Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007195.1 Hibiscus syriacus cultivar Beakdansim tig00018966_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: 58454
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1097 original size:2 final size:2
Alignment explanation
Indices: 1090--1118 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1080 TTGTTATACC
1090 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
1119 TTCCTCCCAA
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:16213 original size:18 final size:18
Alignment explanation
Indices: 16190--16230 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16180 TAAATTATAA
16190 TTTAAAGATTATTTTT-AT
1 TTTAAAGATT-TTTTTAAT
*
16208 TTTAAATATTTTTTTAAT
1 TTTAAAGATTTTTTTAAT
16226 TTTAA
1 TTTAA
16231 TTCTTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTAAAGATTTTTTTAAT
Found at i:17453 original size:20 final size:19
Alignment explanation
Indices: 17393--17455 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
17383 CGAGTCAACC
* *
17393 TGACCCAACCCATTGACTT
1 TGACCCAACTCGTTGACTT
***
17412 TGACTTGACTCGTTGACTT
1 TGACCCAACTCGTTGACTT
17431 TGACCCAACTCGTTGACCTT
1 TGACCCAACTCGTTGA-CTT
17451 TGACC
1 TGACC
17456 GGTATAACCG
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 27 0.77
20 8 0.23
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (19 bp):
TGACCCAACTCGTTGACTT
Found at i:19966 original size:64 final size:63
Alignment explanation
Indices: 19892--20101 Score: 219
Period size: 65 Copynumber: 3.3 Consensus size: 63
19882 TGCACTAAGA
* *
19892 GTGCACCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGG-TG
* ** *
19956 GTGCATCGATGCATCAAATGCATTCGATGTTTTTATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATATCCAGAGTGCATCGATGCATGGT-
*
20020 T
63 G
* ** *
20021 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT-ATCCA-GAGTGCATCGATGCATGG--
20084 TG
62 TG
*
20086 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
20102 CTCTGAAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 47 0.39
65 65 0.54
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGGTG
Found at i:27693 original size:65 final size:65
Alignment explanation
Indices: 27560--27719 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
27550 TGCACTAAGA
* *
27560 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * *
27624 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
27687 AT
65 -G
* *
27689 GTGCATCGATGCATGAAATGCTTTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
27720 CAATTTAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 29 0.34
65 53 0.62
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:28110 original size:35 final size:35
Alignment explanation
Indices: 28007--28116 Score: 100
Period size: 35 Copynumber: 3.1 Consensus size: 35
27997 GTTTTCAACA
* * *
28007 CTTATATATGTTCAGACCGATTGAACTAGT-ATTT
1 CTTATATAGGTTCAGACCGATCGAACTTGTAATTT
** * *
28041 CCTTATGGCAGGTTCAG-CTCAATC-AAATTGGTAATTT
1 -CTTAT-ATAGGTTCAGAC-CGATCGAACTT-GTAATTT
28078 CTTATATAGGTTCAGACCGATCGAACTTGTAATTT
1 CTTATATAGGTTCAGACCGATCGAACTTGTAATTT
28113 CTTA
1 CTTA
28117 CAGATCTATG
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
35 32 0.55
36 22 0.38
37 4 0.07
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (35 bp):
CTTATATAGGTTCAGACCGATCGAACTTGTAATTT
Found at i:29844 original size:16 final size:17
Alignment explanation
Indices: 29807--29846 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
29797 TGGTTAACTC
29807 CCCCAATTTTCCCAAATT
