Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000992.1 Hibiscus syriacus cultivar Beakdansim tig00001986_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: 82764
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:3933 original size:30 final size:30
Alignment explanation
Indices: 3893--3950 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3883 AAGAGATACA
* *
3893 ATTGAAAGTTTCGACTTGTCCTTTAGTACG
1 ATTGAAAGTTTCAACTTGTCATTTAGTACG
*
3923 ATTGAGAGTTTCAACTTGTCATTTAGTA
1 ATTGAAAGTTTCAACTTGTCATTTAGTA
3951 ACCAATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (30 bp):
ATTGAAAGTTTCAACTTGTCATTTAGTACG
Found at i:11173 original size:63 final size:63
Alignment explanation
Indices: 11009--11177 Score: 293
Period size: 63 Copynumber: 2.7 Consensus size: 63
10999 GCGATCACTC
* * * *
11009 TCGTGCCTTCTTGACCTGCTACTGCTTCTCTCTCTCCTCTCCATCTCCCGTTCTTCCTCCCTT
1 TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCCTCTCCCGTTCTTCCTCCCTT
*
11072 TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCCTCTCCCTTTCTTCCTCCCTT
1 TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCCTCTCCCGTTCTTCCTCCCTT
11135 TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCC
1 TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCC
11178 CTTCCTCCTC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.04, C:0.44, G:0.09, T:0.43
Consensus pattern (63 bp):
TCGTGCCTTCTCGACTTGCTACTGCTTCTCTCTCTCCTTTCCCTCTCCCGTTCTTCCTCCCTT
Found at i:11976 original size:18 final size:18
Alignment explanation
Indices: 11944--11986 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11934 TTTAATTATG
11944 TTAAAA-AAATATTAAAA
1 TTAAAATAAATATTAAAA
*
11961 TTAAAATAACTATTAAAA
1 TTAAAATAAATATTAAAA
*
11979 TTATAATA
1 TTAAAATA
11987 TTTATGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAATAAATATTAAAA
Found at i:12956 original size:21 final size:22
Alignment explanation
Indices: 12909--12953 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12899 TTATAATTTT
* *
12909 TTAAAATAATTGTTTTAAAAAC
1 TTAAAATAATTATTTAAAAAAC
*
12931 TTAAAATTATTATTTAAAAAAC
1 TTAAAATAATTATTTAAAAAAC
12953 T
1 T
12954 AAATTTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAATAATTATTTAAAAAAC
Found at i:13784 original size:12 final size:12
Alignment explanation
Indices: 13728--13784 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
13718 AGAAATCAAA
13728 AGAATTCAGAAC
1 AGAATTCAGAAC
13740 AG-ATATCAGAAC
1 AGAAT-TCAGAAC
* * * *
13752 AAAATCCATATC
1 AGAATTCAGAAC
*
13764 AGAAATCAGAAC
1 AGAATTCAGAAC
13776 AGAATTCAG
1 AGAATTCAG
13785 GTCATATAGC
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:13821 original size:24 final size:24
Alignment explanation
Indices: 13716--13821 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
13706 AACGGAGATA
13716 TCAGAAATCA-AA-AGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * * *
13737 AACAGATATCAGAACAAAATCCATA-
1 -TCAGAAATCAGAACAGAATTCA-AG
*
13762 TCAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
13786 TCATATAGCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
13810 TCGGAAATCAGA
1 TCAGAAATCAGA
13822 TAAATATATA
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
22 8 0.13
23 2 0.03
24 51 0.82
26 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:17729 original size:9 final size:9
Alignment explanation
Indices: 17707--17792 Score: 79
