Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 80 of 91
Found at i:18224173 original size:84 final size:83
Alignment explanation
Indices: 18223851--18224715 Score: 809
Period size: 84 Copynumber: 10.5 Consensus size: 83
18223841 GCTCAAGGCC
* * *
18223851 AGAAGGGCTATCTGCCCACC-AAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* *
18223915 TGCAGCATAGCTTAAATCG
65 TGCAGCATAACTTAAGTCG
* * ** * * * *
18223934 AGAAGGGCTATCTG----CCAAAGGCCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCAT
* *
18223995 TTGCAGCATAGCTTAAATCG
64 TTGCAGCATAACTTAAGTCG
* ** * * * *
18224015 AGAAGGGCTATCTG----CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCAT
18224076 TTGCAGCATAACTTAAGTCG
64 TTGCAGCATAACTTAAGTCG
*
18224096 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
* *
18224161 TACAGCATAACTTAAATCG
65 TGCAGCATAACTTAAGTCG
* ** * * * *
18224180 AGAAGGGCTATCTG----CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCAT
18224241 TTGCAGCATAACTTAAGTCG
64 TTGCAGCATAACTTAAGTCG
* *
18224261 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
* ** * * *
18224326 TGTAATACAACTTAAGACT
65 TGCAGCATAACTTAAGTCG
* ** *
18224345 AGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
* * *
18224410 TACAGCATAACTCAAAG-CT
65 TGCAGCATAACT-TAAGTCG
** *
18224429 AGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCAT
** * * *
18224493 TTGCAATACAACTTAAGACT
64 TTGCAGCATAACTTAAGTCG
* * *
18224513 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
* * *
18224578 TACAGCATAACTCAAAG-CT
65 TGCAGCATAACT-TAAGTCG
** *
18224597 AGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCA-
**
18224661 TTTGCAGCATAGTTTAAGTCG
63 TTTGCAGCATAACTTAAGTCG
* *
18224682 AGAAGGGCTATCTG----CTAAAGACCTTCGAGTTCGA
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
18224716 TTATATTCAA
Statistics
Matches: 665, Mismatches: 90, Indels: 56
0.82 0.11 0.07
Matches are distributed among these distances:
79 2 0.00
80 49 0.07
81 184 0.28
82 2 0.00
83 27 0.04
84 311 0.47
85 90 0.14
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:18224601 original size:252 final size:248
Alignment explanation
Indices: 18223851--18224704 Score: 929
Period size: 252 Copynumber: 3.4 Consensus size: 248
18223841 GCTCAAGGCC
* * * **
18223851 AGAAGGGCTATCTGCCCAC-CAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
1 AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
* * * * * *
18223914 TTGCAGCATAGCTTAAATCGAGAAGGGCTATCTGCCAAAGGCCCCCAAGTTCGATTACACTCAGC
65 TTACAGCATAACTCAAAGCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGC
* * * * * * *
18223979 TTCGAGGGCACATCATTTGCAGCATAGCTTAA-ATCGAGAAGGGCTATCTG-C--C-AAAGACCC
130 TTCCAAGGCACATCATTTGCAACACAACTTAAGA-CGAGAAGGGTTATCTGCCAACAAAAGACCT
* * * * * * *
18224039 CCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
194 TCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCATTTGCAGCATAACTTAAGACT
*
18224096 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
* * *
18224161 TACAGCATAACTTAAATCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCT
66 TACAGCATAACTCAAAGCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCT
* * * * *
18224226 TCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTC
131 TCCAAGGCACATCATTTGCAACACAACTTAAGACGAGAAGGGTTATCTGCCAACAAAAGACCTTC
* * ** *
18224291 GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAATACAACTTAAGACT
196 GAGTTCGACTACGCTCAGCT-CAAGGCACATCATTTGCAGCATAACTTAAGACT
* *
18224345 AGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
* * ** * *
18224410 TACAGCATAACTCAAAGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTC
66 TACAGCATAACTCAAAGCGAGAAGGGCTATC--TG-CC-AAAGACCCCCAAGTTCGACTACACTC
* * * *
18224475 AGC-TCCAAGGCATATCATTTGCAATACAACTTAAGACTAGAAGGGTTGTCTGCCAACAAAAGAC
127 AGCTTCCAAGGCACATCATTTGCAACACAACTTAAGACGAGAAGGGTTATCTGCCAACAAAAGAC
* * *
18224539 CTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTACAGCATAACTCAA-AGCT
192 CTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATTTGCAGCATAACTTAAGA-CT
** * * *
18224597 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAA-GGCACATCAT
1 AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCA-
* * ** *
18224661 TTTGCAGCAT-AGTTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
64 TTTACAGCATAACTCAAAG-CGAGAAGGGCTATCTGCCAAAGACC
18224705 TTCGAGTTCG
Statistics
Matches: 525, Mismatches: 67, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
245 20 0.04
246 145 0.28
247 1 0.00
249 122 0.23
250 26 0.05
251 8 0.02
252 155 0.30
253 48 0.09
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (248 bp):
AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
TACAGCATAACTCAAAGCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCT
TCCAAGGCACATCATTTGCAACACAACTTAAGACGAGAAGGGTTATCTGCCAACAAAAGACCTTC
GAGTTCGACTACGCTCAGCTCAAGGCACATCATTTGCAGCATAACTTAAGACT
Found at i:18225496 original size:37 final size:36
Alignment explanation
Indices: 18225445--18225647 Score: 176
Period size: 36 Copynumber: 5.8 Consensus size: 36
18225435 ATATATAGTT
*
18225445 TTTTTAAAATATTTTTTGAAAACTATATAACATATAG
1 TTTTTAAAACA-TTTTTGAAAACTATATAACATATAG
* *
18225482 TTTTTAAAACATTTTAGAAAATATATATAACATATAG
1 TTTTTAAAACATTTTTGAAAA-CTATATAACATATAG
* *
18225519 -TTTTAAAATCA-TTTTAAAAACTTATATAATATATAG
1 TTTTTAAAA-CATTTTTGAAAAC-TATATAACATATAG
* * *
18225555 TTTTAAAAACATTTTTGAATAAAT-TAT-ATATATAG
1 TTTTTAAAACATTTTTGAA-AACTATATAACATATAG
* * *
18225590 TTTTAAAAACGTTTTTTAAAAACT-TAT---ATATA-
1 TTTTTAAAAC-ATTTTTGAAAACTATATAACATATAG
18225622 -TTTTAAAACA-TTTTGAAAACTATATA
1 TTTTTAAAACATTTTTGAAAACTATATA
18225648 TAGTTTTGAA
Statistics
Matches: 141, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
29 10 0.07
30 3 0.02
31 8 0.06
33 5 0.04
35 24 0.17
36 49 0.35
37 40 0.28
38 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (36 bp):
TTTTTAAAACATTTTTGAAAACTATATAACATATAG
Found at i:18225553 original size:73 final size:72
Alignment explanation
Indices: 18225458--18225619 Score: 204
Period size: 73 Copynumber: 2.2 Consensus size: 72
18225448 TTAAAATATT
* *
18225458 TTTTGAAAAC-TATATAACATATAGTTTTTAAAACATTTTAGAA-AATATATATAACATATAGTT
1 TTTTAAAAACTTATATAACATATAGTTTTAAAAACATTTTAGAATAA-AT-TAT-ACATATAGTT
*
18225521 TTAAAATC-A
63 TTAAAAACGA
* * *
18225530 TTTTAAAAACTTATATAATATATAGTTTTAAAAACATTTTTGAATAAATTATATATATAGTTTTA
1 TTTTAAAAACTTATATAACATATAGTTTTAAAAACATTTTAGAATAAATTATACATATAGTTTTA
*
18225595 AAAACGTT
66 AAAACG-A
18225603 TTTTAAAAACTTATATA
1 TTTTAAAAACTTATATA
18225620 TATTTTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
71 16 0.20
72 12 0.15
73 49 0.62
74 2 0.03
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (72 bp):
TTTTAAAAACTTATATAACATATAGTTTTAAAAACATTTTAGAATAAATTATACATATAGTTTTA
AAAACGA
Found at i:18225630 original size:31 final size:32
Alignment explanation
Indices: 18225547--18225690 Score: 145
Period size: 31 Copynumber: 4.5 Consensus size: 32
18225537 AACTTATATA
* *
18225547 ATATATAGTTTTAAAAACATTTTTGAATAAATTAT
1 ATATATAGTTTTAAAAAC-TTTTTTAA-AAACT-T
18225582 ATATATAGTTTTAAAAACGTTTTTTAAAAACTT
1 ATATATAGTTTTAAAAAC-TTTTTTAAAAACTT
* *
18225615 ATATATA-TTTT-AAAAC-ATTTTGAAAAC-T
1 ATATATAGTTTTAAAAACTTTTTTAAAAACTT
* * *
18225643 ATATATAGTTTTGAAAACTTTTTTAAATA-TA
1 ATATATAGTTTTAAAAACTTTTTTAAAAACTT
*
18225674 ATATATAGTTTAAAAAA
1 ATATATAGTTTTAAAAA
18225691 TATTTTTGAA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
28 8 0.09
29 13 0.14
30 5 0.05
31 27 0.29
32 4 0.04
33 8 0.09
34 4 0.04
35 25 0.27
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (32 bp):
ATATATAGTTTTAAAAACTTTTTTAAAAACTT
Found at i:18225696 original size:61 final size:63
Alignment explanation
Indices: 18225542--18225706 Score: 171
Period size: 61 Copynumber: 2.6 Consensus size: 63
18225532 TTAAAAACTT
18225542 ATATAATATATAGTTTTAAAAACAT-TTTTGAATAAATTATATATATAGTTTTAAAAACGTTTTT
1 ATATAATATATAG-TTTAAAAA-ATATTTTG-A-AAA-TATATATATAGTTTTAAAAACGTTTTT
18225606 TAA
61 TAA
* * * * * *
18225609 AAACTTATATATA-TTT-TAAAACATTTTGAAAA-CTATATATAGTTTTGAAAAC-TTTTTTAA
1 ATA-TAATATATAGTTTAAAAAATATTTTGAAAATATATATATAGTTTTAAAAACGTTTTTTAA
18225669 ATATAATATATAGTTTAAAAAATATTTTTG-AAATATAT
1 ATATAATATATAGTTTAAAAAATA-TTTTGAAAATATAT
18225707 GTATTATATT
Statistics
Matches: 81, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
59 8 0.10
60 13 0.16
61 26 0.32
62 8 0.10
63 3 0.04
64 2 0.02
65 8 0.10
66 3 0.04
67 2 0.02
68 8 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (63 bp):
ATATAATATATAGTTTAAAAAATATTTTGAAAATATATATATAGTTTTAAAAACGTTTTTTAA
Found at i:18225697 original size:31 final size:32
Alignment explanation
Indices: 18225545--18225703 Score: 98
Period size: 30 Copynumber: 5.0 Consensus size: 32
18225535 AAAACTTATA
* * * *
18225545 TAATATATAGTTTTAAAAACATTTTTGAATAAAT
1 TAATATATAGTTTAAAAAATATTTTT-AA-ATAC
* *
18225579 TATATATATAGTTTTAAAAACGT-TTTTTAAAAAC
