Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003397.1 Hibiscus syriacus cultivar Beakdansim tig00007145_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: 156516
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:10141 original size:213 final size:213
Alignment explanation
Indices: 9769--10195 Score: 728
Period size: 213 Copynumber: 2.0 Consensus size: 213
9759 TGTGGTGTTA
* *
9769 CCTTATGGATTGGAGTTTTTACCTAGACTCCAACAATCCTTCTTCAAGTGACCATTCTTTCCATA
1 CCTTATGGATTGGAGTTTTTACCTAGACTCCAACAATCCTTCTTCAAGTGACCATTATTTCCACA
* * *
9834 GTTGTAGCATTTTAAATTCTTTTTGCTTATCGACTTTGATCTACCATGTTTGTGACTGCTACTTT
66 ATTGTAACACTTTAAATTCTTTTTGCTTATCGACTTTGATCTACCATGTTTGTGACTGCTACTTT
*
9899 GGCCACGTTCTGTTCACCTCCCTCTCATCGTTCTCAACACTTCTGCTTGTTGCAGATTTACTTGT
131 GGCCACGTTCTATTCACCTCCCTCTCATCGTTCTCAACACTTCTGCTTGTTGCAGATTTACTTGT
*
9964 CTGTCTTTCTTGCTCTTG
196 CTATCTTTCTTGCTCTTG
* * *
9982 CCTTGTGGATTGGAGTTTTTACCTAGACTCCAACAATCCTTCTTCAAGTGATCATTATTTTCACA
1 CCTTATGGATTGGAGTTTTTACCTAGACTCCAACAATCCTTCTTCAAGTGACCATTATTTCCACA
* * * *
10047 ATTGTAACACTTTAAATTCTTTTTGCTTCTCGACTTTGATCTACCATGTTTGTGATTGTTGCTTT
66 ATTGTAACACTTTAAATTCTTTTTGCTTATCGACTTTGATCTACCATGTTTGTGACTGCTACTTT
10112 GGCCACGTTCTATTCACCTCCCTCTCATCGTTCTCAACACTTCTGCTTGTTGCAGATTTACTTGT
131 GGCCACGTTCTATTCACCTCCCTCTCATCGTTCTCAACACTTCTGCTTGTTGCAGATTTACTTGT
10177 CTATCTTTCTTGCTCTTG
196 CTATCTTTCTTGCTCTTG
10195 C
1 C
10196 GCCAATTTTC
Statistics
Matches: 200, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
213 200 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (213 bp):
CCTTATGGATTGGAGTTTTTACCTAGACTCCAACAATCCTTCTTCAAGTGACCATTATTTCCACA
ATTGTAACACTTTAAATTCTTTTTGCTTATCGACTTTGATCTACCATGTTTGTGACTGCTACTTT
GGCCACGTTCTATTCACCTCCCTCTCATCGTTCTCAACACTTCTGCTTGTTGCAGATTTACTTGT
CTATCTTTCTTGCTCTTG
Found at i:12360 original size:3 final size:3
Alignment explanation
Indices: 12352--12408 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
12342 AATCATTGAA
** * *
12352 ATT ATT ATT ATT AAA ATT ATT ATT ATT AAT AAT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12399 ATT ATT ATT A
1 ATT ATT ATT A
12409 AATAAATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:12417 original size:26 final size:26
Alignment explanation
Indices: 12367--12419 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12357 TATTATTAAA
*
12367 ATTATTATTATTAATAATATTATATT
1 ATTATTATTATTAATAATATAATATT
*
12393 ATTATTATTATTATTAA-ATAAATATT
1 ATTATTATTATTAATAATAT-AATATT
12419 A
1 A
12420 CACATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTATTATTATTAATAATATAATATT
Found at i:12606 original size:22 final size:22
Alignment explanation
Indices: 12557--12609 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
12547 ATGCACCCAG
* *
12557 CCGCCGCTGGGAAGATGAACAG
1 CCGCCTCTGGGAAGATGAACAA
12579 CCGCCTCTGGGAAGATGAACAA
1 CCGCCTCTGGGAAGATGAACAA
12601 CCGCCTCTG
1 CCGCCTCTG
12610 ATATACCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.30, T:0.13
Consensus pattern (22 bp):
CCGCCTCTGGGAAGATGAACAA
Found at i:13770 original size:16 final size:17
Alignment explanation
Indices: 13727--13800 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 17
13717 CACTACTTTC
13727 ATTTATTTTTACAAGTTTT
1 ATTTATTTTT-CAA-TTTT
13746 A-TTACTTTTT-AATTTT
1 ATTTA-TTTTTCAATTTT
*
13762 ATTTATTTTAGTCATTGTTT
1 ATTTATTTT--TCAAT-TTT
13782 ATTTATATTTT-AATTTT
1 ATTTAT-TTTTCAATTTT
13799 AT
1 AT
13801 ATGTTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
16 9 0.20
17 10 0.22
18 6 0.13
19 9 0.20
20 9 0.20
21 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTATTTTTCAATTTT
Found at i:13822 original size:15 final size:14
Alignment explanation
Indices: 13783--13825 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
13773 TCATTGTTTA
13783 TTTATAT-TTTAAT
1 TTTATATATTTAAT
* *
13796 TTTATATGTTTATT
1 TTTATATATTTAAT
13810 TTTAATATATTTAAT
1 TTT-ATATATTTAAT
13825 T
1 T
13826 ATTACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 7 0.28
14 8 0.32
15 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATATATTTAAT
Found at i:14198 original size:2 final size:2
Alignment explanation
Indices: 14191--14218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14181 ATAAATATCT
14191 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
14219 CAAATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19583 original size:10 final size:10
Alignment explanation
Indices: 19568--19601 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19558 CAATTGAAGT
19568 AAAAAAA-GA
1 AAAAAAAGGA
*
19577 AAAAAAAGGG
1 AAAAAAAGGA
19587 AAAAAAAGGA
1 AAAAAAAGGA
19597 AAAAA
1 AAAAA
19602 GGGAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAGGA
Found at i:19590 original size:18 final size:18
Alignment explanation
Indices: 19568--19609 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
19558 CAATTGAAGT
19568 AAAAAAAGAAAAAAAAGGG
1 AAAAAAAG-AAAAAAAGGG
*
19587 AAAAAAAGGAAAAAAGGG
1 AAAAAAAGAAAAAAAGGG
19605 AAAAA
1 AAAAA
19610 TTGAATCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGGG
Found at i:19606 original size:9 final size:9
Alignment explanation
Indices: 19578--19609 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19568 AAAAAAAGAA
19578 AAAAAAGGG
1 AAAAAAGGG
*
19587 AAAAAAAGG
1 AAAAAAGGG
19596 AAAAAAGGG
1 AAAAAAGGG
19605 AAAAA
1 AAAAA
19610 TTGAATCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAAAAAGGG
Found at i:24125 original size:22 final size:22
Alignment explanation
Indices: 24066--24110 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24056 TCTACATCTA
24066 CATTCTTCAAAGATGATAGATT
1 CATTCTTCAAAGATGATAGATT
24088 CATTCTTCAAAGATGATAGATT
1 CATTCTTCAAAGATGATAGATT
24110 C
1 C
24111 TCTTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (22 bp):
CATTCTTCAAAGATGATAGATT
Found at i:24857 original size:45 final size:45
Alignment explanation
Indices: 24788--26982 Score: 3317
Period size: 45 Copynumber: 49.6 Consensus size: 45
24778 GGGCCATCCA
*
24788 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
24833 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
24878 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
24923 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
24968 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25013 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGCCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
25058 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
25103 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
25148 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25193 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25238 TGATCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25283 TAAGCCCTTCAATGCATGATGTTATCAAAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25328 TAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTAATCTA
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25373 TAAG------A---CCT-ATGTTATCAAAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* ** * *
25408 TAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAGCCATCTA
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25453 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25498 TAAGCCCTCCAGTGAATGATGTTTTCAAAACCTTTGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
