Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 160 of 290
Found at i:51694204 original size:31 final size:33
Alignment explanation
Indices: 51694145--51694210 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
51694135 TATACAAAAT
*
51694145 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
51694179 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
51694210 A
1 A
51694211 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Found at i:51696302 original size:13 final size:13
Alignment explanation
Indices: 51696284--51696310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51696274 TAAGCAATCG
51696284 CACACGAGCGTGT
1 CACACGAGCGTGT
51696297 CACACGAGCGTGT
1 CACACGAGCGTGT
51696310 C
1 C
51696311 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:51698546 original size:23 final size:22
Alignment explanation
Indices: 51698516--51698560 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51698506 TTGATGACTT
*
51698516 AGAAAATTTTGAATTTGGGACA
1 AGAAAAATTTGAATTTGGGACA
51698538 AGAAAAATTTGAATTTGGGACA
1 AGAAAAATTTGAATTTGGGACA
51698560 A
1 A
51698561 CGAAGATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
AGAAAAATTTGAATTTGGGACA
Found at i:51705346 original size:20 final size:20
Alignment explanation
Indices: 51705321--51705359 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
51705311 ACTCAATTAA
51705321 AAATTA-TTTTAAAGTGTTTT
1 AAATTACTTTTAAA-TGTTTT
51705341 AAATTACTTTTAAATGTTT
1 AAATTACTTTTAAATGTTT
51705360 ATAAGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
AAATTACTTTTAAATGTTTT
Found at i:51709494 original size:22 final size:22
Alignment explanation
Indices: 51709466--51709541 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
51709456 AAGTGTATAT
51709466 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
51709488 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
51709512 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
51709535 ATGTGAT
1 ATGTGAT
51709542 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:51709501 original size:47 final size:47
Alignment explanation
Indices: 51709447--51709663 Score: 371
Period size: 47 Copynumber: 4.6 Consensus size: 47
51709437 ATGATGAAAT
51709447 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
51709494 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* * * * *
51709541 TGAATGTGAAAGTGTATATATGTGACAAGGTCTAATGGTCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
51709588 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* *
51709635 TGGATGTGAAAGTGTATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
51709664 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
Found at i:51713658 original size:12 final size:12
Alignment explanation
Indices: 51713641--51713681 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
51713631 TTTATTACAT
51713641 AAATATTTTTTC
1 AAATATTTTTTC
51713653 AAATATTTTTTC
1 AAATATTTTTTC
*
51713665 AAATAATTTTTC
1 AAATATTTTTTC
51713677 AAATA
1 AAATA
51713682 ATTTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATATTTTTTC
Found at i:51715894 original size:16 final size:16
Alignment explanation
Indices: 51715870--51715906 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
51715860 TCTATATTAA
* *
51715870 TTTTACAACACTTATT
1 TTTTTCAACAATTATT
51715886 TTTTTCAACAATTATT
1 TTTTTCAACAATTATT
51715902 TTTTT
1 TTTTT
51715907 TAATTTAACA
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:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTCAACAATTATT
Found at i:51716200 original size:20 final size:21
Alignment explanation
Indices: 51716166--51716223 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
51716156 GACAAAAATG
*
51716166 ATAAAAATCAATAAAAATTATA
1 ATAAAAAT-ATTAAAAATTATA
*
51716188 A-AAAAATATT--AAATTTTA
1 ATAAAAATATTAAAAATTATA
51716206 ATTAAAAATATTAAAAAT
1 A-TAAAAATATTAAAAAT
51716224 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.27
20 11 0.37
21 6 0.20
22 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATATTAAAAATTATA
Found at i:51716241 original size:19 final size:21
Alignment explanation
Indices: 51716217--51716262 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
51716207 TTAAAAATAT
51716217 TAAAAATAT-TAAA-TTTTTA
1 TAAAAATATGTAAATTTTTTA
51716236 TAAAAA-ATGTAAATTTTTTA
1 TAAAAATATGTAAATTTTTTA
51716256 TAAAAAT
1 TAAAAAT
51716263 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 10 0.42
20 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAAATATGTAAATTTTTTA
Found at i:51716268 original size:20 final size:18
Alignment explanation
Indices: 51716217--51716268 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
51716207 TTAAAAATAT
51716217 TAAAAATATTAAATTTTTA
1 TAAAAATA-TAAATTTTTA
*
51716236 TAAAAAATGTAAATTTTTTA
1 T-AAAAATATAAA-TTTTTA
51716256 TAAAAATCATAAA
1 TAAAAAT-ATAAA
51716269 AAAATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAATATAAATTTTTA
Found at i:51716346 original size:21 final size:21
Alignment explanation
Indices: 51716326--51716376 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
51716316 AGTCGTAAGA
51716326 AAATTATAAAAA-ATGTAAAG
1 AAATTATAAAAATATGTAAAG
*
51716346 -AATTATAAAAATTTGTAAA-
1 AAATTATAAAAATATGTAAAG
51716365 AGAATTATAAAA
1 A-AATTATAAAA
51716377 CTTATCATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.41
20 6 0.22
21 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (21 bp):
AAATTATAAAAATATGTAAAG
Found at i:51716349 original size:19 final size:21
Alignment explanation
Indices: 51716327--51716376 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
51716317 GTCGTAAGAA
51716327 AATTATAAAAA-ATGT-AAAG
1 AATTATAAAAATATGTAAAAG
*
51716346 AATTATAAAAATTTGTAAAAG
1 AATTATAAAAATATGTAAAAG
51716367 AATTATAAAA
1 AATTATAAAA
51716377 CTTATCATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (21 bp):
AATTATAAAAATATGTAAAAG
Found at i:51716934 original size:89 final size:91
Alignment explanation
Indices: 51716736--51716937 Score: 218
Period size: 89 Copynumber: 2.2 Consensus size: 91
51716726 ATGCATTTGA
* **
51716736 CAATTGAGTGCAAAAAAAAAAGAGTAAGGGTGCTTAATTTTTTTTTGTAAAATTTTTAAGGTCTT
1 CAATTGAGTGC-AAAAAAAAA-AGTAAGGGTGCTTAATTTTTTTTTGAAAAAAGTTTAAGGTCTT
*
51716801 TTTTATGCATTTTGACAGTTTAAGTACC
64 TTTTATGCATTTTGAAAGTTTAAGTACC
** *
51716829 CAATTGAGTG-GGAAAAAAAAGT-AGGG-GCTTAATTGCTTTTTTT-AAAAAAGTTTGAGGAT-T
1 CAATTGAGTGCAAAAAAAAAAGTAAGGGTGCTTAATT--TTTTTTTGAAAAAAGTTTAAGG-TCT
* *
51716889 TTTTTATGTATTTTGAAAGTTTAAGTATC
63 TTTTTATGCATTTTGAAAGTTTAAGTACC
* *
51716918 TAA-TGTGTGCAAAAAAAAAA
1 CAATTGAGTGCAAAAAAAAAA
51716938 AGAAGAAGAA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
88 13 0.14
89 51 0.55
90 11 0.12
91 7 0.08
93 10 0.11
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (91 bp):
CAATTGAGTGCAAAAAAAAAAGTAAGGGTGCTTAATTTTTTTTTGAAAAAAGTTTAAGGTCTTTT
TTATGCATTTTGAAAGTTTAAGTACC
Found at i:51718993 original size:16 final size:16
Alignment explanation
Indices: 51718974--51719008 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51718964 AAAAATCTCA
51718974 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCTG
**
51718990 AAATGCTGAAAAGCTG
1 AAATGCCAAAAAGCTG
51719006 AAA
1 AAA
51719009 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.20, T:0.14
Consensus pattern (16 bp):
AAATGCCAAAAAGCTG
Found at i:51719253 original size:28 final size:28
Alignment explanation
Indices: 51719220--51719294 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
51719210 ATTGCATGAC
51719220 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
51719248 TATGAATGTGATTGGGGCC-GATGGGCTA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
*
51719276 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
51719295 AAAGGGGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 5 0.12
28 33 0.77
29 5 0.12
ACGTcount: A:0.23, C:0.12, G:0.36, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:51720361 original size:17 final size:18
Alignment explanation
Indices: 51720328--51720361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51720318 TCTTTTGAAG
51720328 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
51720346 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
51720362 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:51724109 original size:27 final size:27
Alignment explanation
Indices: 51724079--51724256 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
51724069 ATATTGAGCC
* * *
51724079 CGCACACTCAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
51724106 CGCACACTTAGTGCCACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAATCAACT
*
51724133 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
51724161 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
51724188 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
51724215 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
51724242 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51724257 GTACAATTTA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 97 0.78
28 26 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:51733767 original size:27 final size:27
Alignment explanation
Indices: 51733737--51733914 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
51733727 ATATTGAGCC
* * *
51733737 CGCACACTCAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
51733764 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
51733791 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
51733819 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
51733846 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
