Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008269.1 Hibiscus syriacus cultivar Beakdansim tig00110926_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: 799769
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1348 original size:13 final size:13
Alignment explanation
Indices: 1332--1375 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1322 TGAAATTAAT
*
1332 TTAATAATTATAA
1 TTAAGAATTATAA
*
1345 TTAAGATTTATAA
1 TTAAGAATTATAA
*
1358 TATAAGGATTATAA
1 T-TAAGAATTATAA
1372 TTAA
1 TTAA
1376 TATAGAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAAGAATTATAA
Found at i:6545 original size:30 final size:31
Alignment explanation
Indices: 6506--6572 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
6496 GAAGGACCTA
* * * *
6506 TCCAGAGGTCATAAAGAACCTTGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
6536 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
6567 TCCATA
1 TCCATA
6573 TATTCCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:6585 original size:31 final size:31
Alignment explanation
Indices: 6550--6658 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
6540 TAGGTCCCGA
* *
6550 AGAACCTAGGTAAACTGTCCATATATTCCTT
1 AGAACATAGGTAAACTGTCCATATATTCCCT
* * *
6581 AGAACATAGATATACTGTCCATATA-TCCCA
1 AGAACATAGGTAAACTGTCCATATATTCCCT
* * * *
6611 AAAGACATAGGTAATTCTGTCCATATGTTCCGT
1 AGA-ACATAGGTAA-ACTGTCCATATATTCCCT
6644 AGAACATAGGTAAAC
1 AGAACATAGGTAAAC
6659 CCTCGATTCT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
30 5 0.08
31 31 0.51
32 20 0.33
33 5 0.08
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (31 bp):
AGAACATAGGTAAACTGTCCATATATTCCCT
Found at i:6599 original size:62 final size:63
Alignment explanation
Indices: 6532--6652 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
6522 AACCTTGGCA
* * * *
6532 ACTGTCCATAGGTCCC-GAAGAACCTAGGTAA-ACTGTCCATATATTCCTTAGAACATAGATAT
1 ACTGTCCATAGATCCCAAAAG-ACATAGGTAATACTGTCCATATATTCCGTAGAACATAGATAT
* * *
6594 ACTGTCCATATATCCCAAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAG
1 ACTGTCCATAGATCCCAAAAGACATAGGTAATACTGTCCATATATTCCGTAGAACATAG
6653 GTAAACCCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 23 0.46
63 27 0.54
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (63 bp):
ACTGTCCATAGATCCCAAAAGACATAGGTAATACTGTCCATATATTCCGTAGAACATAGATAT
Found at i:8912 original size:19 final size:18
Alignment explanation
Indices: 8888--8927 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8878 TATTTTTTTT
*
8888 AAAAATATTATATTTATAA
1 AAAAATATTA-AATTATAA
*
8907 AAAAATCTTAAATTATAA
1 AAAAATATTAAATTATAA
8925 AAA
1 AAA
8928 GCCCCAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATTAAATTATAA
Found at i:11429 original size:2 final size:2
Alignment explanation
Indices: 11422--11489 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
11412 ACAGCGATTA
11422 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
11464 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
11490 GAAGATTAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12926 original size:19 final size:20
Alignment explanation
Indices: 12881--12929 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
12871 TTAGGTATAG
12881 GTATCGATACTGGTTGAACA
1 GTATCGATACTGGTTGAACA
12901 GTATCGATACTGGTTGAACA
1 GTATCGATACTGGTTGAACA
12921 -TATCGATAC
1 GTATCGATAC
12930 CATAAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATCGATACTGGTTGAACA
Found at i:16789 original size:2 final size:2
Alignment explanation
Indices: 16782--16819 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16772 ATTAAAATCC
16782 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
16820 GTGTGTGAAG
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:21040 original size:65 final size:64
Alignment explanation
Indices: 20922--21132 Score: 214
Period size: 65 Copynumber: 3.3 Consensus size: 64
20912 TTTTTCAGAG
* * * *
20922 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATT-AAACATCGAATGC
1 TGATGCATCGATGCACTAA-CCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATGC
20984 ATT
62 ATT
* * *
20987 TCATGCATCGATGCACTTACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACTAACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
*
21051 G
64 T
* * * * *
21052 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACTAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
*
21116 TGATGCATCGTTGCACT
1 TGATGCATCGATGCACT
21133 CTTAGTGCAC
Statistics
Matches: 121, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 44 0.36
65 72 0.60
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACTAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:28535 original size:21 final size:21
Alignment explanation
Indices: 28493--28536 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
28483 ACTCCGGGAG
* *
28493 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
28514 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
28535 CT
1 CT
28537 CATCCTCTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:29126 original size:2 final size:2
Alignment explanation
Indices: 29119--29143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29109 CATATTAAGC
29119 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
29144 TTAATCAATT
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:29738 original size:46 final size:45
Alignment explanation
Indices: 29682--29787 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
29672 TGCACTTACC
* * *
29682 ATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGATATTT-T-AAAACATCGAATGCACTTG
* *
29728 ATGCATCGATGCACTCTGGCTATTTTAAAACATCGAATGCACTTG
1 ATGCATCGATGCACTCAGGATATTTTAAAACATCGAATGCACTTG
29773 ATGCATCGATGCACT
1 ATGCATCGATGCACT
29788 AAGGGTCCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 33 0.61
46 18 0.33
47 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGATATTTTAAAACATCGAATGCACTTG
Found at i:31007 original size:8 final size:7
Alignment explanation
Indices: 30992--31160 Score: 58
Period size: 6 Copynumber: 24.3 Consensus size: 7
30982 TTATGCATAC
30992 AATATAT
1 AATATAT
30999 AAGTATAT
1 AA-TATAT
31007 AATATAGGT
1 AATATA--T
*
31016 -ATACAT
1 AATATAT
*
31022 TATACTTAT
1 AATA--TAT
31031 AATATAT
1 AATATAT
*
31038 -ATAATAC
1 AAT-ATAT
31045 AATATAT
1 AATATAT
*
31052 -ATA-AG
1 AATATAT
31057 AATATA-
1 AATATAT
31063 AATATA-
1 AATATAT
31069 AATATAT
1 AATATAT
31076 AA-ATAT
1 AATATAT
*
31082 AAGA-AT
1 AATATAT
31088 -ATATAT
1 AATATAT
31094 AATATA-
1 AATATAT
* *
31100 AGTGTAT
1 AATATAT
31107 -ATATAT
1 AATATAT
31113 AGATATAT
1 A-ATATAT
*
31121 ATAAACTAT
1 A-ATA-TAT
*
31130 AA-AGCAT
1 AATA-TAT
31137 -ATATAT
1 AATATAT
31143 ATATATAT
1 A-ATATAT
31151 ATATATAT
1 A-ATATAT
31159 AA
1 AA
31161 ATTATATAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
5 3 0.02
6 42 0.34
7 32 0.26
8 38 0.30
9 10 0.08
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:31161 original size:36 final size:36
Alignment explanation
Indices: 31103--31192 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
31093 TAATATAAGT
*
31103 GTATATATATAGATATATATAAACTATAAAGCATATA
1 GTATATATATATATATATATAAACTATAAAGCATA-A
* *
31140 -TATATATATATATATATATAAATTATATAGCATAA
1 GTATATATATATATATATATAAACTATAAAGCATAA
31175 GTATATA-AGTATATATAT
1 GTATATATA-TATATATAT
31193 GCATGTATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.04
36 46 0.96
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (36 bp):
GTATATATATATATATATATAAACTATAAAGCATAA
Found at i:31181 original size:2 final size:2
Alignment explanation
Indices: 31028--31168 Score: 77
Period size: 2 Copynumber: 74.0 Consensus size: 2
31018 ACATTATACT
* * *
31028 TA TA -A TA TA TA TA -A TA CA -A TA TA TA TA -A GA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
31065 TA TA AA TA TA TA AA TA TA -A GA -A TA TA TA TA -A TA TA -A GTG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
31104 TA TA TA TA TA GA TA TA TA TA AA CTA TA AA GCA 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
*
31148 TA TA TA TA TA TA AA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
31169 GCATAAGTAT
Statistics
Matches: 108, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
1 10 0.09
2 96 0.89
3 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (2 bp):
TA
Found at i:31181 original size:22 final size:22
Alignment explanation
Indices: 31154--31295 Score: 69
Period size: 22 Copynumber: 6.3 Consensus size: 22
31144 TATATATATA
31154 TATATAAATTATATAGCATAAG
1 TATATAAATTATATAGCATAAG
*
31176 TATATAAGTATATATATGCAT--G
1 TATATAAAT-TATATA-GCATAAG
* * * *
31198 TATGTACA-TATGTA-TATAAAG
1 TATATAAATTATATAGCAT-AAG
* *
31219 TATATAAACTATATAGCATAAT
1 TATATAAATTATATAGCATAAG
*
31241 TATATACATAAGTATATCATA-TATAAG
1 TATAT--A-AA-T-TAT-ATAGCATAAG
* * *
31268 TATATAAACTATACAGTATAAG
1 TATATAAATTATATAGCATAAG
31290 TATATA
1 TATATA
31296 TGCATGTATA
Statistics
Matches: 90, Mismatches: 16, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.02
20 5 0.06
21 9 0.10
22 41 0.46
23 8 0.09
24 7 0.08
25 3 0.03
27 12 0.13
28 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
TATATAAATTATATAGCATAAG
Found at i:31305 original size:49 final size:50
Alignment explanation
