Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 78
Found at i:8518003 original size:34 final size:34
Alignment explanation
Indices: 8517965--8518039 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
8517955 ATTTTATTCT
8517965 TTATTTT-TTACTATT-TTATTTATTATTATTATTA
1 TTATTTTATTACT-TTATTA-TTATTATTATTATTA
*
8517999 TTATTTTATTTCTTTATTATTATTATTATTATTA
1 TTATTTTATTACTTTATTATTATTATTATTATTA
8518033 TTATTTT
1 TTATTTT
8518040 CACTCTAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
34 31 0.82
35 7 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (34 bp):
TTATTTTATTACTTTATTATTATTATTATTATTA
Found at i:8518058 original size:34 final size:32
Alignment explanation
Indices: 8517981--8518115 Score: 90
Period size: 34 Copynumber: 4.2 Consensus size: 32
8517971 TTTACTATTT
* *
8517981 TATTTATTATTATTATTATTATTTTATTTCTT
1 TATTTATTATTATTATTATTATTTTATCTCTA
8518013 TATTATTATTATTATTATTATTATTTTCA-CTCTAA
1 TA-T-TTATTATTATTATTATTATTTT-ATCTCT-A
*
8518048 TATTTA--ATTA-TA-TA-TATTTATATATC--
1 TATTTATTATTATTATTATTATTT-TATCTCTA
* *
8518074 CATTTATTATTATTATATATATATTTCT-TCTCTT
1 TATTTATTATTATTAT-TAT-TATTT-TATCTCTA
8518108 TATTTATT
1 TATTTATT
8518116 TTTTTAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
26 5 0.06
28 10 0.12
29 7 0.09
30 2 0.02
31 6 0.07
32 5 0.06
33 10 0.12
34 33 0.41
35 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (32 bp):
TATTTATTATTATTATTATTATTTTATCTCTA
Found at i:8518082 original size:25 final size:26
Alignment explanation
Indices: 8518049--8518097 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
8518039 TCACTCTAAT
*
8518049 ATTTAATTA-TATATATTTATATATCC
1 ATTTAATTATTAT-TATATATATATCC
8518075 ATTT-ATTATTATTATATATATAT
1 ATTTAATTATTATTATATATATAT
8518098 TTCTTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTAATTATTATTATATATATATCC
Found at i:8518284 original size:13 final size:13
Alignment explanation
Indices: 8518262--8518304 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
8518252 ATATATACTC
*
8518262 TTTTACTTATTTT
1 TTTTAATTATTTT
8518275 TTTTAATTA--TT
1 TTTTAATTATTTT
8518286 TTTTAATTATTTT
1 TTTTAATTATTTT
*
8518299 TATTAA
1 TTTTAA
8518305 CATTTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 11 0.42
13 15 0.58
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTATTTT
Found at i:8518300 original size:10 final size:11
Alignment explanation
Indices: 8518273--8518299 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8518263 TTTACTTATT
8518273 TTTTTTAATTA
1 TTTTTTAATTA
8518284 TTTTTTAATTA
1 TTTTTTAATTA
8518295 TTTTT
1 TTTTT
8518300 ATTAACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:8518318 original size:24 final size:24
Alignment explanation
Indices: 8518262--8518320 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
8518252 ATATATACTC
* * *
8518262 TTTTACTTATTTTTTTTAATTATT
1 TTTTAATTATTTTTATTAATCATT
8518286 TTTTAATTATTTTTATTAA-CATT
1 TTTTAATTATTTTTATTAATCATT
*
8518309 TATTTCATTATT
1 T-TTTAATTATT
8518321 CAAAAGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAATTATTTTTATTAATCATT
Found at i:8524664 original size:11 final size:10
Alignment explanation
Indices: 8524637--8524678 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8524627 AGTAAAATTG
*
8524637 AAATAAAATA
1 AAATTAAATA
8524647 AAA-TAAATA
1 AAATTAAATA
*
8524656 ACAGTTAAATA
1 A-AATTAAATA
8524667 AAATTAAATA
1 AAATTAAATA
8524677 AA
1 AA
8524679 GATCTCAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 6 0.22
10 14 0.52
11 7 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAATTAAATA
Found at i:8527930 original size:17 final size:17
Alignment explanation
Indices: 8527908--8527941 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8527898 TATGTCCTAC
8527908 AGCATTTGAGGCACCAT
1 AGCATTTGAGGCACCAT
8527925 AGCATTTGAGGCACCAT
1 AGCATTTGAGGCACCAT
8527942 CAAAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (17 bp):
AGCATTTGAGGCACCAT
Found at i:8530697 original size:19 final size:19
Alignment explanation
Indices: 8530675--8530719 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
8530665 GAATTTTGAG
8530675 AAGGAAAAACAATTTCGAA
1 AAGGAAAAACAATTTCGAA
*
8530694 AAGGAAAAACAATTTCGAG
1 AAGGAAAAACAATTTCGAA
8530713 AAGGAAA
1 AAGGAAA
8530720 CAAGAGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.58, C:0.09, G:0.20, T:0.13
Consensus pattern (19 bp):
AAGGAAAAACAATTTCGAA
Found at i:8538790 original size:16 final size:16
Alignment explanation
Indices: 8538741--8538793 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
8538731 TAAAATAAAG
8538741 AAAAGTTTTTGCATTT
1 AAAAGTTTTTGCATTT
* *
8538757 CAAAAGATATTG-ATTTT
1 -AAAAGTTTTTGCA-TTT
8538774 AAAAGTTTTTGCATTT
1 AAAAGTTTTTGCATTT
8538790 AAAA
1 AAAA
8538794 AGAAAAGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (16 bp):
AAAAGTTTTTGCATTT
Found at i:8538794 original size:17 final size:17
Alignment explanation
Indices: 8538741--8538795 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
8538731 TAAAATAAAG
*
8538741 AAAAGTTTTTGCATTTC
1 AAAAGTTTTTGCATTTA
* * *
8538758 AAAAGATATTG-ATTTT
1 AAAAGTTTTTGCATTTA
8538774 AAAAGTTTTTGCATTTA
1 AAAAGTTTTTGCATTTA
8538791 AAAAG
1 AAAAG
8538796 AAAAGTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (17 bp):
AAAAGTTTTTGCATTTA
Found at i:8541732 original size:21 final size:21
Alignment explanation
Indices: 8541681--8541733 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8541671 ATTCTGACTA
*
8541681 TCGCATTGCAATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
8541702 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
8541723 TCGCAATGCGA
1 TCGCATTGCGA
8541734 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:8541748 original size:20 final size:20
Alignment explanation
Indices: 8541723--8541813 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
8541713 TTTTCCTAAT
* *
8541723 TCGCAATGCGAATACGTAAA
1 TCGCAAAGCGATTACGTAAA
*
8541743 TCGCAACGCGATTACGTAAA
1 TCGCAAAGCGATTACGTAAA
8541763 TCGCAAAGCGATTACGTAAA
1 TCGCAAAGCGATTACGTAAA
8541783 TCGCAAAGCGATTACGTAAA
1 TCGCAAAGCGATTACGTAAA
*
8541803 TCGCAATGCGA
1 TCGCAAAGCGA
8541814 ATCTGACTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAAAGCGATTACGTAAA
Found at i:8542544 original size:20 final size:20
Alignment explanation
Indices: 8542519--8542558 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8542509 GTTGTGATAG
*
8542519 TCATTTTCGTGTTTCGATTT
1 TCATTTTCGTGTTGCGATTT
8542539 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
8542559 AAAGTTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.57
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:8542566 original size:20 final size:20
Alignment explanation
Indices: 8542523--8542566 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8542513 TGATAGTCAT
* ** *
8542523 TTTCGTGTTTCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
8542543 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
8542563 TTTC
1 TTTC
8542567 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:8544450 original size:20 final size:20
Alignment explanation
Indices: 8544425--8544570 Score: 205
Period size: 20 Copynumber: 7.6 Consensus size: 20
8544415 AGAATAGTTT
8544425 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
8544445 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
8544465 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
8544481 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
8544499 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
8544519 ACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATG
**
8544539 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
8544559 ACTATCGCAATG
1 ACTATCGCAATG
8544571 AAAGAATCGC
Statistics
Matches: 112, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
14 8 0.07
16 3 0.03
17 4 0.04
18 3 0.03
20 94 0.84
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:8544514 original size:54 final size:54
Alignment explanation
Indices: 8544428--8544530 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
8544418 ATAGTTTACT
8544428 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
*
8544482 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATG
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATG
8544531 TGAAAATGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.18
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
Found at i:8544591 original size:21 final size:19
Alignment explanation
Indices: 8544481--8544607 Score: 84
Period size: 20 Copynumber: 6.7 Consensus size: 19
8544471 GCAATGAGAG
*
8544481 AATCGCAATGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* *
8544501 TATCGCAATGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* * *
8544521 TATCGCAATGTGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* * *
8544541 TATCGCAATGCGAATTTGAC
1 AATCGCAATGCGAA-ATGAA
*
8544561 TATCGCAAT--GAAA-G--
1 AATCGCAATGCGAAATGAA
8544575 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8544594 AATCGCATTGCGAA
1 AATCGCAATGCGAA
8544608 TCTCTCGTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 13
0.82 0.06 0.11
Matches are distributed among these distances:
14 8 0.09
16 5 0.05
17 1 0.01
18 3 0.03
19 15 0.16
20 62 0.66
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:8544640 original size:20 final size:20
Alignment explanation
Indices: 8544615--8544734 Score: 83
Period size: 20 Copynumber: 6.3 Consensus size: 20
8544605 GAATCTCTCG
*
8544615 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
* * *
8544635 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCAATTTCGCA
**
8544655 TTGCGATTTTC-ATTTCGCA