Period size: 9 Copynumber: 9.4 Consensus size: 9
17697 AAAATATTTT
17707 ATATATAATTA
1 ATATATAA--A
17718 ATATATAAA
1 ATATATAAA
17727 ATATA-AAA
1 ATATATAAA
17735 ATATATATAA
1 ATATATA-AA
* *
17745 A-ATATTAT
1 ATATATAAA
*
17753 AGATAT-AA
1 ATATATAAA
*
17761 TTAATATAAA
1 AT-ATATAAA
17771 ATATATAAA
1 ATATATAAA
17780 ATATATAAA
1 ATATATAAA
17789 ATAT
1 ATAT
17793 TATATATATA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
8 11 0.17
9 39 0.61
10 6 0.09
11 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
ATATATAAA
Found at i:17749 original size:46 final size:43
Alignment explanation
Indices: 17697--17802 Score: 158
Period size: 43 Copynumber: 2.4 Consensus size: 43
17687 CCCGAACCCA
*
17697 AAAATATTTTATATATAATTAATATATAAAATATAAAAATATATAT
1 AAAATATTATATATATAATT-A-ATATAAAATATAAAAA-ATATAT
* *
17743 AAAATATTATAGATATAATTAATATAAAATATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAATATAAAAAATATAT
17786 AAAATATTATATATATA
1 AAAATATTATATATATA
17803 CATAATCGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 22 0.39
44 15 0.27
45 1 0.02
46 18 0.32
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (43 bp):
AAAATATTATATATATAATTAATATAAAATATAAAAAATATAT
Found at i:29984 original size:30 final size:30
Alignment explanation
Indices: 29945--30001 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
29935 TGTGGAACCT
*
29945 TATGAAAGAGTAT-GAAAGAGTATGGAATAA
1 TATGAAAGAGTATAG-AAGAATATGGAATAA
*
29975 TATGGAAGAGTATAGAAGAATATGGAA
1 TATGAAAGAGTATAGAAGAATATGGAA
30002 GGGAGTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (30 bp):
TATGAAAGAGTATAGAAGAATATGGAATAA
Found at i:29992 original size:10 final size:10
Alignment explanation
Indices: 29945--30015 Score: 63
Period size: 10 Copynumber: 7.1 Consensus size: 10
29935 TGTGGAACCT
*
29945 TATGAAAGAG
1 TATGGAAGAG
*
29955 TATGAAAGAG
1 TATGGAAGAG
* *
29965 TATGGAATAA
1 TATGGAAGAG
29975 TATGGAAGAG
1 TATGGAAGAG
* *
29985 TATAGAAGAA
1 TATGGAAGAG
29995 TATGGAAG-G
1 TATGGAAGAG
*
30004 GAGTGGAAGAG
1 TA-TGGAAGAG
30015 T
1 T
30016 GTAGAGCTTC
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
9 1 0.02
10 46 0.96
11 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (10 bp):
TATGGAAGAG
Found at i:29999 original size:20 final size:20
Alignment explanation
Indices: 29950--30002 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
29940 AACCTTATGA
* * *
29950 AAGAGTATGAAAGAGTATGG
1 AAGAATATGGAAGAGTATAG
*
29970 AATAATATGGAAGAGTATAG
1 AAGAATATGGAAGAGTATAG
29990 AAGAATATGGAAG
1 AAGAATATGGAAG
30003 GGAGTGGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGAATATGGAAGAGTATAG
Found at i:30751 original size:46 final size:44
Alignment explanation
Indices: 30684--30776 Score: 150
Period size: 46 Copynumber: 2.1 Consensus size: 44
30674 GGAAGAAGTA
30684 TGGAGTGAAAATGGGGTTTTGGGAAGAATGCTCAAAACAAAATTCT
1 TGGAGTGAAAATGGGGTTTTGGGAAGAA-GCT-AAAACAAAATTCT
* *
30730 TGGAGTGGAAATGGGGTTTTGGGAAGAAGCTAAAACATAATTCT
1 TGGAGTGAAAATGGGGTTTTGGGAAGAAGCTAAAACAAAATTCT
30774 TGG
1 TGG
30777 TTAAAAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 15 0.33
45 3 0.07
46 27 0.60
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (44 bp):
TGGAGTGAAAATGGGGTTTTGGGAAGAAGCTAAAACAAAATTCT
Found at i:31043 original size:21 final size:20
Alignment explanation
Indices: 31019--31066 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