25543 TAAGCCCTTCAGTGCATGATGTTTTCGAAACCTTCAGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25588 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25633 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25678 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25723 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGCCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
25768 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
25813 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25858 TAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
25903 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25948 TGAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCTGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
25993 TAAGCCCTTCAATGCATGATGTTATCAAAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
26038 TAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTAATCTA
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
26083 TAAG------A---CCT-ATGTTATCAAAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * ** *
26118 TAAGCCCTTCAGTGTATGATGTTTTTAAAACCTTCAAGCCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
26163 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26208 TAAGCCCTCCAGTGAATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26253 TAAGGCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26298 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTA
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
26343 TAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26388 TAAGCCCTTCAGTGCATGATTTTTTCAAAACCTTCGAGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
26433 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGCCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26478 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGCCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26523 TAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
26568 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
*
26613 TAAGCCCTTCAGTGCATGATGTTTTCAAAATCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
26658 TAAGCCCTTCAGTGCATGATG--TT---AACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26698 TGAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * * *
26743 TAAGCCCTTCAATGCATGATGTTATCACAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * * *
26788 TAAGCCCTTCAGTGTATGATGTTTTCCAAACCTTCGGGTAATCTA
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* * *
26833 TAAG------A---CCT-ATGTTATCAAAACCTTAGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* ** * *
26868 TAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAGCCATCTT
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
* *
26913 TAAGACCTTCAGTGCATGATGTTTTTAAAACCTTCGGGTCATCTG
1 TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
26958 TAAGCCCTTCAGTGCATGATGTTTT
1 TAAGCCCTTCAGTGCATGATGTTTT
26983 TAGGATCTCT
Statistics
Matches: 1941, Mismatches: 174, Indels: 70
0.89 0.08 0.03
Matches are distributed among these distances:
35 80 0.04
36 3 0.00
39 3 0.00
40 35 0.02
41 3 0.00
42 2 0.00
43 2 0.00
44 3 0.00
45 1810 0.93
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (45 bp):
TAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
Found at i:26487 original size:20 final size:20
Alignment explanation
Indices: 26462--26532 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
26452 TGTTTTCAAA
26462 ACCTTCGGGCCATCTGTAAG
1 ACCTTCGGGCCATCTGTAAG
* * *
26482 ACCTTCAGTG-CATGATGTTTTCAAA
1 ACCTTC-GGGCCAT-CTG---T-AAG
26507 ACCTTCGGGCCATCTGTAAG
1 ACCTTCGGGCCATCTGTAAG
26527 ACCTTC
1 ACCTTC
26533 AGTGCATGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 17 0.45
21 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (20 bp):
ACCTTCGGGCCATCTGTAAG
Found at i:26706 original size:20 final size:20
Alignment explanation
Indices: 26644--26706 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
26634 TTTTCAAAAT
26644 CTTCGGGTCATCTGTAAGCC
1 CTTCGGGTCATCTGTAAGCC
* *
26664 CTTC-AGTGCATGATGTTAA--C
1 CTTCGGGT-CAT-CTG-TAAGCC
*
26684 CTTCGGGTCATCTGTGAGCC
1 CTTCGGGTCATCTGTAAGCC
26704 CTT
1 CTT
26707 TAGTGCATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
20 19 0.59
21 4 0.12
22 3 0.09
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CTTCGGGTCATCTGTAAGCC
Found at i:26917 original size:80 final size:80
Alignment explanation
Indices: 26761--26920 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 80
26751 TCAATGCATG
* * **
26761 ATGTTATCACAACCTTAGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCCAAACCTTCGGG
1 ATGTTATCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAG
*
26826 TAATCTATAAGACCT
66 CAATCTATAAGACCT
26841 ATGTTATCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAG
1 ATGTTATCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAG
* *
26906 CCATCTTTAAGACCT
66 CAATCTATAAGACCT
26921 TCAGTGCATG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (80 bp):
ATGTTATCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCAAG
CAATCTATAAGACCT
Found at i:27145 original size:3 final size:3
Alignment explanation
Indices: 27137--27216 Score: 135
Period size: 3 Copynumber: 27.0 Consensus size: 3
27127 TCATTTCGTT
**
27137 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27185 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27217 AATAAATATT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:28602 original size:17 final size:17
Alignment explanation
Indices: 28577--28635 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
28567 TTTTTACAAG
28577 TTTTA-TTATTTTTTAA
1 TTTTATTTATTTTTTAA
* *
28593 TTTTATTTATTTTAGTCAT
1 TTTTATTTATTTT--TTAA
*
28612 TGTTTATTTATATTTTAA
1 T-TTTATTTATTTTTTAA
28630 TTTTAT
1 TTTTAT
28636 ATGTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.15
17 12 0.35
18 3 0.09
19 3 0.09
20 11 0.32
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTTATTTTTTAA
Found at i:28657 original size:15 final size:14
Alignment explanation
Indices: 28618--28660 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
28608 TCATTGTTTA
28618 TTTATAT-TTTAAT
1 TTTATATATTTAAT
* *
28631 TTTATATGTTTATT
1 TTTATATATTTAAT
28645 TTTAATATATTTAAT
1 TTT-ATATATTTAAT
28660 T
1 T
28661 ATTACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 7 0.28
14 8 0.32
15 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATATATTTAAT
Found at i:31029 original size:21 final size:21
Alignment explanation
Indices: 31005--31046 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30995 CCTAAGGAAT
*
31005 TAATAGATGAATTAAAAAATA
1 TAATAAATGAATTAAAAAATA
31026 TAATAAATGAATTAAAAAATA
1 TAATAAATGAATTAAAAAATA
31047 GGAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
TAATAAATGAATTAAAAAATA
Found at i:31572 original size:33 final size:33
Alignment explanation
Indices: 31525--31587 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
31515 ATACCTAATT
*
31525 TTCACCTAAATAAATTGATGTAAGCAATGACTC
1 TTCACCTAAATAAATTGATGTAAGAAATGACTC
* *
31558 TTCACTTAACTAAATTGATGTAAGAAATGA
1 TTCACCTAAATAAATTGATGTAAGAAATGA
31588 AATCAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (33 bp):