1 TTGCGATAGTCAATTTCGCA
*
8544674 TTGCGAT--TC----TCTCA
1 TTGCGATAGTCAATTTCGCA
* * *
8544688 TTACGATAGTCAAATTCACA
1 TTGCGATAGTCAATTTCGCA
* *
8544708 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
8544728 TTGCGAT
1 TTGCGAT
8544735 TTTAAGTTTC
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
14 10 0.13
16 2 0.03
17 2 0.03
19 12 0.16
20 51 0.66
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:8544734 original size:73 final size:73
Alignment explanation
Indices: 8544596--8544737 Score: 239
Period size: 73 Copynumber: 1.9 Consensus size: 73
8544586 GAAATGAAAA
* * * *
8544596 TCGCATTGCGAATCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTTGCGTTGCGA
1 TCGCATTGCGAATCTCTCATTACGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
8544661 TTTTCATT
66 TTTTCATT
*
8544669 TCGCATTGCGATTCTCTCATTACGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
1 TCGCATTGCGAATCTCTCATTACGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
8544734 TTTT
66 TTTT
8544738 AAGTTTCAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (73 bp):
TCGCATTGCGAATCTCTCATTACGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
TTTTCATT
Found at i:8545309 original size:21 final size:21
Alignment explanation
Indices: 8545218--8545316 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
8545208 AACTCACCTG
*
8545218 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
8545240 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
8545260 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
8545281 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
8545302 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
8545317 TCTCTCCCAA
Statistics
Matches: 60, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:8545315 original size:42 final size:42
Alignment explanation
Indices: 8545215--8545325 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
8545205 TCTAACTCAC
* * *
8545215 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
* ** *
8545257 CTATCATCCCTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCTCC-CCCACCGTTCAAGAGGCCA
* * *
8545299 CTGTCATCGTTGAAGAGGTCTCTCCCA
1 CTGTCATCGTTCAAGAGGCCTCCCCCA
8545326 ACATTCTAGA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCA
Found at i:8546694 original size:14 final size:14
Alignment explanation
Indices: 8546675--8546710 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8546665 ATTGTTTAAT
8546675 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
8546689 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
8546703 TGATTTGT
1 TGATTTGT
8546711 TTAATTGACG
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:8546806 original size:20 final size:20
Alignment explanation
Indices: 8546777--8546817 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8546767 GATTTGTTGA
*
8546777 TTTCAATTTTGCGTTGCGAT
1 TTTCAATTTTGCATTGCGAT
*
8546797 TTTCATTTTTGCATTGCGAT
1 TTTCAATTTTGCATTGCGAT
8546817 T
1 T
8546818 CACTCGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTCAATTTTGCATTGCGAT
Found at i:8546849 original size:33 final size:33
Alignment explanation
Indices: 8546788--8546883 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
8546778 TTCAATTTTG
*
8546788 CGTTGCGATTTTCATTTTTGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
8546822 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
8546855 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
8546884 AGTTAATTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 32 0.57
34 24 0.43
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:8546880 original size:20 final size:20
Alignment explanation
Indices: 8546855--8546960 Score: 124
Period size: 20 Copynumber: 5.3 Consensus size: 20
8546845 GCGATTCTCT
8546855 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
8546875 CGTTGCGATAGTTAATTCTG
1 CGTTGCGATAGTCATTTCCG
*
8546895 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
8546915 CATTACGATAGTCATTTACG
1 CGTTGCGATAGTCATTTCCG
*
8546935 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
8546955 CGTTGC
1 CGTTGC
8546961 AATTTCCGCA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 70 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:8549429 original size:24 final size:24
Alignment explanation
Indices: 8549395--8549448 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
8549385 CTGAAAAATC
8549395 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
8549419 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
8549443 ATCAAA
1 ATCAAA
8549449 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:8549462 original size:24 final size:24
Alignment explanation
Indices: 8549395--8549462 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
8549385 CTGAAAAATC
* * *
8549395 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
8549419 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
8549443 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
8549463 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:8550333 original size:20 final size:20
Alignment explanation
Indices: 8550310--8550396 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
8550300 CAGAATCTCG
8550310 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
8550330 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* * *
8550350 TTGCGATTTTC-TAAATTTGCG
1 TTGCGATTTACGT--ATTCGCA
8550371 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
8550391 TTGCGA
1 TTGCGA
8550397 ATTAGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.02
20 40 0.71
21 14 0.25
22 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:8550417 original size:21 final size:21
Alignment explanation
Indices: 8550393--8550433 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8550383 TATTCGCATT
8550393 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
8550414 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
8550434 TGCTATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:8551113 original size:19 final size:20
Alignment explanation
Indices: 8551089--8551127 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8551079 AATTACTTTC
8551089 ATTTTT-AATTTAATCTAAA
1 ATTTTTCAATTTAATCTAAA
*
8551108 ATTTTTCAATTTCATCTAAA
1 ATTTTTCAATTTAATCTAAA
8551128 GTACAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTTCAATTTAATCTAAA
Found at i:8551787 original size:28 final size:28
Alignment explanation
Indices: 8551747--8551829 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
8551737 CCGCCGTTGC
* *
8551747 TTTCAAGCATTAGCTCAACGACATAATA
1 TTTCAAGCATTAGCTCGACAACATAATA
*
8551775 TTTCAAACATTAGCTCGACAACATAATA
1 TTTCAAGCATTAGCTCGACAACATAATA
8551803 TTTCAAGCATTAGCTCGACAACATAAT
1 TTTCAAGCATTAGCTCGACAACATAAT
8551830 GTAAACGAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (28 bp):
TTTCAAGCATTAGCTCGACAACATAATA
Found at i:8560063 original size:14 final size:15
Alignment explanation
Indices: 8560035--8560063 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8560025 GTGATAACAC
8560035 AAGTGCAATATCCTT
1 AAGTGCAATATCCTT
8560050 AAGTGCAA-ATCCTT
1 AAGTGCAATATCCTT
8560064 TTTAACATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (15 bp):
AAGTGCAATATCCTT
Found at i:8561805 original size:28 final size:28
Alignment explanation
Indices: 8561744--8561806 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
8561734 TAATTTTCTA
*
8561744 ATAAAAAACTCAAACACTAATTGCTTAC
1 ATAAAAAAATCAAACACTAATTGCTTAC
* *
8561772 ACAAAAAAATCAAACCCTAATTGCTTATC
1 ATAAAAAAATCAAACACTAATTGCTTA-C
8561801 -TAAAAA
1 ATAAAAA
8561807 TTTTGATGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (28 bp):
ATAAAAAAATCAAACACTAATTGCTTAC
Found at i:8563938 original size:22 final size:22
Alignment explanation
Indices: 8563913--8563955 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8563903 CTTCAGGCTT
8563913 TATAATA-ATAATAATATTATAA
1 TATAATATATAAT-ATATTATAA
8563935 TATAATATATAATATATTATA
1 TATAATATATAATATATTATA
8563956 TAATAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATATATAATATATTATAA
Found at i:8564652 original size:20 final size:20
Alignment explanation
Indices: 8564627--8564671 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8564617 CGAAAAACTG
8564627 ACAAATGACCCAAAGGATTT
1 ACAAATGACCCAAAGGATTT
**
8564647 ACAAATGACCTGAAGGATTT
1 ACAAATGACCCAAAGGATTT
8564667 ACAAA
1 ACAAA
8564672 CGATTGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.20
Consensus pattern (20 bp):
ACAAATGACCCAAAGGATTT
Found at i:8568923 original size:45 final size:45
Alignment explanation
Indices: 8568859--8568948 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
8568849 ACCATCACCT
*
8568859 CTCATTAGACATTCTTTTTCATGTAATTTCTTATAAGTTATAAAC
1 CTCATTAGACATTCCTTTTCATGTAATTTCTTATAAGTTATAAAC
*
8568904 CTCATTAGACATTCCTTTTCATGTAATTTCTTATAATTTATAAAC
1 CTCATTAGACATTCCTTTTCATGTAATTTCTTATAAGTTATAAAC
8568949 TTATAATTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (45 bp):
CTCATTAGACATTCCTTTTCATGTAATTTCTTATAAGTTATAAAC
Found at i:8570584 original size:44 final size:44
Alignment explanation
Indices: 8570518--8570614 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
8570508 AATTCAACGT
* *
8570518 TATCGATACCTCTCAAGAAGTATCGATACTACTATGT-GTAGTAG
1 TATCGATACCTCTCAAGAAGTATCGATACGACTATGTAAT-GTAG
* *
8570562 TATCGATATCGTC-CAAGGAGTATCGATACGACTATGTAATGTAG
1 TATCGATA-CCTCTCAAGAAGTATCGATACGACTATGTAATGTAG
8570606 TATCGATAC
1 TATCGATAC
8570615 TGGTCATGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 42 0.89
45 4 0.09
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TATCGATACCTCTCAAGAAGTATCGATACGACTATGTAATGTAG