1 TA-ATATATAG-TTTAAAAA-ATATTTTTAAATAC
* * * *
18225613 TTATATATA-TTT-TAAAACATTTTGAAA-AC
1 TAATATATAGTTTAAAAAATATTTTTAAATAC
* *
18225642 T-ATATATAGTTTTGAAAACT-TTTTTAAATA-
1 TAATATATAG-TTTAAAAAATATTTTTAAATAC
18225672 TAATATATAGTTTAAAAAATATTTTTGAAATA
1 TAATATATAGTTTAAAAAATATTTTT-AAATA
18225704 TATGTATTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
28 7 0.07
29 3 0.03
30 29 0.29
31 20 0.20
32 5 0.05
33 7 0.07
34 6 0.06
35 10 0.10
36 12 0.12
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (32 bp):
TAATATATAGTTTAAAAAATATTTTTAAATAC
Found at i:18225706 original size:29 final size:29
Alignment explanation
Indices: 18225547--18225706 Score: 94
Period size: 35 Copynumber: 5.1 Consensus size: 29
18225537 AACTTATATA
*
18225547 ATATATAGTTTTAAAAACATTTTTGAATAAATTAT
1 ATATATAGTTTTAAAAA-ATTTTT---TGAA--AT
* *
18225582 ATATATAGTTTTAAAAACGTTTTTTAAAAACTT
1 ATATATAGTTTTAAAAA-ATTTTTT-GAAA--T
*
18225615 ATATATA-TTTTAAAACA--TTTTGAAAACT
1 ATATATAGTTTTAAAAAATTTTTTG-AAA-T
* * *
18225643 ATATATAGTTTTGAAAACTTTTTTAAATAT
1 ATATATAGTTTTAAAAAATTTTTTGAA-AT
18225673 AATATATAG-TTTAAAAAATATTTTTGAAAT
1 -ATATATAGTTTTAAAAAAT-TTTTTGAAAT
18225703 ATAT
1 ATAT
18225707 GTATTATATT
Statistics
Matches: 103, Mismatches: 12, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
28 8 0.08
29 18 0.17
30 13 0.13
31 21 0.20
32 9 0.09
33 11 0.11
35 23 0.22
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (29 bp):
ATATATAGTTTTAAAAAATTTTTTGAAAT
Found at i:18230975 original size:33 final size:34
Alignment explanation
Indices: 18230932--18231010 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 34
18230922 CTTCAACAAT
18230932 ATGTTTGATTGGCAAAACATATGTGCTCTATT-A
1 ATGTTTGATTGGCAAAACATATGTGCTCTATTCA
*
18230965 GTGTTTGATTGGCAAAACATATGTGCTCTATTCA
1 ATGTTTGATTGGCAAAACATATGTGCTCTATTCA
18230999 ATGTTTGATTGG
1 ATGTTTGATTGG
18231011 AAGCGATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (34 bp):
ATGTTTGATTGGCAAAACATATGTGCTCTATTCA
Found at i:18241763 original size:11 final size:11
Alignment explanation
Indices: 18241744--18241773 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18241734 GTTTGGGAAT
18241744 GTTGAATTGAG
1 GTTGAATTGAG
*
18241755 GTTGCATTGAG
1 GTTGAATTGAG
18241766 GTTGAATT
1 GTTGAATT
18241774 CATGCATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.40
Consensus pattern (11 bp):
GTTGAATTGAG
Found at i:18246128 original size:2 final size:2
Alignment explanation
Indices: 18246121--18246168 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
18246111 TTACCCTAAG
18246121 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
18246163 AT AT AT
1 AT AT AT
18246169 GTGGCAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18247324 original size:13 final size:14
Alignment explanation
Indices: 18247306--18247361 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 14
18247296 GGGCCTGTAA
*
18247306 AATTATAATTAT-T
1 AATTATAATAATAT
18247319 AATTATAATAATAT
1 AATTATAATAATAT
18247333 AA-TATAATATAATAT
1 AATTAT-A-ATAATAT
18247348 AA-TATAATAATAT
1 AATTATAATAATAT
18247361 A
1 A
18247362 TAACTATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 22 0.56
14 5 0.13
15 12 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATAATAATAT
Found at i:18247336 original size:5 final size:5
Alignment explanation
Indices: 18247326--18247370 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
18247316 ATTAATTATA
18247326 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-ATAT ATAACT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAA-T ATAA
18247371 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 30 0.81
6 6 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:18247388 original size:16 final size:16
Alignment explanation
Indices: 18247369--18247400 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18247359 ATATAACTAT
18247369 AACGAAACCAAATTTG
1 AACGAAACCAAATTTG
18247385 AACGAAACCAAATTTG
1 AACGAAACCAAATTTG
18247401 GACAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (16 bp):
AACGAAACCAAATTTG
Found at i:18248294 original size:87 final size:87
Alignment explanation
Indices: 18248183--18248347 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
18248173 AGCCATAGTC
* * * *
18248183 GAATAATAAAGTCCAAAAATGGTTTTTGAATTTTGAAGTTTCTTGGGATTTACTGGTTACTATCT
1 GAATAATAAAGTCCAAAAATGGTTTTCGAATTTTGAAGTTGCTTAGGATTTACTGGTTACTATCA
18248248 AAGGTTCATGAAGTTTAAAGTT
66 AAGGTTCATGAAGTTTAAAGTT
* **
18248270 GAATGATAAAGTCCAAAGAA-GGTTTTCGAATTTTGAAGTTGCTTAGGATTTGTTGGTTACTATC
1 GAATAATAAAGTCCAAA-AATGGTTTTCGAATTTTGAAGTTGCTTAGGATTTACTGGTTACTATC
*
18248334 AAAGGTTCGTGAAG
65 AAAGGTTCATGAAG
18248348 AACTTTTCGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 67 0.97
88 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (87 bp):
GAATAATAAAGTCCAAAAATGGTTTTCGAATTTTGAAGTTGCTTAGGATTTACTGGTTACTATCA
AAGGTTCATGAAGTTTAAAGTT
Found at i:18250823 original size:20 final size:20
Alignment explanation
Indices: 18250794--18250832 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18250784 ACCATGCTGG
*
18250794 AAATTAATGTTAGAGTGTGT
1 AAATTAATGTTAGAATGTGT
*
18250814 AAATTGATGTTAGAATGTG
1 AAATTAATGTTAGAATGTG
18250833 CAATTGGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (20 bp):
AAATTAATGTTAGAATGTGT
Found at i:18253471 original size:27 final size:27
Alignment explanation
Indices: 18253441--18253494 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18253431 ATAACTATCC
*
18253441 AGTTGATGCCTAAAACTGTTATTGATT
1 AGTTGATGACTAAAACTGTTATTGATT
*
18253468 AGTTGTTGACTAAAACTGTTATTGATT
1 AGTTGATGACTAAAACTGTTATTGATT
18253495 TGTCTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
AGTTGATGACTAAAACTGTTATTGATT
Found at i:18253712 original size:21 final size:21
Alignment explanation
Indices: 18253671--18253713 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18253661 AGTAAAAAAT
*
18253671 TACCTAAAACATTATTATTTC
1 TACCTAAAACATTAATATTTC
*
18253692 TACCTAAAACATTAATGTTTC
1 TACCTAAAACATTAATATTTC
18253713 T
1 T
18253714 TAACATTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (21 bp):
TACCTAAAACATTAATATTTC
Found at i:18254820 original size:97 final size:97
Alignment explanation
Indices: 18254654--18254848 Score: 390
Period size: 97 Copynumber: 2.0 Consensus size: 97
18254644 TGAGTCATAT
18254654 ACGCTTGACACTGTAACATCGGTCCTTATTGATCAGAATCTCGCATTCCTGATCCTGGTCATGCT
1 ACGCTTGACACTGTAACATCGGTCCTTATTGATCAGAATCTCGCATTCCTGATCCTGGTCATGCT
18254719 TCAGTTTGTATCAATTTCATTCGTCACAATTA
66 TCAGTTTGTATCAATTTCATTCGTCACAATTA
18254751 ACGCTTGACACTGTAACATCGGTCCTTATTGATCAGAATCTCGCATTCCTGATCCTGGTCATGCT
1 ACGCTTGACACTGTAACATCGGTCCTTATTGATCAGAATCTCGCATTCCTGATCCTGGTCATGCT
18254816 TCAGTTTGTATCAATTTCATTCGTCACAATTA
66 TCAGTTTGTATCAATTTCATTCGTCACAATTA
18254848 A
1 A
18254849 GGTGATAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (97 bp):
ACGCTTGACACTGTAACATCGGTCCTTATTGATCAGAATCTCGCATTCCTGATCCTGGTCATGCT
TCAGTTTGTATCAATTTCATTCGTCACAATTA
Found at i:18259263 original size:21 final size:19
Alignment explanation
Indices: 18259235--18259280 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
18259225 TCATTGCATC
18259235 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
18259255 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
18259274 ACTTAGT
1 A-TTAGT
18259281 AAGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:18269003 original size:19 final size:19
Alignment explanation
Indices: 18268964--18269005 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
18268954 TCATTGAATC
18268964 ATTATTCTTAGCTCCTTAAT
1 ATTATTCTTAGCT-CTTAAT
18268984 ATTAGTTCTTAGCT-TTAAT
1 ATTA-TTCTTAGCTCTTAAT
18269003 ATT
1 ATT
18269006 TAGTAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTATTCTTAGCTCTTAAT
Found at i:18271592 original size:14 final size:14
Alignment explanation
Indices: 18271551--18271622 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
18271541 TTATTAGATT
*
18271551 ATAAAATAAAAATAA
1 ATAAAATAATAAT-A
* *
18271566 TATGAAAAAAATATTA
1 -AT-AAAATAATAATA
*
18271582 ATATAATAATAATA
1 ATAAAATAATAATA
18271596 ATAAAATAAATAA-A
1 ATAAAAT-AATAATA
18271610 ATAAAATAGATAA
1 ATAAAATA-ATAA
18271623 CAAAGATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 27 0.59
15 7 0.15
16 3 0.07
17 8 0.17
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
ATAAAATAATAATA
Found at i:18271612 original size:28 final size:26
Alignment explanation
Indices: 18271551--18271614 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
18271541 TTATTAGATT
18271551 ATAAAATAAA-AATAATATGAAAAAA
1 ATAAAATAAATAATAATATGAAAAAA
*
18271576 ATATTAATATAATAATAATAAT-AAAATAA
1 ATA-AAATA-AATAATAAT-ATGAAAA-AA
18271605 ATAAAATAAA
1 ATAAAATAAA
18271615 ATAGATAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
25 3 0.09
26 4 0.12
27 4 0.12
28 14 0.44
29 7 0.22
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
