Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003501.1 Hibiscus syriacus cultivar Beakdansim tig00007399_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: 92574
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:7351 original size:35 final size:36
Alignment explanation
Indices: 7261--7344 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 36
7251 TGCACAATCA
*
7261 TCAATTACATTCTAAACCCCAAAATCCAAAAAATACT
1 TCAATTACATTCTAAACCTCAAAATCC-AAAAATACT
*
7298 TCAATTACATTCTAAACCTCAAATTCC-AAAATACT
1 TCAATTACATTCTAAACCTCAAAATCCAAAAATACT
7333 TCAATTACATTC
1 TCAATTACATTC
7345 CCAACCTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 20 0.44
37 25 0.56
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (36 bp):
TCAATTACATTCTAAACCTCAAAATCCAAAAATACT
Found at i:10031 original size:32 final size:31
Alignment explanation
Indices: 9957--10044 Score: 149
Period size: 31 Copynumber: 2.8 Consensus size: 31
9947 AAGAGTCGAG
9957 GGTTACCTATGTCCTTCGGGACATATGGACA
1 GGTTACCTATGTCCTTCGGGACATATGGACA
* *
9988 GGTTACCTATGTCATTTGGGACATATGGACA
1 GGTTACCTATGTCCTTCGGGACATATGGACA
10019 GGATTACCTATGTCCTTCGGGACATA
1 GG-TTACCTATGTCCTTCGGGACATA
10045 GATTTCATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 31 0.60
32 21 0.40
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGACATATGGACA
Found at i:11508 original size:27 final size:26
Alignment explanation
Indices: 11459--11516 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 26
11449 TTCACATTCA
11459 TGTATCACATAAATTTTCACTTTTACT
1 TGTATCACATAAATTTTCAC-TTTACT
11486 CTGTATCACAT-AATTTTCACTTTACT
1 -TGTATCACATAAATTTTCACTTTACT
11512 TGTAT
1 TGTAT
11517 TTTTTTTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 5 0.17
26 6 0.20
27 9 0.30
28 10 0.33
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.48
Consensus pattern (26 bp):
TGTATCACATAAATTTTCACTTTACT
Found at i:12174 original size:30 final size:30
Alignment explanation
Indices: 12138--12197 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
12128 ATGTATCGAT
12138 GCATCCCTTAACATGTGCATCGATGCACTA
1 GCATCCCTTAACATGTGCATCGATGCACTA
12168 GCATCCCTTAACATGTGCATCGATGCACTA
1 GCATCCCTTAACATGTGCATCGATGCACTA
12198 CCATGCATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (30 bp):
GCATCCCTTAACATGTGCATCGATGCACTA
Found at i:15518 original size:18 final size:18
Alignment explanation
Indices: 15495--15545 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15485 CATAGAATTT
* *
15495 TGTCTCGAATGACCATTA
1 TGTCTCGAAGGACCACTA
*
15513 TGTCTCGTAGGACCACTA
1 TGTCTCGAAGGACCACTA
* *
15531 TGTCCCGTAGGACCA
1 TGTCTCGAAGGACCA
15546 ATGATAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (18 bp):
TGTCTCGAAGGACCACTA
Found at i:16893 original size:21 final size:21
Alignment explanation
Indices: 16867--16922 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
16857 TCTTGGTGTT
*
16867 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAACCTTTCC
16888 TTAAGCTTATAT-ACCTTTCC
1 TTAAGCTTATATAACCTTTCC
16908 TTAAGCTTATATAAC
1 TTAAGCTTATATAAC
16923 ACCCAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAACCTTTCC
Found at i:20408 original size:18 final size:18
Alignment explanation
Indices: 20367--20399 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20357 TTTCTTCAAT
20367 TATATTTATTATAAAATA
1 TATATTTATTATAAAATA
20385 TATATTT-TT-TAAAAT
1 TATATTTATTATAAAAT
20400 TAGTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTTATTATAAAATA
Found at i:25701 original size:2 final size:2
Alignment explanation
Indices: 25694--25722 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25684 TAGCTCACTC
25694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25723 GGTGAGACTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27374 original size:20 final size:20
Alignment explanation
Indices: 27351--27388 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27341 AGTTTTCGAA
*
27351 TTCGCAGCAAGAATTTACAT
1 TTCGCAACAAGAATTTACAT
*
27371 TTCGCAACACGAATTTAC
1 TTCGCAACAAGAATTTAC
27389 CAAATTCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGCAACAAGAATTTACAT
Found at i:27414 original size:20 final size:20
Alignment explanation
Indices: 27389--27450 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
27379 ACGAATTTAC
*
27389 CAAATTCGTAACTCAATTTT
1 CAAATTCGCAACTCAATTTT
**
27409 CAAATTCGCAACTCGAATTCG
1 CAAATTCGCAACTC-AATTTT
*
27430 CTAATTTCGCAACTCAATTTT
1 C-AAATTCGCAACTCAATTTT
27451 ACCGTATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.38
21 9 0.26
22 12 0.35
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (20 bp):
CAAATTCGCAACTCAATTTT
Found at i:27417 original size:42 final size:42
Alignment explanation
Indices: 27371--27450 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
27361 GAATTTACAT
* *
27371 TTCGCAACACGAATTTACCAAATTCGTAACTCAATTTTCAAA
1 TTCGCAACACGAATTCACCAAATTCGCAACTCAATTTTCAAA
* * * *
27413 TTCGCAACTCGAATTCGCTAATTTCGCAACTCAATTTT