51733873 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
51733900 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51733915 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:51733876 original size:82 final size:81
Alignment explanation
Indices: 51733758--51733913 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
51733748 TGCTATATAT
* * *
51733758 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
51733823 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
51733840 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
51733904 CACTTAGTGC
65 CACTTAGTGC
51733914 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:51735746 original size:8 final size:8
Alignment explanation
Indices: 51735721--51735763 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
51735711 GGGCTGTCAC
51735721 ATATATAAA
1 ATAT-TAAA
51735730 ATA-TAAA
1 ATATTAAA
51735737 ATATTAAA
1 ATATTAAA
*
51735745 ATATCAAA
1 ATATTAAA
*
51735753 ATATTAGA
1 ATATTAAA
51735761 ATA
1 ATA
51735764 ATAATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 7 0.23
8 20 0.67
9 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
ATATTAAA
Found at i:51735753 original size:16 final size:15
Alignment explanation
Indices: 51735721--51735763 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
51735711 GGGCTGTCAC
51735721 ATATATAAAATATAAA
1 ATAT-TAAAATATAAA
51735737 ATATTAAAATATCAAA
1 ATATTAAAATAT-AAA
*
51735753 ATATTAGAATA
1 ATATTAAAATA
51735764 ATAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
ATATTAAAATATAAA
Found at i:51735955 original size:42 final size:40
Alignment explanation
Indices: 51735877--51735957 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 40
51735867 AATACTACAT
51735877 AAATATGTACATATATAAAAAATAAATACGTGATAATATTAA
1 AAATATGTACATATATAAAAAATAAATAC--GATAATATTAA
*
51735919 AAATATGTACATATAGTGTAAAAAATACATAC-ATAATAT
1 AAATATGTACATATA---TAAAAAATAAATACGATAATAT
51735958 AATTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 22 0.63
45 13 0.37
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (40 bp):
AAATATGTACATATATAAAAAATAAATACGATAATATTAA
Found at i:51735963 original size:45 final size:42
Alignment explanation
Indices: 51735849--51735965 Score: 112
Period size: 45 Copynumber: 2.6 Consensus size: 42
51735839 AATGATGTTT
*
51735849 AAAAAT-AATACTATTAATAATACTACATAAATATGTACATATATA
1 AAAAATAAATAC-A-TAATAATATTA-A-AAATATGTACATATATA
* *
51735894 AAAAATAAATACGTGATAATATTAAAAATATGTACATATAGTGTA
1 AAAAATAAATACATAATAATATTAAAAATATGTACATATA---TA
*
51735939 AAAAATACATACATAAT-ATAATTAAAA
1 AAAAATAAATACATAATAAT-ATTAAAA
51735966 TATACATAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 15 0.25
43 1 0.02
44 11 0.18
45 29 0.48
46 5 0.08
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAAATAAATACATAATAATATTAAAAATATGTACATATATA
Found at i:51736020 original size:25 final size:24
Alignment explanation
Indices: 51735992--51736123 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
51735982 TGTAGAAAAA
*
51735992 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
51736017 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
51736040 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
51736064 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
51736086 AATATATATATAATATAATATTAAG
1 -ATATATACATAATATAGTATTAAG
*
51736111 AAATATA-ATAATA
1 ATATATACATAATA
51736124 ACAAAAAAAG
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.46
24 24 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:51736099 original size:24 final size:23
Alignment explanation
Indices: 51736072--51736123 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
51736062 AGAATATACC
*
51736072 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
51736096 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
51736119 TAATA
1 TAATA
51736124 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:51736442 original size:16 final size:16
Alignment explanation
Indices: 51736404--51736442 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51736394 AATCTCCAAA
*
51736404 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
51736420 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
51736436 AATAACT
1 AAAAACT
51736443 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:51736645 original size:30 final size:30
Alignment explanation
Indices: 51736609--51736694 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
51736599 GTGGTGGTAG
*
51736609 AGTGTGGCTAGTGGAGTAGGTAGTTGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* *
51736639 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* * *
51736669 AGTGTGACTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTAGGTAGTGG
51736695 CAAAGGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.28
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
Found at i:51737582 original size:89 final size:87
Alignment explanation
Indices: 51737396--51737793 Score: 326
Period size: 89 Copynumber: 4.4 Consensus size: 87
51737386 ACGTGAGCCA
* * * * *
51737396 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTTGTAAAACAGAT-TT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAA--T-TAAAAAAAATAAT
* ** *
51737458 TGAAAATTCCTCGGTATGTGACCCG
63 TGAAAATACCTCGGCGTGTGACCTG
*
51737483 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAATTAAAAAAAATCAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAA-CATAAATTAAAAAAAAT-AATT
51737548 GAAAATACCTCGGCGTGTGACCTG
64 GAAAATACCTCGGCGTGTGACCTG
*
51737572 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAATATAAATTGAAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-CAAACATAAATT---AAAAAAAA-
* * *
51737637 AAATTGAAAATACCTCAGCGTGT--TCTG
59 TAATTGAAAATACCTCGGCGTGTGACCTG
* * *
51737664 AGGC-CGAACTCACCTCTCGCAATATGAGGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACA
1 AGGCTC-AACTCACCTCTCGCAATATGA-GTTGA--TTTTT-G-CAAACATAAA-TTAAAAAAAA
* * * * *
51737727 GAATTTGAAAATACCTCAGCATGTGA-GTCA
59 TAA-TTGAAAATACCTCGGCGTGTGACCT-G
* * *
51737757 AGGCTCAACTCACCACTCGCAATATGAGCTAATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
51737794 TTGAAACATA
Statistics
Matches: 264, Mismatches: 26, Indels: 39
0.80 0.08 0.12
Matches are distributed among these distances:
87 43 0.16
88 4 0.02
89 55 0.21
90 10 0.04
91 39 0.15
92 36 0.14
93 39 0.15
94 38 0.14
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTAAAAAAAATAATTGA
AAATACCTCGGCGTGTGACCTG
Found at i:51737683 original size:92 final size:89
Alignment explanation
Indices: 51737396--51737901 Score: 403
Period size: 87 Copynumber: 5.6 Consensus size: 89
51737386 ACGTGAGCCA
* * * * *
51737396 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTG-TAAAACAGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAA-TTGAAAAAAAAGAA
* * * * ** *
51737456 TTTGAAAATTCCTCGGTATGTGACCCG
65 ATTGAAAATACCTCAG--CGTGTTCTG
* ** * **
51737483 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATT-AAAAAAAATCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAATAGAAATTGAAAAAAAAGAA
* *
51737545 ATTGAAAATACCTCGGCGTGTGACCTG
65 ATTGAAAATACCTCAGCGTGT--TCTG
*
51737572 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAATATAAATTGAAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAATAGAAATTG--AAAAAAAAG
51737637 AAATTGAAAATACCTCAGCGTGTTCTG
63 AAATTGAAAATACCTCAGCGTGTTCTG
* *
51737664 AGGC-CGAACTCACCTCTCGCAATATGAGGTTGATTTTTTTGGAAAA-ACAAAATTTG-AAAAAC
1 AGGCTC-AACTCACCTCTCGCAATATGA-GTTGATTTTTTT-GAAAATA-GAAA-TTGAAAAAAA
* * *
51737726 AGAATTTGAAAATACCTCAGCATGTGAGTC-A
61 AGAAATTGAAAATACCTCAGC--GTG-TTCTG
* * * * *
51737757 AGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTTGAAACATAGAAATTG-AAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ATAGAAATTGAAAAAAAAGAA
* * *
51737821 ATGGAAAACACCTCAGCGT-CT-TG
65 ATTGAAAATACCTCAGCGTGTTCTG
** *
51737844 AGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ATAGAAATTGAAAA
51737902 TACCTCAACG
Statistics
Matches: 353, Mismatches: 41, Indels: 49
0.80 0.09 0.11
Matches are distributed among these distances:
87 88 0.25
88 2 0.01
89 62 0.18
90 4 0.01
91 71 0.20
92 43 0.12
93 46 0.13
94 37 0.10
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATTGAAAAAAAAGAAA
TTGAAAATACCTCAGCGTGTTCTG
Found at i:51737737 original size:13 final size:14
Alignment explanation
Indices: 51737705--51737737 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
51737695 GATTTTTTTG
51737705 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
51737719 GAAAAACAGAATTT
1 GAAAAACAAAATTT
51737733 GAAAA
1 GAAAA
51737738 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:51737880 original size:87 final size:85
Alignment explanation
Indices: 51737486--51737901 Score: 336
Period size: 91 Copynumber: 4.6 Consensus size: 85
51737476 TGACCCGAGG
* * ** * * * **
51737486 CTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTAAAAAAAATCAATTG
1 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAATAGAAATTGAAAAACAGAAATTG
* *
51737549 AAAATACCTCGGCGTGTGACCTGAGG
65 AAAATACCTCAGCGT-T----TGAGA
* * *
51737575 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAATATAAATTGAAAAAAAAAAGAAA
1 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAATAGAAATTG---AAAAACAGAAA
*
51737640 TTGAAAATACCTCAGCGTGTTCTGAGG
62 TTGAAAATACCTCAGC--GTT-TGAGA
* *
51737667 C-CGAACTCACCTCTCGCAATATGAGGTTGATTTTTTTGGAAAA-ACAAAATTTGAAAAACAGAA
1 CTC-AACTCACCTCTCGCAATATGA-GCTGATTTTTTT-GAAAATA-GAAA-TTGAAAAACAGAA
* * *
51737730 TTTGAAAATACCTCAGCATGTGAGTCAA
61 ATTGAAAATACCTCAGCGTTTGAG---A
* * *
51737758 GGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTTGAAACATAGAAATTGAAGAACAGAAAT
