Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006481.1 Hibiscus syriacus cultivar Beakdansim tig00015717_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: 111668
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:33 original size:2 final size:2
Alignment explanation
Indices: 28--53 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18 GACTTTTTTA
28 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
54 TTTAAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2107 original size:120 final size:120
Alignment explanation
Indices: 1978--2341 Score: 577
Period size: 120 Copynumber: 3.0 Consensus size: 120
1968 ACAACTTTCA
* * * * *
1978 TTGGTTTCAGTCCAGATTCCTTCGTCGGCTTTAATGTCTCCTCATAGAACATCTCCTTACTTGGC
1 TTGGTTTCAGTTCTGCTTCCTTCATCGGCTTTAATGTCTCCTCATAGAACATATCCTTACTTGGC
* *
2043 TTCAGCTCTGCTTCCTTCTGCAGCTTTAATTCCTCCTCATAGATCATATCCTTAC
66 TTCAGCTCTGCTTCCTTCTTCGGCTTTAATTCCTCCTCATAGATCATATCCTTAC
2098 TTGGTTTCAGTTCTGCTTCCTTCATCGGCTTTAATGTCTCCTCATAGAACATATCCTTACTTGGC
1 TTGGTTTCAGTTCTGCTTCCTTCATCGGCTTTAATGTCTCCTCATAGAACATATCCTTACTTGGC
*
2163 TTCAGCTCTGCTTCCTTCTTCGGCTTTAATTCCTCCTCACAGATCATATCCTTAC
66 TTCAGCTCTGCTTCCTTCTTCGGCTTTAATTCCTCCTCATAGATCATATCCTTAC
* * * * *
2218 TCGGTTTCAGTTCTGCTTCCTTTATCGGCTTTAAAGCCTCCTCGTAGAACATATCCTTACTTGGC
1 TTGGTTTCAGTTCTGCTTCCTTCATCGGCTTTAATGTCTCCTCATAGAACATATCCTTACTTGGC
* *
2283 TTCAGCTCTGCATCCTTCTTCGGCTTTAATTCCTCCTCATAG-TACATATCCTTCC
66 TTCAGCTCTGCTTCCTTCTTCGGCTTTAATTCCTCCTCATAGAT-CATATCCTTAC
2338 TTGG
1 TTGG
2342 CCTCCAATCT
Statistics
Matches: 226, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
119 1 0.00
120 225 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.40
Consensus pattern (120 bp):
TTGGTTTCAGTTCTGCTTCCTTCATCGGCTTTAATGTCTCCTCATAGAACATATCCTTACTTGGC
TTCAGCTCTGCTTCCTTCTTCGGCTTTAATTCCTCCTCATAGATCATATCCTTAC
Found at i:2359 original size:60 final size:60
Alignment explanation
Indices: 1994--2342 Score: 479
Period size: 60 Copynumber: 5.8 Consensus size: 60
1984 TCAGTCCAGA
* *
1994 TTCCTTCGTCGGCTTTAATGT-CTCCTCATAGAACATCTCCTTACTTGGCTTCAGCTCTGC
1 TTCCTTCTTCGGCTTTAAT-TCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
* * * * *
2054 TTCCTTCTGCAGCTTTAATTCCTCCTCATAGATCATATCCTTACTTGGTTTCAGTTCTGC
1 TTCCTTCTTCGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
*
2114 TTCCTTCATCGGCTTTAATGT-CTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
1 TTCCTTCTTCGGCTTTAAT-TCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
* * * * *
2174 TTCCTTCTTCGGCTTTAATTCCTCCTCACAGATCATATCCTTACTCGGTTTCAGTTCTGC
1 TTCCTTCTTCGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
** *
2234 TTCCTT-TATCGGCTTTAAAGCCTCCTCGTAGAACATATCCTTACTTGGCTTCAGCTCTGC
1 TTCCTTCT-TCGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
* * *
2294 ATCCTTCTTCGGCTTTAATTCCTCCTCATAGTACATATCCTTCCTTGGC
1 TTCCTTCTTCGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTGGC
2343 CTCCAATCTA
Statistics
Matches: 251, Mismatches: 33, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
59 3 0.01
60 246 0.98
61 2 0.01
ACGTcount: A:0.17, C:0.31, G:0.13, T:0.40
Consensus pattern (60 bp):
TTCCTTCTTCGGCTTTAATTCCTCCTCATAGAACATATCCTTACTTGGCTTCAGCTCTGC
Found at i:3414 original size:67 final size:67
Alignment explanation
Indices: 3306--3508 Score: 388
Period size: 67 Copynumber: 3.0 Consensus size: 67
3296 ATGAGCCCTT
*
3306 ATAAGATTAAAAGTCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
1 ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
3371 AC
66 AC
3373 ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
1 ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
3438 AC
66 AC
*
3440 ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATACATAGAATCATAAA
1 ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
3505 AC
66 AC
3507 AT
1 AT
3509 TTAAGTACAA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 134 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (67 bp):
ATAAGATTAAAAGCCACTTAAGCTTTCAAATTCATTTGTTATATGCGCATAAATAGAATCATAAA
AC
Found at i:3804 original size:17 final size:17
Alignment explanation
Indices: 3774--3815 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
3764 ACTATCAATC
3774 AAAAAAATTCAAATAAG
1 AAAAAAATTCAAATAAG
*
3791 AAAAATAATT-AAATCAG
1 AAAAA-AATTCAAATAAG
3808 AAAAAAAT
1 AAAAAAAT
3816 GGGTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAAAAATTCAAATAAG
Found at i:8137 original size:19 final size:19
Alignment explanation
Indices: 8113--8149 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8103 ATGACCAACA
*
8113 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
8132 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
8150 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:8279 original size:20 final size:20
Alignment explanation
Indices: 8256--8403 Score: 201
Period size: 20 Copynumber: 7.3 Consensus size: 20
8246 GAATATGTAA
8256 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
8276 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* **
8296 ATCGCAACGCAATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
