Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008507.1 Hibiscus syriacus cultivar Beakdansim tig00111359_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: 68065
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Found at i:855 original size:17 final size:18
Alignment explanation
Indices: 822--855 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
812 GGATTTTTTA
*
822 TTTTATTTTTATATAAAT
1 TTTTAATTTTATATAAAT
840 TTTTAATTTTAT-TAAA
1 TTTTAATTTTATATAAA
856 AGTAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTATATAAAT
Found at i:2098 original size:8 final size:8
Alignment explanation
Indices: 2085--2109 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2075 GTTTCATATC
2085 AATTCTCA
1 AATTCTCA
2093 AATTCTCA
1 AATTCTCA
2101 AATTCTCA
1 AATTCTCA
2109 A
1 A
2110 TATTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
AATTCTCA
Found at i:4020 original size:2 final size:2
Alignment explanation
Indices: 4013--4039 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4003 TTTCAGAACT
4013 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 T
4040 TGCTTGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4399 original size:133 final size:136
Alignment explanation
Indices: 4252--4520 Score: 303
Period size: 133 Copynumber: 2.0 Consensus size: 136
4242 TGTTGCACGG
* * * *
4252 ATATTTAAAATTAATTAGGTTAATACCATTTTCTATTTGTAGCCATGTAAATGATTGTTACCAGA
1 ATATTTAAAATTAATTAGGCTAATACCATTATCTATTTGTAACCATGTAAATG-GTGTTACCAGA
* * *
4317 TGCAATATCATGTTGTT-GATGT-TTTTTTC-TTCTTTTGTCTGAATATTTTCCTTCAGGTCTGA
65 TGCAATATCATGTTGTTGGATGTGTTTTTTCGTTCTTTTGTCGGAATATGTTCCTTCAAGTCTGA
4379 ATCCTTT
130 ATCCTTT
** * * ** ***
4386 ATATTT-AAATTAATTAGGCTAATGTCGTTATCTGTTTGTAACTGTGTAAATGGTGTTAGTGGAT
1 ATATTTAAAATTAATTAGGCTAATACCATTATCTATTTGTAACCATGTAAATGGTGTTACCAGAT
* * * * *
4450 GCAATATCCTGTTGTTGGTTTTGTTTTTTCGTTCTTTTTTCGGAGTATGTTCCTTCAAGTCTGAA
66 GCAATATCATGTTGTTGGATGTGTTTTTTCGTTCTTTTGTCGGAATATGTTCCTTCAAGTCTGAA
*
4515 TTCTTT
131 TCCTTT
4521 TGGAGTCTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
132 23 0.21
133 40 0.36
134 13 0.12
135 34 0.31
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (136 bp):
ATATTTAAAATTAATTAGGCTAATACCATTATCTATTTGTAACCATGTAAATGGTGTTACCAGAT
GCAATATCATGTTGTTGGATGTGTTTTTTCGTTCTTTTGTCGGAATATGTTCCTTCAAGTCTGAA
TCCTTT
Found at i:5745 original size:41 final size:42
Alignment explanation
Indices: 5657--5745 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
5647 TTAAATAATA
* *
5657 AAATAATATTATAGATGATTTTTTGTATAACTAATTTTTATTT
1 AAAT-ATATTATAGATGAATTTTTATATAACTAATTTTTATTT
*
5700 AAATATATTATCGATGAATTTTTATATAA-TAATTTTTATTT
1 AAATATATTATAGATGAATTTTTATATAACTAATTTTTATTT
5741 AAATA
1 AAATA
5746 GTTATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 17 0.40
42 22 0.51
43 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (42 bp):
AAATATATTATAGATGAATTTTTATATAACTAATTTTTATTT
Found at i:6961 original size:14 final size:14
Alignment explanation
Indices: 6942--6968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6932 GCACTGACTG
6942 AATAAATAAATAAA
1 AATAAATAAATAAA
6956 AATAAATAAATAA
1 AATAAATAAATAA
6969 TTTGATCGTT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:13368 original size:41 final size:41
Alignment explanation
Indices: 13323--13463 Score: 109
Period size: 41 Copynumber: 3.4 Consensus size: 41
13313 AAAACTATCA
13323 CGGCGTTTGTATAAAAACACTACTAAATTACCACTCTATTG
1 CGGCGTTTGTATAAAAACACTACTAAATTACCACTCTATTG
13364 CGGCGTTTGT-TGAAAAA-A-TGGCACTATAA--A-CATCTCTATTG
1 CGGCGTTTGTAT-AAAAACACT---ACTA-AATTACCA-CTCTATTG
* * *
13405 CGGCATTTTAGCTATAAATAC-C-GCTAAATTACCACTCTATTG
1 CGGC-GTTT-G-TATAAAAACACTACTAAATTACCACTCTATTG
*
13447 CGGCGTTTGTTTAAAAA
1 CGGCGTTTGTATAAAAA
13464 ACGCCGCTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
39 7 0.09
40 7 0.09
41 34 0.43
42 20 0.25
43 5 0.06
44 5 0.06
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (41 bp):
CGGCGTTTGTATAAAAACACTACTAAATTACCACTCTATTG
Found at i:13471 original size:42 final size:42
Alignment explanation
Indices: 13323--13474 Score: 111
Period size: 42 Copynumber: 3.7 Consensus size: 42
13313 AAAACTATCA
* * *
13323 CGGCGTTTGTAT-AAAAACACTACTAAATTACCACTCTATTG
1 CGGCGTTTGTTTAAAAAACGCCACTAAATTACCACTCTATTG
* * *
13364 CGGCGTTTGTTGAAAAAATGGCACTATAA--A-CATCTCTATTG
1 CGGCGTTTGTTTAAAAAACGCCACTA-AATTACCA-CTCTATTG
* * * *
13405 CGGCATTT-TAGCTATAAATA--CCGCTAAATTACCACTCTATTG
1 CGGCGTTTGT--TTA-AAAAACGCCACTAAATTACCACTCTATTG
*
13447 CGGCGTTTGTTTAAAAAACGCCGCTAAA
1 CGGCGTTTGTTTAAAAAACGCCACTAAA
13475 GTATTATTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
40 9 0.11
41 32 0.38
42 34 0.40
43 9 0.11
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (42 bp):
CGGCGTTTGTTTAAAAAACGCCACTAAATTACCACTCTATTG
Found at i:21955 original size:229 final size:228
Alignment explanation
Indices: 21550--21998 Score: 808
Period size: 229 Copynumber: 2.0 Consensus size: 228
21540 GTAAATTATC
* * *
21550 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
21615 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
21680 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
21745 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTCAAAAAAGTATA
*
21778 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
21843 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
21908 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
21973 GAAACATAAATTACATAACTTTCAAA
195 GAAACATAAATTACATAACTTTCAAA
21999 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
228 36 0.17
229 175 0.83
