Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold836
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: 56142
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Found at i:525 original size:38 final size:40
Alignment explanation
Indices: 408--591 Score: 200
Period size: 39 Copynumber: 4.7 Consensus size: 40
398 GCTACTCGTT
* *
408 CAAATGCCTTCGGGACATAGCCCGGTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
447 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
487 CCAATG-CTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
525 CAAATGCCTTC-GAATCTTAGCTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGC-CCGGAAT-TAGTAAC-TCGCA
567 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
592 CATCATTCGA
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
38 28 0.23
39 33 0.27
40 29 0.24
41 21 0.17
42 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:1781 original size:53 final size:56
Alignment explanation
Indices: 1697--1865 Score: 301
Period size: 53 Copynumber: 3.1 Consensus size: 56
1687 TTAGTTTATT
1697 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG-TTCATGACATGTTTT-
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1751 CCCATGCTTCTTA-TTTATTCTTCCATTAACACAACATGTTTCATG-CATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
*
1805 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1861 CCCAT
1 CCCAT
1866 CATCCCTTGT
Statistics
Matches: 110, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
53 33 0.30
54 32 0.29
55 31 0.28
56 14 0.13
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:3321 original size:43 final size:43
Alignment explanation
Indices: 3273--3531 Score: 412
Period size: 43 Copynumber: 6.0 Consensus size: 43
3263 CACACATCAT
* *
3273 AGCCTGCTAGGCACGAAGGTCCGAATACACATCACCGACACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
3316 AGCCTGCTAGGCACGAAGGCCCGAATAGACATCACCAGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
3359 AGCCTGCTAGGC-CGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* * * *
3401 AGCCTGCTAGGCACGAAGGCCTGAATACACATAACTGGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
3444 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
3487 AGCCTGGTAGGCACGAAGGCCCGAATACACATCACCTGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
3530 AG
1 AG
3532 GCCCGAATAC
Statistics
Matches: 199, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 40 0.20
43 159 0.80
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
Found at i:3535 original size:27 final size:26
Alignment explanation
Indices: 3497--3557 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 26
3487 AGCCTGGTAG
3497 GCACGAAGGCCCGAATACACATCACC
1 GCACGAAGGCCCGAATACACATCACC
3523 TGCACGAAGGCCCGAATACACATCACC
1 -GCACGAAGGCCCGAATACACATCACC
3550 GCACGAAG
1 GCACGAAG
3558 CCTGCTAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.34, C:0.36, G:0.21, T:0.08
Consensus pattern (26 bp):
GCACGAAGGCCCGAATACACATCACC
Found at i:12086 original size:27 final size:27
Alignment explanation
Indices: 12056--12257 Score: 192
Period size: 27 Copynumber: 7.4 Consensus size: 27
12046 TTAAGTCCGT
* *
12056 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
12083 ACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
*
12111 ACACTTAGTGCTACATAGTCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* ** *
12138 ACACTTAGTG-TCGCATGGTCAATTCGC
1 ACACTTAGTGCT-ACATAATCAACTCGC
** **
12165 ACACTTAGTGC-ATCATTTTCATTTCGC
1 ACACTTAGTGCTA-CATAATCAACTCGC
* ** *
12192 ACACTTAGTGCAACATGGTCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
** *
12219 ACACTTAGTGCTACATAGCCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
12246 ACACTTAGTGCT
1 ACACTTAGTGCT
12258 GTACAATTTA
Statistics
Matches: 151, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 124 0.82
28 26 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:12192 original size:54 final size:53
Alignment explanation
Indices: 12056--12256 Score: 233
Period size: 54 Copynumber: 3.7 Consensus size: 53
12046 TTAAGTCCGT
* * * **
12056 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-TCGC
* *
12111 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAATCGC
** **
12165 ACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAATCGC
1 ACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAATCGC
* *
