Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_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: 2551150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:2071 original size:17 final size:18
Alignment explanation
Indices: 2049--2084 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2039 CTTAATATAA
2049 AAATATTTAT-TTAAATT
1 AAATATTTATCTTAAATT
*
2066 AAATATTTTTCTTAAATT
1 AAATATTTATCTTAAATT
2084 A
1 A
2085 TTGTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATTTATCTTAAATT
Found at i:9197 original size:2 final size:2
Alignment explanation
Indices: 9190--9234 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
9180 AATTTTAAAA
9190 AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
9231 AT AT
1 AT AT
9235 TAATATAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11122 original size:17 final size:17
Alignment explanation
Indices: 11085--11136 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
11075 TGTGCTGATC
11085 TTAAAATTTAATATTT-TT
1 TTAAAATTT--TATTTATT
*
11103 TTTAAATATTTATTTATT
1 TTAAAAT-TTTATTTATT
11121 TTAAAATTTTATTTAT
1 TTAAAATTTTATTTAT
11137 ACTAATTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.47
18 14 0.47
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAAAATTTTATTTATT
Found at i:12750 original size:11 final size:10
Alignment explanation
Indices: 12719--12775 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 10
12709 TATTTAGATA
12719 AATTTATTAAT
1 AATTT-TTAAT
12730 AA-TTTT-AT
1 AATTTTTAAT
12738 AATCTTTTAAT
1 AAT-TTTTAAT
*
12749 AA-ATTTAAT
1 AATTTTTAAT
12758 AATTATTTAAT
1 AATT-TTTAAT
12769 AATTTTT
1 AATTTTT
12776 TAAACTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.10
9 10 0.26
10 9 0.23
11 16 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:12751 original size:31 final size:31
Alignment explanation
Indices: 12711--12778 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
12701 TTTTAGAGTA
* *
12711 TTTAGATAAATTTATTAATAATTTTATAATCT
1 TTTA-ATAAATTTAATAATAATTTAATAATCT
* *
12743 TTTAATAAATTTAATAATTATTTAATAATTT
1 TTTAATAAATTTAATAATAATTTAATAATCT
12774 TTTAA
1 TTTAA
12779 ACTTTATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTAATAAATTTAATAATAATTTAATAATCT
Found at i:12858 original size:13 final size:13
Alignment explanation
Indices: 12840--12864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12830 ATTTTATTAT
12840 TTAAAAAAATATA
1 TTAAAAAAATATA
12853 TTAAAAAAATAT
1 TTAAAAAAATAT
12865 TATATGAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAAAATATA
Found at i:13563 original size:31 final size:33
Alignment explanation
Indices: 13503--13572 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 33
13493 TCAATAAAGT
*
13503 TTAAAAAATTATAAAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAAAATACTTAATAAATTTA
* *
13536 TTAAAAGATTAT-AAAATTA-TTAATAAATTTA
1 TTAAAAAATTATAAAAAATACTTAATAAATTTA
13567 TCTAAA
1 T-TAAA
13573 TACTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 12 0.36
32 10 0.30
33 11 0.33
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (33 bp):
TTAAAAAATTATAAAAAATACTTAATAAATTTA
Found at i:13580 original size:31 final size:31
Alignment explanation
Indices: 13517--13588 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
13507 AAAATTATAA
* * *
13517 AAAATACTTATTAAATTTATTAAAAGATTAT
1 AAAATAATTAATAAATTTATTAAAAGACTAT
* *
13548 AAAATTATTAATAAATTTATCT-AAATACTAT
1 AAAATAATTAATAAATTTAT-TAAAAGACTAT
13579 AAAATAATTA
1 AAAATAATTA
13589 TTATATTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAATAATTAATAAATTTATTAAAAGACTAT
Found at i:15975 original size:15 final size:16
Alignment explanation
Indices: 15946--15979 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15936 ACCCAAATAT
*
15946 AATCATTAAATATCCA
1 AATCATTAAAAATCCA
15962 AATC-TTAAAAATCCA
1 AATCATTAAAAATCCA
15977 AAT
1 AAT
15980 ACAAGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (16 bp):
AATCATTAAAAATCCA
Found at i:17319 original size:17 final size:18
Alignment explanation
Indices: 17295--17340 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
17285 TATGGAATTG
*
17295 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
17312 GTTTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
17330 GATTCCAATTC
1 GATTCCAATTC
17341 TCTCATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:21537 original size:2 final size:2
Alignment explanation
Indices: 21530--21567 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21520 ATCTAGTTGA
21530 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
21568 CATGTTCTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26560 original size:3 final size:3
Alignment explanation
Indices: 26552--26578 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26542 AATCAAAAGC
26552 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
26579 TGATAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30711 original size:2 final size:2
Alignment explanation
Indices: 30704--30728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30694 TGTGCATTCC
30704 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 T
30729 TATGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31269 original size:37 final size:36
Alignment explanation
Indices: 31204--31282 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 36
31194 CTTTATGCTA
* *
31204 CCAACGGCTATAAGGGAGAAGAGTCATCTCTTCATT
1 CCAACGGCTACAAGGGAGAAGAGTCATCTCTTCACT
31240 CCAACGGCTAGCAAGGGA-AATGA-TACATCTCTTCACT
1 CCAACGGCTA-CAAGGGAGAA-GAGT-CATCTCTTCACT
31277 CCAACG
1 CCAACG
31283 ATTACATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
36 13 0.34
37 25 0.66
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (36 bp):
CCAACGGCTACAAGGGAGAAGAGTCATCTCTTCACT
Found at i:31396 original size:35 final size:35
Alignment explanation
Indices: 31321--31434 Score: 124
Period size: 35 Copynumber: 3.3 Consensus size: 35
31311 CTTTAATGAG
* * *
31321 AAGAGTTATGTTGCTTCACCAAATGATACCTTTCT
1 AAGAGTCATGTTGCTTCACCAAATGATGCCTTTCC
* **
31356 AAGAGTCATTTTGCTTCACCAAATGATGTTTTTCC
1 AAGAGTCATGTTGCTTCACCAAATGATGCCTTTCC
* * * *
31391 GAGAGTCATGATGCTTCAGCAAAGGATGCC-TT-C
1 AAGAGTCATGTTGCTTCACCAAATGATGCCTTTCC
31424 AAGAGTCATGT
1 AAGAGTCATGT
31435 CTTTTCACAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
33 10 0.16
34 2 0.03
35 52 0.81
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (35 bp):
AAGAGTCATGTTGCTTCACCAAATGATGCCTTTCC
Found at i:31549 original size:34 final size:34
Alignment explanation
Indices: 31415--31552 Score: 86
Period size: 33 Copynumber: 4.0 Consensus size: 34
31405 TTCAGCAAAG
* * * *
31415 GATGCCTTCAAGAGTCATGTCTTTTCA-CAAAAC
1 GATGCCCTCAAAAGTCACGTCTTTTCACCAAAAA
* * ** *
31448 GGTGCCCTCAAAAGTCATGTCTCCTCACTCCAAAA
1 GATGCCCTCAAAAGTCACGTCTTTTCAC-CAAAAA
* * *
31483 G--GCCCTCTAAAGGTCATGCCTCTTTAT-TCCAAAAA
1 GATGCCCTC-AAAAGTCA--CGTCTTT-TCACCAAAAA
*
31518 GATGCCTTCAAAAGTCACGTCTTTTCACCAAAAA
1 GATGCCCTCAAAAGTCACGTCTTTTCACCAAAAA
31552 G
1 G
31553 TGTTTCCAGA
Statistics
Matches: 78, Mismatches: 18, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
33 29 0.37
34 21 0.27
35 11 0.14
36 11 0.14
37 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (34 bp):
GATGCCCTCAAAAGTCACGTCTTTTCACCAAAAA
Found at i:35555 original size:189 final size:188
Alignment explanation
Indices: 35211--35695 Score: 470
Period size: 188 Copynumber: 2.6 Consensus size: 188
35201 GATTCAAAGT
* * * * *
35211 AATAAGGACGATAACAAAAATAAGTTGAAAGTTGAAAATGTTATCAATCGTGGTAAGAAATTTGG
1 AATAAAGACGATAACAAAAATAAGTTGAAAGCTGAAAATATTATCAATCGTGATAAGAAATATGG
* * * *
35276 TTACGCCTATAATTGTTAGCGTTCGATAAGAAAGTAAGTTGAGATCGGGTTTATTATAAGTTGCT
66 TTACGCCCATAATTGTTAGCGTTCAATAAAAAAGTAAGTTGAGATCGGGCTTATTATAAGTTGCT
*
35341 TTAATAAATCTGGATTCGACCAAAAATGTTATCAATGTTTAATAAATGGGTTTATCAA
131 TTAACAAATCTGGATTCGACCAAAAATGTTATCAATGTTTAATAAATGGGTTTATCAA
* *
35399 AATAAAGACGATAA-TAAAATAAGTTGGAAA-CTGGAAATATTATCAATCGTGATAAGAAATATG
1 AATAAAGACGATAACAAAAATAAGTT-GAAAGCTGAAAATATTATCAATCGTGATAAGAAATATG
* * * *
35462 GTTGA-GCCCATGATTGTTAGTGTTCAATAAAAAAAAGTAAGTTGAGATTGGGCTTGTTATAAGT
65 GTT-ACGCCCATAATTGTTAGCGTTCAAT--AAAAAAGTAAGTTGAGATCGGGCTTATTATAAGT
* * * * ** * *
35526 TGCTTTAACAAATTTTGTTTCTACCAAAAATGTTA-CTAGA-GTTT-AGCAATGAGTTCATCAA
127 TGCTTTAACAAATCTGGATTCGACCAAAAATGTTATC-A-ATGTTTAATAAATGGGTTTATCAA
* * * * * * * *
35587 AATAAGGATGGTAAC-AAAATAAGCTAAAAGCTGAATATATTGTTAATCGT-AGTAAGAAAT-TC
1 AATAAAGACGATAACAAAAATAAGTTGAAAGCTGAAAATATTATCAATCGTGA-TAAGAAATAT-
* * * * *
35649 GATTGCGCCCATGAA-TGTTAGCAG-TCAATAAGAAACTAGGTTGAGAT
64 GGTTACGCCCAT-AATTGTTAGC-GTTCAATAAAAAAGTAAGTTGAGAT
35696 TAGATTTGTT
Statistics
Matches: 244, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
186 15 0.06
187 65 0.27
188 96 0.39
189 67 0.27
190 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (188 bp):
AATAAAGACGATAACAAAAATAAGTTGAAAGCTGAAAATATTATCAATCGTGATAAGAAATATGG
TTACGCCCATAATTGTTAGCGTTCAATAAAAAAGTAAGTTGAGATCGGGCTTATTATAAGTTGCT
