Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008434.1 Hibiscus syriacus cultivar Beakdansim tig00111232_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: 102403
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:3258 original size:12 final size:12
Alignment explanation
Indices: 3241--3268 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3231 ACATTATATC
3241 AATTTTGGTCAT
1 AATTTTGGTCAT
3253 AATTTTGGTCAT
1 AATTTTGGTCAT
3265 AATT
1 AATT
3269 GTAATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (12 bp):
AATTTTGGTCAT
Found at i:3591 original size:18 final size:18
Alignment explanation
Indices: 3568--3617 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
3558 TTAAAAATTA
3568 ATATTTTATCATTTCTTT
1 ATATTTTATCATTTCTTT
*
3586 ATATTTTATAATTTCTTT
1 ATATTTTATCATTTCTTT
3604 ATATTTTATCATTT
1 ATATTTTATCATTT
3618 AAATATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATTTTATCATTTCTTT
Found at i:3799 original size:55 final size:55
Alignment explanation
Indices: 3734--3838 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
3724 TTTAATATCA
* *
3734 TTTTAACCCTAAATTGCCATTTTAAGTAT-ATTAATTTTTTATAATATTTTAAAAT
1 TTTTAACCCTAAATTACCATTTTAAATATGA-TAATTTTTTATAATATTTTAAAAT
*
3789 TTTTAACCCTAAATTACCATTTTAAATATGATAATTTTTTATATTATTTT
1 TTTTAACCCTAAATTACCATTTTAAATATGATAATTTTTTATAATATTTT
3839 TAACCCTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 45 0.98
56 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (55 bp):
TTTTAACCCTAAATTACCATTTTAAATATGATAATTTTTTATAATATTTTAAAAT
Found at i:12439 original size:22 final size:22
Alignment explanation
Indices: 12413--12470 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
12403 TTATCAAAAT
*
12413 TTATTTCGATATAAACTC-AAA
1 TTATTTCGATATAAACGCTAAA
*
12434 TATATTTC-ATATATACGCTAAA
1 T-TATTTCGATATAAACGCTAAA
12456 TTATTTCGATATAAA
1 TTATTTCGATATAAA
12471 AAATATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (22 bp):
TTATTTCGATATAAACGCTAAA
Found at i:16710 original size:53 final size:54
Alignment explanation
Indices: 16608--16716 Score: 193
Period size: 53 Copynumber: 2.0 Consensus size: 54
16598 GCAATATACA
*
16608 ATAGATATTCCAGAAAATTATATAAAATGGTCTCTGACACTTCATGTCATGCTT
1 ATAGATATTCCAGAAAATTATATAAAATGGTATCTGACACTTCATGTCATGCTT
*
16662 ATAGATATTCCAGAAAATTGTAT-AAATGGTATCTGACACTTCATGTCATGCTT
1 ATAGATATTCCAGAAAATTATATAAAATGGTATCTGACACTTCATGTCATGCTT
16715 AT
1 AT
16717 GTTTACATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 31 0.58
54 22 0.42
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (54 bp):
ATAGATATTCCAGAAAATTATATAAAATGGTATCTGACACTTCATGTCATGCTT
Found at i:20791 original size:35 final size:35
Alignment explanation
Indices: 20738--20808 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
20728 TACGCCATTT
*
20738 TGGTGTTAATTGCCCTATCATAACATCATTAATTA
1 TGGTGTTAATTACCCTATCATAACATCATTAATTA
* * *
20773 TGGTGTTAGTTACTCTATCATAACATCGTTAATTA
1 TGGTGTTAATTACCCTATCATAACATCATTAATTA
20808 T
1 T
20809 TTAATGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (35 bp):
TGGTGTTAATTACCCTATCATAACATCATTAATTA
Found at i:22359 original size:14 final size:14
Alignment explanation
Indices: 22337--22366 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22327 CTAACAATTA
*
22337 ATTGTTGAGATATG
1 ATTGCTGAGATATG
22351 ATTGCTGAGATATG
1 ATTGCTGAGATATG
22365 AT
1 AT
22367 GTTTGCTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (14 bp):
ATTGCTGAGATATG
Found at i:22957 original size:11 final size:11
Alignment explanation
Indices: 22943--23007 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
22933 TCAATTTAAA
22943 TATTTAATCAT
1 TATTTAATCAT
* *
22954 TATTAAATAAT
