Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2306
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: 92666
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:6407 original size:12 final size:12
Alignment explanation
Indices: 6384--6414 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6374 TGAACCAAAC
6384 TCTTTCTTCTTCT
1 TCTTT-TTCTTCT
6397 TCTTTTTCTTCT
1 TCTTTTTCTTCT
6409 TCTTTT
1 TCTTTT
6415 CGTTCTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:6995 original size:2 final size:2
Alignment explanation
Indices: 6988--7013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6978 TGAAATTGTA
6988 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7014 GGTGGTGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8384 original size:30 final size:29
Alignment explanation
Indices: 8315--8385 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
8305 TTAAGGGTTT
8315 ATTTAAATATAAAAATTAATAATTTATTAA
1 ATTTAAAT-TAAAAATTAATAATTTATTAA
* *
8345 ATATAAATTAAAGATTAATAATTTATTTAA
1 ATTTAAATTAAAAATTAATAATTTA-TTAA
*
8375 GTTTAAATTAA
1 ATTTAAATTAA
8386 TTTTTATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTAAATTAAAAATTAATAATTTATTAA
Found at i:8771 original size:16 final size:16
Alignment explanation
Indices: 8750--8837 Score: 74
Period size: 16 Copynumber: 5.5 Consensus size: 16
8740 CTTAATTAAC
*
8750 TTAAAATCAAATAAAT
1 TTAAAATTAAATAAAT
8766 TTAAAATTAAA-ATAAT
1 TTAAAATTAAATA-AAT
*
8782 TAAAAATTAATATAAA-
1 TTAAAATTAA-ATAAAT
* *
8798 TTAAATTTAAAAATAAT
1 TTAAAATTAAATA-AAT
* *
8815 ATAAAATTAAA-AAAA
1 TTAAAATTAAATAAAT
8830 TTAAAATT
1 TTAAAATT
8838 GACCTAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.21
16 33 0.57
17 12 0.21
18 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAATTAAATAAAT
Found at i:8807 original size:23 final size:23
Alignment explanation
Indices: 8758--8825 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 23
8748 ACTTAAAATC
*
8758 AAATAAATTTAAAATTAAAATAATTAA
1 AAAT-AATATAAAATT-AAAT--TTAA
8785 AAATTAATAT-AAATTAAATTTAA
1 AAA-TAATATAAAATTAAATTTAA
8808 AAATAATATAAAATTAAA
1 AAATAATATAAAATTAAA
8826 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
22 6 0.16
23 15 0.39
25 4 0.11
26 5 0.13
27 7 0.18
28 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATAAAATTAAATTTAA
Found at i:8811 original size:33 final size:31
Alignment explanation
Indices: 8751--8837 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 31
8741 TTAATTAACT
*
8751 TAAAATCAAATAAATTTAAAATTAAAATAAT-
1 TAAAATTAAATAAA-TTAAAATTAAAATAATA
*
8782 TAAAAATTAATATAAATTAAATTTAAAAATAATA
1 T-AAAATTAA-ATAAATTAAAATT-AAAATAATA
*
8816 TAAAATTAAAAAAATTAAAATT
1 TAAAATTAAATAAATTAAAATT
8838 GACCTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 1 0.02
32 25 0.52
33 21 0.44
34 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (31 bp):
TAAAATTAAATAAATTAAAATTAAAATAATA
Found at i:8837 original size:38 final size:37
Alignment explanation
Indices: 8761--8834 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
8751 TAAAATCAAA
* *
8761 TAAATTTAAAATTAAAATAATTAAAAATTAATATAAAT
1 TAAATTTAAAAATAAAAAAATTAAAAA-TAATATAAAT
8799 TAAATTTAAAAATAATATAAAATTAAAAA-AAT-TAAA
1 TAAATTTAAAAATAA-A-AAAATTAAAAATAATATAAA
8835 ATTGACCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 4 0.12
38 17 0.53
39 1 0.03
40 10 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (37 bp):
TAAATTTAAAAATAAAAAAATTAAAAATAATATAAAT
Found at i:10910 original size:2 final size:2
Alignment explanation
Indices: 10903--10945 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10893 TGTATTTAAA
*
10903 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10945 T
1 T
10946 TTTTTGCATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:14426 original size:2 final size:2
Alignment explanation
Indices: 14415--14446 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14405 ATATCCTTGG
14415 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14447 TTGTGAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14726 original size:23 final size:24
Alignment explanation
Indices: 14700--14760 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
14690 TATATAAAAT
14700 AAATATAATATAAAAAATAAT-TA
1 AAATATAATATAAAAAATAATATA
*
14723 AAATAT-ATAATAAAATATAATATA
1 AAATATAAT-ATAAAAAATAATATA
14747 AAA-ATACATATAAA
1 AAATATA-ATATAAA
14761 TATATAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 2 0.06
23 19 0.58
24 10 0.30
25 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATAATATAAAAAATAATATA
Found at i:14745 original size:35 final size:36
Alignment explanation
Indices: 14683--14771 Score: 121
Period size: 35 Copynumber: 2.5 Consensus size: 36
14673 AGATTACTCG
*
14683 ATATAATTATATAAAATAAATATAATATAAAAAATA-
1 ATATAAATATATAAAATAAATATAATAT-AAAAATAC
*
14719 AT-TAAA-ATATATAATAAAATATAATATAAAAATAC
1 ATATAAATATATAAAAT-AAATATAATATAAAAATAC
14754 ATATAAATATATAAAATA
1 ATATAAATATATAAAATA
14772 TATTAAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
34 15 0.33
35 16 0.35
36 7 0.15
37 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (36 bp):
ATATAAATATATAAAATAAATATAATATAAAAATAC
Found at i:14761 original size:23 final size:22
Alignment explanation
Indices: 14691--14764 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 22
14681 CGATATAATT
* *
14691 ATATAAAATAAATATAATATAA
1 ATATAATATAAAAATAATATAA
*
14713 A-A-AATAATTAAAATATATAATAAA
1 ATATAAT-ATAAAAATA-AT-AT-AA
14737 ATATAATATAAAAATACATATAA
1 ATATAATATAAAAATA-ATATAA
14760 ATATA
1 ATATA
14765 TAAAATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.05
21 8 0.20
22 3 0.07
23 9 0.22
24 5 0.12
25 11 0.27
26 3 0.07
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATAATATAAAAATAATATAA
Found at i:14762 original size:44 final size:44
Alignment explanation
Indices: 14691--14831 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 44
14681 CGATATAATT
*
14691 ATATAAAATAA-ATATAATATAA-AAAATAATTAAAATATATAATAAA
1 ATATAATATAACATA-AAT-TAATAAAAT-ATTAAAATATAT-ATAAA
14737 ATATAATAT-A-A-AAA-TACATATAAATATATAAAATATAT-TAAA
1 ATATAATATAACATAAATTA-ATA-AAATAT-TAAAATATATATAAA
* *
14779 AT-TTATATAACATAAATTAATAAAATATTAAAATTTATATAAA
1 ATATAATATAACATAAATTAATAAAATATTAAAATATATATAAA
14822 TATATAATAT
1 -ATATAATAT
14832 TTTAAATTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
41 7 0.09
42 17 0.21
43 16 0.20
44 23 0.29
45 9 0.11
46 8 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (44 bp):
ATATAATATAACATAAATTAATAAAATATTAAAATATATATAAA
Found at i:14802 original size:34 final size:32
Alignment explanation
Indices: 14756--14820 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
14746 AAAAATACAT
14756 ATAAATATATAAAATATATTAAAATTTATATAAC
1 ATAAATATAT-AAA-ATATTAAAATTTATATAAC
14790 ATAAAT-TAATAAAATATTAAAATTTATATAA
1 ATAAATAT-ATAAAATATTAAAATTTATATAA
14821 ATATATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 18 0.60
33 4 0.13
34 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
ATAAATATATAAAATATTAAAATTTATATAAC
Found at i:14862 original size:61 final size:63
Alignment explanation
Indices: 14698--14863 Score: 153
Period size: 61 Copynumber: 2.7 Consensus size: 63
14688 ATTATATAAA
** * * *
14698 ATAAATATAATATAAAAAATAATTAAAATATATAATAAAATATAATATAAAAATACATATAAATA
1 ATAAATAT-AT-TAAAATTTAATTATAATA-AAAATAAAATAAAATATAAAAATACATATAAATA
14763 T
63 T
* * * * **
14764 ATAAAATATATTAAAATTT-A-TATAACATAAAT-TAATAAAATATTAAAATTTATATAAATAT
1 AT-AAATATATTAAAATTTAATTATAATAAAAATAAAATAAAATATAAAAATACATATAAATAT
*
14825 AT-AATAT-TTTAAATTTAATTATAATAAAAATAAAATAAA
1 ATAAATATATTAAAATTTAATTATAATAAAAATAAAATAAA
14864 TGTAATATGA
Statistics
Matches: 81, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
58 8 0.10
59 6 0.07
60 10 0.12
61 32 0.40
62 3 0.04
63 5 0.06
64 1 0.01
65 6 0.07
66 4 0.05
67 6 0.07
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (63 bp):
ATAAATATATTAAAATTTAATTATAATAAAAATAAAATAAAATATAAAAATACATATAAATAT
Found at i:15176 original size:2 final size:2
Alignment explanation
Indices: 15171--15211 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15161 TGTGTGTGTG
*
15171 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15212 CAATCTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18989 original size:186 final size:191
Alignment explanation
Indices: 18561--19085 Score: 780
Period size: 186 Copynumber: 2.8 Consensus size: 191
18551 ACAAGTAAAT
* * *
18561 CTCCTAAAATTC-TTTGTATGCTACTTAATCACCGTCTATTTTGAGTGTAAGATGCAAGTTTGTA
1 CTCCTAAATTTCTTTTGTATACTACTTAATCACCATCTA-TTTGAGTGTAAGATGCAAGTTTGTA
* * *
18625 TCTAAAATGAATATAGTTAAATTTTTTAAAAATTTTTTTTATATATTTAAAATATCATACCTTTT
65 TCTGAAATGAGTATAGTTAAATTTTTTAAAAATTTTTTTTATATATTTAAAAAATCATACC-TTT
18690 GTAGTCATGTCGAATATGTATTTGACATAGATTACTTTGCTTTTCGATATTCGTTTAAGTCTC
129 GTAGTCATGTCGAATATGTATTTGACATAGATTACTTTGCTTTTCGATATTCGTTTAAGTCTC
18753 CTCCTAAAATTTCTTTTGTATACTACTTAATCACCATCTATTTGAGTGTAAGATGCAAG-TTGTA
1 CTCCT-AAATTTCTTTTGTATACTACTTAATCACCATCTATTTGAGTGTAAGATGCAAGTTTGTA
18817 TCTGAAATGAGTATAGTTAAATTTTTTAAAAATTTTTTTTATATA-TTAAAAAATCATACCTTTG
65 TCTGAAATGAGTATAGTTAAATTTTTTAAAAATTTTTTTTATATATTTAAAAAATCATACCTTTG
18881 TAGTCATGTTCG-ATATGTA-TTGACATAGATTACTTTGC-TTTCGATATTCG-TTAAGTCTC
130 TAGTCATG-TCGAATATGTATTTGACATAGATTACTTTGCTTTTCGATATTCGTTTAAGTCTC
*
18940 CTCCTAAATTTCTTTTGTATACTACTTAATCATCATCTATTTGAGTGTAAGATGCAAGTTTGTAT
1 CTCCTAAATTTCTTTTGTATACTACTTAATCACCATCTATTTGAGTGTAAGATGCAAGTTTGTAT
* * * * * * *
19005 ATGAAATGAGTGTAGTTAAATTTGTGT--AAGTTTTTTTCATATATTTAAAGAATCATATCTTTC
66 CTGAAATGAGTATAGTTAAATTT-TTTAAAAATTTTTTTTATATATTTAAAAAATCATACCTTT-
* *
19068 GTATTCATATCTGAATAT
129 GTAGTCATGTC-GAATAT
19086 ATGTTTACCT
Statistics
Matches: 308, Mismatches: 16, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
186 66 0.21
187 59 0.19
188 22 0.07
189 23 0.07
190 19 0.06
191 17 0.06
192 53 0.17
193 25 0.08
194 24 0.08
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (191 bp):
CTCCTAAATTTCTTTTGTATACTACTTAATCACCATCTATTTGAGTGTAAGATGCAAGTTTGTAT
CTGAAATGAGTATAGTTAAATTTTTTAAAAATTTTTTTTATATATTTAAAAAATCATACCTTTGT
AGTCATGTCGAATATGTATTTGACATAGATTACTTTGCTTTTCGATATTCGTTTAAGTCTC
Found at i:22102 original size:13 final size:15
Alignment explanation