TTCACCTAAATAAATTGATGTAAGAAATGACTC
Found at i:33138 original size:16 final size:16
Alignment explanation
Indices: 33117--33147 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33107 GCAACCATTC
33117 GATACAAACCCATAAT
1 GATACAAACCCATAAT
33133 GATACAAACCCATAA
1 GATACAAACCCATAA
33148 ATACAGGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
GATACAAACCCATAAT
Found at i:35993 original size:78 final size:78
Alignment explanation
Indices: 35898--36053 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
35888 TTAAATGTAA
*
35898 AAGTATCATTTGGGTGAGTTAGAATAATTCTGGAAATTCTGGAAAGTGTGTTGATTTTGGAGTTT
1 AAGTATCATTTGGGTGAGTTAGAATAATTATGGAAATTCTGGAAAGTGTGTTGATTTTGGAGTTT
35963 AAGTATTAAGTTG
66 AAGTATTAAGTTG
35976 AAGTATCATTTGGGTGAGTTAGAATAATTATGGAAATTCTGGAAAGTGTGTTGATTTTGGAGTTT
1 AAGTATCATTTGGGTGAGTTAGAATAATTATGGAAATTCTGGAAAGTGTGTTGATTTTGGAGTTT
36041 AAGTATTAAGTTG
66 AAGTATTAAGTTG
36054 GGATTGAATT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (78 bp):
AAGTATCATTTGGGTGAGTTAGAATAATTATGGAAATTCTGGAAAGTGTGTTGATTTTGGAGTTT
AAGTATTAAGTTG
Found at i:40431 original size:24 final size:24
Alignment explanation
Indices: 40404--40452 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
40394 TGCATGACAT
40404 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
40428 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
40452 T
1 T
40453 CAGGAAGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:40603 original size:21 final size:23
Alignment explanation
Indices: 40578--40623 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
40568 TGATCATTAC
40578 ATATGAT-GCTATCATGAAT-AT
1 ATATGATAGCTATCATGAATGAT
**
40599 ATATGATATTTATCATGAATGAT
1 ATATGATAGCTATCATGAATGAT
40622 AT
1 AT
40624 TTCGGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
ATATGATAGCTATCATGAATGAT
Found at i:41137 original size:13 final size:13
Alignment explanation
Indices: 41119--41144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41109 TGATTATAAA
41119 GATATTATTATCT
1 GATATTATTATCT
41132 GATATTATTATCT
1 GATATTATTATCT
41145 TGGGATTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
GATATTATTATCT
Found at i:43851 original size:8 final size:8
Alignment explanation
Indices: 43840--43870 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
43830 GAGAGAGAGA
43840 AAAAAAAG
1 AAAAAAAG
43848 AAAAAAAG
1 AAAAAAAG
43856 AAAAAAAG
1 AAAAAAAG
43864 AAAAAAA
1 AAAAAAA
43871 AATATAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:43871 original size:28 final size:28
Alignment explanation
Indices: 43839--43901 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
43829 AGAGAGAGAG
43839 AAAAAAAAGAAAAAAAGAAAAAAAGAAA
1 AAAAAAAAGAAAAAAAGAAAAAAAGAAA
* * * * *
43867 AAAAAATATAGAAAAAGAAAAGAAGAAG
1 AAAAAAAAGAAAAAAAGAAAAAAAGAAA
43895 AAAAAAA
1 AAAAAAA
43902 TGAGAGATGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (28 bp):
AAAAAAAAGAAAAAAAGAAAAAAAGAAA
Found at i:44645 original size:24 final size:22
Alignment explanation
Indices: 44612--44679 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
44602 AAAATATGGT
44612 ATGAACAGTACCGTAGGAACAATA
1 ATGAACAGTACCGT--GAACAATA
* * *
44636 ATGAATAGTACTGTGAACACTA
1 ATGAACAGTACCGTGAACAATA
* *
44658 ATGAACAATACCATGAACAATA
1 ATGAACAGTACCGTGAACAATA
44680 CCCAAATGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
22 24 0.67
24 12 0.33
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAATA
Found at i:45486 original size:21 final size:21
Alignment explanation
Indices: 45460--45515 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
45450 CATATAAAAT
*
45460 TTGTCCCGAAGGACTACTGTA
1 TTGTCCCGAAAGACTACTGTA
45481 TTGTCCCGAAAGACTACTGTA
1 TTGTCCCGAAAGACTACTGTA
*
45502 TTGTCTCGAAAGAC
1 TTGTCCCGAAAGAC
45516 CACTATAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (21 bp):
TTGTCCCGAAAGACTACTGTA
Found at i:48597 original size:24 final size:24
Alignment explanation
Indices: 48565--48613 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48555 AGTCTTCCTG
48565 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
48589 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
48613 A
1 A
48614 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:52757 original size:16 final size:16
Alignment explanation
Indices: 52738--52774 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52728 AGCCGCCTGA
*
52738 ACCGAACTGTGCCTAG
1 ACCGAACTATGCCTAG
52754 ACCGAACTATGCCTAG
1 ACCGAACTATGCCTAG
52770 ACCGA
1 ACCGA
52775 GTCGTTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (16 bp):
ACCGAACTATGCCTAG
Found at i:53569 original size:13 final size:13
Alignment explanation
Indices: 53553--53580 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53543 TAAACGAGTG
53553 CAAGAGTAAAGTA
1 CAAGAGTAAAGTA
53566 CAAGAGTAAAGTA
1 CAAGAGTAAAGTA
53579 CA
1 CA
53581 CAAATAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.21, T:0.14
Consensus pattern (13 bp):
CAAGAGTAAAGTA
Found at i:57445 original size:13 final size:13
Alignment explanation
Indices: 57427--57533 Score: 79
Period size: 13 Copynumber: 7.3 Consensus size: 13
57417 GTCACAACCC
57427 GACCCGACCCGTT
1 GACCCGACCCGTT
57440 GACCCGACCCGTT
1 GACCCGACCCGTT
57453 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
* *
57471 TACCTGACCCGTT
1 GACCCGACCCGTT
57484 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
57502 GACCCGACCCGTT
1 GACCCGACCCGTT
*
57515 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
57530 GACC
1 GACC
57534 ATTGACCAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
13 41 0.53
15 12 0.16
18 24 0.31
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:57446 original size:18 final size:18
Alignment explanation
Indices: 57440--57512 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
57430 CCGACCCGTT
57440 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
57458 GACCCGACCCGTT-----
1 GACCCGACCCGTTGACCC
* *
57471 TACCTGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
57489 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
57507 GACCCG
1 GACCCG
57513 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
13 11 0.24
18 35 0.76
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:57459 original size:31 final size:31
Alignment explanation
Indices: 57423--57518 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
57413 ACCTGTCACA
57423 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
* *
57454 ACCCGACCCGACCCGTTTACCTGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
57485 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
57516 ACC
1 ACC
57519 GTTGACCCGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:57527 original size:15 final size:14
Alignment explanation
Indices: 57494--57540 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
57484 GACCCGACCC
*
57494 GACCCGTTGACC-C
1 GACCCGTTGACCTT
57507 GACCCGTTGACCGTT
1 GACCCGTTGACC-TT
57522 GACCCGTTGACCATT
1 GACCCGTTGACC-TT
57537 GACC
1 GACC
57541 AGAGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.40
15 18 0.60
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (14 bp):
GACCCGTTGACCTT
Found at i:58856 original size:18 final size:18
Alignment explanation