8316 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
**
8337 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
8357 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
8378 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
8398 ATCGCA
1 ATCGCA
8404 TCACTGAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
19 4 0.04
20 75 0.67
21 29 0.26
22 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:8322 original size:21 final size:21
Alignment explanation
Indices: 8296--8370 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
8286 GATTCTGACT
*
8296 ATCGCAACGCAATAATACGTG
1 ATCGCAACGCGATAATACGTG
**
8317 ATCGCAACGCGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACGTG
8337 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAATACGTG
8358 ATCGCAACGCGAT
1 ATCGCAACGCGAT
8371 TCTGACTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 27 0.59
22 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATAATACGTG
Found at i:8323 original size:61 final size:61
Alignment explanation
Indices: 8256--8403 Score: 203
Period size: 61 Copynumber: 2.4 Consensus size: 61
8246 GAATATGTAA
**
8256 ATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGAC-T-ATCGCAACGCAATAAT-ACGT
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAAT-ACGTGATCGCAACGCAATAATGAC-T
* **
8316 GATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCAATAATGACT
8378 ATCGCAACGCGATTCTGACTATCGCA
1 ATCGCAACGCGATTCTGACTATCGCA
8404 TCACTGAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
60 2 0.03
61 61 0.77
62 14 0.18
63 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCAATAATGACT
Found at i:8388 original size:41 final size:41
Alignment explanation
Indices: 8276--8390 Score: 221
Period size: 41 Copynumber: 2.8 Consensus size: 41
8266 GATTCTGACT
*
8276 ATCGCAACGCGATTCTGACTATCGCAACGCAATAATACGTG
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
8317 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
8358 ATCGCAACGCGATTCTGACTATCGCAACGCGAT
1 ATCGCAACGCGATTCTGACTATCGCAACGCGAT
8391 TCTGACTATC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
Found at i:11500 original size:18 final size:18
Alignment explanation
Indices: 11477--11511 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11467 AGCAAAAGGC
*
11477 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
11495 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
11512 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:11717 original size:20 final size:20
Alignment explanation
Indices: 11682--11926 Score: 199
Period size: 20 Copynumber: 12.8 Consensus size: 20
11672 TTACACATTC
* *
11682 ATTTGAATATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
11702 ATATGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
* * *
11722 ATATGACTATCGTAACGTGA
1 ATTTGACTATCGCAACGCGA
*
11742 ATTTAACTATCGCAA--CGA
1 ATTTGACTATCGCAACGCGA
** *
11760 A----AAAATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
11776 ATTTGACTATCGTAACGCGA
1 ATTTGACTATCGCAACGCGA
*
11796 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
11816 ATTTAACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
11836 ATTTGACTATCGCAA--AGA
1 ATTTGACTATCGCAACGCGA
**
11854 A----AAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
11870 ATTTGATTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * *
11890 ATTTGATTATCGCCACGGGA
1 ATTTGACTATCGCAACGCGA
11910 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
11927 AGAAAATCGC
Statistics
Matches: 177, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
14 15 0.08
16 7 0.04
18 6 0.03
20 149 0.84
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:11818 original size:74 final size:74
Alignment explanation
Indices: 11690--11832 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
11680 TCATTTGAAT
* *
11690 ATCACAACGCGAATATGACTATCGCAACGCAAATATGACTATCGTAACGTGAATTTAACTATCGC
1 ATCACAACGCGAATATGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTAACTATCGC
11755 AACGAAAAA
66 AACGAAAAA
* * *
11764 ATCACAACGCGAATTTGACTATCGTAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGC
1 ATCACAACGCGAATATGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTAACTATCGC
11829 AACG
66 AACG
11833 TGAATTTGAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (74 bp):
ATCACAACGCGAATATGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTAACTATCGC
AACGAAAAA
Found at i:11845 original size:94 final size:94
Alignment explanation
Indices: 11682--11926 Score: 346
Period size: 94 Copynumber: 2.6 Consensus size: 94
11672 TTACACATTC
* * * * *
11682 ATTTGAATATCACAACGCGAATATGACTATCGCAACGCAAATATGACTATCGTAACGTGAATTTA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCAACGTGAATTTA
*
11747 ACTATCGCAACGAAAAAATCACAACGCGA
66 ACTATCGCAAAGAAAAAATCACAACGCGA
* * *
11776 ATTTGACTATCGTAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGTGAATTTG
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCAACGTGAATTTA
*
11841 ACTATCGCAAAGAAAAAATCGCAACGCGA
66 ACTATCGCAAAGAAAAAATCACAACGCGA
* * * * * *