Indices: 22064--22104 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
22054 ATTTTTATTT
22064 TATAT-CTATATATA
1 TATATACTATATATA
22078 TATATACTATATATA
1 TATATACTATATATA
*
22093 -ATTTAC-ATATAT
1 TATATACTATATAT
22105 TTAATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 10 0.40
15 9 0.36
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATACTATATATA
Found at i:23238 original size:14 final size:14
Alignment explanation
Indices: 23219--23251 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23209 TCTTATTTTT
*
23219 TATTATTTAATTTA
1 TATTATATAATTTA
23233 TATTATATAATTTA
1 TATTATATAATTTA
23247 TATTA
1 TATTA
23252 GAATATTAAT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATATAATTTA
Found at i:23277 original size:12 final size:12
Alignment explanation
Indices: 23260--23285 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23250 TAGAATATTA
23260 ATTCTATTATAT
1 ATTCTATTATAT
23272 ATTCTATTATAT
1 ATTCTATTATAT
23284 AT
1 AT
23286 ATTAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTCTATTATAT
Found at i:23351 original size:20 final size:20
Alignment explanation
Indices: 23314--23381 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 20
23304 TTAATAATTG
*
23314 ATTTATATATCATTTATTTT
1 ATTTATATATCATATATTTT
*
23334 ATTTATA-AT-ATATATATT
1 ATTTATATATCATATATTTT
* *
23352 ATATAATATATTAATATATTATT
1 AT-TTATATA-TCATATATT-TT
23375 -TTTATAT
1 ATTTATAT
23382 TTATTTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 8 0.21
21 6 0.16
22 7 0.18
23 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATATATCATATATTTT
Found at i:23391 original size:23 final size:23
Alignment explanation
Indices: 23314--23394 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
23304 TTAATAATTG
*
23314 ATTTATATATCA--TTTAT-TTT
1 ATTTATATATTATTTTTATATTT
* *
23334 ATTTATAATATATATATTATATAATAT
1 ATTTAT-ATAT-TAT-TTTTAT-ATTT
*
23361 ATTAATATATTATTTTTATATTT
1 ATTTATATATTATTTTTATATTT
23384 ATTTATATATT
1 ATTTATATATT
23395 TCTAATATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.13
21 4 0.09
22 1 0.02
23 13 0.28
24 5 0.11
25 7 0.15
26 4 0.09
27 7 0.15
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTATATATTATTTTTATATTT
Found at i:23394 original size:12 final size:12
Alignment explanation
Indices: 23266--23395 Score: 69
Period size: 12 Copynumber: 10.8 Consensus size: 12
23256 ATTAATTCTA
23266 TTATATATTCTA-
1 TTATATATT-TAT
23278 TTATATATATTA-
1 TTATATAT-TTAT
*
23290 ATATATACTTTAAT
1 TTATATA-TTT-AT
*
23304 TTA-ATAATTGAT
1 TTATAT-ATTTAT
*
23316 TTATATA-TCA-
1 TTATATATTTAT
23326 TT-TAT-TTTAT
1 TTATATATTTAT
*
23336 TTATAATATATAT
1 TTAT-ATATTTAT
*
23349 ATTATATAATATAT
1 -TTATAT-ATTTAT
*
23363 TAATATA-TTAT
1 TTATATATTTAT
*
23374 TTTTATATTTAT
1 TTATATATTTAT
23386 TTATATATTT
1 TTATATATTT
23396 CTAATATTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
9 5 0.05
10 4 0.04
11 11 0.12
12 40 0.43
13 20 0.22
14 13 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (12 bp):
TTATATATTTAT
Found at i:23395 original size:58 final size:60
Alignment explanation
Indices: 23266--23402 Score: 138
Period size: 58 Copynumber: 2.3 Consensus size: 60
23256 ATTAATTCTA
* * *
23266 TTATATATTCTATTATATATATTAATATATACTTTAATTTAATAATTGATTTATATATCAT
1 TTATATATT-TATAATATATATTAATATATAATATAATTTAATAATTGATTTATATATCAT
* * * *
23327 TTATTTTATTTATAATATATA-TATTATATAATAT-A-TTAATATATT-ATTTTTATATTTAT
1 TTA-TATATTTATAATATATATTAATATATAATATAATTTAATA-ATTGATTTATATA-TCAT
*
23386 TTATATATTTCTAATAT
1 TTATATATTTATAATAT
23403 TTCTATTTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
58 26 0.41
59 10 0.16
60 10 0.16
61 13 0.20
62 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (60 bp):
TTATATATTTATAATATATATTAATATATAATATAATTTAATAATTGATTTATATATCAT
Found at i:25234 original size:56 final size:56
Alignment explanation
Indices: 25174--25347 Score: 169
Period size: 56 Copynumber: 3.1 Consensus size: 56
25164 ACTATTTAAA
25174 TAAGACTAAAATATTAAAAAATTATTGTATGTAATATTATATTTTTATAATTAGTC
1 TAAGACTAAAATATTAAAAAATTATTGTATGTAATATTATATTTTTATAATTAGTC
* * * * * * * **
25230 TAAGA-TAACTATATCTAAAACTAGT-TTG-AT-TCAAAAATATGTTTTTACTATTTA-AA
1 TAAGACTAA-AATAT-TAAAA-AATTATTGTATGT-AATATTATATTTTTA-TAATTAGTC
*
25286 TGAGACTAAAATATTAAAAAATTATTGTATGTAATATTTATATTTTTATAATTAGTC
1 TAAGACTAAAATATTAAAAAATTATTGTATGTAATA-TTATATTTTTATAATTAGTC
25343 TAAGA
1 TAAGA
25348 TAACTATCTT
Statistics
Matches: 87, Mismatches: 20, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
54 2 0.02
55 12 0.14
56 41 0.47
57 30 0.34
58 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (56 bp):
TAAGACTAAAATATTAAAAAATTATTGTATGTAATATTATATTTTTATAATTAGTC
Found at i:26293 original size:13 final size:14
Alignment explanation
Indices: 26275--26455 Score: 122
Period size: 13 Copynumber: 13.2 Consensus size: 14
26265 ATACAGGCAG
26275 TTTGGCACAGGTA-
1 TTTGGCACAGGTAC
* *
26288 TTTGGCATAGGCAC
1 TTTGGCACAGGTAC
* * *
26302 -GTGGCATAAGTACC
1 TTTGGCACAGGTA-C
26316 TTTGGCACAGGTAC
1 TTTGGCACAGGTAC
*
26330 -TTGGCACAAGTAC
1 TTTGGCACAGGTAC
* *
26343 TTTAGCACAAGTATC
1 TTTGGCACAGGTA-C
* *
26358 TTTGGCATAGTTAC
1 TTTGGCACAGGTAC
* * * *
26372 -CTAGCATAGATAC
1 TTTGGCACAGGTAC
26385 -TTGGCACAGGTAC
1 TTTGGCACAGGTAC
*
26398 TTTGGCATAGGTAC
1 TTTGGCACAGGTAC
*
26412 TTTGGCACAAGTAC
1 TTTGGCACAGGTAC
* * * *
26426 -CTGGTAAAGGTAT
1 TTTGGCACAGGTAC
26439 TTTGGCACAGGTAC
1 TTTGGCACAGGTAC
26453 TTT
1 TTT
26456 TGGAAAAGAC
Statistics
Matches: 128, Mismatches: 33, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
13 59 0.46
14 50 0.39
15 19 0.15
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (14 bp):
TTTGGCACAGGTAC
Found at i:26320 original size:28 final size:28
Alignment explanation
Indices: 26288--26351 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
26278 GGCACAGGTA
* *
26288 TTTGGCATAGGCACGTGGCATAAGTACC
1 TTTGGCACAGGCACGTGGCACAAGTACC
* *
26316 TTTGGCACAGGTACTTGGCACAAGTA-C
1 TTTGGCACAGGCACGTGGCACAAGTACC
*
26343 TTTAGCACA
1 TTTGGCACA
26352 AGTATCTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 9 0.29
28 22 0.71
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (28 bp):
TTTGGCACAGGCACGTGGCACAAGTACC
Found at i:26352 original size:14 final size:15
Alignment explanation
Indices: 26303--26364 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
26293 CATAGGCACG
*
26303 TGGCATAAGTACCTT
1 TGGCACAAGTACCTT
*
26318 TGGCACAGGTA-C-T
1 TGGCACAAGTACCTT
26331 TGGCACAAGTA-CTT
1 TGGCACAAGTACCTT
* *
26345 TAGCACAAGTATCTT
1 TGGCACAAGTACCTT
26360 TGGCA
1 TGGCA
26365 TAGTTACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 12 0.30
14 12 0.30
15 16 0.40
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (15 bp):
TGGCACAAGTACCTT
Found at i:26444 original size:55 final size:53
Alignment explanation
Indices: 26276--26455 Score: 166
Period size: 55 Copynumber: 3.3 Consensus size: 53
26266 TACAGGCAGT
* * *
26276 TTGGCACAGGTA-TTTGGCATAGGCAC-GTGGCATAAGTACCTTTGGCACAGGTAC
1 TTGGCACAGGTACTTTGGCATAGGTACTTTGGCA-AAGTACC--TGGCAAAGGTAC
* * * * * * * *
26330 TTGGCACAAGTACTTTAGCACAAGTATCTTTGGCATAGTTACCTAGCATAGATAC
1 TTGGCACAGGTACTTTGGCATAGGTA-CTTTGGCAAAG-TACCTGGCAAAGGTAC
* *
26385 TTGGCACAGGTACTTTGGCATAGGTACTTTGGCACAAGTACCTGGTAAAGGTATT
1 TTGGCACAGGTACTTTGGCATAGGTACTTTGGCA-AAGTACCTGGCAAAGGTA-C
26440 TTGGCACAGGTACTTT
1 TTGGCACAGGTACTTT
26456 TGGAAAAGAC
Statistics
Matches: 100, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
54 30 0.30
55 58 0.58
56 3 0.03
57 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (53 bp):
TTGGCACAGGTACTTTGGCATAGGTACTTTGGCAAAGTACCTGGCAAAGGTAC
Found at i:30542 original size:19 final size:20
Alignment explanation
Indices: 30514--30560 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30504 ATTTATCATA
*
30514 TATTTAATTATTGTAT-ATT
1 TATTTTATTATTGTATAATT
*
30533 TATTTTATTATTTTATAATT
1 TATTTTATTATTGTATAATT
30553 TATATTTA
1 TAT-TTTA
30561 AGTTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.58
20 6 0.25
21 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTATTATTGTATAATT
Found at i:30915 original size:3 final size:3
Alignment explanation
Indices: 30907--30959 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
30897 ATTAGACTTC
*
30907 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATT ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
30955 ATG AT
1 ATG AT
30960 TATTATTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (3 bp):
ATG
Found at i:30986 original size:3 final size:3
Alignment explanation
Indices: 30980--31016 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
30970 ATTATTATTA
*
30980 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
31017 ATACATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:34122 original size:14 final size:14
Alignment explanation
Indices: 34103--34147 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
34093 ATCAACATAG
34103 AATGAAGAAAAAAA
1 AATGAAGAAAAAAA
*
34117 AATGAAGAAGAAAA
1 AATGAAGAAAAAAA
* *
34131 TATGTAATAAAAAAA
1 AATG-AAGAAAAAAA
34146 AA
1 AA
34148 CATGTAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AATGAAGAAAAAAA
Found at i:36223 original size:43 final size:43
Alignment explanation
Indices: 36162--36270 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
36152 AGTTTACCAA
* * *
36162 GGACAAGGTCGATAGGTAAACAAATAGAGGAATGGTTGACTGG
1 GGACAAAGTCGATAGGTAAACAAATAGAGGAATAGTTGACCGG
*
36205 GGACAAAGCCGATAGGTAAACAAATAGAGGAATAGTTGACCGG
1 GGACAAAGTCGATAGGTAAACAAATAGAGGAATAGTTGACCGG
* *
36248 GGACAAAATCGATAGGTCAACAA
1 GGACAAAGTCGATAGGTAAACAA
36271 GGGTAAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.30, T:0.16
Consensus pattern (43 bp):
GGACAAAGTCGATAGGTAAACAAATAGAGGAATAGTTGACCGG
Found at i:36589 original size:32 final size:32
Alignment explanation
Indices: 36553--36732 Score: 158
Period size: 30 Copynumber: 5.8 Consensus size: 32
36543 GACATTTGGC
36553 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*** ** *
36585 TTAGAAAATATTATCACCAACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
36617 TTA-TAAGGGTTGCCACC-AGCTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGA-CTTGTGTGGGCT
* *
36648 TTTGAAAGGGTTGCCACCGAC-T-TGTAGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* **