Indices: 58830--58864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58820 TCGAAAGGAC
*
58830 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
58848 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
58865 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:62660 original size:13 final size:13
Alignment explanation
Indices: 62642--62748 Score: 79
Period size: 13 Copynumber: 7.3 Consensus size: 13
62632 GTCACAACCC
62642 GACCCGACCCGTT
1 GACCCGACCCGTT
62655 GACCCGACCCGTT
1 GACCCGACCCGTT
62668 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
* *
62686 TACCTGACCCGTT
1 GACCCGACCCGTT
62699 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
62717 GACCCGACCCGTT
1 GACCCGACCCGTT
*
62730 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
62745 GACC
1 GACC
62749 ATTGACCGGA
Statistics
Matches: 77, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
13 41 0.53
15 12 0.16
18 24 0.31
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:62661 original size:18 final size:18
Alignment explanation
Indices: 62655--62727 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
62645 CCGACCCGTT
62655 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
62673 GACCCGACCCGTT-----
1 GACCCGACCCGTTGACCC
* *
62686 TACCTGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
62704 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
62722 GACCCG
1 GACCCG
62728 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
13 11 0.24
18 35 0.76
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:62674 original size:31 final size:31
Alignment explanation
Indices: 62638--62733 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
62628 ACCGGTCACA
62638 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
* *
62669 ACCCGACCCGACCCGTTTACCTGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
62700 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
62731 ACC
1 ACC
62734 GTTGACCCGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:62742 original size:15 final size:14
Alignment explanation
Indices: 62709--62755 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
62699 GACCCGACCC
*
62709 GACCCGTTGACC-C
1 GACCCGTTGACCTT
62722 GACCCGTTGACCGTT
1 GACCCGTTGACC-TT
62737 GACCCGTTGACCATT
1 GACCCGTTGACC-TT
62752 GACC
1 GACC
62756 GGAGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.40
15 18 0.60
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (14 bp):
GACCCGTTGACCTT
Found at i:64070 original size:18 final size:18
Alignment explanation
Indices: 64044--64078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64034 TCGAAAGGAC
*
64044 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
64062 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
64079 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:68658 original size:158 final size:158
Alignment explanation
Indices: 68370--68686 Score: 625
Period size: 158 Copynumber: 2.0 Consensus size: 158
68360 AATAAACTTA
68370 CCACCAAGAATTGAGTAAGCGTACTAACTGGCAAATGATAAGGAGAGTGATTTTGGAGGTTACAA
1 CCACCAAGAATTGAGTAAGCGTACTAACTGGCAAATGATAAGGAGAGTGATTTTGGAGGTTACAA
68435 TTTTGTAACTAATGAGTGGATCTAGATGTTTGAACAAGAAAAAGACAAGACGAAACACATAAGCA
66 TTTTGTAACTAATGAGTGGATCTAGATGTTTGAACAAGAAAAAGACAAGACGAAACACATAAGCA
68500 GATGAAACTAACCTCCATTACGAACTGC
131 GATGAAACTAACCTCCATTACGAACTGC
*
68528 CCACCAAGAATTGAGTAAGCGTACTAACTGGCAAATGATAAGGTGAGTGATTTTGGAGGTTACAA
1 CCACCAAGAATTGAGTAAGCGTACTAACTGGCAAATGATAAGGAGAGTGATTTTGGAGGTTACAA
68593 TTTTGTAACTAATGAGTGGATCTAGATGTTTGAACAAGAAAAAGACAAGACGAAACACATAAGCA
66 TTTTGTAACTAATGAGTGGATCTAGATGTTTGAACAAGAAAAAGACAAGACGAAACACATAAGCA
68658 GATGAAACTAACCTCCATTACGAACTGC
131 GATGAAACTAACCTCCATTACGAACTGC
68686 C
1 C
68687 TTCAATTGTA
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (158 bp):
CCACCAAGAATTGAGTAAGCGTACTAACTGGCAAATGATAAGGAGAGTGATTTTGGAGGTTACAA
TTTTGTAACTAATGAGTGGATCTAGATGTTTGAACAAGAAAAAGACAAGACGAAACACATAAGCA
GATGAAACTAACCTCCATTACGAACTGC
Found at i:72821 original size:22 final size:22
Alignment explanation
Indices: 72786--72838 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
72776 TAAAAAAAAT
*
72786 TGCAAAAAA-A-TCTAAAAAGC
1 TGCAAAAAATAGTCTAAAAACC
*
72806 TGCAAAAAATAGTCTACAAACC
1 TGCAAAAAATAGTCTAAAAACC
*
72828 T-TAAAAAATAG
1 TGCAAAAAATAG
72839 AGAAGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 10 0.36
22 9 0.32
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (22 bp):
TGCAAAAAATAGTCTAAAAACC
Found at i:73075 original size:21 final size:21
Alignment explanation
Indices: 73051--73105 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
73041 TATTTAAATT
73051 AATTAATATATACCAAACATA
1 AATTAATATATACCAAACATA
* * *
73072 AATTTATAAATATCAAACATA
1 AATTAATATATACCAAACATA
*
73093 ATATCAATATATA
1 A-ATTAATATATA
73106 TATATATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTAATATATACCAAACATA
Found at i:86379 original size:42 final size:42
Alignment explanation
Indices: 86332--86533 Score: 307
Period size: 42 Copynumber: 4.8 Consensus size: 42
86322 AGGAAGTATT
* * *
86332 CCAGGTTCATTTGCTATATGCAAGGGTAAGCCTTACAGTTTC
1 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* *
86374 CCAGGTT-CTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTC
1 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* * *
86415 CCAGGTTCTTTTACTGTGTGCAAGGGTAAGCCTTACAGTTTA
1 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* *
86457 CAAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTC
1 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
86499 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTA
1 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTA
86534 TAATTTTCCT
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 36 0.25
42 106 0.75
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
Found at i:93739 original size:42 final size:42
Alignment explanation
Indices: 93692--93900 Score: 319
Period size: 42 Copynumber: 5.0 Consensus size: 42
93682 AGGAAGTATT
93692 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
*
93734 CCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* *
93776 CCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTC
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* * * * *
93818 CAAGGTTCCTTTGCTATGTGCAATGTTAAGCCTTACAGTTTC
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
* * *
93860 CCATGTTCTTTTACTGTGTGCAAGGGTAAGACTTACAGTTT
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT
93901 TCCTAGGCTC
Statistics
Matches: 148, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 148 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (42 bp):
CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTC
Found at i:93838 original size:84 final size:84
Alignment explanation
Indices: 93692--93939 Score: 352
Period size: 84 Copynumber: 2.9 Consensus size: 84
93682 AGGAAGTATT
* *
93692 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAA
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCAAGGTTCCTTTGCTATGTGCAA
*
93757 GGGTAAGCCTTACAGTTTC
66 GGTTAAGCCTTACAGTTTC
* *
93776 CCAGGTTCTTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCCAAGGTTCCTTTGCTATGTGCAA
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCAAGGTTCCTTTGCTATGTGCAA
*
93841 TGTTAAGCCTTACAGTTTC