1 TTCGCAACACGAATTCACCAAATTCGCAACTCAATTTT
27451 ACCGTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (42 bp):
TTCGCAACACGAATTCACCAAATTCGCAACTCAATTTTCAAA
Found at i:28577 original size:20 final size:19
Alignment explanation
Indices: 28554--28600 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
28544 CGATATACCA
28554 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
28574 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
28594 GGTAAAA
1 GGTAAAA
28601 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:28676 original size:181 final size:182
Alignment explanation
Indices: 28342--28814 Score: 682
Period size: 181 Copynumber: 2.6 Consensus size: 182
28332 GATCCAAATT
* * * * *
28342 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * * * **
28406 AAAACCGGTAAAGCGCTACCAGATACATTTAAAATGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTT
* * *
28471 TGTGAATTTAAAAGAGAAGCAGTTTTAAG-TCCTATAAAGTGTCGATACTTTTA
130 TGTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTACAAAGTGTCGATACTTTAA
* *
28524 AAAAATGTATCGATCCACAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
*
28589 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCAATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTTT
*
28653 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTACAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTAA
* * * *
28705 AAAAATATATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
*
28770 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCAATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTT
28815 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 2 0.01
181 167 0.64
182 93 0.35
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTTT
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTAA
Found at i:28754 original size:20 final size:20
Alignment explanation
Indices: 28726--28773 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
28716 GATCCACAAC
*
28726 GATATAACAAGTA-AAAATAT
1 GATAAAACAAGTATAAAA-AT
* *
28746 GATAAAACAGGTATCAAAAT
1 GATAAAACAAGTATAAAAAT
28766 GATAAAAC
1 GATAAAAC
28774 CGGTAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.21
Consensus pattern (20 bp):
GATAAAACAAGTATAAAAAT
Found at i:31009 original size:21 final size:21
Alignment explanation
Indices: 30983--31047 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
30973 AAGACAATCA
*
30983 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
31004 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
31025 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
31046 AG
1 AG
31048 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:31123 original size:33 final size:33
Alignment explanation
Indices: 31081--31146 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31071 AAATAGATGG
*
31081 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
31114 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
31147 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:34973 original size:79 final size:79
Alignment explanation
Indices: 34842--34999 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
34832 CAGCTGAAGC
34842 AGCTAAGATGGGGTCAGCTGAGTGGTGAGGGTTGCTGGCGAAGCCTTTTCTTCCGCTGATAACGG
1 AGCTAAGATGGGGTCAGCTGAGTGGTGAGGGTTGCTGGCGAAGCCTTTTCTTCCGCTGATAACGG
34907 CTCTAAAGAAGCCA
66 CTCTAAAGAAGCCA
34921 AGCTAAGATGGGGTCAGCTGAGTGGTGAGGGTTGCTGGCGAAGCCTTTTCTTCCGCTGATAACGG
1 AGCTAAGATGGGGTCAGCTGAGTGGTGAGGGTTGCTGGCGAAGCCTTTTCTTCCGCTGATAACGG
34986 CTCTAAAGAAGCCA
66 CTCTAAAGAAGCCA
35000 CAACCGGCAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (79 bp):
AGCTAAGATGGGGTCAGCTGAGTGGTGAGGGTTGCTGGCGAAGCCTTTTCTTCCGCTGATAACGG
CTCTAAAGAAGCCA
Found at i:38270 original size:26 final size:23
Alignment explanation
Indices: 38245--38292 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
38235 AAAAAGTATA
* *
38245 ATAACATACTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
38268 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
38291 AT
1 AT
38293 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:38803 original size:23 final size:23
Alignment explanation
Indices: 38768--38863 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
38758 ATAATTTACA
* *
38768 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
38791 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
38814 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
38837 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
38860 ATAT
1 ATAT
38864 TTTTACCTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:39307 original size:23 final size:23
Alignment explanation
Indices: 39281--39353 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
39271 ATATTTTACA
**
39281 ATATAAGCATTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
39304 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
39327 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
39350 ATAT
1 ATAT