1 CCCCAATTTT-CCAAATT
*
29825 CCCCAATTTT-CAATTT
1 CCCCAATTTTCCAAATT
29841 CCCCAA
1 CCCCAA
29847 ACCCTAGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (17 bp):
CCCCAATTTTCCAAATT
Found at i:32253 original size:35 final size:34
Alignment explanation
Indices: 32214--32346 Score: 95
Period size: 35 Copynumber: 3.8 Consensus size: 34
32204 AAGTCTTTGC
* *
32214 AGGTTCAGCTCGATCAAACTGGTAATTCTTTTTAT
1 AGGTTCAAC-CGATCAAACTGGTAATTCTTTCTAT
* * * * ***
32249 AGGTTTAGACCGATCGAACAGGTAATTCCTTACGGC
1 AGGTTCA-ACCGATCAAACTGGTAATT-CTTTCTAT
* * * *
32285 AGGTTCAACTTGACCAAACTGGTAATTCCTTGTAT
1 AGGTTCAAC-CGATCAAACTGGTAATTCTTTCTAT
*
32320 AGGTTAAAACCGATCAAACTGGTAATT
1 AGGTT-CAACCGATCAAACTGGTAATT
32347 TATTACGGAT
Statistics
Matches: 71, Mismatches: 23, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
35 45 0.63
36 26 0.37
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (34 bp):
AGGTTCAACCGATCAAACTGGTAATTCTTTCTAT
Found at i:32332 original size:71 final size:71
Alignment explanation
Indices: 32212--32346 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
32202 TAAAGTCTTT
* * * * * * *
32212 GCAGGTTCAGCTCGATCAAACTGGTAATTCTTTTTATAGGTTTAGACCGATCGAACAGGTAATTC
1 GCAGGTTCAACTCGACCAAACTGGTAATTCCTTGTATAGGTTAAAACCGATCAAACAGGTAATTC
32277 CTTACG
66 CTTACG
* *
32283 GCAGGTTCAACTTGACCAAACTGGTAATTCCTTGTATAGGTTAAAACCGATCAAACTGGTAATT
1 GCAGGTTCAACTCGACCAAACTGGTAATTCCTTGTATAGGTTAAAACCGATCAAACAGGTAATT
32347 TATTACGGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (71 bp):
GCAGGTTCAACTCGACCAAACTGGTAATTCCTTGTATAGGTTAAAACCGATCAAACAGGTAATTC
CTTACG
Found at i:34005 original size:120 final size:119
Alignment explanation
Indices: 33861--34085 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 119
33851 TATATTAATT
* * *
33861 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAA-GGACTTCTAGGTGCC
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCC
* *
33925 TTAAGAC-AGCTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAAATAATAA
66 TTAAGACTA-C-CCTTTC-TTAATATTAAAAAATAAATAAATAATTAAAAATAATAA
** * *
33981 TATATA-ATTTATAAAATATGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGC
* *
34045 TTTAAGACTACCCTTTCTTAATATTGAAAAATAAATAAATA
65 CTTAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATA
34086 TATATTAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
119 28 0.31
120 44 0.48
121 18 0.20
122 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCC
TTAAGACTACCCTTTCTTAATATTAAAAAATAAATAAATAATTAAAAATAATAA
Found at i:34195 original size:3 final size:3
Alignment explanation
Indices: 34180--34219 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
34170 TATTTATATA
*
34180 AAT AAT AAA AAT AAT AAT AAT AAAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
34220 TTGCAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:34200 original size:15 final size:16
Alignment explanation
Indices: 34180--34217 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
34170 TATTTATATA
34180 AATAATAAA-AATAAT
1 AATAATAAATAATAAT
34195 AATAATAAATAATAAT
1 AATAATAAATAATAAT
34211 AA-AATAA
1 AATAATAA
34218 TATTGCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:34204 original size:13 final size:12
Alignment explanation
Indices: 34180--34219 Score: 64
Period size: 13 Copynumber: 3.3 Consensus size: 12
34170 TATTTATATA
34180 AATAATAAAAAT
1 AATAATAAAAAT
34192 AATAATAATAAAT
1 AATAATAA-AAAT
34205 AATAAT-AAAAT
1 AATAATAAAAAT
34216 AATA
1 AATA
34220 TTGCAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.30