31009 TATCATTATG
31019 TATAAATAATTAATATG-ATTT
1 TATAAATAATT--TATGTATTT
31040 TAT-AATAATTTATGTATTT
1 TATAAATAATTTATGTATTT
*
31059 TTTAAATA
1 TATAAATA
31067 GAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 11 0.46
21 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TATAAATAATTTATGTATTT
Found at i:31119 original size:30 final size:30
Alignment explanation
Indices: 31083--31490 Score: 240
Period size: 31 Copynumber: 13.7 Consensus size: 30
31073 TTTATGTATC
*
31083 TTAACTTAAAAAATATATTTTATTTTTATT
1 TTAACTTAAAAAATATATTTTATTCTTATT
** * * **
31113 TTAACTTATTAAATATATTTTTATTATCAAA
1 TTAACTTAAAAAATATA-TTTTATTCTTATT
* *
31144 TTAAATT-AAAAATATATTTTATTATTATT
1 TTAACTTAAAAAATATATTTTATTCTTATT
* *
31173 TT-AGTTTAAAAATATATTTTTATTCTTA-T
1 TTAACTTAAAAAATATA-TTTTATTCTTATT
* * *
31202 TTAA-TTTAAAATTATATTTTATGTC--ATC
1 TTAACTTAAAAAATATATTTTAT-TCTTATT
* * *
31230 TTAACTTTTAAAAATATATTTTTATTATCATT
1 TTAAC-TTAAAAAATATA-TTTTATTCTTATT
* *
31262 TTAACTTTTAAAAATGTATTTTATTCTTATT
1 TTAAC-TTAAAAAATATATTTTATTCTTATT
* ** * *
31293 TTAAATTATTAAATATGTTTTTATT-TATATA
1 TTAACTTAAAAAATAT-ATTTTATTCT-TATT
* *
31324 TTAACTT-AAAAA-ATGTTTTAATCTTATT
1 TTAACTTAAAAAATATATTTTATTCTTATT
* * *
31352 TTAACTT-AAAAA-A-ATCTAAATCTTATT
1 TTAACTTAAAAAATATATTTTATTCTTATT
* **
31379 TTAACTTAAAAAA-ATGTTTTAATCATCTTAGC
1 TTAACTTAAAAAATATATTTT-AT--TCTTATT
*
31411 TTAA-TAAAAAAATGTATATTTTATT-TT-TT
1 TTAACTTAAAAAA--TATATTTTATTCTTATT
* *
31440 TTAACTTCAAAAAATATATTTTATTTTTATC
1 TTAACTT-AAAAAATATATTTTATTCTTATT
*
31471 TTAA-TTTAAAAATAT-TTTTA
1 TTAACTTAAAAAATATATTTTA
31491 ACATATATTT
Statistics
Matches: 301, Mismatches: 51, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
27 19 0.06
28 46 0.15
29 65 0.22
30 64 0.21
31 71 0.24
32 28 0.09
33 2 0.01
34 6 0.02
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
TTAACTTAAAAAATATATTTTATTCTTATT
Found at i:31284 original size:31 final size:30
Alignment explanation
Indices: 31074--31490 Score: 217
Period size: 29 Copynumber: 14.0 Consensus size: 30
31064 ATAGAATATT
* *
31074 TTATGTATCTTAACTTAAAAAATATATTTTA
1 TTAT-TATTTTAACTTTAAAAATATATTTTA
* *
31105 TTTTTATTTTAAC-TTATTAAATATATTTTTA
1 TTATTATTTTAACTTTA-AAAATATA-TTTTA
* ** *
31136 TTATCAAATTAA-ATTAAAAATATATTTTA
1 TTATTATTTTAACTTTAAAAATATATTTTA
*
31165 TTATTATTTT-AGTTTAAAAATATATTTTTA
1 TTATTATTTTAACTTTAAAAATATA-TTTTA
* *
31195 TTCTTA-TTTAA-TTTAAAATTATATTTTA
1 TTATTATTTTAACTTTAAAAATATATTTTA
* * *
31223 -TGTCATCTTAACTTTTAAAAATATATTTTTA
1 TTATTATTTTAAC-TTTAAAAATATA-TTTTA
* *
31254 TTATCATTTTAACTTTTAAAAATGTATTTTA
1 TTATTATTTTAAC-TTTAAAAATATATTTTA
* * * *
31285 TTCTTATTTTAA-ATTATTAAATATGTTTTTA
1 TTATTATTTTAACTTTA-AAAATAT-ATTTTA
* *
31316 TT-TATATATTAAC-TTAAAAA-ATGTTTTA
1 TTAT-TATTTTAACTTTAAAAATATATTTTA
* * * *
31344 ATCTTATTTTAAC-TTAAAAA-A-ATCTAA
1 TTATTATTTTAACTTTAAAAATATATTTTA
* * * *
31371 ATCTTATTTTAAC-TTAAAAAAATGTTTTA
1 TTATTATTTTAACTTTAAAAATATATTTTA
* * *
31400 --ATCATCTTAGCTTAATAAAAAAATGTATATTTTA
1 TTATTATTTTAACTT--T--AAAAA--TATATTTTA
*
31434 TT-TT-TTTTAACTTCAAAAAATATATTTTA
1 TTATTATTTTAACTT-TAAAAATATATTTTA
* *
31463 TTTTTATCTTAA-TTTAAAAATAT-TTTTA
1 TTATTATTTTAACTTTAAAAATATATTTTA
31491 ACATATATTT
Statistics
Matches: 305, Mismatches: 52, Indels: 61
0.73 0.12 0.15
Matches are distributed among these distances:
27 33 0.11
28 39 0.13
29 67 0.22