Indices: 31210--31312 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 50
31200 TGTACATATG
*
31210 TATATAAAGTATATAAACTATATAGCATAATTATATACATAAGTATAT-CA
1 TATATAAAGTATATAAACTATACAGCATAATTATATACAT-AGTATATACA
* *
31260 TATAT-AAGTATATAAACTATACAGTATAAGTATATATGCAT-GTATATACA
1 TATATAAAGTATATAAACTATACAGCATAA-T-TATATACATAGTATATACA
31310 TAT
1 TAT
31313 GTATGATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
49 28 0.60
50 11 0.23
51 8 0.17
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (50 bp):
TATATAAAGTATATAAACTATACAGCATAATTATATACATAGTATATACA
Found at i:31323 original size:19 final size:19
Alignment explanation
Indices: 31294--31344 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
31284 TATAAGTATA
31294 TATGCATGTATATACATATG
1 TATG-ATGTATATACATATG
*
31314 TATGATGTATATACTTATG
1 TATGATGTATATACATATG
*
31333 TAT-ATATATATA
1 TATGATGTATATA
31345 TGTGTTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.28
19 17 0.59
20 4 0.14
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (19 bp):
TATGATGTATATACATATG
Found at i:31564 original size:2 final size:2
Alignment explanation
Indices: 31466--31545 Score: 80
Period size: 2 Copynumber: 41.5 Consensus size: 2
31456 ATAATAGATG
* * *
31466 TA TA TA TA T- TA -A TA T- TA TA TA TA CT- TA TG CA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
31505 GT- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31546 TCACACACAT
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
1 5 0.08
2 58 0.89
3 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33649 original size:107 final size:108
Alignment explanation
Indices: 33534--33748 Score: 396
Period size: 107 Copynumber: 2.0 Consensus size: 108
33524 AACACAGACA
33534 CAAATCAAATAGTCAATAATAAAATAATAAAATATATGCATGAGTCTCGTCATTATTTCTAAATA
1 CAAATCAAATAGTCAATAATAAAATAATAAAATATATGCATGAGTCTCGTCATTATTTCTAAATA
33599 TTTT-AAAAATCAGTATATAATTAATGTAAGATTTATTTATAT
66 TTTTAAAAAATCAGTATATAATTAATGTAAGATTTATTTATAT
*
33641 CAAATCAAATAGTCAATAATAAAATAATAAAATATATGCATGAGTCTTGTCATTATTTCTAAATA
1 CAAATCAAATAGTCAATAATAAAATAATAAAATATATGCATGAGTCTCGTCATTATTTCTAAATA
*
33706 TTTTAAAAAAATTAGTATATAATTAATGTAAGATTTATTTATA
66 TTTT-AAAAAATCAGTATATAATTAATGTAAGATTTATTTATA
33749 GGTAAAAAGT
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 68 0.65
109 36 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (108 bp):
CAAATCAAATAGTCAATAATAAAATAATAAAATATATGCATGAGTCTCGTCATTATTTCTAAATA
TTTTAAAAAATCAGTATATAATTAATGTAAGATTTATTTATAT
Found at i:34147 original size:16 final size:16
Alignment explanation
Indices: 34123--34175 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
34113 TGTTAGATTG
34123 TAAAAATATAAATAAA
1 TAAAAATATAAATAAA
*
34139 TAAATATATAAATATAA
1 TAAAAATATAAATA-AA
* *
34156 AAAAAAT-TAATTAAA
1 TAAAAATATAAATAAA
34171 TAAAA
1 TAAAA
34176 TCAAGTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 6 0.19
16 18 0.58
17 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATATAAATAAA
Found at i:34390 original size:16 final size:17
Alignment explanation
Indices: 34356--34400 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
34346 AAAGGGGAGA
34356 AAAAAGTTAAAAATATTG
1 AAAAAG-TAAAAATATTG
*
34374 AAAAAGTAAAAA-GTTG
1 AAAAAGTAAAAATATTG
34390 AAAAAGGTAAA
1 AAAAA-GTAAA
34401 GGTTGAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 11 0.44
18 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (17 bp):
AAAAAGTAAAAATATTG
Found at i:36535 original size:85 final size:85
Alignment explanation
Indices: 36437--36678 Score: 412
Period size: 85 Copynumber: 2.8 Consensus size: 85
36427 TGATAGATAG
* * * * *
36437 CCCTTCTCGCCTTGAGCTATGTTATAAATTTGATATGCCTTTGAGATGAATGTAATCAAACTCGA
1 CCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
*
36502 AGGTCTTTATTGACATATAA
66 AGGTCTTTATTAACATATAA
*
36522 CCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
1 CCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
36587 AGGTCTTTATTAACATATAA
66 AGGTCTTTATTAACATATAA
*
36607 CCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTAGA
1 CCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
36672 AGGTCTT
66 AGGTCTT
36679 GGTTGACAGA
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 149 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (85 bp):
CCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGA
AGGTCTTTATTAACATATAA
Found at i:36860 original size:86 final size:86
Alignment explanation
Indices: 36745--37252 Score: 719
Period size: 86 Copynumber: 5.9 Consensus size: 86
36735 GGTCATAATT
* * * * * *
36745 CTCAGGCGGTTCCCCTGAGTGAGTTTAAACCATGTGAGATGATCTTTGGATGACTCCCCTTCACG
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
* *
36810 GGAAAGCCACGTGGTTTATTC
66 GGAAAGCCATGTGGTATATTC
* * * * *
36831 CTCAGGTGGTTCCCCTTAGCGGGTCTAAACCATGTGAGATGATCTTTAGATGACTCCTCTTCACG
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
36896 GGAAAGCCATGTGGTATATTC
66 GGAAAGCCATGTGGTATATTC
* * * * ** *
36917 CTTAGGTGGTTCCCCTGAGCGGGTCTGAACTAGGTAAGATGATCTTTGGATAACTCCCCTAAACA
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
36982 GGAAAGCCATGTGGTATATTC
66 GGAAAGCCATGTGGTATATTC
* * * *
37003 CTCAGGTGGTTCCCCTGAGCAGGTCTGAACCATGTGAGATGATCTTTGGATGACTCCCCTTTATG
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
*
37068 GGAAAACCATGTGGTATATTC
66 GGAAAGCCATGTGGTATATTC
* * * *
37089 GTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTAGATGACTCCCCTTTACT
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
*
37154 CGAAAGCCATGTGGTATATTC
66 GGAAAGCCATGTGGTATATTC
* *
37175 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGGTGATATTTGGATGACTCCCCTTCACG
1 CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
*
37240 GGAAAGTCATGTG
66 GGAAAGCCATGTG
37253 AGATGTTCTT
Statistics
Matches: 374, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 374 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (86 bp):
CTCAGGTGGTTCCCCTGAGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGACTCCCCTTCACG
GGAAAGCCATGTGGTATATTC
Found at i:38628 original size:95 final size:95
Alignment explanation
Indices: 38465--38747 Score: 433
Period size: 95 Copynumber: 3.0 Consensus size: 95
38455 TTGTAATGAT
* * * *
38465 CTTTATCAGGCTAGCTAAATCTCATCCATAAAG-TCGAGGCGTTTAACCAATTGCTTTAGAGGGA
1 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCT-GGGGCGTTTAACCAATTGCTCTAGAGGGA
38529 CATCTCAAGCTTTATTGTGTATTATAATCAC
65 CATCTCAAGCTTTATTGTGTATTATAATCAC
** *
38560 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGAATTTAACCAATTTCTCTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGAC
38625 ATCTCAAGCTTTATTGTGTATTATAATCAC
66 ATCTCAAGCTTTATTGTGTATTATAATCAC
* **
38655 CTTTATCAGGCTAGCTGAATCTTATCTATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGAC
* *
38720 AACTCAAGCTTTATTGTATATATATAAT
66 ATCTCAAGCTTTATTGTGTAT-TATAAT
38748 ATTATAATGT
Statistics
Matches: 171, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
95 164 0.96
96 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (95 bp):
CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGAC
ATCTCAAGCTTTATTGTGTATTATAATCAC
Found at i:41324 original size:14 final size:15
Alignment explanation
Indices: 41305--41336 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
41295 TGAATGATGC
41305 AAATGAAAAAAAT-A
1 AAATGAAAAAAATGA
41319 AAATGAAAAAAATGA
1 AAATGAAAAAAATGA
41334 AAA
1 AAA
41337 GAGTTAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
AAATGAAAAAAATGA
Found at i:43200 original size:24 final size:22
Alignment explanation
Indices: 43172--43223 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 22
43162 TACTTATAAT
43172 ATATATATAATACAATATATATA
1 ATATATAT-ATACAATATATATA
*
43195 AGTATATATATAAGAATATATATA
1 A-TATATATAT-ACAATATATATA
43219 ATATA
1 ATATA
43224 AGTGTGTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATATATATATACAATATATATA
Found at i:43213 original size:10 final size:12
Alignment explanation
Indices: 43186--43223 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
43176 ATATAATACA
43186 ATATATATAAGT
1 ATATATATAAGT
*
43198 ATATATATAAGA
1 ATATATATAAGT
43210 ATATATATAA-T
1 ATATATATAAGT
43221 ATA
1 ATA
43224 AGTGTGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (12 bp):
ATATATATAAGT
Found at i:43342 original size:34 final size:34
Alignment explanation
Indices: 43304--43427 Score: 99
Period size: 34 Copynumber: 3.5 Consensus size: 34
43294 ATAAACTATG
43304 ATATATATATATATATAAATTATAAAGCATAAGT
1 ATATATATATATATATAAATTATAAAGCATAAGT
** *
43338 ATATA-AGTATATATATGCATATATATA-CATAAGT
1 ATATATA-TATATATATAAAT-TATAAAGCATAAGT
* * ** *
43372 ATATAATGTATAAATATATAAACTATACGGTATAAGT
1 ATAT-A--TATATATATATAAATTATAAAGCATAAGT
43409 ATATATATAAGTATATATA
1 ATATATAT-A-TATATATA
43428 TGCATGTATG
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 1 0.01
34 30 0.43
35 7 0.10
36 12 0.17
37 19 0.27
38 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (34 bp):
ATATATATATATATATAAATTATAAAGCATAAGT
Found at i:43349 original size:40 final size:41
Alignment explanation
Indices: 43274--43362 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
43264 AAAATATACA
*
43274 ATATATAAACTATAAAGCATATAAACTATGATATATATAT-