1 TATTTAATCAT
*
22965 TATGAGTAATCAT
1 TAT--TTAATCAT
*
22978 TATTAAATCAT
1 TATTTAATCAT
*
22989 TA-TTAATAAT
1 TATTTAATCAT
22999 TATTATAAT
1 TATT-TAAT
23008 TTTAGTATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
10 8 0.20
11 21 0.51
12 4 0.10
13 8 0.20
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (11 bp):
TATTTAATCAT
Found at i:22998 original size:24 final size:24
Alignment explanation
Indices: 22947--23039 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
22937 TTTAAATATT
* * *
22947 TAATCATTATTAAATAATTATGAG
1 TAATCATTATTAAATCATTATTAA
22971 TAATCATTATTAAATCATTATTAA
1 TAATCATTATTAAATCATTATTAA
* * * * *
22995 TAATTATTA-TAATTTTAGTATTAC
1 TAATCATTATTAA-ATCATTATTAA
* *
23019 TAATCATTACTAAATCGTTAT
1 TAATCATTATTAAATCATTAT
23040 GATCATTACT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.06
24 48 0.89
25 3 0.06
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAA
Found at i:23065 original size:20 final size:20
Alignment explanation
Indices: 23021--23058 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23011 AGTATTACTA
*
23021 ATCATTACTAAATCGTTATG
1 ATCATTACTAAATCATTATG
23041 ATCATTACTAAATCATTA
1 ATCATTACTAAATCATTA
23059 GTATCATATC
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:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (20 bp):
ATCATTACTAAATCATTATG
Found at i:23096 original size:25 final size:25
Alignment explanation
Indices: 23050--23098 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23040 GATCATTACT
* *
23050 AAATCATTAGTATCATATCAAATCC
1 AAATCATTACTATCAAATCAAATCC
23075 AAATCATTACTAT-AAATCCAAATC
1 AAATCATTACTATCAAAT-CAAATC
23099 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATCATTACTATCAAATCAAATCC
Found at i:23515 original size:15 final size:14
Alignment explanation
Indices: 23493--23548 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
23483 TTAAAACATT
23493 TAAT-TTTAATCAA
1 TAATATTTAATCAA
*
23506 TACATATTTAAACAA
1 TA-ATATTTAATCAA
* *
23521 TAAAATTTTATACAA
1 TAATATTTAAT-CAA
23536 TAATATATTAATC
1 TAATAT-TTAATC
23549 TCTCACATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
13 2 0.06
14 8 0.24
15 19 0.58
16 4 0.12
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATTTAATCAA
Found at i:25158 original size:40 final size:37
Alignment explanation
Indices: 25108--25335 Score: 111
Period size: 32 Copynumber: 6.3 Consensus size: 37
25098 TTTTGACAAA
25108 ATATAATATATAATTTTTAGAAAACGATTTTTGAAAATTT
1 ATATAATATATAATTTTT-GAAAA-GATTTTT-AAAATTT
* * *
25148 ATATACTATATAGTTTTTGAAAATATTTTT-AAA---
1 ATATAATATATAATTTTTGAAAAGATTTTTAAAATTT
* * * *
25181 ATATAATGTATAA-TTTGGAAAATATTTTGAAAACATTT
1 ATATAATATATAATTTTTGAAAAGATTTT-TAAA-ATTT
* * * * * * *
25219 ATATATTGTGTAGTTTTT-AAAACATTTTGAAAACTT
1 ATATAATATATAATTTTTGAAAAGATTTTTAAAATTT
* ** *
25255 ATATAGTATATCGTTTTT-AAAATATTTTT-AAA---
1 ATATAATATATAATTTTTGAAAAGATTTTTAAAATTT
** * * *
25287 ATATAATATAT-GGTTTTAAAAATATTTTTGAAAAATT
1 ATATAATATATAATTTTTGAAAAGATTTTT-AAAATTT
25324 ATATAATATATA
1 ATATAATATATA
25336 GTTAAAAAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
31 5 0.03
32 35 0.23
33 10 0.07
34 5 0.03
35 4 0.03
36 29 0.19
37 14 0.09
38 25 0.17
39 8 0.05
40 16 0.11
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATAATATATAATTTTTGAAAAGATTTTTAAAATTT
Found at i:25176 original size:38 final size:37
Alignment explanation
Indices: 25070--25491 Score: 262
Period size: 36 Copynumber: 11.7 Consensus size: 37
25060 TTTATATATG
* *
25070 TATATAGTAATATAGTTTGTGAAAATATTTTTGACAAA-
1 TATATAAT-ATATAGTTTTTGAAAATATTTTTGA-AAAT
* *
25108 -ATATAATATATAATTTTTAGAAAACGATTTTTGAAAATT
1 TATATAATATATAGTTTTT-GAAAA-TATTTTTGAAAA-T
