Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004314.1 Hibiscus syriacus cultivar Beakdansim tig00009459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 202148
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:193 original size:27 final size:28
Alignment explanation
Indices: 163--216 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
153 AACTGAACAA
163 TCGCCAAAAAAT-AAACAGATAAAGAAG
1 TCGCCAAAAAATCAAACAGATAAAGAAG
* *
190 TCGCCAAAAAATCAAGCAGATTAAGAA
1 TCGCCAAAAAATCAAACAGATAAAGAA
217 ACTAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.13
Consensus pattern (28 bp):
TCGCCAAAAAATCAAACAGATAAAGAAG
Found at i:2982 original size:65 final size:65
Alignment explanation
Indices: 2883--3009 Score: 245
Period size: 65 Copynumber: 2.0 Consensus size: 65
2873 ATTTCACCAT
*
2883 TATATCTTTTAAAGCAACAACCACAACAACAAACGTGCAATAACCGAGCAAGGAGTCTAGTTCAC
1 TATATATTTTAAAGCAACAACCACAACAACAAACGTGCAATAACCGAGCAAGGAGTCTAGTTCAC
2948 TATATATTTTAAAGCAACAACCACAACAACAAACGTGCAATAACCGAGCAAGGAGTCTAGTT
1 TATATATTTTAAAGCAACAACCACAACAACAAACGTGCAATAACCGAGCAAGGAGTCTAGTT
3010 GCATTAGGAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (65 bp):
TATATATTTTAAAGCAACAACCACAACAACAAACGTGCAATAACCGAGCAAGGAGTCTAGTTCAC
Found at i:3438 original size:19 final size:19
Alignment explanation
Indices: 3411--3479 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
3401 TATGTTAATT
3411 TTTATTATATGTTTTATTAA
1 TTTA-TATATGTTTTATTAA
* *
3431 TTTATATATATATTTACT-A
1 TTTATATATGT-TTTATTAA
* * *
3450 TTTTTTTATGTTTTTATTTAT
1 TTTATATATG-TTTTA-TTAA
3471 TTTATATAT
1 TTTATATAT
3480 ATACATATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
19 18 0.50
20 11 0.31
21 7 0.19
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATATATGTTTTATTAA
Found at i:3475 original size:40 final size:40
Alignment explanation
Indices: 3394--3482 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
3384 ACACACACAC
3394 ATATATATATGTTAATTTTTATTATATGTTTTATTAATTT
1 ATATATATATGTTAATTTTTATTATATGTTTTATTAATTT
* *
3434 ATATATATAT-TTACTATTTT-TT-TATGTTTTTATTTATTTT
1 ATATATATATGTTAAT-TTTTATTATATG-TTTTA-TTAATTT
3474 ATATATATA
1 ATATATATA
3483 CATATTATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
38 4 0.09
39 11 0.25
40 29 0.66
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (40 bp):
ATATATATATGTTAATTTTTATTATATGTTTTATTAATTT
Found at i:3653 original size:21 final size:20
Alignment explanation
Indices: 3613--3674 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
3603 TAGTATTTTA
3613 TTTATTTCATTTGCTTTTATGGAC
1 TTTATTT-ATTT--TTTTAT-GAC
*
3637 TTTATTTATTTTTTTATGTC
1 TTTATTTATTTTTTTATGAC
*
3657 TTTATTTTATTTATTTAT
1 TTTA-TTTATTTTTTTAT
3675 TTTTCTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 18 0.51
23 4 0.11
24 7 0.20
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTATTTATTTTTTTATGAC
Found at i:3674 original size:33 final size:35
Alignment explanation
Indices: 3637--3708 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 35
3627 TTTTATGGAC
* *
3637 TTTATTTATT-TTTTTATGTCTTTA-TTTTATTT-A
1 TTTATTT-TTCTTTTCATCTCTTTATTTTTATTTAA
*
3670 TTTATTTTTCTTTTCGTCTCTTTATTTTTATTTAA
1 TTTATTTTTCTTTTCATCTCTTTATTTTTATTTAA
3705 TTTA
1 TTTA
3709 CTTGTTATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 2 0.06
33 18 0.55
34 8 0.24
35 5 0.15
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.74
Consensus pattern (35 bp):
TTTATTTTTCTTTTCATCTCTTTATTTTTATTTAA
Found at i:8861 original size:73 final size:71
Alignment explanation
Indices: 8685--8893 Score: 242
Period size: 72 Copynumber: 2.9 Consensus size: 71
8675 CTTGAGACTA
* * * * *
8685 TTTTACTCGAAAGAAGATTTATTTCACTCAAGTTTGCTTTGT-TTAAAATAGACTTTGACTCACC
1 TTTTACTCGAAAGAAGATTTATTTCACTCAAGATTG-TTTCTCTTAAAACAGACTTTGTCTC-TC
*
8749 TGAGACTG
64 TGAGACCG
* * *
8757 TTTTACTCGAAAGAAGATTTATTCCACTCAAGATTGTTTTTCTTAAAACCAGA-TTTGTCTCTGT
1 TTTTACTCGAAAGAAGATTTATTTCACTCAAGATTGTTTCTCTTAAAA-CAGACTTTGTCTCTCT
8821 AGAGACCG
65 -GAGACCG
* * * *
8829 TTTTCACTCGAAAGAAGATTTATTTCAGTCAAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCT
1 TTTT-ACTCGAAAGAAGATTTATTTCACTCAAGATTGTTTCTCTTAAAACAGACTTTGTCTCTCT
8894 TGAAACAAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
71 5 0.04
72 60 0.51
73 53 0.45
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (71 bp):
TTTTACTCGAAAGAAGATTTATTTCACTCAAGATTGTTTCTCTTAAAACAGACTTTGTCTCTCTG
AGACCG
Found at i:8917 original size:21 final size:21
Alignment explanation
Indices: 8863--8911 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
8853 TCAGTCAAGA
*
8863 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
8884 TTGTCTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
8905 TTGTCTC
1 TTGTCTC
8912 CATTGAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.47
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:9025 original size:63 final size:63
Alignment explanation
Indices: 8944--9063 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
8934 ACTAAGTTTC
*
8944 GTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC-ATTTCCCTTGAAATGAATT
1 GTCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCATTG-AAACTATTTCCCTTGAAATGAATT
* * *
9007 GTCTTTCTTAAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTATTTCCCTTGAAA
1 GTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCCCTTGAAA
9064 CAAATTTCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
62 6 0.12
63 45 0.88
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (63 bp):
GTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCCCTTGAAATGAATT
Found at i:9149 original size:36 final size:36
Alignment explanation
Indices: 9051--9170 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 36
9041 CTTTGAATCT
* *
9051 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ** * **
9087 TTTTCTTTTG-GA-AGTTTTTGTCTCTCTTGAGACA
1 ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
9121 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
9157 ATTTCCCTTAAAAC
1 ATTTCCCTTGAAAC
9171 TTCAATCTTT
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
34 26 0.39
35 2 0.03
36 38 0.58
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:10413 original size:40 final size:39
Alignment explanation
Indices: 10369--10455 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 39
10359 ACACACACAC
10369 ATATATATGTTA-ATTTTCATTATCTGTTTTA-TTAATTTAT
1 ATATATAT-TTACATTTT-ATTATCT-TTTTATTTAATTTAT
* * *
10409 ATATATATTTACTATTTTTTTATGTTTTTATTTATTTTAT
1 ATATATATTTAC-ATTTTATTATCTTTTTATTTAATTTAT
10449 ATATATA
1 ATATATA
10456 CATATTATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 8 0.20
40 28 0.68
41 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (39 bp):
ATATATATTTACATTTTATTATCTTTTTATTTAATTTAT
Found at i:24700 original size:19 final size:19
Alignment explanation
Indices: 24676--24716 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
24666 ACTTCCAAGG
24676 CAAATACTAATTTGGTTAA
1 CAAATACTAATTTGGTTAA
24695 CAAATACTAATTTGGTTAA
1 CAAATACTAATTTGGTTAA
24714 CAA
1 CAA
24717 GAGAGGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (19 bp):
CAAATACTAATTTGGTTAA
Found at i:32754 original size:35 final size:34
Alignment explanation
Indices: 32669--32755 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
32659 AATATAATTT
*
32669 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
32703 TAAATAATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
32741 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
32756 ACCAAATACA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:32790 original size:34 final size:31
Alignment explanation
Indices: 32750--32832 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 31
32740 GTAATAAACA
* *
32750 AAATTAACCAAATACATTAACAAAAAATCCAAC
1 AAATTAACAAAATAAATT--CAAAAAATCCAAC
*
32783 AATATTAACAAAATAAATTTAAAAAATCCAACC
1 AA-ATTAACAAAATAAATTCAAAAAATCCAA-C
32816 AAATTAACAAAAATAAA
1 AAATTAAC-AAAATAAA
32833 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 17 0.39
33 13 0.30
34 14 0.32
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (31 bp):
AAATTAACAAAATAAATTCAAAAAATCCAAC
Found at i:32812 original size:32 final size:33
Alignment explanation
Indices: 32771--32832 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
32761 ATACATTAAC
32771 AAAAAATCCAA-CAATATTAAC-AAAATAAATTT
1 AAAAAATCCAACCAA-ATTAACAAAAATAAATTT
32803 AAAAAATCCAACCAAATTAACAAAAATAAA
1 AAAAAATCCAACCAAATTAACAAAAATAAA
32833 GTAAGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (33 bp):
AAAAAATCCAACCAAATTAACAAAAATAAATTT
Found at i:32864 original size:11 final size:11
Alignment explanation
Indices: 32848--32873 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32838 TATTAACTGA
32848 AAAATAATAAT
1 AAAATAATAAT
32859 AAAATAATAAT
1 AAAATAATAAT
32870 AAAA
1 AAAA
32874 ATAGTCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:36929 original size:21 final size:18
Alignment explanation
Indices: 36901--36939 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
36891 ACTCAATCTG
36901 TAAATGATCTGACATATTAT
1 TAAATGATCT--CATATTAT
36921 TAAAGTGATCTCATATTAT
1 TAAA-TGATCTCATATTAT
36940 CATGACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
TAAATGATCTCATATTAT
Found at i:37061 original size:18 final size:17
Alignment explanation
Indices: 37034--37069 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
37024 TACTTTTTGA
*
37034 AATTTAATTTTTATATT
1 AATTTAATTTGTATATT
37051 AATTATAATTTGTATATT
1 AATT-TAATTTGTATATT
37069 A
1 A
37070 TAAATTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATTTAATTTGTATATT
Found at i:37893 original size:23 final size:23
Alignment explanation
Indices: 37851--37894 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37841 CATATTAGGT
**
37851 AACGCTTATATAATGTAATAGAC
1 AACGCTTATATAATAAAATAGAC
37874 AACGCTTATATAATAAAATAG
1 AACGCTTATATAATAAAATAG
37895 GTATTTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (23 bp):
AACGCTTATATAATAAAATAGAC
Found at i:38414 original size:182 final size:182
Alignment explanation
Indices: 38107--40531 Score: 3707
Period size: 182 Copynumber: 13.4 Consensus size: 182
38097 TGCGTTCACC
** * *
38107 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38172 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTTCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
38236 ATACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
38289 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA-ACTGTTATATTCTTATGGATCGATACAT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACA-TGTTATATTGTTATGGATCGATACAT
* * *
38353 TTTTATAAAGTATCGACACTTTATTTGCTCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCG
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