TTAACAAATCTGGATTCGACCAAAAATGTTATCAATGTTTAATAAATGGGTTTATCAA
Found at i:45728 original size:143 final size:142
Alignment explanation
Indices: 45406--45788 Score: 509
Period size: 142 Copynumber: 2.7 Consensus size: 142
45396 TTCAACAATG
*
45406 TTGTAACCTAAAATGTTAAATGCGGTTCAATACTTATTTTATGACAAGTATCAATACTTGTAACT
1 TTGTAACCTAAAATGTTAAATGTGGTTCAATACTTATTTTATGACAAGTATCAATACTTGTAACT
* * * * * *
45471 AAGTATTGATACTTAGTTACAACCTAAAGTGTTATCCACTCCAACTTAAAATTTTATATCTTAGG
66 AAGTATCGATACTTAGTTACAACCTAAAATATTATACACTCCAACTTAAAATGTTATATATTAGG
45536 TAACATTTTCGA
131 TAACATTTTCGA
* * * * *
45548 TTGTAACGTAAAATGTTAAATGTAGTTCAATAGTTATTTCATGACAAGTATCAATACTTGTTACT
1 TTGTAACCTAAAATGTTAAATGTGGTTCAATACTTATTTTATGACAAGTATCAATACTTGTAACT
* * * *
45613 AAATATCGATACTTAGTTACAACCTAAAATATTATACAGTCTAATCTTAAAATGTTATATATTTG
66 AAGTATCGATACTTAGTTACAACCTAAAATATTATACACTCCAA-CTTAAAATGTTATATATTAG
*
45678 GTAATATTTTCGA
130 GTAACATTTTCGA
* ** * *
45691 TTGTAACTTAAAATGTTAAATGTGGTTTGATACTTATTTTACGA-AATGTATCAATACTTGAAAC
1 TTGTAACCTAAAATGTTAAATGTGGTTCAATACTTATTTTATGACAA-GTATCAATACTTGTAAC
* * *
45755 TGAGT-TCGATACTTAGTTATAATCTAAAATATTA
65 TAAGTATCGATACTTAGTTACAACCTAAAATATTA
45789 CTCCCTCCGT
Statistics
Matches: 209, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
142 125 0.60
143 84 0.40
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (142 bp):
TTGTAACCTAAAATGTTAAATGTGGTTCAATACTTATTTTATGACAAGTATCAATACTTGTAACT
AAGTATCGATACTTAGTTACAACCTAAAATATTATACACTCCAACTTAAAATGTTATATATTAGG
TAACATTTTCGA
Found at i:46774 original size:24 final size:27
Alignment explanation
Indices: 46737--46786 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
46727 AAATTTTATG
*
46737 AATTGAAATTTAATA-AA-AATATATA
1 AATTGAAATATAATACAATAATATATA
46762 AATTGAAA-ATAATACAATAATATAT
1 AATTGAAATATAATACAATAATATAT
46787 TTTATATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
26 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (27 bp):
AATTGAAATATAATACAATAATATATA
Found at i:49726 original size:15 final size:15
Alignment explanation
Indices: 49689--49729 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49679 ATATTCAAAT
49689 AAAA-AATTTAA-TC
1 AAAATAATTTAATTC
*
49702 -AAATACTTTAATTC
1 AAAATAATTTAATTC
49716 AAAATAATTTAATT
1 AAAATAATTTAATT
49730 GTTTTATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 6 0.26
14 2 0.09
15 12 0.52
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATTTAATTC
Found at i:59684 original size:2 final size:2
Alignment explanation
Indices: 59627--59668 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
59617 GCATGCGCGC
59627 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
59669 GAGATGTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61911 original size:13 final size:13
Alignment explanation
Indices: 61892--61954 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
61882 GTCACAACCC
61892 GACCCGACCCGTT
1 GACCCGACCCGTT
*
61905 TACCCGACCCGTT
1 GACCCGACCCGTT
61918 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
61936 GACCCGACCCGTT
1 GACCCGACCCGTT
61949 GACCCG
1 GACCCG
61955 TTGACCGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 31 0.72
18 12 0.28
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:61911 original size:18 final size:18
Alignment explanation
Indices: 61906--61960 Score: 83
Period size: 18 Copynumber: 2.9 Consensus size: 18
61896 CGACCCGTTT
61906 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
61924 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
61942 ACCCGTTGACCCGTTGACC
1 ACCC---GACCCGTTGACC
61961 GTTGACCGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.65
21 12 0.35
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:61926 original size:31 final size:31
Alignment explanation
Indices: 61888--61954 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
61878 ACCGGTCACA
*
61888 ACCCGACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
61919 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
61950 ACCCG
1 ACCCG
61955 TTGACCGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.16, C:0.49, G:0.21, T:0.13
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:61939 original size:8 final size:8
Alignment explanation
Indices: 61928--61967 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
61918 GACCCGACCC
61928 GACCCGTT
1 GACCCGTT
61936 GACCC---
1 GACCCGTT
61941 GACCCGTT
1 GACCCGTT
61949 GACCCGTT
1 GACCCGTT
61957 GA-CCGTT
1 GACCCGTT
61964 GACC
1 GACC
61968 GGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:63298 original size:18 final size:18
Alignment explanation
Indices: 63272--63307 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63262 TCGAAAGGAC
*
63272 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
63290 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
63308 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:64527 original size:24 final size:23
Alignment explanation
Indices: 64432--64539 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 23
64422 GAATATTTTA
*
64432 TCTGATTCTGATTTGAATTATGT
1 TCTGATTCTGATCTGAATTATGT
* * * *
64455 TTTGACATCTGATCTGAAATCTGT
1 TCTGA-TTCTGATCTGAATTATGT
* * * *
64479 TCTGATTCCTAACCTGGATTCTGT
1 TCTGATT-CTGATCTGAATTATGT
64503 TCTGATATCTGATCTGAATTATGT
1 TCTGAT-TCTGATCTGAATTATGT
*
64527 TTTGATTTCTGAT
1 TCTGA-TTCTGAT
64540 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.08
24 58 0.89
25 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (23 bp):
TCTGATTCTGATCTGAATTATGT
Found at i:64707 original size:2 final size:2
Alignment explanation
Indices: 64700--64742 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
64690 CGGATGGGGG
64700 TA TA TA TA TA 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 TA TA TA TA TA
64742 T
1 T
64743 GTTTTAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65655 original size:21 final size:20
Alignment explanation
Indices: 65569--65726 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
65559 AAATGACCAA
**
65569 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
65588 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
65608 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
65628 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
65649 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
65670 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
65690 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
65711 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
65727 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:65772 original size:20 final size:20
Alignment explanation
Indices: 65693--65886 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
65683 CGATTTTCCA
* ** *
65693 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
65713 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
65733 AAATCGCAACGCGTAACCGT
1 AAATCGCAACGCGTATCCGT
*
65753 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
65773 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
65793 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
65813 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
65833 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
65853 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
65874 AAATCGCAACGCG
1 AAATCGCAACGCG
65887 ATAATTTAAA
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.86
21 18 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:65777 original size:60 final size:60
Alignment explanation
Indices: 65693--65886 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
65683 CGATTTTCCA
* ** * * *
65693 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTAACCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
65753 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
65813 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
65874 AAATCGCAACGCG
1 AAATCGCAACGCG
65887 ATAATTTAAA
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:66059 original size:21 final size:22
Alignment explanation
Indices: 66033--66086 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
66023 CTCTCTACGG
66033 CGAAGAAATCCGT-CCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
66054 CGAAGATTTCCGTCCCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
66076 CGGCGAAATCC
1 CGAAGAAATCC
66087 CTCACAACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (22 bp):
CGAAGAAATCCGTCCCCATCTC
Found at i:66307 original size:33 final size:33
Alignment explanation
Indices: 66268--66338 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
66258 TTCACTTAGA
* *
66268 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
66301 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
66334 TTTCA
1 TTTCA
66339 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:66462 original size:20 final size:21
Alignment explanation
Indices: 66416--66494 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
66406 TTTGCAGAAG
*
66416 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