1 ATATATAAACTATAAAGCATATAAACTAAGATATATATATC
* *
43314 ATATATAAATTATAAAGCATAAGTATA-TAAG-TATATATATGC
1 ATATATAAACTATAAAGCAT-A-TAAACTAAGATATATATAT-C
43356 ATATATA
1 ATATATA
43363 TACATAAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 28 0.67
41 4 0.10
42 10 0.24
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.36
Consensus pattern (41 bp):
ATATATAAACTATAAAGCATATAAACTAAGATATATATATC
Found at i:43393 original size:8 final size:8
Alignment explanation
Indices: 43238--43398 Score: 68
Period size: 8 Copynumber: 20.2 Consensus size: 8
43228 TGTGTGTGTG
*
43238 TATATATA
1 TATAAATA
*
43246 TATATATA
1 TATAAATA
43254 TATAAAGTA
1 TATAAA-TA
43263 TA-AAATA
1 TATAAATA
*
43270 TA-CAATA
1 TATAAATA
43277 TATAAACTA
1 TATAAA-TA
**
43286 TA-AAGCA
1 TATAAATA
43293 TATAAACTA
1 TATAAA-TA
43302 TGAT--ATA
1 T-ATAAATA
*
43309 TATATATA
1 TATAAATA
43317 TATAAAT-
1 TATAAATA
*
43324 TATAAA-G
1 TATAAATA
* *
43331 CATAAGTA
1 TATAAATA
*
43339 TATAAGTA
1 TATAAATA
*
43347 TATATATGCA
1 TATAAAT--A
*
43357 TATATATA
1 TATAAATA
* *
43365 CATAAGTA
1 TATAAATA
*
43373 TAT-AATG
1 TATAAATA
43380 TATAAATA
1 TATAAATA
43388 TATAAACTA
1 TATAAA-TA
43397 TA
1 TA
43399 CGGTATAAGT
Statistics
Matches: 118, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
6 2 0.02
7 31 0.26
8 61 0.52
9 14 0.12
10 10 0.08
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.37
Consensus pattern (8 bp):
TATAAATA
Found at i:43419 original size:12 final size:12
Alignment explanation
Indices: 43337--43428 Score: 57
Period size: 12 Copynumber: 7.4 Consensus size: 12
43327 AAAGCATAAG
43337 TATATAAGTATA
1 TATATAAGTATA
*
43349 TATAT--GCATA
1 TATATAAGTATA
43359 TATATACA-TA-A
1 TATATA-AGTATA
43370 GTATATAATGTATAAA
1 -TATATAA-GTAT--A
*
43386 TATATAAACTATA
1 TATAT-AAGTATA
**
43399 CGGTATAAGTATA
1 -TATATAAGTATA
43412 TATATAAGTATA
1 TATATAAGTATA
43424 TATAT
1 TATAT
43429 GCATGTATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
10 9 0.15
11 2 0.03
12 27 0.44
13 9 0.15
14 3 0.05
15 8 0.13
16 3 0.05
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (12 bp):
TATATAAGTATA
Found at i:43468 original size:29 final size:29
Alignment explanation
Indices: 43436--43492 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
43426 TATGCATGTA
*
43436 TGTGCATATGTAT-GATGTATATACTTATG
1 TGTGCATATATATAGATGT-TATACTTATG
* *
43465 TGTGTATATATATATATGTTATACTTAT
1 TGTGCATATATATAGATGTTATACTTAT
43493 AAGCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (29 bp):
TGTGCATATATATAGATGTTATACTTATG
Found at i:43650 original size:2 final size:2
Alignment explanation
Indices: 43643--43694 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
43633 TATGTACACT
43643 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
43685 TA TA TA TA TA
1 TA TA TA TA TA
43695 ATTGTATGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44169 original size:2 final size:2
Alignment explanation
Indices: 44162--44199 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44152 ACCACTTTGA
44162 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
44200 CTTATAAATA
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:44368 original size:13 final size:13
Alignment explanation
Indices: 44352--44395 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
44342 TGAAATTAAT
*
44352 TTAATAATTATAA
1 TTAAGAATTATAA
*
44365 TTAAGATTTATAA
1 TTAAGAATTATAA
*
44378 TATAAGGATTATAA
1 T-TAAGAATTATAA
44392 TTAA
1 TTAA
44396 TATAGAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAAGAATTATAA
Found at i:55238 original size:22 final size:21
Alignment explanation
Indices: 55210--55267 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
55200 AGTCAAGGGT
* *
55210 TACATAGGTCCTTCGGGATATA
1 TACATAGGTCCTTCGGG-GACA
55232 TACATAGGTCCTT-GGGGACA
1 TACATAGGTCCTTCGGGGACA
55252 TACATGAGGTCCTTCG
1 TACAT-AGGTCCTTCG
55268 TGACAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.22
21 11 0.34
22 14 0.44
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (21 bp):
TACATAGGTCCTTCGGGGACA
Found at i:60763 original size:32 final size:32
Alignment explanation
Indices: 60716--60810 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
60706 TGAGGACATC
*
60716 TTTGAAGATTCAACATCAAATGTTGTGGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
* *
60749 TTTTAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* *
60781 TTTGAGATTCAACATCGAATATTGGGGCAT
1 TTTGAGATTCAACATCAAATGTTGGGGCAT
60811 CTTTAGGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 52 0.95
33 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:60823 original size:32 final size:32
Alignment explanation
Indices: 60721--60824 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
60711 ACATCTTTGA
* * ***
60721 AGATTCAACATCAAATGTTGTGGCATTTTTTT
1 AGATTCAACATCAAATATTGGGGCATTTTAGG
* * **
60753 AGATTTAACATCAAATGTTGGGGCATTTTTTG
1 AGATTCAACATCAAATATTGGGGCATTTTAGG
*
60785 AGATTCAACATCGAATATTGGGGCATCTTTAGG
1 AGATTCAACATCAAATATTGGGGCAT-TTTAGG
60818 A-ATTCAA
1 AGATTCAA
60825 TATCCTGATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 58 0.92
33 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATTTTAGG
Found at i:62074 original size:37 final size:37
Alignment explanation
Indices: 62024--62135 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
62014 TTTCCAAGTT
62024 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* *
62061 TTGTCACTCTTGAGACAGTTTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
62097 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
62134 TT
1 TT
62136 TGAATATCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.49
37 36 0.51
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
Found at i:62108 original size:36 final size:36
Alignment explanation
Indices: 62022--62130 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
62012 AGTTTCCAAG
62022 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
62059 TCTTGTCACTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
62095 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
62131 ATCTTTGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
36 37 0.54
37 31 0.46
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:62211 original size:37 final size:36
Alignment explanation
Indices: 62150--62266 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 36
62140 TATCTTTTCC
*
62150 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAAATTT-GTCTCTCTTGAGACAGTTTCTT
**
62186 TT-ATAACTAATTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAAATTTGTCTCTCTTGAGACAGTTTCTT
* *
62223 TTGAAACAAAATTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCTT
62259 TTGAAACA
1 TTGAAACA
62267 CAAAAAAAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
35 1 0.01
36 38 0.54
37 26 0.37
38 5 0.07
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTGAAACAAAATTTGTCTCTCTTGAGACAGTTTCTT
Found at i:62219 original size:102 final size:102
Alignment explanation
Indices: 62046--62234 Score: 267
Period size: 102 Copynumber: 1.9 Consensus size: 102
62036 AGACAGTTTC
*
62046 CCTTGAAACAAAATCTTGTCACTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
1 CCTTGAAACAAAATCTTGTCACCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
62111 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
66 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
* * * *
62148 CCTTGAAAC-AAAT-TTCGTCTCCCTTGAGACAGTTT-CTTTTATAACTAATTTTTGTCTCTCTT
1 CCTTGAAACAAAATCTT-GTCACCCTTGAGACAGTTTCCCTTGA-AAC-AAATTTTGTCTCTCTT
**
62210 GAGACAGTTTCTTTTGAAACAAAAT
63 GAGACAGTTTCCCTTGAAACAAAAT
62235 TTGTCCCTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
100 6 0.08
101 24 0.31
102 47 0.61
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (102 bp):
CCTTGAAACAAAATCTTGTCACCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
Found at i:62670 original size:84 final size:84
Alignment explanation
Indices: 62348--62671 Score: 423
Period size: 84 Copynumber: 3.8 Consensus size: 84
62338 ACACAAAACA
* * * * * * *
62348 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTCACAGCATATCTCAAGGCTAGAATGG
1 TTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTCACAGCATAACTCAAGGCTAGAAAGG
*
62413 TTATATGCCAACCAAAGACC
65 TTATCTGCCAACCAAAGACC
* * ** * *
62433 TTCGAGTTCGACTATGATCAGCTCCAAGGCACATCATTTGCAGTATAACTCAAGGCTAGAAGGGT
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCACAGCATAACTCAAGGCTAGAAAGGT
* *
62498 TATTTGCAAACCAAAGACC
66 TATCTGCCAACCAAAGACC
* * ***
62517 TTCGAGTTCGACAACGCTCAGCTCCAAGGAACATCATTTGTAGCATAACTCAAGGCTAGAAAGGT
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCACAGCATAACTCAAGGCTAGAAAGGT
62582 TATCTGCCAACCAAAGACC
66 TATCTGCCAACCAAAGACC
* * *
62601 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCACAGCATATCTCAAGGCAAGAAAGGC
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCACAGCATAACTCAAGGCTAGAAAGGT
62666 TATCTG
66 TATCTG
62672 TAAACAAAAT
Statistics
Matches: 208, Mismatches: 31, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
84 190 0.91
85 18 0.09
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (84 bp):
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCACAGCATAACTCAAGGCTAGAAAGGT
TATCTGCCAACCAAAGACC