30 58 0.19
31 66 0.22
32 27 0.09
34 14 0.05
35 1 0.00
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATTATTTTAACTTTAAAAATATATTTTA
Found at i:31365 original size:90 final size:89
Alignment explanation
Indices: 31069--31366 Score: 263
Period size: 90 Copynumber: 3.3 Consensus size: 89
31059 TTTAAATAGA
* * * *
31069 ATATTTT-ATGTATCTTAACTT-AAAAAATATATTTTATTTTTATTTTAACTTATTAAATATATT
1 ATATTTTAATTTATTTTAACTTAAAAAAATATATTTTATTCTTATTTTAAATTATTAAATAT-TT
* *
31132 TTTA-TTATCAAATTAAATTAAAAAT
65 TTTATTTAT-ATATTAACTTAAAAAT
* ** * * *
31157 ATATTTTATTATTATTTTAGTTTAAAAATATAT-TTTTATTCTTA-TTT-AATT-TAAAATTATA
1 ATATTTTAAT-TTATTTTAACTTAAAAAAATATATTTTATTCTTATTTTAAATTATTAAA-TATT
* * *
31218 TTTTATGT-CATCTTAACTTTTAAAAAT
64 TTTTATTTATATATTAAC--TTAAAAAT
* ** *
31245 ATATTTTTATTATCATTTTAACTTTTAAAAATGTATTTTATTCTTATTTTAAATTATTAAATATG
1 ATATTTTAATT-T-ATTTTAACTTAAAAAAATATATTTTATTCTTATTTTAAATTATTAAATAT-
31310 TTTTTATTTATATATTAACTTAAAAA-
63 TTTTTATTTATATATTAACTTAAAAAT
*
31336 ATGTTTTAATCTTATTTTAACTTAAAAAAAT
1 ATATTTTAAT-TTATTTTAACTTAAAAAAAT
31367 CTAAATCTTA
Statistics
Matches: 162, Mismatches: 32, Indels: 30
0.72 0.14 0.13
Matches are distributed among these distances:
86 5 0.03
87 10 0.06
88 31 0.19
89 18 0.11
90 45 0.28
91 20 0.12
92 15 0.09
93 11 0.07
94 7 0.04
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (89 bp):
ATATTTTAATTTATTTTAACTTAAAAAAATATATTTTATTCTTATTTTAAATTATTAAATATTTT
TTATTTATATATTAACTTAAAAAT
Found at i:31413 original size:27 final size:28
Alignment explanation
Indices: 31259--31420 Score: 107
Period size: 27 Copynumber: 5.6 Consensus size: 28
31249 TTTTATTATC
** *
31259 ATTTTAACTTTTAAAAATGTATTTTATTCTT
1 ATTTTAACTTAAAAAAATG--TTTTAATC-T
* * * * *
31290 ATTTTAAATTATTAAATATGTTTTTATTT
1 ATTTTAACTTA-AAAAAATGTTTTAATCT
31319 ATATATTAACTT-AAAAAATGTTTTAATCTT
1 AT-T-TTAACTTAAAAAAATGTTTTAATC-T
* *
31349 ATTTTAACTTAAAAAAA--TCTAAATCTT
1 ATTTTAACTTAAAAAAATGTTTTAATC-T
31376 ATTTTAACTTAAAAAAATGTTTTAATC-
1 ATTTTAACTTAAAAAAATGTTTTAATCT
* *
31403 ATCTTAGCTTAATAAAAA
1 ATTTTAACTTAA-AAAAA
31421 AATGTATATT
Statistics
Matches: 106, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
27 35 0.33
28 12 0.11
29 28 0.26
30 9 0.08
31 15 0.14
32 7 0.07
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (28 bp):
ATTTTAACTTAAAAAAATGTTTTAATCT
Found at i:31435 original size:57 final size:54
Alignment explanation
Indices: 31314--31437 Score: 133
Period size: 57 Copynumber: 2.2 Consensus size: 54
31304 AATATGTTTT
* **
31314 TATTTATATATTAACTTAAAAAATGTTTTAATCTTATTTTAACTTAAAAAAATCTA
1 TATTT-TATTTTAACTTAAAAAATGTTTTAATCTTAGCTTAAC-TAAAAAAATCTA
* * *
31370 AATCTTATTTTAACTTAAAAAAATGTTTTAATCATCTTAGCTTAA-TAAAAAAATGTA
1 TATTTTATTTTAACTT-AAAAAATGTTTT-A--ATCTTAGCTTAACTAAAAAAATCTA
31427 TATTTTATTTT
1 TATTTTATTTT
31438 TTTTAACTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
55 10 0.18
56 15 0.27
57 21 0.38
59 10 0.18
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (54 bp):
TATTTTATTTTAACTTAAAAAATGTTTTAATCTTAGCTTAACTAAAAAAATCTA
Found at i:31564 original size:32 final size:32
Alignment explanation
Indices: 31526--31590 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
31516 GATTGGATAC
31526 AGCCGTCCAATGTCGACGATCAGGTTTTGGAT
1 AGCCGTCCAATGTCGACGATCAGGTTTTGGAT
31558 AGCCGTCCAATGTCGACGATCAGGTTTTGGAT
1 AGCCGTCCAATGTCGACGATCAGGTTTTGGAT
31590 A