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:22084 original size:21 final size:20
Alignment explanation
Indices: 22060--22109 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
22050 AAAACGATAT
22060 ACCAGGTAAAAATATGATAAA
1 ACCAGGTAAAAA-ATGATAAA
22081 ACCA-GTAACAAAATGATAAA
1 ACCAGGTAA-AAAATGATAAA
22101 ACC-GGTAAA
1 ACCAGGTAAA
22110 TTTAAAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (20 bp):
ACCAGGTAAAAAATGATAAA
Found at i:24627 original size:33 final size:33
Alignment explanation
Indices: 24585--24650 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
24575 AAATAGATGG
*
24585 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
24618 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
24651 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:26466 original size:19 final size:19
Alignment explanation
Indices: 26442--26490 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
26432 AATGTCGAGT
26442 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
26461 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
26480 TATTTTTGTAT
1 TAATTTTGTAT
26491 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:27382 original size:397 final size:396
Alignment explanation
Indices: 26639--28130 Score: 2864
Period size: 397 Copynumber: 3.8 Consensus size: 396
26629 TGTCGATCCA
26639 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
* *
26704 TCTAAATAATGTGTCGACAATAATATAGTTTGTGTCGATATTTTTTTCCAGAATTAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
*
26769 AGGGTGCACCCATAAAGTCTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
26834 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
196 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
26899 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
261 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
26964 AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
326 AAAC-AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
27029 CCAAAAG
390 CCAAAAG
27036 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27101 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
27166 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
130 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27231 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
195 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
27296 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
260 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
27361 AAAACAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
325 AAAACAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
27426 CCAAAAG
390 CCAAAAG
27433 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27498 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
27563 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
130 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
*
27627 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGA
195 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
*
27692 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATTAATGG
260 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
27756 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAA
325 AAAACA-GGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
27820 CCCAAAAG
389 CCCAAAAG
27828 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27893 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
*
27958 AAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
*
28023 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGAT
196 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
28088 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
261 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
28131 CTAATTTAAA
Statistics
Matches: 1086, Mismatches: 6, Indels: 8
0.99 0.01 0.01
Matches are distributed among these distances:
394 56 0.05
395 305 0.28
396 169 0.16
397 334 0.31
398 222 0.20
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (396 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAAC
AGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
AAACAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAG
Found at i:27480 original size:198 final size:199
Alignment explanation
Indices: 26639--28130 Score: 2870
Period size: 198 Copynumber: 7.5 Consensus size: 199
26629 TGTCGATCCA
26639 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
* *
26704 TCTAAATAATGTGTCGACAATAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATTAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
*
26768 CAGGGTGCACCCATAAAGTCTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
26833 AAAG
196 AAAG
*
26837 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
26902 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
*
26967 CAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27032 AAAG
196 AAAG
27036 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27101 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
27166 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27231 AAAG
196 AAAG
*
27235 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27300 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
27365 CA-GGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27429 AAAG
196 AAAG
27433 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27498 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
27563 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27627 AAAG
196 AAAG
27631 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
*