38418 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
38471 TTTTGTCATTTCTAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38536 TTTATAAAGTATCGATACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
38600 TA-TGTATAATAAATTATTGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
38652 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38717 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
38782 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
38834 TTTTGTTATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38899 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTTCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
38961 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
39014 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39079 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
39144 TACTTATAATAAATTATCGACATTTTCAACATAACCGGTAGTGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
39196 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39261 TTTATAAAGTATCGACA-TGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTC
66 TTTATAAAGTATCGACACT-TTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTC
* * * * *
39322 GATACTGATAATAAAGTT-TCGACACTTTCAATATATCCGGTAGCGTTTTACCGG
129 GATACTTATAATAAA-TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
** * * ** * *
39376 TTTCATCATTTTGATACAAGTTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39441 TTT-TGAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCG
66 TTTAT-AAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
39504 ATA-TGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
39557 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39622 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
39687 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
39739 TTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39804 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
39866 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
39919 TTTTGTCATGTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
39984 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTCAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
40049 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
40101 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
40166 TTTATAAAGTATCGACA-TGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTC
66 TTTATAAAGTATCGACACT-TTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTC
* * * * * *
40227 GATACTGATAATAAAGTT-TCGACACTTTCAATATATCCGATAGCGTTTTACCGG
129 GATACTTATAATAAA-TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
** * * ** * * * * * * *
40281 TTTCATCATTTTGATACAAGTTTTATCATATTTTTACCTGATATATCGTTGTTGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
40346 TTT-TGAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATT--AACGAAGTGT
66 TTTAT-AAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAA--AAGTGT
* * * * * ** * *
40408 CGATCCTTATATTAAAGTA-CTGACACTTTAAATATATTCGGTACCGCTTTACCGG
128 CGATACTTATAATAAATTATC-GACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * * * * * *
40463 TTTTATCATTTCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
40528 TTTA
66 TTTA
40532 ATTTGAATCG
Statistics
Matches: 2076, Mismatches: 127, Indels: 79
0.91 0.06 0.03
Matches are distributed among these distances:
178 4 0.00
179 26 0.01
180 626 0.30
181 322 0.16
182 1088 0.52
183 10 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:39863 original size:905 final size:905
Alignment explanation
Indices: 38107--40531 Score: 4082
Period size: 905 Copynumber: 2.7 Consensus size: 905
38097 TGCGTTCACC
** * * * *
38107 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
*
38172 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTTCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* * * *
38236 ATACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTC
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTC
* *
38301 GAGACCGGTTTTGTCATATTTTTA-ACTGTTATATTCTTATGGATCGATACATTTTTATAAAGTA
195 GAGACCGGTTTTGTCATATTTTTACA-TATTATATTGTTATGGATCGATACATTTTTATAAAGTA
* * * *
38365 TCGACACT-TTATTTGCTCTATAACTTATTCTCTT-TTAAATTCCAAAAGTGTCGATACTTATAA
259 TCGACA-TGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCGATACTGATAA
* * * * ** * **
38428 TAAA-TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCT-AGACCGG
320 TAAAGTT-TCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTT-TGATACAAG
* * *
38491 TTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTAT-AAAGTATCGATACT
383 TTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTT-TGAAAGTATCGACACT
*
38555 TTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGATATGTATAATAAATTATTGA
447 TTATTGGCGCTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGATATGTATAATAAATTATCGA
38620 CACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTT
512 CACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTT
38685 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATA
577 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATA
38750 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATA
642 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATA
*
38815 ACCGGTAGCGCTTTACATGTTTTGTTATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATAT
707 ACCGGTAGCGCTTTACATGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATAT
38880 TGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTA
772 TGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTA
*
38945 TTAATTTCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
837 TTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTA
39010 CCTG
902 CCTG
39014 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
39079 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
39144 TACTTATAATAAATTATCGACATTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
39209 AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
196 AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
39274 GACATGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTGATAATAAAGT
261 GACATGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTGATAATAAAGT
39339 TTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACAAGTTTTATCA
326 TTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACAAGTTTTATCA
39404 TATTTTTACATATTATATTGTTATGGATCGATACATTTTTTGAAAGTATCGACACTTTATTGGCG
391 TATTTTTACATATTATATTGTTATGGATCGATACATTTTTTGAAAGTATCGACACTTTATTGGCG
39469 CTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGATATGTATAATAAATTATCGACACTTTCAA
456 CTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGATATGTATAATAAATTATCGACACTTTCAA
39534 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTT
521 CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTT
*
39599 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCT
586 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCT
39664 CTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
651 CTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
39729 GCTTTACATGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGA
716 GCTTTACATGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGA
39794 TCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCA
781 TCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCA
39859 AAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
846 AAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
39919 TTTTGTCATGTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
*
39984 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTCAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
40049 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
40114 AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
196 AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
40179 GACATGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTGATAATAAAGT
261 GACATGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTGATAATAAAGT
*
40244 TTCGACACTTTCAATATATCCGATAGCGTTTTACCGGTTTCATCATTTTGATACAAGTTTTATCA
326 TTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACAAGTTTTATCA
* * * * * *
40309 TATTTTTACCTGA-TATATCGTTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTATAGGC
391 TATTTTTACAT-ATTATATTGTTATGGATCGATACATTTTTTGAAAGTATCGACACTTTATTGGC
* * * *
40373 GCTAAAACTGCTTCTCTTTTAAATT--AACGAAGTGTCGATCCT-TATATTAAAGTA-CTGACAC
455 GCTATAACT-CTTCTCTTTTAAATTCCAA--AAGTGTCGAT-ATGTATAATAAATTATC-GACAC
* * ** * * * * * * *
40434 TTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACTGGTTTTGTCATAGTTTTA
515 TTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA
* *
40499 CCTGTTATATCGTTGTGGATCGATACATTTTTA
580 CCTGTTATATTGTTATGGATCGATACATTTTTA
40532 ATTTGAATCG
Statistics
Matches: 1443, Mismatches: 62, Indels: 27
0.94 0.04 0.02
Matches are distributed among these distances:
904 4 0.00
905 1026 0.71
906 131 0.09
907 279 0.19
908 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (905 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
GACATGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTGATAATAAAGT
TTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACAAGTTTTATCA
TATTTTTACATATTATATTGTTATGGATCGATACATTTTTTGAAAGTATCGACACTTTATTGGCG
CTATAACTCTTCTCTTTTAAATTCCAAAAGTGTCGATATGTATAATAAATTATCGACACTTTCAA
CATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTT
ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCT
CTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGC
GCTTTACATGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGA
TCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCA
AAAGTCGATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:40544 original size:362 final size:362
Alignment explanation
Indices: 38107--40531 Score: 3677
Period size: 362 Copynumber: 6.7 Consensus size: 362
38097 TGCGTTCACC
** * *
38107 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38172 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTTCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCAAAAGTGTCGA
* *
38237 TACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTCG
130 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* *
38302 AGACCGGTTTTGTCATATTTTTAACTGTTATATTCTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
* * *
38367 GACACTTTATTTGCTCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
260 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-GTCGATACTTATAATAAA
38432 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
324 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
38471 TTTTGTCATTTCTAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38536 TTTATAAAGTATCGATACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGA
*
38600 TA-TGTATAATAAATTATTGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
130 TACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
38664 GAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
194 GAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
*
38729 CGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
259 CGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-GTCGATACTTATAATAA
*
38794 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
323 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
38834 TTTTGTTATTTCAAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
38899 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTTCAAAA--GTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCAAAAGTGTCGA
38962 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
130 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
*
39027 AGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
39092 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
260 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-GTCGATACTTATAATAAA
* * *
39157 TTATCGACATTTTCAACATAACCGGTAGTGTTTTACCTG
324 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
39196 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39261 TTTATAAAGTATCGACA-TGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTC
66 TTTATAAAGTATCGACACT-TTATTGGCGCTATAACTTCTTCTCTT-TTAAATT-CAAAAGTGTC
* * * * * **
39322 GATACTGATAATAAAGTT-TCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATT
128 GATACTTATAATAAA-TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATT
* * ** * * *
39386 TTGATACAAGTTTTATCATATTTTTACATATTATATTGTTATGGATCGATACATTTTT-TGAAAG
192 TCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTAT-AAAG
39450 TATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATA-TGTATA
256 TATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-GTCGATACT-TATA
39513 ATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
319 ATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
39557 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
39622 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGA
* *
39687 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCA
130 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
*
39752 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
39817 GACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA-GTCGATACTTATAATAAA
260 GACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGGTCGATACTTATAATAAA
39880 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
324 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
39919 TTTTGTCATGTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
39984 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTCAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGA
* *
40049 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGTGTTTTACCTGTTTTGTCATTTCG
130 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* *
40114 AGACCGGTTTTGTCATATTTTTACATATTATATTGTTATGGATCGATACATTTTTATAAAGTATC
195 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
*
40179 GACA-TGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA-GTCGATACTGATAATAA
260 GACACT-TTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGGTCGATACTTATAATAA
* * * * *
40241 AGTT-TCGACACTTTCAATATATCCGATAGCGTTTTACCGG
323 A-TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
** * * ** * * * * * * *
40281 TTTCATCATTTTGATACAAGTTTTATCATATTTTTACCTGATATATCGTTGTTGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
40346 TTT-TGAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATT-AACGAAGTGTC
66 TTTAT-AAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAA--AAGTGTC
* * * * * ** * * *
40409 GATCCTTATATTAAAGTA-CTGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATT
128 GATACTTATAATAAATTATC-GACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATT
* * * * * *
40473 TCAATACTGGTTTTGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTA
192 TCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTA
40532 ATTTGAATCG
Statistics
Matches: 1917, Mismatches: 119, Indels: 52
0.92 0.06 0.02
Matches are distributed among these distances:
360 5 0.00
361 200 0.10
362 1091 0.57
363 483 0.25
364 130 0.07
365 8 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (362 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAGTGTCGAT
ACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGGTCGATACTTATAATAAATT
ATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:40880 original size:31 final size:30
Alignment explanation
Indices: 40842--41026 Score: 135
Period size: 31 Copynumber: 5.8 Consensus size: 30
40832 TATAATTTGT
40842 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGT-TATAA
*
40873 AATTAATATTAATATAAATTATATGTTAT-A
1 AATTAATATTAATATAAAATATA-GTTATAA
* * *
40903 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAAATATAGTT-ATAA
40939 AATTAATATTAATAT--AATATAGTTTATAA
1 AATTAATATTAATATAAAATATAG-TTATAA
*
40968 ACTATATACTATATTAATATAAATTATAGTTA-AGA
1 A--AT-TA--ATATTAATATAAAATATAGTTATA-A
* *
41003 TAATTAACATTAATATAAACTATA
1 -AATTAATATTAATATAAAATATA
41027 TAGTACATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
29 10 0.08
30 8 0.06
31 49 0.39
32 5 0.04
33 6 0.05
34 17 0.13
35 19 0.15
36 12 0.10
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAGTTATAA
Found at i:40922 original size:14 final size:14
Alignment explanation
Indices: 40905--40966 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
40895 ATGTTATAAA
*
40905 TTATATAGTATAGT
1 TTATATAATATAGT
40919 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
40933 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
40948 TAATATAATATAGT
1 TTATATAATATAGT
40962 TTATA
1 TTATA
40967 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:40952 original size:15 final size:15
Alignment explanation
Indices: 40932--41020 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 15
40922 TAAACTATAG
40932 TTAATATAATTAATA
1 TTAATATAATTAATA
*
40947 TTAATATAATATAGTTTA
1 TTAATATAAT-TA--ATA
* *
40965 TAAACTATATACT-ATA
1 TTAA-TATA-ATTAATA
40981 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
* *
40996 GTTAAGATAATTAACA
1 -TTAATATAATTAATA
41012 TTAATATAA
1 TTAATATAA
41021 ACTATATAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
15 30 0.53
16 16 0.28
18 5 0.09
19 5 0.09
20 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:41006 original size:65 final size:64
Alignment explanation
Indices: 40813--41020 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
40803 TTTTTTACTT
* * *
40813 ATATTAATATAATATAGTTTATAATTTGTA-ATTAATATTAATATAAAATATAGTCTATAA-AAT
1 ATATTAATATAATATAGTTTATAAATTATATACT-ATATTAATATAAAATATAGT-TA-AATAAT
40876 TA
63 TA
* *
40878 ATATTAATATAAATTATA-TGTTATAAATTATATAGTATAGTT--TATAAACTATAGTTAATATA
1 ATATTAATAT-AA-TATAGT-TTATAAATTATATACTATA-TTAATATAAAATATAGTTAA-ATA
40940 ATTA
61 ATTA
* *
40944 ATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAATTATAGTTAAGATAATTA
1 ATATTAATATAATATAGTTTATAAATTATATACTATATTAATATAAAATATAGTTAA-ATAATTA
*
41009 ACATTAATATAA
1 ATATTAATATAA
41021 ACTATATAGT
Statistics
Matches: 124, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
63 2 0.02
64 22 0.18
65 49 0.40
66 30 0.24
67 17 0.14
68 4 0.03
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (64 bp):
ATATTAATATAATATAGTTTATAAATTATATACTATATTAATATAAAATATAGTTAAATAATTA
Found at i:41034 original size:22 final size:22
Alignment explanation
Indices: 41009--41111 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
40999 AAGATAATTA
41009 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
41031 ACATTAATATAAAC--TATAGT
1 ACATTAATATAAACTATATAGT
** * * *
41051 TTATAAATTATATACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* *
41073 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
*
41095 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
41112 TGTTTATAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 10 0.15
21 22 0.34
22 28 0.43
23 5 0.08
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:41067 original size:21 final size:21
Alignment explanation
Indices: 41038--41090 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
41028 AGTACATTAA
* *
41038 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
41059 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
41080 TATAAACTATA
1 TATAAACTATA
41091 TAGTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:41126 original size:21 final size:20
Alignment explanation
Indices: 41036--41127 Score: 78
Period size: 21 Copynumber: 4.3 Consensus size: 20
41026 ATAGTACATT
41036 AATATAAACTATAGTTTATA
1 AATATAAACTATAGTTTATA
* *
41056 AATTATATACTATAGGTTATA
1 AA-TATAAACTATAGTTTATA
* *
41077 AAGTATAAACTATA-TAGTACA
1 AA-TATAAACTATAGT-TTATA
*
41098 CTAATATAAACTATTGTTTATA
1 --AATATAAACTATAGTTTATA
41120 AACTATAA
1 AA-TATAA
41128 GTTACAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
20 4 0.07
21 36 0.64
22 13 0.23
23 3 0.05
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATAAACTATAGTTTATA
Found at i:41232 original size:13 final size:15
Alignment explanation
Indices: 41202--41241 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
41192 ATATATACAC
41202 ATATATATAGGCTAT
1 ATATATATAGGCTAT
**
41217 ATATATATAGTTTAT
1 ATATATATAGGCTAT
41232 ATATACTATA
1 ATATA-TATA
41242 CATAGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (15 bp):
ATATATATAGGCTAT
Found at i:41246 original size:20 final size:20
Alignment explanation
Indices: 41214--41257 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
41204 ATATATAGGC
*
41214 TATA-TATATATAGTTTATA
1 TATACTATACATAGTTTATA
41233 TATACTATACATAGTTTATA
1 TATACTATACATAGTTTATA
*
41253 CATAC
1 TATAC
41258 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACTATACATAGTTTATA
Found at i:41439 original size:31 final size:30
Alignment explanation
Indices: 41397--41581 Score: 126
Period size: 31 Copynumber: 5.8 Consensus size: 30
41387 TATAATTTGT
*
41397 AATTAAAATTAATATAAAATATAGTATATAA
1 AATTAATATTAATATAAAATATAGT-TATAA
*
41428 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAAATATA-GTTATAA
* * *
41458 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAAATATAGTT-ATAA
41494 AATTAATATTAATAT--AATATAGTTTATAA
1 AATTAATATTAATATAAAATATAG-TTATAA
*
41523 ACTATATACTATATTAATATAAATTATAGTTA-AGA
1 A--AT-TA--ATATTAATATAAAATATAGTTATA-A
* *
41558 TAATTAACATTAATATAAACTATA
1 -AATTAATATTAATATAAAATATA
41582 TAGTACATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
29 10 0.08
30 8 0.06
31 48 0.38
32 5 0.04
33 6 0.05
34 17 0.13
35 20 0.16
36 12 0.10
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAGTTATAA
Found at i:41477 original size:14 final size:14
Alignment explanation
Indices: 41460--41521 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
41450 ATGTTATAAA
*
41460 TTATATAGTATAGT
1 TTATATAATATAGT
41474 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
41488 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
41503 TAATATAATATAGT
1 TTATATAATATAGT
41517 TTATA
1 TTATA
41522 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:41486 original size:66 final size:64
Alignment explanation
Indices: 41409--41616 Score: 212
Period size: 66 Copynumber: 3.2 Consensus size: 64
41399 TTAAAATTAA
* *
41409 TATAAAATATAGTATATAAAATTAATATTAATATAAACTATATGTTATAAATTATATAGTATAGT
1 TATAAATTATAGT-TATAAAATTAATATTAATATAAACTATATGTTATAAA-TATATACTATAGT
41474 T
64 T
* *
41475 TATAAACTATAGTTAATATAATTAATATTAATAT-AA-TATA-GTTTATAAACTATATACTATA-
1 TATAAATTATAGTT-ATAAAATTAATATTAATATAAACTATATG-TTATAAA-TATATACTATAG
41536 TT
63 TT
* * *
41538 AATATAAATTATAGTTA-AGATAATTAACATTAATATAAACTATATAGTACATTAATATA-ACTA
1 --TATAAATTATAGTTATA-A-AATTAATATTAATATAAACTATAT-GT-TATAAATATATACTA
41601 TAGTT
60 TAGTT
41606 TATAAATTATA
1 TATAAATTATA
41617 TACTATATAT
Statistics
Matches: 121, Mismatches: 9, Indels: 24
0.79 0.06 0.16
Matches are distributed among these distances:
63 4 0.03
64 22 0.18
65 30 0.25
66 43 0.36
67 10 0.08
68 7 0.06
69 5 0.04
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (64 bp):
TATAAATTATAGTTATAAAATTAATATTAATATAAACTATATGTTATAAATATATACTATAGTT
Found at i:41507 original size:15 final size:15
Alignment explanation
Indices: 41487--41575 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 15
41477 TAAACTATAG
41487 TTAATATAATTAATA
1 TTAATATAATTAATA
*
41502 TTAATATAATATAGTTTA
1 TTAATATAAT-TA--ATA
* *
41520 TAAACTATATACT-ATA
1 TTAA-TATA-ATTAATA
41536 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
* *
41551 GTTAAGATAATTAACA
1 -TTAATATAATTAATA
41567 TTAATATAA
1 TTAATATAA
41576 ACTATATAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
15 30 0.53
16 16 0.28
18 5 0.09
19 5 0.09
20 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:41516 original size:131 final size:131
Alignment explanation
Indices: 41375--41616 Score: 305
Period size: 131 Copynumber: 1.8 Consensus size: 131
41365 TGTTATAGGC
** * * *
41375 TATAATATAGTTTATAATTTGTA-ATTAAAATTAATATAAAATATAGTATATA-A-AATTAATAT
1 TATAATATAGTTTATAAACTATATACT-AAATTAATATAAAATATAGT-TA-AGATAATTAACAT
* *
41437 TAATATAAACTATAT-GT-TATAAATTATATAGTATAGTTTATAAACTATAGTTAATATAATTAA
63 TAATATAAACTATATAGTACATAAA-TATA-ACTATAGTTTATAAACTATAGTTAATATAATTAA
41500 TATTAA
126 TATTAA
* *
41506 TATAATATAGTTTATAAACTATATACTATATTAATATAAATTATAGTTAAGATAATTAACATTAA
1 TATAATATAGTTTATAAACTATATACTAAATTAATATAAAATATAGTTAAGATAATTAACATTAA
* *
41571 TATAAACTATATAGTACATTAATATAACTATAGTTTATAAATTATA
66 TATAAACTATATAGTACATAAATATAACTATAGTTTATAAACTATA
41617 TACTATATAT
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
129 1 0.01
130 3 0.03
131 79 0.83
132 8 0.08
133 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (131 bp):
TATAATATAGTTTATAAACTATATACTAAATTAATATAAAATATAGTTAAGATAATTAACATTAA
TATAAACTATATAGTACATAAATATAACTATAGTTTATAAACTATAGTTAATATAATTAATATTA
A
Found at i:41604 original size:19 final size:21
Alignment explanation
Indices: 41564--41604 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
41554 AAGATAATTA
41564 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
41586 ACATTAATAT-AAC-TATAGT
1 ACATTAATATAAACATATAGT
41605 TTATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:41621 original size:21 final size:21
Alignment explanation
Indices: 41592--41651 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
41582 TAGTACATTA
*
41592 ATATAACTATAGT-TTATAAATT
1 ATAT-ACTATA-TATTATAAAGT
41614 ATATACTATATATTATAAAGT
1 ATATACTATATATTATAAAGT
* *
41635 ATAAACTATATAGTATA
1 ATATACTATATATTATA
41652 CCAATATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATATACTATATATTATAAAGT
Found at i:41623 original size:14 final size:14
Alignment explanation
Indices: 41606--41651 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
41596 AACTATAGTT
*
41606 TATAAATTATATAC
1 TATAAATTATATAG
* *
41620 TATATATTATAAAG
1 TATAAATTATATAG
*
41634 TATAAACTATATAG
1 TATAAATTATATAG
41648 TATA
1 TATA
41652 CCAATATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (14 bp):
TATAAATTATATAG
Found at i:41693 original size:13 final size:13
Alignment explanation
Indices: 41671--41700 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41661 ATACATGTAC
41671 TATAAGTTACATG
1 TATAAGTTACATG
*
41684 TATAATTTACATG
1 TATAAGTTACATG
41697 TATA
1 TATA
41701 CATATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (13 bp):
TATAAGTTACATG
Found at i:41721 original size:60 final size:60
Alignment explanation
Indices: 41656--41771 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
41646 AGTATACCAA
* *
41656 TATACATACATGTACTATAAGTTACATGTATAATTTACATGTATACATATACTATAAGTT
1 TATACATACATGTACTATAAGTTACATATATAATTTACATATATACATATACTATAAGTT
* *
41716 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACGTATACTATA
1 TATACATACATGTACTATAAGTTACATATATAATTTACATATATACATATACTATA
41772 GGTTACATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (60 bp):
TATACATACATGTACTATAAGTTACATATATAATTTACATATATACATATACTATAAGTT
Found at i:41817 original size:7 final size:7
Alignment explanation
Indices: 41805--41839 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
41795 TATGCATAGT
*
41805 GTTTAGA
1 GTTTAGG
41812 GTTTAGG
1 GTTTAGG
41819 GTTTAGG
1 GTTTAGG
41826 GTTTAGG
1 GTTTAGG
*
41833 ATTTAGG
1 GTTTAGG
41840 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:41908 original size:2 final size:2
Alignment explanation
Indices: 41901--42049 Score: 55
Period size: 2 Copynumber: 75.5 Consensus size: 2
41891 TTCTATAAAC
*
41901 TA TA TA TA TA TA TA TA T- TA TA TA GA T- TA CT- TA TA T- TA GTCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -T-A
* * * *
41942 TA CA TA AA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA TT TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
41982 TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA AA TA TA GTT TA TA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
* *
42024 TA CA TA CA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42050 TAATATAAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 32
0.66 0.15 0.20
Matches are distributed among these distances:
1 9 0.08
2 89 0.83
3 8 0.07
4 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:41921 original size:15 final size:15
Alignment explanation
Indices: 41903--42064 Score: 55
Period size: 15 Copynumber: 10.3 Consensus size: 15
41893 CTATAAACTA
41903 TATATATATATATAT
1 TATATATATATATAT
* *
41918 TATATAGAT-TA-CT
1 TATATATATATATAT
*
41931 TATAT-TAGTCATACAT
1 TATATATA-T-ATATAT
*
41947 AAATATATATACTATAT
1 -TATATATATA-TATAT
*
41964 TA-ATATAAATTATATT
1 TATATATATA-TATA-T
* *
41980 TATAAACTATATATTT
1 TATATA-TATATATAT
* * *
41996 TATATAGTTTATACAAA
1 TATATA-TATATA-TAT
* *
42013 TATAGTTTATATACAT
1 TATA-TATATATATAT
*
42029 ACATATATATATATAT
1 -TATATATATATATAT
*
42045 TATAT-TAATATAAAT
1 TATATAT-ATATATAT
42060 TATAT
1 TATAT
42065 TTTATAAACT
Statistics
Matches: 106, Mismatches: 27, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
12 1 0.01
13 7 0.07
14 3 0.03
15 36 0.34
16 27 0.25
17 26 0.25
18 6 0.06
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:41991 original size:86 final size:86
Alignment explanation
Indices: 41894--42108 Score: 251
Period size: 86 Copynumber: 2.5 Consensus size: 86
41884 ATAATGTTTC
* *
41894 TATAAACTATATATATATATATA-TTATATAGAT-TAC-TTATATTAGTCATACATAAATATATA
1 TATAAACTATATAT-TATATATAGTTATACAAATATACTTTATA-TA--CATACATAAATATATA
41956 TACTATATTAATATAAATTATA-TT
62 TACTATATTAATATAAATTATATTT
* * * *
41980 TATAAACTATATATTTTATATAGTTTATACAAATATAGTTTATATACATACATATATATATATAT
1 TATAAACTATATATTATATATAG-TTATACAAATATACTTTATATACATACATAAATATATATAC
42045 TATATTAATATAAATTATATTT
65 TATATTAATATAAATTATATTT
* * *
42067 TATAAACTATATACTT-TTTATAGTTTATACATATATAGTTTA
1 TATAAACTATATA-TTATATATAG-TTATACAAATATACTTTA
42109 GGGTTTATGA
Statistics
Matches: 115, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
85 7 0.06
86 50 0.43
87 47 0.41
88 6 0.05
89 5 0.04
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (86 bp):
TATAAACTATATATTATATATAGTTATACAAATATACTTTATATACATACATAAATATATATACT
ATATTAATATAAATTATATTT
Found at i:42065 original size:15 final size:14
Alignment explanation
Indices: 41959--42078 Score: 54
Period size: 15 Copynumber: 8.4 Consensus size: 14
41949 ATATATATAC
41959 TATATTAATATAAAT
1 TATATT-ATATAAAT
41974 TATATT-TATAAACT
1 TATATTATATAAA-T
*
41988 ATATATT-T-TATA-
1 -TATATTATATAAAT
*
42000 TAGT-TTATACAAA-
1 TA-TATTATATAAAT
*
42013 TATAGTTTATATACAT
1 TATA--TTATATAAAT
* *
42029 ACATATATATATATAT
1 -TATAT-TATATAAAT
42045 TATATTAATATAAAT
1 TATATT-ATATAAAT
* *
42060 TATATTTTATAAAC
1 TATATTATATAAAT
42074 TATAT
1 TATAT
42079 ACTTTTTATA
Statistics
Matches: 82, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
11 4 0.05
12 3 0.04
13 10 0.12
14 16 0.20
15 38 0.46
16 8 0.10
17 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (14 bp):
TATATTATATAAAT
Found at i:42279 original size:26 final size:28
Alignment explanation
Indices: 42219--42281 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
42209 TTTATATAGT
*
42219 TTATATATTTATATATATACTATACATG
1 TTATATATATATATATATACTATACATG
* *
42247 GT-T-TATATATATATGTACTATA-A-G
1 TTATATATATATATATATACTATACATG
42271 TTATATATATA
1 TTATATATATA
42282 GTTTAGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 2 0.07
25 2 0.07
26 23 0.79
27 1 0.03
28 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (28 bp):
TTATATATATATATATATACTATACATG
Found at i:42452 original size:2 final size:2
Alignment explanation
Indices: 42445--42588 Score: 120
Period size: 2 Copynumber: 73.5 Consensus size: 2
42435 TTATACATAC
* *
42445 AT AT AT AT AT AT GT AT -T AT AT -T A- AT AT AA AT -T AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
42482 TT AT AA ACT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AC AT AC
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
42525 AT AC AT AT AT AT AT AT AT A- AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42566 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
42589 AATTAAAAGT
Statistics
Matches: 112, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
1 6 0.05
2 103 0.92
3 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:42488 original size:14 final size:15
Alignment explanation
Indices: 42469--42517 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
42459 ATTATATTAA
*
42469 TATAAAT-TATAATT
1 TATAAATATATAGTT
42483 TATAAACTATATAGTT