1 A
31591 TTCCGACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (32 bp):
AGCCGTCCAATGTCGACGATCAGGTTTTGGAT
Found at i:32133 original size:20 final size:20
Alignment explanation
Indices: 32097--32139 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
32087 GAATTTTATT
*
32097 TTATTATTATATTTTAAATA
1 TTATTATTATATATTAAATA
32117 TTATATATTATA-ATTAAATA
1 TTAT-TATTATATATTAAATA
32137 TTA
1 TTA
32140 ATAAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTATTATATATTAAATA
Found at i:32295 original size:18 final size:19
Alignment explanation
Indices: 32245--32296 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
32235 AAATTTAGTA
32245 AGTAAATTAAAAAAATTAAG
1 AGTAAATT-AAAAAATTAAG
* * *
32265 AGTACAGTGAAAAA-TAAG
1 AGTAAATTAAAAAATTAAG
*
32283 TGTAAATTAAAAAA
1 AGTAAATTAAAAAA
32297 ATTGAGTGGT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 14 0.56
19 5 0.20
20 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (19 bp):
AGTAAATTAAAAAATTAAG
Found at i:32304 original size:20 final size:20
Alignment explanation
Indices: 32246--32304 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
32236 AATTTAGTAA
*
32246 GTAAATTAAAAAAATTAAGA
1 GTAAATTAAAAAAATTAAGT
* * *
32266 GTACAGT-GAAAAA-TAAGT
1 GTAAATTAAAAAAATTAAGT
*
32284 GTAAATTAAAAAAATTGAGT
1 GTAAATTAAAAAAATTAAGT
32304 G
1 G
32305 GTGTAGTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
18 9 0.31
19 10 0.34
20 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.25
Consensus pattern (20 bp):
GTAAATTAAAAAAATTAAGT
Found at i:37779 original size:31 final size:31
Alignment explanation
Indices: 37741--37817 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
37731 AGTTACATTG
37741 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTGCAAACGGACTAAATGTTGA
* * * *
37772 GGGACCATGTTGCAAATGGATTAAATGTTGG
1 GGGACCATATTGCAAACGGACTAAATGTTGA
**
37803 GGGACTGTATTGCAA
1 GGGACCATATTGCAA
37818 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (31 bp):
GGGACCATATTGCAAACGGACTAAATGTTGA
Found at i:41589 original size:142 final size:142
Alignment explanation
Indices: 41333--41614 Score: 528
Period size: 142 Copynumber: 2.0 Consensus size: 142
41323 CTCAATTATT
*
41333 TAACAATGAACGCTCAAATACCTTATAGTTACAACTACTCGAACCCAAGACCTTTAAGAATAACT
1 TAACAATGAACGCTCAAAAACCTTATAGTTACAACTACTCGAACCCAAGACCTTTAAGAATAACT
41398 ACCATCCCTTTAACCACTGAAGTCGCTTGGTTCGTACTATTATACATGTTATTATAATTATATAA
66 ACCATCCCTTTAACCACTGAAGTCGCTTGGTTCGTACTATTATACATGTTATTATAATTATATAA
41463 TATAATATAATA
131 TATAATATAATA
* *
41475 TAACAATGAACGCTCAAAAACCTTATAGTTACAGCTACTCGAACTCAAGACCTTTAAGAATAACT
1 TAACAATGAACGCTCAAAAACCTTATAGTTACAACTACTCGAACCCAAGACCTTTAAGAATAACT
*
41540 ATCATCCCTTTAACCACTGAAGTCGCTTGGTTCGTACTATTATACATGTTATTATAATTATATAA
66 ACCATCCCTTTAACCACTGAAGTCGCTTGGTTCGTACTATTATACATGTTATTATAATTATATAA
41605 TATAATATAA
131 TATAATATAA
41615 CACTATAAAC
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (142 bp):
TAACAATGAACGCTCAAAAACCTTATAGTTACAACTACTCGAACCCAAGACCTTTAAGAATAACT
ACCATCCCTTTAACCACTGAAGTCGCTTGGTTCGTACTATTATACATGTTATTATAATTATATAA
TATAATATAATA
Found at i:43015 original size:20 final size:20
Alignment explanation
Indices: 42986--43048 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
42976 ATTTTAAAAC
*
42986 TAAA-ATATTATTTATAATA
1 TAAATATATTATATATAATA
*
43005 TAAATATATTATAAATAATA
1 TAAATATATTATATATAATA