1 --CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ATAGAAATTGAAAAACAGAAAT
* *
51737823 GGAAAACACCTCAGCGTCTTGAGA
63 TGAAAATACCTCAGCGT-TTGAGA
*
51737847 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ATAGAAATTGAAAA
51737902 TACCTCAACG
Statistics
Matches: 277, Mismatches: 28, Indels: 46
0.79 0.08 0.13
Matches are distributed among these distances:
87 50 0.18
88 4 0.01
89 30 0.11
90 1 0.00
91 72 0.26
92 47 0.17
93 40 0.14
94 30 0.11
95 1 0.00
96 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (85 bp):
CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAATAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCGTTTGAGA
Found at i:51737955 original size:73 final size:73
Alignment explanation
Indices: 51737808--51738197 Score: 468
Period size: 73 Copynumber: 5.3 Consensus size: 73
51737798 AACATAGAAA
* * * *
51737808 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGATTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
51737871 GCTGATTTTT
65 GTTGA-TTTT
*
51737881 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
51737946 GTTGA-TTT
65 GTTGATTTT
* * * *
51737954 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
51738017 GCTGACTTTT
65 GTTGA-TTTT
* * *
51738027 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATAA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
51738092 GTTGA-TTT
65 GTTGATTTT
* * * * * * *
51738100 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGTAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
51738165 GTTGATTTTT
65 GTTGA-TTTT
51738175 TTGAAAAACAGAAATTGAAAATA
1 TTG-AAAACAGAAATTGAAAATA
51738198 GAAATGGAAA
Statistics
Matches: 274, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
71 37 0.14
72 4 0.01
73 133 0.49
74 6 0.02
75 93 0.34
76 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:51738095 original size:146 final size:146
Alignment explanation
Indices: 51737830--51738197 Score: 610
Period size: 146 Copynumber: 2.5 Consensus size: 146
51737820 AATGGAAAAC
* * *
51737830 ACCTCAGCGTCTTGAGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
* *
51737895 TTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACA
51737960 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
*
51737976 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGACTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
51738041 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATAAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACA
51738106 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * *
51738122 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGA
51738187 AATTGAAAATA
64 AATTGAAAATA
51738198 GAAATGGAAA
Statistics
Matches: 207, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
146 147 0.71
148 60 0.29
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:51738276 original size:86 final size:87
Alignment explanation
Indices: 51738122--51738286 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 87
51738112 AATTGAAATT
* *
51738122 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCG-GTCCTGAGGCTCAACTCACCTATCGCAATATGAGCTGATTTTTTTGAAAAACAGA
* *
51738187 AATTGAAAATAGAAATGGAAAAC
65 AATTAAAAACAGAAATGGAAAAC
* * * * * * *
51738210 ACCTCAGC-GTCTTGAGGTTCAACTCAGCTCTCGCAATATGAGCTGATTTTTTTGAAACATATAA
1 ACCTCAGCGGTCCTGAGGCTCAACTCACCTATCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
51738274 ATTAAAAACAGAA
66 ATTAAAAACAGAA
51738287 TTAAAAACAG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 58 0.88
88 8 0.12
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (87 bp):
ACCTCAGCGGTCCTGAGGCTCAACTCACCTATCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
ATTAAAAACAGAAATGGAAAAC
Found at i:51738290 original size:12 final size:12
Alignment explanation
Indices: 51738273--51738300 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51738263 GAAACATATA
51738273 AATTAAAAACAG
1 AATTAAAAACAG
51738285 AATTAAAAACAG
1 AATTAAAAACAG
51738297 AATT
1 AATT
51738301 TGAAAGGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (12 bp):
AATTAAAAACAG
Found at i:51738425 original size:75 final size:74
Alignment explanation
Indices: 51738329--51738679 Score: 462
Period size: 75 Copynumber: 4.7 Consensus size: 74
51738319 TGGCCCGAGA
*
51738329 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAAAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAAAAATTGAAAATACCTCAGCG
*
51738394 TGTCCCGAGG
65 TGTCCTGAGG
*
51738404 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAA-AATAGAATTTGAAAATATCTCA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAA-A-AA-TTGAAAATACCTCA
51738468 GCGTGTCCTGAGG
62 GCGTGTCCTGAGG
*
51738481 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAAAAATTGAAAATACCTCAGCG
*
51738543 -GTCTTGAGG
65 TGTCCTGAGG
* * * * * *
51738552 TTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAAAAATTGAAAATACCTCAGCG
*
51738617 TGTCTTGAGG
65 TGTCCTGAGG
* * *
51738627 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG-AAACATAAATTAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAA
51738680 AACAAAACTT
Statistics
Matches: 247, Mismatches: 19, Indels: 22
0.86 0.07 0.08
Matches are distributed among these distances:
71 34 0.14
72 2 0.01
73 53 0.21
74 6 0.02
75 91 0.37
76 7 0.03
77 54 0.22
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAATACCTCAGCGT
GTCCTGAGG
Found at i:51738668 original size:146 final size:148
Alignment explanation
Indices: 51738329--51738679 Score: 472
Period size: 146 Copynumber: 2.4 Consensus size: 148
51738319 TGGCCCGAGA
*
51738329 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAAAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA-CAAAAATTGAAAATACCTCAGCG
* * * *
51738394 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAA
64 -GTCCCGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGA-AAAAACAGAAATTGAA
* * *
51738459 AATATCTCAGCGTGTCCTGAGG
127 AATACCTCAACATGTCCTGAGG
*** *
51738481 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAATACCTCAGCGGT
** * *
51738545 CTTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTTG-AAAGACAGAAATTGAAAATA
66 CCCGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAAAAACAGAAATTGAAAATA
*
51738609 CCTCAACATGTCTTGAGG
131 CCTCAACATGTCCTGAGG
* * *
51738627 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAA
51738680 AACAAAACTT
Statistics
Matches: 175, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
146 77 0.44
148 41 0.23
150 21 0.12
151 3 0.02
152 33 0.19
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (148 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTGAAAATACCTCAGCGGT
CCCGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTGAAAAAACAGAAATTGAAAATA
CCTCAACATGTCCTGAGG
Found at i:51738791 original size:99 final size:98
Alignment explanation
Indices: 51738677--51738960 Score: 401
Period size: 99 Copynumber: 2.9 Consensus size: 98
51738667 CATAAATTAA
51738677 AAAAACA-AAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAA-TTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
51738741 TGA-TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
64 TGATTTTGAAAAGCAGAAATT-AAAAGCAAAAATTG
51738776 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
51738841 GATTTTTGAAAAACAGAAATTAAAAGTAGAAATTG
65 GA-TTTTGAAAAGCAGAAATTAAAAGCAAAAATTG
* * * *
51738876 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
51738941 ATTTTTGAAAAGCATAAATT
66 A-TTTTGAAAAGCAGAAATT
51738961 GAAATTACCT
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 113 0.67
100 41 0.24
101 15 0.09
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (98 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTGAAAAGCAGAAATTAAAAGCAAAAATTG
Found at i:51738885 original size:14 final size:13
Alignment explanation
Indices: 51738849--51738893 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
51738839 TTGATTTTTG
51738849 AAAAACAGAAATT
1 AAAAACAGAAATT
**
51738862 AAAAGTAGAAATT
1 AAAAACAGAAATT
51738875 GAAAAACAGAAATT
1 -AAAAACAGAAATT
51738889 AAAAA
1 AAAAA
51738894 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:51738970 original size:72 final size:74
Alignment explanation
Indices: 51738873--51739039 Score: 257
Period size: 73 Copynumber: 2.3 Consensus size: 74
51738863 AAAGTAGAAA
* * * * *
51738873 TTGAAAAACAGAAATTAAAAATACCTCGGCGTG-CCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
51738937 GTTGA-TTT
66 GTTGATTTT
* *
51738945 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
51739010 GTTGATTTT
66 GTTGATTTT
51739019 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
51739040 AATGAAAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
72 28 0.33
73 34 0.40
74 23 0.27
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:51739109 original size:91 final size:87
Alignment explanation
Indices: 51738956--51739128 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 87
51738946 TGAAAAGCAT
* *
51738956 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
51739021 GAAAAGCATAAATTGAAAAAATGA
65 GAAAAACAGAAATT-AAAAAATGA
51739045 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
51739110 TGAAAAACAGAAATTAAAA
64 TGAAAAACAGAAATTAAAA
51739129 GTAGAAATTG
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
89 26 0.33
90 17 0.22
91 35 0.45
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTAAAAAATGA
Found at i:51739148 original size:14 final size:13
Alignment explanation
Indices: 51739112--51739156 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
51739102 TTGATTTTTG
51739112 AAAAACAGAAATT
1 AAAAACAGAAATT
