAACTCAAGCTT
* * *
4871527 TATTATAATTACCTTTATCAGGATAGCTGAATCTTATCCATAAAGCTAGGGCGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTAGGGCATTTAACCAATTG
* *
4871592 CTCTAGAGGGACATCTCAAGCTT
66 CTCTAAAGGGACAACTCAAGCTT
4871615 TATT
1 TATT
4871619 GTATATATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (88 bp):
TATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTAGGGCATTTAACCAATTG
CTCTAAAGGGACAACTCAAGCTT
Found at i:4875178 original size:4 final size:4
Alignment explanation
Indices: 4875171--4875279 Score: 53
Period size: 4 Copynumber: 24.8 Consensus size: 4
4875161 AAAGTAATGG
* *
4875171 AAAT AAAT AAATT AAGGA- AAAT AAAAT AAAG AAAT AAAG AAGATT AAGAT
1 AAAT AAAT AAA-T AA--AT AAAT -AAAT AAAT AAAT AAAT AA-A-T AA-AT
*
4875221 AAAT AAAGT AAAT AAAT AAAAT AAA- AAAGG ACAAT AAAT AAA- AAAT
1 AAAT AAA-T AAAT AAAT -AAAT AAAT AAA-T A-AAT AAAT AAAT AAAT
4875267 AAAAT AAAAT AAA
1 -AAAT -AAAT AAA
4875280 GAGAAAAACA
Statistics
Matches: 86, Mismatches: 5, Indels: 28
0.72 0.04 0.24
Matches are distributed among these distances:
3 7 0.08
4 40 0.47
5 32 0.37
6 6 0.07
7 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:4875217 original size:32 final size:31
Alignment explanation
Indices: 4875170--4875240 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
4875160 AAAAGTAATG
*
4875170 GAAATAAATAAATTAAGGA-AAATAAAATAAA
1 GAAATAAAGAAATTAA-GATAAATAAAATAAA
*
4875201 GAAATAAAGAAGATTAAGATAAATAAAGTAAA
1 GAAATAAAGAA-ATTAAGATAAATAAAATAAA
*
4875233 TAAATAAA
1 GAAATAAA
4875241 ATAAAAAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 12 0.34
32 23 0.66
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (31 bp):
GAAATAAAGAAATTAAGATAAATAAAATAAA
Found at i:4875292 original size:29 final size:29
Alignment explanation
Indices: 4875234--4875306 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
4875224 TAAAGTAAAT
* *
4875234 AAATAAAATAAAAAAGGACAATAAATAAA
1 AAATAAAATAAAAAAAGACAATAAACAAA
*
4875263 AAATAAAATAAAATAAAGAGAA-AAAC-AA
1 AAATAAAATAAAA-AAAGACAATAAACAAA
4875291 AAATGATAAATAAAAA
1 AAAT-A-AAATAAAAA
4875307 TAATAAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.16
29 18 0.47
30 14 0.37
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.14
Consensus pattern (29 bp):
AAATAAAATAAAAAAAGACAATAAACAAA
Found at i:4875307 original size:13 final size:13
Alignment explanation
Indices: 4875253--4875370 Score: 50
Period size: 14 Copynumber: 8.8 Consensus size: 13
4875243 AAAAAAGGAC
4875253 AATAAATAAAAAAT
1 AATAAAT-AAAAAT
* *
4875267 AAAATAAAATAAAGAG
1 --AAT-AAATAAAAAT
*
4875283 AA-AAACAAAAAT
1 AATAAATAAAAAT
*
4875295 GATAAATAAAAAT
1 AATAAATAAAAAT
*
4875308 AAT-AA-AAGAAT
1 AATAAATAAAAAT
4875319 AA-AGAATAAAGAAT
1 AATA-AATAAA-AAT
*
4875333 AA-AGAATGAAAAAC
1 AATA-AAT-AAAAAT
*
4875347 AA-AAATAATAAT
1 AATAAATAAAAAT
4875359 AATAATATAAAA
1 AATAA-ATAAAA
4875371 TGAATGAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
11 7 0.09
12 18 0.23
13 18 0.23
14 22 0.28
15 3 0.04
16 7 0.09
17 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.17
Consensus pattern (13 bp):
AATAAATAAAAAT
Found at i:4875331 original size:14 final size:14
Alignment explanation
Indices: 4875312--4875339 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4875302 AAAAATAATA
4875312 AAAGAATAAAGAAT
1 AAAGAATAAAGAAT
4875326 AAAGAATAAAGAAT
1 AAAGAATAAAGAAT
4875340 GAAAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAGAATAAAGAAT
Found at i:4875390 original size:57 final size:54
Alignment explanation
Indices: 4875257--4875392 Score: 156
Period size: 57 Copynumber: 2.5 Consensus size: 54
4875247 AAGGACAATA
*
4875257 AATAAAA-AAT-AAAATAA-AATAAAGAGAAAAACAAAAATGATAAATAAAAAT
1 AATAAAAGAATAAAAATAAGAATAAAGAGAAAAACAAAAATAATAAATAAAAAT
*
4875308 AATAAAAGAATAAAGAATAAAGAATAAAGAATGAAAAACAAAAATAAT-AATAATAAT
1 AATAAAAGAATAAA-AAT-AAGAATAAAG-A-GAAAAACAAAAATAATAAATAAAAAT
4875365 -ATAAAATGAATGAAAAATAAGGAATAAA
1 AATAAAA-GAAT-AAAAATAA-GAATAAA
4875393 AAACAACAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
51 7 0.10
52 3 0.04
53 2 0.03
54 3 0.04
55 2 0.03
56 15 0.21
57 23 0.32
58 18 0.25
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (54 bp):
AATAAAAGAATAAAAATAAGAATAAAGAGAAAAACAAAAATAATAAATAAAAAT
Found at i:4876694 original size:39 final size:39
Alignment explanation
Indices: 4876651--4876736 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
4876641 TATTATGTAG
*
4876651 TTTTCAAAACGATTTAAAAAAACTATATATTATATATAT
1 TTTTCAAAACGATTTAAAAAAACCATATATTATATATAT
* * * **
4876690 TTTTCCAAATGTTTTTTAAAAACCATATATTATATATAT
