Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1680
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: 74757
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:13721 original size:40 final size:39
Alignment explanation
Indices: 13612--13829 Score: 204
Period size: 39 Copynumber: 5.6 Consensus size: 39
13602 GCTCCTCGTT
* *
13612 CAAATGCCTTCGGGACATAGCCCGGTA-TATGTAA-TCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATTA-GTAACTCGCA
* *
13651 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
*
13690 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATTAGTAACTCGCA
*
13730 CAAATGCCTTCGGATCTTAG-CCGG--TT-GTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATTAGTAACTCGCA
* * * *
13766 CAAATGCCTTCGGA-TCTAG-TCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGACT-TAGCCCGGAAT-TAGTAAC-TCGCA
13805 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
13830 CATCATTCAA
Statistics
Matches: 154, Mismatches: 12, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
34 1 0.01
35 6 0.04
36 25 0.16
37 3 0.02
38 24 0.16
39 50 0.32
40 45 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:13782 original size:36 final size:37
Alignment explanation
Indices: 13612--13779 Score: 182
Period size: 40 Copynumber: 4.4 Consensus size: 37
13602 GCTCCTCGTT
* *
13612 CAAATGCCTTCGGGACATAGCCCGG-TATATGTA-ATCGCA
1 CAAATGCCTTC-GGACTTAG-CCGGAT-TA-GTATCTCGCA
* *
13651 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTT-AGCCGGA-TTAGTATCTCGCA
13690 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTC-GGACTTAG-CCGG-ATTAGTATCTCGCA
13730 CAAATGCCTTCGGATCTTAGCCGG-TT-GTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCGGATTAGTATCTCGCA
13766 CAAATGCCTTCGGA
1 CAAATGCCTTCGGA
13780 TCTAGTCGGA
Statistics
Matches: 116, Mismatches: 5, Indels: 19
0.83 0.04 0.14
Matches are distributed among these distances:
36 24 0.21
37 2 0.02
38 12 0.10
39 38 0.33
40 39 0.34
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (37 bp):
CAAATGCCTTCGGACTTAGCCGGATTAGTATCTCGCA
Found at i:21329 original size:38 final size:40
Alignment explanation
Indices: 21244--21458 Score: 161
Period size: 37 Copynumber: 5.7 Consensus size: 40
21234 GCTCCTCGTT
*
21244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAA-TCGCA
1 CAAATGCCTTCGGGACATAGACCGGATT-TAGTAACTCGCA
21283 CAAATGCCTTCGGGAC-TA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGACCGGATTTAGTAACTCGCA
* * * *
21321 CAAATGCCTTC-GGAC-T-TACCCGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGACCGGATTTAGTAACTCGCA
* * *
21358 CAAATGCCTTC--G-CTTAGCCCGGA-TTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGACCGGATTTAGTAACTCGCA
* * * * * *
21394 C-AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGACCGGATTTAGTAAC-TCGCA
* *
21434 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGACCGGA
21459 CATCATTCAA
Statistics
Matches: 150, Mismatches: 14, Indels: 23
0.80 0.07 0.12
Matches are distributed among these distances:
35 10 0.07
36 17 0.11
37 47 0.31
38 30 0.20
39 20 0.13
40 21 0.14
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGACCGGATTTAGTAACTCGCA
Found at i:24116 original size:39 final size:38
Alignment explanation
Indices: 24055--24205 Score: 178
Period size: 39 Copynumber: 3.9 Consensus size: 38
24045 ACCATATCCG
*
24055 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
1 GACTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCC
24094 TAGACTAAG-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 --GACTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCC
** * *
24133 GGGTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GACTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCC
** *
24171 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 -GACTAAG-CCCGAAGGCATTTGTGCGAGATACTA
24206 TAACCGGGCT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
37 5 0.05
38 28 0.27
39 36 0.35
40 26 0.25
41 7 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (38 bp):
GACTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCC
Found at i:24195 original size:40 final size:40
Alignment explanation
Indices: 24011--24233 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
24001 TTGAATGATG
* * * *
24011 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
24051 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
24091 TCCTAGACTAAG--CCGAAGGCATTTGTGCGAGATACTAAT
1 TCC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
24130 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24209 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24234 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
