Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167967.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_226, 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: 46850
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 2 of 2
Found at i:37304 original size:24 final size:24
Alignment explanation
Indices: 37255--37324 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
37245 ATAATTAATA
* **
37255 ATATTAATTAATTAATATTCTATT
1 ATATTAAATAATTAATATAATATT
37279 ATATTAAATAATTAATATGAAT-TT
1 ATATTAAATAATTAATAT-AATATT
37303 AT-TT-AATATATTAA-ATAA-ATT
1 ATATTAAATA-ATTAATATAATATT
37324 A
1 A
37325 AGTATTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.12
22 6 0.15
23 7 0.17
24 21 0.52
25 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
ATATTAAATAATTAATATAATATT
Found at i:37442 original size:18 final size:18
Alignment explanation
Indices: 37419--37453 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37409 ATTATTCATA
*
37419 ATTAATTGAATTATATAT
1 ATTAATTCAATTATATAT
*
37437 ATTAATTCTATTATATA
1 ATTAATTCAATTATATA
37454 CAGATTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTCAATTATATAT
Found at i:37767 original size:19 final size:20
Alignment explanation
Indices: 37738--37781 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
37728 TAATTTATAT
*
37738 TAATTATAATAGATA-ATACA
1 TAATTATAATAAATAGATA-A
37758 TAATTA-AATAAATAGATAA
1 TAATTATAATAAATAGATAA
37777 TAATT
1 TAATT
37782 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATTATAATAAATAGATAA
Found at i:37786 original size:23 final size:24
Alignment explanation
Indices: 37725--37786 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
37715 TATCAATTAT
*
37725 TAATAATTTATATTAATTATAATAGA
1 TAATAA-TT-TATTAAATATAATAGA
*
37751 TAATACA-TAATTAAATA-AATAGA
1 TAATA-ATTTATTAAATATAATAGA
37774 TAATAATTTATTA
1 TAATAATTTATTA
37787 TTATTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.03
23 16 0.52
24 7 0.23
25 1 0.03
26 5 0.16
27 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (24 bp):
TAATAATTTATTAAATATAATAGA
Found at i:38457 original size:180 final size:180
Alignment explanation
Indices: 38103--38685 Score: 602
Period size: 181 Copynumber: 3.2 Consensus size: 180
38093 ATAATATCAA
* * * * * * * *
38103 TTTTATCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATATTAATTTAT
1 TTTTATCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGAAAT-AAATAATACTAATTTAT
* * * * * *
38168 TAATATTTCCAAAATTAATATGTAAGAGATTTAAAAAATAAATCTGTTTGTCAT-ACCTGTTCAA
65 TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTATTTGAC-TGACCAGTTCAA
* * * * * * * ** *
38232 TTAGTTATAACTATTTGATCAAATATTTATTTCAAATCATTATGACCATTTG
129 ATAATTATGACTATTTGAACAATTATCTACTTCAAATTGTTATGACCTTTTG
* * * *
38284 TTTTATCATAAAACAATTATTTCTGTTCATATAATCTTATTCGAAATAAAGTAATGCTAATTTAT
1 TTTTATCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGAAATAAA-TAATACTAATTTAT
* * * *
38349 TAATATTT-TAAAATTAATAAGTAATG-GATTTAAAAAATGTATCT-TTTGGCTTGACCAGTGCA
65 TAATATTTCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTATTTGAC-TGACCAGTTCA
*
38411 AACAATTATGACTATTTGAACAATTATCTACTTCAAATTGTTATGACCTTTTG
128 AATAATTATGACTATTTGAACAATTATCTACTTCAAATTGTTATGACCTTTTG
* * * *
38464 TTTTCTCACAAAACAATTGTTTTTGTTCATACAAGCTTATTC-ATAATAACATAATTCTAATTTA
1 TTTTATCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGA-AATAA-ATAATACTAATTTA
* * *