**
51739125 AAAAGTAGAAATT
1 AAAAACAGAAATT
51739138 GAAAAACAGAAATT
1 -AAAAACAGAAATT
51739152 AAAAA
1 AAAAA
51739157 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:51739201 original size:100 final size:103
Alignment explanation
Indices: 51739030--51739224 Score: 281
Period size: 100 Copynumber: 1.9 Consensus size: 103
51739020 TGAAAAGCAT
* * *
51739030 AAATTGAAAAAATGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCA
1 AAATTGAAAAAATGAAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACCTCTCGCA
51739095 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAG
66 ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAG
* * *
51739133 AAATTGAAAAACA-G-AAATTAAAAATACCTC-G-GCGTGCCCCGAGGCTCAGCTCACCTCTCGC
1 AAATTGAAAAA-ATGAAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACCTCTCGC
* *
51739194 AATATGAGTTGATTTTTGAAAAGCATAAATT
65 AATATGAGTTGATTTTTGAAAAACAGAAATT
51739225 GAAATTACCT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
100 54 0.65
101 1 0.01
102 15 0.18
103 12 0.14
104 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (103 bp):
AAATTGAAAAAATGAAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAG
Found at i:51739234 original size:73 final size:74
Alignment explanation
Indices: 51739136--51739303 Score: 257
Period size: 73 Copynumber: 2.3 Consensus size: 74
51739126 AAAGTAGAAA
* * * * *
51739136 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
51739201 GTTGA-TTT
66 GTTGATTTT
* * *
51739209 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
51739274 GTTGATTTT
66 GTTGATTTT
51739283 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
51739304 AACGAAAATT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
73 62 0.73
74 23 0.27
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:51739270 original size:264 final size:262
Alignment explanation
Indices: 51738688--51739394 Score: 1168
Period size: 264 Copynumber: 2.6 Consensus size: 262
51738678 AAAACAAAAC
*
51738688 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAG
1 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT------
* * * *
51738753 CAGAATTTGTAAGGCAAAAATTGAAAAACAG-AAATTGAAAATACCTCAGC--GTGCCCTGAGGC
60 -----TTTGAAAAGCATAAATTGAAAAA-AGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGC
*
51738815 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAA
119 CCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAA
51738880 ACAGAAATTAAAAATACCTCGGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTT
184 ACAGAAATTAAAAATACCTCGGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTT
51738945 TTGAAAAGCATAAA
249 TTGAAAAGCATAAA
51738959 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
51739024 AAGCATAAATTGAAAAAATGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCT
66 AAGCATAAATTGAAAAAA-GAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCT
51739089 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAAACAGAAATTAA
130 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAAACAGAAATTAA
51739154 AAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCA
195 AAATACCTCGGCGTG-CCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCA
51739219 TAAA
259 TAAA
51739223 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
51739288 AAGCATAAATTGAAAAAACGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCT
66 AAGCATAAATTGAAAAAA-GAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCT
* *
51739353 CTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATAAAAA
130 CTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAA
51739395 CATCAAAATA
Statistics
Matches: 420, Mismatches: 9, Indels: 19
0.94 0.02 0.04
Matches are distributed among these distances:
259 1 0.00
260 21 0.05
261 19 0.05
263 101 0.24
264 199 0.47
266 21 0.05
271 58 0.14
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (262 bp):
TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAGCATAAATTGAAAAAAGAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAAACAGAAATTAAA
AATACCTCGGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATA
AA
Found at i:51739373 original size:91 final size:87
Alignment explanation
Indices: 51739220--51739403 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 87
51739210 TGAAAAGCAT
* *
51739220 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* * *
51739285 GAAAAGCATAAATTGAAAAAACGA
65 GAAAAACAGAAATT-AAAAAATGA
51739309 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
51739374 TTTGAAAGACAGAAA-TAAAAACATCA
62 TTTGAAAAACAGAAATTAAAAA-ATGA
51739400 AAAT
1 AAAT
51739404 ACCAAAAGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
89 22 0.26
90 5 0.06
91 42 0.50
92 15 0.18
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (87 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTAAAAAATGA
Found at i:51741939 original size:47 final size:47
Alignment explanation
Indices: 51741908--51742289 Score: 647
Period size: 47 Copynumber: 8.1 Consensus size: 47
51741898 CACTTCCACG
**
51741908 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
51741955 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
51742002 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
51742049 TTCATCACATTGGCCGTTCGGCCTTATCACATATTTGCATGTTCACG
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
51742096 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
51742143 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
51742190 TTCATCACATTGGCCATTCGACCTTATCACATATTTTCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
51742237 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
51742284 TTCATC
1 TTCATC
51742290 TCATAGAATC
Statistics
Matches: 314, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 314 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:51750450 original size:8 final size:8
Alignment explanation
Indices: 51750416--51750467 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
51750406 TAGTGATGTG
*
51750416 AATAATAA
1 AATATTAA
*
51750424 AGTATATAA
1 AATAT-TAA
51750433 AATA-TAA
1 AATATTAA
51750440 AATATTAA
1 AATATTAA
*
51750448 AATATCAA
1 AATATTAA
*
51750456 AATATTAG
1 AATATTAA
51750464 AATA
1 AATA
51750468 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:51750457 original size:16 final size:15
Alignment explanation
Indices: 51750420--51750467 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
51750410 GATGTGAATA
*
51750420 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
51750436 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
51750451 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
51750467 A
1 A
51750468 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:51750641 original size:20 final size:20
Alignment explanation
Indices: 51750584--51750643 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
51750574 AATACTACAT
51750584 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
51750603 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
51750626 AAATATGTACATAATATA
1 AAATATGTACATAATATA
51750644 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:51750700 original size:31 final size:28
Alignment explanation
Indices: 51750664--51750745 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
51750654 TACATACATA
51750664 ATAGAATTAAAATATATACATAAGATAACAT
1 ATAGAATTAAAATATATACATAA-AT-A-AT
* *
51750695 GTAGAA--AAAATATATATATAAATAAT
1 ATAGAATTAAAATATATACATAAATAAT
*
51750721 ATAGTATTAAAGATATATACATAAA
1 ATAGAATTAAA-ATATATACATAAA
51750746 ATAGTATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.14
27 1 0.02
28 5 0.12
29 26 0.60
31 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (28 bp):
ATAGAATTAAAATATATACATAAATAAT
Found at i:51750736 original size:25 final size:24
Alignment explanation
Indices: 51750708--51750839 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
51750698 GAAAAAATAT
*
51750708 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
51750733 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
51750756 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
51750780 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
51750802 ATTATATATATAATATAATATTAAG
1 A-TATATACATAATATAGTATTAAG
*
51750827 AAATATA-ATAATA
1 ATATATACATAATA
51750840 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.04
23 38 0.45
24 23 0.27
25 21 0.25
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:51750748 original size:27 final size:26
Alignment explanation
Indices: 51750620--51750763 Score: 63
Period size: 29 Copynumber: 5.6 Consensus size: 26
51750610 TACGTGATAA
*
51750620 TATTAAAAATATGTACAT--AATATAG
1 TATT-AAAATATATACATAAAATATAG
* *
51750645 T-GTAAAA-A-ATACAT-ACATAATAG
1 TATTAAAATATATACATAAAAT-ATAG
* * *
51750668 AATTAAAATATATACATAAGATAACATG
1 TATTAAAATATATACATAAAAT-ATA-G
** *
51750696 TAGAAAAAATATATATATAAATAATATAG
1 TA-TTAAAATATATACAT-AA-AATATAG
51750725 TATTAAAGATATATACAT-AAA-ATAG
1 TATTAAA-ATATATACATAAAATATAG
*
51750750 TA-TAATATATATAC
1 TATTAAAATATATAC
51750764 GTAATATAGA
Statistics
Matches: 91, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
21 5 0.05
22 3 0.03
23 16 0.18
24 9 0.10
25 8 0.09
26 8 0.09
27 7 0.08
28 5 0.05
29 24 0.26
30 4 0.04
31 2 0.02
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (26 bp):
TATTAAAATATATACATAAAATATAG
Found at i:51751160 original size:16 final size:16
Alignment explanation
Indices: 51751122--51751160 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51751112 TCTCCAAAAA
*
51751122 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
51751138 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
51751154 AATAACT
