Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1743
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: 41710
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Found at i:507 original size:99 final size:100
Alignment explanation
Indices: 325--523 Score: 364
Period size: 99 Copynumber: 2.0 Consensus size: 100
315 ACATTTTCTT
*
325 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCTCTTCATATATTTCTACATCATTGTCAACAAAA
1 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCTCTTCATATATTTATACATCATTGTCAACAAAA
*
390 GATACCTTCTTCACGGAAGAGTTAGAATCATCAAA
66 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
*
425 CTTGCT-CTTTTGTGATGCTTGTTCTAAATTCTCTTCATATATTTATACATCATTGTCAACAAAA
1 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCTCTTCATATATTTATACATCATTGTCAACAAAA
489 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
66 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
524 AATAATGTGG
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
99 90 0.94
100 6 0.06
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (100 bp):
CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCTCTTCATATATTTATACATCATTGTCAACAAAA
GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
Found at i:4451 original size:13 final size:13
Alignment explanation
Indices: 4433--4459 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4423 TGCCAGTTTC
4433 ATGTATCGATACA
1 ATGTATCGATACA
4446 ATGTATCGATACA
1 ATGTATCGATACA
4459 A
1 A
4460 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11128 original size:52 final size:51
Alignment explanation
Indices: 11043--11166 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 51
11033 ATATGAAAAG
* *
11043 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
* *
11094 TTTTCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
11146 TTGCCTGCATGTGTCGATACA
1 TTGCCTGCATGTATCGATACA
11167 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
51 19 0.29
52 47 0.71
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:11179 original size:51 final size:52
Alignment explanation
Indices: 11043--11186 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
11033 ATATGAAAAG
* *
11043 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
* *** *
11095 TTTCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
*
11146 TTGCCTGCATGTGTCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
11187 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.03
51 34 0.43
52 44 0.55
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:11193 original size:13 final size:13
Alignment explanation
Indices: 11175--11199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11165 CAAAGATCAG
11175 TGTATCGATACAA
1 TGTATCGATACAA
11188 TGTATCGATACA
1 TGTATCGATACA
11200 TTTGAGTAAT
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:11281 original size:13 final size:13
Alignment explanation
Indices: 11263--11287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11253 CAAAAAAATA
11263 TGTATCGATACAT
1 TGTATCGATACAT
11276 TGTATCGATACA
1 TGTATCGATACA
11288 ACATTTTATG
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:11283 original size:33 final size:33
Alignment explanation
Indices: 11241--11307 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11231 AGTAGCTTAA
11241 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
11274 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
11307 A
1 A
11308 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:11386 original size:21 final size:21
Alignment explanation
Indices: 11345--11386 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11335 GTTGGGACCT
*
11345 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
11366 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
11387 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:14448 original size:15 final size:15
Alignment explanation
Indices: 14428--14458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14418 ATTTCGTTTG
*
14428 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
14443 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
14458 G
1 G
14459 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:18538 original size:13 final size:13
Alignment explanation
Indices: 18520--18545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18510 CAATTTTTTG
18520 TGTATCGATACAT
1 TGTATCGATACAT
18533 TGTATCGATACAT
1 TGTATCGATACAT
18546 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18563 original size:32 final size:33
Alignment explanation
Indices: 18500--18563 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
18490 TACAAGCCAA
** *
18500 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
*
18533 TGTATCGATAC-ATACTTGGTGTATCTATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
18564 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:20907 original size:51 final size:51
Alignment explanation
Indices: 20850--20989 Score: 226
Period size: 51 Copynumber: 2.7 Consensus size: 51
20840 TACATTTTTC
* *
20850 AATGTATCGATATATCTGGGTAAAAAAACAGAATGTATCGATACATTGAAA
1 AATGTATCGATACATCTGGGTAAAAAAATAGAATGTATCGATACATTGAAA
* *
20901 AATGTATCGATACATCTGAGTAAAAAAATAAAATGTATCGATACATTGAAA
1 AATGTATCGATACATCTGGGTAAAAAAATAGAATGTATCGATACATTGAAA
* *
20952 AATATATCGATACATTTGGGTAAAAAAATAGAATGTAT
1 AATGTATCGATACATCTGGGTAAAAAAATAGAATGTAT
20990 TAATACATGT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (51 bp):
AATGTATCGATACATCTGGGTAAAAAAATAGAATGTATCGATACATTGAAA
Found at i:20959 original size:20 final size:20
Alignment explanation
Indices: 20930--20967 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20920 GTAAAAAAAT
*
20930 AAAATGTATCGATACATTGA
1 AAAATATATCGATACATTGA
20950 AAAATATATCGATACATT
1 AAAATATATCGATACATT
20968 TGGGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAATATATCGATACATTGA
Found at i:24183 original size:15 final size:15
Alignment explanation
Indices: 24163--24194 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24153 GTATGTATGC
24163 ATGCAAAAAAGAAAA
1 ATGCAAAAAAGAAAA
24178 ATGCAAAAAAGAAAA
1 ATGCAAAAAAGAAAA
24193 AT
1 AT
24195 AAACAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.12, T:0.09
Consensus pattern (15 bp):
ATGCAAAAAAGAAAA
Found at i:26053 original size:20 final size:19
Alignment explanation
Indices: 26007--26062 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
25997 AAAACCCTTA
26007 AAAGTATCGATATACA-GTTC
1 AAAGTATCG--ATACATGTTC
26027 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