ATAAAATAAATAATAATATGAAAAAA
Found at i:18271681 original size:18 final size:19
Alignment explanation
Indices: 18271658--18271698 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18271648 AATAAAAAAT
18271658 AAAAT-AAGAAAATAAGAA
1 AAAATAAAGAAAATAAGAA
* *
18271676 AAAATAAAGTAAATAATAA
1 AAAATAAAGAAAATAAGAA
18271695 AAAA
1 AAAA
18271699 AGGTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAATAAAGAAAATAAGAA
Found at i:18272903 original size:16 final size:16
Alignment explanation
Indices: 18272884--18272927 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
18272874 ATTGATTGAA
18272884 AAAATAAATATAA-AAT
1 AAAATAAATA-AACAAT
18272900 AAAATAAATAAACAAT
1 AAAATAAATAAACAAT
*
18272916 ATAATAAA-AAAC
1 AAAATAAATAAAC
18272928 TATTCCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAACAAT
Found at i:18273028 original size:49 final size:47
Alignment explanation
Indices: 18272940--18273037 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 47
18272930 TTCCAAAAAC
18272940 TATATAATATATATTTTCAAAAATGTTTTTAAAAACTATAATATATATA
1 TATATAATATATATTTTCAAAAATGTTTTTAAAAACTAT-ATAT-TATA
*
18272989 TATATATATATATATTTTCAAGAATG-TTTTAAAAACTATATATTATA
1 TATATA-ATATATATTTTCAAAAATGTTTTTAAAAACTATATATTATA
18273036 TA
1 TA
18273038 AATTTTCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 6 0.13
48 4 0.09
49 19 0.40
50 18 0.38
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (47 bp):
TATATAATATATATTTTCAAAAATGTTTTTAAAAACTATATATTATA
Found at i:18273043 original size:37 final size:38
Alignment explanation
Indices: 18272987--18273332 Score: 226
Period size: 38 Copynumber: 8.7 Consensus size: 38
18272977 ATAATATATA
*
18272987 TATATATATATATATATTTTCAAGAATGTTTT-AAAAAC
1 TATATATATATATAAATTTTCAA-AATGTTTTAAAAAAC
* *
18273025 TATATAT-TATATAAATTTTCAAAATTTTTTAAAAAAT
1 TATATATATATATAAATTTTCAAAATGTTTTAAAAAAC
*
18273062 TATATAT-TATAT-ATTTTTCAAAATGTTTTAAAAAAC
1 TATATATATATATAAATTTTCAAAATGTTTTAAAAAAC
*
18273098 TATATTATATATATATATATATATAT-ATATATATATATATTCAAAATATTTTAAAAAC
1 TATA-TATATATATA-A-AT-T-T-TCA-A-A-ATGT-T-TT-AAAA---------AAC
* * *
18273156 TATATAT-TATATAAGTTTTTCAAAATGATTT-CAAAAC
1 TATATATATATATAA-ATTTTCAAAATGTTTTAAAAAAC
* *
18273193 TATATATTATATATATATTTTCAAAATGTTTTTCAAAAAC
1 TATATA-TATATATAAATTTTCAAAATG-TTTTAAAAAAC
* * *
18273233 TATATAT-TATATATATATTCAAAATGTTTTTCAAAAAC
1 TATATATATATATAAATTTTCAAAATG-TTTTAAAAAAC
* * *
18273271 TATATAT-TATATATATTTTTAAAATGTTTTTCAAAAAC
1 TATATATATATATAAATTTTCAAAATG-TTTTAAAAAAC
*
18273309 TATATA-ATATATACATTTTCAAAA
1 TATATATATATATAAATTTTCAAAA
18273333 ATCGTTTTCT
Statistics
Matches: 256, Mismatches: 22, Indels: 60
0.76 0.07 0.18
Matches are distributed among these distances:
36 32 0.12
37 43 0.17
38 111 0.43
39 10 0.04
40 12 0.05
41 1 0.00
42 1 0.00
43 2 0.01
44 2 0.01
45 1 0.00
46 5 0.02
47 1 0.00
48 4 0.02
49 5 0.02
50 2 0.01
51 1 0.00
52 2 0.01
53 2 0.01
54 1 0.00
55 2 0.01
56 6 0.02
57 3 0.01
58 7 0.03
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (38 bp):
TATATATATATATAAATTTTCAAAATGTTTTAAAAAAC
Found at i:18273108 original size:2 final size:2
Alignment explanation
Indices: 18273098--18273137 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
18273088 TTTAAAAAAC
18273098 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18273138 TCAAAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18273144 original size:95 final size:92
Alignment explanation
Indices: 18273025--18273210 Score: 259
Period size: 95 Copynumber: 2.0 Consensus size: 92
18273015 TTTTAAAAAC
* * * *
18273025 TATATATTATATAAATTTTCAAAATTTTTTAAAAAATTATATATTATAT-A-TTTTTCAAAATGT
1 TATATATTATATAAATATTCAAAATATTTT-AAAAACTATATATTATATAAGTTTTTCAAAATGA
18273088 TTTAAAAAACTATATTATATATATATATATA
65 TTT-AAAAACTATA-TAT-TATATATATATA
*
18273119 TATATATATATATATATATTCAAAATATTTTAAAAACTATATATTATATAAGTTTTTCAAAATGA
1 TATATAT-TATATAAATATTCAAAATATTTTAAAAACTATATATTATATAAGTTTTTCAAAATGA
*
18273184 TTTCAAAACTATATATTATATATATAT
65 TTTAAAAACTATATATTATATATATAT
18273211 TTTCAAAATG
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
93 11 0.13
94 27 0.33
95 30 0.36
96 15 0.18
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (92 bp):
TATATATTATATAAATATTCAAAATATTTTAAAAACTATATATTATATAAGTTTTTCAAAATGAT
TTAAAAACTATATATTATATATATATA
Found at i:18273160 original size:58 final size:55
Alignment explanation
Indices: 18273062--18273168 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 55
18273052 TTTAAAAAAT
* *
18273062 TATATATTATATATTTTTCAAAATGTTTTAAAAAACTATATTATATATATATATATA
1 TATATATTATATATTATTCAAAATATTTTAAAAAACTATA-TAT-TATATATATATA
18273119 TATATATATATATATATATTCAAAATATTTT-AAAAACTATATATTATATA
1 TATATAT-TATATAT-TATTCAAAATATTTTAAAAAACTATATATTATATA
18273169 AGTTTTTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
56 6 0.13
57 10 0.22
58 17 0.37
59 13 0.28
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.48
Consensus pattern (55 bp):
TATATATTATATATTATTCAAAATATTTTAAAAAACTATATATTATATATATATA
Found at i:18273202 original size:131 final size:134
Alignment explanation
Indices: 18272946--18273250 Score: 406
Period size: 131 Copynumber: 2.4 Consensus size: 134
18272936 AAACTATATA
18272946 ATATATATTTTCAAAAATGTTTTT-AAAAAC----TA-TA-ATATATATATATATATATATATAT
1 ATATATATTTTC-AAAATGTTTTTAAAAAACTATATATTATATATATATATATATATATATATAT
* ** *
18273004 -T-TTCAAGAATGTTTTAAAAACTATATATTATATAAATTTTCAAAATTTTTTAAAAAATTATAT
65 ATATTCAAGAATATTTTAAAAACTATATATTATATAAATTTTCAAAATGATTTAAAAAACTATAT
18273067 A-T-T
130 ATTAT
18273070 ATATAT-TTTTCAAAATG-TTTTAAAAAACTATATTATATATATATATATATATATATATATATA
1 ATATATATTTTCAAAATGTTTTTAAAAAACTATA-TAT-TATATATATATATATATATATATATA
* *
18273133 TATATTCAA-AATATTTTAAAAACTATATATTATATAAGTTTTTCAAAATGATTT-CAAAACTAT
64 TATATTCAAGAATATTTTAAAAACTATATATTATATAA-ATTTTCAAAATGATTTAAAAAACTAT
18273196 ATATTAT
128 ATATTAT
*
18273203 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATATATATAT
1 ATATATATTTTCAAAATGTTTTTAAAAAACTATATATTATATATATAT
18273251 TCAAAATGTT
Statistics
Matches: 158, Mismatches: 7, Indels: 23
0.84 0.04 0.12
Matches are distributed among these distances:
121 4 0.03
122 12 0.08
123 5 0.03
124 6 0.04
127 2 0.01
129 2 0.01
130 24 0.15
131 38 0.24
132 19 0.12
133 18 0.11
134 14 0.09
135 14 0.09
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (134 bp):
ATATATATTTTCAAAATGTTTTTAAAAAACTATATATTATATATATATATATATATATATATATA
TATTCAAGAATATTTTAAAAACTATATATTATATAAATTTTCAAAATGATTTAAAAAACTATATA
TTAT
Found at i:18273237 original size:38 final size:37
Alignment explanation
Indices: 18273121--18273332 Score: 254
Period size: 38 Copynumber: 5.6 Consensus size: 37
18273111 TATATATATA
* *
18273121 TATATATATATATATATTCAAAAT-ATTTT-AAAAAC
1 TATATATATATATATTTTCAAAATGTTTTTCAAAAAC
*
18273156 TATATAT-TATATAAGTTTTTCAAAATG-ATTTC-AAAAC
1 TATATATATATAT-A--TTTTCAAAATGTTTTTCAAAAAC
18273193 TATATATTATATATATATTTTCAAAATGTTTTTCAAAAAC
1 --TATA-TATATATATATTTTCAAAATGTTTTTCAAAAAC
*
18273233 TATATATTATATATATATTCAAAATGTTTTTCAAAAAC
1 TATATA-TATATATATTTTCAAAATGTTTTTCAAAAAC
*
18273271 TATATATTATATATATTTTTAAAATGTTTTTCAAAAAC
1 TATATA-TATATATATTTTCAAAATGTTTTTCAAAAAC
*
18273309 TATATAATATATACATTTTCAAAA
1 TATAT-ATATATATATTTTCAAAA
18273333 ATCGTTTTCT
Statistics
Matches: 156, Mismatches: 8, Indels: 23
0.83 0.04 0.12
Matches are distributed among these distances:
34 5 0.03
35 8 0.05
37 19 0.12
38 101 0.65
39 9 0.06
40 9 0.06
41 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (37 bp):
TATATATATATATATTTTCAAAATGTTTTTCAAAAAC
Found at i:18273565 original size:6 final size:6
Alignment explanation
Indices: 18273554--18273592 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
18273544 CTTCACCCTT
*
18273554 GGGATG GGGATG GGGATG GGGATG GGGATA GGGATG GGG
1 GGGATG GGGATG GGGATG GGGATG GGGATG GGGATG GGG
18273593 GAAGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.67, T:0.15
Consensus pattern (6 bp):
GGGATG
Found at i:18274630 original size:60 final size:60
Alignment explanation
Indices: 18274523--18274637 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
18274513 GTATATATGT
* *
18274523 ATAGTTTGGGATGATATTGAAATGTTTAAAAAGTTTAGGGACCGATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGAAGGTC
* *
18274583 ATAGTTTAGGGATGAAATTGAAATG-TTCAAAAGTTTAAGGACTGATTTAGAATGA
1 ATAGTTT-GGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGA
18274638 CAATTATGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 34 0.68
61 16 0.32
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGAAGGTC
Found at i:18274650 original size:60 final size:61
Alignment explanation
Indices: 18274523--18274661 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 61
18274513 GTATATATGT
* * *
18274523 ATAGTTT-GGGATGATATTGAAATGTTTAAAAAGTTTAGGGACCGATTTAGAATGAAGGTC
1 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGAAGATC
* * *