Found at i:8571007 original size:19 final size:18
Alignment explanation
Indices: 8570964--8571007 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
8570954 ATTCAAATAA
*
8570964 TTAAATCGAATATAATAT
1 TTAAATCGAATATAAAAT
8570982 TTGAAATCGAATATAAAAT
1 TT-AAATCGAATATAAAAT
8571001 CTTAAAT
1 -TTAAAT
8571008 TTCATTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (18 bp):
TTAAATCGAATATAAAAT
Found at i:8573539 original size:20 final size:21
Alignment explanation
Indices: 8573510--8573563 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
8573500 CGATAGTAGC
* * *
8573510 AGTATTGATACTAT-TATAGT
1 AGTATCGATACTATCAAGAGT
8573530 AGTATCGATACCTATCAAGAGT
1 AGTATCGATA-CTATCAAGAGT
8573552 AGTATCGATACT
1 AGTATCGATACT
8573564 GGATGAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.31
21 6 0.21
22 14 0.48
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AGTATCGATACTATCAAGAGT
Found at i:8577263 original size:15 final size:17
Alignment explanation
Indices: 8577245--8577276 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8577235 GTTTTGCAAA
8577245 TCAAAAT-TT-TATTTT
1 TCAAAATCTTCTATTTT
8577260 TCAAAATCTTCTATTTT
1 TCAAAATCTTCTATTTT
8577277 GACTTGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TCAAAATCTTCTATTTT
Found at i:8579318 original size:44 final size:43
Alignment explanation
Indices: 8579268--8579366 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 43
8579258 CAATTCAACG
* * * **
8579268 GTATCGATACCTCTCAAGAAGTATCGATACTACTATGTGTAGTA
1 GTATCGATACCTC-CAAGAACTATCAATACTACTATATAAAGTA
* *
8579312 GTATCGATATCGTCCAAGGACTATCAATACTACTATATAAAGTA
1 GTATCGATA-CCTCCAAGAACTATCAATACTACTATATAAAGTA
*
8579356 GTGTCGATACC
1 GTATCGATACC
8579367 GGTCATGGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 41 0.91
45 3 0.07
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (43 bp):
GTATCGATACCTCCAAGAACTATCAATACTACTATATAAAGTA
Found at i:8581233 original size:137 final size:136
Alignment explanation
Indices: 8580979--8581233 Score: 456
Period size: 137 Copynumber: 1.9 Consensus size: 136
8580969 GAGAGAATCA
8580979 AACCAATGTAAAAAGCGCACAAGGCACATCTGAACCACTAGGCTACACCCCTCACTTAGTAATAT
1 AACCAATGTAAAAAGCGCACAAGGCACATCTGAACCACTAGGCTACACCCCTCACTTAGTAATAT
8581044 TTTACAATATTTTATATAATTGGTTTACAGTTGAAGACCATATGATAAAAAAAACAAATTGAAAG
66 TTTACAATATTTTATATAATTGGTTTACAGTTGAAGACCATATGATAAAAAAAACAAATTGAAAG
8581109 GAAAAT
131 GAAAAT
** * *
8581115 AACCAATGTAAAGTGCGTCACGAGGCACATCTGAACCACTAGGCTAGACCCCTCACTTAGTAATA
1 AACCAATGTAAAAAGCG-CACAAGGCACATCTGAACCACTAGGCTACACCCCTCACTTAGTAATA
*
8581180 TTTTACAATATTTTATGTAATTGGTTTACAGTTGAAGACCATATGATAAAAAAA
65 TTTTACAATATTTTATATAATTGGTTTACAGTTGAAGACCATATGATAAAAAAA
8581234 GAAAGAAACA
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 15 0.13
137 98 0.87
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (136 bp):
AACCAATGTAAAAAGCGCACAAGGCACATCTGAACCACTAGGCTACACCCCTCACTTAGTAATAT
TTTACAATATTTTATATAATTGGTTTACAGTTGAAGACCATATGATAAAAAAAACAAATTGAAAG
GAAAAT
Found at i:8581577 original size:20 final size:19
Alignment explanation
Indices: 8581552--8581595 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8581542 ATATTTTTAA
*
8581552 AATTTAATATTTTAAAAATG
1 AATTTAA-AATTTAAAAATG
*
8581572 AATTTAAAATTTAAAAATT
1 AATTTAAAATTTAAAAATG
8581591 AATTT
1 AATTT
8581596 CACCAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTAAAATTTAAAAATG
Found at i:8581957 original size:8 final size:8
Alignment explanation
Indices: 8581942--8581975 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8581932 AAATTTAGTG
8581942 TTTT-AGA
1 TTTTAAGA
8581949 TTTTAAGA
1 TTTTAAGA
8581957 TTTTAAGA
1 TTTTAAGA
*
8581965 TTTTAAAA
1 TTTTAAGA
8581973 TTT
1 TTT
8581976 AAATATACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (8 bp):
TTTTAAGA
Found at i:8587148 original size:25 final size:25
Alignment explanation
Indices: 8587120--8587213 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
8587110 ACATTAAAAA
8587120 TAATAAATAATAAATACTAATTTAC
1 TAATAAATAATAAATACTAATTTAC
* *
8587145 TAATAAAAAATAAGAAAGATACTAAATTAC
1 TAAT---AAATAA-TAA-ATACTAATTTAC
* * * *
8587175 TAATTAATAATTATTACTAATTTTC
1 TAATAAATAATAAATACTAATTTAC
* *
8587200 TAGTAAACAATAAA
1 TAATAAATAATAAA
8587214 AAATATTAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
25 22 0.43
26 1 0.02
27 5 0.10
28 6 0.12
29 2 0.04
30 15 0.29
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (25 bp):
TAATAAATAATAAATACTAATTTAC
Found at i:8587193 original size:55 final size:53
Alignment explanation
Indices: 8587120--8587229 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 53
8587110 ACATTAAAAA
8587120 TAATAAATAATAAATACTAATTTACTAATAAAAAATAAGAAAGATACTAAATTAC
1 TAATAAATAATAAATACTAATTTACTAATAAAAAATAA-AAA-ATACTAAATTAC
* * * * * * * *
8587175 TAATTAATAATTATTACTAATTTTCTAGTAAACAATAAAAAATATTAATTTAC
1 TAATAAATAATAAATACTAATTTACTAATAAAAAATAAAAAATACTAAATTAC
8587228 TA
1 TA
8587230 CACCAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 12 0.26
54 3 0.06
55 32 0.68
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (53 bp):
TAATAAATAATAAATACTAATTTACTAATAAAAAATAAAAAATACTAAATTAC
Found at i:8589658 original size:24 final size:24
Alignment explanation
Indices: 8589631--8589687 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
8589621 TAGTAGGGTT
8589631 GTGTTTGTAAACTAGCTGCAACTA
1 GTGTTTGTAAACTAGCTGCAACTA
8589655 GTGTTTGTAAACTAGCTGCAACTA
1 GTGTTTGTAAACTAGCTGCAACTA
8589679 GTGTTTGTA
1 GTGTTTGTA
8589688 TCTTATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (24 bp):
GTGTTTGTAAACTAGCTGCAACTA
Found at i:8597270 original size:131 final size:131
Alignment explanation
Indices: 8596994--8597340 Score: 402
Period size: 131 Copynumber: 2.7 Consensus size: 131
8596984 AGAAAAAATA
* *
8596994 ATAATATCTAATTATTTCCAATCAAGAATAAATTGCCCT-TCATGCCTT-AAGATAGTCA--T-T
1 ATAATATCTAATTATTTCCAATCGAGAATAAA-TGACCTCTCATGCCTTAAAG-TAGTCATTTAT
* * * * * * *
8597054 TACTCCAATCGAAATGAAGAGATATTACTATTTCATCTTAAAATTCAATATCGATTCGAGTGAAA
64 TACTCCAATTGAAATGAAAAGATATCACCATTTCATCTTAAAATTCAATATCAATTCAAGAGAAA
*
8597119 ATG
129 ACG
* *
8597122 ATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGTAGTCATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAGTCATTTATTA
* * * *
8597187 ATCCAATTGAAAGGAAAAGATATCACCA-TTCTATCTTCAAAA-TCAATATTAATTCAAGAGAGA
66 CTCCAATTGAAATGAAAAGATATCACCATTTC-ATCTT-AAAATTCAATATCAATTCAAGAGAAA
8597250 ACG
129 ACG
** * * *
8597253 ATAATATGGAATTATTTCCAATCGAGAATAAGTGACCTCTCATGCCTTAGAGCAGTCATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAGTCATTTATTA
* *
8597318 CTCCAAATGAAATGAAAATATAT
66 CTCCAATTGAAATGAAAAGATAT
8597341 TACTTTTCTC
Statistics
Matches: 185, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
127 5 0.03
128 44 0.24
129 3 0.02
130 4 0.02
131 125 0.68
132 4 0.02
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAGTCATTTATTA
CTCCAATTGAAATGAAAAGATATCACCATTTCATCTTAAAATTCAATATCAATTCAAGAGAAAAC
G
Found at i:8600817 original size:3 final size:3
Alignment explanation
Indices: 8600809--8600840 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8600799 TTATTGTATC
8600809 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8600841 TTATTAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8613164 original size:131 final size:131
Alignment explanation
Indices: 8613008--8613372 Score: 428
Period size: 131 Copynumber: 2.8 Consensus size: 131
8612998 TAATTTTAAG
** ** *
8613008 AGAGAAAGTGATAATATCTAATTATTTCCAATCGAGAATAAATGACC-CTTCATGTATTAAAATA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTC-TCATGCCTTAAAGTA
* * * * *
8613072 ATCATTTATTACTCTAATCAAAACGAAGAGATATTACTACTTC-ATCTTAAAATTCAATATTGAT
65 ATCATTTATTACTCCAATCGAAATGAAGAGATATTACTA-TTCTATCTTAAAAATCAATATTAAT
**
8613136 TTG
129 TCA
* * * * *
8613139 AGTGAAAACGATAATATCTAATTATTTCCAATCGATAATATATGACCTCTCATACCTTAAAGCAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
* * * * *
8613204 TCATTTATTGCTCCAATCGAAATTAAGAGATATCACCATTCTGTCTTAAAAATCAATATTAATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTCTATCTTAAAAATCAATATTAATTC
8613269 A
131 A
* * * * * *
8613270 AGAGAGAACGATAATATCGAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAGAGTAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
* *
8613335 TCATTTATTACTCCAATTGAAATGAAAAGATATTACTA
66 TCATTTATTACTCCAATCGAAATGAAGAGATATTACTA
8613373 ATCTCAATAT
Statistics
Matches: 193, Mismatches: 39, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
130 3 0.02
131 189 0.98
132 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
TCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTCTATCTTAAAAATCAATATTAATTC
A
Found at i:8614533 original size:17 final size:18
Alignment explanation
Indices: 8614501--8614534 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8614491 ACAACATTCT
*
8614501 TTTCTTTTTTTAATTTTC
1 TTTCATTTTTTAATTTTC
8614519 TTTCATTTTTT-ATTTT
1 TTTCATTTTTTAATTTT
8614535 AGAGATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCATTTTTTAATTTTC
Found at i:8615460 original size:16 final size:16
Alignment explanation
Indices: 8615439--8615472 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8615429 TATGAAGGTG
*
8615439 AGAAAAAATTTGAAGA
1 AGAAAAAAATTGAAGA
8615455 AGAAAAAAATTGAAGA
1 AGAAAAAAATTGAAGA
8615471 AG
1 AG
8615473 CAGAAGGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (16 bp):
AGAAAAAAATTGAAGA
Found at i:8617432 original size:24 final size:24
Alignment explanation
Indices: 8617379--8617443 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
8617369 CAAACCCAAT
**
8617379 ACCCAAACCAAAATCTAAAACTCGG
1 ACCCAAACCAAAA-CCCAAACTCGG
*