Found at i:63229 original size:37 final size:37
Alignment explanation
Indices: 63188--63295 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
63178 AACATAACGT
63188 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* *
63225 TAGAGTTTTACTAGGATTTAAACTCTTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* *
63262 TAGAGTTCTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
63296 TGATCCAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:66536 original size:22 final size:20
Alignment explanation
Indices: 66488--66563 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
66478 ATATGCCTTA
*
66488 GGGTATCGGTACCATATGAG
1 GGGTATCGATACCATATGAG
66508 GGGTATCGATACCAT-TGCATG
1 GGGTATCGATACCATATG-A-G
* *
66529 GAGGTATCGATGCC-TATTAG
1 G-GGTATCGATACCATATGAG
*
66549 GGGTATCGGTACCAT
1 GGGTATCGATACCAT
66564 TCGAACATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 12 0.26
20 18 0.39
21 4 0.09
22 12 0.26
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATATGAG
Found at i:68611 original size:43 final size:43
Alignment explanation
Indices: 68544--68668 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
68534 TAGCGGCGTT
* * * *
68544 AACAAACGCCGTAAAAGGTATTGATATTTAGCGGCGTTTGGCA
1 AACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCA
*
68587 GAA-AAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCA
1 -AACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCA
*
68630 AACAAACGCCGCAATAGGTGTTGATGTTTAGCGGCATTT
1 AACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTT
68669 TCTTCACAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.03
43 69 0.95
44 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
AACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCA
Found at i:68678 original size:43 final size:42
Alignment explanation
Indices: 68590--68770 Score: 134
Period size: 43 Copynumber: 4.2 Consensus size: 42
68580 TTTGGCAGAA
* * **
68590 AAACGCCGCAATAGGTGTTGATATTTAACGGCA-TTTGGCAAAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGCGGCATTTTTTC--AC
68633 AAACGCCGCAATAGGTGTTGATGTTTAGCGGCATTTTCTTCAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGCGGCATTTT-TTCAC
* * * * ** * *
68676 AAACGACGCAAGAGATGTTGATTTTTA-CTAACGTTTTTCCTAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGC-GGCATTTTTTC-AC
* * * *
68719 AAACGCCGCAATATGTATTGA-GATTTAGCGGCGTTTTTATCAA
1 AAACGCCGCAATAGGTGTTGATG-TTTAGCGGCATTTTT-TCAC
68762 AAACGCCGC
1 AAACGCCGC
68771 TAAATGTATG
Statistics
Matches: 109, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 3 0.03
43 100 0.92
44 5 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
AAACGCCGCAATAGGTGTTGATGTTTAGCGGCATTTTTTCAC
Found at i:69133 original size:21 final size:21
Alignment explanation
Indices: 69109--69185 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
69099 TTATATATTA
*
69109 CTTCTCTCTGTGCTACCAATG
1 CTTCTCTCTGTGCTACCACTG
*
69130 CTTCTCTCTGTGCTACCGCTG
1 CTTCTCTCTGTGCTACCACTG
* *
69151 CCTCTCTCTGTGCTGCCACTG
1 CTTCTCTCTGTGCTACCACTG
*
69172 CTTCTCTCTCTGCT
1 CTTCTCTCTGTGCT
69186 TCTGCTGCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.06, C:0.39, G:0.16, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTGTGCTACCACTG
Found at i:69193 original size:21 final size:21
Alignment explanation
Indices: 69109--69238 Score: 86
Period size: 21 Copynumber: 6.2 Consensus size: 21
69099 TTATATATTA
* * **
69109 CTTCTCTCTGTGCTACCAATG
1 CTTCTCTCTCTGCTTCCGCTG
* *
69130 CTTCTCTCTGTGCTACCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * * *
69151 CCTCTCTCTGTGCTGCCACTG
1 CTTCTCTCTCTGCTTCCGCTG
*
69172 CTTCTCTCTCTGCTTCTGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* **
69193 CTGCTCTAGCTGCTTCCAG-TG
1 CTTCTCTCTCTGCTTCC-GCTG
69214 -TTGCTCTCTCTGCTTCC-CTTG
1 CTT-CTCTCTCTGCTTCCGC-TG
69235 CTTC
1 CTTC
69239 ATTTTCCGCT
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.01
21 83 0.95
22 3 0.03
ACGTcount: A:0.05, C:0.38, G:0.17, T:0.40
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:79642 original size:41 final size:41
Alignment explanation
Indices: 79571--79750 Score: 193
Period size: 41 Copynumber: 4.3 Consensus size: 41
79561 CTATAGTGAT
* *
79571 TATTGTGGCGTTTGTTAAAAAAAACGCCACTATTGATTAAAAC
1 TATTGCGGCGTTT-TT-ATAAAAACGCCACTATTGATTAAAAC
* * *
79614 TATTACGGCGTTTTTGTAAAAACGCCACTATTGATTAACAC
1 TATTGCGGCGTTTTTATAAAAACGCCACTATTGATTAAAAC
* * *
79655 TATTGCGGCGTTTGTATAAAAACGCCACTATTTATTATAAC
1 TATTGCGGCGTTTTTATAAAAACGCCACTATTGATTAAAAC
* * * *
79696 TATTGCGGCGTTTTAAGAATAAATGCCACTATATG-TGT-AATC
1 TATTGCGGCGTTTTTATAA-AAACGCCACTAT-TGAT-TAAAAC
79738 TATTGCGGCGTTT
1 TATTGCGGCGTTT
79751 GTGGTATAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
41 74 0.64
42 29 0.25
43 13 0.11
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (41 bp):
TATTGCGGCGTTTTTATAAAAACGCCACTATTGATTAAAAC
Found at i:79741 original size:42 final size:40
Alignment explanation
Indices: 79571--79930 Score: 175
Period size: 42 Copynumber: 8.7 Consensus size: 40
79561 CTATAGTGAT
* * * * *
79571 TATTGTGGCGTTTGTTAAAAAAAACGCCACTATTGATTAAAAC
1 TATTGCGGCGTTTG-TAGAATAAACGCCACTA-T-ATTTAATC
* * *
79614 TATTACGGCGTTT-TTGTAA-AAACGCCACTAT-TGATTAACAC
1 TATTGCGGCGTTTGTAG-AATAAACGCCACTATAT--TTAA-TC
*
79655 TATTGCGGCGTTTGTATAA-AAACGCCACTATTTATTATAA-C
1 TATTGCGGCGTTTGTAGAATAAACGCCACTA--TATT-TAATC
*
79696 TATTGCGGCGTTT-TAAGAATAAATGCCACTATATGTGTAATC
1 TATTGCGGCGTTTGT-AGAATAAACGCCACTATAT-T-TAATC
* * ** *
79738 TATTGCGGCGTTTGTGGTATAAATACCTCTA-ATTTACCGATC
1 TATTGCGGCGTTTGTAGAATAAACGCCACTATATTTA---ATC
**
79780 TATTGCGGCGTTT-T-GGCTAAAACGCCACTATATGTTAATC
1 TATTGCGGCGTTTGTAGAAT-AAACGCCACTATAT-TTAATC
* *
79820 TATTGCGGCGTTTGTGGTATAAACGCCACTA-ATTTACCACTC
1 TATTGCGGCGTTTGTAGAATAAACGCCACTATATTTA--A-TC
* * * * *
79862 TATTACGGCGTTTATTGTAA-AAACGCCGCTATATGTCAACTC
1 TATTGCGGCGTTTGTAG-AATAAACGCCACTATAT-TTAA-TC
* * * *
79904 TATTGCAGCGTTTTTACAACAAACGCC
1 TATTGCGGCGTTTGTAGAATAAACGCC
79931 GCTAAAGTAT
Statistics
Matches: 255, Mismatches: 33, Indels: 59
0.73 0.10 0.17
Matches are distributed among these distances:
38 1 0.00
39 5 0.02
40 29 0.11
41 86 0.34
42 109 0.43
43 22 0.09
44 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (40 bp):
TATTGCGGCGTTTGTAGAATAAACGCCACTATATTTAATC
Found at i:79835 original size:82 final size:83
Alignment explanation
Indices: 79613--79916 Score: 286
Period size: 82 Copynumber: 3.7 Consensus size: 83
79603 TTGATTAAAA
* * * *
79613 CTATTACGGCGTTT-TTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-ATAAA
1 CTATTACGGCGTTTATGGTAAAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGTATA
* **
79675 AACGCCACT-ATTTATTA-T
64 AACACCACTAATTTACCACT
* * *
79693 AACTATTGCGGCGTTT-TAAG-AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGT
1 --CTATTACGGCGTTTAT-GGTAA-AAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGT
* *
79756 ATAAATACCTCTAATTTACCGA-T
61 ATAAACACCACTAATTTACC-ACT
*
79779 CTATTGCGGCGTTT-TGGCT-AAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
1 CTATTACGGCGTTTATGG-TAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
*
79842 ACGCCACTAATTTACCACT
65 ACACCACTAATTTACCACT
* * * *
79861 CTATTACGGCGTTTATTGTAAAAACGCCGCTATATGTCAACTCTATTGCAGCGTTT
1 CTATTACGGCGTTTATGGTAAAAACGCCACTATATGTTAA-TCTATTGCGGCGTTT
79917 TTACAACAAA
Statistics
Matches: 188, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
81 1 0.01
82 71 0.38
83 65 0.35
84 44 0.23
85 5 0.03
86 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (83 bp):
CTATTACGGCGTTTATGGTAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAAA
CACCACTAATTTACCACT
Found at i:79896 original size:166 final size:165
Alignment explanation
Indices: 79613--79916 Score: 361
Period size: 166 Copynumber: 1.8 Consensus size: 165
79603 TTGATTAAAA
*
79613 CTATTACGGCGTTTTTGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTATAAAAAC
1 CTATTACGGCGTTTTGGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTATAAAAAC
** * * *
79678 GCCACTATTTATTATAACTATTGCGGCGTTTTAAGAATAAATGCCACTATATGTGTAA-TCTATT
66 GCCACTATTTACCAT-ACTATTACGGCGTTTTAAGAATAAACGCCACTATATGT-CAACTCTATT
*
79742 GCGGCGTTTGTGGTATAAATACCTCTAATTTACCGAT
129 GCAGCGTTTGTGGTATAAATACCTCTAATTTACCGAT
* * * *
79779 CTATTGCGGCGTTTTGGCT-AAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGTATA
1 CTATTACGGCGTTTTGG-TAAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-ATAAA
* *
79841 AACGCCACTAATTTACCACT-CTATTACGGCG-TTTATTGTAA-AAACGCCGCTATATGTCAACT
63 AACGCCACT-ATTTACCA-TACTATTACGGCGTTTTA-AG-AATAAACGCCACTATATGTCAACT
79903 CTATTGCAGCGTTT
124 CTATTGCAGCGTTT
79917 TTACAACAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
165 22 0.19
166 83 0.71
167 11 0.09
168 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (165 bp):
CTATTACGGCGTTTTGGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTATAAAAAC
GCCACTATTTACCATACTATTACGGCGTTTTAAGAATAAACGCCACTATATGTCAACTCTATTGC
AGCGTTTGTGGTATAAATACCTCTAATTTACCGAT
Found at i:81006 original size:21 final size:23
Alignment explanation
Indices: 80957--81035 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
80947 CCATTAGGGG
*
80957 GGTATCGATACCCATTCAATGAT
1 GGTATCGATACCTATTCAATGAT
80980 GGTATCGATACCTATTGC-A-GA-