18274583 ATAGTTTAGGGATGAAATTGAAATG-TTCAAAAGTTTAAGGACTGATTTAGAATGACA-ATT
1 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGA-AGATC
* *
18274643 ATGGTTTAGGGATAAAATT
1 ATAGTTTAGGGATGAAATT
18274662 AGAACCTTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 52 0.75
61 17 0.25
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.34
Consensus pattern (61 bp):
ATAGTTTAGGGATGAAATTGAAATGTTTAAAAAGTTTAAGGACCGATTTAGAATGAAGATC
Found at i:18277709 original size:6 final size:6
Alignment explanation
Indices: 18277702--18277758 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
18277692 TTGAGAATAT
*
18277702 ATATAT ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
18277750 ATATAG ATA
1 ATATAG ATA
18277759 GATAGATGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (6 bp):
ATATAG
Found at i:18281729 original size:17 final size:18
Alignment explanation
Indices: 18281700--18281739 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18281690 TTAAAATTTT
18281700 AAATTTAATTATAT-TAA
1 AAATTTAATTATATATAA
18281717 ATAATTT-ATTATATATAA
1 A-AATTTAATTATATATAA
18281735 AAATT
1 AAATT
18281740 ATTCGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAATTATATATAA
Found at i:18282974 original size:40 final size:37
Alignment explanation
Indices: 18282911--18283008 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 37
18282901 TATAAATTTA
*
18282911 TAATT-AAATAATAAAATAATTATTGAATACAAAAAT
1 TAATTAAAATAATAAAAAAATTATTGAATACAAAAAT
*
18282947 TAATTAAAATAATAAGAAAAATTTTATTTAATACAAAAAT
1 TAATTAAAATAATAA-AAAAA--TTATTGAATACAAAAAT
18282987 TAATTAATAAAATAATAAAAAA
1 TAA-T--TAAAATAATAAAAAA
18283009 TAGGGAAGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
36 5 0.09
37 9 0.17
38 4 0.08
40 19 0.36
41 1 0.02
42 4 0.08
43 11 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (37 bp):
TAATTAAAATAATAAAAAAATTATTGAATACAAAAAT
Found at i:18283006 original size:22 final size:22
Alignment explanation
Indices: 18282939--18283007 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
18282929 ATTATTGAAT
18282939 ACAAAAATTAATTAA-AATAATA
1 ACAAAAATTAATTAATAA-AATA
* **
18282961 AGAAAAATT--TT-ATTTAAT-
1 ACAAAAATTAATTAATAAAATA
18282979 ACAAAAATTAATTAATAAAATA
1 ACAAAAATTAATTAATAAAATA
*
18283001 ATAAAAA
1 ACAAAAA
18283008 ATAGGGAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
18 8 0.23
19 4 0.11
20 4 0.11
21 5 0.14
22 14 0.40
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (22 bp):
ACAAAAATTAATTAATAAAATA
Found at i:18284999 original size:22 final size:22
Alignment explanation
Indices: 18284974--18285020 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
18284964 ACGTGAGAAT
*
18284974 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
18284996 CACGGGTTCTGCAAGGAGAAAG
1 CACGGGTTCTGCAAGGAGAAAG
18285018 CAC
1 CAC
18285021 AGAAATCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.36, T:0.13
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:18285076 original size:23 final size:23
Alignment explanation
Indices: 18285050--18285093 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18285040 TCCTGCAAGG
*
18285050 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGCGGGGGTC
18285073 CTGCACGTCTGCATGCGGGGG
1 CTGCACGTCTGCATGCGGGGG
18285094 GCATGCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.27, G:0.41, T:0.23
Consensus pattern (23 bp):
CTGCACGTCTGCATGCGGGGGTC
Found at i:18285100 original size:23 final size:23
Alignment explanation
Indices: 18285051--18285100 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
18285041 CCTGCAAGGC
* * *
18285051 TGCACGTCTGCATGTGGGGGTCC
1 TGCACGTCTGCATGCGGGGGGCA
18285074 TGCACGTCTGCATGCGGGGGGCA
1 TGCACGTCTGCATGCGGGGGGCA
18285097 TGCA
1 TGCA
18285101 ACTGTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.12, C:0.26, G:0.40, T:0.22
Consensus pattern (23 bp):
TGCACGTCTGCATGCGGGGGGCA
Found at i:18285843 original size:172 final size:173
Alignment explanation
Indices: 18285556--18285914 Score: 562
Period size: 172 Copynumber: 2.1 Consensus size: 173
18285546 TTGTAAAGTT
* * * *
18285556 TTAGGGACCGTTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
18285621 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
18285684 GGATTAAATTGCT-AACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTG-TAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * *
18285728 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
* *
18285793 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
18285858 GATTAAATTGTAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGTAAACTTTGAAAATGTTGAGAACCAAATAGTAA
*
18285901 TTAGGGATCATTTT
1 TTAGGGATCGTTTT
18285915 ATATTTGATG
Statistics
Matches: 171, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
172 111 0.65
173 59 0.35
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCGTTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGTAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:18287668 original size:6 final size:6
Alignment explanation
Indices: 18287657--18287681 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18287647 CAAGAAGGAC
18287657 TGGGAG TGGGAG TGGGAG TGGGAG T
1 TGGGAG TGGGAG TGGGAG TGGGAG T
18287682 TCTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
TGGGAG
Found at i:18288194 original size:8 final size:8
Alignment explanation
Indices: 18288181--18288574 Score: 239
Period size: 8 Copynumber: 52.8 Consensus size: 8
18288171 AGTAATTATT
18288181 ATTAAATC
1 ATTAAATC
18288189 ATTAAA--
1 ATTAAATC
18288195 ATTAAATC
1 ATTAAATC
18288203 ATTAAA--
1 ATTAAATC
* *
18288209 ATTAAGTA
1 ATTAAATC
*
18288217 ATT--ATT
1 ATTAAATC
*
18288223 ATTAAATT
1 ATTAAATC
18288231 ATTAAA--
1 ATTAAATC
18288237 ATTAAATC
1 ATTAAATC
*
18288245 ATTAAAGTA
1 ATTAAA-TC
*
18288254 ATT--ATT
1 ATTAAATC
18288260 ATTAAATC
1 ATTAAATC
18288268 ATTAAATC
1 ATTAAATC
18288276 ATTAAATC
1 ATTAAATC
*
18288284 ATTAAAGTA
1 ATTAAA-TC
*
18288293 ATT--ATT
1 ATTAAATC
*
18288299 ATTAAAGC
1 ATTAAATC
18288307 ATTAAA--
1 ATTAAATC
*
18288313 GTTAAATC
1 ATTAAATC
*
18288321 ATTAAAGTA
1 ATTAAA-TC
*
18288330 ATT--ATT
1 ATTAAATC
18288336 ATTAAATC
1 ATTAAATC
18288344 ATTAAATC
1 ATTAAATC
18288352 ATTAAATC
1 ATTAAATC
*
18288360 ATTAAAATA
1 ATT-AAATC
*
18288369 ATT--ATT
1 ATTAAATC
18288375 ATTAAATC
1 ATTAAATC
18288383 ATTAAATC
1 ATTAAATC
18288391 ATTAAATC
1 ATTAAATC
*
18288399 ATTAAAGTA
1 ATTAAA-TC
*
18288408 ATT--ATT
1 ATTAAATC
18288414 ATTAAATC
1 ATTAAATC
18288422 ATTAAA--
1 ATTAAATC
*
18288428 GTTAAATC
1 ATTAAATC
*
18288436 ATTAAAGTA
1 ATTAAA-TC
*
18288445 ATT--ATT
1 ATTAAATC
18288451 ATTAAATC
1 ATTAAATC
18288459 ATTAAA--
1 ATTAAATC
*
18288465 GTTAAATC
1 ATTAAATC
18288473 ATTAAATC
1 ATTAAATC
18288481 ATTAAA--
1 ATTAAATC
18288487 ATTAAATC
1 ATTAAATC
*
18288495 ATTAAAGTA
1 ATTAAA-TC
*
18288504 ATT--ATT
1 ATTAAATC
18288510 ATTAAATC
1 ATTAAATC
18288518 ATTAAA--
1 ATTAAATC
18288524 ATTAAATC
1 ATTAAATC
*
18288532 ATTAAAGTA
1 ATTAAA-TC
*
18288541 ATT--ATT
1 ATTAAATC
18288547 ATTAAATC
1 ATTAAATC
18288555 ATTAAA--
1 ATTAAATC
*
18288561 GTTAAATC
1 ATTAAATC
18288569 ATTAAA
1 ATTAAA
18288575 GTAATTATTG
Statistics
Matches: 306, Mismatches: 36, Indels: 88
0.71 0.08 0.20
Matches are distributed among these distances:
6 86 0.28
7 7 0.02
8 178 0.58
9 35 0.11
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (8 bp):
ATTAAATC
Found at i:18288242 original size:76 final size:72
Alignment explanation
Indices: 18288195--18288639 Score: 391
Period size: 76 Copynumber: 6.3 Consensus size: 72
18288185 AATCATTAAA
*
18288195 ATTAAATCATTAAA--ATT-AAGTAATTATTATTAAATTATTAAAATTAAATCATTAAAGTAATT
1 ATTAAA-CATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATC---AAAGTAATT
18288257 ATTATTAAATC
62 ATTATTAAATC
* *
18288268 ATTAAATCATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAGTTAAATCATTAAAGTAATT
1 ATTAAA-CATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATC---AAAGTAATT
18288333 ATTATTAAATC
62 ATTATTAAATC
*
18288344 ATTAAATCATTAAATCATTAAAATAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAA
1 ATTAAA-CATTAAATCATTAAAGTAATTATTATTAAATCATTAAA--ATTAAATC---AAAGTAA
18288409 TTATTATTAAATC
60 TTATTATTAAATC
* * * *
18288422 ATTAAA-GTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATC--ATTAA--ATCA
1 ATTAAACATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCAAAGTAATTATTA
18288482 TTAAA--
66 TTAAATC
* * * * * *
18288487 ATTAAATCATTAAAGTAATTATTATTAA--ATCATTAAA--ATT-AAA-T-CATTAAAGTAATTA
1 ATTAAA-CATTAAA-TCATTA-AAGTAATTATTATTAAATCATTAAAATTAAATCAAAGTAATTA
18288545 TTATTAAATC
63 TTATTAAATC
* * *
18288555 ATTAAA-GTTAAATCATTAAAGTAATTATTGTTAAATCATTAAAGTTAAAT--AA-T-A--ATTA
1 ATTAAACATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCAAAGTAATTATTA
18288613 TTAAATC
66 TTAAATC
* *
18288620 ATTAAA-GTTAAATAATTAAA
1 ATTAAACATTAAATCATTAAA
18288640 TTTAAATAAT
Statistics
Matches: 320, Mismatches: 30, Indels: 52
