Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2030
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: 25241
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Found at i:659 original size:33 final size:33
Alignment explanation
Indices: 603--669 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
593 TTCAACGATT
*
603 TGTATCGATACATAAAGTGTTGTATCGGTACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
636 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
669 T
1 T
670 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:727 original size:31 final size:32
Alignment explanation
Indices: 688--786 Score: 123
Period size: 33 Copynumber: 3.1 Consensus size: 32
678 CTACCAAAAA
688 ATGTATCGATACATTACTCAAATGTA-CGATAC
1 ATGTATCGATACATTACTC-AATGTATCGATAC
720 -TGTATCGATACATTACTCAATGTATCGATAC
1 ATGTATCGATACATTACTCAATGTATCGATAC
* **
751 ATTGTATCGATACACTGA-TCTTTGTATCGATAC
1 A-TGTATCGATACA-TTACTCAATGTATCGATAC
784 ATG
1 ATG
787 CAGGCAAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
30 6 0.10
31 24 0.40
32 2 0.03
33 26 0.43
34 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACATTACTCAATGTATCGATAC
Found at i:758 original size:13 final size:13
Alignment explanation
Indices: 740--764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
730 CATTACTCAA
740 TGTATCGATACAT
1 TGTATCGATACAT
753 TGTATCGATACA
1 TGTATCGATACA
765 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:878 original size:51 final size:52
Alignment explanation
Indices: 753--900 Score: 201
Period size: 51 Copynumber: 2.9 Consensus size: 52
743 ATCGATACAT
** *
753 TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTCAATGTATCGATACATGCACGCAAATTTGCCCAGA
* ** *
805 TGTATCGATACATTATAAAATGTATCGATACATGCACGTAAA-TTGCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCACGCAAATTTGCCCAGA
*
856 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATTCAATGTATCGATACATGCACGCAAATTT
901 TCATATTTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 47 0.57
52 35 0.43
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCACGCAAATTTGCCCAGA
Found at i:14720 original size:1 final size:1
Alignment explanation
Indices: 14714--14761 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
14704 CGTCCTCCAC
* * * * *
14714 AAAAAAAAAACAAAACAAAAACAAAAAAAAAAACAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14762 GGGGTCCGGA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14728 original size:6 final size:6
Alignment explanation
Indices: 14712--14758 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
14702 GACGTCCTCC
*
14712 ACAAAA A-AAAA AC-AAA ACAAAA ACAAAA AAAAAA ACAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
14758 A
1 A
14759 AAAGGGGTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:14728 original size:11 final size:11
Alignment explanation
Indices: 14712--14758 Score: 67
Period size: 11 Copynumber: 4.1 Consensus size: 11
14702 GACGTCCTCC
14712 ACAAAAAAAAA
1 ACAAAAAAAAA
*
14723 ACAAAACAAAA
1 ACAAAAAAAAA
14734 ACAAAAAAAAAA
1 AC-AAAAAAAAA
14746 ACAAAAACAAAA
1 ACAAAAA-AAAA
14758 A
1 A
14759 AAAGGGGTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
11 17 0.53
12 15 0.47
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:14741 original size:18 final size:18
Alignment explanation
Indices: 14717--14761 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 18
14707 CCTCCACAAA
14717 AAAAAAACAAAACAAAAAC
1 AAAAAAA-AAAACAAAAAC
14736 AAAAAAAAAAACAAAAAC
1 AAAAAAAAAAACAAAAAC
14754 AAAAAAAA
1 AAAAAAAA
14762 GGGGTCCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAAAC
Found at i:16181 original size:29 final size:29
Alignment explanation
Indices: 16140--16346 Score: 195
Period size: 29 Copynumber: 7.1 Consensus size: 29
16130 TCACCCTTCA
* * *
16140 AAAGTCCAAAAGTTAGTGGCATATTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
16169 AAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* *
16197 AAAGCCCATAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* *
16226 AAAGCCCACAAGTCAGTGTCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
**
16256 AAAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
* **
16284 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * *
16314 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
16343 AAAG
1 AAAG
16347 TCGACAACTC
Statistics
Matches: 144, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
27 20 0.14
28 27 0.19