*
25147 TATATACTATATAGTTTTTGAAAATATTTTT--AAA-
1 TATATAATATATAGTTTTTGAAAATATTTTTGAAAAT
* * *
25181 -ATATAATGTATA-ATTTGGAAAATA-TTTTGAAAACATT
1 TATATAATATATAGTTTTTGAAAATATTTTTG-AAA-A-T
* * * *
25218 TATATATTGTGTAGTTTTT-AAAACA-TTTTGAAAACT
1 TATATAATATATAGTTTTTGAAAATATTTTTGAAAA-T
* *
25254 TATATAGTATATCGTTTTT-AAAATATTTTT--AAA-
1 TATATAATATATAGTTTTTGAAAATATTTTTGAAAAT
* *
25287 -ATATAATATAT-GGTTTTAAAAATATTTTTGAAAAAT
1 TATATAATATATAGTTTTTGAAAATATTTTTG-AAAAT
****
25323 TATATAATATATAGTTAAAAAAAATATTTTTTGAAAGAT
1 TATATAATATATAGTTTTTGAAAATA-TTTTTGAAA-AT
* * *
25362 TATATAATATATAG-TTTTAAAAACATTTTTGAAAAG
1 TATATAATATATAGTTTTTGAAAATATTTTTGAAAAT
* * * *
25398 TAAATAATATGTAG-TTTTAAAAACATTTTTTGAAAACT
1 TATATAATATATAGTTTTTGAAAATA-TTTTTGAAAA-T
* * * *
25436 CATAT-A-ATAT--TTTTT--AATTATTTTTTAAAAC
1 TATATAATATATAGTTTTTGAAAATATTTTTGAAAAT
*
25467 TATATAATATATAGTTTTGGAAAAT
1 TATATAATATATAGTTTTTGAAAAT
25492 TTTAGAAAAA
Statistics
Matches: 306, Mismatches: 46, Indels: 65
0.73 0.11 0.16
Matches are distributed among these distances:
31 13 0.04
32 41 0.13
33 17 0.06
34 2 0.01
35 15 0.05
36 61 0.20
37 55 0.18
38 56 0.18
39 30 0.10
40 16 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (37 bp):
TATATAATATATAGTTTTTGAAAATATTTTTGAAAAT
Found at i:25271 original size:36 final size:36
Alignment explanation
Indices: 25070--25484 Score: 279
Period size: 38 Copynumber: 11.5 Consensus size: 36
25060 TTTATATATG
* *
25070 TATATAGTAATATAGTTTGTGAAAATATTTTTGACAAA-
1 TATATAAT-ATATAGTTT-TAAAAATATTTTTGA-AAAT
* *
25108 -ATATAATATATAATTTTTAGAAAACGATTTTTGAAAATT
1 TATATAATATAT-AGTTTTA-AAAA-TATTTTTGAAAA-T
* *
25147 TATATACTATATAGTTTTTGAAAATATTTTT--AAA-
1 TATATAATATATAG-TTTTAAAAATATTTTTGAAAAT
* * **
25181 -ATATAATGTATAATTTGGAAAATA-TTTTGAAAACATT
1 TATATAATATATAGTTTTAAAAATATTTTTG-AAA-A-T
* * * * *
25218 TATATATTGTGTAGTTTTTAAAACA-TTTTGAAAACT
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAA-T
* * *
25254 TATATAGTATATCGTTTTTAAAATATTTTT--AAA-
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAAT
*
25287 -ATATAATATATGGTTTTAAAAATATTTTTGAAAAAT
1 TATATAATATATAGTTTTAAAAATATTTTTG-AAAAT
**
25323 TATATAATATATAGTTAAAAAAAATATTTTTTGAAAGAT
1 TATATAATATATAGTT-TTAAAAATA-TTTTTGAAA-AT
* *
25362 TATATAATATATAGTTTTAAAAACATTTTTGAAAAG
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAAT
* * *
25398 TAAATAATATGTAGTTTTAAAAACATTTTTTGAAAACT
1 TATATAATATATAGTTTTAAAAATA-TTTTTGAAAA-T
* * * *
25436 CATATAATAT-T--TTTT--AATTATTTTTTAAAAC
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAAT
25467 TATATAATATATAGTTTT
1 TATATAATATATAGTTTT
25485 GGAAAATTTT
Statistics
Matches: 305, Mismatches: 44, Indels: 60
0.75 0.11 0.15
Matches are distributed among these distances:
31 13 0.04
32 46 0.15
33 13 0.04
34 6 0.02
35 11 0.04
36 54 0.18
37 58 0.19
38 61 0.20
39 29 0.10
40 14 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAATATTTTTGAAAAT
Found at i:25310 original size:106 final size:106
Alignment explanation
Indices: 25136--25328 Score: 282
Period size: 107 Copynumber: 1.8 Consensus size: 106
25126 AGAAAACGAT
* * *
25136 TTTTGAAAATTTATATACTATATAGTTTTTGAAAATATTTTTAAAATATAATGTATAATTTGGAA
1 TTTTGAAAACTTATATACTATATAGTTTTTGAAAATATTTTTAAAATATAATATATAATTTGAAA
25201 AATA-TTTTGAAAACATTTATATATTGTGTAGTTTTTAAAACA
66 AATATTTTTGAAAA-A-TTATATATTGTGTAGTTTTTAAAACA
* * ** *
25243 TTTTGAAAACTTATATAGTATATCGTTTTT-AAAATATTTTTAAAATATAATATATGGTTTTAAA
1 TTTTGAAAACTTATATACTATATAGTTTTTGAAAATATTTTTAAAATATAATATATAATTTGAAA
25307 AATATTTTTGAAAAATTATATA
66 AATATTTTTGAAAAATTATATA
25329 ATATATAGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 7 0.09
106 34 0.44
107 36 0.47