66 GGTTAAGCCTTACAGTTTC
* * * * * * *
93860 CCATGTTCTTTTACTGTGTGCAAGGGTAAGACTTACAGTTTTCCTAGGCTCCTCTGCTTTGTGCA
1 CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCAAGGTTCCTTTGCTATGTGCA
*
93925 CAGGTTAACCCTTAC
65 -AGGTTAAGCCTTAC
93940 CGGTGTACAG
Statistics
Matches: 145, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
84 111 0.77
85 22 0.15
86 12 0.08
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (84 bp):
CCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCAAGGTTCCTTTGCTATGTGCAA
GGTTAAGCCTTACAGTTTC
Found at i:98522 original size:35 final size:35
Alignment explanation
Indices: 98476--98596 Score: 170
Period size: 35 Copynumber: 3.5 Consensus size: 35
98466 TTTGCATCAG
* * *
98476 TTCAAGTCGAACAGAAAGAAACATCGCACTTCCGA
1 TTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGA
* * *
98511 TTCAAGTCGAACGGAAGGAGGCATCGTACTTTCGA
1 TTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGA
**
98546 TTCAAGTCGAACGGAAGGAAGCATCGCACTTCAAA
1 TTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGA
98581 TTCAAGTCGAACGGAA
1 TTCAAGTCGAACGGAA
98597 TGAGTTATCG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (35 bp):
TTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGA
Found at i:98589 original size:70 final size:70
Alignment explanation
Indices: 98476--98620 Score: 218
Period size: 70 Copynumber: 2.1 Consensus size: 70
98466 TTTGCATCAG
**
98476 TTCAAGTCGAACAGAAAGAAACATCGCACTTCCGATTCAAGTCGAACGGAAGGAGGCATCGTACT
1 TTCAAGTCGAACAGAAAGAAACATCGCACTTCAAATTCAAGTCGAACGGAAGGAGGCATCGTACT
98541 TTCGA
66 TTCGA
* * * * **
98546 TTCAAGTCGAACGGAAGGAAGCATCGCACTTCAAATTCAAGTCGAACGGAATGAGTTATCGTACT
1 TTCAAGTCGAACAGAAAGAAACATCGCACTTCAAATTCAAGTCGAACGGAAGGAGGCATCGTACT
98611 TTCGA
66 TTCGA
98616 TTCAA
1 TTCAA
98621 CTAGAATGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (70 bp):
TTCAAGTCGAACAGAAAGAAACATCGCACTTCAAATTCAAGTCGAACGGAAGGAGGCATCGTACT
TTCGA
Found at i:98619 original size:35 final size:34
Alignment explanation
Indices: 98476--98620 Score: 157
Period size: 35 Copynumber: 4.1 Consensus size: 34
98466 TTTGCATCAG
* * * *
98476 TTCAAGTCGAACAGAAAGAAACATCGCACTTCCGA
1 TTCAAGTCGAAC-GGAAGGAGCATCGCACTTTCGA
*
98511 TTCAAGTCGAACGGAAGGAGGCATCGTACTTTCGA
1 TTCAAGTCGAACGGAAGGA-GCATCGCACTTTCGA
*
98546 TTCAAGTCGAACGGAAGGAAGCATCGCAC-TTCAAA
1 TTCAAGTCGAACGGAAGG-AGCATCGCACTTTC-GA
* * *
98581 TTCAAGTCGAACGGAATGAGTTATCGTACTTTCGA
1 TTCAAGTCGAACGGAAGGAG-CATCGCACTTTCGA
98616 TTCAA
1 TTCAA
98621 CTAGAATGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
34 10 0.11
35 80 0.85
36 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (34 bp):
TTCAAGTCGAACGGAAGGAGCATCGCACTTTCGA
Found at i:106969 original size:2 final size:2
Alignment explanation
Indices: 106962--106991 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
106952 AAATCCCATT
106962 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
106992 ACAACTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:110523 original size:21 final size:21
Alignment explanation
Indices: 110497--110547 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
110487 TCTGACTATT
110497 GCATTGCGATTTTCCAAATTC
1 GCATTGCGATTTTCCAAATTC
*
110518 GCATTGCGATTTTCCTAATTC
1 GCATTGCGATTTTCCAAATTC
*
110539 GCAATGCGA
1 GCATTGCGA
110548 ATACGCAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (21 bp):
GCATTGCGATTTTCCAAATTC
Found at i:110566 original size:20 final size:20
Alignment explanation
Indices: 110537--110649 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
110527 TTTTCCTAAT
*
110537 TCGCAATGCGAATACGCAAA
1 TCGCAATGCGAATACGTAAA
* *
110557 CCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
110577 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
110597 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
110617 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
110637 TCGCAATGCGAAT
1 TCGCAATGCGAAT
110650 CTGACTATCG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:110659 original size:20 final size:20
Alignment explanation
Indices: 110537--110667 Score: 165
Period size: 20 Copynumber: 6.5 Consensus size: 20
110527 TTTTCCTAAT
* *
110537 TCGCAATGCGAATACGCAAA
1 TCGCAATGCGAATATGTAAA
* * *
110557 CCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
*
110577 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
*
110597 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
110617 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* *
110637 TCGCAATGCGAATCTG-ACTA
1 TCGCAATGCGAATATGTA-AA
110657 TCGCAATGCGA
1 TCGCAATGCGA
110668 TTTACATAGC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
19 1 0.01
20 101 0.99
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:110870 original size:22 final size:22
Alignment explanation
Indices: 110845--110910 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
110835 GGCGACATCC
110845 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
110867 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
110889 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
110911 TTCACGGACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:111286 original size:20 final size:20
Alignment explanation
Indices: 111261--111312 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
111251 CGATTTTTAT
111261 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* **
111281 TTCGCGTTGAGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
111301 TTCGTGTTGCGA
1 TTCGCGTTGCGA
111313 ATTTCATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:111343 original size:20 final size:20
Alignment explanation
Indices: 111300--111343 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
111290 AGATAGTCAT
* *
111300 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
111320 TTTCGTGTTGCG-ATTTAAAG
1 TTTCGTGTTGCGAATTT-AAG
111340 TTTC
1 TTTC
111344 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:113243 original size:20 final size:20
Alignment explanation
Indices: 113218--113400 Score: 175
Period size: 20 Copynumber: 9.5 Consensus size: 20
113208 ATAATAGTTT
113218 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
113238 ACTATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
113257 AAAATTGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
113273 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
113291 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
113311 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
113331 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
** **
113351 ACTATTACAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
* **
113371 ACTATTGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
113391 ACTATCGCAA
1 ACTATCGCAA
113401 CGAGAGAATC
Statistics
Matches: 141, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
14 6 0.04
16 4 0.03
17 4 0.03
18 3 0.02
19 12 0.09
20 112 0.79
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:113472 original size:20 final size:20
Alignment explanation
Indices: 113447--113553 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
113437 GATTCTTTCG
**
113447 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
113467 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