1 TATAAA-TATATAGTT
*
42499 TATACATATATAGTT
1 TATAAATATATAGTT
42514 TATA
1 TATA
42518 TACATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 6 0.19
15 14 0.45
16 11 0.35
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (15 bp):
TATAAATATATAGTT
Found at i:42823 original size:19 final size:19
Alignment explanation
Indices: 42772--42833 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
42762 ATAAAATCTC
*
42772 AATTCTCAATTTCCCTCCAA
1 AATTCTCAATTTCCCT-CTA
* *
42792 AATTTTCTA-TTCCCTCTA
1 AATTCTCAATTTCCCTCTA
42810 AATTCTCAATTTCCCTCTA
1 AATTCTCAATTTCCCTCTA
42829 AATTC
1 AATTC
42834 CCAAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.25
19 20 0.56
20 7 0.19
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTCTCAATTTCCCTCTA
Found at i:43007 original size:13 final size:13
Alignment explanation
Indices: 42962--43028 Score: 80
Period size: 13 Copynumber: 5.0 Consensus size: 13
42952 ATATACTTTT
42962 TATAGTTTATCCATA
1 TATAGTTTAT--ATA
* *
42977 TATAATTTACATA
1 TATAGTTTATATA
42990 TATAGTTTATATA
1 TATAGTTTATATA
*
43003 TATAGTTCATATA
1 TATAGTTTATATA
*
43016 TATAGTTCATATA
1 TATAGTTTATATA
43029 AACATAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 39 0.83
15 8 0.17
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:43071 original size:18 final size:18
Alignment explanation
Indices: 43061--43098 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
43051 TATAATAATT
43061 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
43079 ATATAGTTTATATATATAA
1 ATATAGTTTATA-ATATAA
43098 A
1 A
43099 CTTATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
ATATAGTTTATAATATAA
Found at i:43097 original size:19 final size:19
Alignment explanation
Indices: 43061--43115 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
43051 TATAATAATT
43061 ATATAGTTTATA-ATATAA
1 ATATAGTTTATATATATAA
43079 ATATAGTTTATATATATAA
1 ATATAGTTTATATATATAA
43098 ACT-TA-TATTATATATATA
1 A-TATAGT-TTATATATATA
43116 TTATAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.38
19 20 0.59
20 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATAGTTTATATATATAA
Found at i:53384 original size:4 final size:4
Alignment explanation
Indices: 53375--53405 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
53365 TCATTATCGC
53375 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
53406 TAGATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:54957 original size:18 final size:18
Alignment explanation
Indices: 54934--54972 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
54924 ATCATCACCT
54934 TATTTATAACACTCTACA
1 TATTTATAACACTCTACA
54952 TATTTATAACACTCTACA
1 TATTTATAACACTCTACA
54970 TAT
1 TAT
54973 GCAAACAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTTATAACACTCTACA
Found at i:60350 original size:55 final size:55
Alignment explanation
Indices: 60282--60392 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 55
60272 AAACAATAAG
* *
60282 AACATAAAAAAGAAGAGATAAAACAATAAAGGGAGATAATTGTATTATTATCTCA
1 AACATAAAAAAGAAAAGATAAAACAATAAAGGGAGAGAATTGTATTATTATCTCA
* ** * *
60337 AACATAAAGAAGAAAATTTATAACAGTAAAGGGAGAGAATTGTATTATTATCTCA
1 AACATAAAAAAGAAAAGATAAAACAATAAAGGGAGAGAATTGTATTATTATCTCA
60392 A
1 A
60393 TTTGAGTTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.25
Consensus pattern (55 bp):
AACATAAAAAAGAAAAGATAAAACAATAAAGGGAGAGAATTGTATTATTATCTCA
Found at i:64160 original size:21 final size:21
Alignment explanation
Indices: 64134--64181 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
64124 CGGTTAATTC
*
64134 GGTCGGTCACCGAATTAGTTT
1 GGTCGGCCACCGAATTAGTTT
64155 GGTCGGCCACCGAATTAGTTT
1 GGTCGGCCACCGAATTAGTTT
64176 GGTCGG
1 GGTCGG
64182 AGAACGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (21 bp):
GGTCGGCCACCGAATTAGTTT
Found at i:68620 original size:16 final size:17
Alignment explanation
Indices: 68595--68628 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
68585 ATGAGGTGTC
68595 ACATTAACTTTT-CAAA
1 ACATTAACTTTTACAAA
*
68611 ACATTTACTTTTACAAA
1 ACATTAACTTTTACAAA
68628 A
1 A
68629 GAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ACATTAACTTTTACAAA
Found at i:69297 original size:23 final size:23
Alignment explanation
Indices: 69271--69377 Score: 180
Period size: 23 Copynumber: 4.7 Consensus size: 23
69261 CAAAATTGTC
*
69271 CCGAA-TGACCACATAGGTTTGTA
1 CCGAAGTG-CCACATAGGTTTGCA
69294 CCGAAGTGCCACATAGGTTTGCA
1 CCGAAGTGCCACATAGGTTTGCA
69317 CCGAAGTGCCACATAGGTTTGCA
1 CCGAAGTGCCACATAGGTTTGCA
69340 CCGAAGTGCCACATAGGTTTGCA
1 CCGAAGTGCCACATAGGTTTGCA
*
69363 CTGAAGTGCCACATA
1 CCGAAGTGCCACATA
69378 AATGTTCCGA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
23 79 0.98
24 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (23 bp):
CCGAAGTGCCACATAGGTTTGCA
Found at i:70574 original size:13 final size:13
Alignment explanation
Indices: 70556--70580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70546 ATCTAATTTC
70556 CTATAATCATATA
1 CTATAATCATATA
70569 CTATAATCATAT
1 CTATAATCATAT
70581 TCACTCACCT
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
CTATAATCATATA
Found at i:77551 original size:22 final size:24
Alignment explanation
Indices: 77525--77575 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
77515 TACCATTCCC
77525 TTTCTT-TA-AGAGTAGACTATAA
1 TTTCTTATATAGAGTAGACTATAA
77547 TTTCTTGATATCTAGAGTAGACTATAA
1 TTTCTT-ATA--TAGAGTAGACTATAA
77574 TT
1 TT
77576 AACGAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
24 2 0.08
27 16 0.67
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (24 bp):
TTTCTTATATAGAGTAGACTATAA
Found at i:93764 original size:23 final size:23
Alignment explanation
Indices: 93735--93796 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
93725 TTCCCCTGTG
93735 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
*
93758 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCCTTCAAA
93781 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
93797 TCATGTGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:103770 original size:17 final size:17
Alignment explanation
Indices: 103750--103797 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
103740 TTAAACTATA
103750 ATAATATATAA-AAAAAT
1 ATAAT-TATAATAAAAAT
*
103767 ATAATTATAATAAATAT
1 ATAATTATAATAAAAAT
*
103784 ATATTTTATAATAA
1 ATA-ATTATAATAA
103798 CTCACTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 5 0.19
17 13 0.48
18 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATTATAATAAAAAT
Found at i:105125 original size:20 final size:21
Alignment explanation
Indices: 105102--105150 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
105092 AGATTTTATG
105102 TTAAAATGACGAATTTAAA-T
1 TTAAAATGACGAATTTAAACT
** *
105122 TTAAAGGGATGAATTTAAACT
1 TTAAAATGACGAATTTAAACT
105143 TATAAAAT
1 T-TAAAAT
105151 TTTAGAGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 2 0.09
22 4 0.18
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (21 bp):
TTAAAATGACGAATTTAAACT
Found at i:109627 original size:20 final size:21
Alignment explanation
Indices: 109589--109627 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
109579 AAAAAAATTA
**
109589 TATATAAATTTTATTATAAAG
1 TATATAAATTTTAAAATAAAG
109610 TATATAAA-TTTAAAATAA
1 TATATAAATTTTAAAATAA
109628 TAAAGCAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TATATAAATTTTAAAATAAAG
Found at i:114879 original size:18 final size:18
Alignment explanation
Indices: 114845--114879 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114835 TTAAATGATA
*
114845 AACGAACACAAATGAACG
1 AACGAACACAAACGAACG
*
114863 AACGAACATAAACGAAC
1 AACGAACACAAACGAAC
114880 AAATGTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.23, G:0.14, T:0.06
Consensus pattern (18 bp):
AACGAACACAAACGAACG
Found at i:114936 original size:20 final size:19
Alignment explanation
Indices: 114907--114965 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
114897 AACAAACACA
*
114907 ATAAATGAACGTAAACAAAC
1 ATAAATGAAC-AAAACAAAC
*
114927 ATAAACGAACACAAACAAAC
1 ATAAATGAACA-AAACAAAC
*
114947 TTAAATGAACAAAACAAAC
1 ATAAATGAACAAAACAAAC
114966 TAACATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (19 bp):
ATAAATGAACAAAACAAAC
Found at i:114947 original size:57 final size:54
Alignment explanation
Indices: 114854--114963 Score: 125
Period size: 57 Copynumber: 2.0 Consensus size: 54
114844 AAACGAACAC
* **
114854 AAATGAACGAACGAACATAAACGAACAAATGTAAAC-TAACATAAACAAACACAAT
1 AAATGAACGAACAAACATAAACGAACAAATACAAACTTAA-ATAAACAAA-ACAAT
*
114909 AAATGAACGTAAACAAACATAAACGAACACAA-ACAAACTTAAATGAACAAAACAA
1 AAATGAACG--AACAAACATAAACGAACA-AATACAAACTTAAATAAACAAAACAA
114964 ACTAACATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
55 9 0.19
56 4 0.09
57 29 0.62
58 5 0.11
ACGTcount: A:0.62, C:0.18, G:0.08, T:0.12
Consensus pattern (54 bp):
AAATGAACGAACAAACATAAACGAACAAATACAAACTTAAATAAACAAAACAAT
Found at i:115422 original size:14 final size:14
Alignment explanation
Indices: 115297--115403 Score: 155
Period size: 14 Copynumber: 7.6 Consensus size: 14
115287 GATTAACCTA
*
115297 AACATAAATGAACG
1 AACATAAACGAACG
*
115311 AATATAAACGAACG
1 AACATAAACGAACG
115325 AA-AGTAAACGAACG
1 AACA-TAAACGAACG
115339 AACATAAACGAACG
1 AACATAAACGAACG
115353 AA-AGTAAACGAACG
1 AACA-TAAACGAACG
115367 AACATAAACGAACG
1 AACATAAACGAACG
*
115381 AACATAAACGAATG
1 AACATAAACGAACG
115395 AACATAAAC
1 AACATAAAC
115404 AAACATAAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
13 2 0.02
14 82 0.95
15 2 0.02
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:115436 original size:24 final size:24
Alignment explanation
Indices: 115377--115440 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
115367 AACATAAACG
*
115377 AACGAACATAAACGAATGAACATA
1 AACGAACATAAATGAATGAACATA
* *
115401 AACAAACATAAATGAATGAACATT
1 AACGAACATAAATGAATGAACATA
* *
115425 CACGAACGTAAATGAA
1 AACGAACATAAATGAA
115441 CGAATAAGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (24 bp):
AACGAACATAAATGAATGAACATA
Found at i:119177 original size:16 final size:16
Alignment explanation
Indices: 119148--119181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
119138 ATAGAAGTTT
* *
119148 ATTTATTTTTATTTAA
1 ATTTAATTTAATTTAA
119164 ATTTAATTTAATTTAA
1 ATTTAATTTAATTTAA
119180 AT
1 AT
119182 CTTTGTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTAATTTAATTTAA
Found at i:119221 original size:2 final size:2
Alignment explanation
Indices: 119214--119239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
119204 GTTGCCACTG
119214 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
119240 TACTCTTCTA
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:123598 original size:102 final size:102
Alignment explanation
Indices: 123417--123602 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