66438 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
66457 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
66479 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
66495 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:66475 original size:41 final size:41
Alignment explanation
Indices: 66417--66494 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
66407 TTGCAGAAGA
* *
66417 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
66458 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
66495 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:66500 original size:14 final size:14
Alignment explanation
Indices: 66481--66533 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
66471 AAATGAAAAG
66481 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
66495 CGCAACGCGAAATGAAAT
1 CGCAA--CGAGA-G-AAT
66513 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
66527 CGCAACG
1 CGCAACG
66534 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 15 0.45
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.42, C:0.25, G:0.26, T:0.08
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:66515 original size:18 final size:16
Alignment explanation
Indices: 66490--66538 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
66480 GCGCAACGAG
66490 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
*
66506 ATGAAATCGCAA--CGAG
1 A-G-AATCGCAACGCGAA
66522 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
66538 A
1 A
66539 CCAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 9 0.33
17 1 0.04
18 8 0.30
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
AGAATCGCAACGCGAA
Found at i:66521 original size:32 final size:33
Alignment explanation
Indices: 66470--66538 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
66460 CGCAACGAGA
66470 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
66503 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
66535 GAAA
1 GAAA
66539 CCAAAATCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 29 0.83
33 6 0.17
ACGTcount: A:0.46, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:66567 original size:19 final size:19
Alignment explanation
Indices: 66545--66642 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
66535 GAAACCAAAA
*
66545 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
66564 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
66578 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
66597 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
66611 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
66630 TCGCGTTGCGATT
1 TCGCGTTGCGATT
66643 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:66586 original size:14 final size:14
Alignment explanation
Indices: 66567--66656 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
66557 TTTCATTTCG
66567 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
66581 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
66600 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
66614 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
66631 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
66647 CGTTGCGATT
1 CGTTGCGATT
66657 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:66592 original size:33 final size:33
Alignment explanation
Indices: 66550--66664 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
66540 CAAAATCGCA
66550 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
66583 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
66616 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
66649 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
66665 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:68724 original size:185 final size:185
Alignment explanation
Indices: 68358--68738 Score: 728
Period size: 185 Copynumber: 2.1 Consensus size: 185
68348 TAGATTGCTT
*
68358 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
68423 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
68488 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
68543 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
68608 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
68673 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTC-TTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
68728 AGTAAATTTAT
1 AGTAAATTTAT
68739 CCATTCAAGT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
185 109 0.57
186 83 0.43
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:68755 original size:93 final size:93
Alignment explanation
Indices: 68358--68736 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
68348 TAGATTGCTT
*
68358 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
68423 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
68450 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
68515 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
68543 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
68608 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
68636 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
68701 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
68728 AGTAAATTT
1 AGTAAATTT
68737 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 109 0.39
93 174 0.61
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:68820 original size:19 final size:19
Alignment explanation
Indices: 68780--68908 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
68770 TAGTTTACTT
* *
68780 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
68800 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
68819 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
68838 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
68852 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
68871 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
68885 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
68904 TCGCA
1 TCGCA
68909 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:68859 original size:33 final size:32
Alignment explanation
Indices: 68816--68908 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
68806 CGCGAAACCA
**
68816 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
68848 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
68881 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
68909 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:68906 original size:52 final size:52
Alignment explanation
Indices: 68780--68908 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
68770 TAGTTTACTT
**
68780 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
68832 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
68885 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
68909 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:68926 original size:19 final size:18
Alignment explanation
Indices: 68904--69020 Score: 101
Period size: 19 Copynumber: 6.8 Consensus size: 18
68894 GAAACCAAAA
*
68904 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
68923 TCGCGTTGCGA--TTC-T
1 TCGCGTTGCGATTTTCTT
*
68938 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
68955 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
68971 T--CG-TGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
68987 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
69006 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
69021 AAGTTTCGTG
Statistics
Matches: 81, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
13 13 0.16
14 2 0.02
15 7 0.09
16 6 0.07
17 7 0.09
18 2 0.02
19 44 0.54
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:68950 original size:32 final size:33
Alignment explanation
Indices: 68909--68999 Score: 150
Period size: 32 Copynumber: 2.8 Consensus size: 33
68899 CAAAATCGCA
68909 TTGCGATTTTCATTTCGCGTTGCGATTC-TTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
**
68941 TTGCGATTTTGGTTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
68974 -TGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
69000 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 50 0.93
33 4 0.07
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
Found at i:69028 original size:20 final size:19
Alignment explanation
Indices: 68939--69036 Score: 93
Period size: 19 Copynumber: 5.4 Consensus size: 19
68929 TGCGATTCTT
*
68939 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
*
68958 CGTTGCGA--TT-CTTT--
1 CGTTGCGATTTTAGTTTCG
68972 CG-TGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
68990 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
69009 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
69029 TGTTGCGA
1 CGTTGCGA
69037 AAGTAAACTA
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
13 5 0.08
14 2 0.03
15 2 0.03
16 6 0.09
17 2 0.03
18 2 0.03
19 34 0.52
20 13 0.20
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:70833 original size:11 final size:12