27696 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATTAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
27760 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
27824 AAAG
196 AAAG
27828 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
27893 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
*
27957 CAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
28022 AAAG
196 AAAG
28026 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
28091 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
28131 CTAATTTAAA
Statistics
Matches: 1279, Mismatches: 12, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
197 251 0.20
198 580 0.45
199 448 0.35
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (199 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
AAAG
Found at i:29605 original size:18 final size:18
Alignment explanation
Indices: 29584--29651 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
29574 AGCGGTCGCA
29584 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
29602 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
29623 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
29644 GAAGATGA
1 GAAGATGA
29652 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:29608 original size:6 final size:6
Alignment explanation
Indices: 29584--29681 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
29574 AGCGGTCGCA
* * * * * *
29584 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
29632 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
29680 GA
1 GA
29682 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:29619 original size:3 final size:3
Alignment explanation
Indices: 29599--29685 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
29589 TGAAGCTGAC
* * * * * ** *
29599 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
29647 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
29686 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:29634 original size:42 final size:42
Alignment explanation
Indices: 29587--29677 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
29577 GGTCGCAGAA
*
29587 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
29629 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
29671 GATGAAG
1 GATGAAG
29678 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:29685 original size:18 final size:18
Alignment explanation
Indices: 29584--29681 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
29574 AGCGGTCGCA
* *
29584 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
29602 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
29620 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
29638 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
29656 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
29674 GAAGATGA
1 GAAGATGA
29682 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:31500 original size:184 final size:184
Alignment explanation
Indices: 31150--31676 Score: 921
Period size: 184 Copynumber: 2.9 Consensus size: 184
31140 CTTTCAACAT
** * * * * *
31150 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* * * *
31215 GGTCTACAACCTATATCGACACTTT-TAATAGTGTGTCGGTACTTTATGTACATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
31279 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
31333 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
31398 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
31463 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
31517 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
31582 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCCCATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
*
31647 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
31677 GTAATTTGAA
Statistics
Matches: 329, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
183 83 0.25
184 246 0.75
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
Found at i:34287 original size:23 final size:23
Alignment explanation
Indices: 34256--34319 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
34246 ATAGGTAAAC
*
34256 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
34279 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
34302 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
34320 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:34326 original size:23 final size:23
Alignment explanation
Indices: 34256--34328 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
34246 ATAGGTAAAC
* **
34256 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
34279 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
34302 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
34325 ATAT
1 ATAT
34329 TGTAAAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:34718 original size:23 final size:23
Alignment explanation
Indices: 34687--34750 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
34677 ATAGGTAAAC
*
34687 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
34710 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
34733 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
34751 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:34757 original size:23 final size:23
Alignment explanation
Indices: 34687--34759 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
34677 ATAGGTAAAC
* **
34687 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
34710 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
34733 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
34756 ATAT
1 ATAT