8617404 ACCCAAACCAAAACCCAAACTTGG
1 ACCCAAACCAAAACCCAAACTCGG
* **
8617428 GCCCAAATTAAAACCC
1 ACCCAAACCAAAACCC
8617444 TAACATAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.46, C:0.35, G:0.08, T:0.11
Consensus pattern (24 bp):
ACCCAAACCAAAACCCAAACTCGG
Found at i:8630411 original size:24 final size:23
Alignment explanation
Indices: 8630383--8630470 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 23
8630373 AGATATCAAA
* *
8630383 AATCAAAACATAATTCATATCAG
1 AATCAGAACAGAATTCATATCAG
* *
8630406 ATATCAGAACAGAATCCAGATCAG
1 A-ATCAGAACAGAATTCATATCAG
*
8630430 AATCAGAACAGAATTCAGGTAAC-G
1 AATCAGAACAGAATTCA--TATCAG
*
8630454 TATCAGAACAGAATTCA
1 AATCAGAACAGAATTCA
8630471 ATTCGGAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 16 0.30
24 36 0.67
25 2 0.04
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (23 bp):
AATCAGAACAGAATTCATATCAG
Found at i:8630425 original size:12 final size:11
Alignment explanation
Indices: 8630403--8630467 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 11
8630393 TAATTCATAT
8630403 CAGATATCAGAA
1 CAGA-ATCAGAA
*
8630415 CAGAATCCAGAT
1 CAGAAT-CAGAA
8630427 CAGAATCAGAA
1 CAGAATCAGAA
8630438 CAGAATTCAGGTAA
1 CAGAA-TCA-G-AA
*
8630452 C-GTATCAGAA
1 CAGAATCAGAA
8630462 CAGAAT
1 CAGAAT
8630468 TCAATTCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 15 0.34
12 20 0.45
13 3 0.07
14 3 0.07
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (11 bp):
CAGAATCAGAA
Found at i:8631399 original size:18 final size:18
Alignment explanation
Indices: 8631378--8631413 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8631368 CTTCAATCTG
*
8631378 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
8631396 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
8631414 GTCATTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:8632759 original size:18 final size:18
Alignment explanation
Indices: 8632736--8632799 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
8632726 AACGGGTCAA
8632736 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
8632754 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
* * *
8632772 CAGGTCGGGTCAACGAGT
1 CGGGTCGGGTAAACGGGT
8632790 CGGGTCGGGT
1 CGGGTCGGGT
8632800 TGTGACCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:8632772 original size:13 final size:13
Alignment explanation
Indices: 8632728--8632758 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8632718 CGACGGTCAA
*
8632728 CGGGTCAACGGGT
1 CGGGTAAACGGGT
8632741 CGGGTAAACGGGT
1 CGGGTAAACGGGT
8632754 CGGGT
1 CGGGT
8632759 CGGGTAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTAAACGGGT
Found at i:8636557 original size:20 final size:18
Alignment explanation
Indices: 8636520--8636566 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
8636510 TCTAAATCCC
* *
8636520 TTTTTAAAATTTCATTTT
1 TTTTTCAAATTCCATTTT
8636538 GTTTTTCAAATTCCATTTT
1 -TTTTTCAAATTCCATTTT
8636557 TTATTTCAAA
1 TT-TTTCAAA
8636567 AGAAAATCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTCAAATTCCATTTT
Found at i:8644075 original size:24 final size:24
Alignment explanation
Indices: 8644047--8644105 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
8644037 AAACAGAGAT
* *
8644047 ATCAGAAATCA-AAACATAATTCAG
1 ATCAGAAATCATAAA-AGAATCCAG
*
8644071 ATCAGATATCATAAAAGAATCCAG
1 ATCAGAAATCATAAAAGAATCCAG
8644095 ATCAGAAATCA
1 ATCAGAAATCA
8644106 GAATAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCATAAAAGAATCCAG
Found at i:8644153 original size:24 final size:24
Alignment explanation
Indices: 8644100--8644155 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
8644090 TCCAGATCAG
* *
8644100 AAATCAGAATAAAATTCAGGTCAT
1 AAATCAGAACAAAATTCAAGTCAT
**
8644124 GTATCAGAACAAAATTCAAGTCGA-
1 AAATCAGAACAAAATTCAAGTC-AT
8644148 AAATCAGA
1 AAATCAGA
8644156 TAAAACATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (24 bp):
AAATCAGAACAAAATTCAAGTCAT
Found at i:8647866 original size:27 final size:27
Alignment explanation
Indices: 8647810--8647875 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
8647800 TTGGTCAACG
*
8647810 GGTC-GGTCGGGTCGGTTGGTTGCTCA
1 GGTCGGGTCGGGTCGGTTGGTAGCTCA
8647836 GGTCGGGTCGGGTCGGCTTGGTCAG-TC-
1 GGTCGGGTCGGGTCGG-TTGGT-AGCTCA
*
8647863 GGTCGAGTCGGGT
1 GGTCGGGTCGGGT
8647876 TAGGTCGGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 4 0.11
27 23 0.66
28 7 0.20
29 1 0.03
ACGTcount: A:0.05, C:0.20, G:0.48, T:0.27
Consensus pattern (27 bp):
GGTCGGGTCGGGTCGGTTGGTAGCTCA
Found at i:8649184 original size:12 final size:12
Alignment explanation
Indices: 8649155--8649189 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
8649145 CATATTATGA
*
8649155 TTTTCAAACATTG
1 TTTTCAAA-ATAG
8649168 TTTTCAAAATAG
1 TTTTCAAAATAG
8649180 TTTTCAAAAT
1 TTTTCAAAAT
8649190 TTTCCCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:8654220 original size:20 final size:20
Alignment explanation
Indices: 8654157--8654221 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
8654147 CCAATGGAAG
*
8654157 TGTTCATAATAAGAAGAACT
1 TGTTCATAATGAGAAGAACT
* **
8654177 TGCTCGAATAGGGAGAAGAA--
1 TGTTC--ATAATGAGAAGAACT
8654197 -GTTCATAATGAGAAGAACT
1 TGTTCATAATGAGAAGAACT
8654216 TGTTCA
1 TGTTCA
8654222 ATCTTTGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 11 0.33
19 3 0.09
20 9 0.27
22 10 0.30
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TGTTCATAATGAGAAGAACT
Found at i:8654809 original size:3 final size:3
Alignment explanation
Indices: 8654801--8654825 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8654791 TTTTTCAACC
8654801 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8654826 CAAACCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8654901 original size:18 final size:18
Alignment explanation
Indices: 8654867--8654931 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
8654857 AAACCAAAAC
*
8654867 CCAAAA-CCTGGACCCAAA
1 CCAAAACCCTAGA-CCAAA
*
8654885 CCCAAACCCTAGACCAAA
1 CCAAAACCCTAGACCAAA
*
8654903 TCAAAACCCTAGACCAAA
1 CCAAAACCCTAGACCAAA
*
8654921 TCAAAACCCTA
1 CCAAAACCCTA
8654932 AACTAATCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 37 0.88
19 5 0.12
ACGTcount: A:0.46, C:0.38, G:0.06, T:0.09
Consensus pattern (18 bp):
CCAAAACCCTAGACCAAA
Found at i:8654941 original size:17 final size:18
Alignment explanation
Indices: 8654888--8654941 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
8654878 ACCCAAACCC
*
8654888 AAACCCTAGACCAAATCA
1 AAACCCTAGAACAAATCA
*
8654906 AAACCCTAGACCAAATCA
1 AAACCCTAGAACAAATCA
*
8654924 AAACCCTA-AACTAATCA
1 AAACCCTAGAACAAATCA
8654941 A
1 A
8654942 CATTTAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 8 0.24
18 26 0.76
ACGTcount: A:0.52, C:0.31, G:0.04, T:0.13
Consensus pattern (18 bp):
AAACCCTAGAACAAATCA
Found at i:8666826 original size:2 final size:2
Alignment explanation
Indices: 8666819--8666871 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
8666809 AATATGAAAC
8666819 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
8666861 AT AT AT AT AT A
1 AT AT AT AT AT A
8666872 AAAGATAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8667087 original size:4 final size:4
Alignment explanation
Indices: 8667078--8667107 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
8667068 TTTGAACATA
8667078 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
8667108 GTTAGCAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8667259 original size:29 final size:29
Alignment explanation
Indices: 8667224--8667315 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 29
8667214 ATAAATTTAA
* *
8667224 CAGTGGTTAAAGTGTAAGAAAATAAAAAT
1 CAGTGGTTAAAGTGAAACAAAATAAAAAT
** *
8667253 CAGTGGTTAATTTGAAACATAATAAAAAT
1 CAGTGGTTAAAGTGAAACAAAATAAAAAT
** *
8667282 CAGTGGTTAATTTGAAACAGAATAAAAAT
1 CAGTGGTTAAAGTGAAACAAAATAAAAAT
*
8667311 AAGTG
1 CAGTG
8667316 ACCAACTTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.27
Consensus pattern (29 bp):
CAGTGGTTAAAGTGAAACAAAATAAAAAT
Found at i:8671989 original size:29 final size:31
Alignment explanation
Indices: 8671938--8672012 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
8671928 AAATTTTATA
*
8671938 TAGTGACCAAAATGAAAA-TTTTG-AAAGTT
1 TAGTGACCAAAATGAAAACTTTGGAAAAGTT
*
8671967 TAGTGACCAAAGT-ATAAACTTTGGAAAAGTT
1 TAGTGACCAAAATGA-AAACTTTGGAAAAGTT
*
8671998 TAGGGAACCAAAATG
1 TAGTG-ACCAAAATG
8672013 GTAATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 1 0.03
29 15 0.41
30 4 0.11
31 10 0.27
32 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (31 bp):
TAGTGACCAAAATGAAAACTTTGGAAAAGTT
Found at i:8674606 original size:65 final size:65
Alignment explanation
Indices: 8674551--8674693 Score: 277
Period size: 65 Copynumber: 2.2 Consensus size: 65
8674541 CCTGATTTTA
8674551 TTGAAACATCGAAAACATTTTATGTACCGATACACAGATAATGCATCGATACACTCTTGGCTCTT
1 TTGAAACATCGAAAACATTTTATGTACCGATACACAGATAATGCATCGATACACTCTTGGCTCTT
*
8674616 TTGAAACATCGAAAACATTTTATGTACCGATGCACAGATAATGCATCGATACACTCTTGGCTCTT
1 TTGAAACATCGAAAACATTTTATGTACCGATACACAGATAATGCATCGATACACTCTTGGCTCTT
8674681 TTGAAACATCGAA
1 TTGAAACATCGAA
8674694 TGTAATTAGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (65 bp):
TTGAAACATCGAAAACATTTTATGTACCGATACACAGATAATGCATCGATACACTCTTGGCTCTT
Found at i:8674707 original size:65 final size:65
Alignment explanation
Indices: 8674551--8674715 Score: 260
Period size: 65 Copynumber: 2.5 Consensus size: 65
8674541 CCTGATTTTA
* *
8674551 TTGAAACATCGAAAACATTTTATGTACCGATACACAGATAATGCATCGATACACTCTTGGCTCTT
1 TTGAAACATCGAAAACATATTATGTACCGATGCACAGATAATGCATCGATACACTCTTGGCTCTT
*
8674616 TTGAAACATCGAAAACATTTTATGTACCGATGCACAGATAATGCATCGATACACTCTTGGCTCTT
