Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002624.1 Hibiscus syriacus cultivar Beakdansim tig00005343_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: 85780
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:462 original size:13 final size:13
Alignment explanation
Indices: 444--472 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
434 ACCACCGTTA
444 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
457 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
470 CGG
1 CGG
473 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:1058 original size:18 final size:19
Alignment explanation
Indices: 1021--1055 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1011 CAATTTAGTC
1021 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
1040 ATTTA-TTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
1056 TAAATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:12399 original size:1 final size:1
Alignment explanation
Indices: 12357--12384 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
12347 ATTATGCTTG
12357 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
12385 GAAGAAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13423 original size:52 final size:52
Alignment explanation
Indices: 13345--14059 Score: 1295
Period size: 52 Copynumber: 13.7 Consensus size: 52
13335 TATGTGCTCA
*
13345 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13397 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13449 ATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13502 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13554 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13606 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13658 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13710 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13762 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
13814 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
13866 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
13918 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* * *
13970 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGATGGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
14022 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
14060 CGAAGAAGTG
Statistics
Matches: 640, Mismatches: 22, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
52 590 0.92
53 50 0.08
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:14816 original size:113 final size:113
Alignment explanation
Indices: 14618--15400 Score: 1287
Period size: 113 Copynumber: 6.9 Consensus size: 113
14608 GATTCAAATT
* * *
14618 CATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
14683 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
14731 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
14796 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
14844 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
14909 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
14957 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
15022 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAACC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
*
15070 CATCATTTGGTGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
15135 AAAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
* *
15183 CATCATTTGGTGGATCATATTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *** * *
15248 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTGAATC
* * * ** *
15297 CATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
*
15362 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
15401 GTTTGATATC
Statistics
Matches: 630, Mismatches: 38, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
113 528 0.84
114 42 0.07
115 60 0.10
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
Found at i:15703 original size:3 final size:3
Alignment explanation
Indices: 15695--15774 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
15685 TTTTTATCCA
* *
15695 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
15743 TAT TAA TAT TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15775 AATATATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:16538 original size:13 final size:13
Alignment explanation
Indices: 16520--16548 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16510 ACCACCGTTA
16520 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
16533 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
16546 CGG
1 CGG
16549 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:17139 original size:18 final size:19
Alignment explanation
Indices: 17102--17136 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
17092 CAATTTAGTC
17102 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
17121 ATTTA-TTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
17137 TAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:22458 original size:31 final size:31
Alignment explanation
Indices: 22420--22482 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
22410 GAGTCGAGCG
*
22420 TTACCTATGTTCTACGGAACATATGGACAGT
1 TTACCTATGTTCTACGAAACATATGGACAGT
* *
22451 TTACCTATGTTCTTCGAAACATGTGGACAGT
1 TTACCTATGTTCTACGAAACATATGGACAGT
22482 T
1 T
22483 ACATAGGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTACGAAACATATGGACAGT
Found at i:23183 original size:12 final size:12
Alignment explanation
Indices: 23166--23206 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
23156 AATTTTTCAC
23166 TGTTCATGGTAA
1 TGTTCATGGTAA
*
23178 TGTTCAT--TAC
1 TGTTCATGGTAA
*
23188 TGTTCACGGTAA
1 TGTTCATGGTAA
23200 TGTTCAT
1 TGTTCAT
23207 ACCATATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.35
12 15 0.65
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (12 bp):
TGTTCATGGTAA
Found at i:23189 original size:22 final size:22
Alignment explanation
Indices: 23164--23206 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23154 GAAATTTTTC
*
23164 ACTGTTCATGGTAATGTTCATT
1 ACTGTTCACGGTAATGTTCATT
23186 ACTGTTCACGGTAATGTTCAT
1 ACTGTTCACGGTAATGTTCAT
23207 ACCATATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (22 bp):
ACTGTTCACGGTAATGTTCATT
Found at i:27319 original size:2 final size:2
Alignment explanation
Indices: 27314--27342 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27304 TCCATCTATC
27314 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 T
27343 TATCCCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28659 original size:21 final size:21
Alignment explanation
Indices: 28633--28682 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
28623 TTAAATATGA
28633 TGGATCGAGGGATTAGTGGGG
1 TGGATCGAGGGATTAGTGGGG
28654 TGGATCGAGGGATTAGTGGGG
1 TGGATCGAGGGATTAGTGGGG
28675 TGGATCGA
1 TGGATCGA
28683 AGGAGATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.06, G:0.50, T:0.24
Consensus pattern (21 bp):
TGGATCGAGGGATTAGTGGGG
Found at i:31144 original size:3 final size:3
Alignment explanation
Indices: 31123--31167 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
31113 TGAAGCTGAC
* * *
31123 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