36678 TTTGAAAGGGTTGCCACTAAC-T-TGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
36708 TTTGAAAGAG-TGCCATCGAATTGTG
1 TTAGAAAGGGTTGCCACCGACTTGTG
36733 AGCTTTGAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
29 6 0.05
30 45 0.38
31 25 0.21
32 43 0.36
33 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (32 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:36671 original size:63 final size:63
Alignment explanation
Indices: 36557--36744 Score: 162
Period size: 63 Copynumber: 3.1 Consensus size: 63
36547 TTTGGCTTAG
* * ** * *
36557 AAAGGGTTGCCACC-GACTTGTGTGGGCTTTAGAAA-ATATTATCACCAACTTGTGTGGGC-TTT
1 AAAGGGTTGCCACCAG-CTTGTGTGGGCTTTTGAAAGA-GTTGCCACCGACTTGTGTAGGCTTTT
*
36619 ATAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAGGGTTGCCACCGAC-T-TGTAGGCTTTT
1 A-AAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAGAGTTGCCACCGACTTGTGTAGGCTTTT
* * * * *
36681 GAAAGGGTTGCCACTAAC-T-TGTGGGCTTTTGAAAGAG-TGCCATCGAATTGTG-A-GCTTTG
1 -AAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAGAGTTGCCACCGACTTGTGTAGGCTTTT
36740 AAAGG
1 AAAGG
36745 ATGCCACTGA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
58 5 0.05
59 13 0.12
60 19 0.18
61 9 0.08
62 19 0.18
63 40 0.38
64 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (63 bp):
AAAGGGTTGCCACCAGCTTGTGTGGGCTTTTGAAAGAGTTGCCACCGACTTGTGTAGGCTTTT
Found at i:36680 original size:30 final size:30
Alignment explanation
Indices: 36556--39120 Score: 374
Period size: 29 Copynumber: 87.2 Consensus size: 30
36546 ATTTGGCTTA
*
36556 GAAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1 GAAAGGGTTGCCACCGAC-T-TGTGGGCTTTT
*** ** *
36588 GAAAATATTATCACCAACTTGTGTGGGC-TTT
1 GAAAGGGTTGCCACCGAC-T-TGTGGGCTTTT
36619 -ATAAGGGTTGCCACC-AGCTTGTGTGGGCTTTT
1 GA-AAGGGTTGCCACCGA-C-T-TGTGGGCTTTT
*
36651 GAAAGGGTTGCCACCGACTTGTAGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
**
36681 GAAAGGGTTGCCACTAACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * *
36711 GAAAGAG-TGCCATCGAATTGTGAGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * *
36739 GAAA-GGATGCCACTGAATCGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
36767 -AAAAGGATGCCACTAACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * * *
36795 AAAAGGG-TGTCACTGGCTCGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
*
36823 GAAAAGGG-TGCCA-CTAGCTTGTGGG-TTTT
1 G-AAAGGGTTGCCACCGA-CTTGTGGGCTTTT
* * *
36852 AAAAAGGG-TGCCACTGACTTATGGGC-TTT
1 -GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
36881 GAAAAAGG-TGCCACCAACTTATGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
36910 GAAAGGGATTGAAAGGATGCCACTGACTTATAGGC-TTT
1 GAAAGGG--T-------TGCCACCGACTTGTGGGCTTTT
*
36948 GAAAGGG-TGCCACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
36976 GAAAAGGG-TGCCACTGGCTTGTAGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
** * * ** *
37005 GAAAATGATGTCATTGACTTGTGGGCTTCT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37035 GAAGAATTGAAATGATGCCACTAACTTG-GAGGC-TTT
1 G-A-AA--G---GGTTGCCACCGACTTGTG-GGCTTTT
*
37071 GAAAGGG-TGCCACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * *
37099 GAAAAGGGTAG-CACTGGCTTGTGCG-TTTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37128 GAAAAAGG-TGCCACTGACTTGT-GAATTTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37157 AAAAGAG-TGCCACTGACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* **
37186 GAAATGATTGAAAAGATGCCACTAACTTGTGGGC-TTT
1 GAAA-G---G----GTTGCCACCGACTTGTGGGCTTTT
** * *
37223 GAAAGGG-TGCCACTAACTTATAGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * ** *
37252 GAAAAGATTAAAAAGATGCCATTGACTTATGGGC-TTT
1 G-AAAG-------GGTTGCCACCGACTTGTGGGCTTTT
*
37289 GAAAGGG-TGCCACTC-ACTTGTGTGC-TTT
1 GAAAGGGTTGCCAC-CGACTTGTGGGCTTTT
** * ** * *
37317 GAAAATAG-TGTCATTGGCTTGTAGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** * *
37346 GAAAATGG-TGCCAATGGCTTGTGGGCTTTA
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* *
37376 AAAAGGG-TGCCACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37404 GAAAAGG-TGCCACTGACTCATGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
** **
37433 GAAA-GAATGCCACTAACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * ** *
37462 GAAAAGG-TGCTACTAACTTGTAGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
*** * *
37490 GAAAGGG-TGCCGTTGACTTATTGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* **
37519 GAAA-GGATGCCACTAACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37548 AAAAGAG-TGCCATTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37576 GAAAATGG-TACCACTGACTTGTGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37605 AAAAAGG-TGCCA-TGACTTGTGGG-TTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37632 -AAAAGGATGCCACTAACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* *
37661 GAAAGGATTGAAAGAATGCCACTGACTTGT-GGCTTTT
1 GAAA-G---G---G-TTGCCACCGACTTGTGGGCTTTT
* ** *
37698 GAAATGG-TGCCACTAACTTATGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37727 GAAATGG-TGCCACTGACTTGTGGGTTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37756 AAAAAGGTT-CCA-CTAGCTT-TCGGG-TTTT
1 GAAAGGGTTGCCACCGA-CTTGT-GGGCTTTT
* ** * *
37784 GAAAAGGG-TGCCGCTAATTTGTGGAC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** *
37813 -AAAAGGTTGCCACTAACTTGTAGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
*
37841 GAAAGGG-TGCCACTGACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
37870 AAAAGGG-TGCCACTGGCTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
37898 GAAAAAGG-TACCACTAACTTGTGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
** ** *
37927 GAAAATG-TGCCATTGACTTATGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** *
37956 GAAAAGATTGAAAAGATGCCACTAACTTATGGGC-TTT
1 G-AAAG---G----GTTGCCACCGACTTGTGGGCTTTT
* *
37993 GAAAGGG-TGGCACTGACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** * * * *
38022 GAAAGGG-TGTCATTGATTTATAGGCTTTA
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * ** * *
38051 AAAAGGG-TGCCA-CTAGCTTACGAGCTTTA
1 GAAAGGGTTGCCACCGA-CTTGTGGGCTTTT
* *
38080 AAAAGGG-TGCCACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * ** * *
38108 AAAAAGG-TGCCATTGACTTGTGAGCTTTA
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** ** * *
38137 AAAAAAG-TGATA-CTAGCTTGTGAGC-TTT
1 GAAAGGGTTGCCACCGA-CTTGTGGGCTTTT
* * *
38165 GAAAATGG-TGCTACTGACTTGTGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* **
38194 AAAAGGG-TGCCACTAACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
*** * *
38223 GAAA--AAAGCCACTGGCTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * ** *
38251 GAAA-GGCTACCAGTGACTTATGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
38279 GAAAAGGG-TGCCACTGGCTTATGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * * * *
38308 GAAAATGG-TACTACTGGCTTGTAGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** * *
38337 GAAAATGG-TGTAACTGACTTGTGGGCTTTA
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* **
38367 AAAAGGG-TGCCACTAACTT-TGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * *
38394 GAAA-GGATACCTCTGACTTGTGGG--TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** *
38421 GAAAGTG-TGCCACTAACTCGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * * *
38450 GAAA-GGATGCTACTGACTTGT-GACCTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
38478 GAAAGGG-TGCCACTGACTCGCGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * **
38506 AAAAAGG-TGCTAATGACTTGTGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** *
38535 GAAAGAATTGAAAGGATGCCACTAACTTGTAGGC-TTT
1 G--A-AA--G---GGTTGCCACCGACTTGTGGGCTTTT
** *
38572 GAAAGGG-TGCCACTAACTTGTGGGGTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* ** *
38601 GAAA--GTATACCACTAACTTGTGGGCTTTG
1 GAAAGGGT-TGCCACCGACTTGTGGGCTTTT
* * **
38630 GAAAGGG-TACTACTAACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * ***
38658 -AAAAGGATGCCACTGACTTGTGAATTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
**
38687 GAAAGGG-TGCCACTAACTTGTGGG--TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
** *
38714 GCAAAGGG-TGCCACTTACTCGTGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
38743 GAAAAGGGTT-CCACTGACTTATAGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * * *
38772 GAAAAGGATGCCACTGACTTATGGGC-CTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
38801 GAAAAAGG-TGCTACTAACTTGTGGGC-TTT
1 G-AAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * * *
38830 GAAAAGGATGCCACTGACTTATGTGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* *** *
38859 GAAA-GGATGCCATTAACTTGTAGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
** * * * * *
38887 GAAAAAG-TACTACTGACTCGTGGGGTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * ** *
38916 GAAA-GGATGCTACTGACTCATGAGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * *
38945 GTAA-GGATGCCACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* *
38973 GAAAGGG-TGCAACTGACTTGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * * *
39001 GAAA-CGATGCCACTGACTCGTGGGC-TTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
** * *
39029 -AAAGGG-TGCCACTAACTAGTGGG-ATTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* *
39056 AAAAGGGTT-CCACTGACTTGTGGG-TTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
* * **
39084 GAAAGGGATGCCACTGACTCATGGGCTTTT
1 GAAAGGGTTGCCACCGACTTGTGGGCTTTT
39114 GAAAGGG
1 GAAAGGG
39121 AAAAAGATTT
Statistics
Matches: 1991, Mismatches: 377, Indels: 332
0.74 0.14 0.12
Matches are distributed among these distances:
26 8 0.00
27 94 0.05
28 626 0.31
29 917 0.46
30 98 0.05
31 25 0.01
32 45 0.02
33 5 0.00
34 5 0.00
35 2 0.00
36 13 0.01
37 52 0.03
38 101 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (30 bp):
GAAAGGGTTGCCACCGACTTGTGGGCTTTT
Found at i:36991 original size:29 final size:29
Alignment explanation
Indices: 36921--39117 Score: 1505
Period size: 29 Copynumber: 75.1 Consensus size: 29
36911 AAAGGGATTG
* * *
36921 AAAGGATGCCACTGACTTATAGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
36949 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
36978 AAAGGGTGCCACTGGCTTGTAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * *
37007 AAATGATGTCATTGACTTGTGGGCTTCTGA
1 AAAGGGTGCCACTGACTTGTGGGCTT-TGA
* *
37037 AGAATTGAAATGATGCCACTAACTTG-GAGGCTTTG-
1 A-AA--G----GGTGCCACTGACTTGTG-GGCTTTGA
37072 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
37101 AAAGGGTAG-CACTGGCTTGTGCGTTTTGA
1 AAAGGGT-GCCACTGACTTGTGGGCTTTGA
* ** *
37130 AAAAGGTGCCACTGACTTGT-GAATTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
37158 AAAGAGTGCCACTGACTTGTGGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* *
37188 AATGATTGAAAAGATGCCACTAACTTGTGGGCTTTG-
1 AA--A--G----GGTGCCACTGACTTGTGGGCTTTGA
* * *
37224 AAAGGGTGCCACTAACTTATAGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * *
37254 AAAGATTAAAAAGATGCCATTGACTTATGGGCTTTG-
1 AAAG--------GGTGCCACTGACTTGTGGGCTTTGA
* *
37290 AAAGGGTGCCACTCACTTGTGTGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
** * * * *
37319 AAATAGTGTCATTGGCTTGTAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * *
37348 AAATGGTGCCAATGGCTTGTGGGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
37377 AAAGGGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
**
37406 AAA-GGTGCCACTGACTCATGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
** *
37434 AAAGAATGCCACTAACTTGTGGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * *
37464 AAA-GGTGCTACTAACTTGTAGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
** * *
37491 AAAGGGTGCCGTTGACTTATTGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * *
37520 AAAGGATGCCACTAACTTGTGGGCTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
37549 AAAGAGTGCCATTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
37578 AAATGGTACCACTGACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
37606 AAAAGGTGCCA-TGACTTGTGGG-TTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
37633 AAAGGATGCCACTAACTTGTGGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
*
37663 AAGGATTGAAAGAATGCCACTGACTTGT-GGCTTTTG-
1 AA--A--G---G-GTGCCACTGACTTGTGGGC-TTTGA
* * *
37699 AAATGGTGCCACTAACTTATGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * *
37728 AAATGGTGCCACTGACTTGTGGGTTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
37757 AAAAGGTTCCACT-AGCTT-TCGGGTTTTGA
1 AAAGGGTGCCACTGA-CTTGT-GGGCTTTGA
* * * *
37786 AAAGGGTGCCGCTAATTTGTGGACTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
37814 AAAGGTTGCCACTAACTTGTAGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
37842 AAAGGGTGCCACTGACTTGTGGGCTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
37871 AAAGGGTGCCACTGGCTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
37900 AAAAGGTACCACTAACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
37929 AAA-TGTGCCATTGACTTATGGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* *
37958 AAAGATTGAAAAGATGCCACTAACTTATGGGCTTTG-
1 AAAG---G----G-TGCCACTGACTTGTGGGCTTTGA
*
37994 AAAGGGTGGCACTGACTTGTGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * * * * *
38023 AAAGGGTGTCATTGATTTATAGGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
** * *
38052 AAAGGGTGCCACT-AGCTTACGAGCTTTAA
1 AAAGGGTGCCACTGA-CTTGTGGGCTTTGA
38081 AAAGGGTGCCACTGACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * *
38109 AAAAGGTGCCATTGACTTGTGAGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
** ** *
38138 AAAAAGTGATACT-AGCTTGTGAGCTTTGA
1 AAAGGGTGCCACTGA-CTTGTGGGCTTTGA
* *
38167 AAATGGTGCTACTGACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
38195 AAAGGGTGCCACTAACTTGTGGGCTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
** *
38225 AAA--AAGCCACTGGCTTGTGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * * *
38252 AAAGGCTACCAGTGACTTATGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
38281 AAAGGGTGCCACTGGCTTATGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * * *
38310 AAATGGTACTACTGGCTTGTAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* ** *
38339 AAATGGTGTAACTGACTTGTGGGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
38368 AAAGGGTGCCACTAACTT-TGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38395 AAAGGATACCTCTGACTTGTGGG-TTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38422 AAAGTGTGCCACTAACTCGTGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* * **
38451 AAAGGATGCTACTGACTTGTGACCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
38479 AAAGGGTGCCACTGACTCGCGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38507 AAAAGGTGCTAATGACTTGTGGGCTTTTGAA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTG-A
* *
38538 AGAATTGAAAGGATGCCACTAACTTGTAGGCTTTG-
1 A-AA--G---GG-TGCCACTGACTTGTGGGCTTTGA
* *
38573 AAAGGGTGCCACTAACTTGTGGGGTTTTG-
1 AAAGGGTGCCACTGACTTGT-GGGCTTTGA
** * * *
38602 AAAGTATACCACTAACTTGTGGGCTTTGG
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38631 AAAGGGTACTACTAACTTGTGGGCTTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* ***
38659 AAAGGATGCCACTGACTTGTGAATTTTTG-
1 AAAGGGTGCCACTGACTTGTG-GGCTTTGA
* *
38688 AAAGGGTGCCACTAACTTGTGGG-TTTGC
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
38716 AAAGGGTGCCACTTACTCGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38745 AAAGGGTTCCACTGACTTATAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38774 AAAGGATGCCACTGACTTATGGGCCTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38803 AAAAGGTGCTACTAACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
38832 AAAGGATGCCACTGACTTATGTGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * *
38860 AAAGGATGCCATTAACTTGTAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * * * *
38889 AAA-AGTACTACTGACTCGTGGGGTTTTG-
1 AAAGGGTGCCACTGACTTGT-GGGCTTTGA
* * ** *
38917 AAAGGATGCTACTGACTCATGAGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGA
* *
38946 TAAGGATGCCACTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
*
38974 AAAGGGTGCAACTGACTTGTGGGCTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
39002 AAACGATGCCACTGACTCGTGGGCTTT--
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* * *
39029 AAAGGGTGCCACTAACTAGTGGGATTT-A
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
39057 AAAGGGTTCCACTGACTTGTGGGTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA
**
39085 AAAGGGATGCCACTGACTCATGGGCTTTTGA
1 AAAGGG-TGCCACTGACTTGTGGGC-TTTGA
39116 AA
1 AA
39118 GGGAAAAAGA
Statistics
Matches: 1728, Mismatches: 329, Indels: 221
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.00
27 88 0.05
28 569 0.33
29 871 0.50
30 36 0.02
31 6 0.00
32 7 0.00
33 1 0.00
34 8 0.00
35 2 0.00
36 15 0.01
37 45 0.03
38 77 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGA
Found at i:37120 original size:94 final size:95
Alignment explanation
Indices: 36946--38889 Score: 263
Period size: 86 Copynumber: 22.0 Consensus size: 95
36936 CTTATAGGCT
* * * *
36946 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGGCTTGTAGGCTTTGAAAAT
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
*
37011 GATGTCATTGACTTGTGGGCTTCTGAAGAA
66 GATGTCACTGACTTGTGGGCTTCTGAAGAA
* *
37041 TTGAAATGATGCCACTAACTTG-GAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
1 TTGAAAGGATGCCACTAACTTGTG-GGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAA
* * * *
37104 GGGTAG-CACTGGCTTGTGCG-TT-T--TGAA
65 GGAT-GTCACTGACTTGTGGGCTTCTGAAGAA
* ** * * *
37131 ---AAAGG-TGCCACTGACTTGT-GAATTTTAAAAGAGTGCCACTGACTTGTGGGCTTTTGAAAT
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGC-TTTGAAA-
* *
37191 GATTGAAAAGATGCCACTAACTTGTGGGCTT-TG-A-AA
64 -A--G----GATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * * *
37227 --G---GG-TGCCACTAACTTATAGGCTTTTGAAAAGATTAAAAAGATGCCATTGACTTATGGGC
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAG--------GGTGCCACTGACTTGTAGGC
* * * *
37286 TTTG-AAAGGGTGCCACTCACTTGTGTGCTT-TGAA-AA
57 TTTGAAAAGGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * ** * * * * * *
37322 -T---A-G-TGTCATTGGCTTGTAGGCTTTGAAAATGGTGCCAATGGCTTGTGGGCTTTAAAAAG
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
* *
37381 GGTGCCACTGACTTGTGGGCTT-T---G-A
66 GATGTCACTGACTTGTGGGCTTCTGAAGAA
* ** ** * *
37406 ---AAAGG-TGCCACTGACTCATGGGCTTTTG-AAAGAATGCCACTAACTTGTGGGCTTTTGAAA
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTAGGC-TTTGAAA
* *
37466 AGG-TG-CTACTAACTTGTAGGCTT-TG-A-AA
64 AGGATGTC-ACTGACTTGTGGGCTTCTGAAGAA
** * * * * * * *
37494 --G---GG-TGCCGTTGACTTATTGGCTTTTG-AAAGGATGCCACTAACTTGTGGGCTTTTAAAA
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAA
* *
37552 -GAGTGCCATTGACTTGTGGGCTT-TGAA-AA
65 GGA-TGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * *
37581 -T----GG-TACCACTGACTTGTGGGCTTT-AAAAAGGTGCCA-TGACTTGT-GGGTTTTAAAAG
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
* * * *
37637 GATGCCACTAACTTGTGGGCTTTTGAAAGGA
66 GATGTCACTGACTTGTGGGCTTCTG-AAGAA
* * * * * *
37668 TTGAAAGAATGCCACTGACTTGT-GGCTTTTG-AAATGGTGCCACTAACTTATGGGCTTTTGAAA
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTAGGC-TTTGAAA
* * **
37731 TGG-TGCCACTGACTTGTGGG-TT-T--TTAA
64 AGGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * * *
37758 ---AAAGG-TTCCACTAGCTT-TCGGGTTTTGAAAAGGGTGCCGCTAATTTGT-GGACTTT-AAA
1 TTGAAAGGATGCCACTAACTTGT-GGGCTTTGAAAAGGGTGCCACTGACTTGTAGG-CTTTGAAA
* * * *
37816 AGGTTGCCACTAACTTGTAGGCTT-TG-A-AA
64 AGGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * *
37845 --G---GG-TGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTG-AAAA
** *
37904 GG-TACCACTAACTTGTGGGCTT-TGAA-AA
65 GGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * * *
37932 -T-----G-TGCCATTGACTTATGGGCTTTTGAAAAGATTGAAAAGATGCCACTAACTTATGGGC
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAG---G----G-TGCCACTGACTTGTAGGC
* *
37990 TTTG-AAAGGGTGGCACTGACTTGTGGGC-T-T------
57 TTTGAAAAGGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * * * * * *
38020 TTGAAAGGGTGTCATTGATTTATAGGCTTTAAAAAGGGTGCCACT-AGC-T-TACGAGCTTTAAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGA-CTTGTA-G-GCTTTGAA
* *
38082 AAGGGTGCCACTGACTTGTGGGCTT-T----AA
63 AAGGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * ** **
38110 ---AAAGG-TGCCATTGACTTGTGAGCTTTAAAAAAAGTGATACT-AGCTTGT-GAGCTTTGAAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGA-CTTGTAG-GCTTTGAAA
38169 ATGG-TG-CTACTGACTTGTGGGCTT-T-AA-AA