Alignment explanation
Indices: 70811--70847 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
70801 TGATTCAATA
70811 GTTTAATTGATT
1 GTTTAATTGATT
*
70823 GTTT-TTTGATT
1 GTTTAATTGATT
70834 GTTTAATTGATT
1 GTTTAATTGATT
70846 GT
1 GT
70848 AAAAGTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (12 bp):
GTTTAATTGATT
Found at i:70930 original size:14 final size:14
Alignment explanation
Indices: 70911--70946 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
70901 ATTGTTTAAT
70911 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
70925 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
70939 TGATTTGT
1 TGATTTGT
70947 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:71077 original size:19 final size:19
Alignment explanation
Indices: 71053--71152 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
71043 AAAATTGACT
71053 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
71072 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
71091 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
71105 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
71124 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
71144 ATCGCAATG
1 ATCGCAATG
71153 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:71182 original size:53 final size:53
Alignment explanation
Indices: 71053--71169 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
71043 AAAATTGACT
71053 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
71105 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
71158 ATCGCAATGCGA
1 ATCGCAATGCGA
71170 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:71187 original size:19 final size:19
Alignment explanation
Indices: 71159--71307 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
71149 AATGGGAGAA
* *
71159 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
71178 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
71194 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71211 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
71230 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
71246 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
71263 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
71279 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71296 TCCGCATTGCGA
1 T-CGCATTGCGA
71308 AATGTAATGT
Statistics
Matches: 107, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
14 18 0.17
16 21 0.20
17 19 0.18
18 2 0.02
19 41 0.38
20 6 0.06
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:71222 original size:52 final size:52
Alignment explanation
Indices: 71159--71275 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
71149 AATGGGAGAA
*
71159 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
71211 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
71263 TCGCATTGCGATT
1 TCGCATTGCGATT
71276 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:71253 original size:33 final size:33
Alignment explanation
Indices: 71216--71307 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
71206 TCATTTCGCA
71216 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
71249 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
71282 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
71308 AATGTAATGT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:71254 original size:14 final size:14
Alignment explanation
Indices: 71235--71289 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
71225 TCATTTCGCA
71235 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
71249 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
71266 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
71282 TTGCGATT
1 TTGCGATT
71290 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:71389 original size:19 final size:19
Alignment explanation
Indices: 71365--71461 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
71355 AAAATTGACT
71365 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
71384 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
71403 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
71417 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
71435 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
71455 ATCGCAA
1 ATCGCAA
71462 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.17
19 33 0.48
20 9 0.13
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:71450 original size:52 final size:52
Alignment explanation
Indices: 71365--71480 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
71355 AAAATTGACT
71365 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
71417 ATCGCAATGCGAAATG-AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
71469 ATCGCAATGCGA
1 ATCGCAATGCGA
71481 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 12 0.19
52 51 0.81
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:73797 original size:12 final size:12
Alignment explanation
Indices: 73780--73804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73770 TCTTCGGGGA
73780 CTTTTTCTTCTT
1 CTTTTTCTTCTT
73792 CTTTTTCTTCTT
1 CTTTTTCTTCTT
73804 C
1 C
73805 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:74011 original size:24 final size:24
Alignment explanation
Indices: 73977--74023 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
73967 CTGAAACATC
73977 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
74001 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
74024 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:74956 original size:20 final size:20
Alignment explanation
Indices: 74706--74955 Score: 261
Period size: 20 Copynumber: 12.5 Consensus size: 20
74696 AAATTTCAGT
* * *
74706 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
74726 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
74746 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
74766 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
74786 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
74806 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
74826 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
74846 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
74866 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
74886 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
74906 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
74926 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
74946 GTTGCGATTT
1 GTTGCGATTT
74956 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:74972 original size:21 final size:21
Alignment explanation
Indices: 74942--75024 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
74932 ATTTTCATAT
*
74942 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
74963 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
74984 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
75005 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
75025 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:75015 original size:42 final size:43
Alignment explanation
Indices: 74922--75020 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
74912 ATTTATGTGT
* *
74922 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
74963 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
75005 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
75021 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:79089 original size:65 final size:65
Alignment explanation
Indices: 78936--79145 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 65
78926 TGCACTAAGA
* * * *
78936 GTGCATCGATGCATCAAGTGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGATTG
* *
79000 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGATA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGAT-
79064 T-
64 TG
* * ** ** **
79065 GTGCATCGATGCATGAAATTCATTCGATG--TTCAATTTAATTCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAT-AGCCACAGTGCATCGATGCAT-GAT
79128 TG
64 TG
*
79130 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
79146 CTTTGATAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.37
65 68 0.55
66 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGATTG
Found at i:79444 original size:28 final size:27
Alignment explanation
Indices: 79390--79455 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
79380 ATGTTTTCAA
*
79390 CACATAGGAACACTATGTCCCGAAGGAC
1 CACATA-GAACACTATGTCACGAAGGAC
* *
79418 CACATAGAACACATATGTCATGTAGGAC
1 CACATAGAACAC-TATGTCACGAAGGAC
*
79446 CACGTAGAAC
1 CACATAGAAC
79456 CCTCGACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (27 bp):
CACATAGAACACTATGTCACGAAGGAC
Found at i:81665 original size:30 final size:29
Alignment explanation
Indices: 81629--81698 Score: 113
Period size: 30 Copynumber: 2.4 Consensus size: 29
81619 AACATTCCTC
*
81629 AAATTAAATGTTCAATATAATTTTTTTTTT
1 AAATTAAATGTTCAATATAA-TTTTTTTTA
*
81659 AAATTAAACGTTCAATATAATTTTTTTTA
1 AAATTAAATGTTCAATATAATTTTTTTTA