39354 TTTTACCTAT
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:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:42503 original size:183 final size:183
Alignment explanation
Indices: 42192--43497 Score: 2298
Period size: 183 Copynumber: 7.1 Consensus size: 183
42182 TACTTAAAAT
*
42192 TACCGACACAATATTAAAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTAT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTAT
*
42257 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATG
65 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATG
* *
42322 TCGACACTTTTTGACAAT-GTATCGATACATTTTTCTTCCAATCTGGACATAAAG
130 TCGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
42376 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
42441 TTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
42506 CGATACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
42559 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
42624 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* *
42689 CGACACTTTTTGACAAT-GTTTCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
42742 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
42807 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
42872 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
42925 TTCCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATCCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
42990 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
43055 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
43108 TTCCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
43173 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
43238 CGACACTTTTTTAAATGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
43290 TTCCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
43355 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAA
* *
43420 --TCGACACTTTTTTAAATGGTATCGATACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
43474 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAAAAAGTGT
43498 GAAAACTTTG
Statistics
Matches: 1083, Mismatches: 32, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
182 150 0.14
183 846 0.78
184 83 0.08
185 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:44709 original size:3 final size:3
Alignment explanation
Indices: 44701--44778 Score: 84
Period size: 3 Copynumber: 26.0 Consensus size: 3
44691 ACTTGTTTGG
* * * *
44701 ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AAC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
44749 TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
44779 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:44779 original size:12 final size:12
Alignment explanation
Indices: 44702--44795 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
44692 CTTGTTTGGA
* *
44702 TCATCATCATCA
1 TCATCGTCATCT
* *
44714 TCATCATCATCA
1 TCATCGTCATCT
* *
44726 TCGTCATCATCT
1 TCATCGTCATCT
*
44738 TCATCGTCAACT
1 TCATCGTCATCT
*
44750 TCATCGTCATCA
1 TCATCGTCATCT
44762 TCATCGTCATCT
1 TCATCGTCATCT
*
44774 TCATCGTCAGCT
1 TCATCGTCATCT
*
44786 TCATCTTCAT
1 TCATCGTCAT
44796 TGACCGCTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 71 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:44804 original size:18 final size:18
Alignment explanation
Indices: 44732--44795 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
44722 ATCATCGTCA
* *
44732 TCATCTTCATCGTCAACT
1 TCATCTTCATCGACAGCT
* * *
44750 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
44768 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
44786 TCATCTTCAT
1 TCATCTTCAT
44796 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:46605 original size:200 final size:200
Alignment explanation
Indices: 46301--47034 Score: 1324
Period size: 200 Copynumber: 3.7 Consensus size: 200
46291 TTATATACCA
* *
46301 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTAAATATTACATTGTACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* * *
46366 TTGGTTTTCGATATTTTTGGGATTGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCA
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
46431 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
46496 GACAT
196 GACAT
46501 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* * *
46566 TTGGCTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCA
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
46631 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
46696 GACAT
196 GACAT
46701 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
46766 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
* * *
46831 TGTTTTCCATTCATTTTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTAGTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
46896 GACAT
196 GACAT
*
46901 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* * *
46966 TTGGTTTTCGAAGTTTTTGGGATCGACACTTTTTATATATTGTTCGACACTTTATGGTTGCACCA