1 AAAAACT
51751161 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:51751365 original size:30 final size:30
Alignment explanation
Indices: 51751331--51751412 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
51751321 TGGTGGAGAA
* * * *
51751331 TGGCTAGTAGAGTAGGTAGTGGAGTAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
51751361 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
51751391 TGGCTAGTGGAGTTGGTGGTGG
1 TGGCTAGTGGAGTTGGTGGTGG
51751413 CAAAGGCTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
Found at i:51751402 original size:18 final size:17
Alignment explanation
Indices: 51751347--51751402 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
51751337 GTAGAGTAGG
51751347 TAGTGGAGTAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
51751365 TAGT-G-G-AGT-TGG-
1 TAGTGGAGAAGTGTGGC
*
51751377 TGGTGGAGCAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
51751395 TAGTGGAG
1 TAGTGGAG
51751403 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (17 bp):
TAGTGGAGAAGTGTGGC
Found at i:51758686 original size:26 final size:23
Alignment explanation
Indices: 51758656--51758771 Score: 114
Period size: 22 Copynumber: 5.0 Consensus size: 23
51758646 AGACTCACCA
51758656 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
*
51758682 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
51758705 CAGCTCAT-TGGAGCTTAC-CTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
51758727 CAGCTCGTATGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
51758750 -AGCTC-AATAGAGCTTATTGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
51758772 ATTAGATCGG
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.03
22 35 0.45
23 20 0.26
24 1 0.01
25 1 0.01
26 19 0.24
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:51758741 original size:45 final size:44
Alignment explanation
Indices: 51758681--51758765 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
51758671 TACTGATATA
* *
51758681 TCAGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCTT
1 TCAGCTCGTAAGAGCTTACTGTTT-AGCTCAATAGAGCTTACCTT
*
51758726 TCAGCTCGTATGAGCTTACTGTTTAGCTCAATAGAGCTTA
1 TCAGCTCGTAAGAGCTTACTGTTTAGCTCAATAGAGCTTA
51758766 TTGTTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 14 0.38
45 23 0.62
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (44 bp):
TCAGCTCGTAAGAGCTTACTGTTTAGCTCAATAGAGCTTACCTT
Found at i:51766827 original size:50 final size:50
Alignment explanation
Indices: 51766749--51766940 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
51766739 GTTGTGAGAA
* * * *
51766749 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGT
* * *
51766799 CGA-ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGAT
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG-TTAGGT
* * * * *
51766850 CACGTGTGTAGTACTAAGTGCAGCCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGT
* *
51766900 CACGTATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
51766941 GAGCTTCGGT
Statistics
Matches: 120, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.66
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGT
Found at i:51766928 original size:101 final size:101
Alignment explanation
Indices: 51766753--51766937 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
51766743 TGAGAACACA
* * * *
51766753 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGAATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCGAATATGTAGTACTAAGT
51766818 GCAGGCTACTATGCGTACCCGATAGTTTCGATCACG
66 GCAGGCTACTATGCGTACCCGATAGTTTCGATCACG
* * *
51766854 TGTGTAGTACTAAGTGCAGCCTACTATGTGTATCAGATGGTTAGGTC-ACGTATGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCGA-ATATGTAGTACTAAG
51766918 TGCAGGCTACTATGCGTACC
65 TGCAGGCTACTATGCGTACC
51766938 AGAGAGCTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 75 0.99
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCGAATATGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGATAGTTTCGATCACG
Found at i:51767161 original size:16 final size:16
Alignment explanation
Indices: 51767140--51767171 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51767130 AGAATGGAGT
51767140 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
51767156 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
51767172 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:51769938 original size:26 final size:23
Alignment explanation
Indices: 51769908--51770047 Score: 135
Period size: 23 Copynumber: 6.0 Consensus size: 23
51769898 AGACTCACCA
51769908 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
*
51769934 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
51769957 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
51769980 CAGCTCGTATGAGCTTATTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
*
51770002 CAGCTCG-ATAGAGCTTACTATTT
1 CAGCTCGTAT-GAGCTTACTGTTT
* *
51770025 TAGCTC-AATAGAGCTTACTGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
51770048 ATCAACTCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 17 0.17
23 57 0.58
24 2 0.02
25 1 0.01
26 19 0.19
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:51770030 original size:68 final size:71
Alignment explanation
Indices: 51769908--51770047 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 71
51769898 AGACTCACCA
* * *
51769908 CAGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTT
1 CAGCTCGTATGAGCTTACT-ATATATCAGCTCGTAAGAGCTTACTATTTCAGCTCAATAGAGCTT
51769973 ACCGTTT
65 ACCGTTT
* *
51769980 CAGCTCGTATGAGCTTA-T-TGT-TCAGCTCG-ATAGAGCTTACTATTTTAGCTCAATAGAGCTT
1 CAGCTCGTATGAGCTTACTATATATCAGCTCGTA-AGAGCTTACTATTTCAGCTCAATAGAGCTT
*
51770041 ACTGTTT
65 ACCGTTT
51770048 ATCAACTCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
67 1 0.02
68 40 0.66
69 2 0.03
71 1 0.02
72 17 0.28
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (71 bp):
CAGCTCGTATGAGCTTACTATATATCAGCTCGTAAGAGCTTACTATTTCAGCTCAATAGAGCTTA
CCGTTT
Found at i:51771551 original size:18 final size:18
Alignment explanation
Indices: 51771528--51771572 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
51771518 GCCACTGTCC
51771528 CTTCTTCCTCACCT-ACAT
1 CTTCTTCCTCA-CTGACAT
*
51771546 CTTCTTTCTCACTGACAT
1 CTTCTTCCTCACTGACAT
51771564 CTTCTTCCT
1 CTTCTTCCT
51771573 TATTTACGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.13, C:0.40, G:0.02, T:0.44
Consensus pattern (18 bp):
CTTCTTCCTCACTGACAT
Found at i:51771655 original size:26 final size:27
Alignment explanation
Indices: 51771609--51771663 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
51771599 AGCAAAGGAT
* *
51771609 TCTGTAACACCCCCTTACCCGAGACTG
1 TCTGTAACACCCCCGTACCCGAAACTG
*
51771636 TCTGTAAC-GCCCCGTACCCGAAACTG
1 TCTGTAACACCCCCGTACCCGAAACTG
51771662 TC
1 TC
51771664 GCCGGAGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (27 bp):
TCTGTAACACCCCCGTACCCGAAACTG
Found at i:51773059 original size:93 final size:93
Alignment explanation
Indices: 51772946--51773210 Score: 422
Period size: 93 Copynumber: 2.8 Consensus size: 93
51772936 CACCCATAAG
* * * *
51772946 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51773011 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
51773039 CGAACTCAGAATCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
51773104 ACGAGCTCGGATACCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * *
51773132 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGTATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
51773197 ATGAGTTCGGATGC
66 ACGAGCTCGGATGC
51773211 TCAACCATCC
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 158 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:51773062 original size:47 final size:47
Alignment explanation
Indices: 51772993--51773155 Score: 195
Period size: 47 Copynumber: 3.5 Consensus size: 47
51772983 ATCCACAAGT
*
51772993 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTTACATCTCTC
* * * * * * * * ***
51773040 GAACTCAGAATCAACTCAACGAGTTCGGACA-TTCGCATCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGGATACCTAG-TTACATCTCTC
51773086 GAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTTACATCTCTC
51773133 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
51773156 TTCAGACATT
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 34 0.38
47 56 0.62
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTTACATCTCTC
Found at i:51773114 original size:46 final size:46
Alignment explanation
Indices: 51772939--51773207 Score: 213
Period size: 46 Copynumber: 5.8 Consensus size: 46
51772929 TGTAACCCAC
* * * *
51772939 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
51772985 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
51773031 ACATCTCTCGAACTCAGAATCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
51773078 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACA-TTCGCAT
* *** * * *
51773124 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
51773171 CCATAAGTGAAATCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
51773208 TGCTCAACCA
Statistics
Matches: 171, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
46 97 0.57
47 65 0.38
49 4 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:51774067 original size:19 final size:19
Alignment explanation
Indices: 51774043--51774082 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
51774033 TACAATCGAT
51774043 CTTGGAAGCTTGAAAAACC
1 CTTGGAAGCTTGAAAAACC
51774062 CTTGGAAGCTTGAAAAACC
1 CTTGGAAGCTTGAAAAACC
51774081 CT
1 CT
51774083 AGACATGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (19 bp):
CTTGGAAGCTTGAAAAACC