81688 AAATTAAATGT
1 AAATTAAATGT
81699 CTGAGAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (29 bp):
AAATTAAATGTTCAATATAATTTTTTTTA
Found at i:87746 original size:19 final size:20
Alignment explanation
Indices: 87722--87769 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
87712 AGTAGTGATT
*
87722 TTAATATTATAT-TATTATA
1 TTAATATTATATAAATTATA
87741 TTAATATTGA-ATAAATTATA
1 TTAATATT-ATATAAATTATA
87761 -TAATATTAT
1 TTAATATTAT
87770 TCATTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 17 0.68
20 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAATATTATATAAATTATA
Found at i:88595 original size:41 final size:40
Alignment explanation
Indices: 88466--88605 Score: 104
Period size: 41 Copynumber: 3.4 Consensus size: 40
88456 GGGGTGGTAC
* * *
88466 TAAACAACGCCGCTAATGTTACTATTTTGTGGCGTTTGTATT
1 TAAA-AACGCCACTAATATTACCATTTTGTGGC-TTTGTATT
* * * ** * *
88508 TTAAAACACCACTAATGTATTGACC-TATTACGGCGTT-TATA
1 TAAAAACGCCACTAA--TATT-ACCATTTTGTGGCTTTGTATT
* *
88549 CAAAAACGCCGCTAATATTACCATTTTGTGGCTTTTGTATT
1 TAAAAACGCCACTAATATTACCATTTTGTGGC-TTTGTATT
88590 TAAAAACGCCACTAAT
1 TAAAAACGCCACTAAT
88606 GTTATGATCT
Statistics
Matches: 71, Mismatches: 21, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
38 3 0.04
39 10 0.14
40 2 0.03
41 40 0.56
42 5 0.07
43 9 0.13
44 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (40 bp):
TAAAAACGCCACTAATATTACCATTTTGTGGCTTTGTATT
Found at i:95064 original size:30 final size:29
Alignment explanation
Indices: 95008--95064 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
94998 ATATTCAACG
*
95008 TTTTATTTTAGGGTAAAAATGCTCATAAC
1 TTTTATTTTAGGGTAAAAATACTCATAAC
* *
95037 TTTTCATTTTAGGTTAAAAATATTCATA
1 TTTT-ATTTTAGGGTAAAAATACTCATA
95065 TTTTTTAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (29 bp):
TTTTATTTTAGGGTAAAAATACTCATAAC
Found at i:95880 original size:22 final size:22
Alignment explanation
Indices: 95855--95896 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95845 ATAATCTTAT
95855 AATTAATCTAAACTAT-TTAAAA
1 AATTAAT-TAAACTATCTTAAAA
*
95877 AATTAATTAACCTATCTTAA
1 AATTAATTAAACTATCTTAA
95897 TTTTCCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAATTAAACTATCTTAAAA
Found at i:104351 original size:18 final size:18
Alignment explanation
Indices: 104310--104352 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
104300 ATCATATACT
*
104310 TTTATATCATCATGTATA
1 TTTATAACATCATGTATA
*
104328 TATATAACAT-ATGTAATA
1 TTTATAACATCATGT-ATA
104346 TTTATAA
1 TTTATAA
104353 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTATAACATCATGTATA
Found at i:105610 original size:60 final size:59
Alignment explanation
Indices: 105509--105664 Score: 152
Period size: 60 Copynumber: 2.6 Consensus size: 59
105499 GATGAAACTG
* ** * *
105509 AAATATTCAAAAGTTTGGGGACCAATTTAAAAAGAGGGTCATAGTTT-AGGGATAAAATT
1 AAATCTTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAGTTTGA-GGATAAAATT
* * * * ** *
105568 AGAATGTTCAAAAGTTTAAGGACTAGTTTAGAATGAGAGTCATAGTTTGAGTCTCAAATT
1 A-AATCTTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAGTTTGAGGATAAAATT
* * *
105628 AAATCTTCAAAAATTTAAGGACTAATCTAAAATGAGA
1 AAATCTTCAAAAGTTTAAGGACTAATTTAAAAAGAGA
105665 ATTATAAGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 32 0.41
60 46 0.58
61 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.30
Consensus pattern (59 bp):
AAATCTTCAAAAGTTTAAGGACTAATTTAAAAAGAGAGTCATAGTTTGAGGATAAAATT
Found at i:106100 original size:56 final size:57
Alignment explanation
Indices: 106035--106142 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 57
106025 ATGTAAAATC
* **
106035 TAATAAATTAATAATTTAAT-ATATTTCTTATTATTTGTTAGAATATTAATAAAATAT
1 TAATAAATTAATAATTT-ATCATACTTCTTATTATTTACTAGAATATTAATAAAATAT
*
106092 TAAT-AATTAATAATTTATCATACTTCTTATTATTTACTAGCATATTAATAA
1 TAATAAATTAATAATTTATCATACTTCTTATTATTTACTAGAATATTAATAA
106143 TTATTAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 2 0.04
56 40 0.87
57 4 0.09
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (57 bp):
TAATAAATTAATAATTTATCATACTTCTTATTATTTACTAGAATATTAATAAAATAT
Found at i:106450 original size:163 final size:164
Alignment explanation
Indices: 106132--106458 Score: 532
Period size: 163 Copynumber: 2.0 Consensus size: 164
106122 TATTTACTAG
106132 CATATTAATAATTATTAACTAGACTTTTTTTAATGAAATAATTTTAAAGGTAATTAATAAAAAAA
1 CATATTAATAATTATTAACTAGACTTTTTTTAATGAAATAATTTTAAAGGTAATTAATAAAAAAA
* *
106197 TTATAAAATAAATTAACCAATCGCTCACGATCTTATCGAGTCGAGTTGAAATTTATTCGAATCAA
66 TTATAAAATAAATTAACCAATCACTCACGATCTTATCAAGTCGAGTTGAAATTTATTCGAATCAA
106262 CTCGTTAAGGACTTGAGTAGAACTCGAATTCGAA
131 CTCGTTAAGGACTTGAGTAGAACTCGAATTCGAA
* *
106296 CATATTAATAATTATTAACTATACTTTTTTTAATGAAATAATTTTTAAGGTAATTAAT-AAAAAA
1 CATATTAATAATTATTAACTAGACTTTTTTTAATGAAATAATTTTAAAGGTAATTAATAAAAAAA
* * * * *
106360 TTATAAAATAAATTATCGAATTACTCACGGTCTTATCAAGTCGAGTTGAAATTTATTCGAATTAA
66 TTATAAAATAAATTAACCAATCACTCACGATCTTATCAAGTCGAGTTGAAATTTATTCGAATCAA
* *
106425 CTTGTTAA-GATCTTGAGTCGAACTCGAATTCGAA
131 CTCGTTAAGGA-CTTGAGTAGAACTCGAATTCGAA
106459 TCGAGTCAAC
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
162 2 0.01
163 93 0.62
164 56 0.37
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (164 bp):
CATATTAATAATTATTAACTAGACTTTTTTTAATGAAATAATTTTAAAGGTAATTAATAAAAAAA
TTATAAAATAAATTAACCAATCACTCACGATCTTATCAAGTCGAGTTGAAATTTATTCGAATCAA
CTCGTTAAGGACTTGAGTAGAACTCGAATTCGAA
Found at i:109939 original size:29 final size:29
Alignment explanation
Indices: 109906--109964 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
109896 ATAATATGTA
** *
109906 TTATCACTGCATTAAAGTACTTGTTGGTT
1 TTATCACTGCATTAAAACACTAGTTGGTT
109935 TTATCACTGCATTAAAACACTAGTTGGTT
1 TTATCACTGCATTAAAACACTAGTTGGTT
109964 T
1 T
109965 GAGGTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (29 bp):
TTATCACTGCATTAAAACACTAGTTGGTT
Found at i:118578 original size:24 final size:24
Alignment explanation
Indices: 118533--118579 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
118523 CATGATGAGT
**
118533 AAAGTACACAAGAGGTTGTTAAAA
1 AAAGTACACAAGAGGTCATTAAAA
118557 AAAGTACACAAGAGGTCATTAAA
1 AAAGTACACAAGAGGTCATTAAA
118580 TTATGCTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (24 bp):
AAAGTACACAAGAGGTCATTAAAA
Found at i:120294 original size:14 final size:14
Alignment explanation
Indices: 120277--120304 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
120267 ACATGGTCAC
120277 TATATAATGGACCT
1 TATATAATGGACCT
120291 TATATAATGGACCT
1 TATATAATGGACCT
120305 AAAGTGTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
TATATAATGGACCT
Found at i:138392 original size:186 final size:187
Alignment explanation
Indices: 138066--138575 Score: 502
Period size: 187 Copynumber: 2.7 Consensus size: 187
138056 AATGTAGACA
* * *
138066 TATATTAAATTATGTAAATCGGATAA-TTTTTCAAGTTAAAATGTAAAAAAGATATCATTAGTGA
1 TATAATAAATTATGTAAATCAGATAACTTTTT-AA-TTAAAACGT-AAAAAGATATCATTAGTGA
* * **
138130 TAAATTTTATTCAATTGAAAAATTCATGTAACATTTTTTGTTGTAATTGAATTATTATTAAATAT
63 TAAATTTTATTCAATTGAAAAATTCATATAACATTATAAGTTGTAATTGAATTATTATTAAATAT
* * *
138195 GTAACTTTTTAGAGTGAATCA-GATGACATTTTTGATT-G-G-AACAAAAAATATTGCATTGTC
128 GTAACTTTTTAGAGT-AAACATGATAACATTTTT--TTGGCGAAAC-AAAAATATTACATTGTC
*
138255 TATAATAAATTATGTAAATCATG-TAACTTTTTAATTAAAACGTAAAAAGATATCATTTGTCG-T
1 TATAATAAATTATGTAAATCA-GATAACTTTTTAATTAAAACGTAAAAAGATATCATTAGT-GAT
* * *
138318 AAGTTTTATTCAATT-AAGAAATT-ATATAATATTATAAGTTGTAATTGAAATT-TTATTAAATG
64 AAATTTTATTCAATTGAA-AAATTCATATAACATTATAAGTTGTAATTG-AATTATTATTAAATA
* * * *
138380 TGTAATTTTTTAGAGTAAACATGATAACATTTTTTTGGCCGAAACCAAAATTTTATATTGTC
127 TGTAACTTTTTAGAGTAAACATGATAACATTTTTTTGG-CGAAACAAAAATATTACATTGTC
* * * * * * * *
138442 CATAATAAATTCTATAAATCAGATAACTTTTTAGATAAAAACGTAAAAAGATACCATCAATAATA
1 TATAATAAATTATGTAAATCAGATAACTTTTTA-ATTAAAACGTAAAAAGATATCATTAGTGATA
* * * * * * * *
138507 AATTGTATTCAA-TCAAAAATTCATGTAACATTATAGGCTATAACTGAAATTATTATCAAATATG
65 AATTTTATTCAATTGAAAAATTCATATAACATTATAAGTTGTAATTG-AATTATTATTAAATATG
138571 ATAAC
129 -TAAC
138576 ATTATAACAT
Statistics
Matches: 266, Mismatches: 38, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
184 2 0.01
185 5 0.02
186 57 0.21
187 88 0.33
188 71 0.27
189 34 0.13
190 9 0.03
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (187 bp):
TATAATAAATTATGTAAATCAGATAACTTTTTAATTAAAACGTAAAAAGATATCATTAGTGATAA
ATTTTATTCAATTGAAAAATTCATATAACATTATAAGTTGTAATTGAATTATTATTAAATATGTA
ACTTTTTAGAGTAAACATGATAACATTTTTTTGGCGAAACAAAAATATTACATTGTC
Found at i:140847 original size:30 final size:29
Alignment explanation
Indices: 140812--140873 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
140802 CTGAGGCGAT
140812 TTTTCCAAT-AAATCACCCTTTCAAACTTTA
1 TTTTCCAATCAAA-CACCCTTTCAAA-TTTA
* * *
140842 TTTTCCTATCAGACACCCTTTCATATTTA
1 TTTTCCAATCAAACACCCTTTCAAATTTA
140871 TTT
1 TTT
140874 CTCAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.25
30 19 0.68
31 2 0.07
ACGTcount: A:0.27, C:0.26, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTTCCAATCAAACACCCTTTCAAATTTA