123407 GCCGATATTT
* * *
123417 AGGTCGAACAAGCTAGTAGTTGAATGTCTTCCTCTTGAACTTGAAGGCATCGTGTCATACAGGGT
1 AGGTCGAAAAAGCTAGCAGTTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCATACAGGGT
* **
123482 TTGAACTGAGTGTTGTGTCGTAGGCATCTCGACATTG
66 CTGAACAAAGTGTTGTGTCGTAGGCATCTCGACATTG
123519 AGGTCGAAAAAGCTCA-CAGTTGAATG-CTTCCCCTTGGAACTTGAAGGCATCGTGTCA-A-ATG
1 AGGTCGAAAAAGCT-AGCAGTTGAATGTCTTCCCCTT-GAACTTGAAGGCATCGTGTCATACA-G
*
123580 GGTACTGAACAAATTGTTGTGTC
63 GGT-CTGAACAAAGTGTTGTGTC
123603 AAGGGCATCC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
100 1 0.01
101 13 0.18
102 58 0.79
103 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
AGGTCGAAAAAGCTAGCAGTTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCATACAGGGT
CTGAACAAAGTGTTGTGTCGTAGGCATCTCGACATTG
Found at i:123631 original size:102 final size:102
Alignment explanation
Indices: 123434--123631 Score: 217
Period size: 102 Copynumber: 1.9 Consensus size: 102
123424 ACAAGCTAGT
* * **
123434 AGTTGAATGTCTTCCTCTTGAACTTGAAGGCATCGTGTCATACAGGGTTTGAACTGAGTGTTGTG
1 AGTTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCATACAGGGTCTGAACAAAGTGTTGTG
* * * *
123499 TCGTAGGCATCTCGACATTGAGGTCGAAAAAGCTCAC
66 TCGAAGGCATCTCGACATTCAAGTCAAAAAAGCTCAC
*
123536 AGTTGAATG-CTTCCCCTTGGAACTTGAAGGCATCGTGTCA-A-ATGGGTACTGAACAAATTGTT
1 AGTTGAATGTCTTCCCCTT-GAACTTGAAGGCATCGTGTCATACA-GGGT-CTGAACAAAGTGTT
* *
123598 GTGTC-AAGGGCATCCTC-ATATTCAAGTTAAAAAA
63 GTGTCGAA-GGCAT-CTCGACATTCAAGTCAAAAAA
123632 AATTGGCATA
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
100 1 0.01
101 14 0.17
102 62 0.77
103 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (102 bp):
AGTTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCATACAGGGTCTGAACAAAGTGTTGTG
TCGAAGGCATCTCGACATTCAAGTCAAAAAAGCTCAC
Found at i:124919 original size:23 final size:23
Alignment explanation
Indices: 124876--124920 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
124866 TCTAACATAT
**
124876 AATTATTGATTCTTTTTGTGCTC
1 AATTATTGATTCTTTACGTGCTC
124899 AATTATTGATTCTTTACGTGCT
1 AATTATTGATTCTTTACGTGCT
124921 TTTTGCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
AATTATTGATTCTTTACGTGCTC
Found at i:126484 original size:2 final size:2
Alignment explanation
Indices: 126441--126465 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126431 CCATTTTTCT
126441 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
126466 GAAAATTATG
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:127693 original size:23 final size:22
Alignment explanation
Indices: 127666--127731 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
127656 TAAAAATTAT
*
127666 AATTTTAAAATAAAATAAAATAA
1 AATTTTAAAATAAATTAAAAT-A
* * **
127689 AATTTTCAGATCGATTAAAATA
1 AATTTTAAAATAAATTAAAATA
127711 AATTTATAAAATAAATTAAAA
1 AATTT-TAAAATAAATTAAAA
127732 AGGGATGGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 6 0.18
23 27 0.82
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (22 bp):
AATTTTAAAATAAATTAAAATA
Found at i:130735 original size:92 final size:93
Alignment explanation
Indices: 130505--130742 Score: 309
Period size: 93 Copynumber: 2.6 Consensus size: 93
130495 TGGTCTTTCC
* * * *
130505 ATTGGAAATGTTGATCCCTCGAGTGAGGAGTTGCTAATTCAAAATGTCGTGAATCGAGAAAAGGT
1 ATTGGAAATGTTGGTCCCTCGAGTAAGGAGTCGCTGATTCAAAATGTCGTGAATCGAGAAAAGGT
* *
130570 TGAACAAGTTCTTCATTATGATTTCTCT
66 TGAACAAGTTCTTCATCATGAATTCTCT
* * ***
130598 ATTGAAAATGTTGGTCCCTCGAGTAAGGTGTCGCTGATTCAAAATGTCGTGAATCGATCCAAGGT
1 ATTGGAAATGTTGGTCCCTCGAGTAAGGAGTCGCTGATTCAAAATGTCGTGAATCGAGAAAAGGT
*
130663 TGAATAAGTTCTTC-TCATGAATTCTCT
66 TGAACAAGTTCTTCATCATGAATTCTCT
* * * *
130690 ATTGGAAATTTTGGTCCCTC-ATGTAAGGCGTCGCTGATTCGAAATGCCGTGAA
1 ATTGGAAATGTTGGTCCCTCGA-GTAAGGAGTCGCTGATTCAAAATGTCGTGAA
130743 CCTAGCAAAG
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 57 0.45
93 69 0.54
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (93 bp):
ATTGGAAATGTTGGTCCCTCGAGTAAGGAGTCGCTGATTCAAAATGTCGTGAATCGAGAAAAGGT
TGAACAAGTTCTTCATCATGAATTCTCT
Found at i:130994 original size:36 final size:36
Alignment explanation
Indices: 130784--131172 Score: 194
Period size: 38 Copynumber: 10.5 Consensus size: 36
130774 AGGCATAGTC
*
130784 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAACTTCT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAA--TAT
* * * * *
130822 TGTTTCAA-ATGAAACTATCTCATGCGAGATAAA-AT
1 TGTTTTAAGA-AAAACAATCTCAAGTGAGATAAATAT
* * ** * ** * *
130857 TTTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATCT
1 TGTT--TT-AAGAAAAACAATCTCAAGTGAGATAAATAT
** *
130896 TGTTTTAAGAAAAA-AATCTTGAGTGAAATGAAATATCT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATA--T
** * * *
130934 TGTTTCGAGTAAAAA-ATGTCTCAAGCGAGACAAATAT
1 TGTTTTAAG-AAAAACA-ATCTCAAGTGAGATAAATAT
* * *
130971 TGTTTTAAGAAAAACAATATCAAGTGAAATTAATATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGA-TAA-ATAT
* ** * * *
131009 TGTTTTGAGTGAAACTATCTCAAGTGAGATGAATCT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATAT
** * *
131045 TGTTTTAAGAAAAACAATCTTGAGTGAAATGAATATT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATA-T
** ** * * *
131082 CTGTTTCGAGTGAAACTATCTCAAGTGAGGTAAAATCT
1 -TGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATAT
* *
131120 TGTTTTAAGAAAAACAATCTCAAGCGAGATGAATAT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATAT
131156 TGTTTTAA-AAAAACAAT
1 TGTTTTAAGAAAAACAAT
131173 ATTGAGTGAA
Statistics
Matches: 256, Mismatches: 78, Indels: 37
0.69 0.21 0.10
Matches are distributed among these distances:
35 22 0.09
36 64 0.25
37 41 0.16
38 103 0.40
39 18 0.07
40 8 0.03
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (36 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATAT
Found at i:131057 original size:74 final size:74
Alignment explanation
Indices: 130795--131337 Score: 360
Period size: 74 Copynumber: 7.2 Consensus size: 74
130785 GTTTTAAGAA
* * * * * * * *
130795 AAACAATCTCAAGTGAGATAAACTTCTTGTTTCAA-ATGAAACTATCTCATGCGAGATAAA-ATT
1 AAACTATCTCAAGCGAGATAAA--TCTTGTTTTAAGA-AAAACAATCTCAAGTGAAATAAATA-T
*
130858 TTTGCTTCGAGTG
62 TTTGTTTCGAGTG
* * ** *
130871 AAACTATCTCAAGCAAGATGAATCTTGTTTTAAGAAAAA-AATCTTGAGTGAAATGAAATATCTT
1 AAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAAT-AAATATTTT
*
130935 GTTTCGAGTAA
65 GTTTCGAGT-G
* * * * * *
130946 AAAATGTCTCAAGCGAGACAAATATTGTTTTAAGAAAAACAATATCAAGTGAAATTAATATTTTG
1 AAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATATTTTG
*
131011 TTTTGAGTG
66 TTTCGAGTG
* * ** * *
131020 AAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAATATTCTG
1 AAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATATTTTG
131085 TTTCGAGTG
66 TTTCGAGTG
* * * * *
131094 AAACTATCTCAAGTGAGGTAAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAGATGAATA--TT
1 AAACTATCTCAAGCGAGAT-AAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATATTTT
* ***
131157 GTTT-TAAAA
65 GTTTCGAGTG
* * ** * * * * *
131166 AAACAATATTGAGTGAAATGAATCTTGTATTTCGAGTGAAACTATCTTAAACAATCTCAAGTGAG
1 AAACTATCTCAAGCGAGATAAATCTTGT-TTT--A---AGA--A----AAACAATCTCAAGTGAA
* *
131231 ATAAATCTTCTGTTTCGAGTG
54 ATAAATATTTTGTTTCGAGTG
* * * ** * * **
131252 AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTCAG
1 AAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATATTTTG
131317 TTTCGAGTG
66 TTTCGAGTG
131326 AAACTATCTCAA
1 AAACTATCTCAA
131338 ACAATATCAA
Statistics
Matches: 365, Mismatches: 81, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
71 8 0.02
72 17 0.05
73 14 0.04
74 151 0.41
75 86 0.24
76 30 0.08
77 2 0.01
78 1 0.00
79 1 0.00
80 2 0.01
83 22 0.06
85 8 0.02
86 23 0.06
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (74 bp):
AAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATATTTTG
TTTCGAGTG
Found at i:131155 original size:149 final size:149
Alignment explanation
Indices: 130793--131156 Score: 434
Period size: 149 Copynumber: 2.4 Consensus size: 149
130783 CTGTTTTAAG
* * * * * * * *
130793 AAAAACAATCTCAAGTGAGATAAACTTCTTGTTTCAA-ATGAAACTATCTCATGCGAGATAAAAT
1 AAAAACTATCTCAAGTGAGGTAAA-ATCTTGTTTTAAGA-AAAACAATCTCAAGCGAGATAATA-
130857 TTTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATCTTGTTTTAAGAAAAAAATCTTGAGTGA
63 TTTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATCTTGTTTTAAGAAAAAAATCTTGAGTGA
130922 AATGAAATATCTTGTTTCGAGT
128 AATGAAATATCTTGTTTCGAGT
* * * * * * *
130944 AAAAAATGTCTCAAGCGA-G-ACAAATATTGTTTTAAGAAAAACAATATCAAGTGAAATTAATAT
1 AAAAACTATCTCAAGTGAGGTA-AAATCTTGTTTTAAGAAAAACAATCTCAAGCGAGA-TAATAT
* * **
131007 TTTGTTTTGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGA
64 TTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATCTTGTTTTAAGAAAAA-AATCTTGAGTGA
131072 AATG-AATAT-TCTGTTTCGAGT
128 AATGAAATATCT-TGTTTCGAGT
*
131093 -GAAACTATCTCAAGTGAGGTAAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAGATGAATATT
1 AAAAACTATCTCAAGTGAGGTAAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAGAT-AATATT
131157 GTTTTAAAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
148 15 0.08
149 125 0.70
150 24 0.13
151 14 0.08
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (149 bp):
AAAAACTATCTCAAGTGAGGTAAAATCTTGTTTTAAGAAAAACAATCTCAAGCGAGATAATATTT
TGCTTCGAGTGAAACTATCTCAAGCAAGATGAATCTTGTTTTAAGAAAAAAATCTTGAGTGAAAT
GAAATATCTTGTTTCGAGT
Found at i:131218 original size:48 final size:48
Alignment explanation
Indices: 131166--131260 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
131156 TGTTTTAAAA
** * *
131166 AAACAATATTGAGTGAAATGAATCTTGTATTTCGAGTGAAACTATCTT
1 AAACAATATCAAGTGAAATAAATCTTCTATTTCGAGTGAAACTATCTT
* * *
131214 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCT
1 AAACAATATCAAGTGAAATAAATCTTCTATTTCGAGTGAAACTATCT
131261 CCAGCGAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (48 bp):
AAACAATATCAAGTGAAATAAATCTTCTATTTCGAGTGAAACTATCTT
Found at i:131324 original size:122 final size:121
Alignment explanation
Indices: 131131--131459 Score: 507
Period size: 122 Copynumber: 2.7 Consensus size: 121
131121 GTTTTAAGAA
* * * * * *
131131 AAACAATCTCAAGCGAGATGAATATTGTTTTAA-AAAAACAATATTGAGTGAAATGAATCTTGTA
1 AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTT-CA
* * **
131195 TTTCGAGTGAAACTATCTTAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTG
65 TTTCGAGTGAAACTATCTCAAACAATATCAAGTGAGATAAATCTTCAATTTCGAGTG
131252 AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTCAG
1 AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTCA-
*
131317 TTTCGAGTGAAACTATCTCAAACAATATCAAGTGAGATAAATCTTCAATTTTGAGTG
65 TTTCGAGTGAAACTATCTCAAACAATATCAAGTGAGATAAATCTTCAATTTCGAGTG
*
131374 AAACTATCTCCAGTGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTCAA
1 AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTC-A