1 TTGAAACATCGAAAACATATTATGTACCGATGCACAGATAATGCATCGATACACTCTTGGCTCTT
***
8674681 TTGAAACATCGAATGTA-ATTAGTGTACCGATGCAC
1 TTGAAACATCGAAAACATATTA-TGTACCGATGCAC
8674716 TAGGTCTTAT
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
64 3 0.03
65 91 0.97
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (65 bp):
TTGAAACATCGAAAACATATTATGTACCGATGCACAGATAATGCATCGATACACTCTTGGCTCTT
Found at i:8675807 original size:42 final size:42
Alignment explanation
Indices: 8675748--8675833 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
8675738 GCCAAGGAGA
8675748 TATGGGATAAACTACAAGTCACTCATGAAGGCACAAACGAGG
1 TATGGGATAAACTACAAGTCACTCATGAAGGCACAAACGAGG
*
8675790 TATGGGATAAACTACAAGTCACTCATGAAGGCACGAACGAGG
1 TATGGGATAAACTACAAGTCACTCATGAAGGCACAAACGAGG
8675832 TA
1 TA
8675834 AAAGAATCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (42 bp):
TATGGGATAAACTACAAGTCACTCATGAAGGCACAAACGAGG
Found at i:8676168 original size:3 final size:3
Alignment explanation
Indices: 8676160--8676189 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8676150 AGAAAGAGAC
8676160 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
8676190 CGTTGGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8678132 original size:21 final size:21
Alignment explanation
Indices: 8678107--8678146 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8678097 AACTTGCATA
* *
8678107 GGGGTATCGGTACCCTATGAG
1 GGGGTATCAGAACCCTATGAG
8678128 GGGGTATCAGAACCCTATG
1 GGGGTATCAGAACCCTATG
8678147 GATAATCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGGTATCAGAACCCTATGAG
Found at i:8678523 original size:24 final size:24
Alignment explanation
Indices: 8678487--8678538 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8678477 AAAATCAATT
* *
8678487 TTGTAAAATTTTTACTCCTCCTTA
1 TTGTAAAACTTTTACTCCCCCTTA
* * *
8678511 TTGTAACACTTTTTCTCCCCCTTT
1 TTGTAAAACTTTTACTCCCCCTTA
8678535 TTGT
1 TTGT
8678539 TAAATAAAAA
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:0.17, C:0.25, G:0.06, T:0.52
Consensus pattern (24 bp):
TTGTAAAACTTTTACTCCCCCTTA
Found at i:8680794 original size:23 final size:23
Alignment explanation
Indices: 8680738--8680794 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
8680728 CCCGAAGGGA
*
8680738 GTATCGATACCCATTCAAGAAGG
1 GTATTGATACCCATTCAAGAAGG
* *
8680761 GTA-TCAGTACCCATTCAACG-GGG
1 GTATTGA-TACCCATTCAA-GAAGG
8680784 GTATTGATACC
1 GTATTGATACC
8680795 TAGTGCACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.04
23 23 0.85
24 3 0.11
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
GTATTGATACCCATTCAAGAAGG
Found at i:8681433 original size:5 final size:5
Alignment explanation
Indices: 8681423--8681448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8681413 TGACTTAGAA
8681423 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
8681449 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:8689227 original size:64 final size:64
Alignment explanation
Indices: 8689159--8689280 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 64
8689149 ATTATTCAAG
* * *
8689159 GTGTATCGATGCACATGAAGTGTATCGATGCACTCC-TTTAAAATAAAAACATCGAATGTCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCAC-CCGCTTAAAATAAAAACATCGAATGTCATCA
* *
8689223 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCGCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCGCTTAAAATAAAAACATCGAATG
8689281 AGATTTATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 2 0.04
64 50 0.96
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCCGCTTAAAATAAAAACATCGAATGTCATCA
Found at i:8689297 original size:64 final size:63
Alignment explanation
Indices: 8689159--8689321 Score: 177
Period size: 64 Copynumber: 2.6 Consensus size: 63
8689149 ATTATTCAAG
* * * * *
8689159 GTGTATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCAC-CCCTTAAAATAAAAACATCGAATGACATCA
* * *
8689223 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCGCTTAAAATACAAACATCGAATGAGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCC-CTTAAAATAAAAACATCGAATGACA-TCA
* * *
8689288 -TGTACCGATGCA-TAGATAGTGCATCAATGCACCC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCC
8689322 ATCAAGGGAT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 4 0.05
64 79 0.93
65 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (63 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGACATCA
Found at i:8695444 original size:10 final size:10
Alignment explanation
Indices: 8695429--8695454 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8695419 AACTTGAATC
8695429 ATTGTTTATT
1 ATTGTTTATT
8695439 ATTGTTTATT
1 ATTGTTTATT
8695449 ATTGTT
1 ATTGTT
8695455 GATCAAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (10 bp):
ATTGTTTATT
Found at i:8699749 original size:14 final size:14
Alignment explanation
Indices: 8699730--8699758 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8699720 TGAAAATTAC
8699730 ATATTGTTTTTCAA
1 ATATTGTTTTTCAA
8699744 ATATTGTTTTTCAA
1 ATATTGTTTTTCAA
8699758 A
1 A
8699759 AATAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (14 bp):
ATATTGTTTTTCAA
Found at i:8701172 original size:21 final size:21
Alignment explanation
Indices: 8701148--8701204 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 21
8701138 TAAAACATTT
8701148 TGGATGTTTTTGAATTTGATA
1 TGGATGTTTTTGAATTTGATA
8701169 TGGATGTTTGAATGTTTGAATTTGATA
1 TGGATG--T---T-TTTGAATTTGATA
8701196 TGGATGTTT
1 TGGATGTTT
8701205 AAACTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
21 7 0.23
22 1 0.03
23 1 0.03
25 1 0.03
26 1 0.03
27 19 0.63
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (21 bp):
TGGATGTTTTTGAATTTGATA
Found at i:8702008 original size:65 final size:67
Alignment explanation
Indices: 8701870--8702018 Score: 166
Period size: 65 Copynumber: 2.3 Consensus size: 67
8701860 AATGCTTTTT
* * * *
8701870 GTGTACCGATGCAC--ATCCATGCATCGATGCACTCTTGATTTTATTGAAACATCGAAAACATTT
1 GTGTACCGATGCACAGATCAATGCATCGATACACTCTTGATCTTATTGAAACATCGAAAACATAT
8701933 TA
66 TA
* * **
8701935 -TGTGCCGATGCACAGAT-AATGCATCGATACACTCTTGGCTCTT-TTGAAACATCGAATGCA-A
1 GTGTACCGATGCACAGATCAATGCATCGATACACTCTT-GATCTTATTGAAACATCGAAAACATA
8701996 TTA
65 TTA
8701999 GTGTACCGATGCACTAGATC
1 GTGTACCGATGCAC-AGATC
8702019 TTATAACGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
64 15 0.22
65 44 0.64
66 10 0.14
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (67 bp):
GTGTACCGATGCACAGATCAATGCATCGATACACTCTTGATCTTATTGAAACATCGAAAACATAT
TA
Found at i:8703214 original size:19 final size:19
Alignment explanation
Indices: 8703190--8703226 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8703180 GCTTTTGAAT
8703190 TGGGAAATGTTTTAAGAAC
1 TGGGAAATGTTTTAAGAAC
8703209 TGGGAAATGTTTTAAGAA
1 TGGGAAATGTTTTAAGAA
8703227 ATTCATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (19 bp):
TGGGAAATGTTTTAAGAAC
Found at i:8703690 original size:80 final size:80
Alignment explanation
Indices: 8703493--8703724 Score: 432
Period size: 80 Copynumber: 2.9 Consensus size: 80
8703483 CTTAATCTCA
8703493 AATAATTTTTATAGCTCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACT-A
1 AATAATTTTTATAGCTCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
8703557 -ATATATATACTTCG
66 TATATATATACTTCG
*
8703571 AATAATTTTTATAGCCCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
1 AATAATTTTTATAGCTCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
8703636 TATATATATACTTCG
66 TATATATATACTTCG
*
8703651 AATAATTTTTATAGCTCCCTTTACCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
1 AATAATTTTTATAGCTCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
8703716 TATATATAT
66 TATATATAT
8703725 TGTTGATAAA
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
78 62 0.42
79 1 0.01
80 86 0.58
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (80 bp):
AATAATTTTTATAGCTCCCTTTATCAAATAAATGAATATGCAAATTTAAATTATGAAAAAACTAA
TATATATATACTTCG
Found at i:8708393 original size:11 final size:11
Alignment explanation
Indices: 8708379--8708407 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8708369 GATTTCCTTT
8708379 TTATTTTTTTA
1 TTATTTTTTTA
8708390 TTATTTTTTTA
1 TTATTTTTTTA
8708401 TTATTTT
1 TTATTTT
8708408 ACTAAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:8710573 original size:13 final size:13
Alignment explanation
Indices: 8710555--8710581 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8710545 TATAAAAATA
8710555 ATTTTAAAATTTT
1 ATTTTAAAATTTT
8710568 ATTTTAAAATTTT
1 ATTTTAAAATTTT
8710581 A
1 A
8710582 AATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAAAATTTT
Found at i:8714350 original size:24 final size:24
Alignment explanation
Indices: 8714318--8714366 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8714308 AACCATGGTT
8714318 AGGATTTGTTTCACCCTTTGAGAA
1 AGGATTTGTTTCACCCTTTGAGAA
8714342 AGGATTTGTTTCACCCTTTGAGAA
1 AGGATTTGTTTCACCCTTTGAGAA
8714366 A
1 A
8714367 CTATGGAACA
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:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
AGGATTTGTTTCACCCTTTGAGAA
Found at i:8720308 original size:14 final size:14
Alignment explanation
Indices: 8720286--8720317 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8720276 CGTTAGGCAT
8720286 CCGAAGGCATCCGA
1 CCGAAGGCATCCGA
*
8720300 CCGAGGGCATCCGA
1 CCGAAGGCATCCGA
8720314 CCGA
1 CCGA
8720318 TGTCATTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.31, T:0.06
Consensus pattern (14 bp):
CCGAAGGCATCCGA
Found at i:8729218 original size:38 final size:38
Alignment explanation
Indices: 8729170--8729243 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
8729160 ATTTTGGATA