Found at i:151501 original size:191 final size:189
Alignment explanation
Indices: 151177--151565 Score: 733
Period size: 191 Copynumber: 2.0 Consensus size: 189
151167 AAGCTACCTC
*
151177 GATTTTCAGTTCCCACTGTAGCCTCGAGATCACTTACTTTACTCCCCATTGCCTTGCATTCCTCA
1 GATTTTCAATTCCCACTGTAGCCTCGAGATCACTTACTTTACTCCCCATTGCCTTGCATTCCTCA
151242 TATTTTTCTCCCACTTTAGACGATAAGTTTTCAACCCCATATTTTTCTTTCAAAAACTCTTCAAA
66 TATTTTTCTCCCACTTTAGACGATAAGTTTTCAACCCCATATTTTTCTTTCAAAAACTCTTCAAA
151307 GTTCAAAGATCTTCACTACAACATTTACCTCTGAACAGTTTCTGGACGTGAAATCTCCGCT
131 GTTCAAAGATCTTCACTACAACATTTA-C-CTGAACAGTTTCTGGACGTGAAATCTCCGCT
151368 GATTTTCAATTCCCACTGTAGCCTCGAGATCACTTACTTTACTCCCCATTGCCTTGCATTCCTCA
1 GATTTTCAATTCCCACTGTAGCCTCGAGATCACTTACTTTACTCCCCATTGCCTTGCATTCCTCA
151433 TATTTTTCTCCCACTTTAGACGATAAGTTTTCAACCCCATATTTTTCTTTCAAAAACTCTTCAAA
66 TATTTTTCTCCCACTTTAGACGATAAGTTTTCAACCCCATATTTTTCTTTCAAAAACTCTTCAAA
*
151498 GTTCAAAGTTCTTCACTACAACATTTACCTGAACAGTTTCTGGACGTGAAATCTCCGCT
131 GTTCAAAGATCTTCACTACAACATTTACCTGAACAGTTTCTGGACGTGAAATCTCCGCT
151557 GATTCTTCA
1 GATT-TTCA
151566 TCGGAAGTAC
Statistics
Matches: 195, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
189 35 0.18
190 5 0.03
191 155 0.79
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.37
Consensus pattern (189 bp):
GATTTTCAATTCCCACTGTAGCCTCGAGATCACTTACTTTACTCCCCATTGCCTTGCATTCCTCA
TATTTTTCTCCCACTTTAGACGATAAGTTTTCAACCCCATATTTTTCTTTCAAAAACTCTTCAAA
GTTCAAAGATCTTCACTACAACATTTACCTGAACAGTTTCTGGACGTGAAATCTCCGCT
Found at i:152607 original size:42 final size:42
Alignment explanation
Indices: 152532--152628 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
152522 CAAGTGCCCC
*
152532 TAATAGTAATGATATATAGTGGCATTCTCACCCAAATGTTGT
1 TAATAGTAATGATATATAGTGGCATTCTCACCCAAATGTCGT
* * * *
152574 TAATAGTAAT-ATATATATTGGCCTTTTTTACCCAAATGTCGT
1 TAATAGTAATGATATATAGTGG-CATTCTCACCCAAATGTCGT
*
152616 TAATAGTCATGAT
1 TAATAGTAATGAT
152629 TTGTAGCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 10 0.21
42 35 0.74
43 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (42 bp):
TAATAGTAATGATATATAGTGGCATTCTCACCCAAATGTCGT
Found at i:153548 original size:20 final size:20
Alignment explanation
Indices: 153503--153580 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 20
153493 GCATGGGTAG
153503 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
153527 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
153547 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
* *
153567 TGTATCAATGCACT
1 TGCATCGATGCACT
153581 TCAAGGGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 36 0.69
22 1 0.02
23 2 0.04
24 13 0.25
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:154713 original size:21 final size:21
Alignment explanation
Indices: 154688--154727 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
154678 TTCTATGTGT
**
154688 TATATGAAGTATATATGATCA
1 TATATGAACAATATATGATCA
154709 TATATGAACAATATATGAT
1 TATATGAACAATATATGAT
154728 ATGTATGTTT
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:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
TATATGAACAATATATGATCA
Found at i:155187 original size:23 final size:23
Alignment explanation
Indices: 155136--155197 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
155126 GATATTTTAT
* *
155136 ATGGCACTTTGGTGTAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
155159 ACGGCACATCGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
155182 GTGGCACTTCGATGCA
1 ATGGCACTTCGGTGCA
155198 TTTATACGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:155205 original size:23 final size:23
Alignment explanation
Indices: 155161--155205 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
155151 AATTCTACAC
* *
155161 GGCACATCGGTGCAATTCTACGT
1 GGCACATCGATGCAATTATACGT
* *
155184 GGCACTTCGATGCATTTATACG
1 GGCACATCGATGCAATTATACG
155206 AGTTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACATCGATGCAATTATACGT
Found at i:157417 original size:32 final size:31
Alignment explanation
Indices: 157375--157477 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 31
157365 AGAGTCGAGG
*
157375 GTTTACCTATGTTTTACGGAATATATGGACA
1 GTTTACCTATGTTTTACGGAACATATGGACA
* *
157406 GTTTTACCTATGTCTTT-C-GAGACATATGAATA
1 G-TTTACCTATGT-TTTACGGA-ACATATGGACA
* * *
157438 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTTTACGGAACATATGGACA
157469 GTTTACCTA
1 GTTTACCTA
157478 GGTTCTTTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
30 2 0.03
31 30 0.52
32 23 0.40
33 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTTTACGGAACATATGGACA
Found at i:157521 original size:30 final size:29
Alignment explanation
Indices: 157461--157555 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
157451 CTAAGGAACA
* *
157461 TATGGACAGTTTACCTAGGTTCTTTGGACC
1 TATGGACAG-TTACCGAGGTTCTTTTGACC
*
157491 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTT-TGACC
* * *
157521 TCTGGATAGTTACCG-GGGTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTT-TGACC
*
157550 TCTGGA
1 TATGGA
157556 TAGGTCCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 31 0.55
30 25 0.45
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (29 bp):
TATGGACAGTTACCGAGGTTCTTTTGACC
Found at i:157734 original size:35 final size:36
Alignment explanation
Indices: 157694--157769 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 36
157684 GTGATGTATG
*
157694 TATGTGT-TTTGTGATATGAAT-TATATGATAT-GATA
1 TATGTGTGTTAGTGAT-T-AATGTATATGATATAGATA
*
157729 TATGTGTGTTAGTGATTATTGTATATGATATAAGATA
1 TATGTGTGTTAGTGATTAATGTATATGATAT-AGATA
157766 TATG
1 TATG
157770 ATATGAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
34 2 0.06
35 18 0.51
36 7 0.20
37 8 0.23
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (36 bp):
TATGTGTGTTAGTGATTAATGTATATGATATAGATA
Found at i:161269 original size:63 final size:62
Alignment explanation
Indices: 161180--161343 Score: 172
Period size: 63 Copynumber: 2.6 Consensus size: 62
161170 AGAAATTGTT
* *
161180 CAGTGTGTATCGATGCA-CAGGAAGTGCATCGATGCACCAATTAAAAATGGAAACATCGAA-TG
1 CAGTGTGTATCGATGCATAAGG-AGTGCATCGATGCACCAATT-AAAATGAAAACATCGAAGTG
* **
161242 CAGTAGTGCATCGATGCATAAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAAGGTG
1 CAGT-GTGTATCGATGCATAAGGAGTGCATCGATGCA-CCAATTAAAATGAAAACATCGAA-GTG
* ** *
161307 -ATTTGTGTATCGATGCATGTGTAGTGCATCGATGCAC
1 CA-GTGTGTATCGATGCATAAGGAGTGCATCGATGCAC
161344 ATGTTAAAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
62 4 0.05
63 43 0.50
64 36 0.42
65 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (62 bp):
CAGTGTGTATCGATGCATAAGGAGTGCATCGATGCACCAATTAAAATGAAAACATCGAAGTG
Found at i:161381 original size:20 final size:20
Alignment explanation
Indices: 161315--161388 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
161305 TGATTTGTGT
* *
161315 ATCGATGCA-TGTGTAGTGC
1 ATCGATGCACTGTATAATGC
*
161334 ATCGATGCACATGTTAAAGAATGC
1 ATCGATGCAC-TG-T--ATAATGC
*
161358 ATCGATGCACTGTATAATGT
1 ATCGATGCACTGTATAATGC
*
161378 ATCGATACACT
1 ATCGATGCACT
161389 TCAAGGGGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.20
20 15 0.34
21 2 0.05
22 2 0.05
23 2 0.05
24 14 0.32
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (20 bp):
ATCGATGCACTGTATAATGC
Found at i:163000 original size:23 final size:23
Alignment explanation
Indices: 162932--162992 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
162922 ACATTTTATA
* *
162932 TGGCACTTTGGTGCAATTCTACA
1 TGGCACTTCGGTGCAATTCTACG
*
162955 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
162978 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
162993 TTTATACGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:164493 original size:42 final size:41
Alignment explanation
Indices: 164424--164723 Score: 106
Period size: 40 Copynumber: 7.5 Consensus size: 41
164414 GTTTGATTCC
** *
164424 CTAAAGTGCATGATTATTGCGGCGTTTATTACAAAAACGTCG
1 CTAAAGTGCATGATTATTGCAACGTTTA-TAAAAAAACGTCG
* * *
164466 CTAATGTGCATGATTATTGCAATGTTTATAAAAAAACATCG
1 CTAAAGTGCATGATTATTGCAACGTTTATAAAAAAACGTCG
* ** * * *** * * *
164507 TTATGGTGCATAACTATTGGGGCGTTTACTGTAAAAAAAAATGCCA
1 CTAAAGTGCATGATTATTGCAACGTTTA---T--AAAAAAACGTCG
* *
164553 CTAAAGTTCAT--TTATT---AC----A-AAAAAAA--TCA
1 CTAAAGTGCATGATTATTGCAACGTTTATAAAAAAACGTCG
* *** * * ** *
164582 CTAAAGTGCATGACTATTGTTGCATTTATTACAAAAACACCA
1 CTAAAGTGCATGATTATTGCAACGTTTA-TAAAAAAACGTCG
* * * * *
164624 CTAAAGTGCATGACTATTACGACGTTTAT-AAAAAACGCCA
1 CTAAAGTGCATGATTATTGCAACGTTTATAAAAAAACGTCG
* *
164664 CTAAAGTGCATGATTATTGCAGCGTTTAT-AAAAAACGCCG
1 CTAAAGTGCATGATTATTGCAACGTTTATAAAAAAACGTCG
* *
164704 CTAAAGTGTATGACTATTGC
1 CTAAAGTGCATGATTATTGC
164724 GGTGTTTATT
Statistics
Matches: 195, Mismatches: 45, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
29 12 0.06
31 11 0.06
34 1 0.01
37 1 0.01
38 1 0.01
40 68 0.35
41 32 0.16
42 49 0.25
44 5 0.03
46 15 0.08
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (41 bp):