0.80 0.07 0.13
Matches are distributed among these distances:
62 2 0.01
63 1 0.00
64 10 0.03
65 44 0.14
66 20 0.06
67 22 0.07
68 15 0.05
69 12 0.04
70 1 0.00
71 2 0.01
73 14 0.04
74 7 0.02
75 3 0.01
76 131 0.41
78 36 0.11
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (72 bp):
ATTAAACATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCAAAGTAATTATTA
TTAAATC
Found at i:18288297 original size:115 final size:111
Alignment explanation
Indices: 18288212--18288500 Score: 470
Period size: 115 Copynumber: 2.5 Consensus size: 111
18288202 CATTAAAATT
*
18288212 AAGTAATTATTATTAAATTATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAATCA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTAAA-TAATTATTATTAAATCATTAAATCA
*
18288277 TTAAATCATTAAAGTAATTATTATTAAAGCATTAAAGTTAAATCATTA
65 TTAAATCATTAAAGTAA-TATTATTAAATCATTAAAGTTAAATCATTA
18288325 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATCATTAAAT
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATT-AAATAATTATTATTAAATCATTAAAT
18288390 CATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
63 CATTAAATCATTAAAGTAA-TATTATTAAATCATTAAAGTTAAATCATTA
* * **
18288440 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTAAATAATTATTATTAAATCATTAAA
18288501 GTAATTATTA
Statistics
Matches: 167, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
112 22 0.13
113 34 0.20
115 108 0.65
116 3 0.02
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (111 bp):
AAGTAATTATTATTAAATCATTAAAATTAAATCATTAAATAATTATTATTAAATCATTAAATCAT
TAAATCATTAAAGTAATATTATTAAATCATTAAAGTTAAATCATTA
Found at i:18288525 original size:37 final size:37
Alignment explanation
Indices: 18288414--18288604 Score: 255
Period size: 37 Copynumber: 5.2 Consensus size: 37
18288404 AGTAATTATT
* * **
18288414 ATTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATT
1 ATTAAATCATTAAAG-TAATTATTATTAAA-TCATTAAA
*
18288451 ATTAAATCATTAAAGTTAA--ATCATTAAATCATTAAA
1 ATTAAATCATTAAAG-TAATTATTATTAAATCATTAAA
18288487 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
18288524 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
* *
18288561 GTTAAATCATTAAAGTAATTATTGTTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
*
18288598 GTTAAAT
1 ATTAAAT
18288605 AATAATTATT
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
35 3 0.02
36 20 0.14
37 123 0.84
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (37 bp):
ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
Found at i:18288536 original size:14 final size:14
Alignment explanation
Indices: 18288181--18288651 Score: 227
Period size: 14 Copynumber: 33.9 Consensus size: 14
18288171 AGTAATTATT
18288181 ATTAAATCATTAAA
1 ATTAAATCATTAAA
18288195 ATTAAATCATTAAA
1 ATTAAATCATTAAA
* * **
18288209 ATTAAGTAATTATT
1 ATTAAATCATTAAA
*
18288223 ATTAAATTATTAAA
1 ATTAAATCATTAAA
18288237 ATTAAATCATT-AA
1 ATTAAATCATTAAA
* *
18288250 AGTAATTATTATTAAA
1 ATTAA--ATCATTAAA
18288266 TCATTAAATCATTAAA
1 --ATTAAATCATTAAA
* **
18288282 TCATTAAAGTAATTATT
1 --ATTAAA-TCATTAAA
*
18288299 ATTAAAGCATTAAA
1 ATTAAATCATTAAA
*
18288313 GTTAAATCATT-AA
1 ATTAAATCATTAAA
* *
18288326 AGT-AATTATT---
1 ATTAAATCATTAAA
18288336 ATTAAATCATTAAA
1 ATTAAATCATTAAA
18288350 TCATTAAATCATTAAA
1 --ATTAAATCATTAAA
*
18288366 A-TAATTATTATTAAA
1 ATTAA--ATCATTAAA
18288381 TCATTAAATCATTAAA
1 --ATTAAATCATTAAA
* **
18288397 TCATTAAAGTAATTATT
1 --ATTAAA-TCATTAAA
18288414 ATTAAATCATTAAA
1 ATTAAATCATTAAA
*
18288428 GTTAAATCATT-AA
1 ATTAAATCATTAAA
* *
18288441 AGT-AATTATT---
1 ATTAAATCATTAAA
18288451 ATTAAATCATTAAA
1 ATTAAATCATTAAA
*
18288465 GTTAAATCATTAAA
1 ATTAAATCATTAAA
18288479 TCATTAAA--ATTAAA
1 --ATTAAATCATTAAA
* **
18288493 TCATTAAAGTAATTATT
1 --ATTAAA-TCATTAAA
18288510 ATTAAATCATTAAA
1 ATTAAATCATTAAA
18288524 ATTAAATCATT-AA
1 ATTAAATCATTAAA
* *
18288537 AGT-AATTATT---
1 ATTAAATCATTAAA
18288547 ATTAAATCATTAAA
1 ATTAAATCATTAAA
*
18288561 GTTAAATCATT-AA
1 ATTAAATCATTAAA
* *
18288574 AGT-AATTATT---
1 ATTAAATCATTAAA
*
18288584 GTTAAATCATTAAA
1 ATTAAATCATTAAA
* * *
18288598 GTTAAAT-AATAATT
1 ATTAAATCATTAA-A
18288612 ATTAAATCATTAAA
1 ATTAAATCATTAAA
* *
18288626 GTTAAATAATTAAA
1 ATTAAATCATTAAA
* *
18288640 TTTAAATAATTA
1 ATTAAATCATTA
18288652 TTATTAAATA
Statistics
Matches: 353, Mismatches: 67, Indels: 74
0.71 0.14 0.15
Matches are distributed among these distances:
10 7 0.02
11 24 0.07
12 24 0.07
13 26 0.07
14 162 0.46
15 35 0.10
16 53 0.15
17 15 0.04
18 7 0.02
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (14 bp):
ATTAAATCATTAAA
Found at i:18288637 original size:22 final size:22
Alignment explanation
Indices: 18288269--18288640 Score: 177
Period size: 23 Copynumber: 16.6 Consensus size: 22
18288259 TATTAAATCA
18288269 TTAAATCATTAAATCATTAAAG
1 TTAAATCATTAAATCATTAAAG
* *
18288291 -TAATTATTATTAAAGCATTAAAG
1 TTAA--ATCATTAAATCATTAAAG
* *
18288314 TTAAATCATTAAAGTAATTATTA-
1 TTAAATCATTAAA-TCATTA-AAG
*
18288337 TTAAATCATTAAATCATTAAATCA
1 TTAAATCATTAAATCATTAAA--G
* * *
18288361 TTAAAATAATT--ATTATTAAATCA
1 TT-AAATCATTAAATCATTAAA--G
18288384 TTAAATCATTAAATCATTAAAG
1 TTAAATCATTAAATCATTAAAG
*
18288406 -TAATTATTATTAAATCATTAAAG
1 TTAA--ATCATTAAATCATTAAAG
* *
18288429 TTAAATCATTAAAGTAATTATTA-
1 TTAAATCATTAAA-TCATTA-AAG
* *
18288452 TTAAATCATTAAA--GTTAAATCA
1 TTAAATCATTAAATCATTAAA--G
*
18288474 TTAAATCATTAAA--ATTAAATCA
1 TTAAATCATTAAATCATTAAA--G
* * *
18288496 TTAAAGTAATT--ATTATTAAATCA
1 TTAAA-TCATTAAATCATTAAA--G
18288519 TTAAA--ATTAAATCATTAAAG
1 TTAAATCATTAAATCATTAAAG
*
18288539 -TAATTATTATTAAATCATTAAAG
1 TTAA--ATCATTAAATCATTAAAG
* **
18288562 TTAAATCATTAAAGTAATTATTG
1 TTAAATCATTAAA-TCATTAAAG
*
18288585 TTAAATCATTAAA--GTTAAA-
1 TTAAATCATTAAATCATTAAAG
* *
18288604 TAATAATTATTAAATCATTAAAG
1 TTA-AATCATTAAATCATTAAAG
*
18288627 TTAAATAATTAAAT
1 TTAAATCATTAAAT
18288641 TTAAATAATT
Statistics
Matches: 281, Mismatches: 35, Indels: 68
0.73 0.09 0.18
Matches are distributed among these distances:
19 6 0.02
20 18 0.06
21 9 0.03
22 85 0.30
23 135 0.48
24 21 0.07
25 7 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
TTAAATCATTAAATCATTAAAG
Found at i:18292033 original size:18 final size:18
Alignment explanation
Indices: 18292010--18292056 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
18292000 AAATTATTAG
18292010 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
18292028 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
18292046 TCTCACGCTTC
1 TCTCACGCTTC
18292057 GGCCACAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (18 bp):
TCTCACGCTTCAGACGAA
Found at i:18292514 original size:110 final size:110
Alignment explanation
Indices: 18292325--18292541 Score: 398
Period size: 110 Copynumber: 2.0 Consensus size: 110
18292315 AGATTCCCGC
18292325 CAGACGACAGGTGAAGACGCCGAGAGATCCACATTGGCATTCCTTGTAGCATGCAGAAGACGCCG
1 CAGACGACAGGTGAAGACGCCGAGAGATCCACATTGGCATTCCTTGTAGCATGCAGAAGACGCCG
*
18292390 AGAGATCCCGCAGTCCAATTGCTTGAAGACACCGAGCATTCCCAT
66 AGAGATCCCACAGTCCAATTGCTTGAAGACACCGAGCATTCCCAT
*
18292435 CAGACGACAGGTGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
1 CAGACGACAGGTGAAGACGCCGAGAGATCCACATTGGCATTCCTTGTAGCATGCAGAAGACGCCG
* *
18292500 AGATATCCCACAGTCCAATTGCTTGAAGACGCCGAGCATTCC
66 AGAGATCCCACAGTCCAATTGCTTGAAGACACCGAGCATTCC
18292542 TATAGTGTCA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.18
Consensus pattern (110 bp):
CAGACGACAGGTGAAGACGCCGAGAGATCCACATTGGCATTCCTTGTAGCATGCAGAAGACGCCG
AGAGATCCCACAGTCCAATTGCTTGAAGACACCGAGCATTCCCAT
Found at i:18293962 original size:17 final size:17
Alignment explanation
Indices: 18293949--18293986 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18293939 ATTTTCATGC
18293949 AGCAACAAAATTCATCA
1 AGCAACAAAATTCATCA
*
18293966 AGCAACGAAATTCATCA
1 AGCAACAAAATTCATCA
18293983 AGCA
1 AGCA
18293987 TATGGCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.11, T:0.16
Consensus pattern (17 bp):
AGCAACAAAATTCATCA
Found at i:18294458 original size:20 final size:19
Alignment explanation
Indices: 18294415--18294469 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
18294405 CAACATTGAC
*
18294415 CCCTTCAGTATCGATACCGA
1 CCCTT-AGTATCAATACCGA
18294435 CCCTCTAGTATCAATACC-A
1 CCCT-TAGTATCAATACCGA
*
18294454 TCCCTTGGTATCAATA
1 -CCCTTAGTATCAATA
18294470 AAATATTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 11 0.35
20 19 0.61
21 1 0.03
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (19 bp):
CCCTTAGTATCAATACCGA
Found at i:18295318 original size:18 final size:18
Alignment explanation
Indices: 18295290--18295334 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
18295280 ATATCATTTC
* *
18295290 ATTATCCTTATTAATATT
1 ATTATCATTATTAACATT
* *
18295308 CTTATCATTATTAGCATT
1 ATTATCATTATTAACATT
18295326 ATTATCATT
1 ATTATCATT
18295335 TATATCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTATCATTATTAACATT
Found at i:18295611 original size:22 final size:23
Alignment explanation
Indices: 18295581--18295623 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
18295571 AAGGACCACA
*
18295581 TATCACATATGTCTCAAAGGATC
1 TATCACATATGTCCCAAAGGATC
18295604 TATC-CATATGTCCCAAAGGA
1 TATCACATATGTCCCAAAGGA
18295624 CATAGGTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (23 bp):
TATCACATATGTCCCAAAGGATC
Found at i:18295934 original size:2 final size:2
Alignment explanation
Indices: 18295892--18295917 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18295882 TCATGTAACC
18295892 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
18295918 TATTTCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18303794 original size:19 final size:19
Alignment explanation
Indices: 18303772--18303812 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18303762 AACTGATCAT
*
18303772 GTCAAAATCAATGGGTTGG
1 GTCAAAATCAATGGGTCGG
* *
18303791 GTCAAATTTAATGGGTCGG
1 GTCAAAATCAATGGGTCGG
18303810 GTC
1 GTC
18303813 TGGTTCTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (19 bp):
GTCAAAATCAATGGGTCGG
Found at i:18303832 original size:14 final size:13
Alignment explanation
Indices: 18303813--18303861 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
18303803 GGGTCGGGTC
*
18303813 TGGTTCTATGAAGG
1 TGGTTC-ATCAAGG
18303827 TGGTTCAGTCAAGG
1 TGGTTCA-TCAAGG
18303841 TGGTTCAATCAAGG
1 TGGTTC-ATCAAGG
*
18303855 TAGTTCA
1 TGGTTCA
18303862 GACTGGTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 2 0.06
14 28 0.90
15 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (13 bp):
TGGTTCATCAAGG
Found at i:18311870 original size:22 final size:22
Alignment explanation
Indices: 18311827--18311870 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18311817 AGTGTTTTAG
**
18311827 TAAAATAATATAAAAATTAAAT
1 TAAAATAATATAAAAAAGAAAT
* *
18311849 TAAATTAATTTAAAAAAGAAAT
1 TAAAATAATATAAAAAAGAAAT
18311871 CGATATCGGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAATAATATAAAAAAGAAAT
Found at i:18314892 original size:31 final size:31
Alignment explanation
Indices: 18314854--18315006 Score: 215
Period size: 31 Copynumber: 5.0 Consensus size: 31
18314844 CCCGAAGGAC
* *
18314854 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
18314885 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
18314916 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
18314947 CAGTCCATATGTCCCGAAGAACATAGGT-AA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
18314977 -AGTCCATATG-TCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
18315006 C
1 C
18315007 CCTCGACCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
28 15 0.14
29 12 0.11
30 2 0.02
31 79 0.72
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:18315243 original size:23 final size:23
Alignment explanation
Indices: 18315217--18315262 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18315207 CATAACTTGT
18315217 TTTCACATAT-ATATTTCATATCA
1 TTTCACATATCA-ATTTCATATCA
*
18315240 TTTCACATATCACTTTCATATCA
1 TTTCACATATCAATTTCATATCA
18315263 CATGCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTCACATATCAATTTCATATCA
Found at i:18315905 original size:19 final size:20
Alignment explanation
Indices: 18315877--18315919 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18315867 ATTCTGTCGT
*
18315877 TTGAAGGGGT-CGGTTCCCC
1 TTGAAGGGGTACGATTCCCC
*
18315896 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTA-CGATTCCCC
18315917 TTG
1 TTG
18315920 CCCAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAAGGGGTACGATTCCCC
Found at i:18318857 original size:31 final size:31
Alignment explanation
Indices: 18318818--18318972 Score: 226
Period size: 30 Copynumber: 5.1 Consensus size: 31
18318808 GTCCCGAAGG
*
18318818 ACAGTCCATA-GATTCCGAAGAACCTAGGTAA
1 ACAGTCCATATG-TTCCGAAGAACATAGGTAA
* *
18318849 TCAGTCCATATG-TCCGAAGGACATAGGTAA
1 ACAGTCCATATGTTCCGAAGAACATAGGTAA
*
18318879 ACAGTCCGTATGTTCCGAAGAACATAGGTAA
1 ACAGTCCATATGTTCCGAAGAACATAGGTAA
*
18318910 ACAGTCCATATGTCCCGAAGAACATAGGTAA
1 ACAGTCCATATGTTCCGAAGAACATAGGTAA
*
18318941 A-AGTCCATATGTCCCGAAGAACATAGGTAA
1 ACAGTCCATATGTTCCGAAGAACATAGGTAA
18318971 AC
1 AC
18318973 CCCGACCCTG
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
30 56 0.50
31 56 0.50
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (31 bp):
ACAGTCCATATGTTCCGAAGAACATAGGTAA
Found at i:18318915 original size:61 final size:61
Alignment explanation
Indices: 18318820--18318972 Score: 229
Period size: 61 Copynumber: 2.5 Consensus size: 61
18318810 CCCGAAGGAC
* * *
18318820 AGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGT-CCGAAGGACATAGGTAAA
1 AGTCCATATG-TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
*
18318880 CAGTCCGTATGTTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
1 -AGTCCATATGTTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
*
18318942 AGTCCATATGTCCCGAAGAACATAGGTAAAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
18318973 CCCGACCCTG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
61 66 0.79
62 18 0.21
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (61 bp):
AGTCCATATGTTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:18319847 original size:20 final size:20
Alignment explanation
Indices: 18319818--18319860 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18319808 ATTCTGTCGT
* *
18319818 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
18319838 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
18319858 TTG
1 TTG
18319861 CCCAAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:18322853 original size:31 final size:31
Alignment explanation
Indices: 18322815--18322970 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
18322805 CCCGAAGGAC
* * *
18322815 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
18322846 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
18322877 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
18322908 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
18322939 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
18322970 C
1 C
18322971 CCTCGACCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:18323212 original size:23 final size:24
Alignment explanation
Indices: 18323186--18323232 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
18323176 ATATACTTGT
*
18323186 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
18323209 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
18323233 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:18323522 original size:14 final size:14
Alignment explanation
Indices: 18323503--18323537 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
18323493 TTCATGTCAT
18323503 TCATATACGTATAA
1 TCATATACGTATAA
18323517 TCATATACGTATAA
1 TCATATACGTATAA
18323531 TCATATA
1 TCATATA
18323538 TTCATGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (14 bp):
TCATATACGTATAA
Found at i:18323907 original size:21 final size:21
Alignment explanation
Indices: 18323877--18323921 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18323867 ATTCTGTCGT
* *
18323877 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
18323898 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
18323919 TTG
1 TTG
18323922 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:18325077 original size:23 final size:23
Alignment explanation
Indices: 18325047--18325115 Score: 129
Period size: 23 Copynumber: 3.0 Consensus size: 23
18325037 TAGCTCTGAC
*
18325047 AAAGGGAAGGCTTTACTTAAGCT
1 AAAGGGAAGGTTTTACTTAAGCT
18325070 AAAGGGAAGGTTTTACTTAAGCT
1 AAAGGGAAGGTTTTACTTAAGCT
18325093 AAAGGGAAGGTTTTACTTAAGCT
1 AAAGGGAAGGTTTTACTTAAGCT
18325116 GATTTTCGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (23 bp):
AAAGGGAAGGTTTTACTTAAGCT
Found at i:18330756 original size:2 final size:2
Alignment explanation
Indices: 18330749--18330791 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18330739 CTTGTGTAGA
18330749 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
18330791 A
1 A
18330792 ATAATTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18331146 original size:12 final size:12
Alignment explanation
Indices: 18331124--18331168 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
18331114 GAATAAAAGG
18331124 AAAATATAATAGT
1 AAAA-ATAATAGT
*
18331137 AAAAATAATAAT
1 AAAAATAATAGT
*
18331149 AAATATAATAGT
1 AAAAATAATAGT
*
18331161 AATAATAA
1 AAAAATAA
18331169 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:18331785 original size:37 final size:37
Alignment explanation
Indices: 18331744--18331840 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
18331734 GGATCCTATC
18331744 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATAGT
1 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATAGT
* * * * * * *
18331781 TTTAGGAGTTTAACTCTTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATAGT
* *
18331818 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTAAATCATAGTAG
18331841 GACGAAAAGG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCATAGTAGAACTCTATCATAGT
Found at i:18332756 original size:106 final size:106
Alignment explanation
Indices: 18332590--18333634 Score: 1676
Period size: 106 Copynumber: 9.9 Consensus size: 106
18332580 ATATTCCTTC
*
18332590 GTGAAGTTGAAATTGGCTCTGGAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
18332655 GAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
** * * *
18332696 GTGAAGTCAAAATTGACTCTGAAATTGGGAAGTTGTTTATTGACTACCAGCAGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* *
18332761 GAAGTTGAACTTGCGTTGTCTTGAGTCAAATATCCTTCGCT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * * *
18332802 GTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAACCAGTGGTCCCTTCATCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* * *
18332867 GAAGTTGAACTTGTGTTGTCTGGAGTCCAACATCCTTCGTT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * * * *
18332908 GTTAAGTTGGAATTGGATCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
18332973 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
18333014 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
18333079 GAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
*
18333120 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
18333185 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * * * * *
18333226 GTGAAGCTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAACCAGCAGTCCCTTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
18333291 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
18333332 GTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTATTGACAACCAGCGGTCCATTCGTCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* *
18333397 GAATTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
18333438 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
18333503 GAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGCT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* * * * *
18333544 GTGAAGTTGAAATTGGCTATGAAATTAGGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
1 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* *
18333609 GAAGTTGAACTTGTGTTGTCTCGAGT
66 GAAGTTGAACTTGCGTTGTCTGGAGT
18333635 GGCACGATAT
Statistics
Matches: 862, Mismatches: 77, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 862 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
Found at i:18334621 original size:22 final size:22
Alignment explanation
Indices: 18334595--18334671 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
18334585 TTGTGTTTGG
18334595 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
18334617 TCAAAGGTTTGGCATTTAATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
18334639 TCATAGGTTTGACATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
18334661 TCAACGGTTTG
1 TCAAAGGTTTG
18334672 ATGGGGTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:18335304 original size:25 final size:26
Alignment explanation
Indices: 18335276--18335351 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
18335266 TTTTTGTCCC
18335276 CTTTTC-TTTTTGATTTTTGTTCTTT
1 CTTTTCTTTTTTGATTTTTGTTCTTT
* *
18335301 C-TTTCTTTTTTGTTCTTTTTTTC-TT
1 CTTTTCTTTTTTGAT-TTTTGTTCTTT
* *
18335326 CTTTTCTTTTTTTATTTTTGCTCTTT
1 CTTTTCTTTTTTGATTTTTGTTCTTT
18335352 TTGTTCTGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 4 0.10
25 17 0.41
26 20 0.49
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (26 bp):
CTTTTCTTTTTTGATTTTTGTTCTTT
Found at i:18335312 original size:18 final size:18
Alignment explanation
Indices: 18335289--18335330 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18335279 TTCTTTTTGA
18335289 TTTTTGTTCTTTCTTTCT
1 TTTTTGTTCTTTCTTTCT
*
18335307 TTTTTGTTCTTTTTTTCT
1 TTTTTGTTCTTTCTTTCT
18335325 TCTTTT
1 T-TTTT
18335331 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTGTTCTTTCTTTCT
Found at i:18335338 original size:8 final size:9
Alignment explanation
Indices: 18335289--18335358 Score: 67
Period size: 8 Copynumber: 8.1 Consensus size: 9
18335279 TTCTTTTTGA
18335289 TTTTTGTTC
1 TTTTTGTTC
*
18335298 TTTCT-TTC
1 TTTTTGTTC
18335306 TTTTTTGTTC
1 -TTTTTGTTC
18335316 TTTTT-TTC
1 TTTTTGTTC
*
18335324 TTCTT-TTC
1 TTTTTGTTC
*
18335332 TTTTT-TTA
1 TTTTTGTTC
*
18335340 TTTTTGCTC
1 TTTTTGTTC
18335349 TTTTTGTTC
1 TTTTTGTTC
18335358 T
1 T
18335359 GATTGAAACT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 24 0.48
9 23 0.46
10 3 0.06
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (9 bp):
TTTTTGTTC
Found at i:18339853 original size:19 final size:20
Alignment explanation
Indices: 18339829--18339872 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18339819 AACAAAGATA
* *
18339829 AAATAGTAAGTAAA-AAAAC
1 AAATAGAAAATAAATAAAAC
18339848 AAATAGAAAATAAATAAAAC
1 AAATAGAAAATAAATAAAAC
18339868 AAATA
1 AAATA
18339873 AACAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (20 bp):
AAATAGAAAATAAATAAAAC
Found at i:18339879 original size:22 final size:20
Alignment explanation
Indices: 18339839--18339892 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
18339829 AAATAGTAAG
*
18339839 TAAA-AAAACAAATAGAAAA
1 TAAATAAAACAAATACAAAA
18339858 TAAATAAAACAAATAAACAAAA
1 TAAATAAAACAAAT--ACAAAA
18339880 T-AATAATAACAAA
1 TAAATAA-AACAAA
18339893 GTACGAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 9 0.30
21 5 0.17
22 12 0.40
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (20 bp):
TAAATAAAACAAATACAAAA
Found at i:18339909 original size:2 final size:2
Alignment explanation
Indices: 18339902--18339932 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18339892 AGTACGAATA
18339902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18339933 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18340251 original size:2 final size:2
Alignment explanation
Indices: 18340198--18340232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18340188 CTTGTGTAGA
18340198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18340233 ATTGTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18340329 original size:19 final size:17
Alignment explanation
Indices: 18340290--18340330 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
18340280 AATAAAAATG
18340290 ATAATAAAAAATATAGT
1 ATAATAAAAAATATAGT
18340307 -TAATAGAAAAATATATGT
1 ATAATA-AAAAATATA-GT
18340325 ATAATA
1 ATAATA
18340331 TTATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 2 0.10
19 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (17 bp):
ATAATAAAAAATATAGT
Found at i:18340475 original size:12 final size:11
Alignment explanation
Indices: 18340447--18340487 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
18340437 TAACAAAATA
* *
18340447 AATAATATAAA
1 AATAATACAAG
18340458 AATAATACAAG
1 AATAATACAAG
18340469 TAATAATACAAG
1 -AATAATACAAG
18340481 AATAATA
1 AATAATA
18340488 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:18340524 original size:13 final size:13
Alignment explanation
Indices: 18340506--18340601 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 13
18340496 GAGAAAGTAA
18340506 AAAATATAATAAT
1 AAAATATAATAAT
18340519 -AAA-AT-ATAA-
1 AAAATATAATAAT
18340528 AAAATATACAT-AT
1 AAAATATA-ATAAT
*
18340541 ATAATATAAATAAGT
1 AAAATAT-AATAA-T
* **
18340556 AGAATA-AA-AGG
1 AAAATATAATAAT
*
18340567 AAAATATAATAGT
1 AAAATATAATAAT
18340580 AAAA-ATAATAAT
1 AAAATATAATAAT
18340592 -AAATATAATA
1 AAAATATAATA
18340602 GTAATAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 23
0.68 0.07 0.24
Matches are distributed among these distances:
10 7 0.11
11 12 0.18
12 20 0.31
13 18 0.28
14 2 0.03
15 6 0.09
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:18340528 original size:22 final size:22
Alignment explanation
Indices: 18340503--18340550 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
18340493 AAAGAGAAAG
18340503 TAAAAAATATA-ATAATAAAATA
1 TAAAAAATATACAT-ATAAAATA
*
18340525 TAAAAAATATACATATATAATA
1 TAAAAAATATACATATAAAATA
18340547 TAAA
1 TAAA
18340551 TAAGTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAATATACATATAAAATA
Found at i:18340589 original size:12 final size:12
Alignment explanation
Indices: 18340567--18340611 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
18340557 GAATAAAAGG
18340567 AAAATATAATAGT
1 AAAA-ATAATAGT
*
18340580 AAAAATAATAAT
1 AAAAATAATAGT
*
18340592 AAATATAATAGT
1 AAAAATAATAGT
*
18340604 AATAATAA
1 AAAAATAA
18340612 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:18341224 original size:37 final size:37
Alignment explanation
Indices: 18341183--18341287 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
18341173 GTGCCTGTGG
*
18341183 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