37 4 0.02
38 32 0.20
39 34 0.21
40 75 0.46
41 17 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24247 original size:40 final size:40
Alignment explanation
Indices: 24131--24252 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
24121 GATACTAATT
** *
24131 CCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
24168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
24209 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
24249 CCGG
1 CCGG
24253 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
38 5 0.07
39 5 0.07
40 62 0.84
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:32040 original size:79 final size:79
Alignment explanation
Indices: 31908--32171 Score: 354
Period size: 79 Copynumber: 3.3 Consensus size: 79
31898 TTGAATGATG
* * * *
31908 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACCATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
31972 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAT
*
31988 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATTCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
32053 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* **
32067 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTT
* *
32131 GTGCGAGTTACTATAA
65 GTGCGAGATACTA-AT
**
32147 T-CGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTA-AGCCCGAAGGCATTTG
32172 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 132 0.79
80 34 0.20
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:32161 original size:40 final size:39
Alignment explanation
Indices: 31908--32171 Score: 275
Period size: 40 Copynumber: 6.6 Consensus size: 39
31898 TTGAATGATG
* * *
31908 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACCATA
1 TCCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
31948 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCT-A-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31988 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
32027 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCT-A-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32067 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32106 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAA-TCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32147 T-CGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTA-ATCCCGAAGGCATTTG
32172 AACGAGGAGC
Statistics
Matches: 186, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 65 0.35
40 105 0.56
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32204 original size:79 final size:79
Alignment explanation
Indices: 31964--32196 Score: 267
Period size: 79 Copynumber: 2.9 Consensus size: 79
31954 CTAAGATCCA
* ** * *
31964 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATT
1 AAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
**
32029 CGGACTAAGAT-CCG
66 CGGGTTAA-ATCCCG
* * *
32043 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
*
32108 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* ** *
32122 AAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATTTCCCGAAGGCATTTGAACGAG-GAGCTAT
1 AAGGCATTTGTGCGAGATACTA-AATCCGGGCTA-AGCCCGAAGGCATTTGAACGAGTGA-CTAA
32185 ATCC-GGTTAAAT
63 ATCCGGGTTAAAT
32197 TCTGAAGGTA
Statistics
Matches: 137, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 108 0.79
80 28 0.20
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
CGGGTTAAATCCCG
Found at i:33934 original size:11 final size:9
Alignment explanation
Indices: 33918--33961 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
33908 AAATAAACTC
33918 TTTTGAATTAT
1 TTTTG-ATT-T
33929 TTTTGATTAT
1 TTTTGATT-T
33939 TTTTGATTT
1 TTTTGATTT
33948 TTTTGAATTT
1 TTTTG-ATTT
33958 TTTT
1 TTTT
33962 TACAATGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 6 0.19
10 21 0.66
11 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (9 bp):
TTTTGATTT
Found at i:33962 original size:11 final size:10
Alignment explanation
Indices: 33918--33953 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
33908 AAATAAACTC
33918 TTTTGAATTAT
1 TTTTG-ATTAT
33929 TTTTGATTAT
1 TTTTGATTAT
33939 TTTTGATT-T
1 TTTTGATTAT
33948 TTTTGA
1 TTTTGA
33954 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.28
10 13 0.52
11 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (10 bp):
TTTTGATTAT
Found at i:40361 original size:27 final size:28
Alignment explanation
Indices: 40308--40373 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
40298 ACAAGAGCAC