*
131439 TTTTGAGTGAAACTATCTCAA
65 TTTCGAGTGAAACTATCTCAA
131460 GCGAGGTAAA
Statistics
Matches: 192, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
121 31 0.16
122 160 0.83
123 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (121 bp):
AAACTATCTCCAGCGAGATGAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATGAATCTTCAT
TTCGAGTGAAACTATCTCAAACAATATCAAGTGAGATAAATCTTCAATTTCGAGTG
Found at i:131398 original size:38 final size:37
Alignment explanation
Indices: 131344--131586 Score: 167
Period size: 36 Copynumber: 6.6 Consensus size: 37
131334 TCAAACAATA
* *
131344 TCAAGTGAGATAAATCTTCAATTTTGAGTGAAACTATC
1 TCAAGTGAGATGAATCTTC-GTTTTGAGTGAAACTATC
* * * *
131382 TCCAGTGAGATGAATCTT-GTTTTAAG-AAAAATAATC
1 TCAAGTGAGATGAATCTTCGTTTTGAGTGAAACT-ATC
** * *
131418 TTGAGTGAAATGAATCTTCAATTTTGAGTGAAACTATC
1 TCAAGTGAGATGAATCTTC-GTTTTGAGTGAAACTATC
* * * * *
131456 TCAAGCGAGGTAAATCTT-GTTTT-A-AGAAAGATAATC
1 TCAAGTGAGATGAATCTTCGTTTTGAGTGAAA-CT-ATC
* *
131492 TCAAGTGAGACT-AATATTCTGTTTCGAGTGAAACTATC
1 TCAAGTGAGA-TGAATCTTC-GTTTTGAGTGAAACTATC
* ** *
131530 TCAAGTGAGATGAATCTT-GTTTTAAGAAAAACCATC
1 TCAAGTGAGATGAATCTTCGTTTTGAGTGAAACTATC
* *
131566 TCAATTGAGATAAATCTTCGT
1 TCAAGTGAGATGAATCTTCGT
131587 ATTAAATGAG
Statistics
Matches: 156, Mismatches: 36, Indels: 27
0.71 0.16 0.12
Matches are distributed among these distances:
34 4 0.03
35 6 0.04
36 73 0.47
37 4 0.03
38 59 0.38
39 6 0.04
40 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (37 bp):
TCAAGTGAGATGAATCTTCGTTTTGAGTGAAACTATC
Found at i:131440 original size:74 final size:73
Alignment explanation
Indices: 131344--131584 Score: 293
Period size: 74 Copynumber: 3.2 Consensus size: 73
131334 TCAAACAATA
* *
131344 TCAAGTGAGATAAATCTTCAATTTTGAGTGAAACTATCTCCAGTGAGATGAATCTTGTTTTAAGA
1 TCAAGTGAAAT-AATCTTCAATTTTGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGA
131409 AAAATAATC
65 AAAATAATC
** * * *
131418 TTGAGTGAAATGAATCTTCAATTTTGAGTGAAACTATCTCAAGCGAGGTAAATCTTGTTTTAAGA
1 TCAAGTGAAAT-AATCTTCAATTTTGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGA
*
131483 AAGATAATC
65 AAAATAATC
* * ** *
131492 TCAAGTGAGACTAATATTCTGTTTCGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGA
1 TCAAGTGA-AATAATCTTCAATTTTGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGA
**
131557 AAAACCATC
65 AAAATAATC
* *
131566 TCAATTGAGATAAATCTTC
1 TCAAGTGAAAT-AATCTTC
131585 GTATTAAATG
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
73 1 0.01
74 136 0.98
75 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (73 bp):
TCAAGTGAAATAATCTTCAATTTTGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAA
AAATAATC
Found at i:138368 original size:20 final size:21
Alignment explanation
Indices: 138337--138392 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
138327 CTTCTCTTGC
*
138337 TAGGTATTGATACTACTAGC-A
1 TAGGTATCGATACTACT-GCAA
* *
138358 TA-GTATCGATACTTCTTCAA
1 TAGGTATCGATACTACTGCAA
138378 TAGGTATCGATACTA
1 TAGGTATCGATACTA
138393 TTCTTAACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 13 0.45
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (21 bp):
TAGGTATCGATACTACTGCAA
Found at i:142796 original size:13 final size:14
Alignment explanation
Indices: 142733--142800 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
142723 ATATATACTA
*
142733 ATGCAAAGATGC-AC
1 ATGCAAA-ATGCAAG
142747 ATGC-AAATGCAAAG
1 ATGCAAAATGC-AAG
**
142761 ATGCGAAAATGGGAG
1 ATGC-AAAATGCAAG
142776 -TGCAAAATGCAAG
1 ATGCAAAATGCAAG
142789 ATGC-AAATGCAA
1 ATGCAAAATGCAA
142801 CAAGGAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 4 0.09
13 18 0.41
14 15 0.34
15 2 0.05
16 5 0.11
ACGTcount: A:0.46, C:0.15, G:0.25, T:0.15
Consensus pattern (14 bp):
ATGCAAAATGCAAG
Found at i:147870 original size:10 final size:10
Alignment explanation
Indices: 147855--147885 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
147845 GCATGTAGCA
147855 TGTAAGTGTC
1 TGTAAGTGTC
147865 TGTAAGTGTC
1 TGTAAGTGTC
147875 TGTAAGTGTC
1 TGTAAGTGTC
147885 T
1 T
147886 CGAGTCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (10 bp):
TGTAAGTGTC
Found at i:149313 original size:16 final size:16
Alignment explanation
Indices: 149274--149343 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
149264 GGTATTACCC
* *
149274 GACCTGTTTTCAACCT
1 GACCTGTTTTTAACAT
* *
149290 TACTTGTTTTTAACAT
1 GACCTGTTTTTAACAT
*
149306 GACCTG-TTTTAACCT
1 GACCTGTTTTTAACAT
* *
149321 GACATATTTTTAACAT
1 GACCTGTTTTTAACAT
149337 GACCTGT
1 GACCTGT
149344 AAATGATCCG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
15 12 0.29
16 29 0.71
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (16 bp):
GACCTGTTTTTAACAT
Found at i:149331 original size:31 final size:32
Alignment explanation
Indices: 149274--149343 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
149264 GGTATTACCC
* * *
149274 GACCTGTTTTCAACCTTACTTGTTTTTAACAT
1 GACCTGTTTTCAACCTGACATATTTTTAACAT
149306 GACCTGTTTT-AACCTGACATATTTTTAACAT
1 GACCTGTTTTCAACCTGACATATTTTTAACAT
149337 GACCTGT
1 GACCTGT
149344 AAATGATCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (32 bp):
GACCTGTTTTCAACCTGACATATTTTTAACAT
Found at i:149623 original size:23 final size:24
Alignment explanation
Indices: 149589--149638 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
149579 ATGCAAAGGA
149589 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
*
149613 AAATT-ATATAGTTTATTTTATAT
1 AAATTAATATAGTTTAATTTATAT
149636 AAA
1 AAA
149639 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:150205 original size:20 final size:20
Alignment explanation
Indices: 150168--150219 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
150158 ATAAATTACA
150168 AGGCAACAACAGGC---AGC
1 AGGCAACAACAGGCAATAGC
* *
150185 AGGTAGCAACAGGCAATAGC
1 AGGCAACAACAGGCAATAGC
150205 AGGCAACAACAGGCA
1 AGGCAACAACAGGCA
150220 GCTGCAGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.43
20 16 0.57
ACGTcount: A:0.42, C:0.25, G:0.29, T:0.04
Consensus pattern (20 bp):
AGGCAACAACAGGCAATAGC
Found at i:150226 original size:20 final size:18
Alignment explanation
Indices: 150168--150229 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
150158 ATAAATTACA
150168 AGGCAACAACAGGCA-GC
1 AGGCAACAACAGGCATGC
* *
150185 AGGTAGCAACAGGCAATAGC
1 AGGCAACAACAGGC-AT-GC
150205 AGGCAACAACAGGCAGCTGC
1 AGGCAACAACAGGCA--TGC
150225 AGGCA
1 AGGCA
150230 GAATTTTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 12 0.33
18 1 0.03
19 1 0.03
20 21 0.58
21 1 0.03
ACGTcount: A:0.39, C:0.26, G:0.31, T:0.05
Consensus pattern (18 bp):
AGGCAACAACAGGCATGC
Found at i:152725 original size:18 final size:18
Alignment explanation
Indices: 152702--152749 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
152692 GTATGGTAAA
*
152702 AAATTAAATTGTAGCTAC
1 AAATTAAATAGTAGCTAC
*
152720 AAATTAAACAGTAGCTAC
1 AAATTAAATAGTAGCTAC
152738 AAATTAAATAGT
1 AAATTAAATAGT
152750 TTATTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (18 bp):
AAATTAAATAGTAGCTAC
Found at i:152929 original size:120 final size:120
Alignment explanation
Indices: 152726--153104 Score: 641
Period size: 120 Copynumber: 3.1 Consensus size: 120
152716 CTACAAATTA
*
152726 AACAGTAGCTACAAATTAAATAGTTTATTTAAATCCTAAATAAAAGGCAGCTAACAACCTTATAC
1 AACAGTAGCTACAAATTAAACAGTTTATTTAAATCCTAAAT-AAAGGCAGCTAACAACCTTATAC
152791 AAGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
65 AAGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
* * *
152847 AACAATAGCTACAAATTAAACAGTTTATTTAAATCCTAAATAAAGGCAGTTAACAACCTTATACG
1 AACAGTAGCTACAAATTAAACAGTTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACA
* *
152912 AGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACATAGGAAATAAATC
66 AGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
* *
152967 AACAGTAGCTACAAATTAAACACTTTCTTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACA
1 AACAGTAGCTACAAATTAAACAGTTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACA
* *
153032 AGCAATCCAAATAAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
66 AGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
* *
153087 AACAGTAACTATAAATTA
1 AACAGTAGCTACAAATTA
153105 CAGTATATTT
Statistics
Matches: 241, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
120 202 0.84
121 39 0.16
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (120 bp):
AACAGTAGCTACAAATTAAACAGTTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACA
AGCAATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATC
Found at i:153477 original size:36 final size:36
Alignment explanation
Indices: 153428--153503 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
153418 TGGGTTCAAA
* *
153428 TTCGGGTTTAGGTTCGGGTTCG-GTTTTGAGCTTGGG
1 TTCGGGTTCAGGTTCGGGTTCGAG-TTCGAGCTTGGG
* *
153464 TTCGGGTTCAGGTTTGGGTTCGAGTTCGAGTTTGGG
1 TTCGGGTTCAGGTTCGGGTTCGAGTTCGAGCTTGGG
153500 TTCG
1 TTCG
153504 AGTTTTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.07, C:0.12, G:0.41, T:0.41
Consensus pattern (36 bp):
TTCGGGTTCAGGTTCGGGTTCGAGTTCGAGCTTGGG
Found at i:153513 original size:18 final size:17
Alignment explanation
Indices: 153428--153514 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 17
153418 TGGGTTCAAA
* *
153428 TTCGGGTTTAGGTTCGGG
1 TTCGGTTTTA-GTTTGGG
*
153446 TTCGGTTTTGAGCTTGGG
1 TTCGGTTTT-AGTTTGGG
* *
153464 TTCGGGTTCAGGTTTGGG
1 TTCGGTTTTA-GTTTGGG
**
153482 TTCGAGTTCGAGTTTGGG
1 TTCG-GTTTTAGTTTGGG
153500 TTCGAGTTTTAGTTT
1 TTCG-GTTTTAGTTT
153515 AAGGTTTAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 50 0.91
19 4 0.07
ACGTcount: A:0.08, C:0.10, G:0.38, T:0.44
Consensus pattern (17 bp):
TTCGGTTTTAGTTTGGG
Found at i:153950 original size:23 final size:21
Alignment explanation
Indices: 153915--153959 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
153905 AAATTGATTT
* *
153915 GGTTTTTTGAAGATCAAATGAA
1 GGTTTTTTAAAGA-AAAATGAA
153937 GGTTTTTTCAAAGAAAAATGAA
1 GGTTTTTT-AAAGAAAAATGAA
153959 G
1 G
153960 AACACGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (21 bp):
GGTTTTTTAAAGAAAAATGAA
Found at i:154279 original size:14 final size:14
Alignment explanation
Indices: 154250--154327 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
154240 CATCCCTATA
*
154250 TAATTTTTATTAAT
1 TAATATTTATTAAT
154264 TAACTATTTA-TAAT
1 TAA-TATTTATTAAT
* *
154278 TAATATTAAAATAAT
1 TAATATT-TATTAAT
154293 T-ATATATTA-TAAT
1 TAATAT-TTATTAAT
*
154306 TAATATTAAATTATAT
1 TAATATT-TATTA-AT
154322 TAATAT
1 TAATAT
154328 AATATAGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
13 10 0.19
14 21 0.40
15 13 0.25
16 8 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATATTTATTAAT
Found at i:154303 original size:28 final size:30
Alignment explanation