1 TTTTCAAAACGATTTAAAAAAACCATATATTATATATAT
4876729 TTTT-AAAA
1 TTTTCAAAA
4876737 TGTTTCGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 3 0.08
39 37 0.93
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (39 bp):
TTTTCAAAACGATTTAAAAAAACCATATATTATATATAT
Found at i:4876782 original size:34 final size:34
Alignment explanation
Indices: 4876681--4876828 Score: 135
Period size: 34 Copynumber: 4.4 Consensus size: 34
4876671 AACTATATAT
* * *
4876681 TATA-TATATTTTTCCAAATGTTTTTTAAAAACC
1 TATATTATATATTTCAAAATGTTTTTTAAAAAAC
* **
4876714 ATATATTATATATATTTTTAAAATG---TTTCGAAAAC
1 -TATA-T-TATATA-TTTCAAAATGTTTTTTAAAAAAC
4876749 TATATTATATATTTCAAAATGTTTTTTAAAAAAC
1 TATATTATATATTTCAAAATGTTTTTTAAAAAAC
* * *
4876783 TATATAATATGTTTTCAAAATGCTTTTT-AAAAAC
1 TATATTATAT-ATTTCAAAATGTTTTTTAAAAAAC
4876817 TATATTATATAT
1 TATATTATATAT
4876829 CTATTTCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
31 9 0.10
32 6 0.07
33 2 0.02
34 40 0.43
35 22 0.24
37 5 0.05
38 8 0.09
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (34 bp):
TATATTATATATTTCAAAATGTTTTTTAAAAAAC
Found at i:4876817 original size:68 final size:69
Alignment explanation
Indices: 4876681--4876828 Score: 187
Period size: 68 Copynumber: 2.2 Consensus size: 69
4876671 AACTATATAT
* * * * *
4876681 TATA-TATATTTTTCCAAATGTTTTTTAAAAACCATATATTATATATATTTTTAAAATGTTTCGA
1 TATATTATATATTTCAAAATGTTTTTTAAAAAACATATATTATATATATTTTCAAAATGTTTCAA
4876745 AAAC
66 AAAC
* *
4876749 TATATTATATATTTCAAAATGTTTTTTAAAAAAC-TATA-TA-ATATGTTTTCAAAATGCTTTTT
1 TATATTATATATTTCAAAATGTTTTTTAAAAAACATATATTATATATATTTTCAAAATG--TTTC
4876811 AAAAAC
64 AAAAAC
4876817 TATATTATATAT
1 TATATTATATAT
4876829 CTATTTCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
66 14 0.20
67 2 0.03
68 28 0.40
69 26 0.37
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (69 bp):
TATATTATATATTTCAAAATGTTTTTTAAAAAACATATATTATATATATTTTCAAAATGTTTCAA
AAAC
Found at i:4883591 original size:16 final size:16
Alignment explanation
Indices: 4883570--4883606 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4883560 AGATTTGGTT
*
4883570 TTTTTTTAAAAAATTC
1 TTTTTTTAAAAAATTA
*
4883586 TTTTTTTAAAATATTA
1 TTTTTTTAAAAAATTA
4883602 TTTTT
1 TTTTT
4883607 ATGATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTTAAAAAATTA
Found at i:4884145 original size:2 final size:2
Alignment explanation
Indices: 4884138--4884165 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4884128 AATTTATTTA
4884138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4884166 TATCTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4885253 original size:15 final size:16
Alignment explanation
Indices: 4885233--4885268 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4885223 GATTTGGTTT
*
4885233 TTTTTTAAAAA-ATTC
1 TTTTTTAAAAATATTA
4885248 TTTTTTAAAAATATTA
1 TTTTTTAAAAATATTA
4885264 TTTTT
1 TTTTT
4885269 ATGATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTAAAAATATTA
Found at i:4886530 original size:17 final size:19
Alignment explanation
Indices: 4886508--4886548 Score: 59
Period size: 17 Copynumber: 2.2 Consensus size: 19
4886498 ATAAAAAATT
4886508 AAAATTATT-TTAT-TTAA
1 AAAATTATTGTTATATTAA
4886525 AAAATTATTGTTATAATTAA
1 AAAATTATTGTTAT-ATTAA
4886545 AAAA
1 AAAA
4886549 AATAACACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 4 0.19
20 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTATTGTTATATTAA
Found at i:4890209 original size:23 final size:23
Alignment explanation
Indices: 4890158--4890218 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
4890148 TAATCTTATA
* *
4890158 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
** *
4890181 CAGCACTTCGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
4890204 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
4890219 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4890663 original size:2 final size:2
Alignment explanation
Indices: 4890656--4890708 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4890646 TGTATAAATC
4890656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4890698 TA TA TA TA TA T
1 TA TA TA TA TA T
4890709 CGTATTTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4893913 original size:18 final size:18
Alignment explanation
Indices: 4893890--4893925 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4893880 CTGATGACTC
4893890 AAAAAGAGCTTAATTTGA
1 AAAAAGAGCTTAATTTGA
4893908 AAAAAGAGCTTAATTTGA
1 AAAAAGAGCTTAATTTGA
4893926 GGCAACGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (18 bp):
AAAAAGAGCTTAATTTGA
Done.