1 GGTATCGATACCTATT-CAATGAT
* * **
81001 GGTATCGATACATATTCAAAGGG
1 GGTATCGATACCTATTCAATGAT
81024 GGTATCGATACC
1 GGTATCGATACC
81036 AGTCTTAGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 3 0.06
23 27 0.56
24 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (23 bp):
GGTATCGATACCTATTCAATGAT
Found at i:84780 original size:20 final size:21
Alignment explanation
Indices: 84734--84780 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
84724 GAGTTTATTT
84734 TCAATTTTCAATTTTAAAATA
1 TCAATTTTCAATTTTAAAATA
*
84755 TC-ATTTTTATATTTTAAAA-A
1 TCAATTTTCA-ATTTTAAAATA
84775 -CAATTT
1 TCAATTT
84781 CTCATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 11 0.48
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TCAATTTTCAATTTTAAAATA
Found at i:86689 original size:22 final size:20
Alignment explanation
Indices: 86664--86711 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 20
86654 TTCGATCGTT
86664 ATACCATTGCATGGGGGTATCG
1 ATACCATT--ATGGGGGTATCG
86686 ATACC--TATGGGGGTATCG
1 ATACCATTATGGGGGTATCG
*
86704 GTACCATT
1 ATACCATT
86712 CGAGCATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 16 0.70
20 2 0.09
22 5 0.22
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (20 bp):
ATACCATTATGGGGGTATCG
Found at i:86697 original size:18 final size:18
Alignment explanation
Indices: 86674--86708 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
86664 ATACCATTGC
86674 ATGGGGGTATCGATACCT
1 ATGGGGGTATCGATACCT
*
86692 ATGGGGGTATCGGTACC
1 ATGGGGGTATCGATACC
86709 ATTCGAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (18 bp):
ATGGGGGTATCGATACCT
Found at i:88573 original size:20 final size:21
Alignment explanation
Indices: 88548--88606 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
88538 TCCAAAATAG
88548 TCAAATTTC-ACATTCTAACA
1 TCAAATTTCAACATTCTAACA
*
88568 TCAAA-TTCAATATTCTAACA
1 TCAAATTTCAACATTCTAACA
*
88588 TCAAA-TTCAATATTCTAAC
1 TCAAATTTCAACATTCTAAC
88607 TTTCAATTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
19 3 0.08
20 34 0.92
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAAATTTCAACATTCTAACA
Found at i:88615 original size:20 final size:20
Alignment explanation
Indices: 88559--88606 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
88549 CAAATTTCAC
88559 ATTCTAACATCAAATTCAAT
1 ATTCTAACATCAAATTCAAT
88579 ATTCTAACATCAAATTCAAT
1 ATTCTAACATCAAATTCAAT
88599 ATTCTAAC
1 ATTCTAAC
88607 TTTCAATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTCTAACATCAAATTCAAT
Found at i:91777 original size:126 final size:122
Alignment explanation
Indices: 91337--91780 Score: 647
Period size: 122 Copynumber: 3.5 Consensus size: 122
91327 CTAGTTTAAT
*
91337 TTTAAATTCTTAATTATAAAAAATATATATTTTATTATTTTTTTCTTAATTTATCGAATATGTAT
1 TTTAAATTCTTAACTAT-AAAAATATATATTTTATTATTTTTTTCTTAATTTATCGAATA--TAT
* * *
91402 ATATATATATTGGTTTAAAGTAGGCCAAATTTATTATTTGAGATAAGAATATATATTTAAAATA
63 AT-T-T-T-TTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATA
* * *
91466 TTTAAATTCTTAACTATAAAAATATATATTTTATTCTTTTTTTCTTATTTTATCCAATATATATT
1 TTTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTTCTTAATTTATCGAATATATATT
* * *
91531 TTTTGGTTTAAAGTAGGCCAAGTTTATTGTTTAAGTTGAGAATGTATATTTAAAATA
66 TTTTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATA
* *
91588 TTTAAATTCTTAACTATAAAAATACATATTTTATTATTATTTTCTTAATTTA-CAGAATATATAT
1 TTTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTTCTTAATTTATC-GAATATATAT
*
91652 TTTTTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAATAATATATATTTAAAATATA
65 TTTTTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTT-AAA-ATA
*
91712 TGTTTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTTCTTAATTTATTGAATATATA
1 --TTTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTTCTTAATTTATCGAATATATA
91777 TTTT
64 TTTT
91781 AAAATATTAT
Statistics
Matches: 287, Mismatches: 22, Indels: 15
0.89 0.07 0.05
Matches are distributed among these distances:
121 1 0.00
122 154 0.54
123 4 0.01
124 4 0.01
125 1 0.00
126 68 0.24
128 39 0.14
129 16 0.06
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.50
Consensus pattern (122 bp):
TTTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTTCTTAATTTATCGAATATATATT
TTTTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGAATATATATTTAAAATA
Found at i:95969 original size:4 final size:4
Alignment explanation
Indices: 95960--96033 Score: 55
Period size: 4 Copynumber: 18.2 Consensus size: 4
95950 ATTTTTATAT
*
95960 TTTA TTTA TTTA TTTTA TTATA TTAATA TTTA TTT- TTTA TTTG TTTA
1 TTTA TTTA TTTA -TTTA TT-TA TT--TA TTTA TTTA TTTA TTTA TTTA
* * *
96007 TTT- TTTA TTAA TAT- TTTA TCTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
96034 ATAATATCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
3 8 0.14
4 35 0.62
5 8 0.14
6 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:95999 original size:35 final size:32
Alignment explanation
Indices: 95953--96022 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 32
95943 AGTGTATATT
95953 TTTATATTTTATTTATTTATTTTATTATATTAATA
1 TTTATATTTTATTTATTTA-TTT-TT-TATTAATA
* *
95988 TTTATTTTTTATTTGTTTATTTTTTATTAATA
1 TTTATATTTTATTTATTTATTTTTTATTAATA
96020 TTT
1 TTT
96023 TATCTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 11 0.33
33 2 0.06
34 3 0.09
35 17 0.52
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (32 bp):
TTTATATTTTATTTATTTATTTTTTATTAATA
Found at i:96030 original size:15 final size:15
Alignment explanation
Indices: 96023--96066 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
96013 ATTAATATTT
96023 TATCTATTTATATAA
1 TATCTATTTATATAA
96038 TATCTATTTATATAA
1 TATCTATTTATATAA
* *
96053 TATATATTTTTATA
1 TATCTATTTATATA
96067 TAATTTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TATCTATTTATATAA
Found at i:96057 original size:17 final size:17
Alignment explanation
Indices: 96023--96070 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
96013 ATTAATATTT
96023 TATCTATTTATAT-A-A
1 TATCTATTTATATAATA
96038 TATCTATTTATATAATA
1 TATCTATTTATATAATA
* *
96055 TATATTTTTATATAAT
1 TATCTATTTATATAAT
96071 TTTATCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 13 0.45
16 1 0.03
17 15 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATCTATTTATATAATA
Found at i:96135 original size:13 final size:13
Alignment explanation
Indices: 96100--96138 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
96090 TTGATTATTT
*
96100 TTTATTATTTTAA
1 TTTATAATTTTAA
96113 TATATATAATTTTAA
1 T-T-TATAATTTTAA
96128 TTTATAATTTT
1 TTTATAATTTT
96139 TTTTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATAATTTTAA
Found at i:96972 original size:9 final size:9
Alignment explanation
Indices: 96958--97059 Score: 56
Period size: 9 Copynumber: 11.3 Consensus size: 9
96948 TTAGTCAAAC
96958 ATAAAATAT
1 ATAAAATAT
*
96967 ATAAAATGT
1 ATAAAATAT
96976 AT---AT-T
1 ATAAAATAT
*
96981 ATACAAATAG
1 ATA-AAATAT
96991 ATAAAATATT
1 ATAAAATA-T
*
97001 AATAAAA-AA
1 -ATAAAATAT
97010 AT-AAATAT
1 ATAAAATAT
97018 ATTAAAATAAT
1 A-TAAAAT-AT
*
97029 AAAACAAATAT
1 -ATA-AAATAT
97040 ATAAAATAT
1 ATAAAATAT
97049 A-AAAATAT
1 ATAAAATAT
97057 ATA
1 ATA
97060 TTAATTACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 28
0.67 0.07 0.26
Matches are distributed among these distances:
5 3 0.04
6 2 0.03
7 3 0.04
8 12 0.17
9 26 0.36
10 10 0.14
11 11 0.15
12 5 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAAAATAT
Found at i:97019 original size:20 final size:20
Alignment explanation
Indices: 96991--97064 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 20
96981 ATACAAATAG
96991 ATAAA-ATATTAATAAAAAA
1 ATAAATATATTAATAAAAAA
*
97010 ATAAATATATTAAAATAATAAA
1 ATAAATATATT--AATAAAAAA
* * *
97032 ACAAATATATAAAATATAAAA
1 ATAAATATAT-TAATAAAAAA
97053 AT--ATATATTAAT
1 ATAAATATATTAAT
97065 TACTTATTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.07
19 11 0.25
20 5 0.11
21 8 0.18
22 17 0.39
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAATATATTAATAAAAAA
Found at i:97024 original size:28 final size:29
Alignment explanation
Indices: 96992--97056 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
96982 TACAAATAGA
96992 TAAAATATTAATAA-AAA-A-ATAAATATAT
1 TAAAATATTAA-AACAAATATATAAA-ATAT
*
97020 TAAAATAATAAAACAAATATATAAAATAT
1 TAAAATATTAAAACAAATATATAAAATAT
*
97049 AAAAATAT
1 TAAAATAT
97057 ATATTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.06
28 13 0.42
29 11 0.35
30 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (29 bp):
TAAAATATTAAAACAAATATATAAAATAT
Found at i:97032 original size:22 final size:21
Alignment explanation
Indices: 97001--97063 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
96991 ATAAAATATT
*
97001 AATAAAAAAATAAATATATTAA
1 AATAATAAAA-AAATATATTAA
97023 AATAATAAAACAAATATA-TAA
1 AATAATAAAA-AAATATATTAA
*
97044 AAT-ATAAAAATATATATTAA
1 AATAATAAAAAAATATATTAA
97064 TTACTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 6 0.16
20 9 0.24
21 6 0.16
22 16 0.43
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAAAAAAATATATTAA
Found at i:97574 original size:30 final size:30
Alignment explanation
Indices: 97540--97600 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