29 49 0.34
30 28 0.19
31 20 0.14
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATATTTTTC
Found at i:16209 original size:28 final size:28
Alignment explanation
Indices: 16169--16334 Score: 145
Period size: 30 Copynumber: 5.8 Consensus size: 28
16159 CATATTTTTC
16169 AAAGCCCACAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCAACCTTTA
* * * *
16197 AAAGCCCATAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTTA
* ***
16226 AAAGCCCACAAGTCAGTGTCATTTTTTTTCA
1 AAAGCCCACAAGTCAGTGGCA--ACCTTT-A
*
16257 AAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCAACCTTTA
* * *
16284 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAACC--TTTA
* *
16314 GAAGCCCACAAGTCGGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
16335 TCTTTTCCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
27 22 0.19
28 23 0.20
29 22 0.19
30 25 0.22
31 21 0.19
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTA
Found at i:16227 original size:57 final size:57
Alignment explanation
Indices: 16134--16346 Score: 205
Period size: 57 Copynumber: 3.7 Consensus size: 57
16124 CATTTCTCAC
* * * * *
16134 CCTTCAAAAGTCCAAAAGTTAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
* * *
16191 CCTTTAAAAGCCCATAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGTCATTT
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA--A
** * * * *
16250 TTTTTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
** * *
16306 CCTTTTTCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAG
1 CC--TTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAG
16347 TCGACAACTC
Statistics
Matches: 126, Mismatches: 23, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
57 70 0.56
58 25 0.20
59 9 0.07
60 22 0.17
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (57 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:16312 original size:88 final size:87
Alignment explanation
Indices: 16163--16327 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 87
16153 TAGTGGCATA
* * *
16163 TTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCAGTGGCATCTTTTTCAA
1 TTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCTTTTTCAA
16228 AGCCCACAAGTCAGTGTCATTT
66 AGCCCACAAGTCAGTGTCATTT
*
16250 TTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTTC
1 TTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCA-CCTTTTTC
*
16314 GAAGCCCACAAGTC
64 AAAGCCCACAAGTC
16328 GGTGGCATCT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
87 27 0.38
88 44 0.62
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (87 bp):
TTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCTTTTTCAA
AGCCCACAAGTCAGTGTCATTT
Found at i:16481 original size:28 final size:28
Alignment explanation
Indices: 16413--16502 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
16403 TTTTCTTTTT
* *
16413 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
16443 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
16471 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
16499 AAGC
1 AAGC
16503 ACATAAGTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
28 32 0.57
29 3 0.05
30 21 0.38
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:16510 original size:28 final size:28
Alignment explanation
Indices: 16413--16536 Score: 117
Period size: 28 Copynumber: 4.3 Consensus size: 28
16403 TTTTCTTTTT
* * *
16413 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTAGCAACC--TTCAA
* *
16443 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
16471 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
* * *
16499 AAGCACATAAGT-TG-ATGCAAACCTCTCAA
1 AAGCCCACAAGTCAGTA-GC-AACCT-TCAA
16528 AAGCCCACA
1 AAGCCCACA
16537 CAAGTTGGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 45 0.56
29 11 0.14
30 21 0.26
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTAGCAACCTTCAA
Found at i:16720 original size:43 final size:43
Alignment explanation
Indices: 16654--16737 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
16644 ACCTTCATAC
*
16654 TTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCT
*
16697 TTAAGTCCAATATAGCT-AGCCTTGAATCAGCATATTGGCAC
1 TTAAGTCCAATATAGCTGA-CCTTGAATCAGCACATTGGCAC
16738 TTTTTCCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCT
Found at i:16773 original size:52 final size:54
Alignment explanation
Indices: 16695--16848 Score: 195
Period size: 52 Copynumber: 2.9 Consensus size: 54
16685 ACATTGGCAC
*