CTAAAGTGCATGATTATTGCAACGTTTATAAAAAAACGTCG
Found at i:164517 original size:41 final size:42
Alignment explanation
Indices: 164424--164506 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
164414 GTTTGATTCC
* ** * *
164424 CTAAAGTGCATGATTATTGCGGCGTTTATTACAAAAACGTCG
1 CTAATGTGCATGATTATTGCAACGTTTATTAAAAAAACATCG
*
164466 CTAATGTGCATGATTATTGCAATGTTTA-TAAAAAAACATCG
1 CTAATGTGCATGATTATTGCAACGTTTATTAAAAAAACATCG
164507 TTATGGTGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 11 0.31
42 24 0.69
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (42 bp):
CTAATGTGCATGATTATTGCAACGTTTATTAAAAAAACATCG
Found at i:164731 original size:40 final size:40
Alignment explanation
Indices: 164580--164732 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
164570 CAAAAAAAAT
** * *
164580 CACTAAAGTGCATGACTATTGTTGCATTTATTACAAAAACAC
1 CACTAAAGTGCATGACTATTGCGGCGTTTA-TA-AAAAACGC
* *
164622 CACTAAAGTGCATGACTATTACGACGTTTATAAAAAACGC
1 CACTAAAGTGCATGACTATTGCGGCGTTTATAAAAAACGC
* *
164662 CACTAAAGTGCATGATTATTGCAGCGTTTATAAAAAACGC
1 CACTAAAGTGCATGACTATTGCGGCGTTTATAAAAAACGC
* * *
164702 CGCTAAAGTGTATGACTATTGCGGTGTTTAT
1 CACTAAAGTGCATGACTATTGCGGCGTTTAT
164733 TACAAAAGCG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 69 0.72
41 2 0.02
42 25 0.26
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (40 bp):
CACTAAAGTGCATGACTATTGCGGCGTTTATAAAAAACGC
Found at i:176579 original size:193 final size:196
Alignment explanation
Indices: 176249--176635 Score: 681
Period size: 193 Copynumber: 2.0 Consensus size: 196
176239 TAACATTTTT
*
176249 TGTATTCTCAGGTCAGAGCTGAGAGGCAAGTTCTTGTCGAAGATTACGACAGGGGAAGGGCTGTT
1 TGTATTCTCAGGTCAGAGCTGAGAGGCAAGTTCTTGTCGAAGATTACAACAGGGGAAGGGCTGTT
*
176314 GCATTTGATCGAAGAATACAGAATGTGTTGGAGGTTTTCACCTTAGATGGATTTAAAATGCAAGT
66 GCATTTGATCGAAGAATACAGAACGTGTTGGAGGTTTTCACCTTAGATGGATTTAAAATGCAAGT
* *
176379 GGAGAACTAATTTCATTTGTTGTTTCATGT-TCATCC-TTTTTAAAAAAGTTACTTGGTATGTTT
131 CGAGAACTAATTTCATATGTTGTTTCATGTCTCATCCTTTTTTAAAAAAGTTACTTGGTATGTTT
176442 A
196 A
*
176443 TGTATTCTCAGGTCAGAGCTGAGAGGCAAGTT-TTGTTGAAGATTACAACAGGGGAAGGGCTGTT
1 TGTATTCTCAGGTCAGAGCTGAGAGGCAAGTTCTTGTCGAAGATTACAACAGGGGAAGGGCTGTT
*
176507 GCATTTGATCGAAGAATACAGAACGTGTTGGAGGTTTTCACCTTAGATGGATTTAAAATGTAAGT
66 GCATTTGATCGAAGAATACAGAACGTGTTGGAGGTTTTCACCTTAGATGGATTTAAAATGCAAGT
* *
176572 CGAGAACTAATTTTATATGTTGTTTCATGTCTCATCCTTTTTTAAAAAAGTTATTTGGTATGTT
131 CGAGAACTAATTTCATATGTTGTTTCATGTCTCATCCTTTTTTAAAAAAGTTACTTGGTATGTT
176636 CATTATTGTC
Statistics
Matches: 183, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
193 120 0.66
194 38 0.21
195 25 0.14
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (196 bp):
TGTATTCTCAGGTCAGAGCTGAGAGGCAAGTTCTTGTCGAAGATTACAACAGGGGAAGGGCTGTT
GCATTTGATCGAAGAATACAGAACGTGTTGGAGGTTTTCACCTTAGATGGATTTAAAATGCAAGT
CGAGAACTAATTTCATATGTTGTTTCATGTCTCATCCTTTTTTAAAAAAGTTACTTGGTATGTTT
A
Found at i:177849 original size:187 final size:185
Alignment explanation
Indices: 177530--177894 Score: 606
Period size: 187 Copynumber: 2.0 Consensus size: 185
177520 GCCAATTACA
* * * *
177530 TGTAGGCCCTTGTTGAACTTAGTTACATGTATTAGGGATTAAGGGGTATTGTCTCACACCTATGA
1 TGTAGACCCTTGTTAAACTTAGTTACATGTACTAGGGATTAAGAGGTATTGTCTCACACCTATGA
*
177595 AGTATTTAGGTTTTTTTGGTCTTATATTCAAGTTCGGCTCCACCGCCCAGTATCGATTGGTTTTA
66 AGTATTTAGGTTTTTTTGGCCTTATATTCAAGTTCGGCTCCACCGCCCAGTATCGATTGGTTTTA
177660 GGTTGGATGCACAACACTTTTTTCCTTCTGTTTAAAATTCTTTTTCAATCTTTCG
131 GGTTGGATGCACAACACTTTTTTCCTTCTGTTTAAAATTCTTTTTCAATCTTTCG
*
177715 TGTAGACCCTTGTTAAACTTAGTTACATGTACTAGGGAGTGTTAAGAGGTATTGTCTCACGCCTA
1 TGTAGACCCTTGTTAAACTTAGTTACATGTACTAGGGA---TTAAGAGGTATTGTCTCACACCTA
* * *
177780 TGAAGTATTTAGG-TTTTTTGGCCTTATATTTATGTTCGGCTCCACCGCCCATTATCGATTGGTT
63 TGAAGTATTTAGGTTTTTTTGGCCTTATATTCAAGTTCGGCTCCACCGCCCAGTATCGATTGGTT
*
177844 TTAGGTTGGATGCATAACACTTTTTTCCTTCTGTTTAAAATTCTTTTTCAA
128 TTAGGTTGGATGCACAACACTTTTTTCCTTCTGTTTAAAATTCTTTTTCAA
177895 GTTTAATAAT
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
185 35 0.21
187 97 0.58
188 35 0.21
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (185 bp):
TGTAGACCCTTGTTAAACTTAGTTACATGTACTAGGGATTAAGAGGTATTGTCTCACACCTATGA
AGTATTTAGGTTTTTTTGGCCTTATATTCAAGTTCGGCTCCACCGCCCAGTATCGATTGGTTTTA
GGTTGGATGCACAACACTTTTTTCCTTCTGTTTAAAATTCTTTTTCAATCTTTCG
Found at i:179510 original size:22 final size:22
Alignment explanation
Indices: 179481--179546 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
179471 TGCCTTACCT
179481 CAAGGCTTTTTTAAGGTTGCTA
1 CAAGGCTTTTTTAAGGTTGCTA
* * * *
179503 GAAGGCTTTTTTAAGCTT-TTT
1 CAAGGCTTTTTTAAGGTTGCTA
179524 CAAGGCTTTTTTTAAGGTTGCTA
1 CAAGGC-TTTTTTAAGGTTGCTA
179547 TATTGCAGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 6 0.18
22 27 0.79
23 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (22 bp):
CAAGGCTTTTTTAAGGTTGCTA
Found at i:179522 original size:10 final size:11
Alignment explanation
Indices: 179482--179540 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
179472 GCCTTACCTC
179482 AAGGCTTTTTT
1 AAGGCTTTTTT
* **
179493 AAGG-TTGCTAG
1 AAGGCTT-TTTT
179504 AAGGCTTTTTT
1 AAGGCTTTTTT
*
179515 AA-GCTTTTTC
1 AAGGCTTTTTT
179525 AAGGCTTTTTTT
1 AAGGC-TTTTTT
179537 AAGG
1 AAGG
179541 TTGCTATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
10 11 0.31
11 14 0.39
12 11 0.31
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (11 bp):
AAGGCTTTTTT
Found at i:184937 original size:30 final size:29
Alignment explanation
Indices: 184903--185001 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 29
184893 GAAGCTTTTC
184903 AGAAAGCATAGGAGAAACTAATAGAGAGAG
1 AGAAAGCATAGGAGAAACTAA-AGAGAGAG
* **
184933 AGAAAGAGATAAATAATGCAGAA-TAAAGAGAGAAAG
1 AGAAAG-CAT--AGGA-G-A-AACTAAAGAGAG--AG
184969 AGAAAGCATAGGAGAAACTAACAGAGAGAG
1 AGAAAGCATAGGAGAAACTAA-AGAGAGAG
184999 AGA
1 AGA
185002 GAGAGAGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 20
0.67 0.08 0.25
Matches are distributed among these distances:
30 13 0.25
31 6 0.11
32 7 0.13
33 4 0.08
34 7 0.13
35 6 0.11
36 10 0.19
ACGTcount: A:0.57, C:0.06, G:0.28, T:0.09
Consensus pattern (29 bp):
AGAAAGCATAGGAGAAACTAAAGAGAGAG
Found at i:190412 original size:18 final size:19
Alignment explanation
Indices: 190386--190422 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
190376 TTTTCATGGC
190386 AGTACTTGTTT-GATTTTT
1 AGTACTTGTTTGGATTTTT
*
190404 AGTATTTGTTTGGATTTTT
1 AGTACTTGTTTGGATTTTT
190423 GTGATGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.16, C:0.03, G:0.19, T:0.62
Consensus pattern (19 bp):
AGTACTTGTTTGGATTTTT
Found at i:192877 original size:22 final size:23
Alignment explanation
Indices: 192833--192884 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
192823 CTTCTAAACG
192833 AGCTTGCTCATAAACCTATAAATA
1 AGCTTGCTCATAAA-CTATAAATA
192857 AGCTTGCTCATAAA-TATAAATA
1 AGCTTGCTCATAAACTATAAATA
192879 AGCTTG
1 AGCTTG
192885 TTCGTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 14 0.50
24 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (23 bp):
AGCTTGCTCATAAACTATAAATA
Found at i:192897 original size:22 final size:22
Alignment explanation
Indices: 192833--192898 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
192823 CTTCTAAACG
192833 AGCTTGCTCATAAACCTATAAATA
1 AGCTTGCTCATAAA-C-ATAAATA
*
192857 AGCTTGCTCATAAATATAAATA
1 AGCTTGCTCATAAACATAAATA
* * *
192879 AGCTTGTTCGTTAACATAAA
1 AGCTTGCTCATAAACATAAA
192899 CAAATCGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 23 0.62
24 14 0.38
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (22 bp):
AGCTTGCTCATAAACATAAATA
Found at i:193365 original size:2 final size:2
Alignment explanation
Indices: 193358--193499 Score: 64
Period size: 2 Copynumber: 72.0 Consensus size: 2
193348 TTTGTCACTG
* *
193358 TA TA TA TA TA -A GTA TA TA T- TA TA -A TA CA CA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
193398 TG TA CTT TA TA CT- TA TA TG TG TG TA TA TA TA TA TA TA T- TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * **
193440 -A TA TA TA CT- TA TA TA TA TT TA TG TA CA TA CA TCA TA CG TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
*
193482 TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA
193500 GCTTATACTT
Statistics
Matches: 106, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
1 7 0.07
2 93 0.88
3 6 0.06
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:194176 original size:27 final size:27
Alignment explanation
Indices: 194138--194199 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
194128 ACATCGATCC
*
194138 GAACTGAAATTAACCCGACCTAAACTT
1 GAACTGAAATTAACCCGACCTAAACCT
*
194165 GAACTGAAATTAACCCGACCTGAACCT
1 GAACTGAAATTAACCCGACCTAAACCT
194192 GAACTGAA
1 GAACTGAA
194200 TATGATGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (27 bp):
GAACTGAAATTAACCCGACCTAAACCT
Found at i:194636 original size:2 final size:2
Alignment explanation
Indices: 194629--194663 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
194619 ACAATTTTAG