12219 ACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
12257 TGTACAATTT
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 79 0.64
55 43 0.35
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAATCGC
Found at i:12213 original size:81 final size:81
Alignment explanation
Indices: 12107--12256 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
12097 ATAATCAAAC
* * * * * *
12107 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-TCGCATGGTCAATTCGCACACTT
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCT-ACATAGCCAAATCGCACACTT
12171 AGTGCATCATTTTCATT
65 AGTGCATCATTTTCATT
*
12188 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
12253 GTGC
66 GTGC
12257 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:20177 original size:27 final size:27
Alignment explanation
Indices: 20147--20350 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
20137 ATATTAAGTC
* *
20147 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
20174 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
20202 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
20229 CGCACACTTAGTGC-GCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
20255 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
20282 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
20309 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
20336 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20351 GTACAATTTA
Statistics
Matches: 155, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.15
27 106 0.68
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20339 original size:54 final size:53
Alignment explanation
Indices: 20147--20349 Score: 246
Period size: 54 Copynumber: 3.8 Consensus size: 53
20137 ATATTAAGTC
* * * **
20147 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
20202 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
** **
20255 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
20309 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
20350 TGTACAATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 36 0.28
54 52 0.41
55 38 0.30
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:44464 original size:10 final size:10
Alignment explanation
Indices: 44449--44558 Score: 54
Period size: 10 Copynumber: 10.7 Consensus size: 10
44439 AACTTTTTAG
44449 AAATTATTAA
1 AAATTATTAA
*
44459 AAATTA-AAA
1 AAATTATTAA
44468 AAATATAACTTAAA
1 AAAT-T-A-TT-AA
44482 GAAAATTATTAA
1 -A-AATTATTAA
44494 AAA-TA---A
1 AAATTATTAA
44500 AAA-TATTAA
1 AAATTATTAA
*
44509 AAATTAATAGA
1 AAATTATTA-A
*
44520 AATTTATTAAAA
1 AAATTATT--AA
44532 AAATTATTAA
1 AAATTATTAA
44542 AAAGTTA-TAA
1 AAA-TTATTAA
44552 AAATTAT
1 AAATTAT
44559 AGAAAAATTG
Statistics
Matches: 78, Mismatches: 6, Indels: 32
0.67 0.05 0.28
Matches are distributed among these distances:
6 6 0.08
9 15 0.19
10 24 0.31
11 12 0.15
12 10 0.13
13 3 0.04
14 3 0.04
15 2 0.03
16 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAATTATTAA
Found at i:44477 original size:35 final size:34
Alignment explanation
Indices: 44449--44532 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
44439 AACTTTTTAG
44449 AAATTATTAAAAATTAAAAAAATATAACTTAAAGA
1 AAATTATTAAAAA-TAAAAAAATATAACTTAAAGA
* * *
44484 AAATTATTAAAAATAAAAATATTAAAAATTAATAGA
1 AAATTATTAAAAATAAAAA-AATATAACTTAA-AGA
*
44520 AATTTATTAAAAA
1 AAATTATTAAAAA
44533 AATTATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 6 0.14
35 22 0.51
36 15 0.35
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (34 bp):
AAATTATTAAAAATAAAAAAATATAACTTAAAGA
Found at i:44506 original size:15 final size:15
Alignment explanation
Indices: 44483--44512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44473 TAACTTAAAG
*
44483 AAAATTATTAAAAAT
1 AAAAATATTAAAAAT
44498 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
44513 TAATAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:44537 original size:23 final size:22
Alignment explanation
Indices: 44507--44554 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
44497 TAAAAATATT
* *
44507 AAAAATTAATAGAAATTTATTAA
1 AAAAATTAATAAAAAGTTA-TAA
*
44530 AAAAATTATTAAAAAGTTATAA
1 AAAAATTAATAAAAAGTTATAA
44552 AAA
1 AAA
44555 TTATAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAATTAATAAAAAGTTATAA
Found at i:44549 original size:11 final size:10
Alignment explanation