40308 ATTAAAAACATGTAATAGACTAAGACAA
1 ATTAAAAACATGTAATAGACTAAGACAA
* * *
40336 ATTAAAAACATGTACTAG-CTATGACAT
1 ATTAAAAACATGTAATAGACTAAGACAA
40363 ATT-AAAACATG
1 ATTAAAAACATG
40374 CATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 8 0.23
27 10 0.29
28 17 0.49
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.26
Consensus pattern (28 bp):
ATTAAAAACATGTAATAGACTAAGACAA
Found at i:55500 original size:17 final size:17
Alignment explanation
Indices: 55478--55518 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
55468 TTTCCAACAC
55478 TTTTTTTTGAAGTTTCA
1 TTTTTTTTGAAGTTTCA
*
55495 TTTTTTTTGAATTTTCA
1 TTTTTTTTGAAGTTTCA
55512 TTTTTTT
1 TTTTTTT
55519 CAATACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTTTTTTGAAGTTTCA
Found at i:55582 original size:13 final size:14
Alignment explanation
Indices: 55558--55584 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55548 CGAATGCAAC
55558 TTGAATTTTTTTTT
1 TTGAATTTTTTTTT
55572 TTGAATTTTTTTT
1 TTGAATTTTTTTT
55585 GCACTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (14 bp):
TTGAATTTTTTTTT
Found at i:61878 original size:27 final size:27
Alignment explanation
Indices: 61848--61903 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
61838 ACCCTTCCAC
61848 ACGCAATTAAAAATATCTAGCATGTAA
1 ACGCAATTAAAAATATCTAGCATGTAA
61875 ACGCAATTAAAAATATCTAGCATGTAA
1 ACGCAATTAAAAATATCTAGCATGTAA
61902 AC
1 AC
61904 ATAGTCCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (27 bp):
ACGCAATTAAAAATATCTAGCATGTAA
Found at i:62302 original size:21 final size:20
Alignment explanation
Indices: 62277--62326 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
62267 TTCTTTGTAA
62277 TTTTAGTTTTAG-TGTTATTT
1 TTTTAGTTTTAGAT-TTATTT
*
62297 TCTTTAGGCTTTAGATTTATTT
1 T-TTTA-GTTTTAGATTTATTT
62319 TTTTAGTT
1 TTTTAGTT
62327 ATTTTTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 13 0.52
23 1 0.04
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (20 bp):
TTTTAGTTTTAGATTTATTT
Found at i:64438 original size:31 final size:31
Alignment explanation
Indices: 64400--64463 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
64390 ATTCCATAGT
64400 ATTCTCTGCCATTTTCGGACAATCTCTAATC
1 ATTCTCTGCCATTTTCGGACAATCTCTAATC
64431 ATTCTCTGCCATTTTCGGACAATCTCTAATC
1 ATTCTCTGCCATTTTCGGACAATCTCTAATC
64462 AT
1 AT
64464 ATGTTCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.39
Consensus pattern (31 bp):
ATTCTCTGCCATTTTCGGACAATCTCTAATC
Found at i:74086 original size:42 final size:43
Alignment explanation
Indices: 73986--74137 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 43
73976 AGTGATTTCG
* * * * *
73986 TGTAAGACCAC-GTCTGGGACGTTGGCATTGATTTGA-GATTTACG
1 TGTAAGACC-CTGTCTGGGACATTCGCATCGATAT-ATGA-TTACA
* * *
74030 TGTAAGACCATGTCTGGGACATTCGCATCG-TATATGTTTTCA
1 TGTAAGACCCTGTCTGGGACATTCGCATCGATATATGATTACA
* * * *
74072 TGTAAGACCCTGTCTGGGACAGTGGCGTCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTCGCATCGATATATGATTACA
*
74115 TGTAAGA-CCTCGTCTAGGACATT
1 TGTAAGACCCT-GTCTGGGACATT
74138 GACATTGTAC
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 33 0.38
43 29 0.33
44 25 0.29
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACATTCGCATCGATATATGATTACA
Found at i:74342 original size:103 final size:103
Alignment explanation
Indices: 74163--74371 Score: 391
Period size: 103 Copynumber: 2.0 Consensus size: 103
74153 TATCGAACAA
*
74163 TCAGAGTATCTTTATAAATTTTGAATAGTTCAACGGGAAATGTCAAGTCAAGATCGAATGTGAAA
1 TCAGAGTATCCTTATAAATTTTGAATAGTTCAACGGGAAATGTCAAGTCAAGATCGAATGTGAAA
74228 TTGAGATAAATGGTTCAGGTACGTGAGAAATTAAATGT
66 TTGAGATAAATGGTTCAGGTACGTGAGAAATTAAATGT
*
74266 TCAGAGTATCCTTATAAATTTTGAATAGTTCAACGGGCAATGTCAAGTCAAGATCGAATGTGAAA
1 TCAGAGTATCCTTATAAATTTTGAATAGTTCAACGGGAAATGTCAAGTCAAGATCGAATGTGAAA
*
74331 TTGAGATAAATGGTTCAGGTACGTGATAAATTAAATGT
66 TTGAGATAAATGGTTCAGGTACGTGAGAAATTAAATGT
74369 TCA
1 TCA
74372 TGAAAATAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (103 bp):
TCAGAGTATCCTTATAAATTTTGAATAGTTCAACGGGAAATGTCAAGTCAAGATCGAATGTGAAA
TTGAGATAAATGGTTCAGGTACGTGAGAAATTAAATGT
Found at i:74690 original size:43 final size:43
Alignment explanation
Indices: 74643--74727 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
74633 CTAGTCGCTT
*
74643 TAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTCCG
1 TAAAAATCATATCTTGAGTTCAGAAACTCGAAATCCAGTTCCG
74686 TAAAAATCATATCTTGAGTTCAGAAACTCGAAATCCAGTTCC
1 TAAAAATCATATCTTGAGTTCAGAAACTCGAAATCCAGTTCC
74728 ATCTACATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (43 bp):
TAAAAATCATATCTTGAGTTCAGAAACTCGAAATCCAGTTCCG
Done.