11870 ATTTGATTATCGCAACACGAATTTGATTATCGCCACGGGAATTTGACTATCGCAACG
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCAACG
11927 AGAAAATCGC
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 133 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (94 bp):
ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGACTATCGCAACGTGAATTTA
ACTATCGCAAAGAAAAAATCACAACGCGA
Found at i:11867 original size:74 final size:73
Alignment explanation
Indices: 11784--11965 Score: 229
Period size: 74 Copynumber: 2.5 Consensus size: 73
11774 GAATTTGACT
* *
11784 ATCGTAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGTGAATTTGACTATCGC
1 ATCGCAACGCGAAT-TGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGACTATCGC
11849 AAAGAAAAA
65 AAAGAAAAA
* * * * *
11858 ATCGCAACGCGAATTTGATTATCGCAACACGAATTTGATTATCGCCACGGGAATTTGACTATCGC
1 ATCGCAACGCGAA-TTGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGACTATCGC
* *
11923 AACGAGAAA
65 AAAGAAAAA
* * *
11932 ATCGCAAAGTGTATTAGACTATCGCAACGCGAAT
1 ATCGCAACGCGAATT-GACTATCGCAACGCGAAT
11966 ATGATGCAGA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
73 2 0.02
74 89 0.97
75 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (73 bp):
ATCGCAACGCGAATTGACTATCGCAACGCGAATTTAACTATCGCAACGGGAATTTGACTATCGCA
AAGAAAAA
Found at i:11872 original size:34 final size:34
Alignment explanation
Indices: 11824--11958 Score: 117
Period size: 34 Copynumber: 3.8 Consensus size: 34
11814 GAATTTAACT
11824 ATCGCAACGTGAATTTGACTATCGCAAAGAAAAA
1 ATCGCAACGTGAATTTGACTATCGCAAAGAAAAA
* * **
11858 ATCGCAACGCGAATTTGATTATCGCAACACGAATTTGATT
1 ATCGCAACGTGAATTTGACTATCGCAA-A-GAA----AAA
* * * *
11898 ATCGCCACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGTGAATTTGACTATCGCAAAGAAAAA
* * *
11932 ATCGCAAAGTGTATTAGACTATCGCAA
1 ATCGCAACGTGAATTTGACTATCGCAA
11959 CGCGAATATG
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 48 0.61
35 1 0.01
36 3 0.04
38 2 0.03
40 25 0.32
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (34 bp):
ATCGCAACGTGAATTTGACTATCGCAAAGAAAAA
Found at i:13566 original size:21 final size:21
Alignment explanation
Indices: 13475--13570 Score: 102
Period size: 21 Copynumber: 4.6 Consensus size: 21
13465 AGAATGTTGG
* *
13475 GAGGGACCTCTTCAACGATGA
1 GAGGGGCCTCTTGAACGATGA
* *
13496 CAGGGGCCTCTTGAACGGTGA
1 GAGGGGCCTCTTGAACGATGA
* **
13517 GAGGGGACTCTTGAGGGATGA
1 GAGGGGCCTCTTGAACGATGA
* *
13538 TAGGGGCCTCTTGAACGATAA
1 GAGGGGCCTCTTGAACGATGA
*
13559 GAGAGGCCTCTT
1 GAGGGGCCTCTT
13571 ACGGAGTCTT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (21 bp):
GAGGGGCCTCTTGAACGATGA
Found at i:13570 original size:42 final size:42
Alignment explanation
Indices: 13491--13570 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
13481 CCTCTTCAAC
* * *
13491 GATGACAGGGGCCTCTTGAACGGTGAGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATAAGAGAGGACTCTTGAGG
* *
13533 GATGATAGGGGCCTCTTGAACGATAAGAGAGGCCTCTT
1 GATGACAGGGGCCTCTTGAACGATAAGAGAGGACTCTT
13571 ACGGAGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATAAGAGAGGACTCTTGAGG
Found at i:14107 original size:20 final size:20
Alignment explanation
Indices: 14039--14106 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
14029 GAAACTTAAA
14039 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
14059 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* *
14079 ATCACAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
14099 ATCGCAAC
1 ATCGCAAC
14107 GGGGTAATCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:14136 original size:19 final size:19
Alignment explanation
Indices: 14112--14178 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
14102 GCAACGGGGT
14112 AATCGCAATGCGAAAATCA
1 AATCGCAATGCGAAAATCA
***
14131 AATCGCAA--CG-GGGT--
1 AATCGCAATGCGAAAATCA
14145 AATCGCAATGCGAAAATCA
1 AATCGCAATGCGAAAATCA
*
14164 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
14179 CTAAATTCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
14 8 0.22
16 3 0.08
17 3 0.08
19 22 0.61
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAAATCA
Found at i:14139 original size:33 final size:33
Alignment explanation
Indices: 14099--14173 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
14089 GAAAATGACT
14099 ATCGCAACGGGGTAATCGCAATGCGAAAATCAA
1 ATCGCAACGGGGTAATCGCAATGCGAAAATCAA
14132 ATCGCAACGGGGTAATCGCAATGCGAAAATCAA
1 ATCGCAACGGGGTAATCGCAATGCGAAAATCAA
14165 ATCGCAACG
1 ATCGCAACG
14174 CGAAACTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAACGGGGTAATCGCAATGCGAAAATCAA
Found at i:14277 original size:20 final size:20
Alignment explanation
Indices: 14252--14323 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
14242 GATAATCAAA
14252 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
14272 TCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
14292 TTCACATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
14312 TTCGTGTTGCGA
1 TTCGCGTTGCGA
14324 CTATTTTTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:16241 original size:20 final size:20
Alignment explanation
Indices: 16212--16262 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16202 TCTGAGACTT