12 9 0.33
13 10 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:34704 original size:9 final size:11
Alignment explanation
Indices: 34674--34706 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
34664 TCTCTCATTT
34674 TTCTTTCTCTC
1 TTCTTTCTCTC
34685 TTCTTTCTCTC
1 TTCTTTCTCTC
34696 TTCTTTCTCTC
1 TTCTTTCTCTC
34707 AAATGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTTTCTCTC
Found at i:36776 original size:338 final size:336
Alignment explanation
Indices: 35871--36961 Score: 1324
Period size: 338 Copynumber: 3.2 Consensus size: 336
35861 CCTTATGCAG
35871 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * * **
35935 TGAAC-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAGGTTTTACCAAATTC
66 TGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTCAAGCAAAAGG-TTGAACAAGCTC
* * * ** * *
35999 TTCTT-ATTATGGATTTTTTCTTTCTTCTTCATATGAGTTCTTCTCATTATGAACTCTAACTGGA
130 TT-TTCATTATGAACTTCTTC-TTCTT-TAGATA-GAGTTCTTCTCATTATGAACTCTACCTGGC
* * * * * *
36063 AATGTTAATGCTGATC-TAT-A-G-AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
191 AATGTTGAT-C-CATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
* * *
36124 TTCTTCTTCC-TCTTCATATAAGTTCTTCTCATTATGAAC-CT-TCTGGCAACGATGATCCATCG
254 TTCTTCTTCCTTCTTCATATAAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCG
*
36186 AATGATGAATTCGAGCAA
319 AATGATGAATTAGAGCAA
* * *
36204 AAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * *
36269 TGAACTTTTTCTGGAAATGTTAATGCTGATCTATCTTCTTATGTGATAGAGTCAAGTAAAAGGTT
66 TGAACTTTCTCTGG-AA----AA-GCTGATC---CATC-GA-GTGATGGATTCAAGCAAAAGGTT
* *
36334 GAACAAGCTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATA-AGTTCTTCTCATTATGAACT
120 GAACAAGCTCTTTTCATTATGAA---CTTCTTCTTCTTTAGATAGAGTTCTTCTCATTATGAACT
36398 CTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCAT
182 CTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCAT
* *
36463 TATGAACTTCTTCTTCCTTCTTCATATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCGGA
247 TATGAACTTCTTCTTCCTTCTTCATATAAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGA
* * *
36528 TCCATCAAATGATGGATTTGAGCAA
312 TCCATCGAATGATGAATTAGAGCAA
* *
36553 AAGGTTGAACAAGCTCTTTTCATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* **
36618 TGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCT
66 TGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTCAAGCAAAAGGTTGAACAAGCTCT
*
36683 TTTCATTATGAACTTCTTCTTCTTTAGATGACGAGTTTTTCTCATTATGAACTCTACCTGGCAAT
131 TTTCATTATGAACTTCTTCTTCTTTAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGCAAT
* * *
36748 GTTGATCCATCAAATGATGAATTTAAACAAAATGTTGAACAAGTTATTCTCATTATGAACTTCTT
194 GTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
* * * * * *
36813 CTTCCTTCTTCAGATGAGTTCTTCTCATTATAAACTTGAC-CTGGCAATGCTGATCCATCGAGTG
259 CTTCCTTCTTCATATAAGTTCTTCTCATTATGAACTT-TCTCTGGCAAAGCTGATCCATCGAATG
* *
36877 ATGAATTAAAGTAA
323 ATGAATTAGAGCAA
* * * *
36891 AAGGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
36956 TGAACT
66 TGAACT
36962 CTACCTGGTA
Statistics
Matches: 651, Mismatches: 79, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
333 38 0.06
334 28 0.04
335 23 0.04
336 3 0.00
338 261 0.40
339 2 0.00
340 5 0.01
341 6 0.01
342 3 0.00
343 9 0.01
344 42 0.06
345 19 0.03
346 65 0.10
347 34 0.05
348 8 0.01
349 105 0.16
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (336 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTCAAGCAAAAGGTTGAACAAGCTCT