**
43025 TTGATATA-TATATAT-ATA
1 TAAATATATTATATATAATA
43043 TAAATA
1 TAAATA
43049 GAAGTTCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
20 19 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAATATATTATATATAATA
Found at i:45040 original size:21 final size:21
Alignment explanation
Indices: 45011--45050 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45001 TTTTTATTAT
* *
45011 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
45032 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
45051 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:45937 original size:2 final size:2
Alignment explanation
Indices: 45932--45963 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45922 TTTAGAAATT
45932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45964 AAAGGTAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47017 original size:17 final size:16
Alignment explanation
Indices: 46995--47028 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
46985 TAGTATTGAG
46995 TTAACCAAGATTTCATA
1 TTAACCAAGATTT-ATA
47012 TTAACCAAGATTTATA
1 TTAACCAAGATTTATA
47028 T
1 T
47029 ACTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (16 bp):
TTAACCAAGATTTATA
Found at i:52224 original size:2 final size:2
Alignment explanation
Indices: 52217--52247 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52207 ATACCTAAAC
52217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52248 GAAATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55370 original size:33 final size:33
Alignment explanation
Indices: 55328--55425 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
55318 AACCTTCTCT
*
55328 GCCGTCTTCTTCTCAGTTTCTGCTGCAGGTTTA
1 GCCGTCTTCTGCTCAGTTTCTGCTGCAGGTTTA
*
55361 GCCGTCTTCTGCTCGGTTTCTGCTGCAGGTTTA
1 GCCGTCTTCTGCTCAGTTTCTGCTGCAGGTTTA
* * *
55394 GCTGTCTT-TGGCTCAGTTTTTGCCGCAGGTTT
1 GCCGTCTTCT-GCTCAGTTTCTGCTGCAGGTTT
55426 CACAGTTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.07, C:0.26, G:0.26, T:0.42
Consensus pattern (33 bp):
GCCGTCTTCTGCTCAGTTTCTGCTGCAGGTTTA
Found at i:57201 original size:74 final size:77
Alignment explanation
Indices: 57122--57278 Score: 205
Period size: 74 Copynumber: 2.1 Consensus size: 77
57112 ATAAATTTTT
* * * *
57122 TAAAAAATACACCAAAGATTAAATAACTAAGCAAGTCATATAACAG-CTATA-A-AAATAATAAC
1 TAAAAAATAAACCAAAAATTAAATAACTAAACAAGCCATATAA-AGACTATACATAAATAATAAC
57184 TAAACA-AAAATA
65 TAAACAGAAAATA
* * *
57196 TAAAAAATAAACCAAAAATTAAATAGCTAAATAAGCCATATAATGACTATACATAAATAATAACT
1 TAAAAAATAAACCAAAAATTAAATAACTAAACAAGCCATATAAAGACTATACATAAATAATAACT
*
57261 AAACAGGAAATA
66 AAACAGAAAATA
57273 TAAAAA
1 TAAAAA
57279 TACTACAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
73 1 0.01
74 42 0.59
75 1 0.01
76 16 0.23
77 11 0.15
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (77 bp):
TAAAAAATAAACCAAAAATTAAATAACTAAACAAGCCATATAAAGACTATACATAAATAATAACT
AAACAGAAAATA
Found at i:63839 original size:21 final size:21
Alignment explanation
Indices: 63813--63865 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
63803 GTTTCCAGAT
63813 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
63834 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
63855 TCGCAATGCGA
1 TCGCAACGCGA
63866 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:63885 original size:19 final size:20
Alignment explanation