Found at i:51783335 original size:18 final size:20
Alignment explanation
Indices: 51783304--51783349 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
51783294 GCACAACTCT
*
51783304 TTTTTTATATTAAAATA-TA
1 TTTTTTATAATAAAATATTA
51783323 TTTTTTA-AATAAAATATTA
1 TTTTTTATAATAAAATATTA
51783342 TTTTTTAT
1 TTTTTTAT
51783350 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTATAATAAAATATTA
Found at i:51783665 original size:13 final size:13
Alignment explanation
Indices: 51783647--51783671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51783637 CCATCCACCG
51783647 AAAGAGAGAAAGA
1 AAAGAGAGAAAGA
51783660 AAAGAGAGAAAG
1 AAAGAGAGAAAG
51783672 GAGAAGAAAG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGA
Found at i:51783914 original size:60 final size:59
Alignment explanation
Indices: 51783836--51783953 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 59
51783826 TGAATGTAAA
* *
51783836 TTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTT
1 TTTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTT
* *
51783895 TTTTGTTTGTAATTATTTTAAAATTAATTTATTTGTAATTTAGGATTAAGTTATAAATT
1 TTTT-TTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATT
51783954 GTAGTGTTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (59 bp):
TTTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTT
Found at i:51786358 original size:20 final size:21
Alignment explanation
Indices: 51786325--51786364 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
51786315 TTTTTTGGTA
51786325 TTTTGTTGATCAATTTAAATTT
1 TTTTGTTGA-CAATTTAAATTT
51786347 TTTTGTTG-CAATTTAAAT
1 TTTTGTTGACAATTTAAAT
51786365 AGTCAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTTGTTGACAATTTAAATTT
Found at i:51786383 original size:76 final size:76
Alignment explanation
Indices: 51786300--51786442 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
51786290 AATAACTTTA
*
51786300 TATTTATGTAATGAATTTTTTGGT-ATTTTGTTGATCAATTTAAAT-TTTTTTGTTGCAATTTAA
1 TATTTATGTAATGAATTTTTT-GTCATTTTATTGATCAATTT-AATGTTTTTTGTTGCAATTTAA
51786363 ATAGTCAAGTTTG
64 ATAGTCAAGTTTG
* * * * *
51786376 TATTTATGTAATGACTTTTTTGTCATTTTATTTATCAGTTTTATGGTTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGAATTTTTTGTCATTTTATTGATCAATTTAAT-GTTTTTTGTTGCAATTTAAA
51786441 TA
65 TA
51786443 AATAAACTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
75 4 0.07
76 34 0.59
77 20 0.34
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.57
Consensus pattern (76 bp):
TATTTATGTAATGAATTTTTTGTCATTTTATTGATCAATTTAATGTTTTTTGTTGCAATTTAAAT
AGTCAAGTTTG
Found at i:51787211 original size:16 final size:16
Alignment explanation
Indices: 51787190--51787220 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51787180 AAGATAGATG
51787190 AAATCGGAAGATGTCA
1 AAATCGGAAGATGTCA
51787206 AAATCGGAAGATGTC
1 AAATCGGAAGATGTC
51787221 GTGTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (16 bp):
AAATCGGAAGATGTCA
Found at i:51789125 original size:27 final size:27
Alignment explanation
Indices: 51789095--51789171 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
51789085 TGTAGGCCCC
* * *
51789095 ACCAGTCATGCCTTTGAGATAGGCTCA
1 ACCAGTCACGCCTGTCAGATAGGCTCA
* *
51789122 ACCAGTTACGGCTGTCAGATAGGCTCA
1 ACCAGTCACGCCTGTCAGATAGGCTCA
* * * *
51789149 ACTAGTTACGGCTGTTAGATAGG
1 ACCAGTCACGCCTGTCAGATAGG
51789172 TGCAACCCGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (27 bp):
ACCAGTCACGCCTGTCAGATAGGCTCA
Found at i:51789177 original size:27 final size:27
Alignment explanation
Indices: 51789111--51789171 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
51789101 CATGCCTTTG
51789111 AGATAGGCTCAACCAGTTACGGCTGTC
1 AGATAGGCTCAACCAGTTACGGCTGTC
* *
51789138 AGATAGGCTCAACTAGTTACGGCTGTT
1 AGATAGGCTCAACCAGTTACGGCTGTC
51789165 AGATAGG
1 AGATAGG
51789172 TGCAACCCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (27 bp):
AGATAGGCTCAACCAGTTACGGCTGTC
Found at i:51793783 original size:20 final size:21
Alignment explanation
Indices: 51793758--51793796 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51793748 TTTAGTTACA
51793758 AATAATTA-AATATAAATATT
1 AATAATTATAATATAAATATT
*
51793778 AATAATTATATTATAAATA
1 AATAATTATAATATAAATA
51793797 AAATAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATAATATAAATATT
Found at i:51793801 original size:20 final size:20
Alignment explanation
Indices: 51793757--51793802 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
51793747 TTTTAGTTAC
51793757 AAATAATTAAATATAAATAT
1 AAATAATTAAATATAAATAT
* *
51793777 TAATAATTATATTATAAATA-
1 AAATAATTA-AATATAAATAT
51793797 AAATAA
1 AAATAA
51793803 ATACACAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATATAAATAT
Found at i:51793940 original size:15 final size:15
Alignment explanation
Indices: 51793920--51793951 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51793910 CTGAACAAGC
51793920 TTTGTTCGTGTTCAG
1 TTTGTTCGTGTTCAG
51793935 TTTGTTCGTGTTCAG
1 TTTGTTCGTGTTCAG
51793950 TT
1 TT
51793952 CGTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTGTTCGTGTTCAG
Found at i:51806093 original size:10 final size:10
Alignment explanation
Indices: 51806058--51806112 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 10
51806048 ACCTGCAATT
*
51806058 AACACATTAA
1 AACACATTTA
51806068 AACATGCATATTA
1 AACA--CAT-TTA
51806081 AACACATTTA
1 AACACATTTA
*
51806091 AACACA-TAA
1 AACACATTTA
51806100 AACACA-TTA
1 AACACATTTA
51806109 AACA
1 AACA
51806113 TTCAACTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 14 0.36
10 13 0.33
11 3 0.08
12 3 0.08
13 6 0.15
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (10 bp):
AACACATTTA
Found at i:51806104 original size:9 final size:9
Alignment explanation
Indices: 51806077--51806112 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
51806067 AAACATGCAT
51806077 ATTAAACAC
1 ATTAAACAC
51806086 ATTTAAACAC
1 A-TTAAACAC
*
51806096 ATAAAACAC
1 ATTAAACAC
51806105 ATTAAACA
1 ATTAAACA
51806113 TTCAACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (9 bp):
ATTAAACAC
Found at i:51809367 original size:24 final size:21
Alignment explanation
Indices: 51809312--51809368 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
51809302 TCTCTCTCAC
*
51809312 TTTTTCCTTTCTTTTTTCATT
1 TTTTTTCTTTCTTTTTTCATT
51809333 TTTCTTGTCTTTCTTTTTTTCAATCT
1 TTT-TT-TCTTTC-TTTTTTC-AT-T
51809359 TTTTTTCTTT
1 TTTTTTCTTT
51809369 TACTTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 2 0.07
23 5 0.17
24 12 0.40
25 4 0.13
26 4 0.13
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTTCTTTCTTTTTTCATT
Found at i:51817792 original size:52 final size:50
Alignment explanation
Indices: 51817679--51817857 Score: 200
Period size: 52 Copynumber: 3.5 Consensus size: 50
51817669 ACGGATACCC
* * * * * *
51817679 AGTGGCCTGCACATAGTAACACCCTTGTAGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GACCAAGCTATCTTCTTCACAA
* * *
51817730 AGTGGTCTTCATATAGTACCACACTTGTGACCAAAGCTGTCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TTCTTCACAA
*
51817782 AGTGGCCTTCACATAGTACCACAAC-TGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCAC-ACTTGTGACCAAGCTATCTTCTTCACAA
* *
51817831 AGTGGCCTTTACATAGTACCTCACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
51817858 AGTCACTAGT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
48 2 0.02
49 30 0.28
50 2 0.02
51 36 0.33
52 37 0.34
53 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTTCTTCACAA
Found at i:51817845 original size:49 final size:51
Alignment explanation
Indices: 51817679--51817857 Score: 204
Period size: 51 Copynumber: 3.5 Consensus size: 51
51817669 ACGGATACCC
* * * * *
51817679 AGTGGCCTGCACATAGTAACACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAA
* * *
51817730 AGTGGTCTTCATATAGTACCACACTTGTGACCAAAGCTGTCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
*
51817782 AGTGGCCTTCACATAGTACCACAAC-TGTGACC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCAC-ACTTGTGACCAAAGCTATCTTCTTCACAA
* *
51817831 AGTGGCCTTTACATAGTACCTCACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
51817858 AGTCACTAGT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
48 2 0.02
49 30 0.27
51 38 0.35
52 38 0.35
53 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:51824835 original size:48 final size:48
Alignment explanation
Indices: 51824773--51825129 Score: 624
Period size: 48 Copynumber: 7.4 Consensus size: 48
51824763 TATATATGTG
*
51824773 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
51824821 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
51824869 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGACATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
51824917 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
51824965 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
51825013 TGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGTTATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
51825061 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
51825109 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
51825130 GTGATTCGGC
Statistics
Matches: 295, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 295 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:51825352 original size:37 final size:37
Alignment explanation
Indices: 51825302--51825440 Score: 260
Period size: 37 Copynumber: 3.8 Consensus size: 37
51825292 GGAAATATAT
*
51825302 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
51825339 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
51825376 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
51825413 TCCGGGTAAGACCCGATAACTACGTGTG