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (106 bp):
TTTTGAAAACTTATATACTATATAGTTTTTGAAAATATTTTTAAAATATAATATATAATTTGAAA
AATATTTTTGAAAAATTATATATTGTGTAGTTTTTAAAACA
Found at i:25561 original size:3 final size:3
Alignment explanation
Indices: 25539--25595 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
25529 GAAATGTATA
* **
25539 TAT TAT ATAA TAT ATAT TAT TAT TGG TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
25587 TAT T-T TAT T
1 TAT TAT TAT T
25596 TATTTACTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 2 0.05
3 35 0.80
4 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:26981 original size:15 final size:15
Alignment explanation
Indices: 26963--26992 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26953 TTTAGTTTAA
*
26963 ATTTTTTATTTTTTT
1 ATTTTCTATTTTTTT
26978 ATTTTCTATTTTTTT
1 ATTTTCTATTTTTTT
26993 TATTCACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTCTATTTTTTT
Found at i:27053 original size:21 final size:21
Alignment explanation
Indices: 27029--27104 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
27019 CCCTTTTACT
27029 TTTTATTTT-TTATTCATTTTG
1 TTTTATTTTATTATT-ATTTTG
*
27050 TTTTCTTTTATTATTATTTT-
1 TTTTATTTTATTATTATTTTG
* * *
27070 ATTTACTTTAGTATATTATTTATT
1 TTTTATTTTA-T-TATTATTT-TG
27094 TATTTATTTTA
1 T-TTTATTTTA
27105 CTAACTTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 7 0.16
21 14 0.33
22 13 0.30
23 1 0.02
25 8 0.19
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTTATTATTATTTTG
Found at i:29919 original size:12 final size:13
Alignment explanation
Indices: 29888--29912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29878 TAATTATAAA
29888 ATAAATTTTTTAG
1 ATAAATTTTTTAG
29901 ATAAATTTTTTA
1 ATAAATTTTTTA
29913 ATTAATTAAT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATAAATTTTTTAG
Found at i:30126 original size:182 final size:184
Alignment explanation
Indices: 29818--30203 Score: 618
Period size: 182 Copynumber: 2.1 Consensus size: 184
29808 TTTTCTAATT
* * *
29818 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTGAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTGAAATAATATATAAT
***
29882 TATAAAATAAATTTTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * * *
29947 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTTAGCCCATATTTTA
131 GGATCTTAAATTATTAATTGAGTTTTAAATGATTTGAGTTGAGCCCATATGTTA
*
30001 TATATAATATATTTAATATTTTTTAATT-AAAAACAA-TTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAA-AAGTTTACAATTAATTGAAATAATATATAA
*
30064 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
*
30128 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGAGTTGAGCCCATATGTTA
130 TGGATCTTAAATTATTAATTGAGTTTTAAATGATTTGAGTTGAGCCCATATGTTA
30183 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
30204 AAAAATTAAT
Statistics
Matches: 188, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
182 113 0.60
183 55 0.29
184 20 0.11
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTGAAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGAGTTTTAAATGATTTGAGTTGAGCCCATATGTTA
Found at i:33071 original size:8 final size:8
Alignment explanation
Indices: 33058--33083 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33048 ATCCGAGTCT
33058 AGAAGTGA
1 AGAAGTGA
33066 AGAAGTGA
1 AGAAGTGA
33074 AGAAGTGA
1 AGAAGTGA
33082 AG
1 AG
33084 TCGTAGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (8 bp):
AGAAGTGA
Found at i:34270 original size:22 final size:22
Alignment explanation
Indices: 34236--34283 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
34226 AATCTTGATA
* *
34236 AAATTGTTATATTTATTTATTT
1 AAATTGTTATATTAAATTATTT