8729170 TTTTCACATTTTAATAAGACTAACAGCTTCTATTAATT
1 TTTTCACATTTTAATAAGACTAACAGCTTCTATTAATT
* *
8729208 TTTTTACATTTTTATAAGACTAACAGCTTCTATTAA
1 TTTTCACATTTTAATAAGACTAACAGCTTCTATTAA
8729244 AAATTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (38 bp):
TTTTCACATTTTAATAAGACTAACAGCTTCTATTAATT
Found at i:8729251 original size:38 final size:38
Alignment explanation
Indices: 8729169--8729251 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
8729159 AATTTTGGAT
**
8729169 ATTTTCACATTTTAATAAGACTAACAGCTTCTATTAATT
1 ATTTT-ACATTTTAATAAGACTAACAGCTTCTATTAAAA
* *
8729208 TTTTTACATTTTTATAAGACTAACAGCTTCTATTAAAA
1 ATTTTACATTTTAATAAGACTAACAGCTTCTATTAAAA
8729246 ATTTTA
1 ATTTTA
8729252 TAAACTTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 35 0.90
39 4 0.10
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (38 bp):
ATTTTACATTTTAATAAGACTAACAGCTTCTATTAAAA
Found at i:8729464 original size:144 final size:142
Alignment explanation
Indices: 8729207--8729493 Score: 477
Period size: 144 Copynumber: 2.0 Consensus size: 142
8729197 TTCTATTAAT
* *
8729207 TTTTTTACATTTTTATAAGACTAACAGCTTCTATTAAAAATTTTATAAACTTTGTTTTTTCTTTG
1 TTTTTTACATTTTAATAAGACTAACAGCTTCTATTAAAAATTATATAAACTTTGTTTTTTCTTTG
*
8729272 GAACATCTTTAAATCAGTCAAGGATCTTTATATAATTACATCCCATGTGAATTCATAGTTGTTCA
66 GAACATCTTTAAATCAGCCAAGGATCTTTATATAATTACATCCCATGTGAATTCATAGTTGTTCA
8729337 ATAG-TTATATA
131 ATAGTTTATATA
*
8729348 TTTTTTACATTTTAATAAGACTAACAGCTTCTATTAAAAAAATTATATAAAATTTTGTTTTTTCT
1 TTTTTTACATTTTAATAAGACTAACAGCTTCTATT--AAAAATTATAT-AAACTTTGTTTTTTCT
* *
8729413 TTGGAACATCTTTGAATCTGCCAAGGATCTTTATATAATTACATCCCATGTGAATTCATAGTTGT
63 TTGGAACATCTTTAAATCAGCCAAGGATCTTTATATAATTACATCCCATGTGAATTCATAGTTGT
*
8729478 TCAGTAGTTTATATA
128 TCAATAGTTTATATA
8729493 T
1 T
8729494 ATATATATAT
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
141 34 0.25
143 10 0.07
144 83 0.61
145 8 0.06
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (142 bp):
TTTTTTACATTTTAATAAGACTAACAGCTTCTATTAAAAATTATATAAACTTTGTTTTTTCTTTG
GAACATCTTTAAATCAGCCAAGGATCTTTATATAATTACATCCCATGTGAATTCATAGTTGTTCA
ATAGTTTATATA
Found at i:8731653 original size:138 final size:138
Alignment explanation
Indices: 8731419--8731800 Score: 439
Period size: 138 Copynumber: 2.8 Consensus size: 138
8731409 CTAAAAATAT
* * * * *
8731419 AGGCTCTAATATTAA-CTTAAATTAATTTTGATCAATTATGGGATTCTAATAATTAAATTGGAAC
1 AGGCTCTAATATTAATCCT-AATTAATTATAATCAATTATGGGATACGAATAATTAAATTGGAAC
* *
8731483 CTCGAGCAAAAGCGATGACCAAATTAAGAATTCTCCTAATTTAAGGACT-AAGGTGAAATTAGGC
65 CTCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAGGC
*
8731547 CTAAGATGG
130 CTAAGATGA
* *
8731556 AGGCTCTAATATTAATCCTAATTAATTATAATTAATTAT-GGACTAACGAATAATTAATTTGGAA
1 AGGCTCTAATATTAATCCTAATTAATTATAATCAATTATGGGA-T-ACGAATAATTAAATTGGAA
** * * *
8731620 CCTCGAGCTTAAGCGAGGACCGAATTAATAATTCTCCTAATTTAAGGACTAAATATGAAATTAGG
64 CCTCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAGG
8731685 CCTAAGATGA
129 CCTAAGATGA
* * *
8731695 AGGATCTAATTTTAATCCTAATTAATTAT-A-C--------GATTCGAATAATTAAATTGGAACC
1 AGGCTCTAATATTAATCCTAATTAATTATAATCAATTATGGGATACGAATAATTAAATTGGAACC
* ** * *
8731750 TCCAAAAAAAGCGAGGACCAAATTAAGAATTCACCTAATTTAAGGATTAAA
66 TCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAA
8731801 CCTAAAATAA
Statistics
Matches: 212, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
128 61 0.29
129 1 0.00
130 2 0.01
136 3 0.01
137 33 0.16
138 64 0.30
139 48 0.23
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (138 bp):
AGGCTCTAATATTAATCCTAATTAATTATAATCAATTATGGGATACGAATAATTAAATTGGAACC
TCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAGGCC
TAAGATGA
Found at i:8734211 original size:41 final size:42
Alignment explanation
Indices: 8734100--8734212 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
8734090 TGACCCAAGG
*
8734100 TGATGGTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* * * * *
8734142 TGATGCTGATCTAACTCCTTATGCGATGGATGAGC-TAATGT
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* * *
8734183 TGGTGTTGTTCCAACTCCTTATGTGATGGA
1 TGATGCTGATCCAACTCCTTATGTGATGGA
8734213 AACGAGCTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
41 29 0.48
42 31 0.52
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
Found at i:8734430 original size:203 final size:201
Alignment explanation
Indices: 8734134--8734735 Score: 843
Period size: 203 Copynumber: 3.0 Consensus size: 201
8734124 GATGGACGAG
* * *
8734134 CAAAATGATGATGCTGATCTAACTCCTTATGCGATGGATGAGCTAA-TGTTGGTGTTGTTCCAAC
1 CAAAATGATGATGCTGATCCAACTCCATATGCGATGGATGAGC-AAGTATTGGTGTTGTTCCAAC
*
8734198 TCCTTATGTGATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC
65 TCCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTT-TCATTATGAACTTCTTCTCCCTC
* *
8734263 ATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTTAGTGATG
129 ATCGGACGAGTTCTTCTCATTATGAACACTCCACTGGAAATGTTGATCCACCTCCTTTAGTGATG
8734328 GAATCAAA
194 GAATCAAA
* * * * *
8734336 CAAATTGATGATGCTGATCCAAGTCCATATGCAATGAATGAGTCAAGTATTGGCGTTGTTCCAAC
1 CAAAATGATGATGCTGATCCAACTCCATATGCGATGGATGAG-CAAGTATTGGTGTTGTTCCAAC
** *
8734401 TCCTTATGTGATTTAATCGAGCTAAGGTTGAACAAGTTCTTTTCATTATGAAATTCTTCTCCCTC
65 TCCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTC-TTTCATTATGAACTTCTTCTCCCTC
* * * *
8734466 ATCGGACGAGTTCTTTTCATTATGAACACTCCACTGGAAATGTTGATACACCT-TTTTCTGTGAT
129 ATCGGACGAGTTCTTCTCATTATGAACACTCCACTGGAAATGTTGATCCACCTCCTTT-AGTGAT
**
8734530 GGAATTGAA
193 GGAATCAAA
* * *
8734539 CAAAGTGATGATGCTGATCCAACTCCATATACGATGGATGAGCCAAGTATTGGTGTTGTTTCAAC
1 CAAAATGATGATGCTGATCCAACTCCATATGCGATGGATGAG-CAAGTATTGGTGTTGTTCCAAC
* * * * *
8734604 TACTTATATGATGGAATCGAGATAACGATGAACAAGTTC-TTCATTATGAACTTCTTCTCCCTCA
65 TCCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTTCATTATGAACTTCTTCTCCCTCA
* * *
8734668 TCGGACGAGTTCTTCTCATTATGAACCCT-CACTGGAAATGTTGATCCACCTCCTTCAATGATGG
130 TCGGACGAGTTCTTCTCATTATGAACACTCCACTGGAAATGTTGATCCACCTCCTTTAGTGATGG
8734732 AATC
195 AATC
8734736 GAGCTAAGGT
Statistics
Matches: 351, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
200 30 0.09
201 53 0.15
202 41 0.12
203 225 0.64
204 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (201 bp):
CAAAATGATGATGCTGATCCAACTCCATATGCGATGGATGAGCAAGTATTGGTGTTGTTCCAACT
CCTTATGTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTTCATTATGAACTTCTTCTCCCTCAT
CGGACGAGTTCTTCTCATTATGAACACTCCACTGGAAATGTTGATCCACCTCCTTTAGTGATGGA
ATCAAA
Found at i:8735392 original size:38 final size:37
Alignment explanation
Indices: 8735310--8735397 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
8735300 TAGGGAGACA
* *
8735310 ATCCTAAGAAGGACTCAAACGACATCCCAGGAAAATG
1 ATCCTAAGAAGGACTCAAACAACATCCCAGAAAAATG
* ** * *
8735347 GTCCTAAGAAGGACTCAAACAATTTTCTAGAAAAAATG
1 ATCCTAAGAAGGACTCAAACAACATCCCAG-AAAAATG
8735385 ATCCTAAGAAGGA
1 ATCCTAAGAAGGA
8735398 AAAAATAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 24 0.57
38 18 0.43
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (37 bp):
ATCCTAAGAAGGACTCAAACAACATCCCAGAAAAATG
Found at i:8736441 original size:54 final size:53
Alignment explanation
Indices: 8736310--8736571 Score: 308
Period size: 54 Copynumber: 4.8 Consensus size: 53
8736300 TTACAGTTAT
* * *
8736310 CATCAATAAACCCCTAAAAAATTAGGCTTAGCTTCTTGAAAAACATTCATTTGAAGA
1 CATCAAGAAACCCCT-AAAAATTAGGCTTAGTTTCTT-TAAAA-ATTCATTTGAA-A
*
8736367 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAAATTCATTTGAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTGAAA
* * * * * *
8736420 TCATCGAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTCTAAA
1 -CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTT-GAAA
* *
8736475 CATCAAGAAACCCCTAAAAATTTGGCTTAGTTTCTTTCAAAATTCATTTGAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTGAAA
* * **
8736528 TCATCAATAAACCCCTGAAAATTAGATTTAGTTTCTTTTAAAAA
1 -CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTC-TTTAAAAA
8736572 AGATCACGTT
Statistics
Matches: 176, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.02
54 125 0.71
55 13 0.07
56 20 0.11
57 14 0.08
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTGAAA
Found at i:8736564 original size:108 final size:108
Alignment explanation
Indices: 8736308--8736571 Score: 377
Period size: 108 Copynumber: 2.4 Consensus size: 108
8736298 ATTTACAGTT
* *
8736308 ATCATCAATAAACCCCTAAAAAATTAGGCTTAGCTTCTTGAAAAACATTCATTTGAAGACATCAA
1 ATCATCAATAAACCCCT-GAAAATTAGGCTTAGCTTCTT-TAAAA-ATTCATTTGAAGACATCAA
8736373 GAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAAATTCATTTGAA
63 GAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAAATTCATTTGAA
* * * * *
8736419 ATCATCGAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTCTAA-ACATCAAGA
1 ATCATCAATAAACCCCTGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTT-GAAGACATCAAGA
*
8736483 AACCCCTAAAAATTTGGCTTAGTTTCTTTCAAAATTCATTTGAA
65 AACCCCTAAAAATTAGGCTTAGTTTCTTTCAAAATTCATTTGAA
** *
8736527 ATCATCAATAAACCCCTGAAAATTAGATTTAGTTTCTTTTAAAAA
1 ATCATCAATAAACCCCTGAAAATTAGGCTTAGCTTC-TTTAAAAA
8736572 AGATCACGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
108 89 0.65
109 14 0.10
110 19 0.14
111 14 0.10
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (108 bp):
ATCATCAATAAACCCCTGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGACATCAAGAA
ACCCCTAAAAATTAGGCTTAGTTTCTTTCAAAATTCATTTGAA
Found at i:8738765 original size:21 final size:20
Alignment explanation
Indices: 8738689--8738768 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 20
8738679 TCTTGAAGTA
* *
8738689 TTTTTCTTTTTTTTTTTCTTT
1 TTTTTCTTTTTCTCTTT-TTT
**
8738710 TTTTTCTTTTTCTAGTTTTT
1 TTTTTCTTTTTCTCTTTTTT