*
16212 AAAATTGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
*
16232 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACAAAAATG
**
16252 ATTATCGCAAC
1 AAAATCGCAAC
16263 GCGAATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:16705 original size:22 final size:21
Alignment explanation
Indices: 16679--16751 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 21
16669 GATGGAGATA
16679 GACGGATTTCACTAGAGATGGG
1 GACGGATTTC-CTAGAGATGGG
* *
16701 GACGGATTTCGCCAGAAATGGG
1 GACGGATTTC-CTAGAGATGGG
* *
16723 GACGAATTTCGTCAGAGATGGG
1 GACGGATTTCCT-AGAGATGGG
16745 GACGGAT
1 GACGGAT
16752 GTCGCCATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.21
Consensus pattern (21 bp):
GACGGATTTCCTAGAGATGGG
Found at i:16986 original size:22 final size:21
Alignment explanation
Indices: 16960--17005 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
16950 TATTCGCATT
*
16960 CGAATTTTCTAAAATCGCAATG
1 CGAA-TTTCGAAAATCGCAATG
*
16982 CGAATTTCGAAAATCGTAATG
1 CGAATTTCGAAAATCGCAATG
17003 CGA
1 CGA
17006 TGGTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
CGAATTTCGAAAATCGCAATG
Found at i:17075 original size:19 final size:19
Alignment explanation
Indices: 17051--17087 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17041 TGCGATAATG
* *
17051 GAGATCGCGTTGCGATTTC
1 GAGATCGCATTACGATTTC
17070 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
17088 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTC
Found at i:17696 original size:20 final size:19
Alignment explanation
Indices: 17671--17723 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
17661 ATTAAATCTC
*
17671 TATTTTTATTAAATAAAAA
1 TATTTTTAATAAATAAAAA
17690 TATTTTTAATAAATAAAAA
1 TATTTTTAATAAATAAAAA
17709 TATTTTTAATAAATA
1 TATTTTTAATAAATA
17724 TATTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTTTAATAAATAAAAA
Found at i:18057 original size:2 final size:2
Alignment explanation
Indices: 18044--18080 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18034 GTTCCGCGTC
*
18044 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18081 TAACTCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20351 original size:59 final size:60
Alignment explanation
Indices: 20228--20351 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 60
20218 TAATTTTGTG
*** *
20228 ACTTTTAATAGTTGAGGGACTCAACAAAGTAGCACCCTATAATTGGAGGACCATTTTGTA
1 ACTTTTAATAGTTGAGGGACTCAACAAAGTAGCACCCTATAATCACAGGACCATTGTGTA
* *
20288 ACTTTTAATAGTT-AGGGAACTCAA-AAAGTAGCACCTTATAGTCACAGG-CTCATTCGTGT-
1 ACTTTTAATAGTTGAGGG-ACTCAACAAAGTAGCACCCTATAATCACAGGAC-CATT-GTGTA
20347 ACTTT
1 ACTTT
20352 ACCCATTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
58 1 0.02
59 32 0.58
60 22 0.40
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (60 bp):
ACTTTTAATAGTTGAGGGACTCAACAAAGTAGCACCCTATAATCACAGGACCATTGTGTA
Found at i:23633 original size:13 final size:13
Alignment explanation
Indices: 23615--23639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23605 CAAAAATTTG
23615 TAATAATAATAAA
1 TAATAATAATAAA
23628 TAATAATAATAA
1 TAATAATAATAA
23640 TGTTAAATAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:23639 original size:19 final size:19
Alignment explanation
Indices: 23615--23658 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23605 CAAAAATTTG
23615 TAATAATAATAAATAATAA
1 TAATAATAATAAATAATAA
** *
23634 TAATAATGTTAAATATTAA
1 TAATAATAATAAATAATAA
23653 TAATAA
1 TAATAA
23659 CCCGGACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAATAATAATAAATAATAA
Found at i:31152 original size:65 final size:65
Alignment explanation
Indices: 30954--31157 Score: 211
Period size: 65 Copynumber: 3.2 Consensus size: 65
30944 TGCACTAAGA
* * * * * * * *
30954 GTGCATCGATGCATGAAGTACATTTGATATTTCAA-ACAAGCCA-GAGTGCATCAATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATA-AAACAATGAGTGCATCGATGCATGGTA
31017 T
65 T
* **
31018 GTGCATCGATGCATAAAATGCATTCGATGTTTTAATAAAACCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAACAATGAGTGCATCGATGCATGGTAT
* **
31083 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCAATG-GTGCATCGATGCATGG-A
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TAAAACAATGAGTGCATCGATGCATGGTA
31145 TT
65 -T
31147 GGTGCATCGAT
1 -GTGCATCGAT
31158 ACACTCCTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
63 1 0.01
64 54 0.45
65 65 0.54
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAAAACAATGAGTGCATCGATGCATGGTAT
Found at i:33843 original size:23 final size:22
Alignment explanation
Indices: 33812--33889 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
33802 GGCCTTGTGC
33812 ATCGATGCACATTCAATGAGTGA
1 ATCGATGCACATTCAATG-GTGA
* * *
33835 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAATGGTGA
* *
33856 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCACATTC-AATGG-TGA
33880 ATCGATGCAC
1 ATCGATGCAC
33890 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.33
22 3 0.07
23 15 0.33
24 12 0.27
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAATGGTGA
Found at i:39832 original size:65 final size:65