97530 ATGATGATTG
*
97540 TCATGTTTGCCACCCGGCTTTTTTTAATCA
1 TCATGTGTGCCACCCGGCTTTTTTTAATCA
*
97570 TCATGTGTGCTACCCGGCTTTTTTTAATCA
1 TCATGTGTGCCACCCGGCTTTTTTTAATCA
97600 T
1 T
97601 GTAATGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (30 bp):
TCATGTGTGCCACCCGGCTTTTTTTAATCA
Found at i:98276 original size:14 final size:15
Alignment explanation
Indices: 98257--98289 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
98247 CAAATTATTG
*
98257 AATATATA-TTTATA
1 AATATATACTTTAAA
98271 AATATATACTTTAAA
1 AATATATACTTTAAA
98286 AATA
1 AATA
98290 CAATAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATACTTTAAA
Found at i:109415 original size:17 final size:18
Alignment explanation
Indices: 109390--109425 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
109380 ATTAAAATTA
109390 AAAACAAATAAAATAATG
1 AAAACAAATAAAATAATG
*
109408 AAAA-AAATTAAATAATG
1 AAAACAAATAAAATAATG
109425 A
1 A
109426 TAAATCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (18 bp):
AAAACAAATAAAATAATG
Found at i:120234 original size:16 final size:16
Alignment explanation
Indices: 120215--120245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120205 ATAAATTTTT
*
120215 TTTATTATATTTATTG
1 TTTATTATAATTATTG
120231 TTTATTATAATTATT
1 TTTATTATAATTATT
120246 TGAAAAAATA
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:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATTATAATTATTG
Found at i:121207 original size:25 final size:24
Alignment explanation
Indices: 121148--121219 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
121138 AAATGATAAA
121148 TAAATA-AAATTACAATAAAAAAGTC
1 TAAATACAAA-TACAAT-AAAAAGTC
* * *
121173 CAATAAACAACTACAATAAAAAGTAC
1 TAA-ATACAAATACAATAAAAAGT-C
*
121199 TAAATACAAATATAATAAAAA
1 TAAATACAAATACAATAAAAA
121220 AATAAAATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
25 24 0.65
26 11 0.30
27 2 0.05
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.21
Consensus pattern (24 bp):
TAAATACAAATACAATAAAAAGTC
Found at i:123588 original size:9 final size:9
Alignment explanation
Indices: 123574--123607 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
123564 TAAGTAAAAT
123574 ATTAAATAA
1 ATTAAATAA
123583 ATTAAAT-A
1 ATTAAATAA
*
123591 CTTAAATAA
1 ATTAAATAA
123600 ATTAAATA
1 ATTAAATA
123608 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:123595 original size:17 final size:17
Alignment explanation
Indices: 123570--123608 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
123560 ATATTAAGTA
123570 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
123586 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
123603 AAATAC
1 AAATAC
123609 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:125632 original size:19 final size:21
Alignment explanation
Indices: 125587--125633 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
125577 CAAAAAAATA
*
125587 AAATAACAAAATTAATATTTT
1 AAATAACAAAATTAATATATT
**
125608 TGATAA-AAAA-TAATATATT
1 AAATAACAAAATTAATATATT
125627 AAATAAC
1 AAATAAC
125634 TCTTTATCAA
Statistics
Matches: 20, Mismatches: 5, Indels: 3
0.71 0.18 0.11
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATAACAAAATTAATATATT
Found at i:127673 original size:20 final size:20
Alignment explanation
Indices: 127650--127734 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
127640 GTTTCCAGAT
*
127650 TCGCAACGCGATTATTACTA
1 TCGCAATGCGATTATTACTA
127670 TCGCAATGCG---ATT--T-
1 TCGCAATGCGATTATTACTA
127684 TC-CAATGCGATTATTACTA
1 TCGCAATGCGATTATTACTA
*
127703 TCGCAATGCGA-TACTGACTA
1 TCGCAATGCGATTA-TTACTA
*
127723 TCGCAACGCGAT
1 TCGCAATGCGAT
127735 AATACAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 7 0.13
14 2 0.04
15 1 0.02
16 3 0.06
17 3 0.06
18 1 0.02
19 4 0.08
20 32 0.60
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTATTACTA
Found at i:127752 original size:21 final size:21
Alignment explanation
Indices: 127722--127819 Score: 117
Period size: 21 Copynumber: 4.7 Consensus size: 21
127712 GATACTGACT
127722 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* *
127743 ATCACAACGCGATAATATAAA
1 ATCGCAACGCGATAATACAAA
* * **
127764 ATCGCAATGCGA-ATTTGGAAA
1 ATCGCAACGCGATA-ATACAAA
*
127785 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
127806 ATCGCAACGCGATA
1 ATCGCAACGCGATA
127820 CTGACTTTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:127832 original size:20 final size:20
Alignment explanation
Indices: 127806--127859 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
127796 ATAATACAAA
*
127806 ATCGCAACGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
127826 TTCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
*
127846 ATCACAACGAGATA
1 ATCGCAACGAGATA
127860 ATACATAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:128625 original size:24 final size:24
Alignment explanation
Indices: 128598--128651 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
128588 GTATTCGAAA
*
128598 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
128622 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
128646 TTTGAT
1 TTTGAT
128652 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:131165 original size:20 final size:19
Alignment explanation
Indices: 131137--131191 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
131127 CAATCATCTT
*
131137 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
131157 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
131176 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
131192 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:131206 original size:33 final size:33
Alignment explanation
Indices: 131164--131255 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
131154 GGAAATGACT
131164 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
131197 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
131230 ATCGCAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
131256 TGCGAATTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:131220 original size:19 final size:19
Alignment explanation
Indices: 131144--131261 Score: 94
Period size: 19 Copynumber: 6.7 Consensus size: 19
131134 CTTAATGTCT
* **
131144 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
131164 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
131183 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
131197 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
131216 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
131230 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
131249 ATCGCAATGCGAA
1 ATCGCAATGCGAA
131262 TTTAGTTTCG
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
14 19 0.24
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 38 0.49
20 9 0.12
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:131272 original size:19 final size:19
Alignment explanation
Indices: 131250--131291 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
131240 GAAATGAAAA
131250 TCGCAATGCGAATTTAGTT
1 TCGCAATGCGAATTTAGTT
** *
131269 TCGCGTTGCGATTTTAGTT
1 TCGCAATGCGAATTTAGTT
131288 TCGC
1 TCGC
131292 GTTGCGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
TCGCAATGCGAATTTAGTT
Found at i:131292 original size:19 final size:18
Alignment explanation
Indices: 131256--131356 Score: 130
Period size: 19 Copynumber: 5.3 Consensus size: 18
131246 AAAATCGCAA
*
131256 TGCGAATTTAGTTTCGCGT
1 TGCGATTTTA-TTTCGCGT
131275 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTA-TTTCGCGT
131294 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
131313 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
* *
131332 TGCGATTTCAATTTCGCAT
1 TGCGATTT-TATTTCGCGT
131351 TGCGAT
1 TGCGAT
131357 AATCATTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
19 76 0.99
20 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.45
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:131363 original size:38 final size:38
Alignment explanation
Indices: 131286--131364 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
131276 GCGATTTTAG
* **
131286 TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATTTCGCATTGCGATAATCA
131324 TTTCGCGTTGCGA-TTTCAATTTCGCATTGCGATAATCA
1 TTTCGCGTTGCGATTTTC-ATTTCGCATTGCGATAATCA
131362 TTT
1 TTT
131365 TTTCCTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCATTTCGCATTGCGATAATCA
Found at i:131364 original size:19 final size:19
Alignment explanation
Indices: 131267--131356 Score: 139
Period size: 19 Copynumber: 4.7 Consensus size: 19
131257 GCGAATTTAG
131267 TTTCGCGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
131285 GTTTCGCGTTGCGATTTTCA
1 -TTTCGCGTTGCGATTTTCA
131305 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
131324 TTTCGCGTTGCGA-TTTCAA
1 TTTCGCGTTGCGATTTTC-A
*
131343 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
131357 AATCATTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
18 4 0.06
19 62 0.93
20 1 0.01
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:131483 original size:14 final size:14
Alignment explanation
Indices: 131464--131498 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
131454 ATCAATTAAA
131464 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
