Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005876.1 Hibiscus syriacus cultivar Beakdansim tig00013808_pilon, 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: 777889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:721804 original size:3 final size:3
Alignment explanation
Indices: 721798--721829 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
721788 ACATTATTAT
721798 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
721830 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:731130 original size:2 final size:2
Alignment explanation
Indices: 731123--731164 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
731113 CCAAGCCATC
731123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
731165 GCATATGCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:735597 original size:18 final size:16
Alignment explanation
Indices: 735562--735607 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
735552 CCTTGGCTTG
735562 CTTTCTCTTTTGAATTT
1 CTTTCT-TTTTGAATTT
*
735579 CTTTTCTTTTCTGATTTT
1 C-TTTCTTTT-TGAATTT
735597 CTTTCTTTTTG
1 CTTTCTTTTTG
735608 CACTCCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 12 0.46
18 12 0.46
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.70
Consensus pattern (16 bp):
CTTTCTTTTTGAATTT
Found at i:745001 original size:29 final size:29
Alignment explanation
Indices: 744968--745023 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
744958 TCCCAACACA
744968 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
* *
744997 TAGGTCGCCATGCTCTCTGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
745024 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.11, C:0.36, G:0.30, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:745076 original size:33 final size:33
Alignment explanation
Indices: 745039--745148 Score: 150
Period size: 33 Copynumber: 3.3 Consensus size: 33
745029 TGCTCGCTCG
*
745039 CTCGGATGCCCTCGCATAGCTCGCTC-GACTGCC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGA-TGGC
*
745072 CTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
* * * *
745105 CTTGGATGCTCTCGGATAGCTCGGTCGGATGGC
1 CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
745138 CTCGGATGCCC
1 CTCGGATGCCC
745149 AGCGTGTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 66 0.97
34 2 0.03
ACGTcount: A:0.12, C:0.35, G:0.30, T:0.24
Consensus pattern (33 bp):
CTCGGATGCCCTCGCATAGCTCGCTCGGATGGC
Found at i:747549 original size:74 final size:72
Alignment explanation
Indices: 747471--747910 Score: 365
Period size: 74 Copynumber: 5.9 Consensus size: 72
747461 TTTGACAAAG
* **
747471 TATAATATATAATTTTCAGAAAAAGGTTTTTGAAAA-TATATATGGTATAATTTTGAAAACATTT
1 TATAATATATAGTTTTCA-AAAAA--TTTTTGAAAATTATATATTATATAATTTTGAAAACATTT
*
747535 TTAAAATATA
63 TGAAAATATA
* * *
747545 TATAATATATAG-TTTCGAAAACA-TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGTCA
1 TATAATATATAGTTTTC-AAAAAATTTTTG-AAA-A-TTATATATTATATAATTTTGAAAA--CA
747608 TTTTGAAAAATATA
60 TTTTG-AAAATATA
* * *
747622 TATAATATATAGTTTTTAAAACA-TTTTGAAAATTATATATAGTATATAGTTTTGAAAACATTTT
1 TATAATATATAGTTTTCAAAAAATTTTTGAAAATTATATAT--TATATAATTTTGAAAACATTTT
747686 GAAAAT-TA
64 GAAAATATA
* * * * * *
747694 TATAGTATATAGTTTTGAAGATATTTTTGAAAACATTTATATATTATATAGTTTTTTTAAAAGAC
1 TATAATATATAGTTTTCAAAAAATTTTTG-AAA-A-TTATATATTATATA---ATTTTGAAA-AC
747759 ATTTTGAAAATATA
59 ATTTTGAAAATATA
* * * *
747773 TATAATATATAGTTTTTAAAAAACATTTTTG-AAATTATATA-TATA-ATTTTTTAAAACGTTTT
1 TATAATATATAG-TTTTCAAAAA-ATTTTTGAAAATTATATATTATATAATTTTGAAAAC-ATTT
**
747835 TGAAAATACG
63 TGAAAATATA
* ** *
747845 TATAATATATAGTTTTCAAAAAAGCATTTTGAAAATTTATATATTATATGTTTTTGAAAACTTTT
1 TATAATATATAGTTTTCAAAAAA--TTTTTGAAAA-TTATATATTATATAATTTTGAAAACATTT
747910 T
63 T