Indices: 63861--63971 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 20
63851 ACTATCGCAA
63861 TGCGATTTTCCAAATT-CGT
1 TGCGATTTTCCAAATTCCGT
** *
63880 TGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAATTC-CGT
*
63901 TGCGATTTATTTCAAATTCGCGT
1 TGCGA-TT-TTCCAAATTC-CGT
** * *
63924 TGCGATAGTCGAAGTTCGCGT
1 TGCGATTTTCCAAATTC-CGT
*
63945 TGCGATTTATTCCAAGTT-CGT
1 TGCGA-TT-TTCCAAATTCCGT
63966 TGCGAT
1 TGCGAT
63972 AGTCGAAGTT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
19 13 0.18
20 1 0.01
21 31 0.44
22 3 0.04
23 23 0.32
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (20 bp):
TGCGATTTTCCAAATTCCGT
Found at i:63903 original size:21 final size:21
Alignment explanation
Indices: 63877--64020 Score: 134
Period size: 21 Copynumber: 6.8 Consensus size: 21
63867 TTTCCAAATT
63877 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* * *
63898 CGTTGCGATTTATTTCAAATTCG
1 CGTTGCGA--TAGTCCAAGTTCG
*
63921 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
63942 CGTTGCGATTTATTCCAAGTT--
1 CGTTGCGA--TAGTCCAAGTTCG
*
63963 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
63984 CGTTACGATTTATTCCAAGTT--
1 CGTTGCGA--TAGTCCAAGTTCG
64005 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
64021 AATCGCAACG
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.16
21 47 0.47
23 36 0.36
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:63920 original size:42 final size:42
Alignment explanation
Indices: 63861--64020 Score: 234
Period size: 42 Copynumber: 3.8 Consensus size: 42
63851 ACTATCGCAA
63861 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
63901 TGCGATTTATTTCAAATTCGCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGTTCGCGT
* *
63945 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
63987 TACGATTTATTCCAAGTTCGTTGCGATAGTCCAA
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
64021 AATCGCAACG
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
40 5 0.05
41 2 0.02
42 64 0.58
44 39 0.35
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:64783 original size:6 final size:6
Alignment explanation
Indices: 64772--64796 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64762 TCGTCTCGTC
64772 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
64797 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:64864 original size:21 final size:21
Alignment explanation
Indices: 64835--64874 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64825 ATACTATCTT
* *
64835 TTTGGAATAAATCGTAACGAA
1 TTTGAAATAAATCGCAACGAA
64856 TTTGAAATAAATCGCAACG
1 TTTGAAATAAATCGCAACG
64875 CGAACTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGAAATAAATCGCAACGAA
Found at i:65328 original size:21 final size:20
Alignment explanation
Indices: 65304--65363 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 20
65294 AATTTTGAAA
65304 AAATCGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
*
65325 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
65339 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
65360 AAAT
1 AAAT
65364 ATTTCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:65411 original size:36 final size:36
Alignment explanation
Indices: 65297--65404 Score: 164
Period size: 35 Copynumber: 3.0 Consensus size: 36
65287 GGCAACCAAT
*
65297 TTTGAAAAAATCGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