34258 AAATT-TTAGTATTAAATTATTT
1 AAATTGTTA-TATTAAATTATTT
34280 AAAT
1 AAAT
34284 ATATTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAATTGTTATATTAAATTATTT
Found at i:35801 original size:2 final size:2
Alignment explanation
Indices: 35794--35838 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
35784 TATAACAATA
35794 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
35836 AT A
1 AT A
35839 CGCATGTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38048 original size:31 final size:31
Alignment explanation
Indices: 38010--38134 Score: 139
Period size: 31 Copynumber: 4.0 Consensus size: 31
38000 AGGGTCGAGG
* *
38010 GTTTACCTATGTTTTTCGAGACATATGGACT
1 GTTTACCTAGGTTCTTCGAGACATATGGACT
* * *
38041 GTTTACCTATGTTCTTAGGGACATATGGACT
1 GTTTACCTAGGTTCTTCGAGACATATGGACT
38072 GTTTACCTAGGTTCTTCG-GA-ATCTATGGACT
1 GTTTACCTAGGTTCTTCGAGACA--TATGGACT
* *
38103 GTTTACTTAGGTTCTTCGAAATC-TATGGACT
1 GTTTACCTAGGTTCTTCGAGA-CATATGGACT
38134 G
1 G
38135 GTCCTTCGAG
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 78 0.95
32 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACT
Found at i:38799 original size:11 final size:11
Alignment explanation
Indices: 38783--38827 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
38773 TTACGAAAGT
38783 TACTGTAGCAG
1 TACTGTAGCAG
*
38794 TACTGTAGCGG
1 TACTGTAGCAG
*
38805 CACTGTAGCAG
1 TACTGTAGCAG
*
38816 TACTATAGCAG
1 TACTGTAGCAG
38827 T
1 T
38828 GCATCGATGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (11 bp):
TACTGTAGCAG
Found at i:39757 original size:20 final size:20
Alignment explanation
Indices: 39728--39820 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
39718 GCAGCCTTGG
* **
39728 TGCATGGATGCACAATAGGA
1 TGCATCGATGCACAGCAGGA
39748 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
*
39768 TGCATCCATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* *
39788 TGCATCCATGCACAGCAGAA
1 TGCATCGATGCACAGCAGGA
39808 TGCATCGATGCAC
1 TGCATCGATGCAC
39821 TAAGTGCATC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:39866 original size:23 final size:23
Alignment explanation
Indices: 39840--39921 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
39830 CCGAAATGGA
39840 GTGCATGGATGCACTAGTGGCAG
1 GTGCATGGATGCACTAGTGGCAG
39863 GTGCATGGATGCACTAGTGGCAG
1 GTGCATGGATGCACTAGTGGCAG
*
39886 GTGCATGGATGCACT-GCAGG--G
1 GTGCATGGATGCACTAG-TGGCAG
39907 GTGCATGGATGCACT
1 GTGCATGGATGCACT
39922 TAGACACCTT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
21 16 0.28
22 1 0.02
23 40 0.70
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (23 bp):
GTGCATGGATGCACTAGTGGCAG
Found at i:40036 original size:31 final size:31
Alignment explanation
Indices: 40001--40062 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
39991 AAACTTTGAA
40001 TAAATTAAATT-AAGTCAAAAAAACCATTTTG
1 TAAATTAAATTCAAGTC-AAAAAACCATTTTG
* *
40032 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTAAATTCAAGTCAAAAAACCATTTTG
40063 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (31 bp):
TAAATTAAATTCAAGTCAAAAAACCATTTTG
Found at i:43503 original size:30 final size:31
Alignment explanation
Indices: 43469--43529 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
43459 AAACTTTGAA
43469 TAAATTAAATT-AAGTCCAAAAACCATTTTG
1 TAAATTAAATTCAAGTCCAAAAACCATTTTG
* *
43499 TAAATTCAATTCAAGTCCAAAAACCTTTTTG
1 TAAATTAAATTCAAGTCCAAAAACCATTTTG
43530 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAATTAAATTCAAGTCCAAAAACCATTTTG
Found at i:46739 original size:20 final size:20
Alignment explanation
Indices: 46710--46782 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
46700 GCAGCCTTGG
* *
46710 TGCATGGATGCACAATAGGA