113487 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
113507 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
*
113527 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
113547 TTGCGAT
1 TTGCGAT
113554 TTTAAGTTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:115550 original size:14 final size:14
Alignment explanation
Indices: 115531--115566 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
115521 ATTGTTTAAT
115531 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
115545 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
115559 TGATTTGT
1 TGATTTGT
115567 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:115795 original size:28 final size:29
Alignment explanation
Indices: 115762--115834 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 29
115752 ACTAAATTCG
*
115762 CGTTGCGATTTTT-GCATTGCGATTCACT
1 CGTTGCGATTTTTCGCAATGCGATTCACT
*
115790 CGTTGCGATTTTCATTTCGCAATGCGATTCTCT
1 CGTTGCGA--TT--TTTCGCAATGCGATTCACT
115823 CGTTGCGATTTT
1 CGTTGCGATTTT
115835 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 8 0.21
29 2 0.05
30 2 0.05
31 2 0.05
32 3 0.08
33 21 0.55
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (29 bp):
CGTTGCGATTTTTCGCAATGCGATTCACT
Found at i:115817 original size:19 final size:19
Alignment explanation
Indices: 115792--115892 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 19
115782 GATTCACTCG
115792 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
115811 ATGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
115825 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
115844 TTGCGATAGTCATTTC-CA
1 TTGCGATTTTCATTTCGCA
** *
115862 CGTTGCGATAGTCATATTCGCG
1 --TTGCGATTTTCAT-TTCGCA
115884 TTGCGATTT
1 TTGCGATTT
115893 CCGCGTTGCG
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.08
16 7 0.11
17 7 0.11
18 2 0.03
19 19 0.30
20 20 0.31
21 3 0.05
22 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:115825 original size:33 final size:33
Alignment explanation
Indices: 115779--115850 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
115769 ATTTTTGCAT
115779 TGCGATTCACTCGTTGCGATTTTCATTTCGCAA
1 TGCGATTCACTCGTTGCGATTTTCATTTCGCAA
* *
115812 TGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCGATTCACTCGTTGCGATTTTCATTTCGCAA
115845 TGCGAT
1 TGCGAT
115851 AGTCATTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (33 bp):
TGCGATTCACTCGTTGCGATTTTCATTTCGCAA
Found at i:118377 original size:24 final size:24
Alignment explanation
Indices: 118326--118377 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
118316 ATCTGAGTAT
** *
118326 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
118350 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
118374 TGAC
1 TGAC
118378 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:119229 original size:20 final size:20
Alignment explanation
Indices: 119204--119290 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
119194 AAATTCAATA
119204 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
119224 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
*
119244 TTGCAATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
119264 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
119284 TTGCGAT
1 TTGCGAT
119291 TTACGTATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:119300 original size:20 final size:20
Alignment explanation
Indices: 119277--119413 Score: 184
Period size: 20 Copynumber: 6.8 Consensus size: 20
119267 CGATAGTCAG
*
119277 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
119297 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
119317 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
119337 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
119357 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
* *
119378 ATTCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
*
119398 AATCGCATTGCGATTT
1 ATTCGCATTGCGATTT
119414 TCCAAATTCA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 88 0.86
21 14 0.14
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:119394 original size:41 final size:41
Alignment explanation
Indices: 119297--119436 Score: 201
Period size: 41 Copynumber: 3.4 Consensus size: 41
119287 CGATTTACGT
* * * **
119297 ATTCGCGTTGCGATTTACGTATTCGCATTGCGA-TTTACGT
1 ATTCGCGTTGCAATTTACGTAATCGCATTGCGATTTTCCAA
* *
119337 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCAATTTACGTAATCGCATTGCGATTTTCCAA
119378 ATTCGCGTTGCAATTTACGTAATCGCATTGCGATTTTCCAA
1 ATTCGCGTTGCAATTTACGTAATCGCATTGCGATTTTCCAA
*
119419 ATTCACGTTGCAATTTAC
1 ATTCGCGTTGCAATTTAC
119437 ATATTCGTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (41 bp):
ATTCGCGTTGCAATTTACGTAATCGCATTGCGATTTTCCAA
Found at i:119443 original size:61 final size:61
Alignment explanation
Indices: 119279--119443 Score: 163
Period size: 61 Copynumber: 2.7 Consensus size: 61
119269 ATAGTCAGAT
* ** * * * *
119279 TCGCGTTGCGATTTA-CGTATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACCAAATTCGCGTTGCAATTTACATATTCGCATTGCAATTTACGTAA
** * * * * *
119339 TCGCATTGCGATTTACGTAA-TCGCATTGCGATTTTCCAAATTCGCGTTGCAATTTACGTAA
1 TCGCATTGCGATTTACCAAATTCGCGTTGC-AATTTACATATTCGCATTGCAATTTACGTAA
* *
119400 TCGCATTGCGATTTTCCAAATTCACGTTGCAATTTACATATTCG
1 TCGCATTGCGATTTACCAAATTCGCGTTGCAATTTACATATTCG
119444 TATTACGAAT
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
60 22 0.27
61 52 0.64
62 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (61 bp):
TCGCATTGCGATTTACCAAATTCGCGTTGCAATTTACATATTCGCATTGCAATTTACGTAA
Found at i:119493 original size:21 final size:21
Alignment explanation
Indices: 119449--119493 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
119439 ATTCGTATTA
**
119449 CGAATTAGGAAAATCGCAACG
1 CGAATTAGGAAAATCAAAACG
* *
119470 CGAATTTGGAAAATCAAAATG
1 CGAATTAGGAAAATCAAAACG
119491 CGA
1 CGA
119494 TAGTCAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (21 bp):
CGAATTAGGAAAATCAAAACG
Found at i:121765 original size:19 final size:19
Alignment explanation
Indices: 121715--121785 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
121705 GCAACATTGC
* *
121715 TATTATAATTATATTATAT
1 TATTATAATTATATAAAAT
*
121734 TATATTTCAAATTATATAAAAT
1 TAT-TAT--AATTATATAAAAT
121756 TATTATAATTATA-AAAAT
1 TATTATAATTATATAAAAT
*
121774 AATTATATATTA
1 TATTATA-ATTA
121786 ATTATTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 11 0.26
19 14 0.33
20 2 0.05
21 2 0.05
22 14 0.33
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATTATATAAAAT
Found at i:121768 original size:17 final size:19
Alignment explanation
Indices: 121744--121785 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
121734 TATATTTCAA
*
121744 ATTATATAAAATTATTATA-
1 ATTATA-AAAATAATTATAT
121763 ATTATAAAAATAATTATAT
1 ATTATAAAAATAATTATAT
121782 ATTA
1 ATTA
121786 ATTATTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATAAAAATAATTATAT
Found at i:122456 original size:42 final size:42
Alignment explanation
Indices: 122409--122513 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
122399 ATCATTCAAG
* *
122409 AACTTGGATGAAGGGTGGGCATTTCTAGAGTTCTCACTTGGA
1 AACTTGGATGAAGAGTGGGCATTTCTAGACTTCTCACTTGGA
**
122451 AACTTGGATGAAGAGTGGGTTTTTCTAGACTTCTCACTTGGA
1 AACTTGGATGAAGAGTGGGCATTTCTAGACTTCTCACTTGGA
*