38528 TTAATATTTCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTATTT-ACCGAACAAGTTCA
64 TTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTATTTGACTG-ACCAGTTCA
* * * * *
38592 AATAATTATGACTATTTGAACAATTATCCAGTTTAAATTGCTATAACCTTTTG
128 AATAATTATGACTATTTGAACAATTATCTACTTCAAATTGTTATGACCTTTTG
* * * * *
38645 TATTGTCATAAAATAATTTTTTCTATTCATACAAGCTTATT
1 TTTTATCATAAAACAATTGTTTCTGTTCATACAAGCTTATT
38686 TCAAATCTGT
Statistics
Matches: 337, Mismatches: 56, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
179 7 0.02
180 146 0.43
181 181 0.54
182 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (180 bp):
TTTTATCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGAAATAAATAATACTAATTTATT
AATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTATTTGACTGACCAGTTCAAAT
AATTATGACTATTTGAACAATTATCTACTTCAAATTGTTATGACCTTTTG
Found at i:38930 original size:255 final size:255
Alignment explanation
Indices: 38475--38940 Score: 580
Period size: 255 Copynumber: 1.8 Consensus size: 255
38465 TTTCTCACAA
* * *
38475 AACAATTGTTTTTGTTCATACAAGCTTATTCATAATAACATAATTCTAATTTATTAATATTTCAA
1 AACAATTATTTTTGTTCATACAAGCTTATTCAGAATAAAATAATTCTAATTTATTAATATTTCAA
* * * * * *
38540 AAATTAATAAGTGAGAGATTTAAAAAATGAATCTATTTACCGAACAAGTTCAAATAATTATGACT
66 AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCGAACAAGTTCAAATAATAATAACT
* * ** * * * *
38605 ATTTGAACAATTATCCAGTTTAAATTGCTATAACCTTTTGTATTGTCATAAAATAATTTTTTCTA
131 ATCTAAACAATTATCCAGTTTAAATCACTATAACCTTTTGTATTGCCATAAAACAATTTATTCAA
38670 TTCATACAAGCTTATTTCAAATCTGTTTACCAAATAATTTTGAATAGTTATGACTATTGG
196 TTCATACAAGCTTATTTCAAATCTGTTTACCAAATAATTTTGAATAGTTATGACTATTGG
** * *
38730 AACAATTATTTTTGTTCATATTAGCTTATTCGGATTAAAATAATAT-TAATTTATTAATATTTCA
1 AACAATTATTTTTGTTCATACAAGCTTATTCAGAATAAAATAAT-TCTAATTTATTAATATTTCA
* * * * *
38794 ACAATTAATATGTAAAAGATTTAAAAAATAAATATTTTTACTGAACAAGTTCAAATAGTAATAAC
65 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCGAACAAGTTCAAATAATAATAAC
* * * *
38859 TATCTAAATAATTATCTA-TTTCAAATCATTATGACCTTTTGT-TTCGCCATAAAACAATTATAT
130 TATCTAAACAATTATCCAGTTT-AAATCACTATAACCTTTTGTATT-GCCATAAAACAATT-TAT
* *
38922 T-AATTCATATAGGCTTATT
192 TCAATTCATACAAGCTTATT
38941 CGAAATAAAA
Statistics
Matches: 175, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
254 5 0.03
255 166 0.95
256 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (255 bp):
AACAATTATTTTTGTTCATACAAGCTTATTCAGAATAAAATAATTCTAATTTATTAATATTTCAA
AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCGAACAAGTTCAAATAATAATAACT
ATCTAAACAATTATCCAGTTTAAATCACTATAACCTTTTGTATTGCCATAAAACAATTTATTCAA
TTCATACAAGCTTATTTCAAATCTGTTTACCAAATAATTTTGAATAGTTATGACTATTGG
Found at i:39635 original size:180 final size:180
Alignment explanation
Indices: 39285--39635 Score: 382
Period size: 181 Copynumber: 1.9 Consensus size: 180
39275 AATCTCTTAC
* ** *
39285 TTATTAATTTTCAAAATATTATTAAATCAGTATTATTTTAATCCAAATAAGCTTGTACGAACAAA
1 TTATTAAGTTTCAAAATATTATTAAATCAGTATTATTTTAATCCAAATAAAATAGTACGAACAAA
* * * * * * * *
39350 ATAATTGTTTTACGTTAAAAGAAACGGTCATAACGATTTGAAATAGATAATCATTCATAGAGTCT
66 ACAATTATTTGACGATAAAAGAAACGGTCATAACGATTTGAAATAAATAATCATTAAAAGAGTCA
* * ** *
39415 TAACTATTTGAATTGGTTTGACAATTAGATTTATTTTTTAATTTTCTTGG
131 AAACTATTTGAAATGGTTTGACAAGAAGATTTACTTTTTAATTTTCTTGG
* * * * *
39465 TTATTAAGTTTCGAAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGA
1 TTATTAAGTTTCAAAATATTATTAAATCAGTATTATTTTAATCCAAATAAAATAGTACGAACA-A