64 A-GGATGTC-ACTGACTTGTGGGCTTCTGAAGAA
** * *
38198 --G---GG-TGCCACTAACTTGTGGGCTTTTGAAAA--AAGCCACTGGCTTGTGGGCTTTTG-AA
1 TTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTAGGC-TTTGAAA
* ** * *
38254 AGGCTACCAGTGACTTATGGGCTT-TGAA-AA
64 AGGATGTCACTGACTTGTGGGCTTCTGAAGAA
** * * * * *
38284 --G---GG-TGCCACTGGCTTATGGGCTTTGAAAATGGTACTACTGGCTTGTAGGCTTTGAAAAT
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAA-
*
38343 GG-TGTAACTGACTTGTGGGCTT-T----AA
65 GGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * *
38368 ---AAAGGGTGCCACTAACTT-TGGGCTTTG-AAAGGATACCTCTGACTTGT-GGGTTTG-AAAG
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
* * *
38426 TG-TGCCACTAACTCGTGGGC-T-T------
66 -GATGTCACTGACTTGTGGGCTTCTGAAGAA
* * ** * ** *
38448 TTGAAAGGATGCTACTGACTTGTGACCTTTG-AAAGGGTGCCACTGACTCGCGGGCTTTAAAAAG
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
* *
38512 G-TG-CTAATGACTTGTGGGCTTTTGAAAGAA
66 GATGTC-ACTGACTTGTGGGCTTCTG-AAGAA
* * * *
38542 TTGAAAGGATGCCACTAACTTGTAGGCTTTG-AAAGGGTGCCACTAACTTGTGGGGTTTTG-AAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGT-AGGCTTTGAAAA
* ** *
38605 GTATACCACTAACTTGTGGGCTT-T---G--
65 GGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * * ***
38630 --GAAAGGGTACTACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGAATTTTTG-AAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGT-AGGCTTTGAAAA
* * * *
38691 GGGTGCCACTAACTTGTGGG-TT-TGCA-AA
65 GGATGTCACTGACTTGTGGGCTTCTGAAGAA
* * * *
38719 --G---GG-TGCCACTTACTCGTGGGCTTTGAAAAGGGTTCCACTGACTTATAGGCTTTGAAAAG
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
* * *
38778 GATGCCACTGACTTATGGGC--CT--TGAA
66 GATGTCACTGACTTGTGGGCTTCTGAAGAA
* * *
38804 ---AAAGG-TGCTACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTAT-GTGCTTTG-AAA
1 TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAG-GCTTTGAAAA
* * * *
38863 GGATGCCATTAACTTGTAGGCTT-TGAA
65 GGATGTCACTGACTTGTGGGCTTCTGAA
38890 AAAGTACTAC
Statistics
Matches: 1440, Mismatches: 247, Indels: 330
0.71 0.12 0.16
Matches are distributed among these distances:
82 3 0.00
83 33 0.02
84 64 0.04
85 171 0.12
86 518 0.36
87 244 0.17
88 9 0.01
89 3 0.00
90 6 0.00
91 2 0.00
92 5 0.00
93 36 0.03
94 169 0.12
95 131 0.09
96 22 0.02
98 1 0.00
100 1 0.00
102 2 0.00
103 4 0.00
104 16 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (95 bp):
TTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAG
GATGTCACTGACTTGTGGGCTTCTGAAGAA
Found at i:37143 original size:152 final size:151
Alignment explanation
Indices: 36918--37930 Score: 462
Period size: 143 Copynumber: 6.8 Consensus size: 151
36908 TTGAAAGGGA
* * *
36918 TTGAAAGGATGCCACTGACTTATAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
1 TTGAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGCTTTGAAAAA
* ** * *
36982 GGTGCCACTGGCTTGTAGGCTTTGAAAATGA-TGTCATTGACTTGTGGGCTTCTG-AAGAATTGA
66 GGTGCCACTGACTTGT-GAATTTGAAAA-GAGTGCCACTGACTTGTGGGCTTCTGAAAG-ATTGA
*
37045 AATGATGCCACTAACTTG-GAGGCT
128 AAAGATGCCACTAACTTGTG-GGCT
* * * *
37069 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTAG-CACTGGCTTGTGCGTTTTGAAAA
1 TTGAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGT-GCCACTGACTTGTGCGCTTTGAAAA
* *
37133 AGGTGCCACTGACTTGTGAATTTTAAAAGAGTGCCACTGACTTGTGGGCTTTTGAAATGATTGAA
65 AGGTGCCACTGACTTGTGAATTTGAAAAGAGTGCCACTGACTTGTGGGCTTCTGAAA-GATTGAA
37198 AAGATGCCACTAACTTGTGGGCT
129 AAGATGCCACTAACTTGTGGGCT
* * * * *
37221 TTGAAAGGGTGCCACTAACTTATAGGCTTTTGAAAAGATTAAAAAGATGCCATTGACTTATGGGC
1 TTGAAAGGGTGCCACTGACTTATAGGC-TTTGAAAAG--------GGTGCCACTGACTTGTGCGC
* * ** * * * * *
37286 TTTG-AAAGGGTGCCACTCACTTGTGTGCTTTGAAAATAGTGTCATTGGCTTGTAGGCTT-TGAA
57 TTTGAAAAAGGTGCCACTGACTTGTG-AATTTGAAAAGAGTGCCACTGACTTGTGGGCTTCTGAA
* **
37349 A-A-TG----G-TGCCAATGGCTTGTGGGCT
121 AGATTGAAAAGATGCCACTAACTTGTGGGCT
* * * ** *
37373 TTAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTCATGGGCTTTTGAAA
1 TT-GAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGC-TTTGAAA
* ** * * *
37437 GAA--TGCCACTAACTTGTGGGCTTTTGAAAAG-GTGCTACTAACTTGTAGGCTT-TGAAAG---
64 -AAGGTGCCACTGACTTGT--GAATTTGAAAAGAGTGCCACTGACTTGTGGGCTTCTGAAAGATT
** * * *
37495 G----G-TGCCGTTGACTTATTGGCTT
126 GAAAAGATGCCACTAACTTGTGGGC-T
* * * * * * * * *
37517 TTGAAAGGATGCCACTAACTTGTGGGCTTTTAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAT
1 TTGAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGCTTTGAAAAA
* ** * *
37582 GGTACCACTGACTTGTGGGCTTTAAAAAG-GTGCCA-TGACTTGTGGG-TT-TTAAA-A--G---
66 GGTGCCACTGACTTGT-GAATTTGAAAAGAGTGCCACTGACTTGTGGGCTTCTGAAAGATTGAAA
37637 -GATGCCACTAACTTGTGGGCTT
130 AGATGCCACTAACTTGTGGGC-T
* * * * *
37659 TTGAAAGGATTGAAAGAATGCCACTGACTTGT-GGCTTTTG-AAATGGTGCCACTAACTTATGGG
1 TTGAAA-G---G---G--TGCCACTGACTTATAGGC-TTTGAAAAGGGTGCCACTGACTTGTGCG
* ** * *
37722 CTTTTG-AAATGGTGCCACTGACTTGTGGGTTTTTAAAA-AGGTTCCACT-AGCTT-TCGGG-TT
56 C-TTTGAAAAAGGTGCCACTGACTTGT-GAATTTGAAAAGA-GTGCCACTGA-CTTGT-GGGCTT
* * * * *
37782 TTGAAA-A--G----GGTGCCGCTAATTTGTGGACT
116 CTGAAAGATTGAAAAGATGCCACTAACTTGTGGGCT
* * * * * * *
37811 TTAAAAGGTTGCCACTAACTTGTAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTAAAAG
1 TTGAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGCTTTGAAAAA
* ** * *
37875 GGTGCCACTGGCTTGTGGGCTTTGAAAA-AGGTACCACTAACTTGTGGGCTT-TGAAA
66 GGTGCCACTGACTTGT-GAATTTGAAAAGA-GTGCCACTGACTTGTGGGCTTCTGAAA
37931 ATGTGCCATT
Statistics
Matches: 699, Mismatches: 111, Indels: 112
0.76 0.12 0.12
Matches are distributed among these distances:
141 8 0.01
142 34 0.05
143 170 0.24
144 76 0.11
145 10 0.01
146 3 0.00
148 1 0.00
150 53 0.08
151 84 0.12
152 135 0.19
153 56 0.08
157 2 0.00
158 1 0.00
160 25 0.04
161 41 0.06
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (151 bp):
TTGAAAGGGTGCCACTGACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGCTTTGAAAAA
GGTGCCACTGACTTGTGAATTTGAAAAGAGTGCCACTGACTTGTGGGCTTCTGAAAGATTGAAAA
GATGCCACTAACTTGTGGGCT
Found at i:37146 original size:123 final size:123
Alignment explanation
Indices: 36817--37150 Score: 424
Period size: 123 Copynumber: 2.7 Consensus size: 123
36807 CTGGCTCGTG
* * * *
36817 GGCTTTGAAAAGGGTGCCACT-AGCTTGTGGGTTTTAAAAAGGGTGCCACTGACTTATGGGCTTT
1 GGCTTTG-AAAGGGTGCCACTGA-CTTGTGGGCTTTGAAAAGGGTGCCACTGGCTTGT-GGCTTT
** * * * *
36881 GAAAAAGGTGCCACCAACTTATGGGCTTTGAAAGGGATTGAAAGGATGCCACTGACTTATA
63 GAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGAATTGAAAGGATGCCACTAACTTAGA
36942 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGGCTTGTAGGCTTTGA
1 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGGCTTGT-GGCTTTGA
* * * * * *
37007 AAATGATGTCATTGACTTGTGGGCTTCTG-AA-GAATTGAAATGATGCCACTAACTTGGA
65 AAAAGGTGCCACTGACTTGTGGGCTT-TGAAAGGAATTGAAAGGATGCCACTAACTTAGA
*
37065 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTAG-CACTGGCTTGTGCGTTTTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT-GCCACTGGCTTGTG-GCTTTG
37129 AAAAAGGTGCCACTGACTTGTG
64 AAAAAGGTGCCACTGACTTGTG
37151 AATTTTAAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
122 1 0.01
123 99 0.54
124 73 0.40
125 10 0.05
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (123 bp):
GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGGCTTGTGGCTTTGAA
AAAGGTGCCACTGACTTGTGGGCTTTGAAAGGAATTGAAAGGATGCCACTAACTTAGA
Found at i:37233 original size:66 final size:66
Alignment explanation
Indices: 37129--38025 Score: 287
Period size: 57 Copynumber: 14.9 Consensus size: 66
37119 GTGCGTTTTG
* *** * * * *
37129 AAAAAGGTGCCACTGACTTGTGAATTTTAAAAGAGTGCCACTGACTTGTGGGCTTTTGAAATGAT
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37194 T
66 T
* * * *
37195 GAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTATAGGCTTTTGAAAAGAT
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37260 T
66 T
* * * *
37261 AAAAAGATGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTCACTTGTGTGC-TTTG-AAA-A-
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37322 T
66 T
* * * * * * **
37323 ----AG-TGTCATTGGCTTGTAGGCTTTGAAAATGGTGCCAATGGCTTGTGGGC-TTT------A
1 AAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
37376 --
65 TT
* * * * **
37376 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTCATGGGCTTTTG-AAAG--
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37438 -
66 T
* * * *
37438 ----A-ATGCCACTAACTTGTGGGCTTTTGAAAAGGTGCTACTAACTTGTAGGC-TTTG-AAAG-
1 AAAAAGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
37495 --
65 TT
* ** * * *
37495 -----GGTGCCGTTGACTTATTGGCTTTTGAAAGGATGCCACTAACTTGTGGGCTTTT-AAAAG-
1 AAAAAGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
37553 --
65 TT
* * * *
37553 ----AG-TGCCATTGACTTGTGGGCTTTGAAAATGGTACCACTGACTTGTGGGC---T-------
1 AAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
37603 TT
65 TT
* * * * *
37605 AAAAAGGTGCCA-TGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGAT
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37669 T
66 T
* * *
37670 -GAAAGAATGCCACTGACTTGT-GGCTTTTGAAATGGTGCCACTAACTTATGGGCTTTTG--AA-
1 AAAAAG-ATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAG
37730 A-T
64 ATT
* * * * * *
37732 -----GGTGCCACTGACTTGTGGGTTTTTAAAAAGGTTCCACTAGCTT-TCGGG-TTTTGAAAAG
1 AAAAAGATGCCACTGACTTGTGGG-CTTTGAAAGGGTGCCACTAACTTGT-GGGCTTTTGAAAAG
37790 ---
64 ATT
* * * * * * * *
37790 -----GGTGCCGCTAATTTGTGGACTTTAAAAGGTTGCCACTAACTTGTAGGC-TTTG-AAAG--
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37846 -
66 T
* * **
37846 -----GGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTGGCTTGTGGGC-TTT-----G-
1 AAAAAGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGA
37899 --
65 TT
* * * ** * * *
37899 AAAAAGGTACCACTAACTTGTGGGCTTTGAAAATGTGCCATTGACTTATGGGCTTTTGAAAAGAT
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
37964 T
66 T
* * * * *
37965 GAAAAGATGCCACTAACTTATGGGCTTTGAAAGGGTGGCACTGACTTGTGGGCTTTTGAAA
1 AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
38026 GGGTGTCATT
Statistics
Matches: 651, Mismatches: 119, Indels: 122
0.73 0.13 0.14
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 21 0.03
56 36 0.06
57 203 0.31
58 172 0.26
59 3 0.00
62 2 0.00
63 3 0.00
64 8 0.01
65 13 0.02
66 188 0.29
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (66 bp):
AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGAT
T
Found at i:37976 original size:38 final size:37
Alignment explanation
Indices: 37925--37996 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
37915 CTTGTGGGCT
* *
37925 TTGAAAATGTGCCATTGACTTATGGGCTTTTGAAAAGA
1 TTGAAAATGTGCCACTAACTTATGGGC-TTTGAAAAGA
37963 TTGAAAA-GATGCCACTAACTTATGGGCTTTGAAA
1 TTGAAAATG-TGCCACTAACTTATGGGCTTTGAAA
37997 GGGTGGCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 8 0.26
38 23 0.74
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAAAATGTGCCACTAACTTATGGGCTTTGAAAAGA
Found at i:38113 original size:152 final size:152
Alignment explanation
Indices: 37820--38834 Score: 397
Period size: 143 Copynumber: 6.9 Consensus size: 152
37810 TTTAAAAGGT
*
37820 TGCCACTAACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
1 TGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
* * * ** * * * *
37885 GCTTGTGGGCTTTGAAAAAGGTACCACTAACTTGTGGGCTTTGAAAATGTGCCATTGACTTATGG
66 ACTTATAGGCTTTGAAAAAGGTACCACTAACTTACGAGCTTTAAAAAGGTGCCACTGACTTATGG
*
37950 GCTTTTGAAAAGATTGAAAAGA
131 GCTTTTAAAAAGATTGAAAAGA
* * * * *
37972 TGCCACTAACTTATGGGCTTTGAAAGGGTGGCACTGACTTGTGGGCTTTTGAAAGGGTGTCATTG
1 TGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
* * * *
38037 ATTTATAGGCTTT-AAAAAGGGTGCCACTAGCTTACGAGCTTTAAAAAGGGTGCCACTGACTTGT
66 ACTTATAGGCTTTGAAAAA-GGTACCACTAACTTACGAGCTTTAAAAA-GGTGCCACTGACTTAT
38101 GGGC-TTT-AAAA-A--G----G-
129 GGGCTTTTAAAAAGATTGAAAAGA
* * * * ** ** * * * *
38115 TGCCATTGACTTGT-GAGCTTTAAAAAAAGTGATACT-AGCTTGTGAGCTTTGAAAATGGTGCTA
1 TGCCACTAACTTATAG-GCTTT-GAAAGGGTGCCACTGA-CTTGTGGGCTTTTAAAAGGGTGCCA
* * * * ** * * *
38178 CTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAA--AGCCACTGGCT
63 CTGACTTATAGGCTTTGAAAAAGGTACCACTAACTTACGAGC-TTT-AAAAAGGTGCCACTGACT
* * *
38240 TGTGGGC--TT-------TTGAAAGGC
126 TATGGGCTTTTAAAAAGATTGAAAAGA
* * * * * * * * * *
38258 TACCAGTGACTTATGGGCTTTGAAAAGGGTGCCACTGGCTTATGGGCTTTGAAAATGGTACTACT
1 TGCCACTAACTTATAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACT
* * * *** * ** * *
38323 GGCTTGTAGGCTTTGAAAATGGTGTAACTGACTTGTGGGCTTTAAAAAGGGTGCCACTAACTT-T
65 GACTTATAGGCTTTGAAAAAGGTACCACTAACTTACGAGCTTTAAAAA-GGTGCCACTGACTTAT
*
38387 GGGC---T-------TTGAAAGGA
129 GGGCTTTTAAAAAGATTGAAAAGA
* * * * * * * * * * *
38401 TACCTCTGACTTGT-GGGTTTGAAAGTGTGCCACTAACTCGTGGGCTTTTGAAAGGATGCTACTG
1 TGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
* * * * * ** * * * *
38465 ACTTGT-GACCTTTG-AAAGGGTGCCACTGACTCGCGGGCTTTAAAAAGGTGCTAATGACTTGTG
66 ACTTATAG-GCTTTGAAAAAGGTACCACTAACTTACGAGCTTTAAAAAGGTGCCACTGACTTATG
* *
38528 GGCTTTT-GAAAGAATTGAAAGGA
130 GGCTTTTAAAAAG-ATTGAAAAGA
* * * * ** * *
38551 TGCCACTAACTTGTAGGCTTTGAAAGGGTGCCACTAACTTGTGGGGTTTTGAAAGTATACCACTA
1 TGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
* * * * * ** *
38616 ACTTGTGGGCTTTGGAAAGGGTACTACTAACTTGTGGGCTTT-AAAAGGATGCCACTGAC-T-TG
66 ACTTATAGGCTTTGAAAAAGGTACCACTAACTTACGAGCTTTAAAAAGG-TGCCACTGACTTATG
* ** * *
38678 TGAATTT-------TTGAAAGGG
130 GGCTTTTAAAAAGATTGAAAAGA
* * * * * *
38694 TGCCACTAACTTGT-GGGTTTGCAAAGGGTGCCACTTACTCGTGGGCTTTGAAAAGGGTTCCACT
1 TGCCACTAACTTATAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACT
* * * * * * * *
38758 GACTTATAGGCTTTG-AAAAGGATGCCACTGACTTATGGGCCTTGAAAAAGGTGCTACTAACTTG
65 GACTTATAGGCTTTGAAAAAGG-TACCACTAACTTACGAG-CTTTAAAAAGGTGCCACTGACTTA
*
38822 TGGGCTTTGAAAA
128 TGGGCTTTTAAAA
38835 GGATGCCACT
Statistics
Matches: 679, Mismatches: 137, Indels: 96
0.74 0.15 0.11
Matches are distributed among these distances:
138 1 0.00
139 11 0.02
140 33 0.05
141 45 0.07
142 40 0.06
143 199 0.29
144 86 0.13
145 21 0.03
146 5 0.01
148 1 0.00
150 27 0.04
151 69 0.10
152 124 0.18
153 17 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (152 bp):
TGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTG
ACTTATAGGCTTTGAAAAAGGTACCACTAACTTACGAGCTTTAAAAAGGTGCCACTGACTTATGG
GCTTTTAAAAAGATTGAAAAGA
Found at i:38120 original size:181 final size:181
Alignment explanation
Indices: 37782--38135 Score: 442
Period size: 181 Copynumber: 2.0 Consensus size: 181
37772 CTTTCGGGTT
* * * * *
37782 TTGAAAAGGGTGCCGCTAATTTGTGGACTTTAAAAGGTTGCCACTAACTTGTAGGCTTTGAAAGG
1 TTGAAAAGGATGCCACTAACTTATGGACTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAAGG
* * * * ** *
37847 GTGCCACTGACTTGTGGGCTTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAAGGTACCAC
66 GTGCCACTGACTTATAGGCTTTAAAAAGGGTGCCACTAGCTTACGAGCTTTGAAAAAGGTACCAC
* * *
37912 TAACTTGTGGGCTTTGAAAATGTGCCATTGACTTATGGGCTTTTGAAAAGA
131 TAACTTGTGGGCTTTAAAAAGGTGCCATTGACTTATGAGCTTTTGAAAAGA
* * * * *
37963 TTGAAAA-GATGCCACTAACTTATGGGCTTTGAAAGGGTGGCACTGACTTGTGGGCTTTTGAAAG
1 TTGAAAAGGATGCCACTAACTTATGGACTTTAAAAGGGTGCCACTAACTTGTAGGC-TTTGAAAG
* * * *
38027 GGTGTCATTGATTTATAGGCTTTAAAAAGGGTGCCACTAGCTTACGAGCTTT-AAAAAGGGTGCC
65 GGTGCCACTGACTTATAGGCTTTAAAAAGGGTGCCACTAGCTTACGAGCTTTGAAAAA-GGTACC
* *
38091 ACTGACTTGTGGGCTTTAAAAAGGTGCCATTGACTTGTGAGCTTT
129 ACTAACTTGTGGGCTTTAAAAAGGTGCCATTGACTTATGAGCTTT
38136 AAAAAAAGTG
Statistics
Matches: 145, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
180 43 0.30
181 102 0.70
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (181 bp):
TTGAAAAGGATGCCACTAACTTATGGACTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAAGG
GTGCCACTGACTTATAGGCTTTAAAAAGGGTGCCACTAGCTTACGAGCTTTGAAAAAGGTACCAC
TAACTTGTGGGCTTTAAAAAGGTGCCATTGACTTATGAGCTTTTGAAAAGA
Found at i:38497 original size:57 final size:56
Alignment explanation
Indices: 37963--39120 Score: 818
Period size: 57 Copynumber: 20.2 Consensus size: 56
37953 TTTGAAAAGA
* * * * *
37963 TTGAAAAGATGCCACTAACTTATGGGCTTTGAAAGGGTGGCACTGACTTGTGGGCTT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-T
* * * * * * ** *
38020 TTGAAAGGGTGTCATTGATTTATAGGCTTTAAAAAGGGTGCCACT-AGCTTACGAGCT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGA-CTTGTGGGCT
* * * * *
38077 TTAAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCATTGACTTGTGAGCT
1 TT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* ** ** * * *
38134 TTAAAAAAAGTGATACT-AGCTTGTGAGCTTTGAAAATGGTGCTACTGACTTGTGGGCT
1 TT-GAAAGGGTGCCACTGA-CTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
* * *** *
38192 TTAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA-AAAGCCACTGGCTTGTGGGCTT
1 TTGAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTGACTTGTGGGC-T
* * * * * *
38249 TTGAAAGGCTACCAGTGACTTATGGGCTTTGAAAAGGGTGCCACTGGCTTATGGGCT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
* * * * * * **
38306 TTGAAAATGGTACTACTGGCTTGTAGGCTTTGAAAATGGTGTAACTGACTTGTGGGCT
1 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
* * * * *
38364 TTAAAAAGGGTGCCACTAACTT-TGGGCTTTGAAAGGATACCTCTGACTTGTGGG-T
1 TT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * * **
38419 TTGAAAGTGTGCCACTAACTCGTGGGCTTTTGAAAGGATGCTACTGACTTGTGACCT
1 TTGAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * * *
38476 TTGAAAGGGTGCCACTGACTCGCGGGCTTTAAAAAGGTGCTAATGACTTGTGGGCTT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-T
* * * *
38533 TTGAAAGAATTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGGGTGCCACTAACTTGTGGGGT
1 TTG--A-AA--G---GG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT-GGGC
38598 T
56 T
** * * * * *
38599 TTGAAAGTATACCACTAACTTGTGGGCTTTGGAAAGGGTACTACTAACTTGTGGGCT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCT
* * *** *
38656 TTAAAAGGATGCCACTGACTTGTGAATTTTTGAAAGGGTGCCACTAACTTGTGGG-T
1 TTGAAAGGGTGCCACTGACTTGTG-GGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * *
38712 TTGCAAAGGGTGCCACTTACTCGTGGGCTTTGAAAAGGGTTCCACTGACTTATAGGCT
1 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
* * * * * *
38770 TTGAAAAGGATGCCACTGACTTATGGGCCTTGAAAAAGGTGCTACTAACTTGTGGGCT
1 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
* * * * * * *
38828 TTGAAAAGGATGCCACTGACTTATGTGCTTTGAAAGGATGCCATTAACTTGTAGGCT
1 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
** * * * * * * ** *
38885 TTGAAAAAGTACTACTGACTCGTGGGGTTTTGAAAGGATGCTACTGACTCATGAGCTT
1 TTGAAAGGGTGCCACTGACTTGT-GGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-T
* * *
38943 TTGTAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCAACTGACTTGTGGGCT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * * *
38999 TTGAAACGATGCCACTGACTCGTGGGCTTT-AAAGGGTGCCACTAACTAGTGGGAT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * **
39054 TTAAAAGGGTTCCACTGACTTGTGGGTTTTGAAAGGGATGCCACTGACTCATGGGCTT
1 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG-TGCCACTGACTTGTGGGC-T
39112 TTGAAAGGG
1 TTGAAAGGG
39121 AAAAAGATTT
Statistics
Matches: 867, Mismatches: 197, Indels: 73
0.76 0.17 0.06
Matches are distributed among these distances:
54 16 0.02
55 53 0.06
56 135 0.16
57 346 0.40
58 267 0.31
59 1 0.00
60 2 0.00
61 1 0.00
62 1 0.00
63 2 0.00
64 1 0.00
65 2 0.00
66 37 0.04
67 3 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (56 bp):
TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
Found at i:38591 original size:66 final size:66
Alignment explanation
Indices: 38476--38605 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 66
38466 CTTGTGACCT
* * * * *
38476 TTGAAAGGGTGCCACTGACTCGCGGGCTTTAAAAAGGTGCTAATGACTTGTGGGCTTTTGAAAGA
1 TTGAAAGGATGCCACTAACTCGCAGGCTTTAAAAAGGTGCCAATAACTTGTGGGCTTTTGAAAGA
38541 A
66 A
* * * * * *
38542 TTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGGGTGCCACTAACTTGTGGGGTTTTGAAAG
1 TTGAAAGGATGCCACTAACTCGCAGGCTTTAAAAAGGTGCCAATAACTTGTGGGCTTTTGAAAG
38606 TATACCACTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (66 bp):
TTGAAAGGATGCCACTAACTCGCAGGCTTTAAAAAGGTGCCAATAACTTGTGGGCTTTTGAAAGA
A
Found at i:40317 original size:22 final size:24
Alignment explanation
Indices: 40279--40335 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
40269 TTATTCATGT
40279 CCTTGTTTTTTATTTTTGTTGTT-C
1 CCTT-TTTTTTATTTTTGTTGTTGC
*
40303 CCTTTTTTTTA-TTTTGTTTTTGC
1 CCTTTTTTTTATTTTTGTTGTTGC
*
40326 ACTTTTTTTT
1 CCTTTTTTTT
40336 TTCATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 17 0.57
24 4 0.13
ACGTcount: A:0.05, C:0.12, G:0.09, T:0.74
Consensus pattern (24 bp):
CCTTTTTTTTATTTTTGTTGTTGC