TTTCATTATGAACTTCTTCTTCTTTAGATAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGT
TGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCATATAAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCGAATGATG
AATTAGAGCAA
Found at i:36787 original size:225 final size:228
Alignment explanation
Indices: 35871--36979 Score: 1204
Period size: 225 Copynumber: 4.9 Consensus size: 228
35861 CCTTATGCAG
35871 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * *
35935 TGAAC-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAGGTTTTACCAAATTC
66 TGAACTTTCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGG-TTGAACAAGTTC
* * * * *
35999 TTCTT-ATTATGGATTTTTTCTTTCTTCTTCAT-ATGAGTTCTTCTCATTATGAACTCTAACTGG
130 TT-TTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTACCTGG
* * *
36062 AAATGTTAATGCTGATC-TAT-A-G-AGTCAAGCAA
194 AAATGTTGAT-CTCATCAAATGATGAAGTCAAGCAA
*
36094 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCATATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * *
36158 TGAAC-CT-TCTGGCAACGATGATCCATCGAATGATGAATTCGAGCAAAAGGTTGAATAAGTTCT
66 TGAACTTTCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCT
* * **
36221 TCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTTTTCTGGAA
131 TTTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTACCTGGAA
* ** *
36285 ATGTTAATGCTGATCTATCTTCTTATG-TGATAGAGTCAAGTAA
196 ATG----T--TGATC--TCATCAAATGATG--A-AGTCAAGCAA
*
36328 AAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * * *
36392 TGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTC
66 TGAACT-TTCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTC
* * *
36456 TTCTCATTATGAACTTCTTCTTCCTTCTTCAT-ATAAGTTCTTCTCATTATGAACT-TTCTCTGG
130 TTTTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTAC-CTGG
* ** * * **
36519 AAAAGCGGATC-CATCAAATGATGGATTTGAGCAA
194 AAATGTTGATCTCATCAAATGATGAAGTCAAGCAA
* *
36553 AAGGTTGAACAAGCTCTTTTCATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * ** *
36618 TGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCT
66 TGAACTTTCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCT
** * * *
36683 TTTCATTATGAACTTCTTCTT-CTT-TAGATGACGAGTTTTTCTCATTATGAACTCTACCTGGCA
131 TTTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTACCTGGAA
* * *
36746 ATGTTGATC-CATCAAATGATGAATTTAAACAA
196 ATGTTGATCTCATCAAATGATGAAGTCAAGCAA
* * * *
36778 AATGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * *
36843 TAAACTTGAC-CTGGCAATGCTGATCCATCGAGTGATGAATTAAAGTAAAAGGTTGAACAAGTTC
66 TGAACTT-TCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTC
*
36907 TTCTT-ATTATAAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTCTACCTGG
130 TT-TTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTACCTGG
* *
36970 TAATGCTGAT
194 AAATGTTGAT
36980 GACCCGAAGG
Statistics
Matches: 756, Mismatches: 98, Indels: 61
0.83 0.11 0.07
Matches are distributed among these distances:
220 1 0.00
221 65 0.09
222 38 0.05
223 69 0.09
224 3 0.00
225 227 0.30
226 145 0.19
227 11 0.01
228 5 0.01
229 3 0.00
230 5 0.01
233 1 0.00
234 74 0.10
235 2 0.00
236 107 0.14
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (228 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
TGAACTTTCTCTGGCAAAGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCT
TTTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTACCTGGAA
ATGTTGATCTCATCAAATGATGAAGTCAAGCAA
Found at i:36968 original size:113 final size:113
Alignment explanation
Indices: 35871--36979 Score: 1137
Period size: 113 Copynumber: 9.8 Consensus size: 113