* * * * * * * *
39530 ACCAATTATTTGATGATAAAA-TAACATGTTATAATGATTTGAAATAAATAATTATTAAAATAGT
65 AACAATTATTTGACGATAAAAGAAAC-GGTCATAACGATTTGAAATAAATAATCATTAAAAGAGT
**
39594 CAAAACTATTTGAAATGGTTTGGTAAGAAGATTT-CTTTTTAA
129 CAAAACTATTTGAAATGGTTTGACAAGAAGATTTACTTTTTAA
39636 ATCTCTTACA
Statistics
Matches: 137, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
180 64 0.47
181 73 0.53
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (180 bp):
TTATTAAGTTTCAAAATATTATTAAATCAGTATTATTTTAATCCAAATAAAATAGTACGAACAAA
ACAATTATTTGACGATAAAAGAAACGGTCATAACGATTTGAAATAAATAATCATTAAAAGAGTCA
AAACTATTTGAAATGGTTTGACAAGAAGATTTACTTTTTAATTTTCTTGG
Found at i:41182 original size:9 final size:8
Alignment explanation
Indices: 41170--41226 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 8
41160 TTTATTATAT
41170 TAATATTTA
1 TAATA-TTA
41179 TAATATTA
1 TAATATTA
*
41187 CTAATAAT-
1 -TAATATTA
41195 TAATATTA
1 TAATATTA
* *
41203 TTATAATA
1 TAATATTA
41211 TAATAATTA
1 TAAT-ATTA
41220 TAATATT
1 TAATATT
41227 TTTATAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
7 6 0.15
8 15 0.38
9 18 0.46
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:41196 original size:25 final size:24
Alignment explanation
Indices: 41168--41243 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 24
41158 AATTTATTAT
41168 ATTAATATTTATAATATTACTAATA
1 ATTAATATTTATAATATTA-TAATA
* *
41193 ATTAATA-TTATTATAATATAATA
1 ATTAATATTTATAATATTATAATA
41216 ATTATAATATTTTTATAATATTAGTAAT
1 A-T-TAATA--TTTATAATATTA-TAAT
41244 TTTGTTATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.15
24 10 0.24
25 12 0.29
28 9 0.22
29 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTAATATTTATAATATTATAATA
Found at i:41200 original size:16 final size:16
Alignment explanation
Indices: 41177--41224 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
41167 TATTAATATT
41177 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
41194 T-TAATATTATTATAA
1 TATAATATTATAATAA
41209 TATAATAATTATAATA
1 TATAAT-ATTATAATA
41225 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:41564 original size:19 final size:19
Alignment explanation
Indices: 41540--41608 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
41530 TGTTTGAAAT
41540 ATTAATAATTAATATTTTA
1 ATTAATAATTAATATTTTA
*
41559 ATTAATAATTTAT-TTTTA
1 ATTAATAATTAATATTTTA
*
41577 ATAAAATAACATTAATATTTTA
1 AT-TAAT-A-ATTAATATTTTA
41599 TTATTAATAA
1 --ATTAATAA
41609 CAAGCAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 7 0.17
19 15 0.38
20 1 0.03
21 6 0.15
22 6 0.15
23 3 0.08
24 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAATAATTAATATTTTA
Found at i:41618 original size:28 final size:27
Alignment explanation
Indices: 41558--41638 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
41548 TTAATATTTT
* *
41558 AATTAATAATTTATTTTTAATAAAATA
1 AATTAATAATTTATTATTAATAAAAGA
* *
41585 ACATTAATATTTTATTATTAATAACAAGC
1 A-ATTAATAATTTATTATTAATAA-AAGA
* *
41614 AATTATTAACTTAATTA-TAATAAAA
1 AATTAATAA-TTTATTATTAATAAAA
41639 TAATTATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 3 0.07
28 32 0.73
29 9 0.20
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (27 bp):
AATTAATAATTTATTATTAATAAAAGA
Found at i:42392 original size:15 final size:16
Alignment explanation
Indices: 42358--42400 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
42348 TTATTACACG
* *
42358 TATTATAAATTATTAT
1 TATTATAAATTAATAA