31168 CCAAACAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:32863 original size:183 final size:182
Alignment explanation
Indices: 32587--33079 Score: 896
Period size: 183 Copynumber: 2.7 Consensus size: 182
32577 GCAATGCTAT
32587 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
32652 GTGTCGGTATTTTTTGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
32717 TTTACACATCGGAACCCAGATTTATAATGCAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGATTTATAATGCAATAGATAATTTTGTAATATAAC
32770 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
32835 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
32900 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGATTTATAATGCAATAGATAATTTTGTAATATAAC
* * *
32953 TGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
33018 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
33080 GTAATTTTAA
Statistics
Matches: 301, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
183 297 0.99
184 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGATTTATAATGCAATAGATAATTTTGTAATATAAC
Found at i:35570 original size:25 final size:25
Alignment explanation
Indices: 35542--35606 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
35532 TTATCATTAA
35542 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
35567 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
35592 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
35607 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:35983 original size:23 final size:23
Alignment explanation
Indices: 35952--36024 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
35942 ATAGGTAAAC
* *
35952 ATATGATGTAATAGGTGGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
** *
35975 ATATAATGTAATAGGTATTGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35998 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36021 ATAT
1 ATAT
36025 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36473 original size:18 final size:18
Alignment explanation
Indices: 36452--36488 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36442 GTAATTGGAG
36452 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
36470 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
36488 T
1 T
36489 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:36496 original size:24 final size:24
Alignment explanation
Indices: 36444--36490 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
36434 TTTCATATGT
* *
36444 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
36468 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
36491 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:36791 original size:39 final size:39
Alignment explanation
Indices: 36748--36834 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
36738 TCCGATGCTC
*
36748 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
36787 ATCAAAATCCAAATCTCATATGATGCCGAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
36826 ATCAAAATC
1 ATCAAAATC
36835 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:37288 original size:23 final size:23
Alignment explanation
Indices: 37257--37329 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
37247 ATAGGTAAAA
* *
37257 ATATGATGTATTAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37280 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
37303 ATATAATGTAATATGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
37326 ATAT
1 ATAT
37330 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37716 original size:23 final size:23
Alignment explanation
Indices: 37685--37757 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
37675 ATAGGTAAAA
*
37685 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
37708 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
37731 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
37754 ATAT
1 ATAT
37758 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:38147 original size:23 final size:23
Alignment explanation
Indices: 38116--38188 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
38106 ATAGGTAAAA
*
38116 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38139 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38162 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
38185 ATAT
1 ATAT
38189 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:38173 original size:431 final size:431
Alignment explanation
Indices: 37053--41951 Score: 9102
Period size: 431 Copynumber: 11.5 Consensus size: 431
37043 GTTAATGTTG
37053 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
37118 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
37183 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
37248 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
37313 ATATGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
* *
37378 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAA-TTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
37442 CGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
37482 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
37547 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
37611 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* *
37676 TAGGTAAAAATATGATGTAATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
37741 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
37806 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
37871 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
37912 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
37977 ATGAAATTATTAAATTAATATTGTAGGGGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
38042 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
38107 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
38172 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAATGTCCATACTTTTTTTACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
38237 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
38302 CGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
38342 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38407 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
38472 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
38537 TAGGTAAAAATATGATGTAATAGGTA--GC----------------G---C--TTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
38579 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
38644 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
38709 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
38750 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38815 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
38880 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
38945 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
39010 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
39075 TGGAAAACATTAATTTAAGGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39140 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
39181 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
39246 ATGAAATTATTAAATTAATATTGTAGGTGGAAAGCATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