Found at i:40337 original size:20 final size:18
Alignment explanation
Indices: 40307--40359 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
40297 TTGTTCCCTT
40307 TTTTTTATTTTGTTTTTGCA
1 TTTTTT-TTTTGTTTTT-CA
*
40327 CTTTTTTTTTTCATTTTTCA
1 -TTTTTTTTTT-GTTTTTCA
40347 TTTTATTTTTTGT
1 TTTT-TTTTTTGT
40360 GCTTTTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 5 0.18
20 12 0.43
21 11 0.39
ACGTcount: A:0.09, C:0.08, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTCA
Found at i:40355 original size:23 final size:23
Alignment explanation
Indices: 40305--40389 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 23
40295 TGTTGTTCCC
*
40305 TTTTTTTT-ATTTTGTTTTTGCACTT
1 TTTTTTTTCATTTTGCTTTTG-A--T
*
40330 TTTTTTTTCATTTTTCATTTT-AT
1 TTTTTTTTCATTTTGC-TTTTGAT
* *
40353 TTTTTGTGC-TTTTGCTTTTGAT
1 TTTTTTTTCATTTTGCTTTTGAT
*
40375 TTTTTTGTCATTTTG
1 TTTTTTTTCATTTTG
40390 AAGTGAACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
21 4 0.08
22 13 0.27
23 13 0.27
25 9 0.19
26 5 0.10
27 4 0.08
ACGTcount: A:0.08, C:0.08, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTTTTTCATTTTGCTTTTGAT
Found at i:45771 original size:15 final size:16
Alignment explanation
Indices: 45746--45775 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45736 AGCTGCTCAT
45746 TTTTGTTCTTTTTTTC
1 TTTTGTTCTTTTTTTC
45762 TTTT-TTCTTTTTTT
1 TTTTGTTCTTTTTTT
45776 TCCATGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTGTTCTTTTTTTC
Found at i:45892 original size:20 final size:20
Alignment explanation
Indices: 45856--45898 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
45846 TCCCATGCTG
* *
45856 TCCACATTTGGTTGCCC-CA
1 TCCACATTTGCTGGCCCTCA
45875 TCCACTATTTGCTGGCCCTCA
1 TCCAC-ATTTGCTGGCCCTCA
45896 TCC
1 TCC
45899 TTTCACGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.14, C:0.40, G:0.14, T:0.33
Consensus pattern (20 bp):
TCCACATTTGCTGGCCCTCA
Found at i:46023 original size:14 final size:16
Alignment explanation
Indices: 46006--46043 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
45996 ATTATTTTTA
*
46006 TTTTGATTTTA-GA-T
1 TTTTGATTTGATGATT
46020 TTTTGATTTGATGATT
1 TTTTGATTTGATGATT
46036 TTTTGATT
1 TTTTGATT
46044 CATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 2 0.10
16 9 0.43
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.66
Consensus pattern (16 bp):
TTTTGATTTGATGATT
Found at i:49599 original size:13 final size:13
Alignment explanation
Indices: 49583--49638 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
49573 ATTTTTTAAA
49583 AATATTTATATTT
1 AATATTTATATTT
*
49596 AATATTAATATTT
1 AATATTTATATTT
49609 AAT-TTATAATATTT
1 AATATT-T-ATATTT
49623 -ATATTTA-ATTAT
1 AATATTTATATT-T
49635 AATA
1 AATA
49639 CAAAAGTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
11 3 0.08
12 4 0.11
13 21 0.58
14 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:52991 original size:5 final size:5
Alignment explanation
Indices: 52981--53028 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
52971 GCAGTAAATT
*
52981 ATATA ATATA A-A-A ATAT- ATATA ATTAAA ATATA ATATA ATATA A-ATA
1 ATATA ATATA ATATA ATATA ATATA A-TATA ATATA ATATA ATATA ATATA
53028 A
1 A
53029 AATTTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
3 2 0.05
4 10 0.27
5 21 0.57
6 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:53024 original size:21 final size:20
Alignment explanation
Indices: 52993--53031 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
52983 ATAATATAAA
*
52993 AATATATATAATTAAAATAT
1 AATATATATAAATAAAATAT
53013 AATATAATATAAATAAAAT
1 AATAT-ATATAAATAAAAT
53032 TTTATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATATATAAATAAAATAT
Found at i:53055 original size:27 final size:26
Alignment explanation
Indices: 53025--53112 Score: 61
Period size: 28 Copynumber: 3.2 Consensus size: 26
53015 TATAATATAA
53025 ATAAAATTTTATTAATAATTTTT-TATT
1 ATAAAATTTTATT--TAATTTTTATATT
*
53052 ATAATAAATAATTATTTAATTTTTATATT
1 AT-A-AAAT-TTTATTTAATTTTTATATT
* * * *
53081 ATTAAATTTAATATTTTATATTTAAATT
1 ATAAAATTT--TATTTAATTTTTATATT
53109 ATAA
1 ATAA
53113 TAATAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 26 0.54
29 10 0.21
30 5 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATAAAATTTTATTTAATTTTTATATT
Found at i:53150 original size:18 final size:19
Alignment explanation
Indices: 53105--53150 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
53095 TTTATATTTA
53105 AATTATAATAATAAAAAAAT
1 AATTA-AATAATAAAAAAAT
*
53125 AATT-AATAAT-ATAAAAT
1 AATTAAATAATAAAAAAAT
*
53142 TATTAAATA
1 AATTAAATA
53151 TTGATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 9 0.39
18 10 0.43
20 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAAATAATAAAAAAAT
Found at i:53697 original size:30 final size:30
Alignment explanation
Indices: 53641--53714 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
53631 AAAATATTTA
***
53641 TTTATTATAATATAAAAATTTTAATAAATT
1 TTTATTATAATATAAAAATAAAAATAAATT
53671 TTTATTTATAATAT-AAAATAAAAAT-AA-T
1 TTTA-TTATAATATAAAAATAAAAATAAATT
* *
53699 ATTAATATAATATAAA
1 TTTATTATAATATAAA
53715 TATATTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 8 0.22
28 6 0.16
29 2 0.05
30 12 0.32
31 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTATTATAATATAAAAATAAAAATAAATT
Found at i:53706 original size:22 final size:25
Alignment explanation
Indices: 53679--53734 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
53669 TTTTTATTTA
53679 TAATATAAAATAAA-A-A-TAATAT
1 TAATATAAAATAAATATATTAATAT
*
53701 TAATATAATATAAATATATTAATAT
1 TAATATAAAATAAATATATTAATAT
*
53726 TTATATAAA
1 TAATATAAA
53735 TTATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.46
23 1 0.04
24 1 0.04
25 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TAATATAAAATAAATATATTAATAT
Found at i:53715 original size:20 final size:20
Alignment explanation
Indices: 53687--53735 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
53677 TATAATATAA
*
53687 AATAAAAATAATATTAATA-T
1 AATATAAAT-ATATTAATATT
53707 AATATAAATATATTAATATT
1 AATATAAATATATTAATATT
*
53727 TATATAAAT
1 AATATAAAT
53736 TATAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATAAATATATTAATATT
Found at i:53776 original size:6 final size:6
Alignment explanation
Indices: 53680--53777 Score: 51
Period size: 6 Copynumber: 16.3 Consensus size: 6
53670 TTTTATTTAT
* * *
53680 AATATA AA-ATA AAAAT- AATATT AATAT- AATATA AATATA TTAATATT
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA --AATATA
* * * * * *
53727 TATATA AATTATA ATTTTAA AATATA ATTAT- AATAAA AAAATA AATATA
1 AATATA AA-TATA AATAT-A AATATA AATATA AATATA AATATA AATATA
53776 AA
1 AA
53778 CTCAGAGACA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
5 17 0.25
6 38 0.55
7 9 0.13
8 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:54216 original size:18 final size:18
Alignment explanation
Indices: 54189--54247 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 18
54179 ATTTTAAATT
54189 TTTTAA-TAAAATAATAA
1 TTTTAATTAAAATAATAA
54206 TTTTAATT-AAAT--TAA
1 TTTTAATTAAAATAATAA
*
54221 TTTAAATTAAAA-AATTAAA
1 TTTTAATTAAAATAA-T-AA
54240 TTTTAATT
1 TTTTAATT
54248 TAATCTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 10 0.29
18 2 0.06
19 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAATTAAAATAATAA
Found at i:55016 original size:19 final size:19
Alignment explanation
Indices: 54953--55021 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
54943 AATAAAATTT
54953 ATTATAATTATTAAA-TAATA
1 ATTATAATT-TTAAATTAA-A
* * *
54973 ATTATAATATTACATTATA
1 ATTATAATTTTAAATTAAA
*
54992 ATTATTATTTTAAATTAAA
1 ATTATAATTTTAAATTAAA
*
55011 ATTATTATTTT
1 ATTATAATTTT
55022 GGAGGAAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 31 0.76
20 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATAATTTTAAATTAAA
Found at i:55080 original size:2 final size:2
Alignment explanation
Indices: 55073--55097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55063 CAAGAAATAC
55073 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
55098 CTTTTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60197 original size:1 final size:1
Alignment explanation
Indices: 60191--60215 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
60181 ATTGCTCTTC
60191 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
60216 CTAATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:62399 original size:2 final size:2
Alignment explanation
Indices: 62392--62421 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62382 ATATGGACAA
62392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62422 TGCAATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70126 original size:52 final size:52
Alignment explanation
Indices: 70046--70165 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
70036 AAAAGTTTCT
* * *
70046 TGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGCAACTTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
70098 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
70150 TGCATGTATCGATACA
1 TGCATGTATCGATACA
70166 AAGATTAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:70178 original size:52 final size:52
Alignment explanation
Indices: 70066--70185 Score: 179
Period size: 52 Copynumber: 2.3 Consensus size: 52
70056 GATACATTTA
* ***
70066 ATAGTGTATCGATACATCTGGGCAACTTTGCCTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGAT
*
70118 ATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGAT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC-AAGAT
70171 -TAGTGTATCGATACA
1 ATAGTGTATCGATACA
70186 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 59 0.97
53 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGAT
Found at i:70192 original size:13 final size:13
Alignment explanation
Indices: 70174--70198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70164 CAAAGATTAG
70174 TGTATCGATACAA
1 TGTATCGATACAA
70187 TGTATCGATACA
1 TGTATCGATACA
70199 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:70285 original size:13 final size:13
Alignment explanation
Indices: 70267--70291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70257 CAAAAAAATA
70267 TGTATCGATACAT
1 TGTATCGATACAT