747911 ATATATTATT
Statistics
Matches: 310, Mismatches: 27, Indels: 57
0.79 0.07 0.14
Matches are distributed among these distances:
70 6 0.02
71 14 0.05
72 58 0.19
73 21 0.07
74 62 0.20
75 12 0.04
76 46 0.15
77 45 0.15
78 17 0.05
79 15 0.05
80 7 0.02
81 7 0.02
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (72 bp):
TATAATATATAGTTTTCAAAAAATTTTTGAAAATTATATATTATATAATTTTGAAAACATTTTGA
AAATATA
Found at i:747647 original size:37 final size:36
Alignment explanation
Indices: 747498--747910 Score: 365
Period size: 39 Copynumber: 11.1 Consensus size: 36
747488 AGAAAAAGGT
** *
747498 TTTTGAAAATATATATGGTATA-A-TTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* **
747532 TTTTTAAAATATATATAATATATAGTTTCGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
747568 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGTCA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAAAA--CA
747608 TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTG-AAAATATATATAATATATAGTTTTTAAAACA
* *
747645 TTTTGAAAATTATATATAGTATATAGTTTTGAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTTAAAACA
* * * *
747682 TTTTGAAAAT-TATATAGTATATAGTTTTGAAGATA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
747717 TTTTTGAAAACATTTATATATTATATAGTTTTTTTAAAAGACA
1 -TTTTG-AAA-ATATATATAATATATAG--TTTTT-AAA-ACA
747760 TTTTGAAAATATATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTT--AAAACA
* *
747798 TTTTTG-AAAT-TATAT-ATATA-ATTTTTTAAAACGT
1 -TTTTGAAAATATATATAATATATAGTTTTTAAAAC-A
** *
747832 TTTTGAAAATACGTATAATATATAGTTTTCAAAAAAGCA
1 TTTTGAAAATATATATAATATATAGTTTT--TAAAA-CA
* * *
747871 TTTTGAAAATTTATATATTATAT-GTTTTTGAAAACT
1 TTTTGAAAATATATATAATATATAGTTTTT-AAAACA
747907 TTTT
1 TTTT
747911 ATATATTATT
Statistics
Matches: 319, Mismatches: 34, Indels: 50
0.79 0.08 0.12
Matches are distributed among these distances:
33 10 0.03
34 23 0.07
35 33 0.10
36 39 0.12
37 61 0.19
38 41 0.13
39 69 0.22
40 27 0.08
41 7 0.02
42 7 0.02
43 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:747823 original size:72 final size:72
Alignment explanation
Indices: 747747--747888 Score: 191
Period size: 72 Copynumber: 2.0 Consensus size: 72
747737 TTATATAGTT
* *
747747 TTTTTAAAAGAC-ATTTTGAAAATATATATAATATATAGTTTTTAAAAAA-CATTTTTG-AAATT
1 TTTTTAAAA-ACGATTTTGAAAATACATATAATATATAGTTTTCAAAAAAGCA-TTTTGAAAATT
747809 ATATATATAA
64 -TATATATAA
* * *
747819 TTTTTTAAAACGTTTTTGAAAATACGTATAATATATAGTTTTCAAAAAAGCATTTTGAAAATTTA
1 TTTTTAAAAACGATTTTGAAAATACATATAATATATAGTTTTCAAAAAAGCATTTTGAAAATTTA
747884 TATAT
66 TATAT
747889 TATATGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
71 2 0.03
72 53 0.85
73 7 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (72 bp):
TTTTTAAAAACGATTTTGAAAATACATATAATATATAGTTTTCAAAAAAGCATTTTGAAAATTTA
TATATAA
Found at i:747854 original size:151 final size:149
Alignment explanation
Indices: 747471--747899 Score: 493
Period size: 151 Copynumber: 2.8 Consensus size: 149
747461 TTTGACAAAG
* * ** *
747471 TATAATATATAATTTTCAGAAAAAGGTTTTTGAAAATATATATGGTATAA-TTTTGAAAACATTT
1 TATAATATATAGTTTTTA-AAAAACATTTTTGAAAAT-TATAT-ATATAATTTTTGAAAAC-TTT
* * *
747535 TTAAAATATATATAATATATAGTTTCGAAAACATTTTGAAAACATTTATATATTATATAG--TTT
62 TTGAAA-ATATATAATATATAGTTTTGAAAAAATTTTGAAAACATTTATATATTATATAGTTTTT
*
747598 TTAAAAGTCATTTTGAAAAATATA
126 TTAAAAGACATTTTGAAAAATATA
*
747622 TATAATATATAGTTTTT--AAAACA-TTTTGAAAATTATATATAGTATATAGTTTTGAAAACATT
1 TATAATATATAGTTTTTAAAAAACATTTTTGAAAATTATATATA-TA-AT--TTTTGAAAACTTT
* * *
747684 TTGAAAATTATATAGTATATAGTTTTGAAGATATTTTTGAAAACATTTATATATTATATAGTTTT
62 TTGAAAA-TATATAATATATAGTTTTGAA-AAAATTTTGAAAACATTTATATATTATATAGTTTT
747749 TTTAAAAGACATTTTG-AAAATATA
125 TTTAAAAGACATTTTGAAAAATATA
*
747773 TATAATATATAGTTTTTAAAAAACATTTTTG-AAATTATATATATAATTTTTTAAAACGTTTTTG