131478 AAATCATCTTTTAC
1 AAATCAACTTTTAC
131492 AAATCAA
1 AAATCAA
131499 TTAAACAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:132915 original size:21 final size:21
Alignment explanation
Indices: 132849--132915 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
132839 GTGAATCGGG
*
132849 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
132869 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
132891 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
132912 CTCT
1 CTCT
132916 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:132934 original size:42 final size:41
Alignment explanation
Indices: 132849--132971 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
132839 GTGAATCGGG
* * * *
132849 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
132891 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
132933 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
132972 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:133521 original size:94 final size:94
Alignment explanation
Indices: 133360--133602 Score: 409
Period size: 94 Copynumber: 2.6 Consensus size: 94
133350 GAATAGTTTC
133360 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
133425 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
* *
133454 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
*
133519 ACAGTGTTAAATAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
* *
133548 AATTGGCAGCAATA-AAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAA
1 AATTGGCAGCAA-ACGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAA
133603 ACAAAAGACA
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
93 18 0.13
94 122 0.87
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.20
Consensus pattern (94 bp):
AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:133597 original size:12 final size:12
Alignment explanation
Indices: 133580--133614 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
133570 TTACTTCAAC
133580 CAAAAGACAAAA
1 CAAAAGACAAAA
133592 CAAAAGACAAAA
1 CAAAAGACAAAA
133604 CAAAAGACAAA
1 CAAAAGACAAA
133615 TACTAACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.74, C:0.17, G:0.09, T:0.00
Consensus pattern (12 bp):
CAAAAGACAAAA
Found at i:133669 original size:102 final size:105
Alignment explanation
Indices: 133487--133676 Score: 298
Period size: 102 Copynumber: 1.8 Consensus size: 105
133477 TACTTTCAAC
*
133487 CAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAGCAGAATT
1 CAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAGCAGAATT
*
133552 GGCAGCAATAAAATAAATTTACTTCAACCAAAAGACAAAA
66 GGCAGCAACAAAATAAATTTACTTCAACCAAAAGACAAAA
*
133592 CAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT-AAT-A-A-ACAGTTTAGCAGTAT
1 CAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAGCAGAAT
**
133653 TGGCAGCAACCGAATAAATTTACT
65 TGGCAGCAACAAAATAAATTTACT
133677 AAGCAATCTA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
102 35 0.44
103 1 0.01
104 1 0.01
105 15 0.19
106 27 0.34
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.22
Consensus pattern (105 bp):
CAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAATACACAGTTTAGCAGAATT
GGCAGCAACAAAATAAATTTACTTCAACCAAAAGACAAAA
Found at i:135487 original size:20 final size:19
Alignment explanation
Indices: 135364--135496 Score: 132
Period size: 20 Copynumber: 7.1 Consensus size: 19
135354 TCTTTTGGTT
*
135364 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
135383 GAGAATGAAAATGGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
135403 GGAAATGACTATCGCAACGT
1 -GAAATGAAAATCGCAACGC
135423 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
135440 G--A-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACGC
135456 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
135475 GAAATGAAAAATCGCAATGC
1 GAAATG-AAAATCGCAACGC
135495 GA
1 GA
135497 TTTTGGTTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 34 0.37
20 42 0.45
21 2 0.02
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:135516 original size:19 final size:19
Alignment explanation
Indices: 135492--135609 Score: 94
Period size: 19 Copynumber: 6.7 Consensus size: 19
135482 AAAATCGCAA
** *
135492 TGCGATTTTGGTTTTGCGT
1 TGCGATTTTCATTTCGCGT
135511 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
135530 TGCGA--TT-A--TCTCGT
1 TGCGATTTTCATTTCGCGT
135544 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
135563 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
**
135577 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
135597 TGCGATTTTCATT
1 TGCGATTTTCATT
135610 CTCGAAACTA
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.26
16 5 0.06
17 6 0.08
19 32 0.41
20 15 0.19
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:135550 original size:33 final size:33
Alignment explanation
Indices: 135508--135603 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
135498 TTTGGTTTTG
135508 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
*
135541 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
**
135574 CGTTGCGATAGTCATTTCCGCGTTGCGATT
1 CGTTGCGATTTTCATTT-CGCGTTGCGATT
135604 TTCATTCTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 47 0.80
34 12 0.20
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
Found at i:136159 original size:20 final size:19
Alignment explanation
Indices: 136134--136245 Score: 107
Period size: 20 Copynumber: 5.6 Consensus size: 19
136124 GCTATGAAAA
*
136134 TCGCATTGCGATAGTCATAT
1 TCGCATTGCGAT-TTCATAT
*
136154 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTT-CATAT
*
136174 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGA-TTTCAT-AT
* *
136195 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTT-CATAT
* *
136215 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTT-CATAT
136235 TCGCATTGCGA
1 TCGCATTGCGA
136246 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
19 1 0.01
20 60 0.76
21 18 0.23
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (19 bp):
TCGCATTGCGATTTCATAT
Found at i:136204 original size:41 final size:40
Alignment explanation
Indices: 136132--136245 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 40
136122 GCGCTATGAA
**
136132 AATCGCATTGCGATAGTCATATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTTCATATTCGCATTGCGATTTACGT
* * *
136172 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTT
1 AATCGCATTGCGATTTTCAT-ATTCGCATTGCGATTTACGT
* * *
136213 AATCGCGTTGCGATTTACGTATTCGCATTGCGA
1 AATCGCATTGCGATTTTCATATTCGCATTGCGA
136246 ATTATGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 29 0.45
41 35 0.55
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (40 bp):
AATCGCATTGCGATTTTCATATTCGCATTGCGATTTACGT
Found at i:136258 original size:41 final size:41
Alignment explanation
Indices: 136126--136368 Score: 135
Period size: 41 Copynumber: 6.0 Consensus size: 41
136116 CGAATGGCGC
* * *
136126 TATGAAAATCGCATTGCGATAGT-CATATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTACGTATTCGCATTGCGAAT
* * * * * *
136167 TACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
136208 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
** * * * *
136248 TATGAAAATCGCAACGCGA-ATGCGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * * * *
136289 TAGGAAAATTGCGTTGC-AGTCA-GTA-TCGCATTGCG-AT
1 TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
* * * * *
136326 TTTCCAAATTCGCATTTCGATTTACTTATTCGCATTGCGAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
136368 T
1 T
136369 GGAAAAATCG
Statistics
Matches: 152, Mismatches: 38, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
37 3 0.02
38 18 0.12
39 6 0.04
40 40 0.26
41 82 0.54
42 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:136260 original size:61 final size:60
Alignment explanation
Indices: 136126--136260 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 60
136116 CGAATGGCGC
*
136126 TATGAAAATCGCATTGCGATAGTCATATTCGCATTGCGATTTACGTATTCGCATTGCGAT
1 TATGAAAATCGCATTGCGATAGTCATAATCGCATTGCGATTTACGTATTCGCATTGCGAT
* ** * * * *
136186 TTTCCTAATTCGCATTGCGAT-TTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TAT-GAAAATCGCATTGCGATAGT-CATAATCGCATTGCGATTTACGTATTCGCATTGCG-AT
136248 TATGAAAATCGCA
1 TATGAAAATCGCA
136261 ACGCGAATGC
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
60 3 0.05
61 53 0.88
62 4 0.07
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (60 bp):
TATGAAAATCGCATTGCGATAGTCATAATCGCATTGCGATTTACGTATTCGCATTGCGAT
Found at i:136266 original size:21 final size:21
Alignment explanation
Indices: 136242--136297 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
136232 TATTCGCATT
*
136242 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* * *
136263 GCGAA-TGCGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
136283 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
136298 TGCGTTGCAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:136340 original size:21 final size:20
Alignment explanation
Indices: 136314--136365 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
136304 GCAGTCAGTA
*
136314 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