39310 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
39375 TAGGTAAAAATATGATGTAATAGGTAGCGC-T-TATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
39438 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
39503 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39568 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
39609 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
39674 ATGAAATTATTAAATTAATATTGTAGGTGGAAAGCATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
39739 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
39804 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
39869 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
* *
39934 TGGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39999 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
40040 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
40105 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
40170 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
40235 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
40300 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
40365 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
40430 CGTCTAATGATTTATTTTTTACGTTACG--ATATA-TATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
40468 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
40532 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
40597 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
40662 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
40727 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
40792 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
40857 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
40898 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
40963 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
41028 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
41093 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
41158 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
41223 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
41288 CGTCTAATGATTTA-TTTTTACGTTACG--ATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
41326 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
41391 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTAAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
41455 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
41520 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
41585 ATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
41650 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
41715 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
41756 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
41821 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT-AAAAAAATTAAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
41885 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
41950 TA
196 TA
41952 TAATGTAATA
Statistics
Matches: 4374, Mismatches: 59, Indels: 73
0.97 0.01 0.02
Matches are distributed among these distances:
407 153 0.03
408 244 0.06
409 1 0.00
410 2 0.00
412 1 0.00
426 1 0.00
427 646 0.15
428 760 0.17
429 263 0.06
430 770 0.18
431 1533 0.35
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:38577 original size:23 final size:23
Alignment explanation
Indices: 38546--38595 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38536 ATAGGTAAAA
*
38546 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38569 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
38592 ATAT
1 ATAT
38596 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:38985 original size:23 final size:23
Alignment explanation
Indices: 38954--39026 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
38944 ATAGGTAAAA
* *
38954 ATATGATGTATTAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38977 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39000 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
39023 ATAT
1 ATAT
39027 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39415 original size:21 final size:21
Alignment explanation
Indices: 39389--39459 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
39379 TAAAAATATG
39389 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
*
39410 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCG-CT-TATA
* *
39433 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGCGCTTATA
*
39454 TTGTAA
1 ATGTAA
39460 AGTATCTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 24 0.55
22 2 0.05
23 18 0.41
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:39436 original size:23 final size:22
Alignment explanation
Indices: 39384--39454 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
39374 ATAGGTAAAA
* *
39384 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGCGTT
39406 -TATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCG-TT
*
39428 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAG-CGTT
39451 ATAT
1 ATAT
39455 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 23 0.53
24 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:39723 original size:859 final size:862
Alignment explanation
Indices: 37053--41951 Score: 9111
Period size: 858 Copynumber: 5.7 Consensus size: 862
37043 GTTAATGTTG
37053 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
37118 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
37183 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
37248 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
37313 ATATGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
* *
37378 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAA-TTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
37442 CGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
37506 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
37571 AGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
37635 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
*
37700 TAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
*
37765 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
716 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
*
37830 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
37895 TACGATATATATTATTA
846 TACGATATATATTATTA
37912 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
37977 ATGAAATTATTAAATTAATATTGTAGGGGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
38042 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
38107 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
38172 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAATGTCCATACTTTTTTTACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
38237 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
38302 CGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
38366 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
38431 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
*
38496 ATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
38561 TA--GC-------------------GC--TTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