Alignment explanation
Indices: 39700--39859 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
39690 TGCACTAGGA
* * * * *
39700 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAACAAGCTAGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCTAGAGTGAATCGATGCATGGTAT
* *
39764 GTGCATCAATGCATAAAATGTATTCGATGTTTTCATAA-AACCCT-GAGTGAATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AACAA-CCTAGAGTGAATCGATGCATGGT
39827 AT
64 AT
* *
39829 GTGCATCGTTGCATAAAATGCATTCGGTGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
39860 CAATTTATTC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 25 0.30
65 53 0.65
66 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCTAGAGTGAATCGATGCATGGTAT
Found at i:39897 original size:20 final size:20
Alignment explanation
Indices: 39872--39921 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
39862 ATTTATTCAA
39872 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
39892 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
39912 TGGTGCATCG
1 TGGTGCATCG
39922 GTACACTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (20 bp):
TGGTGCATCGATGCATGGAT
Found at i:44387 original size:34 final size:34
Alignment explanation
Indices: 44349--44415 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
44339 GAAATGTGAG
*
44349 ATTACATTTGAGAATAAGTTTAATAGAATGTAAT
1 ATTACATTTGAGAATAAGATTAATAGAATGTAAT
* *
44383 ATTACATTTGAGAATAAGATTACTGGAATGTAA
1 ATTACATTTGAGAATAAGATTAATAGAATGTAA
44416 GAATGTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.36
Consensus pattern (34 bp):
ATTACATTTGAGAATAAGATTAATAGAATGTAAT
Found at i:45607 original size:23 final size:21
Alignment explanation
Indices: 45581--45656 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 21
45571 TAATATCTCC
45581 ATATATATTATTTTTTAAATTAA
1 ATATATATT-TTTTTTAAA-TAA
* *
45604 ATATATATTTTTATTGAATAA
1 ATATATATTTTTTTTAAATAA
* *
45625 AAATA-ATCTTTTTTAAATAA
1 ATATATATTTTTTTTAAATAA
45645 ATATATTATTTT
1 ATATA-TATTTT
45657 ATGCGAGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.37
21 7 0.16
22 11 0.26
23 9 0.21
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
ATATATATTTTTTTTAAATAA
Found at i:45614 original size:20 final size:20
Alignment explanation
Indices: 45583--45656 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
45573 ATATCTCCAT
45583 ATATATTATTTTTTAAATTAA
1 ATATATTATTTTTTAAA-TAA
*
45604 ATATA-TATTTTTATTGAATAA
1 ATATATTA-TTTT-TTAAATAA
* * *
45625 AAATAATCTTTTTTAAATAA
1 ATATATTATTTTTTAAATAA
45645 ATATATTATTTT
1 ATATATTATTTT
45657 ATGCGAGACA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 18 0.42
21 20 0.47
22 5 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
ATATATTATTTTTTAAATAA
Found at i:49356 original size:3 final size:3
Alignment explanation
Indices: 49348--49427 Score: 79
Period size: 3 Copynumber: 25.3 Consensus size: 3
49338 AACATGTAAA
*
49348 AAT AAT AAT CAGT AAT AAT AAT AAT AATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * *
49395 AATT ATT ATT ATT ATT AAT AAT AACT AAT AAT A
1 AA-T AAT AAT AAT AAT AAT AAT AA-T AAT AAT A
49428 TTTTTTGATC
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
3 59 0.86
4 10 0.14
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:49367 original size:16 final size:15
Alignment explanation
Indices: 49343--49397 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
49333 GCTGCAACAT
*
49343 GTAAAAATAATAATCA
1 GTAATAATAATAAT-A
49359 GTAATAATAATAATAA
1 GTAATAATAATAAT-A
*
49375 TTAATAATAATAATA
1 GTAATAATAATAATA
*
49390 ATAATAAT
1 GTAATAAT
49398 TATTATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
15 8 0.23
16 27 0.77
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
GTAATAATAATAATA
Found at i:49372 original size:19 final size:19
Alignment explanation
Indices: 49348--49394 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
49338 AACATGTAAA
*
49348 AATAATAATCAGTAATAAT
1 AATAATAATCAATAATAAT
*
49367 AATAATAATTAATAATAAT
1 AATAATAATCAATAATAAT
49386 AATAATAAT
1 AATAATAAT
49395 AATTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AATAATAATCAATAATAAT
Found at i:49385 original size:22 final size:22
Alignment explanation
Indices: 49360--49427 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
49350 TAATAATCAG
49360 TAATAATAATAATAATTAATAA
1 TAATAATAATAATAATTAATAA
* *
49382 TAATAATAATAATAATTATTAT
1 TAATAATAATAATAATTAATAA
* * *
49404 TATTATTAATAATAACTAATAA
1 TAATAATAATAATAATTAATAA
49426 TA
1 TA
49428 TTTTTTGATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAATAATAATAATTAATAA
Found at i:55114 original size:16 final size:17
Alignment explanation
Indices: 55084--55116 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55074 CTTGTTTTAG
*
55084 TATTTGATTTGTAATTT
1 TATTTGATTTATAATTT
55101 TATTT-ATTTATAATTT
1 TATTTGATTTATAATTT
55117 ACTCCTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TATTTGATTTATAATTT
Found at i:61547 original size:8 final size:8
Alignment explanation
Indices: 61519--61611 Score: 68
Period size: 8 Copynumber: 11.5 Consensus size: 8
61509 TGCTTGAAGA
*