34760 TGTAAAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:35131 original size:427 final size:431
Alignment explanation
Indices: 34157--35843 Score: 3123
Period size: 425 Copynumber: 3.9 Consensus size: 431
34147 AATTCGCAGT
34157 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
34222 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
34287 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
34352 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAAT-TTTTGAGTGAGTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATT-ATCTTTTGAGTGAGTTT
34416 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
260 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
34481 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGC
325 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGC
34546 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
34588 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
34653 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
34718 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCC-TTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
34782 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAAT-TTTTGAGTGAGTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATT-ATCTTTTGAGTGAGTTT
34846 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
260 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
34911 TATTAAATTAAAAATTCTAAATAATA-TTTAT-AAATAT-AAAACAATCAAATAATTTTTTCTGC
325 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGC
34973 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
35015 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
35080 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
35145 -AA-ATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
* *
35208 AAAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTT
35273 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATA-TATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
35335 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
35399 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
35440 ACAATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
35504 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
35569 TAATAGGTATCG-TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
35633 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTT
* *
35698 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
* * *
35763 ATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
35828 AATGAAATTATTAAAT
391 AATGAAATTATTAAAT
35844 TAAATAATTC
Statistics
Matches: 1232, Mismatches: 13, Indels: 24
0.97 0.01 0.02
Matches are distributed among these distances:
423 29 0.02
424 74 0.06
425 343 0.28
426 143 0.12
427 201 0.16
428 62 0.05
429 31 0.03
430 161 0.13
431 188 0.15
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:35182 original size:23 final size:23
Alignment explanation
Indices: 35114--35184 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
35104 ATAGGTAAAC
* **
35114 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
35137 ATATAATG-AA-ATGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
35158 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
35181 ATAT
1 ATAT
35185 TGTAAAGTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
21 14 0.38
22 4 0.11
23 18 0.49
24 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:35569 original size:23 final size:23
Alignment explanation
Indices: 35538--35600 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
35528 ATAGGTAAAC
*
35538 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* *
35561 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGCCCTT
35583 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
35601 TGGTTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:35587 original size:22 final size:23
Alignment explanation
Indices: 35538--35609 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
35528 ATAGGTAAAC
* * *
35538 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTCGTT
35561 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGTCGTT
*
35583 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTCGTT
35606 ATAT
1 ATAT
35610 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTCGTT
Found at i:35912 original size:25 final size:25
Alignment explanation
Indices: 35878--35928 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
35868 ACAACAAATC
*
35878 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
35903 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
35928 A
1 A
35929 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:36198 original size:18 final size:18
Alignment explanation
Indices: 36177--36213 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36167 GTAATTGGAG
36177 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
36195 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
36213 T
1 T
36214 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:36221 original size:24 final size:24
Alignment explanation
Indices: 36169--36215 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
36159 TTTCATATGT
* *
36169 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
36193 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
36216 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:36515 original size:39 final size:39
Alignment explanation
Indices: 36472--36558 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
36462 TCCGATGCTC
*
36472 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
36511 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