*
38603 TGTCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
716 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
38668 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
38733 TACGATATATATTATTA
846 TACGATATATATTATTA
*
38750 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
38815 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
38880 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
38945 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
39010 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
39075 TGGAAAACATTAATTTAAGGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39140 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
39205 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
*
39270 AGGTGGAAAGCATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
39334 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
39399 TAGCGC-T-TATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
* *
39462 TATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
716 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
*
39527 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
39592 TACGATATATATTATTA
846 TACGATATATATTATTA
*
39609 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
39674 ATGAAATTATTAAATTAATATTGTAGGTGGAAAGCATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
39739 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
39804 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
39869 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTTTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
* *
39934 TGGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTGATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
39999 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
40064 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
40129 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
40194 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
*
40259 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
*
40324 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTTAT
716 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
40389 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
40454 TACG--ATATA-TATTA
846 TACGATATATATTATTA
40468 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
40532 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
40597 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
40662 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
40727 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
40792 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
40857 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
40922 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
40987 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
41052 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
* *
41117 TAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
41182 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
716 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
41247 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGT
781 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
41311 TACG--ATATATTATTA
846 TACGATATATATTATTA
*
41326 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
41391 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTAAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
41455 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
41520 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
41585 ATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
41650 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
41715 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTATTAAATTAAAAATTCTAAATAATA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
41780 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
* *
41845 AGGTGGAAAACATAAAACACTATT-AAAAAAATTAAAACATAAATTACATAACTTTAAAAGAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
41909 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
586 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
41952 TAATGTAATA
Statistics
Matches: 3943, Mismatches: 68, Indels: 60
0.97 0.02 0.01
Matches are distributed among these distances:
838 682 0.17
839 138 0.03
840 4 0.00
857 102 0.03
858 1247 0.32
859 1196 0.30
860 282 0.07
861 107 0.03
862 185 0.05
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (862 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
TACGATATATATTATTA
Found at i:39844 original size:23 final size:23
Alignment explanation
Indices: 39813--39885 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
39803 ATAGGTAAAA
*
39813 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
39836 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39859 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
39882 ATAT
1 ATAT
39886 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:40275 original size:23 final size:23
Alignment explanation
Indices: 40244--40316 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
40234 ATAGGTAAAA
*
40244 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
40267 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
40290 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
40313 ATAT
1 ATAT
40317 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:40702 original size:23 final size:23
Alignment explanation
Indices: 40671--40743 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
40661 ATAGGTAAAA
*
40671 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
40694 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
40717 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
40740 ATAT
1 ATAT
40744 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:41133 original size:23 final size:23
Alignment explanation
Indices: 41102--41174 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
41092 ATAGGTAAAA
*
41102 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
41125 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
41148 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
41171 ATAT
1 ATAT
41175 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:41560 original size:23 final size:23
Alignment explanation
Indices: 41529--41601 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
41519 ATAGGTAAAA
* *
41529 ATATGATGTATTAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
41552 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
41575 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
41598 ATAT
1 ATAT
41602 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:47314 original size:16 final size:16
Alignment explanation
Indices: 47285--47324 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
47275 CTTTGTATTG
47285 TTTTAATCTAAATTAGA
1 TTTT-ATCTAAATTAGA
* *
47302 TTTTATCTCAATTGGA
1 TTTTATCTAAATTAGA
47318 TTTTATC
1 TTTTATC
47325 GATTGGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTATCTAAATTAGA
Found at i:53016 original size:23 final size:23
Alignment explanation