61519 AAAAAAGG
1 AAAAAATG
*
61527 AACAAAT-
1 AAAAAATG
61534 AAAAAATG
1 AAAAAATG
61542 AAAAAAAATG
1 --AAAAAATG
61552 AAAAAA-G
1 AAAAAATG
*
61559 AAAAAAAGG
1 -AAAAAATG
*
61568 AAAAAAAG
1 AAAAAATG
61576 AAAAAATG
1 AAAAAATG
61584 ATGAAAAA--
1 A--AAAAATG
*
61592 AAGAAATG
1 AAAAAATG
61600 AAAAAATG
1 AAAAAATG
61608 AAAA
1 AAAA
61612 GAGAAAAAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
6 4 0.06
7 7 0.10
8 44 0.64
9 1 0.01
10 13 0.19
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:61556 original size:32 final size:33
Alignment explanation
Indices: 61519--61611 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 33
61509 TGCTTGAAGA
*
61519 AAAAAAGGAACAAATAAAAAATGAAAAAA-AATG
1 AAAAAA-GAAAAAATAAAAAATGAAAAAATAATG
* * *
61552 AAAAAAGAAAAAAAGGAAAAAAAGAAAAAATGATG
1 AAAAAAG-AAAAAA-TAAAAAATGAAAAAATAATG
*
61587 -AAAAA-AAGAAATGAAAAAATGAAAA
1 AAAAAAGAAAAAAT-AAAAAATGAAAA
61612 GAGAAAAAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
32 17 0.35
33 11 0.22
34 18 0.37
35 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (33 bp):
AAAAAAGAAAAAATAAAAAATGAAAAAATAATG
Found at i:61603 original size:41 final size:40
Alignment explanation
Indices: 61515--61619 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 40
61505 ACTATGCTTG
* *
61515 AAGAAAAAAAGGAACAAATAAAAAATGAAAAAAAATGAAAA
1 AAGAAAAAAAGGAAAAAAGAAAAAATGAAAAAAAATG-AAA
61556 AAGAAAAAAAGGAAAAAAAGAAAAAATGATGAAAAAAA-G-AA
1 AAGAAAAAAAGG-AAAAAAGAAAAAATGA--AAAAAAATGAAA
* * *
61597 ATG-AAAAAATGAAAAGAGAAAAA
1 AAGAAAAAAAGGAAAAAAGAAAAA
61620 GGAGGGTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 11 0.20
40 7 0.12
41 16 0.29
42 14 0.25
43 1 0.02
44 7 0.12
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (40 bp):
AAGAAAAAAAGGAAAAAAGAAAAAATGAAAAAAAATGAAA
Found at i:61619 original size:16 final size:17
Alignment explanation
Indices: 61517--61597 Score: 85
Period size: 17 Copynumber: 4.7 Consensus size: 17
61507 TATGCTTGAA
* *
61517 GAAAAAAAGGAACAAAT
1 GAAAAAAAGAAAAAAAT
*
61534 -AAAAAATGAAAAAAAAT
1 GAAAAAAAG-AAAAAAAT
*
61551 G-AAAAAAGAAAAAAAG
1 GAAAAAAAGAAAAAAAT
61567 GAAAAAAAGAAAAAATGAT
1 GAAAAAAAGAAAAAA--AT
61586 GAAAAAAAGAAA
1 GAAAAAAAGAAA
61598 TGAAAAAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
16 15 0.28
17 25 0.47
19 13 0.25
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAT
Found at i:62741 original size:130 final size:132
Alignment explanation
Indices: 62486--62820 Score: 446
Period size: 130 Copynumber: 2.5 Consensus size: 132
62476 GGAGGTGAAC
* *
62486 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGA-GAAAAAGTTCAT
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCA-TC-A-A-A-AGATGAAGAAGTTCAT
* *
62550 AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACACCTCGTTT
61 AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT
62615 GAGGGAT
126 GAGGGAT
** *
62622 TGACATTTTC-A-GGAGAGTTCATAATGAGAAGAACTCATCAAAAGATGAAGAAGTTCATAATGA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCAAAAGATGAAGAAGTTCATAATGA
* * **
62685 GAAGAGCTTGTTTGACCTATCACTTGATTCACGACATTTCGAATCAGTGATGCCTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGG
62750 AT
131 AT
* * * *
62752 CAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCATAA-ATG-AGAGAGTTTATAATG
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCAAAAGATGAAGA-AGTTCATAATG
62815 AGAAGA
65 AGAAGA
62821 ACTCATCCAA
Statistics
Matches: 177, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
129 2 0.01
130 88 0.50
131 21 0.12
132 30 0.17
133 2 0.01
134 26 0.15
135 1 0.01
136 7 0.04
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (132 bp):
CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCAAAAGATGAAGAAGTTCATAATGA
GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGG
AT
Found at i:62796 original size:19 final size:18
Alignment explanation
Indices: 62771--62823 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 18
62761 CAATGAAGAG
62771 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
*
62789 TATCATAAATGAG-AG-AGT
1 T-TCAT-AATGAGAAGAACT
62807 TT-ATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
62824 CATCCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 3 0.10
18 4 0.14
19 6 0.21
20 6 0.21
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (18 bp):
TTCATAATGAGAAGAACT
Found at i:76054 original size:16 final size:17
Alignment explanation
Indices: 76026--76057 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
76016 CATCTTTAGA
76026 GTAGAGATAGAGATGAT
1 GTAGAGATAGAGATGAT
76043 GTAGAG-TAGAGATGA
1 GTAGAGATAGAGATGA
76058 GGACTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.22
Consensus pattern (17 bp):
GTAGAGATAGAGATGAT
Found at i:76597 original size:22 final size:23
Alignment explanation
Indices: 76563--76606 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
76553 CGATCACCAC
76563 ATATGCATGTATG-CTTATTTTA
1 ATATGCATGTATGACTTATTTTA
* * *
76585 ATATTCATTTATGATTTATTTT
1 ATATGCATGTATGACTTATTTT
76607 TTTGCGTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (23 bp):
ATATGCATGTATGACTTATTTTA