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
47031 TGTT
131 TGTT
47035 GGCCATATTG
Statistics
Matches: 516, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 516 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTA
GACAT
Found at i:47164 original size:18 final size:18
Alignment explanation
Indices: 47141--47201 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
47131 TCTCATTCAT
*
47141 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
47159 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
47178 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
47197 AATTA
1 AATTA
47202 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:47177 original size:19 final size:19
Alignment explanation
Indices: 47153--47201 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
47143 TTATATTCAC
47153 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
47172 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
47191 ATACAAAATTA
1 ATACAAAATTA
47202 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:48191 original size:31 final size:31
Alignment explanation
Indices: 48156--48217 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48146 GAAAAAATGA
48156 AAAGACGACAAAAGTAGAAACAGATGAATTG
1 AAAGACGACAAAAGTAGAAACAGATGAATTG
48187 AAAGACGACAAAAGTAGAAACAGATGAATTG
1 AAAGACGACAAAAGTAGAAACAGATGAATTG
48218 GGTACTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.10, G:0.23, T:0.13
Consensus pattern (31 bp):
AAAGACGACAAAAGTAGAAACAGATGAATTG
Found at i:48577 original size:16 final size:16
Alignment explanation
Indices: 48553--48613 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
48543 TAATAAATAA
48553 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
48569 ACAAACATAAACGAAC
1 ACGAACATAAACGAAC
*
48585 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
48601 ACGAACATAAACG
1 ACGAACATAAACG
48614 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:50184 original size:24 final size:24
Alignment explanation
Indices: 50123--50184 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
50113 TATTAGGTTA
*
50123 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
* *
50147 AACATAACTAAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
50171 AACATAACCGAACG
1 AACATAACTGAACG
50185 TTCACGAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:51191 original size:35 final size:35
Alignment explanation
Indices: 51109--51253 Score: 229
Period size: 35 Copynumber: 4.1 Consensus size: 35
51099 CCATTATCAT
* * *
51109 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAACCA
*
51144 TTTTTCAAAGAAATATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
51180 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
51215 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
51250 TTTT
1 TTTT
51254 TTCAAAGTTG
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
35 73 0.71
36 11 0.11
37 19 0.18
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:51269 original size:35 final size:36
Alignment explanation
Indices: 51108--51287 Score: 196
Period size: 35 Copynumber: 5.1 Consensus size: 36
51098 CCCATTATCA
* *
51108 TTTTTCAACA-AACATCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACATTTACCAAACTTTGAAAACCAT
*
51143 ATTTTTCAAAGAAATATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACATTTACCAAACTTTGAAAACCAT
51180 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 TTTTTCAAAG-AACATTTACCAAACTTTGAAAACCAT
51215 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACATTTACCAAACTTTGAAAACCAT
****
51251 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACATTTACCAAACTTTGAAAACCAT
51285 TTT
1 TTT
51288 AATAATTTCA
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
34 14 0.11
35 79 0.60
36 8 0.06
37 30 0.23
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACATTTACCAAACTTTGAAAACCAT
Found at i:55326 original size:16 final size:16
Alignment explanation
Indices: 55302--55333 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55292 TATCGCCGAC
*
55302 CGAATTTTACTATTCA
1 CGAAATTTACTATTCA
55318 CGAAATTTACTATTCA
1 CGAAATTTACTATTCA
55334 TGTGAATAGT
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:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (16 bp):
CGAAATTTACTATTCA
Found at i:55828 original size:35 final size:35
Alignment explanation
Indices: 55746--55890 Score: 229
Period size: 35 Copynumber: 4.1 Consensus size: 35
55736 CCATTATTAT
* * *
55746 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAACCA
55781 TTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
55817 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
*
55852 TTTTCAAAGAAATATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
55887 TTTT
1 TTTT
55891 TTCAAAGTTG
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
35 73 0.70
36 11 0.11
37 20 0.19
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:55906 original size:35 final size:34
Alignment explanation