1 TATAATATATAGTTTTTAAAAAACATTTTTGAAAATTATATATATAATTTTTGAAAAC-TTTTTG
*
747837 AAAATACGTATAATATATAGTTTTCAAAAAAGCATTTTG-AAA-ATTTATATATTATAT-GTTTT
65 AAAATA--TATAATATATAGTTTT-GAAAAA--ATTTTGAAAACATTTATATATTATATAGTTTT
747899 T
125 T
747900 GAAAACTTTT
Statistics
Matches: 241, Mismatches: 19, Indels: 37
0.81 0.06 0.12
Matches are distributed among these distances:
145 2 0.01
146 7 0.03
147 11 0.05
148 5 0.02
149 37 0.15
150 53 0.22
151 74 0.31
152 24 0.10
153 23 0.10
154 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (149 bp):
TATAATATATAGTTTTTAAAAAACATTTTTGAAAATTATATATATAATTTTTGAAAACTTTTTGA
AAATATATAATATATAGTTTTGAAAAAATTTTGAAAACATTTATATATTATATAGTTTTTTTAAA
AGACATTTTGAAAAATATA
Found at i:747955 original size:22 final size:22
Alignment explanation
Indices: 747914--747955 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
747904 ACTTTTTATA
* *
747914 TATTATTATTGTTTATTATTGT
1 TATTATTATTATTTACTATTGT
*
747936 TATTATTATTATTTCCTATT
1 TATTATTATTATTTACTATT
747956 TATTTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TATTATTATTATTTACTATTGT
Found at i:749561 original size:13 final size:13
Alignment explanation
Indices: 749545--749574 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
749535 CAAATAGGAT
749545 TTTTAAATTTAAA
1 TTTTAAATTTAAA
749558 TTTTAAATTTAAA
1 TTTTAAATTTAAA
749571 TTTT
1 TTTT
749575 CGTAACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTTAAA
Found at i:757851 original size:23 final size:23
Alignment explanation
Indices: 757790--757852 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
757780 TATAAAAGAT
*
757790 AAAAAAATTTGTCA-AAAGATAT
1 AAAAAAATTTGTCATAAAGATAG
* * * *
757812 AAAAAAATGTATTATAAAGATGG
1 AAAAAAATTTGTCATAAAGATAG
*
757835 AGAAAAATTTGTCATAAA
1 AAAAAAATTTGTCATAAA
757853 AAACATAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (23 bp):
AAAAAAATTTGTCATAAAGATAG
Found at i:758594 original size:37 final size:37
Alignment explanation
Indices: 758518--758594 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
758508 TTTTATATTT
*
758518 TTTAATTTTGTAAACAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAACAAAATTATATAAATATTATCAA
* * *
758555 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAACAAAATTATATAAATATTAT-CAA
758592 TTT
1 TTT
758595 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAACAAAATTATATAAATATTATCAA
Found at i:758778 original size:20 final size:20
Alignment explanation
Indices: 758742--758779 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
758732 ATCTTATTCT
**
758742 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTACATTCCCA
758762 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
758780 GTAACTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:760298 original size:19 final size:20
Alignment explanation
Indices: 760274--760313 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
760264 TCCTCTTTCC
760274 TATTTTTATT-ATTTACTTA
1 TATTTTTATTGATTTACTTA
*
760293 TATTTTTCTTGATTTACTTA
1 TATTTTTATTGATTTACTTA
760313 T
1 T
760314 TTAACTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTTTATTGATTTACTTA
Found at i:760413 original size:16 final size:17
Alignment explanation
Indices: 760392--760424 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
760382 ATTTTCTATT
*
760392 ATTTAATATAAA-AATA
1 ATTTAAAATAAATAATA
760408 ATTTAAAATAAATAATA
1 ATTTAAAATAAATAATA
760425 GTAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAATAAATAATA
Found at i:761848 original size:16 final size:15
Alignment explanation
Indices: 761825--761853 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
761815 ATGTTCAAAA
761825 TTTTAAAAATTCAAC
1 TTTTAAAAATTCAAC
761840 TTTTAAAAATTCAA
1 TTTTAAAAATTCAA
761854 TAAAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTTAAAAATTCAAC
Found at i:766065 original size:18 final size:18
Alignment explanation
Indices: 766015--766065 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
766005 GTTAAGGTGC
*
766015 TTTTGAAAATTTTAT-AT
1 TTTTTAAAATTTTATAAT
**
766032 TTTTTAAAA-AATATAAT
1 TTTTTAAAATTTTATAAT
766049 TTTTTAAAATTTTATAA
1 TTTTTAAAATTTTATAA
766066 AGATGACACG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 3 0.11
17 19 0.70
18 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTTAAAATTTTATAAT
Found at i:766868 original size:26 final size:27
Alignment explanation
Indices: 766824--766876 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
766814 AAGTATAATA
766824 AGTTCCCTTTTTTTCCTTTTCTTGTTG
1 AGTTCCCTTTTTTTCCTTTTCTTGTTG
766851 AGTTCCCTTTTTTT-CTTTTCTTGTTG
1 AGTTCCCTTTTTTTCCTTTTCTTGTTG
766877 TTTGGTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.04, C:0.21, G:0.11, T:0.64
Consensus pattern (27 bp):
AGTTCCCTTTTTTTCCTTTTCTTGTTG
Found at i:767021 original size:2 final size:2
Alignment explanation
Indices: 767014--767048 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
767004 TTGGACCATC
767014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
767049 TTGAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:769658 original size:238 final size:238
Alignment explanation
Indices: 769209--769678 Score: 847
Period size: 238 Copynumber: 2.0 Consensus size: 238
769199 AAAAATAGAG
769209 TAGATTAATTATATTAATTGATTATTTTCCTTAAAACCACAAAATGTACAAATTAGTCACTAAAT
1 TAGATTAATTATATTAATTGATTATTTTCCTTAAAACCACAAAATGTACAAATTAGTCACTAAAT
*
769274 AATAAAATATTATTATACAAAAAAAATGGACATTCAATCAAACAACTTAGAAAATGATAATACAA
66 AATAAAATATTATTATACAAAAAAAATGGACATTCAATCAAACAACTTAAAAAATGATAATACAA
* *
769339 ATAAATAACATTGTCGTCTATTGTCGTCTGTGAAAGTAAGCAACGTCAATATTAACCTAAAAATA
131 ATAAATAACATTGTCGTCTACTGTCGTCTGTGAAAGTAAGCAACATCAATATTAACCTAAAAATA
*
769404 CATATAGCAATGACAACACATTGATAAATCTATTTTTAACAACT
196 CATATAGCAATGACAACACATTGAT-AATCTAGTTTTAACAACT
769448 TAGATTAATTATATTAATTGATTATTTTCCTTAAAACCAC-AAATGTACAAATTAGTCACTAAAT
1 TAGATTAATTATATTAATTGATTATTTTCCTTAAAACCACAAAATGTACAAATTAGTCACTAAAT
*
769512 AATAAAATATTATTATAC-GAAAAAATGGACATTCAATCAAACAACTTAAAAAATGATAATACAA
66 AATAAAATATTATTATACAAAAAAAATGGACATTCAATCAAACAACTTAAAAAATGATAATACAA
769576 ATAAATAACATTGTCGTCTACTGTCGTCTGTGAAAGATAAGCATA-ATCAATATTAACCTAAAAA
131 ATAAATAACATTGTCGTCTACTGTCGTCTGTGAAAG-TAAGCA-ACATCAATATTAACCTAAAAA
769640 TACATATAGCAATGACAACACATTGATAATCTAGTTTTA
194 TACATATAGCAATGACAACACATTGATAATCTAGTTTTA
769679 TCAGCACTCA
Statistics
Matches: 224, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
237 90 0.40
238 93 0.42
239 41 0.18
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (238 bp):
TAGATTAATTATATTAATTGATTATTTTCCTTAAAACCACAAAATGTACAAATTAGTCACTAAAT
AATAAAATATTATTATACAAAAAAAATGGACATTCAATCAAACAACTTAAAAAATGATAATACAA
ATAAATAACATTGTCGTCTACTGTCGTCTGTGAAAGTAAGCAACATCAATATTAACCTAAAAATA
CATATAGCAATGACAACACATTGATAATCTAGTTTTAACAACT
Found at i:772067 original size:24 final size:24
Alignment explanation
Indices: 772036--772085 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
772026 ATACGAATTT
772036 TAAAAAAATTATATTAAAAATATATA
1 TAAAAAAA--ATATTAAAAATATATA
* *
772062 TAAAAAAAATATTTAAACTATATA
1 TAAAAAAAATATTAAAAATATATA
772086 CGAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAAAAATATTAAAAATATATA
Found at i:777347 original size:19 final size:19
Alignment explanation
Indices: 777323--777362 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
777313 AAGTTTTATC
777323 GATTTCAAGGGAATCTCGA
1 GATTTCAAGGGAATCTCGA
777342 GATTTCAAGGGAATCTCGA
1 GATTTCAAGGGAATCTCGA
777361 GA
1 GA
777363 CAAATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (19 bp):
GATTTCAAGGGAATCTCGA
Done.