**
8738730 GCTTTCTTTTTTCTCTTTTTT
1 TTTTTC-TTTTTCTCTTTTTT
8738751 TTTTTCTTTTCTCTCTTT
1 TTTTTCTTTT-TCTCTTT
8738769 CTTATGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
20 11 0.23
21 37 0.77
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTCTCTTTTTT
Found at i:8739631 original size:13 final size:13
Alignment explanation
Indices: 8739613--8739645 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
8739603 AATAACTAAT
8739613 AATTCCCGATCTC
1 AATTCCCGATCTC
*
8739626 AATTCCTGATCTC
1 AATTCCCGATCTC
8739639 AATTCCC
1 AATTCCC
8739646 TCTTGGCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.33
Consensus pattern (13 bp):
AATTCCCGATCTC
Found at i:8747421 original size:139 final size:138
Alignment explanation
Indices: 8747192--8747566 Score: 443
Period size: 139 Copynumber: 2.8 Consensus size: 138
8747182 ATGAAAATAT
* * *
8747192 AGGCTCTAATATTAA-CTTAAATTAATTTTGATCAATTATGGGATTCTAATAATTAAATTGGAAC
1 AGGCTCTAATATTAATCCT-AATTAATTTTAATCAATTATGGGATTCGAATAATTAAATTGGAAC
* *
8747256 ATCGAGCAAAAGCGAGGACCAAATTAAGAATTCTTCTAATTTAAGGACTAAAGGTGAAATTAGGC
65 ATCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAGGC
8747321 CTAAGATGG
130 CTAAGATGG
* * *
8747330 AGGCTCTAATATTAATCCTAATTAATTTTAATTAATTAT-GGACTATCGAATTATTAATTTGGAA
1 AGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATGGGA-T-TCGAATAATTAAATTGGAA
* * * **
8747394 CCTCGAGCATAAA-CGAGGACTAAATTAATAATTCTCCTAATTTAAGGACTAACTATGAAATTAG
64 CATCGAGCA-AAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAG
8747458 GCCTAAGATGG
128 GCCTAAGATGG
* *
8747469 AGGATCTAATATTAATCCTAATTAA---T--T--A-TAT--GATTTGAATAATTAAATTGGAACA
1 AGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATGGGATTCGAATAATTAAATTGGAACA
* * * * *
8747524 TCAAGAAAAAACGAGGACTAAATTAAGAATTCACCTAATTTAA
66 TCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAA
8747567 CATAAAATAA
Statistics
Matches: 210, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
127 3 0.01
128 52 0.25
129 1 0.00
130 2 0.01
131 3 0.01
132 1 0.00
134 1 0.00
136 1 0.00
137 3 0.01
138 34 0.16
139 106 0.50
140 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (138 bp):
AGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATGGGATTCGAATAATTAAATTGGAACA
TCGAGCAAAAGCGAGGACCAAATTAAGAATTCTCCTAATTTAAGGACTAAAGATGAAATTAGGCC
TAAGATGG
Found at i:8755965 original size:198 final size:199
Alignment explanation
Indices: 8755492--8756459 Score: 1050
Period size: 200 Copynumber: 4.9 Consensus size: 199
8755482 AAGTAAAAAG
* * ** * * *
8755492 AAAGTATCGATACATGTACGAAAAGTATTAATTCTTAAAACTTCGAAACCGTTTAACT-TAAAGT
1 AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATT-AGTATAAAGT
** * * * *
8755556 AATAGGTAAATTTACAATGTTAGCGGTAAAAAGCTACCGGTTT-ATGATAAAATACATTAACATA
65 AATAGGTAAATTTACAATGTTAGCGGTAAAAATATACTGGTTTAATGAAAAAATACGTAAACATA
* * ** * * *
8755620 AAGTATCGATATTTTTTGTATGTGTATCGATACTTTTTTGTAGTATGC-TTCCCAACTTA-AGTA
130 AAGTATCGATACTTTTTGTATGTGTATCGATACTTTTGTCCAGTATCCATTCCAAAC-GAGA-TA
* *
8755683 -A-GTAAAAA
193 CACG---CAT
* * * * * * *
8755691 AAAGTATTGGTACAAGTATGAAAAGTATCGATTCTTAAAACTTTAAAACTGATTA-TTTGAAGGT
1 AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATTAGTAT-AAAGT
* * * *
8755755 AATAGGTAAATTTACAATGTTAGTGGTAAAAATATACTGGTTTAATGATAAGATATGTAAACATA
65 AATAGGTAAATTTACAATGTTAGCGGTAAAAATATACTGGTTTAATGAAAAAATACGTAAACATA
* *
8755820 AAGTATCGATACTTTTTGTATTTGTATCGATAC-TTTGTCTAGTATCCATTCCAAACGAGATACA
130 AAGTATCGATACTTTTTGTATGTGTATCGATACTTTTGTCCAGTATCCATTCCAAACGAGATACA
8755884 CGCAT
195 CGCAT
* *
8755889 AAAGTATCGATACACGTAAGAAAAGTATCGATTCTTAAAACTTTGAAACCAATTAGTATAAAGTA
1 AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATTAGTATAAAGTA
* * *
8755954 ATAGGTAAATTTACAATG-TAGGCGATAAAAATATACTAGTTTAATGAAAAGAA-ACGTAAATAT
66 ATAGGTAAATTTACAATGTTA-GCGGTAAAAATATACTGGTTTAATGAAAA-AATACGTAAACAT
* * * * * * *
8756017 AAAGTATCAATACGTTTTATAAGAGTATCGATACATTTTGTCCAGTA-CGCATCCCAAACGGGAT
129 AAAGTATCGATACTTTTTGTATGTGTATCGATAC-TTTTGTCCAGTATC-CATTCCAAACGAGAT
* *
8756081 GCACGTAT
192 ACACGCAT
* *
8756089 AAAGTATCGACACACGTATGAAAAGTATCGATTCTTAAAACTTCGAAACCGATTAGTATAAAGTA
1 AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATTAGTATAAAGTA
** *
8756154 ATAGGTAAATTTACAATG-TAGGCGGTAAAAATATACCAGTTTAATGACAAAATACGTAAACATA
66 ATAGGTAAATTTACAATGTTA-GCGGTAAAAATATACTGGTTTAATGAAAAAATACGTAAACATA
* * * * * * * *
8756218 AAGTATCGATACTTTTTGTATTTGCATCAATACTTTTTGTCCATTATTCTTTCCAAACTAGATGC
130 AAGTATCGATACTTTTTGTATGTGTATCGATAC-TTTTGTCCAGTATCCATTCCAAACGAGATAC
*
8756283 ACGCAG
194 ACGCAT
* * *
8756289 AAAGTATCGATACACGTATGAGAAGTATCGATTCTT---ACTTTGAAACCTATTTGTATAAAGTA
1 AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATTAGTATAAAGTA
* *
8756351 ATAGGTGAAATTTACAATGTAAGCGATAAAAATATA-TCGGTTTAATGAAAAAAATACGTAAACA
66 ATAGGT-AAATTTACAATGTTAGCGGTAAAAATATACT-GGTTTAATG-AAAAAATACGTAAACA
*
8756415 CAAAGTATCGATACTTTTTGTATGTGTATCGATACTTTTTGTCCA
128 TAAAGTATCGATACTTTTTGTATGTGTATCGATAC-TTTTGTCCA
8756460 ATATGAAAAC
Statistics
Matches: 656, Mismatches: 94, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
197 32 0.05
198 168 0.26
199 164 0.25
200 291 0.44
201 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (199 bp):
AAAGTATCGATACACGTATGAAAAGTATCGATTCTTAAAACTTTGAAACCGATTAGTATAAAGTA
ATAGGTAAATTTACAATGTTAGCGGTAAAAATATACTGGTTTAATGAAAAAATACGTAAACATAA
AGTATCGATACTTTTTGTATGTGTATCGATACTTTTGTCCAGTATCCATTCCAAACGAGATACAC
GCAT
Found at i:8756043 original size:21 final size:20
Alignment explanation
Indices: 8756014--8756055 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8756004 GAAACGTAAA
*
8756014 TATAAAGTATCAATACGTTT
1 TATAAAGTATCAATACATTT
*
8756034 TATAAGAGTATCGATACATTT
1 TATAA-AGTATCAATACATTT
8756055 T
1 T
8756056 GTCCAGTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
TATAAAGTATCAATACATTT
Found at i:8756198 original size:398 final size:398
Alignment explanation
Indices: 8755706--8756459 Score: 1088
Period size: 398 Copynumber: 1.9 Consensus size: 398
8755696 ATTGGTACAA
* * * *
8755706 GTATGAAAAGTATCGATTCTTAAAACTTTAAAACTGATTATTTGAAGGTAATAGGTAAATTTACA
1 GTATGAAAAGTATCGATTCTTAAAACTTCAAAACCGATTATATGAAAGTAATAGGTAAATTTACA
* ** * * *
8755771 ATGTTAGTGGTAAAAATATACTGGTTTAATGATAAGATATGTAAACATAAAGTATCGATACTTTT
66 ATGTTAGCGGTAAAAATATACCAGTTTAATGACAAAATACGTAAACATAAAGTATCGATACTTTT
* * * *
8755836 TGTATTTGTATCGATAC-TTTGTCTAGTATCCATTCCAAACGAGATACACGCATAAAGTATCGAT
131 TGTATTTGCATCAATACTTTTGTCCAGTATCCATTCCAAACGAGATACACGCAGAAAGTATCGAT
8755900 ACACGTAAGAAAAGTATCGATTCTTAAAACTTTGAAACCAATTAGTATAAAGTAATAGGT-AAAT
196 ACACGTAAGAAAAGTATCGATTCTT---ACTTTGAAACCAATTAGTATAAAGTAATAGGTGAAAT
* * * *
8755964 TTACAATGTAGGCGATAAAAATATA-CTAGTTTAATGAAAAGAA-ACGTAAATATAAAGTATCAA
258 TTACAATGTAAGCGATAAAAATATATC-AGTTTAATGAAAAAAATACGTAAACACAAAGTATCAA
8756027 TACGTTTTATAAGAGTATCGATACATTTTGTCCAGTACGCATCCCAAACGGGATGCACGTATAAA
322 TACGTTTTATAAGAGTATCGATACATTTTGTCCAGTACGCATCCCAAACGGGATGCACGTATAAA
8756092 GTATCGACACAC
387 GTATCGACACAC
*
8756104 GTATGAAAAGTATCGATTCTTAAAACTTCGAAACCGATTAGTAT-AAAGTAATAGGTAAATTTAC
1 GTATGAAAAGTATCGATTCTTAAAACTTCAAAACCGATTA-TATGAAAGTAATAGGTAAATTTAC
8756168 AATG-TAGGCGGTAAAAATATACCAGTTTAATGACAAAATACGTAAACATAAAGTATCGATACTT
65 AATGTTA-GCGGTAAAAATATACCAGTTTAATGACAAAATACGTAAACATAAAGTATCGATACTT
* * * * *
8756232 TTTGTATTTGCATCAATACTTTTTGTCCATTATTCTTTCCAAACTAGATGCACGCAGAAAGTATC
129 TTTGTATTTGCATCAATAC-TTTTGTCCAGTATCCATTCCAAACGAGATACACGCAGAAAGTATC
* * * *
8756297 GATACACGTATGAGAAGTATCGATTCTTACTTTGAAACCTATTTGTATAAAGTAATAGGTGAAAT
193 GATACACGTAAGAAAAGTATCGATTCTTACTTTGAAACCAATTAGTATAAAGTAATAGGTGAAAT
* *
8756362 TTACAATGTAAGCGATAAAAATATATCGGTTTAATGAAAAAAATACGTAAACACAAAGTATCGAT
258 TTACAATGTAAGCGATAAAAATATATCAGTTTAATGAAAAAAATACGTAAACACAAAGTATCAAT
* * * * *
8756427 ACTTTTTGTATGTGTATCGATACTTTTTGTCCA
323 ACGTTTTATAAGAGTATCGATACATTTTGTCCA
8756460 ATATGAAAAC
Statistics
Matches: 314, Mismatches: 35, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
397 32 0.10
398 170 0.54
399 49 0.16
400 63 0.20
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (398 bp):
GTATGAAAAGTATCGATTCTTAAAACTTCAAAACCGATTATATGAAAGTAATAGGTAAATTTACA
ATGTTAGCGGTAAAAATATACCAGTTTAATGACAAAATACGTAAACATAAAGTATCGATACTTTT
TGTATTTGCATCAATACTTTTGTCCAGTATCCATTCCAAACGAGATACACGCAGAAAGTATCGAT
ACACGTAAGAAAAGTATCGATTCTTACTTTGAAACCAATTAGTATAAAGTAATAGGTGAAATTTA
CAATGTAAGCGATAAAAATATATCAGTTTAATGAAAAAAATACGTAAACACAAAGTATCAATACG
TTTTATAAGAGTATCGATACATTTTGTCCAGTACGCATCCCAAACGGGATGCACGTATAAAGTAT
CGACACAC
Found at i:8757612 original size:44 final size:44
Alignment explanation
Indices: 8757527--8757612 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
8757517 CAGCTCGTAA
* * **
8757527 TTTGCACCGAAGTGCCACATAATTGTCCCAAATGATTACATAGG
1 TTTGCACCAAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
* * *
8757571 TTTGCACCAAAGTGCCATATATTTGTCCCGAAGGACCACATA
1 TTTGCACCAAAGTGCCACATAATTGTCCCAAAGGACCACATA
8757613 ATTTTCCCGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
TTTGCACCAAAGTGCCACATAATTGTCCCAAAGGACCACATAGG
Found at i:8757620 original size:21 final size:22
Alignment explanation
Indices: 8757586--8757634 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 22
8757576 ACCAAAGTGC
8757586 CATATATTTGTCCCGAAGGACCA
1 CATA-ATTTGTCCCGAAGGACCA
8757609 CATAATTT-TCCCGAAGGACCA
1 CATAATTTGTCCCGAAGGACCA
8757630 CATAA
1 CATAA
8757635 AACCCTCGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.69
22 4 0.15
23 4 0.15
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (22 bp):
CATAATTTGTCCCGAAGGACCA
Found at i:8758503 original size:54 final size:55
Alignment explanation
Indices: 8758445--8758549 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