70280 TGTATCGATACA
1 TGTATCGATACA
70292 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70287 original size:33 final size:33
Alignment explanation
Indices: 70245--70311 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
70235 AGTAGCTTAA
70245 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
70278 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
70311 A
1 A
70312 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:71831 original size:21 final size:22
Alignment explanation
Indices: 71807--71851 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
71797 TTAGGATGCT
*
71807 AAAA-TGATTTTACCTATCAAG
1 AAAACTGATCTTACCTATCAAG
71828 AAAACTGATCTTACCTATCAAG
1 AAAACTGATCTTACCTATCAAG
71850 AA
1 AA
71852 TCATGAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
AAAACTGATCTTACCTATCAAG
Found at i:72110 original size:2 final size:2
Alignment explanation
Indices: 72103--72138 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
72093 AAGTACAGAT
72103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72139 CTTCCAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73278 original size:34 final size:36
Alignment explanation
Indices: 73204--73279 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 36
73194 ATTATATTCA
* * *
73204 AAATATTTTATATTTATATAAATTTTGATATATATT
1 AAATAATTTATATTTATATAAATTTTAAAATATATT
73240 -AATAATTTATA-TTATATAAATTTTAAAATAT-TT
1 AAATAATTTATATTTATATAAATTTTAAAATATATT
73273 AAATAAT
1 AAATAAT
73280 CATATCATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.06
34 24 0.67
35 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
AAATAATTTATATTTATATAAATTTTAAAATATATT
Found at i:73591 original size:12 final size:10
Alignment explanation
Indices: 73551--73601 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
73541 AAAAAATAAC
73551 TATAT-AATA
1 TATATAAATA
*
73560 TAT-TAAAAA
1 TATATAAATA
73569 TATATAAATA
1 TATATAAATA
73579 TATATAGACATA
1 TATATA-A-ATA
73591 TATAATAAATA
1 TAT-ATAAATA
73602 AATTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.03
9 9 0.26
10 11 0.31
11 4 0.11
12 7 0.20
13 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
TATATAAATA
Found at i:73782 original size:2 final size:2
Alignment explanation
Indices: 73775--73815 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
73765 TTAAATTAGG
73775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73816 CACACACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73992 original size:19 final size:20
Alignment explanation
Indices: 73965--74004 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
73955 CAGTACTTTT
73965 TATTAATTATT-TTTTAATA
1 TATTAATTATTATTTTAATA
* *
73984 TATTTATTATTATTTTTATA
1 TATTAATTATTATTTTAATA
74004 T
1 T
74005 GGGTAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTAATTATTATTTTAATA
Found at i:74314 original size:2 final size:2
Alignment explanation
Indices: 74307--74345 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
74297 TAAATTATGG
74307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
74346 TCAAGTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75388 original size:3 final size:3
Alignment explanation
Indices: 75380--75416 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
75370 TTTTAAAATA
75380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
75417 GGCAAAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:78583 original size:14 final size:14
Alignment explanation
Indices: 78564--78604 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
78554 CATTTACAAA
78564 ATATATGTTGTAAT
1 ATATATGTTGTAAT
*
78578 ATATATGTTTTAAT
1 ATATATGTTGTAAT
78592 ATATATGTTGTAA
1 ATATATGTTGTAA
78605 CCTAAGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (14 bp):
ATATATGTTGTAAT
Found at i:79024 original size:20 final size:19
Alignment explanation
Indices: 78995--79043 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
78985 ATTTATTTAC
78995 TATTTATTATATTATTAAAA
1 TATTT-TTATATTATTAAAA
79015 TATTATTTATATTATTAAAA
1 TATT-TTTATATTATTAAAA
79035 TATTTTTAT
1 TATTTTTAT
79044 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.18
20 22 0.79
21 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTATATTATTAAAA
Found at i:79051 original size:17 final size:20
Alignment explanation
Indices: 79001--79053 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
78991 TTACTATTTA
*
79001 TTATATTATTAAAATATTAT
1 TTATATTATAAAAATATTAT
*
79021 TTATATTATTAAAATATT-T
1 TTATATTATAAAAATATTAT
79040 TTAT-TT-TAAAAATA
1 TTATATTATAAAAATA
79054 ATTCGAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 7 0.22
18 2 0.06
19 5 0.16
20 18 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATTATAAAAATATTAT
Found at i:80951 original size:27 final size:30
Alignment explanation
Indices: 80913--80967 Score: 89
Period size: 27 Copynumber: 1.9 Consensus size: 30
80903 TTTTTTTTTC
80913 AAGAATACAAAAA-A-A-AAAAAAAAAAGA
1 AAGAATACAAAAAGAGAGAAAAAAAAAAGA
80940 AAGAATACAAAAAGAGAGAAAAAAAAAA
1 AAGAATACAAAAAGAGAGAAAAAAAAAA
80968 CCAGTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 13 0.52
28 1 0.04
29 1 0.04
30 10 0.40
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.04
Consensus pattern (30 bp):
AAGAATACAAAAAGAGAGAAAAAAAAAAGA
Found at i:80953 original size:15 final size:15
Alignment explanation
Indices: 80913--80959 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
80903 TTTTTTTTTC
80913 AAGAATACAAAAA-A
1 AAGAATACAAAAAGA
*
80927 AA-AA-AAAAAAAGA
1 AAGAATACAAAAAGA
80940 AAGAATACAAAAAGA
1 AAGAATACAAAAAGA
*
80955 GAGAA
1 AAGAA
80960 AAAAAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 4 0.15
15 12 0.44
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (15 bp):
AAGAATACAAAAAGA
Found at i:80966 original size:15 final size:15
Alignment explanation
Indices: 80928--80967 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
80918 TACAAAAAAA
80928 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
80943 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
80958 AAAAAAAAAA
1 AAAAAAAAAA
80968 CCAGTATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:81736 original size:12 final size:11
Alignment explanation
Indices: 81714--81789 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
81704 AGAGAAAGAA
*
81714 GAGAGAGGAGG
1 GAGATAGGAGG
81725 GATGATAGGAGG
1 GA-GATAGGAGG
*
81737 AGAGACAGGA--
1 -GAGATAGGAGG
*
81747 GAGATAGTA--
1 GAGATAGGAGG
81756 GAGATAGGAGG
1 GAGATAGGAGG
81767 GATGATAGGAGG
1 GA-GATAGGAGG
*
81779 AGAGACAGGAG
1 -GAGATAGGAG
81790 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:81746 original size:24 final size:24
Alignment explanation
Indices: 81713--81798 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
81703 AAGAGAAAGA
*
81713 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
81737 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
81755 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
81779 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
81799 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:81765 original size:42 final size:42
Alignment explanation
Indices: 81704--81822 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
81694 TAGCCCTCAA
* *
81704 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
81746 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
81788 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
81823 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:87166 original size:16 final size:16
Alignment explanation
Indices: 87141--87181 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
87131 TAAACTCAAT
*
87141 TAACTTAAATTTGAAA
1 TAACTTAAATATGAAA
*
87157 TAATTTAAATATGAAA
1 TAACTTAAATATGAAA
87173 TAACTTAAA
1 TAACTTAAA
87182 ATTAAAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (16 bp):
TAACTTAAATATGAAA
Found at i:87967 original size:44 final size:44
Alignment explanation
Indices: 87902--87990 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
87892 ATTTATATTC
* *
87902 TTAAACCACAATTCAAGGACCCTAGATTTCAAGTTAATTGTGTT
1 TTAAACCACAATTCAAGGACCCTAGATTTAAAGTTAATTATGTT
* *
87946 TTAAACGACAATTCAATGACCCTAGATTTAAAGTTAATTATGTT
1 TTAAACCACAATTCAAGGACCCTAGATTTAAAGTTAATTATGTT
87990 T
1 T
87991 CTTTTGGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (44 bp):
TTAAACCACAATTCAAGGACCCTAGATTTAAAGTTAATTATGTT
Found at i:89840 original size:81 final size:81
Alignment explanation
Indices: 89700--89856 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
89690 CTTTAAATTT
* * * * ** **
89700 ATTCTTAAAGAAACCAACATAAATAACCTTTCATTTTAAATCAAGGCTATTCGGATACAAACTAA
1 ATTCCTAAAGAAACCAACATAAATAACATTTCATTTGAAATAAAAACTATTCAAATACAAACTAA
*
89765 AAGATAAAAACCTATA
66 AAGACAAAAACCTATA
* * * *
89781 ATTCCTAAAGAAACTAGCATAAATAACATTTCATTTGAAATAAAAACTATTTAAATACAAATTAA
1 ATTCCTAAAGAAACCAACATAAATAACATTTCATTTGAAATAAAAACTATTCAAATACAAACTAA
*
89846 AATACAAAAAC
66 AAGACAAAAAC
89857 TTATTTGGGT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (81 bp):
ATTCCTAAAGAAACCAACATAAATAACATTTCATTTGAAATAAAAACTATTCAAATACAAACTAA
AAGACAAAAACCTATA
Found at i:91234 original size:75 final size:75
Alignment explanation
Indices: 91144--91290 Score: 294
Period size: 75 Copynumber: 2.0 Consensus size: 75
91134 CTTTGCGTGC
91144 TATATTCATATTTAGAATTATGATATAATTAATAATTTATATTATATTTAAATTACATTAATTAT
1 TATATTCATATTTAGAATTATGATATAATTAATAATTTATATTATATTTAAATTACATTAATTAT
91209 AAAAAAATGT
66 AAAAAAATGT
91219 TATATTCATATTTAGAATTATGATATAATTAATAATTTATATTATATTTAAATTACATTAATTAT
1 TATATTCATATTTAGAATTATGATATAATTAATAATTTATATTATATTTAAATTACATTAATTAT
91284 AAAAAAA
66 AAAAAAA
91291 ATGTATAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
TATATTCATATTTAGAATTATGATATAATTAATAATTTATATTATATTTAAATTACATTAATTAT
AAAAAAATGT
Found at i:92166 original size:28 final size:27
Alignment explanation
Indices: 92130--92186 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
92120 TTGAATATAA
* *
92130 AATAAAAATTTAAAATTTATTTAAATTT
1 AATAAAAATATAAAAATTA-TTAAATTT
*
92158 AATAGAAATATAAAAATTATTAAATTT
1 AATAAAAATATAAAAATTATTAAATTT
92185 AA
1 AA
92187 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AATAAAAATATAAAAATTATTAAATTT
Done.