36550 ATCAAAATC
1 ATCAAAATC
36559 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:36907 original size:23 final size:23
Alignment explanation
Indices: 36881--36944 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
36871 TAATAGGTAA
*
36881 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
36904 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
36927 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
36945 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:36951 original size:23 final size:23
Alignment explanation
Indices: 36881--36953 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
36871 TAATAGGTAA
* **
36881 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
36904 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
36927 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
36950 ATAT
1 ATAT
36954 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:55051 original size:3 final size:3
Alignment explanation
Indices: 55031--55102 Score: 51
Period size: 3 Copynumber: 24.7 Consensus size: 3
55021 TTTTCATTTT
* * *
55031 TTA TT- TTA TT- TATA TTA TTA TTA TAA TTA TTA TAA TTA TAA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
55075 TAA TAA TAA TTA TTA TTA ATA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
55103 TAATATTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 5 0.09
3 50 0.89
4 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:55061 original size:15 final size:15
Alignment explanation
Indices: 55043--55102 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
55033 ATTTTATTTA
55043 TATTATTATTATAAT
1 TATTATTATTATAAT
*
55058 TATTATAATTATAAT
1 TATTATTATTATAAT
*
55073 TA-TA--ATAATAAT
1 TATTATTATTATAAT
*
55085 TATTATTAATAT-AT
1 TATTATTATTATAAT
55099 TATT
1 TATT
55103 TAATATTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 9 0.24
13 2 0.05
14 8 0.21
15 19 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTATTATAAT
Found at i:55505 original size:6 final size:6
Alignment explanation
Indices: 55494--55550 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
55484 CGAGCAAGGA
*
55494 AGACAG AGACAG AGACAG AGACA- A-A-AA AGACAG AGACA- A-A-AG
1 AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG
*
55536 AGACAA AGACAG AGA
1 AGACAG AGACAG AGA
55551 GAAAAGAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
3 2 0.05
4 4 0.10
5 4 0.10
6 32 0.76
ACGTcount: A:0.60, C:0.14, G:0.26, T:0.00
Consensus pattern (6 bp):
AGACAG
Found at i:55526 original size:15 final size:15
Alignment explanation
Indices: 55506--55546 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
55496 ACAGAGACAG
55506 AGACAGAGACAAAAA
1 AGACAGAGACAAAAA
*
55521 AGACAGAGACAAAAG
1 AGACAGAGACAAAAA
*
55536 AGACAAAGACA
1 AGACAGAGACA
55547 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.63, C:0.15, G:0.22, T:0.00
Consensus pattern (15 bp):
AGACAGAGACAAAAA
Found at i:55531 original size:27 final size:24
Alignment explanation
Indices: 55493--55559 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 24
55483 GCGAGCAAGG
55493 AAGACAGAGACAGAGACAGAGACAAAA
1 AAGACAGAGACA-A-A-AGAGACAAAA
55520 AAGACAGAGACAAAAGAGAC---A
1 AAGACAGAGACAAAAGAGACAAAA
*
55541 AAGACAGAGAGAAAAGAGA
1 AAGACAGAGACAAAAGAGA
55560 GAGACAGAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 19 0.49
24 6 0.15
25 1 0.03
26 1 0.03
27 12 0.31
ACGTcount: A:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (24 bp):
AAGACAGAGACAAAAGAGACAAAA
Found at i:56535 original size:13 final size:13
Alignment explanation
Indices: 56519--56565 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
56509 ATATAATAAA
56519 TAAATATTTATTT
1 TAAATATTTATTT
*
56532 TAAATAAATTATTT
1 TAAAT-ATTTATTT
56546 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
56559 TCAATAT
1 TAAATAT
56566 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:64588 original size:20 final size:20
Alignment explanation
Indices: 64563--64603 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
64553 AAGATATCTT
*
64563 TGCCTGGTCTTATCA-AGATA
1 TGCCTGGT-TTAGCACAGATA
64583 TGCCTGGTTTAGCACAGATA
1 TGCCTGGTTTAGCACAGATA
64603 T
1 T
64604 AGTGATACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
TGCCTGGTTTAGCACAGATA
Found at i:67693 original size:8 final size:8
Alignment explanation
Indices: 67684--67733 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
67674 ATGCTTGAAG
67684 AAAAGAAGA
1 AAAAGAA-A
67693 AAAA-AAA
1 AAAAGAAA
*
67700 GAAAGAAA
1 AAAAGAAA
*
67708 AAAAGAAG
1 AAAAGAAA
67716 AAAA-AAA
1 AAAAGAAA
67723 AAAAGAAA
1 AAAAGAAA
67731 AAA
1 AAA
67734 GGGGTCAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 10 0.29
8 21 0.60
9 4 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:67701 original size:12 final size:12
Alignment explanation
Indices: 67684--67733 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
67674 ATGCTTGAAG
67684 AAAAGAAGAAAA
1 AAAAGAAGAAAA
67696 AAAAGAA-AGAAA
1 AAAAGAAGA-AAA
67708 AAAAGAAGAAAA
1 AAAAGAAGAAAA
*
67720 AAAAAAAGAAAA
1 AAAAGAAGAAAA
67732 AA
1 AA
67734 GGGGTCAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 1 0.03
12 33 0.94
13 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:67716 original size:24 final size:23
Alignment explanation
Indices: 67684--67733 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
67674 ATGCTTGAAG
67684 AAAAGAAGAAAAAAAAGAAAGAAA
1 AAAAGAAGAAAAAAAA-AAAGAAA
67708 AAAAGAAGAAAAAAAAAAAGAAA
1 AAAAGAAGAAAAAAAAAAAGAAA
67731 AAA
1 AAA
67734 GGGGTCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAAAAAAAAAAAGAAA
Done.