1 TGCATCGATGCACAACAGGA
*
46730 TGCATCGATGAACAACAGGA
1 TGCATCGATGCACAACAGGA
**
46750 TGCATCGATGCACAACAAAA
1 TGCATCGATGCACAACAGGA
46770 TGCATCGATGCAC
1 TGCATCGATGCAC
46783 TAAGTGCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:46851 original size:23 final size:21
Alignment explanation
Indices: 46802--46880 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 21
46792 TCGAAATGGA
* * *
46802 GTGCGTGGATGCACTACA-TG
1 GTGCATGGATGCACTGCAGGG
*
46822 GTGCATGGATGCACTAG-TGGCAG
1 GTGCATGGATGCACT-GCAGG--G
46845 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
46866 GTGCATGGATGCACT
1 GTGCATGGATGCACT
46881 TAGACACCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 14 0.29
21 16 0.33
22 1 0.02
23 18 0.37
ACGTcount: A:0.20, C:0.19, G:0.38, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:46994 original size:30 final size:31
Alignment explanation
Indices: 46960--47020 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
46950 AAACTTTGAA
46960 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
46990 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
47021 CCTAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:47593 original size:14 final size:14
Alignment explanation
Indices: 47574--47600 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47564 CCCATGCATG
47574 AAGGAAGAAGAAGA
1 AAGGAAGAAGAAGA
47588 AAGGAAGAAGAAG
1 AAGGAAGAAGAAG
47601 GAAAACTCTG
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:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
AAGGAAGAAGAAGA
Found at i:58659 original size:22 final size:22
Alignment explanation
Indices: 58594--58662 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
58584 CTTTTTTCGC
*
58594 CGGCAGTCACAGCCTCCATCGC
1 CGGCAGTCACAGCCTCCATCGT
58616 CGGCAGTCACAGCCTCCATCGT
1 CGGCAGTCACAGCCTCCATCGT
* *
58638 CGGTAGTCACAGCTTCCATCGT
1 CGGCAGTCACAGCCTCCATCGT
58660 CGG
1 CGG
58663 GCGCTAACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.17, C:0.39, G:0.25, T:0.19
Consensus pattern (22 bp):
CGGCAGTCACAGCCTCCATCGT
Found at i:64002 original size:34 final size:34
Alignment explanation
Indices: 63959--64023 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
63949 CTTATCGCCT
* *
63959 TTTATCTATTTTACATATCTACAAATCTCTTTGC
1 TTTATCTATTTCACATATCCACAAATCTCTTTGC
* *
63993 TTTATCTATTTCCCATATCCATAAATCTCTT
1 TTTATCTATTTCACATATCCACAAATCTCTT
64024 CCTTTGTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (34 bp):
TTTATCTATTTCACATATCCACAAATCTCTTTGC
Found at i:68749 original size:17 final size:17
Alignment explanation
Indices: 68727--68802 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 17
68717 CTTTTATAAA
*
68727 AAAGTCAACTTTTGGTC
1 AAAGTCAACTGTTGGTC
*
68744 AAAGTCAA-AGTTGGTC
1 AAAGTCAACTGTTGGTC
* * *
68760 AAAGTAAACT-CTAGTC
1 AAAGTCAACTGTTGGTC
* * *
68776 AACGTCGACAGTTAGGTC
1 AAAGTCAACTGTT-GGTC
68794 AAAGTCAAC
1 AAAGTCAAC
68803 AATTCATACC
Statistics
Matches: 42, Mismatches: 14, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
16 23 0.55
17 9 0.21
18 10 0.24
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (17 bp):
AAAGTCAACTGTTGGTC
Found at i:68759 original size:16 final size:16
Alignment explanation
Indices: 68738--68801 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
68728 AAGTCAACTT
68738 TTGGTCAAAGTCAAAG
1 TTGGTCAAAGTCAAAG
*
68754 TTGGTCAAAGT-AAAC
1 TTGGTCAAAGTCAAAG
* * *
68769 TCTAGTCAACGTCGACAG
1 T-TGGTCAAAGTC-AAAG
68787 TTAGGTCAAAGTCAA
1 TT-GGTCAAAGTCAA
68802 CAATTCATAC
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
15 4 0.11
16 19 0.53
17 2 0.06
18 11 0.31
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (16 bp):