*
65334 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATATTTC
1 TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
*
65369 TTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 TTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
65405 GTTGAAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
35 33 0.51
36 7 0.11
37 25 0.38
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.45
Consensus pattern (36 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
Found at i:69962 original size:21 final size:21
Alignment explanation
Indices: 69938--69998 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
69928 AACTTTGAAA
69938 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
69959 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
69973 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
69994 AAATG
1 AAATG
69999 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:70045 original size:36 final size:36
Alignment explanation
Indices: 69930--70038 Score: 184
Period size: 35 Copynumber: 3.0 Consensus size: 36
69920 TGGCAACCAA
69930 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
69967 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
70002 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
70039 GTTGAAATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
35 35 0.51
36 7 0.10
37 27 0.39
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:70739 original size:19 final size:19
Alignment explanation
Indices: 70715--70775 Score: 122
Period size: 19 Copynumber: 3.2 Consensus size: 19
70705 AAGCATATTG
70715 AAGCTTGCACTTTTAGCTA
1 AAGCTTGCACTTTTAGCTA
70734 AAGCTTGCACTTTTAGCTA
1 AAGCTTGCACTTTTAGCTA
70753 AAGCTTGCACTTTTAGCTA
1 AAGCTTGCACTTTTAGCTA
70772 AAGC
1 AAGC
70776 GTCAGCCACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (19 bp):
AAGCTTGCACTTTTAGCTA
Found at i:73736 original size:11 final size:11
Alignment explanation
Indices: 73720--73794 Score: 78
Period size: 11 Copynumber: 6.8 Consensus size: 11
73710 CTCTGTTATT
73720 AATAATTCTAC
1 AATAATTCTAC
*
73731 AATAATTCTAT
1 AATAATTCTAC
* *
73742 AACAACTCTAC
1 AATAATTCTAC
73753 AATAATTCTAC
1 AATAATTCTAC
* * *
73764 AACAATTGTAT
1 AATAATTCTAC
* *
73775 AACAATTCTAT
1 AATAATTCTAC
73786 AATAATTCT
1 AATAATTCT
73795 TCTTTTTGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (11 bp):
AATAATTCTAC
Found at i:73762 original size:33 final size:33
Alignment explanation
Indices: 73720--73794 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
73710 CTCTGTTATT
*
73720 AATAATTCTACAATAATTCTATAACAACTCTAC
1 AATAATTCTACAACAATTCTATAACAACTCTAC
* * *
73753 AATAATTCTACAACAATTGTATAACAATTCTAT
1 AATAATTCTACAACAATTCTATAACAACTCTAC
73786 AATAATTCT
1 AATAATTCT
73795 TCTTTTTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (33 bp):
AATAATTCTACAACAATTCTATAACAACTCTAC
Found at i:73792 original size:22 final size:22
Alignment explanation
Indices: 73723--73794 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
73713 TGTTATTAAT
73723 AATTCTACAATAATTCTATAAC
1 AATTCTACAATAATTCTATAAC
* *
73745 AACTCTACAATAATTCTACAAC
1 AATTCTACAATAATTCTATAAC
* * * *
73767 AATTGTATAACAATTCTATAAT
1 AATTCTACAATAATTCTATAAC
73789 AATTCT
1 AATTCT
73795 TCTTTTTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.36
Consensus pattern (22 bp):
AATTCTACAATAATTCTATAAC
Done.