Found at i:81028 original size:17 final size:17
Alignment explanation
Indices: 80996--81029 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
80986 GAACAGGATG
* *
80996 ATCCAAAATTATCTGAA
1 ATCCAAAATAACCTGAA
81013 ATCCAAAATAACCTGAA
1 ATCCAAAATAACCTGAA
81030 TTTTAGTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (17 bp):
ATCCAAAATAACCTGAA
Found at i:86351 original size:60 final size:60
Alignment explanation
Indices: 86265--86449 Score: 282
Period size: 60 Copynumber: 3.1 Consensus size: 60
86255 AGTATACAAG
** * * *
86265 TGGTCCTTATACTATAGGATGATGCTTTGTTGAGTCCGT-CGACTATTTAAAGTTACAAAA
1 TGGTCCTTCGACTATAGGGTGTTGCTTTGTTGAGTCC-TCCGACTATTAAAAGTTACAAAA
*
86325 TGGTCCTTCGACTATAGGGTGTTGCTTTGTTGAGTCATCCGACTATTAAAAGTTACAAAA
1 TGGTCCTTCGACTATAGGGTGTTGCTTTGTTGAGTCCTCCGACTATTAAAAGTTACAAAA
* *
86385 TGGTCCTTCGACTATAGGGTGTTGCATTGTTGAGTCCTCCGACTATCAAAAGTTACAAAA
1 TGGTCCTTCGACTATAGGGTGTTGCTTTGTTGAGTCCTCCGACTATTAAAAGTTACAAAA
86445 TGGTC
1 TGGTC
86450 ACTGCCTATT
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
59 1 0.01
60 114 0.99
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (60 bp):
TGGTCCTTCGACTATAGGGTGTTGCTTTGTTGAGTCCTCCGACTATTAAAAGTTACAAAA
Found at i:86428 original size:31 final size:31
Alignment explanation
Indices: 86327--86430 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 31
86317 TTACAAAATG
* *
86327 GTCCTTCGACTATAGGGTGTTGCTTTGTTGA
1 GTCCTCCGACTATAGGGTGTTGCATTGTTGA
* *** * ***
86358 GTCATCCGACTATTA-AAAGTTACA-AAATG-
1 GTCCTCCGACTA-TAGGGTGTTGCATTGTTGA
*
86387 GTCCTTCGACTATAGGGTGTTGCATTGTTGA
1 GTCCTCCGACTATAGGGTGTTGCATTGTTGA
86418 GTCCTCCGACTAT
1 GTCCTCCGACTAT
86431 CAAAAGTTAC
Statistics
Matches: 49, Mismatches: 20, Indels: 8
0.64 0.26 0.10
Matches are distributed among these distances:
28 2 0.04
29 15 0.31
30 4 0.08
31 26 0.53
32 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (31 bp):
GTCCTCCGACTATAGGGTGTTGCATTGTTGA
Found at i:88753 original size:21 final size:21
Alignment explanation
Indices: 88729--88779 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
88719 CTTATTCTTT
88729 TGATGAGTTACAAGTTGCTTA
1 TGATGAGTTACAAGTTGCTTA
88750 TGATGAGTTACAAGTTGCTTA
1 TGATGAGTTACAAGTTGCTTA
*
88771 TAATGAGTT
1 TGATGAGTT
88780 GTATTTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (21 bp):
TGATGAGTTACAAGTTGCTTA
Found at i:91080 original size:59 final size:58
Alignment explanation
Indices: 91007--91159 Score: 191
Period size: 58 Copynumber: 2.6 Consensus size: 58
90997 AACTTACTAA
* * * *
91007 ATAGTCG-AGTGATCATTTTGTAACTTTTAATAGTTGTGGATTTAACAAAGCAACAACCT
1 ATAGTCGAAG-GATCATTTTGTAACTTTTAATAGTCGTAGACTTAAC-AAGCAACAAACT
* * *
91066 ATAGTCGAAGGATCATTTTGTAACATTTAATAGTCGTATACTTAACAAGCATCAAACT
1 ATAGTCGAAGGATCATTTTGTAACTTTTAATAGTCGTAGACTTAACAAGCAACAAACT
* * *
91124 ATAGTTGAAGGATCATTTTGTAATTTTTAATGGTCG
1 ATAGTCGAAGGATCATTTTGTAACTTTTAATAGTCG
91160 AAGAACTCAA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
58 42 0.51
59 38 0.46
60 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (58 bp):
ATAGTCGAAGGATCATTTTGTAACTTTTAATAGTCGTAGACTTAACAAGCAACAAACT
Found at i:91144 original size:58 final size:59
Alignment explanation
Indices: 91007--91173 Score: 185
Period size: 59 Copynumber: 2.8 Consensus size: 59
90997 AACTTACTAA
* * * * *
91007 ATAGTCG-AGTGATCATTTTGTAACTTTTAATAGTTGTGGATTTAACAAAGCAACAACCT
1 ATAGTCGAAG-GATCATTTTGTAACATTTAATAGTCGTAGACTTAACAAAGCAACAAACT
* *
91066 ATAGTCGAAGGATCATTTTGTAACATTTAATAGTCGTATACTTAAC-AAGCATCAAACT
1 ATAGTCGAAGGATCATTTTGTAACATTTAATAGTCGTAGACTTAACAAAGCAACAAACT
* ** * * *
91124 ATAGTTGAAGGATCATTTTGTAATTTTTAATGGTCGAAGAACTCAACAAA
1 ATAGTCGAAGGATCATTTTGTAACATTTAATAGTCGTAG-ACTTAACAAA
91174 ATATCATCCC
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
58 43 0.47
59 44 0.48
60 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (59 bp):
ATAGTCGAAGGATCATTTTGTAACATTTAATAGTCGTAGACTTAACAAAGCAACAAACT
Found at i:98034 original size:2 final size:2
Alignment explanation
Indices: 98027--98055 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
98017 ATTTAGAATT
98027 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
98056 GATCTTAGGA
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:99652 original size:14 final size:14
Alignment explanation
Indices: 99633--99670 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
99623 ATTATAATTT
99633 TATCAAAATTAAAA
1 TATCAAAATTAAAA
*
99647 TATCAAAATCAAAA
1 TATCAAAATTAAAA
99661 TAT-AAAATTA
1 TATCAAAATTA
99671 TATAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (14 bp):
TATCAAAATTAAAA
Found at i:100817 original size:29 final size:29
Alignment explanation
Indices: 100774--100936 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
100764 GACCCGACCC
* *
100774 GGTGATATTTTTGTAAATATTTTTAAAAA
1 GGTGTTATTTTCGTAAATATTTTTAAAAA
*
100803 GGTGTTA-TTTCTGTAATTATTTTTAAAAA
1 GGTGTTATTTTC-GTAAATATTTTTAAAAA
* *
100832 GATGTTATTTTCGTAATTATTTTTAAAAA
1 GGTGTTATTTTCGTAAATATTTTTAAAAA
* *
100861 -GTGCTATTTTCGTAATTATTTTTAAAAA
1 GGTGTTATTTTCGTAAATATTTTTAAAAA
* *
100889 GATGCTATTTTCGTAAATATTTTTTAAAAAA