122493 AACTT-GACAGAAGAGTGGGCA
1 AACTTGGA-TGAAGAGTGGGCA
122514 GGACAAAGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.04
42 53 0.96
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (42 bp):
AACTTGGATGAAGAGTGGGCATTTCTAGACTTCTCACTTGGA
Found at i:127088 original size:21 final size:19
Alignment explanation
Indices: 127050--127089 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
127040 AAACTACCTA
*
127050 ATTACAAAATTATCTTTAC
1 ATTACAAAATTAACTTTAC
127069 ATTACTAAAATATAACTTTAC
1 ATTAC-AAAAT-TAACTTTAC
127090 CATAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTACAAAATTAACTTTAC
Found at i:127913 original size:32 final size:30
Alignment explanation
Indices: 127846--127926 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 30
127836 ACTAATATTC
127846 TTGTGCATTATCTGAATG-AAAATCTGATA
1 TTGTGCATTATCTGAATGCAAAATCTGATA
*
127875 TCGTGCATTATCTGAATGCAAACATAAC-GATA
1 TTGTGCATTATCTGAATGCAAA-AT--CTGATA
*
127907 TTGTGCATTATCTTAATGCA
1 TTGTGCATTATCTGAATGCA
127927 CCTTAACTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.38
30 3 0.07
31 2 0.04
32 22 0.49
33 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (30 bp):
TTGTGCATTATCTGAATGCAAAATCTGATA
Found at i:130703 original size:59 final size:58
Alignment explanation
Indices: 130666--130865 Score: 197
Period size: 58 Copynumber: 3.4 Consensus size: 58
130656 ATGACACTTT
* *
130666 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAA
1 GTGTGCT-AAATGATAAGGAAATCATACTGAGTGTATAGATTACCATATGGAGCACTAA
* * *** * ** * *
130725 GTGTGCTAAATGATAAGGAAATCATATTAAAAATATGGATTTTCATATAGG-GCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTACCATAT-GGAGCA-CTAA
* * *
130784 -TGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT--AAATGATAAGGAAATCATACTGAGTGTATAGATTACCATATGGAGCACTAA
*
130843 GTGTGTTAAATGATAAGGAAATC
1 GTGTGCTAAATGATAAGGAAATC
130866 GTATTGAAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
58 57 0.50
59 15 0.13
60 41 0.36
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATACTGAGTGTATAGATTACCATATGGAGCACTAA
Found at i:130749 original size:58 final size:59
Alignment explanation
Indices: 130666--131075 Score: 277
Period size: 59 Copynumber: 7.0 Consensus size: 59
130656 ATGACACTTT
* *
130666 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTAA
* * *** * * *
130725 GTGTGCT-AAATGATAAGGAAATCATATTAAAAATATGGATTTTCATATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCA-CTAA
* * *
130784 -TGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTAA
* * * *** * * * *
130843 GTGTG-TTAAATGATAAGGAAATCGTATTGAAAATATGGATTTCCAGATAGG-GAATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAGCA-CTAA
* * * * **
130902 -TGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTAA
* * * * **
130960 GGGTGCTACAAA-GATAAGGATATCATACT-AATGGTATGGATTTTCGA-ATAGG-GCACTTC
1 GTGTGCTA-AAATGATAAGGAAATCATACTGAGT-GTATGGA-TTTCCATAT-GGAGCACTAA
* * * * *
131019 GTGTGCTAAAATGAAAATGG-AAGCATACTAAGTGTAT-GATCTTCCAGATAGAGCACT
1 GTGTGCTAAAATGATAA-GGAAATCATACTGAGTGTATGGAT-TTCCATATGGAGCACT
131076 GAGAGTGATA
Statistics
Matches: 268, Mismatches: 62, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
57 1 0.00
58 95 0.35
59 120 0.45
60 52 0.19
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTAA
Found at i:130826 original size:60 final size:59
Alignment explanation
Indices: 130660--131031 Score: 278
Period size: 59 Copynumber: 6.3 Consensus size: 59
130650 TACCGAATGA
* * *
130660 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAG
1 CACTTAGTGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAG
* * * *** *
130719 CACTAAGTGTGCT-AAATGATAAGGAAATCATATTAAAAATATGGATTTTCATATAGG-G
1 CACTTAGTGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAG
* * *
130777 CATTTTA-TGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAG
1 CA-CTTAGTGTGCT-AAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAG
* * * * *** *
130837 CACTGAGTGTG-TTAAATGATAAGGAAATCGTATTGAAAATATGGATTTCCAGATAGG-G
1 CACTTAGTGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAG
* * * * **
130895 AATTTTA-TGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAG
1 CA-CTTAGTGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAG
* * * * * * *
130954 CACTAAGGGTGCTACAAA-GATAAGGATATCATACT-AATGGTATGGATTTTCGA-ATAGG-G
1 CACTTAGTGTGCTA-AAATGGTAAGGAAATCATATTGAGT-GTATGGA-TTTCCATAT-GGAG
*
131013 CACTTCGTGTGCTAAAATG
1 CACTTAGTGTGCTAAAATG
131032 AAAATGGAAG
Statistics
Matches: 239, Mismatches: 58, Indels: 32
0.73 0.18 0.10
Matches are distributed among these distances:
58 88 0.37
59 103 0.43
60 48 0.20
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (59 bp):
CACTTAGTGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAG
Found at i:130998 original size:118 final size:116
Alignment explanation
Indices: 130667--131075 Score: 482
Period size: 118 Copynumber: 3.5 Consensus size: 116
130657 TGACACTTTG
* *
130667 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTAAGTGTGCT
*
130732 AAATGATAAGGAAATCATATTAAAAATATGGATTTTCATATAGGGCATTTTA
66 AAATGATAAGGAAATCATATT-AAAATATGGATTTTCAGATAGGGCATTTTA
* * * *
130784 TGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGT
1 TGTGCT-AAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTAAGTGTGC
* * *
130849 TAAATGATAAGGAAATCGTATTGAAAATATGGATTTCCAGATAGGGAATTTTA
65 TAAATGATAAGGAAATCATATT-AAAATATGGATTTTCAGATAGGGCATTTTA
* * * * *
130902 TGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTAAGTGTGCT
* * * ** * **
130967 ACAAAGATAAGGATATCATACTAATGGTATGGATTTTC-GAATAGGGCACTTCG
66 A-AATGATAAGGAAATCATATTAA-AATATGGATTTTCAG-ATAGGGCATTTTA
** * *
131020 TGTGCTAAAATGAAAATGG-AAGCATACTAAGTGTAT-GATCTTCCAGATAGAGCACT
1 TGTGCTAAAATGGTAA-GGAAATCATACTGAGTGTATAGAT-TTCCAGATAGAGCACT
131076 GAGAGTGATA
Statistics
Matches: 253, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
117 63 0.25
118 188 0.74
119 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (116 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTAAGTGTGCT
AAATGATAAGGAAATCATATTAAAATATGGATTTTCAGATAGGGCATTTTA
Found at i:137610 original size:58 final size:59
Alignment explanation
Indices: 137510--137830 Score: 287
Period size: 58 Copynumber: 5.5 Consensus size: 59
137500 ATGGCACTTT
* * *
137510 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTAA
* *** * * *
137569 GTGTGCT-AAATGATAAGGAAATCATATTTAAAATATGGATTTCCATA-GAGGGCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATG-GAGCA-CTAA
* * * * *
137628 -TGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCCTATGGAGCACTGA
1 GTGTGCT-AAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTAA
*** * * *
137687 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATAT-GGAGCA-CTAA
* * * **
137746 -TGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTAA
* *
137804 GGGTACTACAAA-GATAAGGAAATCATA
1 GTGTGCTA-AAATGATAAGGAAATCATA
137831 CTAATGGTAT
Statistics
Matches: 206, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.00
58 87 0.42
59 72 0.35
60 45 0.22
61 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTAA
Found at i:137725 original size:118 final size:117
Alignment explanation
Indices: 137502--137830 Score: 496
Period size: 118 Copynumber: 2.8 Consensus size: 117
137492 ATTACCGAAT
* *