136335 TCGCATTTCGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
136355 TCGCATTGCGA
1 TCGCATTGCGA
136366 ATTGGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:136407 original size:21 final size:23
Alignment explanation
Indices: 136355--136407 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
136345 ATTTACTTAT
136355 TCGC-ATTGCG-AATTGGAAAAA
1 TCGCAATTGCGAAATTGGAAAAA
*
136376 TCGCAA-CGCGAAATTGG-AAAA
1 TCGCAATTGCGAAATTGGAAAAA
136397 TCG-AATTGCGA
1 TCGCAATTGCGA
136408 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 7 0.26
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (23 bp):
TCGCAATTGCGAAATTGGAAAAA
Found at i:136423 original size:120 final size:119
Alignment explanation
Indices: 136195--136425 Score: 283
Period size: 120 Copynumber: 1.9 Consensus size: 119
136185 TTTTCCTAAT
** * *
136195 TCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGC
1 TCGCATTGCGATTTACCAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGC
* *
136260 AACGCGAATGCGTAAATCGCAATGCGAATTAGGAAAATTGCGTTGCAGTCAGTA
66 AACGCGAATGCGAAAATCGCAATGCGAATTAGGAAAATCGCGTTGCAGTCAGTA
* * *
136314 TCGCATTGCGATTTTCCAAATTCGCATTTCGATTTACTTATTCGCATTGCGAATT-GGAAAAATC
1 TCGCATTGCGATTTACCAAA-TCGCATTGCGATTTACGTATTCGCATTGCGAATTAGG-AAAATC
*
136378 GCAACGCGAAATTG-GAAAATCG-AATTGCG-A-TAGTAATAATCGCGTTGC
64 GCAACGCG-AA-TGCGAAAATCGCAA-TGCGAATTAGGAA-AATCGCGTTGC
136426 GAATCTGGAA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
119 23 0.24
120 58 0.60
121 13 0.14
122 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (119 bp):
TCGCATTGCGATTTACCAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGC
AACGCGAATGCGAAAATCGCAATGCGAATTAGGAAAATCGCGTTGCAGTCAGTA
Found at i:141632 original size:13 final size:13
Alignment explanation
Indices: 141614--141647 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
141604 AAATATGAAC
141614 ATCCATTCATCAA
1 ATCCATTCATCAA
141627 ATCCATTCATCAA
1 ATCCATTCATCAA
*
141640 ATTCATTC
1 ATCCATTC
141648 TCCTAATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (13 bp):
ATCCATTCATCAA
Found at i:155974 original size:11 final size:11
Alignment explanation
Indices: 155958--155982 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
155948 GTATACCGAC
155958 TTTCAAAAGTA
1 TTTCAAAAGTA
155969 TTTCAAAAGTA
1 TTTCAAAAGTA
155980 TTT
1 TTT
155983 AAGGTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTCAAAAGTA
Found at i:162381 original size:16 final size:16
Alignment explanation
Indices: 162360--162392 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
162350 ATTTCTTTAT
162360 ACTAAAGTGATAATAA
1 ACTAAAGTGATAATAA
162376 ACTAAAGTGATAATAA
1 ACTAAAGTGATAATAA
162392 A
1 A
162393 ATAGTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (16 bp):
ACTAAAGTGATAATAA
Found at i:165332 original size:31 final size:31
Alignment explanation
Indices: 165294--165480 Score: 268
Period size: 31 Copynumber: 6.0 Consensus size: 31
165284 CCCAAATGAC
* * *
165294 CAGTCCATATATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
* *
165325 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
* *
165356 CAATTCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
*
165387 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
*
165418 CAGTCCATA-AGTCCCGAATAACATAGGTAAA
1 CAGTCCATATA-TCCCGAAGAACATAGGTAAA
*
165449 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
165480 C
1 C
165481 CCTCAACCCT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGTCCATATATCCCGAAGAACATAGGTAAA
Found at i:166915 original size:2 final size:2
Alignment explanation
Indices: 166903--167081 Score: 179
Period size: 2 Copynumber: 91.5 Consensus size: 2
166893 ATTTCCTTGT
166903 TA TA TA T- 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
* ** ** * *
166944 TA TA TA TA TA TA TA TA TA TG T- TA GC CC TA GTG TT 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
* * * * * * * *
166985 TC GA TG TA TA TA TA T- TT TT TT TT TA CA TA -A 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
167025 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
167067 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
167082 TTACTATTTT
Statistics
Matches: 153, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
1 5 0.03
2 147 0.96
3 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:177433 original size:8 final size:8
Alignment explanation
Indices: 177420--177478 Score: 86
Period size: 8 Copynumber: 7.6 Consensus size: 8
177410 CCTAAGTTAA
177420 AAAAAAAG
1 AAAAAAAG
177428 AAAAAAAG
1 AAAAAAAG
177436 -AAAAAAG
1 AAAAAAAG
177443 AAAAAAAG
1 AAAAAAAG
177451 -AAAAAAG
1 AAAAAAAG
*
177458 AGAAAAAG
1 AAAAAAAG
*
177466 AACAAAAG
1 AAAAAAAG
177474 AAAAA
1 AAAAA
177479 GAAAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 14 0.31
8 31 0.69
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:177441 original size:15 final size:15
Alignment explanation
Indices: 177421--177478 Score: 98
Period size: 15 Copynumber: 3.8 Consensus size: 15
177411 CTAAGTTAAA
177421 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
177436 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
177451 AAAAAAGAGAAAAAG
1 AAAAAAGAAAAAAAG
177466 AACAAAAGAAAAA
1 AA-AAAAGAAAAA
177479 GAAAAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 31 0.77
16 9 0.22
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:177450 original size:23 final size:24
Alignment explanation
Indices: 177422--177478 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
177412 TAAGTTAAAA
*
177422 AAAAAGAAAAAAAG-AAAAAAGAA
1 AAAAAGAAAAAAAGAAAAAAAGAG
*
177445 AAAAAG-AAAAAAGAGAAAAAGA-
1 AAAAAGAAAAAAAGAAAAAAAGAG
177467 ACAAAAGAAAAA
1 A-AAAAGAAAAA
177479 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.27
23 18 0.60
24 4 0.13
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAAAGAAAAAAAGAG
Found at i:180059 original size:2 final size:2
Alignment explanation
Indices: 180054--180102 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
180044 TTACTTTTTT
180054 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
180096 TA TA TA T
1 TA TA TA T
180103 CTTTACTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:181231 original size:9 final size:9
Alignment explanation
Indices: 181213--181242 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
181203 ATACATACAT
*
181213 TTCATGTCA
1 TTCATTTCA
181222 TTCATTTCA
1 TTCATTTCA
181231 TTCATTTCA
1 TTCATTTCA
181240 TTC
1 TTC
181243 TCTATATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.53
Consensus pattern (9 bp):
TTCATTTCA
Found at i:184838 original size:31 final size:32
Alignment explanation
Indices: 184800--184924 Score: 136
Period size: 31 Copynumber: 4.0 Consensus size: 32
184790 CCCGAAGAAC
* * *
184800 CAGTCCATAGAT-TCCGAAGAACCTAGGTAAT
1 CAGTCCATATATGTCCGAAGAACATAGGTAAA
*
184831 CAGTCC--ATATGTCCTAAAGAACATAGGTAAA
1 CAGTCCATATATGTCC-GAAGAACATAGGTAAA
*
184862 CAGT-C-TATATGTCTCGAAGAATATAGGTAAA
1 CAGTCCATATATGTC-CGAAGAACATAGGTAAA
*
184893 CAGTCCATATAT-CCCGAAGAACATAGGTAAA
1 CAGTCCATATATGTCCGAAGAACATAGGTAAA
184924 C
1 C
184925 TCTCGACCCT
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.04
30 4 0.05
31 65 0.81
32 3 0.04
33 5 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (32 bp):
CAGTCCATATATGTCCGAAGAACATAGGTAAA
Found at i:192812 original size:81 final size:81
Alignment explanation
Indices: 192692--192846 Score: 265
Period size: 81 Copynumber: 1.9 Consensus size: 81
192682 TATTGGTCAG
* * *
192692 TTTTTTCATATCAGGTTTTGTAGAGACTCATTATGGAGATAATCTTCTTAACTCAGTTTACTTTA
1 TTTTTTCAAATCAGGTTTTGTAGAGACTCATTATAGAGATAATCTTCTCAACTCAGTTTACTTTA
192757 TTTATAACATTAAGAT
66 TTTATAACATTAAGAT
*
192773 TTTTTTCAAATCAGGTTTTGTAGAGGCTCATTATAGAGATAATCTTCTCAACTCAGTTTACTTTA
1 TTTTTTCAAATCAGGTTTTGTAGAGACTCATTATAGAGATAATCTTCTCAACTCAGTTTACTTTA
*
192838 TTTGTAACA
66 TTTATAACA
192847 ACAAAATTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (81 bp):
TTTTTTCAAATCAGGTTTTGTAGAGACTCATTATAGAGATAATCTTCTCAACTCAGTTTACTTTA
TTTATAACATTAAGAT
Found at i:195115 original size:17 final size:17
Alignment explanation
Indices: 195093--195139 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
195083 AATAATATAC
195093 ATATATAATA-TAAATTT
1 ATATATAA-ACTAAATTT
*
195110 ATATATAAACTATATTT
1 ATATATAAACTAAATTT
195127 ATATTATAAACTA
1 ATA-TATAAACTA
195140 TATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 17 0.63
18 9 0.33
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAAACTAAATTT
Found at i:195129 original size:15 final size:15
Alignment explanation
Indices: 195111--195211 Score: 57
Period size: 18 Copynumber: 6.6 Consensus size: 15
195101 TATAAATTTA
195111 TATATAAACTATATTT
1 TATATAAACTATA-TT
195127 ATATTATAAACTATATAAT
1 -TA-TATAAACTATAT--T
*
195146 TATTATAAGCTATA--
1 TA-TATAAACTATATT
* *
195160 TATATAAATTATGTT
1 TATATAAACTATATT
* *
195175 TATGTGAACTATA--
1 TATATAAACTATATT
*
195188 TATATAAACTATATA
1 TATATAAACTATATT
*
195203 TGTATAAAC
1 TATATAAAC
195212 GATAAAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
13 19 0.29
14 2 0.03
15 17 0.26
17 3 0.05
18 24 0.36
19 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (15 bp):
TATATAAACTATATT
Done.