26047 AATGTATCGATACATG
1 AAAGTATCGATACATG
26063 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 25 0.76
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:26150 original size:13 final size:13
Alignment explanation
Indices: 26132--26157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26122 TACACAAAAT
26132 ATGTATCGATACA
1 ATGTATCGATACA
26145 ATGTATCGATACA
1 ATGTATCGATACA
26158 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26155 original size:32 final size:34
Alignment explanation
Indices: 26114--26178 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
26104 TAGCCAAACT
*
26114 TGTATCGATACAC-AAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
26146 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
26179 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
33 5 0.17
34 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:29187 original size:53 final size:51
Alignment explanation
Indices: 29070--29189 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 51
29060 GCAGCTTAAT
* *
29070 TGCTTTCATGCATGATTTTTCTTTGCCACGATTTGATTCCGTGCATATTGA
1 TGCTTTAATGCATGATTTTTCTTTGCCACGATTTGATTCCATGCATATTGA
* * * *
29121 TCCATATAATGCATGATTTTTTTTTGGCCATGATTTGATTCCATGCATATTGA
1 TGC-TTTAATGCATGATTTTTCTTT-GCCACGATTTGATTCCATGCATATTGA
29174 TGCTTTAATTGCATGA
1 TGCTTTAA-TGCATGA
29190 ATTGGTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.03
52 22 0.38
53 34 0.59
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.45
Consensus pattern (51 bp):
TGCTTTAATGCATGATTTTTCTTTGCCACGATTTGATTCCATGCATATTGA
Found at i:29324 original size:3 final size:3
Alignment explanation
Indices: 29311--29381 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
29301 CCCACCTTTT
* * * * *
29311 TTA TAA TTA TTA TTA TTA TTA TTA TGA TTA TTT TTAA TCA TGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
29357 -TA TTTG TTA TTA TTA TTA TT- TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TTA TT
29382 TTTTAAATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
2 4 0.08
3 47 0.89
4 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:30794 original size:19 final size:19
Alignment explanation
Indices: 30770--30837 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
30760 AATTCAACGA
30770 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
30789 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
30804 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
30821 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
30838 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:30808 original size:32 final size:32
Alignment explanation
Indices: 30772--30834 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
30762 TTCAACGATT
*
30772 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
30804 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
30835 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:30809 original size:13 final size:13
Alignment explanation
Indices: 30791--30815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30781 ACATAAGTTT
30791 TGTATCGATACAA
1 TGTATCGATACAA
30804 TGTATCGATACA
1 TGTATCGATACA
30816 TAAGTATTGT
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:30895 original size:13 final size:13
Alignment explanation
Indices: 30877--30902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30867 CATTTTTCTG
30877 TGTATCGATACAT
1 TGTATCGATACAT
30890 TGTATCGATACAT
1 TGTATCGATACAT
30903 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30899 original size:33 final size:33
Alignment explanation
Indices: 30857--30923 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
30847 GCCAAGGAAA
***
30857 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
30890 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
30923 T
1 T
30924 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:33379 original size:52 final size:51
Alignment explanation
Indices: 33251--33382 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 51
33241 TTGAGTTTAT
* * * *
33251 CAATTCTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATC-GGGATACTCCAACTCCTGATTTTATTTCCAAAACAC
** *
33302 CAATTTTCCTTTAATCGGGATACTCCAACT-CTGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGATACTCCAACTCCTGATTTTATTTCC-AAAACAC
*
33354 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCG-GGATACTCCAAC
33383 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
51 37 0.55
52 30 0.45
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGATACTCCAACTCCTGATTTTATTTCCAAAACAC
Found at i:33402 original size:28 final size:28
Alignment explanation
Indices: 33366--33442 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
33356 ATTTTTCACA
* * *
33366 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
33394 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
33422 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
33443 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:33545 original size:79 final size:79
Alignment explanation
Indices: 33396--33598 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
33386 GTTATTTCAT
* * * *
33396 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
33461 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
33475 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
33539 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
33554 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
33599 TGTTATTTCT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:33625 original size:79 final size:77
Alignment explanation
Indices: 33396--33628 Score: 218
Period size: 79 Copynumber: 2.9 Consensus size: 77
33386 GTTATTTCAT
* * * * *
33396 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTC-CCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAACCCC-GATTT-TTCTCCAAAACA
* *
33460 TTGATTTCTCATAAT
63 TTGATTTCTCACAAC
* * * * * *
33475 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAACCCCGA-TTTTTCTCCAAAACAT
*
33540 CGATTTCTCACAAC
64 TGATTTCTCACAAC
* * *
33554 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCTG-TTATTTCTCCAAAACAT
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGG-ATACTCCAACCCCGATT-TTTCTCCAAAACAT
*
33618 TAAATTTCTCA
64 T-GATTTCTCA
33629 TCGGGAAATA
Statistics
Matches: 124, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
77 2 0.02
78 18 0.15
79 104 0.84
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCAAGGGATACTCCAACCCCGATTTTTCTCCAAAACATTG
ATTTCTCACAAC
Done.