137502 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
* *
137567 AAGTGTGCTAAATGATAAGGAAATCATATTTAAAATATGGATTTCCATAGAG
66 AAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGAGAG
*
137619 GGCATTTTATGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCCTATGGAGCAC
1 GGCATTTTATGTGCT-AAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCAC
* *
137684 TGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
65 TAAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGAGAG
* * * * **
137737 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACT
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
* * *
137802 AAGGGTACTACAAAGATAAGGAAATCATA
66 AAGTGTGCTA-AATGATAAGGAAATCATA
137831 CTAATGGTAT
Statistics
Matches: 192, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
117 63 0.33
118 129 0.67
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (117 bp):
GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
AAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGAGAG
Found at i:137868 original size:118 final size:114
Alignment explanation
Indices: 137502--137944 Score: 451
Period size: 118 Copynumber: 3.8 Consensus size: 114
137492 ATTACCGAAT
* * * *
137502 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACT
*
137567 AAGTGTGCTAAATGATAAGGAAATCATATTTAAAATATGGATTTCCATAGA
66 AAGTGTGCTAAATGATAAGGAAATCATA-TTAAAATATGGATTTCAATA-A
** *
137618 GGGCATTTTATGTGCTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCCTATGGAGCA
1 -GGCATTTTATGTGCT-AAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCA
* *
137683 CTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
64 CTAAGTGTGCTAAATGATAAGGAAATCATATT-AAAATATGGATTT-CA-ATAA
* * * *
137737 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACT
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACT
* * * * **
137802 AAGGGTACTACAAAGATAAGGAAATCATACTAATGGTATGGATTTTCGAATAA
66 AAGTGTGCTA-AATGATAAGGAAATCATATTAA-AATATGGA-TTTC-AATAA
** ** ** *
137855 GGCCCTTCGTGTGCTAAAATGAAAAGGGAAGT-ATACT-ATGTGTAT-GATCTTCCAGATAGAGC
1 GGCATTTTATGTGCTAAAATGGTAA-GGAAATCATACTGA-GTGTATAGAT-TTCCAGATAGAGC
* * * *
137917 ACTGAGAGTGCTAATATTAAAAGGAAAT
63 ACTAAGTGTGCTAA-ATGATAAGGAAAT
137945 TACATGAATT
Statistics
Matches: 277, Mismatches: 37, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
117 72 0.26
118 193 0.70
119 9 0.03
120 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (114 bp):
GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACT
AAGTGTGCTAAATGATAAGGAAATCATATTAAAATATGGATTTCAATAA
Found at i:137922 original size:235 final size:236
Alignment explanation
Indices: 137502--137944 Score: 515
Period size: 235 Copynumber: 1.9 Consensus size: 236
137492 ATTACCGAAT
* * **
137502 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCACTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAGCACT
* * * * * * *
137567 AAGTGTGCTAAATGATAAGGAAATCATATTTAAAATATGGATTTCCATAGAGGGCATTTTATGTG
66 AAGGGTACTAAAAGATAAGGAAATCATATCTAAAATATGGATTTCAATAGAGGGCACTTCATGTG
** ** * *
137632 CTAAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCCTATGGAGCACTGAGTGTGCTAA-
131 CTAAAAATGAAAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTGAGAGTGCTAAT
*
137696 ATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
196 ATGAAAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
* * * *
137737 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGATAAAGCACT
1 GGCACTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAGCACT
** * *
137802 AAGGGTACTACAAAGATAAGGAAATCATA-CTAATGGTATGGATTTTCGAATA-A-GGCCCTTCG
66 AAGGGTACTA-AAAGATAAGGAAATCATATCTAA-AATATGGA-TTTC-AATAGAGGGCACTTCA
*
137864 TGTGCT-AAAATGAAAAGGGAAGT-ATACT-ATGTGTAT-GATCTTCCAGATAGAGCACTGAGAG
127 TGTGCTAAAAATGAAAA-GGAAATCATACTGA-GTGTATAGAT-TTCCAGATAGAGCACTGAGAG
*
137925 TGCTAATATTAAAAGGAAAT
189 TGCTAATATGAAAAGGAAAT
137945 TACATGAATT
Statistics
Matches: 172, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
234 4 0.02
235 110 0.64
236 50 0.29
237 5 0.03
238 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (236 bp):
GGCACTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAGCACT
AAGGGTACTAAAAGATAAGGAAATCATATCTAAAATATGGATTTCAATAGAGGGCACTTCATGTG
CTAAAAATGAAAAGGAAATCATACTGAGTGTATAGATTTCCAGATAGAGCACTGAGAGTGCTAAT
ATGAAAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
Found at i:138505 original size:23 final size:22
Alignment explanation
Indices: 138463--138507 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
138453 TGCATCTGTA
*
138463 CACTGTTCACGGTAGGGTTCAT
1 CACTGTTCACGGTACGGTTCAT
*
138485 CACTGTTCACGGGTACTGTTCAT
1 CACTGTTCAC-GGTACGGTTCAT
138508 ACGTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (22 bp):
CACTGTTCACGGTACGGTTCAT
Found at i:148277 original size:90 final size:89
Alignment explanation
Indices: 148163--148337 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
148153 TCCTTAATAT
* * *
148163 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAG
*
148228 GGTAACTTGGATATAAAAGGATTA
66 GATAACTTGGATATAAAAGGATTA
148252 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTA
*
148317 GGATAACTTGGCTATAAAAGG
65 GGATAACTTGGATATAAAAGG
148338 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAG
GATAACTTGGATATAAAAGGATTA
Found at i:151787 original size:15 final size:15
Alignment explanation
Indices: 151767--151796 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
151757 GTTTTAGCCC
151767 ATTTTAATATTTAAA
1 ATTTTAATATTTAAA
*
151782 ATTTTAATTTTTAAA
1 ATTTTAATATTTAAA
151797 TCATTCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAATATTTAAA
Found at i:153391 original size:16 final size:16
Alignment explanation
Indices: 153370--153420 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
153360 GTCTCCAACG
153370 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
153386 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
153402 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
153416 TTTAT
1 TTTAT
153421 TAAATGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.15
15 2 0.06
16 26 0.79
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:154751 original size:28 final size:29
Alignment explanation
Indices: 154719--154790 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
154709 GAAAAAAATT
* *
154719 AAATAGTTTAGGTACCTATCTTGACATA-
1 AAATACTTTAGGTACCTATCTTGACAAAC
* * * *
154747 AAATACTTTAAGTACTTATTTTGATAAAC
1 AAATACTTTAGGTACCTATCTTGACAAAC
*
154776 AAATATTTTAGGTAC
1 AAATACTTTAGGTAC
154791 TTAAATGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (29 bp):
AAATACTTTAGGTACCTATCTTGACAAAC
Found at i:156179 original size:38 final size:39
Alignment explanation
Indices: 156126--156228 Score: 156
Period size: 38 Copynumber: 2.6 Consensus size: 39
156116 TAACTAATTC
156126 TATTAATTTCAAAAGTAAACGGTAAAAATGAAGTAACTAA
1 TATTAATTTCAAAAGTAAACGGTAAAAATGAA-TAACTAA
156166 -ATTAA-TTCAAAAGTAAACGGTAAAAATGAATAACTAA
1 TATTAATTTCAAAAGTAAACGGTAAAAATGAATAACTAA
156203 TTCTATTAATTTCAAAAGTAAACGGT
1 ---TATTAATTTCAAAAGTAAACGGT
156229 TAACGACAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
37 7 0.12
38 25 0.43
39 5 0.09
41 5 0.09
42 16 0.28
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (39 bp):
TATTAATTTCAAAAGTAAACGGTAAAAATGAATAACTAA
Done.