1 TCCGGGTAAGACCCGATGACTACGTGTG
51825441 CGACTATTCG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:51828029 original size:45 final size:45
Alignment explanation
Indices: 51827965--51828055 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
51827955 GAACTATGTG
* * *
51827965 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGAC
1 ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
* *
51828010 ATCTGAGCTCATGGAGTTGTGGTATGAGTTCATGATGTATACGAC
1 ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
51828055 A
1 A
51828056 CGTGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (45 bp):
ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
Found at i:51844592 original size:22 final size:22
Alignment explanation
Indices: 51844567--51844614 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
51844557 CAGCACAGGT
51844567 GTGTCCCTTAGACCACACGGGC
1 GTGTCCCTTAGACCACACGGGC
*
51844589 GTGTCCCTTGGACCACACGGGC
1 GTGTCCCTTAGACCACACGGGC
51844611 GTGT
1 GTGT
51844615 GAGCCCTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (22 bp):
GTGTCCCTTAGACCACACGGGC
Found at i:51850341 original size:20 final size:21
Alignment explanation
Indices: 51850300--51850342 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
51850290 AAACTTGTAT
*
51850300 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACATTCAAA
*
51850321 ATCTATCATCAAACA-TCAAA
1 ATCTATCAACAAACATTCAAA
51850341 AT
1 AT
51850343 ACATTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:51850588 original size:15 final size:16
Alignment explanation
Indices: 51850568--51850600 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51850558 GATGATAACT
*
51850568 TTTATTTT-GGTTTTA
1 TTTATTTTAAGTTTTA
51850583 TTTATTTTAAGTTTTA
1 TTTATTTTAAGTTTTA
51850599 TT
1 TT
51850601 ACCAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (16 bp):
TTTATTTTAAGTTTTA
Found at i:51852281 original size:20 final size:20
Alignment explanation
Indices: 51852258--51852302 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51852248 AGGGACTAAA
* *
51852258 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
51852278 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
51852298 ATGAA
1 ATGAA
51852303 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:51865454 original size:24 final size:24
Alignment explanation
Indices: 51865409--51865454 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
51865399 GCTAACTGAG
* *
51865409 TGCCGATTTTGTTTCTAGCTTTGC
1 TGCCGATTTTCTTTCTAACTTTGC
51865433 TGCCGA-TTTCTTTCTCAACTTT
1 TGCCGATTTTCTTTCT-AACTTT
51865455 TCTCATCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.11, C:0.24, G:0.15, T:0.50
Consensus pattern (24 bp):
TGCCGATTTTCTTTCTAACTTTGC
Found at i:51877250 original size:46 final size:46
Alignment explanation
Indices: 51877200--51877372 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
51877190 TGGTTGAGCA
51877200 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51877246 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51877291 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
51877339 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51877373 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51877356 original size:93 final size:93
Alignment explanation
Indices: 51877197--51877367 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
51877187 GGATGGTTGA
* *
51877197 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51877262 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
51877290 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51877355 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51877368 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:51878266 original size:18 final size:19
Alignment explanation
Indices: 51878231--51878268 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51878221 TCCCCTGTTC
*
51878231 TAAATTTAAAAATTAATAA
1 TAAATTTAAAAATAAATAA
51878250 TAAATTTAAAAA-AAATAA
1 TAAATTTAAAAATAAATAA
51878268 T
1 T
51878269 TAGACGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATTTAAAAATAAATAA
Found at i:51888009 original size:24 final size:24
Alignment explanation
Indices: 51887964--51888009 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
51887954 GCTAACTGAG
*
51887964 TGCCGATTTTGTTTCTAGCTTTGC
1 TGCCGATTTTGTTTCTAACTTTGC
51887988 TGCCGA-TTTGTTTCTCAACTTT
1 TGCCGATTTTGTTTCT-AACTTT
51888010 TCTGGTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (24 bp):
TGCCGATTTTGTTTCTAACTTTGC
Found at i:51889110 original size:17 final size:17
Alignment explanation
Indices: 51889088--51889128 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
51889078 TATTGGGCCA
51889088 GGCTATGTAAACCATAT
1 GGCTATGTAAACCATAT
51889105 GGCTATGTAAACCATAT
1 GGCTATGTAAACCATAT
51889122 GGCTATG
1 GGCTATG
51889129 GCCATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (17 bp):
GGCTATGTAAACCATAT
Found at i:51891052 original size:27 final size:27
Alignment explanation
Indices: 51890988--51891040 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
51890978 GACCTCAATT
* *
51890988 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
51891015 TGTAAAATGACCGAAATACCCCTGTA
1 TGTAAAATGACCGAAATACCCCTGTA
51891041 TGATAGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTGTAG
Found at i:51894319 original size:27 final size:28
Alignment explanation
Indices: 51894288--51894344 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
51894278 TCTGATACTG
*
51894288 ATTCTG-TATTGGGCTTAGGCCCACCTA
1 ATTCTGTTATTGGGCTAAGGCCCACCTA
51894315 ATTCTGTTATTGGGCTAAGGCCCACCTA
1 ATTCTGTTATTGGGCTAAGGCCCACCTA
51894343 AT
1 AT
51894345 ACTATTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
ATTCTGTTATTGGGCTAAGGCCCACCTA
Found at i:51905405 original size:46 final size:45
Alignment explanation
Indices: 51905285--51905686 Score: 166
Period size: 46 Copynumber: 8.5 Consensus size: 45
51905275 TTTGTGTGCT
* *
51905285 AGTGTAAGACATATCTGGGACATGCATTGGCCACATT--ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-T--CGACATTGAATGAGAGCC
* * * *
51905331 AGTGTAAGACCATGTCTAGGACAGGCATCGACATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGCATCGACATTG-AATGAGAGCC
* *
51905378 AGTCTAAGACATGTCTGGGACATGCATC-AGCCTTGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CATTGA-ATG-AGAGCC
* * * * *
51905424 CGTGTAAGACATGTCTGGGACATGCATCGGC-TACG-A-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACAT-TGAATGA-GAGCC
* * * *
51905468 AGTGTAAGACCATGTCTGGGACATGCCATC-AGCA-CGTATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGA-CATTGAAT-GA-GAGCC
* * *
51905516 AGTGTAAGATCATGTCTGGGACATGGCATCGGCA-CGAAAATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTG--AA--TGAGAGCC
* ** * * * * *
51905566 AGTATAAGACCATGTCTGGGACATGGTGTC-AGCCTCGATTTCGATAG-T
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGA-CATTGA-AT-GAGAGCC
51905614 ATGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTG-ATGGATGAGCC
1 A-GTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAAT-GA-GAGCC
51905662 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
51905687 GTATCGGTAC
Statistics
Matches: 281, Mismatches: 43, Indels: 64
0.72 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 17 0.06
45 20 0.07
46 74 0.26
47 55 0.20
48 44 0.16
49 33 0.12
50 31 0.11
51 4 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGAATGAGAGCC
Found at i:51905530 original size:48 final size:43
Alignment explanation
Indices: 51905382--51905552 Score: 173
Period size: 48 Copynumber: 3.7 Consensus size: 43
51905372 AGAGCTAGTC
* * * *
51905382 TAAGACATGTCTGGGACATGCATCAGC-CTTGAGATGTAAGCCCGTG
1 TAAGACATGTCTGGGACATGCATCGGCAC--GAGAGGT--GTCAGTG
*
51905428 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGC-ACGAGAGGTGTCAGTG
*
51905472 TAAGACCATGTCTGGGACATGCCATCAGCACGTATAGAGGTGTCAGTG
1 TAAGA-CATGTCTGGGACATG-CATCGGCACG---AGAGGTGTCAGTG
51905520 TAAGATCATGTCTGGGACATGGCATCGGCACGA
1 TAAGA-CATGTCTGGGACAT-GCATCGGCACGA
51905553 AAATGTGAGA
Statistics
Matches: 110, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
44 10 0.09
45 19 0.17
46 39 0.35
48 41 0.37
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (43 bp):
TAAGACATGTCTGGGACATGCATCGGCACGAGAGGTGTCAGTG
Found at i:51905598 original size:98 final size:96
Alignment explanation
Indices: 51905425--51905691 Score: 268
Period size: 96 Copynumber: 2.8 Consensus size: 96
51905415 ATGTAAGCCC
*
51905425 GTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGT--G-TCAGTGTAAGACCATGTCTG
1 GTGTAAGACATGTCTGGGACATGGCATCGGC-ACGAGATGTGAGAGCAGTGTAAGACCATGTCTG
**
51905486 GGACATGCCATCAG-CACG-TATAGAGGT-GTCA-
65 GGACATGGTATCAGCCACGATATAGA--TAGT-AT
* *
51905517 GTGTAAGATCATGTCTGGGACATGGCATCGGCACGAAAATGTGAGAGCTAGTATAAGACCATGTC
1 GTGTAAGA-CATGTCTGGGACATGGCATCGGCACG-AGATGTGAGAGC-AGTGTAAGACCATGTC
* * * *
51905582 TGGGACATGGTGTCAGCCTCGATTTCGATAGTAT
63 TGGGACATGGTATCAGCCACGATATAGATAGTAT
**
51905616 GTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATG-GATGAGCCAGTGTAAGACCATGTC
1 GTGTAAGA-CATGTCTGGGACATGGCATCGGCACGAGATGTGA-GAG-CAGTGTAAGACCATGTC
51905678 TGGGACATGGTATC
63 TGGGACATGGTATC
51905692 GGTACTATAC
Statistics
Matches: 147, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
92 8 0.05
93 17 0.12
94 13 0.09
95 2 0.01
96 35 0.24
97 4 0.03
98 31 0.21
99 33 0.22
100 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
GTGTAAGACATGTCTGGGACATGGCATCGGCACGAGATGTGAGAGCAGTGTAAGACCATGTCTGG
GACATGGTATCAGCCACGATATAGATAGTAT
Found at i:51909312 original size:30 final size:30
Alignment explanation
Indices: 51909276--51909337 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