Indices: 55761--55924 Score: 197
Period size: 35 Copynumber: 4.7 Consensus size: 34
55751 AACAAACATC
* *
55761 TACCAAACTTTGAAAAACTATTTTTCAAAGAAACATT
1 TACCAAACTTTG-AAAACCA-TTTTCAAAG-AATATT
*
55798 TACCAAACTTTGAAAACCATTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTCAAAG-AATATT
55833 TACCAAACTTTGAAAACCATTTTCAAAGAAATATT
1 TACCAAACTTTGAAAACCATTTTCAAAG-AATATT
* **
55868 TACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACCA--TTTTCAAAGAATATT
55903 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
55925 AATAATTTCA
Statistics
Matches: 120, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
32 4 0.03
34 10 0.08
35 79 0.66
36 6 0.05
37 21 0.17
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (34 bp):
TACCAAACTTTGAAAACCATTTTCAAAGAATATT
Found at i:60332 original size:27 final size:27
Alignment explanation
Indices: 60301--60362 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
60291 TCATATCTCC
60301 GCTTCTTGCCAGCTCGGATGATCTCAG
1 GCTTCTTGCCAGCTCGGATGATCTCAG
60328 GCTTCTTGCCAGCTCGGATGATCTCAG
1 GCTTCTTGCCAGCTCGGATGATCTCAG
*
60355 GCATCTTG
1 GCTTCTTG
60363 GGCTTAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.29, G:0.26, T:0.31
Consensus pattern (27 bp):
GCTTCTTGCCAGCTCGGATGATCTCAG
Found at i:63039 original size:9 final size:9
Alignment explanation
Indices: 63025--63050 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
63015 GTTGTTTGCT
63025 AGCTGCTTC
1 AGCTGCTTC
63034 AGCTGCTTC
1 AGCTGCTTC
63043 AGCTGCTT
1 AGCTGCTT
63051 GGGTGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.31, G:0.23, T:0.35
Consensus pattern (9 bp):
AGCTGCTTC
Found at i:68933 original size:31 final size:31
Alignment explanation
Indices: 68897--68956 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
68887 AAGAGTTTGG
68897 GAGTTCCTAATGAGAAGGACATATTGAATGA
1 GAGTTCCTAATGAGAAGGACATATTGAATGA
*
68928 GAGTTCCTAGTGAGAAGGACATATTGAAT
1 GAGTTCCTAATGAGAAGGACATATTGAAT
68957 TCACCGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (31 bp):
GAGTTCCTAATGAGAAGGACATATTGAATGA
Found at i:72385 original size:31 final size:31
Alignment explanation
Indices: 72331--72426 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
72321 GAACCTCGAC
* * *
72331 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* *
72362 AACTATTCATATGTCCCGTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
*
72393 AACTGTCCATATGTCCCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
72424 AAC
1 AAC
72427 CCTCGACTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 1 0.02
31 55 0.98
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:80070 original size:16 final size:17
Alignment explanation
Indices: 80045--80083 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
80035 AAGTTGTTTC
*
80045 TAATTATTTTT-ATAAT
1 TAATTATTTTTAAAAAT
*
80061 TAATTTTTTTTAAAAAT
1 TAATTATTTTTAAAAAT
80078 TAATTA
1 TAATTA
80084 AATTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTATTTTTAAAAAT
Found at i:81112 original size:23 final size:24
Alignment explanation
Indices: 81086--81133 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
81076 ATTTATTCGT
81086 TGCAACAGGGGA-TTTCGAAACCA
1 TGCAACAGGGGAGTTTCGAAACCA
* *
81109 TGCATCAGGGGAGTTTTGAAACCA
1 TGCAACAGGGGAGTTTCGAAACCA
81133 T
1 T
81134 AAGAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (24 bp):
TGCAACAGGGGAGTTTCGAAACCA
Found at i:86286 original size:60 final size:60
Alignment explanation
Indices: 86222--86344 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
86212 ATTTCCTGAT
* *
86222 TATAGGATATTACTTTGCTGAGTCACAT-GACTATCAAAAGTTACAAAATGGTCCCTCGAC
1 TATAGGATATTACTTTGCTGAGTC-CATCGACTATCAAAAATTACAAAATGGTCACTCGAC
* * * * * *
86282 TATAGGGTGTTGCTTTGTTGAGTCCATCGACTATTAAAAATTATAAAATGGTCACTCGAC
1 TATAGGATATTACTTTGCTGAGTCCATCGACTATCAAAAATTACAAAATGGTCACTCGAC
86342 TAT
1 TAT
86345 TCATTATGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 3 0.06
60 51 0.94
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (60 bp):
TATAGGATATTACTTTGCTGAGTCCATCGACTATCAAAAATTACAAAATGGTCACTCGAC
Found at i:87859 original size:22 final size:21
Alignment explanation
Indices: 87833--87886 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 21
87823 TAAAATATAT
* *
87833 ATTTTAAAAAATAATATCTTAA
1 ATTTTAAAAAAAAAT-TATTAA
87855 ATTTTGTAAAAAAAAATTATTAA
1 A-TTT-TAAAAAAAAATTATTAA
87878 ATTTTAAAA
1 ATTTTAAAA
87887 CTATGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.18
22 4 0.14
23 9 0.32
24 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTTAAAAAAAAATTATTAA
Found at i:87877 original size:23 final size:24
Alignment explanation
Indices: 87837--87882 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
87827 ATATATATTT
* *
87837 TAAAAAATAATATCTTAAATTTTG
1 TAAAAAAAAATATATTAAATTTTG
87861 TAAAAAAAAAT-TATTAAATTTT
1 TAAAAAAAAATATATTAAATTTT
87883 AAAACTATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TAAAAAAAAATATATTAAATTTTG
Done.