35861 CCTTATGCAG
35871 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* *
35935 TGAACT-T-CTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA-CAA
66 TGAACTCTAC-CTGGAAATGCTGATCCATCGAATGATGAATT-AAAGCAA
* * ** * * * * * * *
35982 AAGGTTTTACCAAATTCTTCTTATTATGGATTTTTTCTTTCTTCTTCATATGAGTTCTTCTCATT
1 AAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* * * * * * *
36047 ATGAACTCTAACTGGAAATGTTAATGC-T-G-ATCTAT-AGAGTCAAGCAA
65 ATGAACTCTACCTGGAAATGCTGATCCATCGAAT-GATGA-ATTAAAGCAA
*
36094 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCATATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * **
36158 TGAAC-CT-TCTGGCAACGATGATCCATCGAATGATGAATTCGAGCAA
66 TGAACTCTACCTGGAAATGCTGATCCATCGAATGATGAATTAAAGCAA
* * *
36204 AAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* ** * ** * * *
36269 TGAACTTTTTCTGGAAATGTTAATGCTGATCTATCTTCTTATG-TGATAGAGTCAAGTAA
66 TGAACTCTACCTGG--A----AATGCTGATC---CATCGAATGATG--A-ATTAAAGCAA
*
36328 AAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * *
36392 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAA-CAA
66 TGAACTCTACCTGGAAATGCTGATCCATCGAATGATGAA-TTAAAGCAA
*
36440 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * **
36505 TGAACT-TTCTCTGGAAAAGCGGATCCATCAAATGATGGATTTGAGCAA
66 TGAACTCTAC-CTGGAAATGCTGATCCATCGAATGATGAATTAAAGCAA
* *
36553 AAGGTTGAACAAGCTCTTTTCATTATGAACTTTTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * * * **
36618 TGAACT-TTCTCTGGAAAAGCTAATCCATCGAGTGATGGATTTGAGCAA
66 TGAACTCTAC-CTGGAAATGCTGATCCATCGAATGATGAATTAAAGCAA
* *
36666 AAGGTTGAACAAGCTCTTTTCATTATGAACTTCTTCTT-C-T-TT-AGATGACGAGTTTTTCTCA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCA
* * *
36727 TTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAA-CAA
63 TTATGAACTCTACCTGGAAATGCTGATCCATCGAATGATGAA-TTAAAGCAA
* * * *
36778 AATGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * *
36843 TAAACT-TGACCTGGCAATGCTGATCCATCGAGTGATGAATTAAAGTAA
66 TGAACTCT-ACCTGGAAATGCTGATCCATCGAATGATGAATTAAAGCAA
* * * *
36891 AAGGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
*
36956 TGAACTCTACCTGGTAATGCTGAT
66 TGAACTCTACCTGGAAATGCTGAT
36980 GACCCGAAGG
Statistics
Matches: 843, Mismatches: 112, Indels: 84
0.81 0.11 0.08
Matches are distributed among these distances:
108 11 0.01
109 7 0.01
110 80 0.09
111 67 0.08
112 170 0.20
113 374 0.44
114 22 0.03
115 4 0.00
116 4 0.00
117 9 0.01
119 8 0.01
121 2 0.00
122 6 0.01
123 37 0.04
124 42 0.05
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
TGAACTCTACCTGGAAATGCTGATCCATCGAATGATGAATTAAAGCAA
Found at i:37103 original size:76 final size:76
Alignment explanation
Indices: 36977--37208 Score: 383
Period size: 76 Copynumber: 3.1 Consensus size: 76
36967 TGGTAATGCT
36977 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
37042 TAGGACTTACA
66 TAGGACTTACA
* * * *
37053 GATGACCCTAAGGCTTTGAAAACATCAAAAAACTCCTGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* * *
37118 CAGTACATACA
66 TAGGACTTACA
* *
37129 GATGGCCCGAAGGTTTTAAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
37194 TAGGACTTACA
66 TAGGACTTACA
37205 GATG
1 GATG
37209 TGGGAAATAG
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 140 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
TAGGACTTACA
Found at i:37905 original size:23 final size:22
Alignment explanation
Indices: 37866--37940 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
37856 AATAAAGCTT
* *
37866 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTTAAAAGAGAATCTA
37888 TCATCTTTTAAAAAGAGAATCTA
1 TCATCTTTT-AAAAGAGAATCTA
* *
37911 TCATCTTTTAAGAGAAAATCTA
1 TCATCTTTTAAAAGAGAATCTA
37933 TCATCTTT
1 TCATCTTT
37941 GAAGAATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 27 0.56
23 21 0.44
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (22 bp):
TCATCTTTTAAAAGAGAATCTA
Found at i:42688 original size:16 final size:17
Alignment explanation
Indices: 42669--42713 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
42659 TTCCTTTTTT
*
42669 TTTTTATTTTTTC-TCA
1 TTTTTACTTTTTCATCA
*
42685 TTTTTCCTTTTTCATCA
1 TTTTTACTTTTTCATCA
*
42702 TTTTTTCTTTTT
1 TTTTTACTTTTT
42714 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTACTTTTTCATCA
Found at i:42688 original size:17 final size:18
Alignment explanation
Indices: 42668--42714 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
42658 TTTCCTTTTT
*
42668 TTTTTTATTTTTTC-TCA
1 TTTTTTCTTTTTTCATCA
*
42685 -TTTTTCCTTTTTCATCA
1 TTTTTTCTTTTTTCATCA
42702 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
42715 TTCTTTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 11 0.44
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTTTTTCATCA
Found at i:42712 original size:46 final size:47
Alignment explanation
Indices: 42655--42743 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
42645 CCCCTTTTTC
* * *
42655 TTTTTTCCTTTTTTTTTTTATTTTTTCT-CATTTTTCCTTTTTCATCA
1 TTTTTTCCTTTTTTTTCTT-TCTTTGCTGCATTTTTCCTTTTTCATCA
*
42702 TTTTTT-CTTTTTTTTCTTTCTTTGCTGGATTTTTCCTTTTTC
1 TTTTTTCCTTTTTTTTCTTTCTTTGCTGCATTTTTCCTTTTTC
42744 TTTCTTTGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 6 0.16
46 25 0.68
47 6 0.16
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (47 bp):
TTTTTTCCTTTTTTTTCTTTCTTTGCTGCATTTTTCCTTTTTCATCA
Found at i:45596 original size:12 final size:12
Alignment explanation
Indices: 45561--45608 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
45551 GGAAATATGA
*
45561 AAATGTAAATAC
1 AAATGTAAATGC
*
45573 AAACGTAAAAATGC
1 AAATGT--AAATGC
45587 AAATGTAAATGC
1 AAATGTAAATGC
45599 AAATGTAAAT
1 AAATGTAAAT
45609 ATATGAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 21 0.68
14 10 0.32
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.23
Consensus pattern (12 bp):
AAATGTAAATGC
Found at i:45617 original size:26 final size:25
Alignment explanation
Indices: 45561--45620 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
45551 GGAAATATGA
45561 AAATGTAAATACAAACGTAAAAATG
1 AAATGTAAATACAAACGTAAAAATG
* *
45586 CAAATGTAAATGCAAATGTAAATATATG
1 -AAATGTAAATACAAACGTAAA-A-ATG
45614 -AATGTAA
1 AAATGTAA
45621 CAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 26 0.87
27 1 0.03
28 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (25 bp):
AAATGTAAATACAAACGTAAAAATG
Found at i:45701 original size:7 final size:7
Alignment explanation
Indices: 45667--45708 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
45657 ATAAGAGTAT
45667 AAATGCA
1 AAATGCA
* *
45674 CAATGAA
1 AAATGCA
45681 AAATGCA
1 AAATGCA
45688 AAGATGCA
1 AA-ATGCA
45696 AAATGC-
1 AAATGCA
45702 AAATGCA
1 AAATGCA
45709 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:47177 original size:20 final size:20
Alignment explanation
Indices: 47152--47212 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
47142 ATAAATAATG
47152 AAATAAAATATTTGAAAATA
1 AAATAAAATATTTGAAAATA
* ***
47172 AAATAAAAAATAAAAAAATA
1 AAATAAAATATTTGAAAATA
*
47192 TAAT-AAATATTATGAAAATA
1 AAATAAAATATT-TGAAAATA
47212 A
1 A