194629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
194664 CTAATTGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:198812 original size:33 final size:33
Alignment explanation
Indices: 198769--198840 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
198759 ATAAAGAACA
198769 AAAACCAAAATGCAGAATGAGAATTCTCTAATAT
1 AAAA-CAAAATGCAGAATGAGAATTCTCTAATAT
198803 AAAACAAAATGCAGAATGAGAATTCTCTAATAT
1 AAAACAAAATGCAGAATGAGAATTCTCTAATAT
198836 AAAAC
1 AAAAC
198841 TTCATTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 34 0.89
34 4 0.11
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (33 bp):
AAAACAAAATGCAGAATGAGAATTCTCTAATAT
Found at i:199655 original size:242 final size:242
Alignment explanation
Indices: 199230--199718 Score: 978
Period size: 242 Copynumber: 2.0 Consensus size: 242
199220 ACAGTGTTAA
199230 TAATAGCAGATTCAGCGAAATCCACATCAACACTTTAACAGCAGCAGTTGAAAGTGTTATCAATT
1 TAATAGCAGATTCAGCGAAATCCACATCAACACTTTAACAGCAGCAGTTGAAAGTGTTATCAATT
199295 TGAACCTACTAATAACATTATAAAAATTAGAGGGACCAAATTACTCCAAATTAAAATAGAAGGAT
66 TGAACCTACTAATAACATTATAAAAATTAGAGGGACCAAATTACTCCAAATTAAAATAGAAGGAT
199360 TAAATCTCCTATACCCATAATTAGACCAATTATATTACATTAAGAAACAGAACTTGATATTGACA
131 TAAATCTCCTATACCCATAATTAGACCAATTATATTACATTAAGAAACAGAACTTGATATTGACA
199425 GCACAGTACAAACATAACAGTAATATTGCAGGTTGCAGAATGCCAAG
196 GCACAGTACAAACATAACAGTAATATTGCAGGTTGCAGAATGCCAAG
199472 TAATAGCAGATTCAGCGAAATCCACATCAACACTTTAACAGCAGCAGTTGAAAGTGTTATCAATT
1 TAATAGCAGATTCAGCGAAATCCACATCAACACTTTAACAGCAGCAGTTGAAAGTGTTATCAATT
199537 TGAACCTACTAATAACATTATAAAAATTAGAGGGACCAAATTACTCCAAATTAAAATAGAAGGAT
66 TGAACCTACTAATAACATTATAAAAATTAGAGGGACCAAATTACTCCAAATTAAAATAGAAGGAT
199602 TAAATCTCCTATACCCATAATTAGACCAATTATATTACATTAAGAAACAGAACTTGATATTGACA
131 TAAATCTCCTATACCCATAATTAGACCAATTATATTACATTAAGAAACAGAACTTGATATTGACA
199667 GCACAGTACAAACATAACAGTAATATTGCAGGTTGCAGAATGCCAAG
196 GCACAGTACAAACATAACAGTAATATTGCAGGTTGCAGAATGCCAAG
199714 TAATA
1 TAATA
199719 TTGCAATAGT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
242 247 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (242 bp):
TAATAGCAGATTCAGCGAAATCCACATCAACACTTTAACAGCAGCAGTTGAAAGTGTTATCAATT
TGAACCTACTAATAACATTATAAAAATTAGAGGGACCAAATTACTCCAAATTAAAATAGAAGGAT
TAAATCTCCTATACCCATAATTAGACCAATTATATTACATTAAGAAACAGAACTTGATATTGACA
GCACAGTACAAACATAACAGTAATATTGCAGGTTGCAGAATGCCAAG
Found at i:211374 original size:21 final size:21
Alignment explanation
Indices: 211348--211414 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 21
211338 CAATATTTAG
211348 TCCGTTTGCAATATGGTCCCC
1 TCCGTTTGCAATATGGTCCCC
* * ** ***
211369 TCCG-TTACACTACCGT-TAG
1 TCCGTTTGCAATATGGTCCCC
211388 TCCGTTTGCAATATGGTCCCC
1 TCCGTTTGCAATATGGTCCCC
211409 TCCGTT
1 TCCGTT
211415 ACACTACCGT
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
19 4 0.13
20 16 0.53
21 10 0.33
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (21 bp):
TCCGTTTGCAATATGGTCCCC
Found at i:211399 original size:40 final size:40
Alignment explanation
Indices: 211344--211445 Score: 195
Period size: 40 Copynumber: 2.5 Consensus size: 40
211334 CCTCCAATAT
211344 TTAGTCCGTTTGCAATATGGTCCCCTCCGTTACACTACCG
1 TTAGTCCGTTTGCAATATGGTCCCCTCCGTTACACTACCG
211384 TTAGTCCGTTTGCAATATGGTCCCCTCCGTTACACTACCG
1 TTAGTCCGTTTGCAATATGGTCCCCTCCGTTACACTACCG
*
211424 TTAGTACGTTTGCAATATGGTC
1 TTAGTCCGTTTGCAATATGGTC
211446 ACTTAACTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (40 bp):
TTAGTCCGTTTGCAATATGGTCCCCTCCGTTACACTACCG
Found at i:212382 original size:16 final size:16
Alignment explanation
Indices: 212361--212391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
212351 CCTAAGATCC
*
212361 TCTTTCATATATATTA
1 TCTTTCACATATATTA
212377 TCTTTCACATATATT
1 TCTTTCACATATATT
212392 CTGATAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTTTCACATATATTA
Found at i:214291 original size:13 final size:13
Alignment explanation
Indices: 214261--214291 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
214251 AATGGAAAAG
214261 AAAAAGAAAATAA
1 AAAAAGAAAATAA
*
214274 CAAAAGAAAATAA
1 AAAAAGAAAATAA
214287 AAAAA
1 AAAAA
214292 AATCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAATAA
Found at i:214317 original size:18 final size:18
Alignment explanation
Indices: 214280--214317 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
214270 ATAACAAAAG
214280 AAAATAAAAAAAAATCATA
1 AAAATAAAAAAAAA-CATA
214299 AAAATAACAAAAAAA-ATA
1 AAAATAA-AAAAAAACATA
214317 A
1 A
214318 TATGTAGCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAAAACATA
Found at i:215676 original size:122 final size:122
Alignment explanation
Indices: 215283--215722 Score: 507
Period size: 122 Copynumber: 3.6 Consensus size: 122
215273 CTTTATGCAT
* ** ** * *
215283 TGATTTCTGATATTGCTATTGTTATTTT-T-TT-TGGAAGCTGTACTTTGTTATAATTAATTTGA
1 TGATTTCTGATGTTGCTATTGTTATTTTCTATTCTACAAATTGTA-TTTTTTTTAATTAATTTGA
* ** *
215345 CAACAAGATGAGATTGGAGAGTACCCCTTAGCTATTGCTAATTAGTCTCTTCATCTAA
65 GAACAAGATGAGATTACAGAATACCCCTTAGCTATTGCTAATTAGTCTCTTCATCTAA
* * * *
215403 TGATTTCTGATATTGCTACTGTTATTTTTTGTTCTACAAATTGTATTTTTTTTAATTAATTTGAG
1 TGATTTCTGATGTTGCTATTGTTATTTTCTATTCTACAAATTGTATTTTTTTTAATTAATTTGAG
* * **
215468 AACAAGATGGGATTACAGAATACCCCTTAGCTATTGTTAATTAGTCTCTTCAAGTAA
66 AACAAGATGAGATTACAGAATACCCCTTAGCTATTGCTAATTAGTCTCTTCATCTAA
*
215525 TGATTTATGATGTTGCTATTGTTATTTTCTATTCTACAAATTGTATTTTTTTTAATTAATTTGAG
1 TGATTTCTGATGTTGCTATTGTTATTTTCTATTCTACAAATTGTATTTTTTTTAATTAATTTGAG
* * * *
215590 AACTAGATGAGATTACAGAATACCCCTTAGCTATTGCTAATTAATCTCATCATTTAA
66 AACAAGATGAGATTACAGAATACCCCTTAGCTATTGCTAATTAGTCTCTTCATCTAA
* * * * * ** * *
215647 TTACTTCTGATGTTGCTATTGCTACTTTCTGCTT-TGGAAATTG---TTTTTTTAGTTGATTTGA
1 TGATTTCTGATGTTGCTATTGTTATTTTCT-ATTCTACAAATTGTATTTTTTTTAATTAATTTGA
*
215708 GAGCAAGATGAGATT
65 GAACAAGATGAGATT
215723 GGAGAAGTGC
Statistics
Matches: 277, Mismatches: 39, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
119 29 0.10
120 27 0.10
121 1 0.00
122 211 0.76
123 9 0.03
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (122 bp):
TGATTTCTGATGTTGCTATTGTTATTTTCTATTCTACAAATTGTATTTTTTTTAATTAATTTGAG
AACAAGATGAGATTACAGAATACCCCTTAGCTATTGCTAATTAGTCTCTTCATCTAA
Found at i:217264 original size:26 final size:27
Alignment explanation
Indices: 217235--217296 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
217225 ATCTACGTTG
*
217235 ATGTGTTATAATT-ATTGGCAGATTTA
1 ATGTGTTATAATTAATTGGCAGATATA
*
217261 ATGTGTGGT-TAATTAATTTGCAGATATA
1 ATGTGT--TATAATTAATTGGCAGATATA
217289 ATGTGTTA
1 ATGTGTTA
217297 AACAAGTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
26 7 0.23
27 5 0.17
28 18 0.60
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (27 bp):
ATGTGTTATAATTAATTGGCAGATATA
Found at i:219177 original size:27 final size:26
Alignment explanation
Indices: 219139--219202 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
219129 TACCCTAACC
*
219139 CATTTAGCTTCAAAACCATCTCAAAT
1 CATTTAGCTTCAAAACCATCCCAAAT
219165 CATTATAGCTTCAAAACCATCCCAAAT
1 CATT-TAGCTTCAAAACCATCCCAAAT
219192 CATTCTAGCTT
1 CATT-TAGCTT
219203 TCTCCCAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (26 bp):
CATTTAGCTTCAAAACCATCCCAAAT
Found at i:219664 original size:27 final size:27
Alignment explanation
Indices: 219593--219658 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
219583 GAAAGTTCTA
219593 GAGAACTATTCACGATAGTGAAATAGT
1 GAGAACTATTCACGATAGTGAAATAGT
*
219620 GAGAACTATTCGCGATAGTGAAATAGT
1 GAGAACTATTCACGATAGTGAAATAGT
*
219647 GGGAACTATTCA
1 GAGAACTATTCA
219659 AAATAGAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (27 bp):
GAGAACTATTCACGATAGTGAAATAGT
Found at i:226048 original size:20 final size:22
Alignment explanation
Indices: 226014--226068 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
226004 AACGCAAATT
* * *
226014 CTAATTTCACAACAC-AGTTTC
1 CTAAATTCGCAACACGAATTTC
226035 C-AAATTCGCAACACGAATTTC
1 CTAAATTCGCAACACGAATTTC
*
226056 CTAGATTCGCAAC
1 CTAAATTCGCAAC
226069 TTAGTTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.39
21 7 0.25
22 10 0.36
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.27
Consensus pattern (22 bp):
CTAAATTCGCAACACGAATTTC
Found at i:226357 original size:20 final size:20
Alignment explanation
Indices: 226334--226383 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
226324 AAAGAAATTC
226334 GAGTTGCGAATTTCAAAACT
1 GAGTTGCGAATTTCAAAACT
**
226354 GAGTTGCGAATTTGGAAACT
1 GAGTTGCGAATTTCAAAACT
*
226374 GTGTTGCGAA
1 GAGTTGCGAA
226384 ATTGGAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
GAGTTGCGAATTTCAAAACT
Found at i:226388 original size:20 final size:20
Alignment explanation
Indices: 226334--226389 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
226324 AAAGAAATTC
* **
226334 GAGTTGCGAATTTCAAAACT
1 GAGTTGCGAAATTGGAAACT
*
226354 GAGTTGCGAATTTGGAAACT
1 GAGTTGCGAAATTGGAAACT
*
226374 GTGTTGCGAAATTGGA
1 GAGTTGCGAAATTGGA
226390 GTTTGCGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (20 bp):
GAGTTGCGAAATTGGAAACT
Done.