Indices: 44497--44558 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
44487 TTATTAAAAA
44497 TAAAAA-TAT
1 TAAAAATTAT
*
44506 TAAAAATTAA
1 TAAAAATTAT
*
44516 TAGAAATTTAT
1 TA-AAAATTAT
44527 TAAAAAAATTAT
1 T--AAAAATTAT
44539 TAAAAAGTTA-
1 TAAAAA-TTAT
44549 TAAAAATTAT
1 TAAAAATTAT
44559 AGAAAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 9 0.21
10 15 0.35
11 10 0.23
12 8 0.19
13 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:44565 original size:33 final size:33
Alignment explanation
Indices: 44483--44565 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
44473 TAACTTAAAG
44483 AAAATTATTAAAAATAAAAATATTAAAAATTAATA
1 AAAATTA-TAAAAA-AAAAATATTAAAAATTAATA
* * *
44518 GAAATT-TATTAAAAAAATTATTAAAAAGTT-ATA
1 AAAATTATA-AAAAAAAAATATTAAAAA-TTAATA
*
44551 AAAATTATAGAAAAA
1 AAAATTATAAAAAAA
44566 TTGTTAGCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
33 28 0.70
34 7 0.17
35 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAATTATAAAAAAAAAATATTAAAAATTAATA
Found at i:44571 original size:23 final size:23
Alignment explanation
Indices: 44506--44571 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 23
44496 ATAAAAATAT
* *
44506 TAAAAATTAATAG-AAATTTATTA
1 TAAAAATT-ATAGAAAAATTGTTA
* *
44529 AAAAAATTAT-TAAAAA--GTTA
1 TAAAAATTATAGAAAAATTGTTA
44549 TAAAAATTATAGAAAAATTGTTA
1 TAAAAATTATAGAAAAATTGTTA
44572 GCTTGTTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 12 0.36
21 5 0.15
22 5 0.15
23 11 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (23 bp):
TAAAAATTATAGAAAAATTGTTA
Found at i:45642 original size:40 final size:40
Alignment explanation
Indices: 45580--45726 Score: 213
Period size: 40 Copynumber: 3.7 Consensus size: 40
45570 CCAACCCAAT
* * * * *
45580 TGCCTTCAGGATTTAGCCCGGATATAACAAACAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
45620 TGCCTTCGGGACTTAACTCGGATATAACAACCAGGACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
45660 TGCCTTCGGGACTTAACCCGGATATAACAACCTGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
45700 TGCCTTCGGGACTTAACCCGAATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
45727 TCCTCAATTG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:48909 original size:40 final size:40
Alignment explanation
Indices: 48716--48941 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
48706 TTGAATGATG
* * * *
48716 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
48756 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48796 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48836 TCCGGGTTAAGTCCCGAAGGCATTTTTCCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48876 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTTCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
48917 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48942 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 152 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48959 original size:80 final size:80
Alignment explanation
Indices: 48769--48964 Score: 238
Period size: 80 Copynumber: 2.5 Consensus size: 80
48759 GGACTAAGAT
* **
48769 CCGAAGGCATTTGTACGAGTTACTAAATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTA
* *
48834 AATCCGGGTTAAGTC
66 AATCCAGGCTAAGTC
* * *
48849 CCGAAGGCATTTTTCCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTTCT
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
*
48913 ATAA-CCAGGCTATGTC
65 A-AATCCAGGCTAAGTC
* *
48929 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAA
48965 ATTCCAAAGG
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 9 0.09
80 89 0.89
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTA
AATCCAGGCTAAGTC
Found at i:49203 original size:17 final size:18
Alignment explanation
Indices: 49183--49220 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
49173 AGTAAGTATG
49183 ATATTG-AAAAATTGTGC
1 ATATTGAAAAAATTGTGC
49200 ATA-TGAAAAAATTGTGC
1 ATATTGAAAAAATTGTGC
49217 ATAT
1 ATAT
49221 GTTTCGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATTGAAAAAATTGTGC
Found at i:49221 original size:17 final size:17
Alignment explanation
Indices: 49189--49221 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49179 TATGATATTG
49189 AAAAATTGTGCATATGA
1 AAAAATTGTGCATATGA
49206 AAAAATTGTGCATATG
1 AAAAATTGTGCATATG
49222 TTTCGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AAAAATTGTGCATATGA
Done.