51909266 TTTATTTCCT
* *
51909276 TATGACTTACTAGGCTATA-AAATGACTTAC
1 TATGACTTACTAAGCTATAGAAA-GACTGAC
*
51909306 TATGACTTAGTAAGCTATAGAAAGACTGAC
1 TATGACTTACTAAGCTATAGAAAGACTGAC
51909336 TA
1 TA
51909338 AGCTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (30 bp):
TATGACTTACTAAGCTATAGAAAGACTGAC
Found at i:51934219 original size:9 final size:9
Alignment explanation
Indices: 51934201--51934230 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
51934191 AGAAAGTGAG
51934201 AGAAGAAAA
1 AGAAGAAAA
*
51934210 AGATGAAAA
1 AGAAGAAAA
51934219 AGAAGAAAA
1 AGAAGAAAA
51934228 AGA
1 AGA
51934231 GATGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:51934229 original size:55 final size:55
Alignment explanation
Indices: 51934126--51934231 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
51934116 GAGTGAGAAT
** *
51934126 GAAAGTGAAAAGAAAGTTGAAAAAAAAAAGAGGTAAAGCGAGAGAAAAGAGCAAA
1 GAAAGTGAAAAGAAAGTTGAAAAAAAAAAGAGAAAAAGCAAGAGAAAAGAGCAAA
*
51934181 GAAAGTGAAAAGAAAG-TGAGAGAAGAAAAAGATGAAAAAG-AAGA-AAAAGAG
1 GAAAGTGAAAAGAAAGTTGA-A-AAAAAAAAGA-GAAAAAGCAAGAGAAAAGAG
51934232 ATGGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
54 3 0.07
55 24 0.55
56 12 0.27
57 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.28, T:0.07
Consensus pattern (55 bp):
GAAAGTGAAAAGAAAGTTGAAAAAAAAAAGAGAAAAAGCAAGAGAAAAGAGCAAA
Found at i:51937393 original size:51 final size:50
Alignment explanation
Indices: 51937299--51937416 Score: 118
Period size: 51 Copynumber: 2.4 Consensus size: 50
51937289 TGTTCTGCAT
* * *
51937299 TTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCA
1 TTAATTAAGTCATGCATTAAGTAACTCTCATGTTAGTTAAGTTTACATCA
*
51937349 TTAAATTAAGTCATGCATTAAGTAACT-T-ATTTGTTCA-TTTAGTTTACATC-
1 TT-AATTAAGTCATGCATTAAGTAACTCTCA--TGTT-AGTTAAGTTTACATCA
* *
51937399 TTAATTAAATTATGCATT
1 TTAATTAAGTCATGCATT
51937417 TAAACATCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
49 15 0.26
50 5 0.09
51 37 0.64
52 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (50 bp):
TTAATTAAGTCATGCATTAAGTAACTCTCATGTTAGTTAAGTTTACATCA
Found at i:51941316 original size:46 final size:45
Alignment explanation
Indices: 51941249--51941411 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 45
51941239 CGCCCCTAAG
51941249 TGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTTGGGCGTT-GCATCCATAAA
* *
51941295 TGAACTCGGACTCAACTCAACGAG-TTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTT-GG--G-C--GTTGCATCCATAAA
* * * * *
51941342 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTTGGGC-GTTGCATCCATAAA
51941388 TGAACTCGGACTCAACTCAACGAG
1 TGAACTCGGACTCAACTCAACGAG
51941412 TTCAGATGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 49 0.51
47 26 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGCTTGGGCGTTGCATCCATAAA
Found at i:51941365 original size:93 final size:93
Alignment explanation
Indices: 51941250--51941420 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
51941240 GCCCCTAAGT
* * *
51941250 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
51941315 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
51941343 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
51941408 CGAGTTCAGATGC
66 CGAGTTCAGATGC
51941421 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:51948958 original size:93 final size:93
Alignment explanation
Indices: 51948841--51949011 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
51948831 GCCCCTAAGT
* * * * * * *
51948841 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATAAATGAGCTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
51948906 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
51948934 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
51948999 CGAGTTCGGATGC
66 CGAGTTCGGATGC
51949012 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51948998 original size:46 final size:46
Alignment explanation
Indices: 51948836--51949008 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
51948826 AACCCGCCCC
* * * * *
51948836 TAAGTGAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * * *
51948882 TAAATGAGCTCGGATTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* *
51948930 TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* *
51948975 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
51949009 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.55
47 26 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:51954867 original size:79 final size:82
Alignment explanation
Indices: 51954756--51954940 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
51954746 GCTACTCGTT
* * *
51954756 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51954819 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
51954836 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
51954899 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
51954916 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51954941 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:51954940 original size:40 final size:40
Alignment explanation
Indices: 51954737--51954940 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
51954727 CGGAATTTAA
** *
51954737 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51954777 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
51954817 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51954856 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51954896 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51954936 CCGGA
1 CCGGA
51954941 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51961840 original size:46 final size:46
Alignment explanation
Indices: 51961784--51961953 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
51961774 TGGTTGAGCA
*
51961784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACG
* * * *
51961830 TCCGAACTCGTTGAGTTGAGTCTGAGTT---C-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCAA--A--CG
** * *
51961877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATTGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACG
* *
51961923 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
51961954 TTAGGGGCGG
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
45 1 0.01
46 56 0.56
47 27 0.27
48 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACG
Found at i:51961940 original size:93 final size:93
Alignment explanation
Indices: 51961781--51961951 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
51961771 GGATGGTTGA
* *
51961781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
*
51961846 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** * * *
51961874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATTGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
51961939 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51961952 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51966165 original size:15 final size:15
Alignment explanation
Indices: 51966145--51966222 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
51966135 CATAGTATCG
51966145 TATCCTAGG-TTTCTT
1 TATCCT-GGATTTCTT
*
51966160 TATCCTGGATCTCTT
1 TATCCTGGATTTCTT
* *
51966175 TATTCTGGATTTCTA
1 TATCCTGGATTTCTT
** *
51966190 TATTCAAGG-TTTCTC
1 TA-TCCTGGATTTCTT
*
51966205 TATCTTGGATTTCTT
1 TATCCTGGATTTCTT
51966220 TAT
1 TAT
51966223 TTGGTTTTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 6 0.12
15 40 0.82
16 3 0.06
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.53
Consensus pattern (15 bp):
TATCCTGGATTTCTT
Found at i:51966231 original size:14 final size:15
Alignment explanation
Indices: 51966154--51966233 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
51966144 GTATCCTAGG
*
51966154 TTTCTTTATCCTGGA
1 TTTCTTTATCTTGGA
*
51966169 TCTCTTTAT-TCTGGA
1 TTTCTTTATCT-TGGA
* **
51966184 TTTCTATATTCAAGG-
1 TTTCTTTA-TCTTGGA
*
51966199 TTTCTCTATCTTGGA
1 TTTCTTTATCTTGGA
*
51966214 TTTCTTTAT-TTGGT
1 TTTCTTTATCTTGGA
51966228 TTTCTT
1 TTTCTT
51966234 GTTATCTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 14 0.28
15 33 0.66
16 3 0.06
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCTTGGA
Found at i:51976128 original size:45 final size:45
Alignment explanation
Indices: 51976078--51976244 Score: 157
Period size: 45 Copynumber: 3.7 Consensus size: 45
51976068 TGGTTGAGCA
*
51976078 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAACG
* * *
51976123 TCCGAACTCGTTGAGTTGAGT-CGAGTT--C-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATG-GATGCAA--A--CG
* * *
51976169 TCCG-AC-CGTTGAGTTGAGTCCGAGTTCATTTATTGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-CTATGGATGCAAACG
* *
51976213 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
51976245 TAGGGCGGGT
Statistics
Matches: 97, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
44 24 0.25
45 31 0.32
46 27 0.28
48 5 0.05
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCAAACG
Found at i:51980432 original size:15 final size:15
Alignment explanation
Indices: 51980412--51980489 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
51980402 CATAGTATCG
51980412 TATCCTAGG-TTTCTT
1 TATCCT-GGATTTCTT
*
51980427 TATCCTGGATCTCTT
1 TATCCTGGATTTCTT
* *
51980442 TATTCTGGATTTCTA
1 TATCCTGGATTTCTT
** *
51980457 TATTCAAGG-TTTCTC
1 TA-TCCTGGATTTCTT
*
51980472 TATCTTGGATTTCTT
1 TATCCTGGATTTCTT
51980487 TAT
1 TAT
51980490 TTGGTTTTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 6 0.12
15 40 0.82
16 3 0.06
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.53
Consensus pattern (15 bp):
TATCCTGGATTTCTT
Done.