8758435 ACCGAAATTA
* *
8758445 CATTCGATGTTGCAAGGGTATCGATA-CTTCCTTAAAGTACCGATACCCATTCGG
1 CATTCGATGTTGCAAGGGTATCGATACCATCCTTAAAGTACCGATAACCATTCGG
** *
8758499 CATTCGATGTTTTAAGGGTATCGATACCATCCTTAAGGTACCGATAACCAT
1 CATTCGATGTTGCAAGGGTATCGATACCATCCTTAAAGTACCGATAACCAT
8758550 CACTTAAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 24 0.53
55 21 0.47
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (55 bp):
CATTCGATGTTGCAAGGGTATCGATACCATCCTTAAAGTACCGATAACCATTCGG
Found at i:8758536 original size:21 final size:21
Alignment explanation
Indices: 8758510--8758569 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
8758500 ATTCGATGTT
8758510 TTAAGGGTATCGATACCATC-C
1 TTAA-GGTATCGATACCATCAC
*
8758531 TTAAGGTACCGATAACCATCAC
1 TTAAGGTATCGAT-ACCATCAC
*
8758553 TTAAGGTATCAATACCA
1 TTAAGGTATCGATACCA
8758570 CTCTCAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.24
21 14 0.41
22 12 0.35
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (21 bp):
TTAAGGTATCGATACCATCAC
Found at i:8763349 original size:21 final size:21
Alignment explanation
Indices: 8763324--8763425 Score: 75
Period size: 21 Copynumber: 4.8 Consensus size: 21
8763314 GTAATTTGCA
8763324 CCGAAGTACCACATAATTGTC
1 CCGAAGTACCACATAATTGTC
* * * *
8763345 CCGAA-TGATCACTTAGGTTTTC
1 CCGAAGT-ACCACATA-ATTGTC
*
8763367 ACCGAAGTGCCACAT-ATCTGTC
1 -CCGAAGTACCACATAAT-TGTC
* *
8763389 CCGAAGGACCACATAATTTTC
1 CCGAAGTACCACATAATTGTC
8763410 CCGAAAG-ACCACATAA
1 CCG-AAGTACCACATAA
8763426 AACCCTCGAC
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
20 1 0.02
21 39 0.63
22 12 0.19
23 9 0.15
24 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (21 bp):
CCGAAGTACCACATAATTGTC
Found at i:8764351 original size:22 final size:21
Alignment explanation
Indices: 8764306--8764359 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
8764296 ATGTTTGAAG
* *
8764306 GGTATCGA-AACCATCCTTAA
1 GGTATCGATACCCATCCATAA
8764326 GGTATCGATACCCATCCCATAA
1 GGTATCGATACCCAT-CCATAA
8764348 GGTATCGATACC
1 GGTATCGATACC
8764360 ACTCTTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 17 0.57
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (21 bp):
GGTATCGATACCCATCCATAA
Found at i:8767771 original size:6 final size:6
Alignment explanation
Indices: 8767756--8767828 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
8767746 ACTGAATTTC
* * * * *
8767756 ATTTTCA ATTTTA ATTTTA ATTTTA ATTTGA GTTTCA ATTTCA ATTTTT
1 ATTTT-A ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* * *
8767805 ATTTGA GTTTCA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA
8767829 GCTCCACTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
6 49 0.91
7 5 0.09
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (6 bp):
ATTTTA
Found at i:8767771 original size:18 final size:18
Alignment explanation
Indices: 8767750--8767826 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
8767740 TTTCATACTG
8767750 AATTTCATTTTCAATTTT
1 AATTTCATTTTCAATTTT
* *
8767768 AATTTTAATTTT-AATTTG
1 AA-TTTCATTTTCAATTTT
* *
8767786 AGTTTCAATTTCAATTTT
1 AATTTCATTTTCAATTTT
* * *
8767804 TATTTGAGTTTCAATTTT
1 AATTTCATTTTCAATTTT
8767822 AATTT
1 AATTT
8767827 TAGCTCCACT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 7 0.15
18 31 0.67
19 8 0.17
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (18 bp):
AATTTCATTTTCAATTTT
Found at i:8767777 original size:24 final size:24
Alignment explanation
Indices: 8767768--8767828 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
8767758 TTTCAATTTT
8767768 AATTTTAATTTTAATTTGAGTTTC
1 AATTTTAATTTTAATTTGAGTTTC
* *
8767792 AATTTCAATTTTTATTTGAGTTTC
1 AATTTTAATTTTAATTTGAGTTTC
8767816 AATTTTAATTTTA
1 AATTTTAATTTTA
8767829 GCTCCACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (24 bp):
AATTTTAATTTTAATTTGAGTTTC
Found at i:8769202 original size:19 final size:19
Alignment explanation
Indices: 8769178--8769215 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8769168 ATTCTAAACC
*
8769178 GGTTAAAATTTGACAAAAT
1 GGTTAAAATTAGACAAAAT
8769197 GGTTAAAATTAGACAAAAT
1 GGTTAAAATTAGACAAAAT
8769216 CGATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (19 bp):
GGTTAAAATTAGACAAAAT
Found at i:8769224 original size:19 final size:19
Alignment explanation
Indices: 8769180--8769223 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8769170 TCTAAACCGG
* *
8769180 TTAAAATTTGACAAAATGG
1 TTAAAATTAGACAAAATGA
8769199 TTAAAATTAGACAAAATCGA
1 TTAAAATTAGACAAAAT-GA
8769219 TTAAA
1 TTAAA
8769224 TATAGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (19 bp):
TTAAAATTAGACAAAATGA
Found at i:8770103 original size:447 final size:446
Alignment explanation
Indices: 8769272--8770788 Score: 2063
Period size: 448 Copynumber: 3.4 Consensus size: 446
8769262 TTGTGCCTAT
* * * * * *
8769272 AAAGTATCGGTACCTAAGAAATATGTATCGATACATGATAATATAACAGGTTGAAAATTGACAAA
1 AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAA
* * * * * *
8769337 ACCGGTTTCAATATG-CTAATACCGGTAAAGAGATGCT-AGTTTACACAAAAACGAAACGTCTCA
66 ACCGGTTTCAATATGAC-AAAACAGGTAAAAAGATACTGA-TTTACAAAAAAACAAAACGTCTCA
* * *
8769400 AAAGTATCGATACCTTACAAAAAAGTATTGATACTTAAGTACGGGTAATGGTATCGATTAAATAT
129 AAAGTATCGATACCTTACAAAAAAGTATCGATACTTAAGTAAGAGTAATGGTATCGATTAAATAT
** * * * * *
8769465 AAATAACTTAATTGGTTCAAAATTGACAAAACTGGTTTTCATAATTGCACCTATAAAATATCAAT
194 AAATAACTTAACAGGTTCAAAATTGACAAAAATGGTTTCCATAATTGCGCCTATAAAGTATCGAT
* * * * * * *
8769530 ACATGTATGAGAATTATCGTTTCTTAATACTTCAAAATGGATTAATTTAAAGTAATAGGTAAATT
259 ACACGTATGAGAAATATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTAAATT
* *
8769595 TACAATGTAAGCGGTAAAAATATACCGGTGTAATCACAAAATATGTTAACATAAAGTATCGATAC
324 TACAATGTAAGCGGTAAAAATATACCGGTTTAATGACAAAATATGTTAACATAAAGTATCGATAC
** * * * *
8769660 TTTTTGTATACATATCGATAATTTTTTCCAGTACGCTTCCCAAACTAGATGAACGCAT
389 TTTTTGTATATGTATCGATAATTTTTTCCAGTATGCTTCCCAAACTAGATGCACACAG
* *
8769718 AAAGTATCAATACCTAATACACATGTATCGATACATGACAATATAACATGTTGAAAATTGATAAA
1 AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAA
* **
8769783 A-CGAGTTTCAATATGACAAAACAGGTAAAAAGATATTGATTTACAAAAAAAACAAAATTTCTCA
66 ACCG-GTTTCAATATGACAAAACAGGTAAAAAGATACTGATTTAC-AAAAAAACAAAACGTCTCA
*
8769847 AAAGTACCGATACCTTACAAAAAAGTATCGATACTTAAGTAAGAGTAATGGTATCGATTAAATAT
129 AAAGTATCGATACCTTACAAAAAAGTATCGATACTTAAGTAAGAGTAATGGTATCGATTAAATAT
* *
8769912 AAATAACTTAACAAGTTCAAAATTGACAAAATTGGTTTCCATAATTGCGCCTATAAAGTATCGAT
194 AAATAACTTAACAGGTTCAAAATTGACAAAAATGGTTTCCATAATTGCGCCTATAAAGTATCGAT
* *
8769977 ACACGTATGAGAAGTATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTTAATT
259 ACACGTATGAGAAATATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTAAATT
* * * *
8770042 TACAATGTAAGTGGTAAAAATATACCAGTTTAATGACAAAATACGTTAATATAAAGTATCGATAC
324 TACAATGTAAGCGGTAAAAATATACCGGTTTAATGACAAAATATGTTAACATAAAGTATCGATAC
* *
8770107 TTTTTGTATATGTATCGATACTTTTTGTTCAGTATGCTTCCCAAACTAGATGCACACAG
389 TTTTTGTATATGTATCGATAATTTTT-TCCAGTATGCTTCCCAAACTAGATGCACACAG
* * * *
8770166 AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAAGTCGAAAAATGATATA
1 AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAA
* * * ** *
8770231 ACCGGTTTCAATATGACAAAACAGTTAAAAAGATATTGTTTTACAAAAAAACAAAACGTCTTGAC
66 ACCGGTTTCAATATGACAAAACAGGTAAAAAGATACTGATTTACAAAAAAACAAAACGTCTCAAA
* * * * * *
8770296 AGTATCGATACCTT-CAACAAAACTATCAATACTTCAGTAACACTAATGGTATCTATTAAATATA
131 AGTATCGATACCTTACAA-AAAAGTATCGATACTTAAGTAAGAGTAATGGTATCGATTAAATATA
* * * *
8770360 AATAACATAGCAGGTTCAAAAATTGGCAAAAATGGTTTCCATAATTGCGGCTATAAAGTATCGAT
195 AATAACTTAACAGGTTC-AAAATTGACAAAAATGGTTTCCATAATTGCGCCTATAAAGTATCGAT
8770425 ACACGTATGAGAAATATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTAAATT
259 ACACGTATGAGAAATATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTAAATT
* * ** *
8770490 TACAACGTAAACGAAAAAAATATACTGGTTTAATGACAAAATATGTTAACATAAAGTATCGATAC
324 TACAATGTAAGCGGTAAAAATATACCGGTTTAATGACAAAATATGTTAACATAAAGTATCGATAC
* * *
8770555 TTGTTGTATATGTATCGATAGTTTTTGCACAGTATGCTTCCCAAACTAGATGCACACAG
389 TTTTTGTATATGTATCGATAATTTTTTC-CAGTATGCTTCCCAAACTAGATGCACACAG
* * *
8770614 AAAGTATCGATACATAATACACATGTATCGATACATGACAATATAATAGGTTGAAAATTAATAAA
1 AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAA
** * ** * *
8770679 ATTGGTTTCAATATGACAAAACAGGTAAAAAGATACCGATTTACAAAAAAATGAAATGTCTCGAA
66 ACCGGTTTCAATATGACAAAACAGGTAAAAAGATACTGATTTACAAAAAAACAAAACGTCTCAAA
* * * *
8770744 AGTATCGATACCATACGAAAAAA-TATTGATACTTCACTAAGAGTA
131 AGTATCGATACCTTAC-AAAAAAGTATCGATACTTAAGTAAGAGTA
8770789 TTCAATGTAA
Statistics
Matches: 945, Mismatches: 115, Indels: 20
0.88 0.11 0.02
Matches are distributed among these distances:
445 2 0.00
446 92 0.10
447 357 0.38
448 485 0.51
449 7 0.01
450 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (446 bp):
AAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAA
ACCGGTTTCAATATGACAAAACAGGTAAAAAGATACTGATTTACAAAAAAACAAAACGTCTCAAA
AGTATCGATACCTTACAAAAAAGTATCGATACTTAAGTAAGAGTAATGGTATCGATTAAATATAA
ATAACTTAACAGGTTCAAAATTGACAAAAATGGTTTCCATAATTGCGCCTATAAAGTATCGATAC
ACGTATGAGAAATATCGATTCTTAAAACTTCGAAACGGATTACTTTAAAGTAATAGGTAAATTTA
CAATGTAAGCGGTAAAAATATACCGGTTTAATGACAAAATATGTTAACATAAAGTATCGATACTT
TTTGTATATGTATCGATAATTTTTTCCAGTATGCTTCCCAAACTAGATGCACACAG
Found at i:8770116 original size:22 final size:21
Alignment explanation
Indices: 8770095--8770134 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8770085 CGTTAATATA
8770095 AAGTATCGATACTTTTTGTAT
1 AAGTATCGATACTTTTTGTAT
*
8770116 ATGTATCGATACTTTTTGT
1 AAGTATCGATACTTTTTGT
8770135 TCAGTATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (21 bp):
AAGTATCGATACTTTTTGTAT
Done.