42374 TATT-TAAATTAATAA
1 TATTATAAATTAATAA
*
42389 TATTATTAATTA
1 TATTATAAATTA
42401 TAACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATAAATTAATAA
Found at i:42589 original size:27 final size:25
Alignment explanation
Indices: 42559--42609 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
42549 TTTATAGTTT
* *
42559 AATATATTAAATTAAATAATTAATATA
1 AATAGATTAAAAT-AAT-ATTAATATA
42586 AATAGATTAAAATAATATTAATAT
1 AATAGATTAAAATAATATTAATAT
42610 TATTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
AATAGATTAAAATAATATTAATATA
Found at i:43445 original size:11 final size:11
Alignment explanation
Indices: 43429--43480 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
43419 TATCTCAATT
43429 TATAATTATAA
1 TATAATTATAA
43440 TATAATTATTAA
1 TATAATTA-TAA
*
43452 TAATAACTATAA
1 T-ATAATTATAA
*
43464 -ATTAATTATAT
1 TA-TAATTATAA
43475 TATAAT
1 TATAAT
43481 AATTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
11 19 0.56
12 8 0.24
13 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TATAATTATAA
Found at i:43498 original size:35 final size:32
Alignment explanation
Indices: 43430--43517 Score: 83
Period size: 35 Copynumber: 2.7 Consensus size: 32
43420 ATCTCAATTT
*
43430 ATAATTATAATATAATTATTAATAATAACTATAA
1 ATAATTATATTATAA-TATTAATAATAACTAT-A
43464 ATTAATTATATTATAATAATTAAT-A-AACTATATA
1 A-TAATTATATTATAAT-ATTAATAATAAC--TATA
*
43498 ATAATT-TATTATTATATTAA
1 ATAATTATATTATAATATTAA
43518 AACAATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
31 5 0.10
32 8 0.17
33 8 0.17
34 5 0.10
35 22 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
ATAATTATATTATAATATTAATAATAACTATA
Found at i:43839 original size:42 final size:41
Alignment explanation
Indices: 43783--43890 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 41
43773 TTAAAATTAT
*
43783 TAATAATATATATTATTTAACTAATAAATAGTT-TAATAAAATAC
1 TAAT-ATATTTATTATTTAACTAATAAATA-TTCTAAT--AATAC
* * *
43827 TAAT-TTTTTATTATTTAATTAATAATTATTCTAATAATAC
1 TAATATATTTATTATTTAACTAATAAATATTCTAATAATAC
43867 TAATAATATTTATTATTATAACTA
1 TAAT-ATATTTATTATT-TAACTA
43891 TAGTATATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
40 9 0.17
41 2 0.04
42 34 0.63
43 5 0.09
44 4 0.07
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (41 bp):
TAATATATTTATTATTTAACTAATAAATATTCTAATAATAC
Found at i:44022 original size:21 final size:21
Alignment explanation
Indices: 43983--44022 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43973 ATATTGTTAG
*
43983 TTATAATTTATAATATAATAT
1 TTATAATATATAATATAATAT
44004 TTATAATATATTAAT-TAAT
1 TTATAATATA-TAATATAAT
44023 TTAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATATATAATATAATAT
Found at i:44031 original size:13 final size:13
Alignment explanation
Indices: 44013--44038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44003 TTTATAATAT
44013 ATTAATTAATTTA
1 ATTAATTAATTTA
44026 ATTAATTAATTTA
1 ATTAATTAATTTA
44039 TGAAAATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATTAATTTA
Found at i:45525 original size:182 final size:178
Alignment explanation
Indices: 45316--45767 Score: 464
Period size: 181 Copynumber: 2.5 Consensus size: 178
45306 TTGTTTTTTA
*
45316 TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATGTTTCAAAAATTAATAAGTAAG
1 TCATACAAGCTTATT-TAAATAAAATAA-ACTAATTTATTAAT-TTTCAAAAATTAATAAGTAAG
* * *
45381 AGATTTAAAAAAATAAATTTGTTTACAAAAAC-AATTCAAATAGTTATAACTAT-TAGAGCT-GT