Indices: 52990--53050 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
52980 CTCATATAAA
*
52990 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
53013 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
53036 TGCATCGTAGTGCCA
1 TGCACCGTAGTGCCA
53051 TATAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:53237 original size:103 final size:103
Alignment explanation
Indices: 53066--53283 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
53056 TAATGTCCAT
53066 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
53131 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
53169 AATGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
53234 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
53272 AAGGACCACATA
1 AAGGACCACATA
53284 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:54854 original size:21 final size:21
Alignment explanation
Indices: 54829--54870 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54819 TTCTGGTTCG
* *
54829 TTTGAGGGGGTATCGGTTCCC
1 TTTGAAGGGGTATCGATTCCC
*
54850 TTTGAATGGGTATCGATTCCC
1 TTTGAAGGGGTATCGATTCCC
54871 CTTGCCCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (21 bp):
TTTGAAGGGGTATCGATTCCC
Found at i:56742 original size:30 final size:30
Alignment explanation
Indices: 56708--56822 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 30
56698 TCGAATTAGC
* *
56708 ACTATAGTGTATAAGGACACTTGGTACAAT
1 ACTATAGTGTGTAAGGACACTTAGTACAAT
* *
56738 ACTATAGTGTGTAAAGATACTTAGTACAAT
1 ACTATAGTGTGTAAGGACACTTAGTACAAT
* * * ** * *
56768 ATTGTAGTGTGTAAGGACGCACAGTGCAAC
1 ACTATAGTGTGTAAGGACACTTAGTACAAT
* * *
56798 ACTGTGGTGTGTAAGGGCACTTAGT
1 ACTATAGTGTGTAAGGACACTTAGT
56823 GTATATGGTA
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (30 bp):
ACTATAGTGTGTAAGGACACTTAGTACAAT
Found at i:57225 original size:27 final size:27
Alignment explanation
Indices: 57195--57247 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
57185 CATCAAGGAA
57195 TATTTTCAGGTAACAATAATGACATCC
1 TATTTTCAGGTAACAATAATGACATCC
*
57222 TATTTTCAGGTAACAATAATGTCATC
1 TATTTTCAGGTAACAATAATGACATC
57248 TTATGTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (27 bp):
TATTTTCAGGTAACAATAATGACATCC
Found at i:63449 original size:2 final size:2
Alignment explanation
Indices: 63442--63473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
63432 TTTAAATTCA
63442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63474 GAATTGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63783 original size:3 final size:3
Alignment explanation
Indices: 63775--63805 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
63765 GTTAAACCCC
*
63775 CTT CTT CTT CTT CTT CTT CTT CCT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
63806 CATTCCCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:64402 original size:3 final size:3
Alignment explanation
Indices: 64394--64425 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
64384 ACGGGAATAG
64394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
64426 GGGGGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:75425 original size:22 final size:21
Alignment explanation
Indices: 75400--75440 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
75390 TATAAAAAAT
75400 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
75422 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
75441 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:79029 original size:3 final size:3
Alignment explanation
Indices: 79016--79066 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
79006 GTTTTTATTC
79016 AAT AA- AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
79061 AAT AAT
1 AAT AAT
79067 CTAATATTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:79045 original size:11 final size:11
Alignment explanation
Indices: 79016--79072 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
79006 GTTTTTATTC
*
79016 AATAAAATAAT
1 AATAATATAAT
79027 AATAATAATAAT
1 AATAAT-ATAAT
79039 AAT-ATAATAAT
1 AATAAT-ATAAT
79050 AATAATATAAT
1 AATAATATAAT
*
79061 AATAATCTAAT
1 AATAATATAAT
79072 A
1 A
79073 TTCATTTGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 32 0.76
12 10 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATATAAT
Found at i:79045 original size:14 final size:14
Alignment explanation
Indices: 79016--79066 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
79006 GTTTTTATTC
79016 AATAA-AATAATAAT
1 AATAATAATAAT-AT
79030 AATAATAATAATAT
1 AATAATAATAATAT
79044 AATAATAATAATAT
1 AATAATAATAATAT
79058 AATAATAAT
1 AATAATAAT
79067 CTAATATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 30 0.83
15 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:79045 original size:17 final size:17
Alignment explanation
Indices: 79016--79066 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
79006 GTTTTTATTC
*
79016 AATAAAATAATAATAAT
1 AATAATATAATAATAAT
79033 AATAATA-ATATAATAAT
1 AATAATATA-ATAATAAT
79050 AATAATATAATAATAAT
1 AATAATATAATAATAAT
79067 CTAATATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATATAATAATAAT
Found at i:79727 original size:34 final size:34
Alignment explanation
Indices: 79687--79755 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
79677 TAATCATTTT
* *
79687 TATATTTATACTGA-ATTTCATTGTTCTAAAATTA
1 TATATTTATACT-ATATTTAATTATTCTAAAATTA
79721 TATATTTATACTATATTTAATTATTCTAAAATTA
1 TATATTTATACTATATTTAATTATTCTAAAATTA
79755 T
1 T
79756 TGCTTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (34 bp):
TATATTTATACTATATTTAATTATTCTAAAATTA
Found at i:81771 original size:37 final size:36
Alignment explanation
Indices: 81698--81773 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
81688 ACTTACTAAA
81698 TTAACTGGGATTCAAATACAATATTTTAAATATTTT
1 TTAACTGGGATTCAAATACAATATTTTAAATATTTT
81734 TTAACTGGGATTCAAATACAATAATTTT-AATATTTT
1 TTAACTGGGATTCAAATACAAT-ATTTTAAATATTTT
81770 TTAA
1 TTAA
81774 TATCAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.87
37 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (36 bp):
TTAACTGGGATTCAAATACAATATTTTAAATATTTT
Found at i:84849 original size:32 final size:32
Alignment explanation
Indices: 84808--84879 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
84798 CGCAGCATCC
84808 GCAACCGCGACACCGCAACTGCGACAGATACA
1 GCAACCGCGACACCGCAACTGCGACAGATACA
* *
84840 GCAACCGCGACACCGCAACTGCGACAGATGCC
1 GCAACCGCGACACCGCAACTGCGACAGATACA
84872 GCAACCGC
1 GCAACCGC
84880 TGTTTTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.40, G:0.24, T:0.06
Consensus pattern (32 bp):
GCAACCGCGACACCGCAACTGCGACAGATACA
Found at i:84875 original size:18 final size:17
Alignment explanation
Indices: 84804--84876 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 17
84794 CGTCCGCAGC
*
84804 ATCCGCAACCGCGAC--
1 ATCCGCAACTGCGACAG
84819 A-CCGCAACTGCGACAG
1 ATCCGCAACTGCGACAG
* *
84835 ATACAGCAACCGCGAC--
1 AT-CCGCAACTGCGACAG
84851 A-CCGCAACTGCGACAG
1 ATCCGCAACTGCGACAG
84867 ATGCCGCAAC
1 AT-CCGCAAC
84877 CGCTGTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
14 23 0.51
15 1 0.02
16 3 0.07
18 18 0.40
ACGTcount: A:0.32, C:0.40, G:0.22, T:0.07
Consensus pattern (17 bp):
ATCCGCAACTGCGACAG
Done.