1 GGTGTTATTTTCGTAAATA-TTTTT-AAAAA
* *
100920 GCTGTTAGTTTCGTAAA
1 GGTGTTATTTTCGTAAA
100937 AGTTGACTCT
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
28 29 0.25
29 61 0.52
30 9 0.08
31 19 0.16
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (29 bp):
GGTGTTATTTTCGTAAATATTTTTAAAAA
Found at i:100868 original size:28 final size:29
Alignment explanation
Indices: 100779--100918 Score: 194
Period size: 29 Copynumber: 4.8 Consensus size: 29
100769 GACCCGGTGA
* * * *
100779 TATTTTTGTAAATATTTTTAAAAAGGTGT
1 TATTTTCGTAATTATTTTTAAAAAGATGC
*
100808 TA-TTTCTGTAATTATTTTTAAAAAGATGT
1 TATTTTC-GTAATTATTTTTAAAAAGATGC
100837 TATTTTCGTAATTATTTTTAAAAAG-TGC
1 TATTTTCGTAATTATTTTTAAAAAGATGC
100865 TATTTTCGTAATTATTTTTAAAAAGATGC
1 TATTTTCGTAATTATTTTTAAAAAGATGC
*
100894 TATTTTCGTAAATATTTTTTAAAAA
1 TATTTTCGTAATTA-TTTTTAAAAA
100919 AGCTGTTAGT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
28 30 0.29
29 58 0.57
30 14 0.14
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (29 bp):
TATTTTCGTAATTATTTTTAAAAAGATGC
Found at i:100885 original size:57 final size:58
Alignment explanation
Indices: 100779--100918 Score: 212
Period size: 57 Copynumber: 2.4 Consensus size: 58
100769 GACCCGGTGA
* * *
100779 TATTTTTGTAAATATTTTTAAAAAGGTGTTATTTCTGTAATTATTTTTAAAAAGATGT
1 TATTTTCGTAAATATTTTTAAAAAGGTGCTATTTCTGTAATTATTTTTAAAAAGATGC
*
100837 TATTTTCGTAATTATTTTTAAAAA-GTGCTATTT-TCGTAATTATTTTTAAAAAGATGC
1 TATTTTCGTAAATATTTTTAAAAAGGTGCTATTTCT-GTAATTATTTTTAAAAAGATGC
100894 TATTTTCGTAAATATTTTTTAAAAA
1 TATTTTCGTAAATA-TTTTTAAAAA
100919 AGCTGTTAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
56 1 0.01
57 42 0.56
58 32 0.43
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (58 bp):
TATTTTCGTAAATATTTTTAAAAAGGTGCTATTTCTGTAATTATTTTTAAAAAGATGC
Found at i:103780 original size:236 final size:237
Alignment explanation
Indices: 103355--103832 Score: 877
Period size: 236 Copynumber: 2.0 Consensus size: 237
103345 ACTATTACCT
* *
103355 TTATTCTGTTTTGATCACTCAAATATTTCTTTTAAATTATACCTAACATTACGTTTTTGGTTTCA
1 TTATTCCGTTTTGATCACTCAAATATTTCTTTTAAATTATACCTAACATTACGTTTTTAGTTTCA
103420 TATTCGTCATCCGTCGTTAAAAAATGAACACAAGTGTTGACGTTAAATTTTTAAGTTTTTTCAAA
66 TATTCGTCATCCGTCGTTAAAAAATGAACAC-A---TTGACGTTAAATTTTTAAGTTTTTTCAAA
*
103485 TTTATATTTTATTTTTAATAACATTCTCATTGAGTGTAGAACAAATTTGTACATAAACTTGTTCA
127 TTTATATTTTATTTTTAATAACATTCTCATTGAGTGTAGAACAAATGTGTACATAAACTTGTTCA
103550 ATATTAAGCTGTCAGATTAAATAAAATCAATAATTAATTTAGTTCA
192 ATATTAAGCTGTCAGATTAAATAAAATCAATAATTAATTTAGTTCA
103596 TTATTCCGTTTTGATCACTCAAATATTTCTTTTAAATTATACCTAACATTACGTTTTTAGTTTCA
1 TTATTCCGTTTTGATCACTCAAATATTTCTTTTAAATTATACCTAACATTACGTTTTTAGTTTCA
*
103661 TATTCGTCATCCGTCGTTAAAAAATTAACAC-TTGACGTTAAATTTTTAAGTTTTTTCAAATTTA
66 TATTCGTCATCCGTCGTTAAAAAATGAACACATTGACGTTAAATTTTTAAGTTTTTTCAAATTTA
103725 TATTTTATTTTTAATAACATTCTCATTGAGTGTAGAACAAATGTGTACATAAACTTGTTCAATAT
131 TATTTTATTTTTAATAACATTCTCATTGAGTGTAGAACAAATGTGTACATAAACTTGTTCAATAT
103790 TAAGCTGTCAGATTAAATAAAATCAATAATTAATTTAGTTCA
196 TAAGCTGTCAGATTAAATAAAATCAATAATTAATTTAGTTCA
103832 T
1 T
103833 GTGATAGCTA
Statistics
Matches: 233, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
236 140 0.60
241 93 0.40
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (237 bp):
TTATTCCGTTTTGATCACTCAAATATTTCTTTTAAATTATACCTAACATTACGTTTTTAGTTTCA
TATTCGTCATCCGTCGTTAAAAAATGAACACATTGACGTTAAATTTTTAAGTTTTTTCAAATTTA
TATTTTATTTTTAATAACATTCTCATTGAGTGTAGAACAAATGTGTACATAAACTTGTTCAATAT
TAAGCTGTCAGATTAAATAAAATCAATAATTAATTTAGTTCA
Found at i:107334 original size:16 final size:16
Alignment explanation
Indices: 107297--107331 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
107287 AAGTATATCT
107297 AAATATTTAATATATA
1 AAATATTTAATATATA
107313 AAATATTTATAATATATA
1 AAATA-TT-TAATATATA
107331 A
1 A
107332 TATCAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 2 0.12
18 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATATTTAATATATA
Found at i:107414 original size:54 final size:55
Alignment explanation
Indices: 107315--107428 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 55
107305 AATATATAAA
*
107315 ATATTTATAATATATAATATCAAGATTCTATACAAAAAAGAACTCATAATAAATAC
1 ATATTCATAATATATAATATCAAGATTCTATAC-AAAAAGAACTCATAATAAATAC
* *
107371 ATATTCATAATATATAATATCAAGATTTTATAC-AAAAGAACTCATTATAAATAC
1 ATATTCATAATATATAATATCAAGATTCTATACAAAAAGAACTCATAATAAATAC
107425 ATAT
1 ATAT
107429 AATAGTATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 24 0.44
56 31 0.56
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (55 bp):
ATATTCATAATATATAATATCAAGATTCTATACAAAAAGAACTCATAATAAATAC
Found at i:109962 original size:23 final size:23
Alignment explanation
Indices: 109936--109998 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
109926 CGGAGATATC
*
109936 AGAAATCAGAATAAAATTAAAGA
1 AGAAATCAGAAAAAAATTAAAGA
* * * * *
109959 AGAAATCATAACATAATTTAGAGC
1 AGAAATCAGAA-AAAAATTAAAGA
109983 AGAAATCAGAAAAAAA
1 AGAAATCAGAAAAAAA
109999 AATTCAGATA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.17
Consensus pattern (23 bp):
AGAAATCAGAAAAAAATTAAAGA
Done.