TTGGTCAAAGTCAAAG
Found at i:71887 original size:32 final size:32
Alignment explanation
Indices: 71844--71912 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
71834 AATCGGGTAT
*
71844 CGGATACCCGATTAACGGGTACCCGCAAAATC
1 CGGATACCCGATTAACGGATACCCGCAAAATC
* * * * *
71876 CGGATATCCGATTACCTGATACCCGTAACATC
1 CGGATACCCGATTAACGGATACCCGCAAAATC
71908 CGGAT
1 CGGAT
71913 CGAAACACGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (32 bp):
CGGATACCCGATTAACGGATACCCGCAAAATC
Found at i:71974 original size:15 final size:17
Alignment explanation
Indices: 71954--71991 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
71944 AAGTTCTGAA
71954 TACCCGAAAAT-C-GGG
1 TACCCGAAAATCCGGGG
71969 TACCCGAAAATCCGGGG
1 TACCCGAAAATCCGGGG
71986 TACCCG
1 TACCCG
71992 GATTTGCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.52
16 1 0.05
17 9 0.43
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (17 bp):
TACCCGAAAATCCGGGG
Found at i:72717 original size:6 final size:7
Alignment explanation
Indices: 72696--72721 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
72686 GTAAACTTTC
72696 TTTATTT
1 TTTATTT
72703 TTTATTT
1 TTTATTT
72710 TTTATTT
1 TTTATTT
72717 TTTAT
1 TTTAT
72722 GAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:73531 original size:60 final size:60
Alignment explanation
Indices: 73467--73584 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
73457 GATCCCTTTG
* * *
73467 TAACTTTTAATAGTTGATGA-ACTCAACAAAACAACT-TCCTACAGTTGGAGGACCATTTTA
1 TAACTTTTAATAGTTG-GGAGACTCAAAAAAACAA-TATCCTACAGTCGGAGGACCATTTTA
* * *
73527 TAACTTTTAATGGTTGGGAGACTCAAAAAAATAATATCCTATAGTCGGAGGACCATTT
1 TAACTTTTAATAGTTGGGAGACTCAAAAAAACAATATCCTACAGTCGGAGGACCATTT
73585 GTGTATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 3 0.06
60 47 0.94
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (60 bp):
TAACTTTTAATAGTTGGGAGACTCAAAAAAACAATATCCTACAGTCGGAGGACCATTTTA
Found at i:74301 original size:127 final size:125
Alignment explanation
Indices: 74042--74299 Score: 462
Period size: 127 Copynumber: 2.0 Consensus size: 125
74032 ACTCTGAAAA
*
74042 TTTTAATTAATGAAAGAGTTCTTTTAAAAAGTTTATTGATAAAAGAATAGTAACAAAATTACGAC
1 TTTTAATTAACGAAAGAGTTCTTTTAAAAAGTTTATTGATAAAAGAATAGTAACAAAATTACGAC
74107 TTAACCCCCCCCCCCCAAAAAAAAATACAACAATGGGAGGTTCACATCCACACCACCTCC
66 TTAACCCCCCCCCCCCAAAAAAAAATACAACAATGGGAGGTTCACATCCACACCACCTCC
74167 TTTTTTAATTAACGAAAGAGTTCTTTTAAAAAGTTTATTGATAAAAGAATAGTAACAAAATTACG
1 --TTTTAATTAACGAAAGAGTTCTTTTAAAAAGTTTATTGATAAAAGAATAGTAACAAAATTACG
74232 ACTTAACCCCCCCCCCCCACACAAAAAAAATACAACAATGGGAGGTTCACATCCACACCACCTCC
64 ACTTAA-CCCCCCCCCCC-CA-AAAAAAAATACAACAATGGGAGGTTCACATCCACACCACCTCC
74297 TTT
1 TTT
74300 AACAATGTTC
Statistics
Matches: 127, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
127 68 0.54
128 14 0.11
129 2 0.02
130 43 0.34
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.26
Consensus pattern (125 bp):
TTTTAATTAACGAAAGAGTTCTTTTAAAAAGTTTATTGATAAAAGAATAGTAACAAAATTACGAC
TTAACCCCCCCCCCCCAAAAAAAAATACAACAATGGGAGGTTCACATCCACACCACCTCC
Found at i:76608 original size:20 final size:20
Alignment explanation
Indices: 76583--76638 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
76573 ATCATATTCC
76583 CTGGTAATCTTACATTCCAA
1 CTGGTAATCTTACATTCCAA
*
76603 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCAA
*
76623 CTCGTAATCTTACATT
1 CTGGTAATCTTACATT
76639 TCGTGAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCAA
Found at i:83507 original size:18 final size:19
Alignment explanation
Indices: 83463--83510 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
83453 AAATACCGTG
*
83463 GTATCGATACTCTACCCTGA