47213 TAAGTAATAA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AAATAAAATATTTGAAAATA
Found at i:47936 original size:120 final size:119
Alignment explanation
Indices: 47735--47959 Score: 283
Period size: 120 Copynumber: 1.9 Consensus size: 119
47725 TATATTAATT
* * * *
47735 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAAGATCAGAAAATGACATCCAGGTGCCT
* *
47800 TAAGACAACTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAAATAATAA
66 TAAGACAACTCCTTTC-TTAATATTAAAAAATAAATAAATAATTAAAAATAATAA
** * *
47855 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAAGATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAAGATCAGAAAAT-GACATCCAGGTGC
* ** *
47919 TTTAAGACTGC-CCTTTCTTAATATTGAAAAATAAATAAATA
64 CTTAAGACAACTCCTTTCTTAATATTAAAAAATAAATAAATA
47960 TATATTAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 28 0.31
120 44 0.49
121 17 0.19
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAAGATCAGAAAATGACATCCAGGTGCCT
TAAGACAACTCCTTTCTTAATATTAAAAAATAAATAAATAATTAAAAATAATAA
Found at i:48067 original size:3 final size:3
Alignment explanation
Indices: 48052--48091 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
48042 TATTTATATA
*
48052 AAT AAT AAA AAT AAT AAT AAT AAAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
48092 TTGCAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:48072 original size:15 final size:16
Alignment explanation
Indices: 48052--48089 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
48042 TATTTATATA
48052 AATAATAAA-AATAAT
1 AATAATAAATAATAAT
48067 AATAATAAATAATAAT
1 AATAATAAATAATAAT
48083 AA-AATAA
1 AATAATAA
48090 TATTGCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:48076 original size:13 final size:12
Alignment explanation
Indices: 48052--48091 Score: 64
Period size: 13 Copynumber: 3.3 Consensus size: 12
48042 TATTTATATA
48052 AATAATAAAAAT
1 AATAATAAAAAT
48064 AATAATAATAAAT
1 AATAATAA-AAAT
48077 AATAAT-AAAAT
1 AATAATAAAAAT
48088 AATA
1 AATA
48092 TTGCAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.30
12 9 0.33
13 10 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:48575 original size:11 final size:11
Alignment explanation
Indices: 48559--48588 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
48549 CTCATTTTTC
48559 TTTCTCTCTTA
1 TTTCTCTCTTA
*
48570 TTTCTCTCTTC
1 TTTCTCTCTTA
48581 TTTCTCTC
1 TTTCTCTC
48589 AAATGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTCTCTCTTA
Found at i:49411 original size:15 final size:16
Alignment explanation
Indices: 49373--49413 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
49363 TGTTTGTAAT
* *
49373 AATATTTATTAATACA
1 AATATTAATAAATACA
49389 AATA-TAATAAATA-A
1 AATATTAATAAATACA
49403 AATATTAATAA
1 AATATTAATAA
49414 TATTGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATTAATAAATACA
Found at i:52907 original size:15 final size:16
Alignment explanation
Indices: 52873--52904 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52863 ATTTTAACTG
*
52873 ATTATTTTTTTATAAA
1 ATTATTTTTTAATAAA
52889 ATTATTTTTTAATAAA
1 ATTATTTTTTAATAAA
52905 TTAAGGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTTTTTAATAAA
Found at i:53365 original size:13 final size:13
Alignment explanation
Indices: 53347--53371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53337 TAATTGAACG
53347 GTCTTCATATGCA
1 GTCTTCATATGCA
53360 GTCTTCATATGC
1 GTCTTCATATGC
53372 GCGTATGTAA
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:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (13 bp):
GTCTTCATATGCA
Done.