63 AGATTT-AAAAAATAAATTTGTTTAC-AAAACTAATTCAAATAGTTAAAACTATATA-A-ATAAT
* ** * *
45443 TGTATACTTCAAATTGTTATAACATTTTATTTTGTCATAAAACAA-TTATTTCTAT
124 TATATACTTCAAATCATTATAACATTTTATTTTGTCATAAAACAACAT-TTTCAAT
* ** * * * *
45498 TTATACAAGCTTATTTGAAATAAAATAAAACTAACCTAATAATATTCTAAAAATTAATGACTAAG
1 TCATACAAGCTTATTT-AAATAAAAT-AAACTAATTTATTAATTTTC-AAAAATTAATAAGTAAG
* * ** * * *
45563 AGATTTAAAAAATAAAATTGTTTGCCGAACTAGTTCAAATTGTTAAAACTATATAAATAATTATC
63 AGATTTAAAAAATAAATTTGTTTACAAAACTAATTCAAATAGTTAAAACTATATAAATAATTATA
* *
45628 TATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAACATTTTCAAT
128 TACTTCAAATCATTATAACATTTTATTTTGTCATAAAACAACATTTTCAAT
* * * *
45679 TCATACTAGCTTATTTAGAAT-AAATAAAATAAATTTATTAAAATTTCATAAATTAATAAGTAAG
1 TCATACAAGCTTATTTA-AATAAAATAAACT-AATTTATT-AATTTTCAAAAATTAATAAGTAAG
* *
45743 AGAATTAAAAAATAATTTTGTTTAC
63 AGATTTAAAAAATAAATTTGTTTAC
45768 CTAACCAGTT
Statistics
Matches: 220, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
179 4 0.02
180 49 0.22
181 107 0.49
182 58 0.26
183 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (178 bp):
TCATACAAGCTTATTTAAATAAAATAAACTAATTTATTAATTTTCAAAAATTAATAAGTAAGAGA
TTTAAAAAATAAATTTGTTTACAAAACTAATTCAAATAGTTAAAACTATATAAATAATTATATAC
TTCAAATCATTATAACATTTTATTTTGTCATAAAACAACATTTTCAAT
Found at i:45666 original size:181 final size:179
Alignment explanation
Indices: 45196--45783 Score: 526
Period size: 182 Copynumber: 3.2 Consensus size: 179
45186 AATAAATTTA
* * * * * * *** * **
45196 TAAGTGATTTAAAAAGTGAATATGTTTACCAAATCAATTCAAATAATTATGGCCATTTCAATAAT
1 TAAGAGATTTAAAAAATAAATTTGTTTACCAAA-CAGTTCAAATAGTTAAAACTATTAGAATAAT
* * * * ** *
45261 TATCTATTTCAAATTGTTCTTACCTTTTGTTTGGTCATATGACAATTGTTT-T-TTATCATACAA
65 TATCTATTTCAAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCTATT-T-ATACAA
* * *
45324 GCTTATTCAAAATAAAATAATACTAATTTATTAATGTTTCAAAAATTAATAAG
128 GCTTATT-TAAATAAAATAAAACTAATTTATTAATATTTCAAAAATTAATAAG
* * * *
45377 TAAGAGATTTAAAAAAATAAATTTGTTTACAAAAACAATTCAAATAGTTATAACTATTAGAGCT-
1 TAAGAGATTT-AAAAAATAAATTTGTTTAC-CAAACAGTTCAAATAGTTAAAACTATTAGA-ATA
* * * * *
45441 GTTGTATACTTCAAATTGTTATAACATTTTATTTTGTCATAAAACAATTATTTCTATTTATACAA
63 ATTATCTATTTCAAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCTATTTATACAA
** * * *
45506 GCTTATTTGAAATAAAATAAAACTAACCTAATAATA-TTCTAAAAATTAATGAC
128 GCTTATTT-AAATAAAATAAAACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * *
45559 TAAGAGATTTAAAAAATAAAATTGTTTGCCGAACTAGTTCAAATTGTTAAAACTATATA-AATAA
1 TAAGAGATTTAAAAAATAAATTTGTTTACCAAAC-AGTTCAAATAGTTAAAACTAT-TAGAATAA
** * * * *
45623 TTATCTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAA-CATTTTCAATTCATACTA
64 TTATCTATTTCAAATTGTTATAACCTTTTATTTTGTCATAAAACAATTA-TTTCTATTTATACAA
* *
45687 GCTTATTTAGAAT-AAATAAAA-TAAATTTATTAAAATTTCATAAATTAATAAG
128 GCTTATTTA-AATAAAATAAAACT-AATTTATTAATATTTCAAAAATTAATAAG
* * *
45739 TAAGAGAATTAAAAAATAATTTTGTTTACCTAACCAGTTCAAATA
1 TAAGAGATTTAAAAAATAAATTTGTTTACC-AAACAGTTCAAATA
45784 ATTCAAATTG
Statistics
Matches: 327, Mismatches: 65, Indels: 31
0.77 0.15 0.07
Matches are distributed among these distances:
179 1 0.00
180 67 0.20
181 116 0.35
182 135 0.41
183 6 0.02
184 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (179 bp):
TAAGAGATTTAAAAAATAAATTTGTTTACCAAACAGTTCAAATAGTTAAAACTATTAGAATAATT
ATCTATTTCAAATTGTTATAACCTTTTATTTTGTCATAAAACAATTATTTCTATTTATACAAGCT
TATTTAAATAAAATAAAACTAATTTATTAATATTTCAAAAATTAATAAG
Done.