Indices: 154262--154333 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
154252 ATTTTTATTA
154262 ATTAACTAT-TTATAATTAATATTAAAATA-
1 ATTAA-TATATTATAATTAATATTAAAATAT
*
154291 ATT-ATATATTATAATTAATATTAAATTAT
1 ATTAATATATTATAATTAATATTAAAATAT
*
154320 ATTAATATAATATA
1 ATTAATATATTATA
154334 GTTTATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 3 0.08
28 20 0.53
29 6 0.16
30 9 0.24
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTAATATATTATAATTAATATTAAAATAT
Found at i:154326 original size:44 final size:45
Alignment explanation
Indices: 154271--154358 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
154261 AATTAACTAT
154271 TTATAATTAATATTAAAATAA-TTAT-ATATTATAATTAATATTAAA
1 TTATAATTAATA-TAAAATAATTTATAAT-TTATAATTAATATTAAA
* * *
154316 TTAT-ATTAATATAATATAGTTTATAATTTGTAATTAATATTAA
1 TTATAATTAATATAAAATAATTTATAATTTATAATTAATATTAA
154359 TATAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
43 6 0.16
44 26 0.68
45 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (45 bp):
TTATAATTAATATAAAATAATTTATAATTTATAATTAATATTAAA
Found at i:154439 original size:14 final size:14
Alignment explanation
Indices: 154422--154482 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
154412 TATTATATAG
*
154422 TATAGTTTATAAAC
1 TATAGTTAATAAAC
*
154436 TATAGTTAATATAAT
1 TATAGTTAATA-AAC
* *
154451 TAATA-TTAATATAG
1 T-ATAGTTAATAAAC
*
154465 TATAGTTTATAAAC
1 TATAGTTAATAAAC
154479 TATA
1 TATA
154483 TACTATATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 22 0.59
15 9 0.24
16 3 0.08
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (14 bp):
TATAGTTAATAAAC
Found at i:154463 original size:43 final size:40
Alignment explanation
Indices: 154391--154506 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 40
154381 TTAATATTAA
* *
154391 TATAAACTATAT-GT-TATAAATTATT-ATATAGTATAGTT
1 TATAAACTATATAATATATTAA-TATTAATATAGTATAGTT
154429 TATAAACTATAGTTAATATAATTAATATTAATATAGTATAGTT
1 TATAAACTATA--TAATAT-ATTAATATTAATATAGTATAGTT
*
154472 TATAAACTATATACTATATTAATATTAATTATAGT
1 TATAAACTATATAATATATTAATATTAA-TATAGT
154507 TAAGATAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
38 11 0.16
40 12 0.18
41 12 0.18
42 5 0.07
43 28 0.41
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (40 bp):
TATAAACTATATAATATATTAATATTAATATAGTATAGTT
Found at i:154629 original size:24 final size:20
Alignment explanation
Indices: 154578--154629 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 20
154568 TATAGGTTAC
154578 ATATATAGTTTATATAACAT
1 ATATATAGTTTATATAACAT
*
154598 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATA-ACAT
154621 ATACTATAG
1 ATA-TATAG
154630 GTTACATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
21 2 0.08
22 6 0.23
23 7 0.27
24 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (20 bp):
ATATATAGTTTATATAACAT
Found at i:154781 original size:15 final size:15
Alignment explanation
Indices: 154755--154833 Score: 61
Period size: 16 Copynumber: 4.7 Consensus size: 15
154745 ATGGTTTATA
154755 TATACTATACATAGTT
1 TATAC-ATACATAGTT
154771 TATACATACAT-GTATT
1 TATACATACATAG--TT
*
154787 ATAAGTTACATATATAGTT
1 -T-A--TACATACATAGTT
154806 TACTACTATACATAGTT
1 TA-TAC-ATACATAGTT
154823 TATACATACAT
1 TATACATACAT
154834 GTACTATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
14 1 0.02
15 12 0.23
16 13 0.25
17 13 0.25
18 2 0.04
19 2 0.04
20 8 0.15
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (15 bp):
TATACATACATAGTT
Found at i:154822 original size:17 final size:15
Alignment explanation
Indices: 154793--154833 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
154783 TATTATAAGT
*
154793 TACATATATAGTTTA
1 TACATACATAGTTTA
154808 CTACTATACATAGTTTA
1 -TAC-ATACATAGTTTA
154825 TACATACAT
1 TACATACAT
154834 GTACTATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (15 bp):
TACATACATAGTTTA
Found at i:154838 original size:26 final size:26
Alignment explanation
Indices: 154757--154841 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
154747 GGTTTATATA
154757 TACTATACATAGTTTATACATACATG
1 TACTATACATAGTTTATACATACATG
* * * ** *
154783 TA-T-TATA-AGTTACATATATAGTTTAC
1 TACTATACATAGTT-TATACATA-CAT-G
154809 TACTATACATAGTTTATACATACATG
1 TACTATACATAGTTTATACATACATG
154835 TACTATA
1 TACTATA
154842 AGTTACATGT
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
23 4 0.10
24 9 0.22
25 2 0.05
26 11 0.27
27 2 0.05
28 9 0.22
29 4 0.10
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (26 bp):
TACTATACATAGTTTATACATACATG
Found at i:154871 original size:52 final size:52
Alignment explanation
Indices: 154757--154860 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
154747 GGTTTATATA
*
154757 TACTATACATAGTTTATACATACATGTATTATAAGTTACATATATAGTTTAC
1 TACTATACATAGTTTATACATACATGTACTATAAGTTACATATATAGTTTAC
*
154809 TACTATACATAGTTTATACATACATGTACTATAAGTTACATGTATAGTTTAC
1 TACTATACATAGTTTATACATACATGTACTATAAGTTACATATATAGTTTAC
154861 ATGTATACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (52 bp):
TACTATACATAGTTTATACATACATGTACTATAAGTTACATATATAGTTTAC
Found at i:154887 original size:16 final size:16
Alignment explanation
Indices: 154829--154889 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
154819 AGTTTATACA
*
154829 TACATGTACTATAAGT
1 TACATATACTATAAGT
* *
154845 TACATGTATAGTTTACATGT
1 TACA--TATACTATA-A-GT
154865 ATACATATACTATAAGT
1 -TACATATACTATAAGT
154882 TACATATA
1 TACATATA
154890 TTAACTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
16 12 0.34
17 2 0.06
18 7 0.20
19 8 0.23
20 2 0.06
21 4 0.11
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (16 bp):
TACATATACTATAAGT
Found at i:155097 original size:2 final size:2
Alignment explanation
Indices: 155090--155209 Score: 71
Period size: 2 Copynumber: 63.0 Consensus size: 2
155080 TGCATAGTGT
* *
155090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA GA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
155131 CT- TA TA T- TA GT- TA TA CA T- TCA TA TA TA TA CCA T- TT TA -A
1 -TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA
* *
155169 TA TA AA T- TA TA -A TA TA TA -A TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
155208 TA
1 TA
155210 CACACACTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
1 10 0.11
2 77 0.85
3 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:155285 original size:13 final size:14
Alignment explanation
Indices: 155257--155291 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
155247 ATATAATTTT
155257 TATAGTTTATACATA
1 TATAGTTTATA-ATA
155272 TATAGTTTAT-ATA
1 TATAGTTTATAATA
155285 TATAGTT
1 TATAGTT
155292 CACATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
15 10 0.50
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:155345 original size:20 final size:18
Alignment explanation
Indices: 155308--155362 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
155298 AACATAATTT
*
155308 ATATATAGCTTATA-ATA
1 ATATATAGTTTATATATA
155325 ATTATATAGTTTATAATATA
1 A-TATATAGTTTAT-ATATA
*
155345 A-AAATAGTTTATATATA
1 ATATATAGTTTATATATA
155362 A
1 A
155363 ACTTATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 7 0.21
18 21 0.64
19 1 0.03
20 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
ATATATAGTTTATATATA
Found at i:155362 original size:17 final size:18
Alignment explanation
Indices: 155330--155363 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
155320 TAATAATTAT
155330 ATAGTTTATAATATAAAA
1 ATAGTTTATAATATAAAA
155348 ATAGTTTAT-ATATAAA
1 ATAGTTTATAATATAAA
155364 CTTATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATAGTTTATAATATAAAA
Found at i:157428 original size:12 final size:12
Alignment explanation
Indices: 157411--157440 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
157401 AATACAACTG
157411 CTAACTAATCAA
1 CTAACTAATCAA
*
157423 CTAACTAATGAA
1 CTAACTAATCAA
157435 CTAACT
1 CTAACT
157441 TGAACTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (12 bp):
CTAACTAATCAA
Found at i:161240 original size:13 final size:13
Alignment explanation
Indices: 161202--161240 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
161192 GTCATAAATC
161202 TATGATGCGCATT
1 TATGATGCGCATT
*
161215 TATGACGCGCATT
1 TATGATGCGCATT
*
161228 TATGATGCTCATT
1 TATGATGCGCATT
161241 GCGTGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (13 bp):
TATGATGCGCATT
Found at i:161359 original size:85 final size:84
Alignment explanation
Indices: 161212--161377 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 84
161202 TATGATGCGC
* * * * * *
161212 ATTTATGACGCGCATTTATGATGCTCATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACACGCATGTATGAT-CTCATTGCATGTCATTGAAGCACACGTCATAAATAAAGATGA
161277 AACACATT-TATGTGTCATAA
65 AACACATTCT-TGTGTCATAA
161297 ATTTATGACACGCATGTATGA-CTTACATTGCATGTCATTGAAGCACACGTCATTAAA-AAAGAT
1 ATTTATGACACGCATGTATGATC-T-CATTGCATGTCATTGAAGCACACGTCA-TAAATAAAGAT
*
161360 GACACACATTCTTGTGTC
63 GAAACACATTCTTGTGTC
161378 GTGATTGTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 63 0.90
86 5 0.07
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
ATTTATGACACGCATGTATGATCTCATTGCATGTCATTGAAGCACACGTCATAAATAAAGATGAA
ACACATTCTTGTGTCATAA
Found at i:167021 original size:23 final size:23
Alignment explanation
Indices: 167003--167061 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
166993 CTCGTATAAA
167003 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
167026 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
167049 TGCACCGTAGTGC
1 TGCACCGAAGTGC
167062 TATATAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:176408 original size:19 final size:19
Alignment explanation
Indices: 176370--176408 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
176360 ACTCTTCAAC
*
176370 AAATAATATAATATATTGA
1 AAATAATATAATATAGTGA
* *
176389 AAATAATATCATTTAGTGA
1 AAATAATATAATATAGTGA
176408 A
1 A
176409 TGTTTAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (19 bp):
AAATAATATAATATAGTGA
Found at i:185379 original size:2 final size:2
Alignment explanation
Indices: 185368--185403 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
185358 TACATATTAT
185368 TA TA -A 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 T
185404 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:190055 original size:36 final size:36
Alignment explanation
Indices: 190008--190101 Score: 179
Period size: 36 Copynumber: 2.6 Consensus size: 36
189998 ACCAGGATCC
*
190008 AAAAACGCTATCGACATTAAAAATCCGGGTCCGGTG
1 AAAAACGCTATCGACATTAAAAATCCGGGTCCGATG
190044 AAAAACGCTATCGACATTAAAAATCCGGGTCCGATG
1 AAAAACGCTATCGACATTAAAAATCCGGGTCCGATG
190080 AAAAACGCTATCGACATTAAAA
1 AAAAACGCTATCGACATTAAAA
190102 TTCATATATT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (36 bp):
AAAAACGCTATCGACATTAAAAATCCGGGTCCGATG
Done.