16695 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-CTTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
* * * *
16747 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAT-CTTTTTCTCAT
* * * * *
16802 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
16849 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
52 37 0.44
54 11 0.13
55 37 0.44
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
Found at i:17681 original size:13 final size:13
Alignment explanation
Indices: 17663--17687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17653 CATAAAGTGT
17663 TGTATCGATACAA
1 TGTATCGATACAA
17676 TGTATCGATACA
1 TGTATCGATACA
17688 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:17768 original size:13 final size:13
Alignment explanation
Indices: 17750--17774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17740 ATTACTCAAA
17750 TGTATCGATACAT
1 TGTATCGATACAT
17763 TGTATCGATACA
1 TGTATCGATACA
17775 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:17839 original size:52 final size:52
Alignment explanation
Indices: 17783--17911 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
17773 CACTGATCTT
*
17783 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* **
17835 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
17887 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
17912 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:21445 original size:20 final size:21
Alignment explanation
Indices: 21410--21448 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21400 AGGTTAAAAC
21410 CCTAGAAAGCATCGATACAAA
1 CCTAGAAAGCATCGATACAAA
*
21431 CCTAG-AAGTATCGATACA
1 CCTAGAAAGCATCGATACA
21449 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (21 bp):
CCTAGAAAGCATCGATACAAA
Found at i:23439 original size:36 final size:35
Alignment explanation
Indices: 23399--23527 Score: 121
Period size: 34 Copynumber: 3.8 Consensus size: 35
23389 AATTTCCAAT
23399 TTTAATATCTAT-TTTATTATTTAATATAAATATAA
1 TTTAATAT-TATATTTATTATTTAATATAAATATAA
* *
23434 CTTT-A-A-TA-ATTTATTTTTTAATAT-AATGTAA
1 -TTTAATATTATATTTATTATTTAATATAAATATAA
* *
23465 TTTAATAATTATAATTATT-TTTCAACATAAATATAA
1 TTTAAT-ATTATATTTATTATTT-AATATAAATATAA
*
23501 TTTTAT-TTATATTTATTATTTAATATA
1 TTTAATATTATATTTATTATTTAATATA
23528 TTTTTAATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
30 3 0.04
31 7 0.09
32 16 0.21
33 1 0.01
34 21 0.28
35 14 0.18
36 14 0.18
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (35 bp):
TTTAATATTATATTTATTATTTAATATAAATATAA
Found at i:23471 original size:30 final size:32
Alignment explanation
Indices: 23411--23527 Score: 112
Period size: 32 Copynumber: 3.5 Consensus size: 32
23401 TAATATCTAT
23411 TTTATTATTTAATATAAATATAACTTTAATAA
1 TTTATTATTTAATATAAATATAACTTTAATAA
* *
23443 TTTATTTTTTAATAT-AATGTAA-TTTAATAA
1 TTTATTATTTAATATAAATATAACTTTAATAA
* * *
23473 TTATAATTATTTTTCAACATAAATATAATTTTATTTATA
1 TT-T-ATTA--TTT-AATATAAATATAACTTTA-ATA-A
23512 TTTATTATTTAATATA
1 TTTATTATTTAATATA
23528 TTTTTAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
30 10 0.14
31 7 0.10
32 17 0.25
34 8 0.12
35 7 0.10
36 6 0.09
37 8 0.12
38 3 0.04
39 3 0.04
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.55
Consensus pattern (32 bp):
TTTATTATTTAATATAAATATAACTTTAATAA
Found at i:23540 original size:65 final size:66
Alignment explanation
Indices: 23424--23549 Score: 168
Period size: 65 Copynumber: 1.9 Consensus size: 66
23414 ATTATTTAAT
* *
23424 ATAAATATAACTTTAATAATTTATTTTTTAATATAATGTAATTTAATAATTATAATTATTTTTCA
1 ATAAATATAACTTTAATAATTTATTATTTAATATAATGT-ATTTAATAATTAAAATTATTTTTCA
23489 AC
65 AC
* *
23491 ATAAATATAATTTTATTTATATTTATTATTTAATAT-AT-T-TTTAATAATTAAAATTATTT
1 ATAAATATAACTTTA-ATA-ATTTATTATTTAATATAATGTATTTAATAATTAAAATTATTT
23550 ATTATATCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
65 19 0.36
67 15 0.28
68 4 0.08
69 15 0.28
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (66 bp):
ATAAATATAACTTTAATAATTTATTATTTAATATAATGTATTTAATAATTAAAATTATTTTTCAA
C
Found at i:23696 original size:21 final size:21
Alignment explanation
Indices: 23650--23697 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
23640 TCACTAATTT
* * *
23650 TAATCTCATTGCTATAGTATC
1 TAATCTCAATGCTATAATAAC
*
23671 CAATCTCAATGCTATAATAAC
1 TAATCTCAATGCTATAATAAC
23692 TAATCT
1 TAATCT
23698 TATTGCCACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (21 bp):
TAATCTCAATGCTATAATAAC
Done.