1 GTATCGATACTC-ACCATGA
*
83483 ATATCGATACTC-CCATGA
1 GTATCGATACTCACCATGA
83501 GTATCGATAC
1 GTATCGATAC
83511 CAAAATCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (19 bp):
GTATCGATACTCACCATGA
Found at i:87609 original size:20 final size:20
Alignment explanation
Indices: 87584--87629 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
87574 ATAAGTCGAG
* *
87584 AGATGTAGGGAAATAGAAAT
1 AGATGTACGGAAATAAAAAT
87604 AGATGTACGGAAATAAAAAT
1 AGATGTACGGAAATAAAAAT
87624 AGATGT
1 AGATGT
87630 TTATAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.22
Consensus pattern (20 bp):
AGATGTACGGAAATAAAAAT
Found at i:88606 original size:23 final size:23
Alignment explanation
Indices: 88573--88640 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
88563 ATTATTATAT
88573 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
88596 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
88619 GGCACTTCGGTGTAATTATACG
1 GGCACTACGGTGCAATTCTACG
88641 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:90041 original size:149 final size:148
Alignment explanation
Indices: 89791--90254 Score: 847
Period size: 149 Copynumber: 3.1 Consensus size: 148
89781 TATAATTGCA
* * *
89791 CCGAAGTACCACGTAGAATTGCACCGTAGTGCTATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
89856 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTTACAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
89921 CACAGAATATATATATAT
131 CACAGAATATATATATAT
89939 CTCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 C-CGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
90004 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
90069 CCACAGAATATATATATAT
130 CCACAGAATATATATATAT
*
90088 CCCGAAGGACCGCGTAGAATTGTACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 -CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
*
90153 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACCCATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
90218 CCACAGAATATATATATAT
130 CCACAGAATATATATATAT
90237 CCTGAAGGACCGCGTAGA
1 CC-GAAGGACCGCGTAGA
90255 CCCTCTACCC
Statistics
Matches: 307, Mismatches: 6, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
148 3 0.01
149 303 0.99
150 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTC
CACAGAATATATATATAT
Found at i:96890 original size:23 final size:23
Alignment explanation
Indices: 96864--96907 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
96854 CACCACATCT
*
96864 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
96887 CGTAGAATTGCACCGTAGTGC
1 CGTAGAATTGCACCGAAGTGC
96908 TATATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:97154 original size:151 final size:149
Alignment explanation
Indices: 96887--97192 Score: 542
Period size: 151 Copynumber: 2.0 Consensus size: 149
96877 CGAAGTGCCA
* *
96887 CGTAGAATTGCACCGTAGTGCTATATAATAATGTCCATAAGGATCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
96952 CATATACATATACTAGGGATCAAGTATGTATCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTATCTTACAAGACTTCACACATGTTCCACAG-A-ATA
97017 TATATATATCCCGAAGGACCG
129 TATATATATCCCGAAGGACCG
97038 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
* *
97103 CATATACATATACT-GTGGATCAAGTATGTGTCTTACAAGACTTCACCCATGTTCCACAGAATAT
66 CATATACATATACTAG-GGATCAAGTATGTATCTTACAAGACTTCACACATGTTCCACAGAATAT
97167 ATATATATCCCGAAGGACCG
130 ATATATATCCCGAAGGACCG
97187 CGTAGA
1 CGTAGA
97193 CCCTCTACCC
Statistics
Matches: 150, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
149 30 0.20
150 2 0.01
151 118 0.79
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTATCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Done.