* * * *
18341220 ATCCTATTTTTAGGAGTTTAAATCTTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
* *
18341257 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAG
18341288 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
Found at i:18344311 original size:21 final size:21
Alignment explanation
Indices: 18344271--18344311 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18344261 ATTCCTAGGC
* **
18344271 CAACTCATCATAAGCCTATTA
1 CAACTCATCAAAAGAATATTA
18344292 CAACTCATCAAAAGAATATT
1 CAACTCATCAAAAGAATATT
18344312 CATTTAATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (21 bp):
CAACTCATCAAAAGAATATTA
Found at i:18347616 original size:22 final size:23
Alignment explanation
Indices: 18347582--18347638 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
18347572 GTACCCCTAC
18347582 AGTGCATCCATGCACC-TGCACT
1 AGTGCATCCATGCACCATGCACT
* *
18347604 AGTGCTTCGATGCACCATG--C-
1 AGTGCATCCATGCACCATGCACT
18347624 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
18347639 TCCATTTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 14 0.47
23 2 0.07
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (23 bp):
AGTGCATCCATGCACCATGCACT
Found at i:18347717 original size:20 final size:20
Alignment explanation
Indices: 18347658--18347730 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
18347648 AATGCACTTA
* *
18347658 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCATGCT
*
18347678 GTGCATTGATGCATCATGCT
1 GTGCATCGATGCATCATGCT
*
18347698 GTGCATCGATGCATCTTGCT
1 GTGCATCGATGCATCATGCT
* *
18347718 ATGCATCCATGCA
1 GTGCATCGATGCA
18347731 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCATGCT
Found at i:18347871 original size:20 final size:22
Alignment explanation
Indices: 18347833--18347872 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
18347823 TTTGAGTAGA
18347833 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
18347855 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
18347873 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:18348977 original size:19 final size:20
Alignment explanation
Indices: 18348953--18349000 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
18348943 AATGATTTTC
*
18348953 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
18348972 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
18348992 TTTTGAAAA
1 TTTTGAAAA
18349001 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:18349803 original size:20 final size:20
Alignment explanation
Indices: 18349780--18349817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18349770 ATATGTACTT
*
18349780 AATTTTAACAATTAGTATCA
1 AATTTAAACAATTAGTATCA
*
18349800 AATTTAAACAATTGGTAT
1 AATTTAAACAATTAGTAT
18349818 TGCATAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AATTTAAACAATTAGTATCA
Found at i:18350115 original size:24 final size:24
Alignment explanation
Indices: 18350088--18350136 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18350078 AAAAATTCAA
*
18350088 TTTCTTAATGAAAAAGGGGGAGCT
1 TTTCTTAATGAAAAACGGGGAGCT
18350112 TTTCTTAATGAAAAACGGGGAGCT
1 TTTCTTAATGAAAAACGGGGAGCT
18350136 T
1 T
18350137 AACATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (24 bp):
TTTCTTAATGAAAAACGGGGAGCT
Found at i:18350205 original size:21 final size:21
Alignment explanation
Indices: 18350166--18350205 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18350156 AAACAATTGG
*
18350166 TAACAATTGATATCATTTTGT
1 TAACAATTGACATCATTTTGT
* *
18350187 TAACAATTGGCATCTTTTT
1 TAACAATTGACATCATTTT
18350206 CATTAAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
TAACAATTGACATCATTTTGT
Found at i:18350476 original size:22 final size:23
Alignment explanation
Indices: 18350448--18350490 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
18350438 GTACCCCTGC
18350448 AGTGCATCCATGCACC-TGCACT
1 AGTGCATCCATGCACCATGCACT
*
18350470 AGTGCATCGATGCACCATGCA
1 AGTGCATCCATGCACCATGCA
18350491 GTGCATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (23 bp):
AGTGCATCCATGCACCATGCACT
Found at i:18350549 original size:20 final size:20
Alignment explanation
Indices: 18350524--18350596 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
18350514 AATGCACTTA
* *
18350524 GTGCATCAATGCATCCTGAT
1 GTGCATCGATGCATCCTGCT
18350544 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
18350564 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
18350584 GTGCATCCATGCA
1 GTGCATCGATGCA
18350597 CGAAGGCTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:18355404 original size:2 final size:2
Alignment explanation
Indices: 18355399--18355438 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
18355389 AATGAAGTAA
*
18355399 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18355439 AGCATGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:18356919 original size:3 final size:3
Alignment explanation
Indices: 18356901--18356938 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
18356891 TATTTATTTC
*
18356901 ATA ATA AGA ATAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
18356939 AAGCAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18357214 original size:45 final size:45
Alignment explanation
Indices: 18357113--18357645 Score: 855
Period size: 45 Copynumber: 12.0 Consensus size: 45
18357103 GAGGTCTTAT
* * *
18357113 CATCTTGCACTGAAGGGCTTACAAATGATCCGAAGGTTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAA
*
18357159 CATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
18357204 CATCATGCACTGAAGGGCTTATAGATGACCTGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
18357249 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
18357294 CATCATGCACTGAAGGGCTTACAGATGACCAGCAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
18357339 CATCATGCACTGAAGGGTTTACAGATGA-CC------TTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
18357377 CATCATGCACTGAAGGGATTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
**
18357422 CATCATGCACTGAAGGGCTTACAGATGACCTAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
18357467 CATCATGCACTGAAGAGCTTACAGATGACCTGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
18357512 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
18357557 CATCATGCACTGTAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
18357602 CATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
18357646 GTATCAAAAA
Statistics
Matches: 455, Mismatches: 25, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
38 35 0.08
39 2 0.00
44 1 0.00
45 385 0.85
46 32 0.07
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:18357617 original size:263 final size:264
Alignment explanation
Indices: 18357113--18357631 Score: 898
Period size: 263 Copynumber: 2.0 Consensus size: 264
18357103 GAGGTCTTAT
* * *
18357113 CATCTTGCACTGAAGGGCTTACAAATGATCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACT
1 CATCATGCACTGAAGGGATTACAAATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACT
* * *
18357178 TACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGTTT
66 TACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGACCTGAAGGTTT
18357243 TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA
131 TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA
*
18357308 GGGCTTACAGATGACCAGCAGGCTTTGAAAACATCATGCACTGAAGGGT-TTACAGATGACCTTT
196 GGGCTTACAGATGACCAGAAGGCTTTGAAAACATCATGCACTGAA-GGTCTTACAGATGACCTTT
18357372 GAAAA
260 GAAAA
* *
18357377 CATCATGCACTGAAGGGATTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCT
1 CATCATGCACTGAAGGGATTACAAATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACT
*
18357441 TACAGATGACCTAAAGGTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGACCTGAAGGTTT
66 TACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGACCTGAAGGTTT
*
18357506 TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGTA
131 TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA
* *
18357571 GGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACC
196 GGGCTTACAGATGACCAGAAGGCTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACC
18357632 CGAAGGTTTT
Statistics
Matches: 241, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
262 3 0.01
263 206 0.85
264 32 0.13
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (264 bp):
CATCATGCACTGAAGGGATTACAAATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACT
TACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGACCTGAAGGTTT
TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA
GGGCTTACAGATGACCAGAAGGCTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCTTTG
AAAA
Found at i:18357737 original size:45 final size:45
Alignment explanation
Indices: 18357669--18357772 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
18357659 CCTGAAGGCT
* ** *
18357669 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCAAAGG
*
18357714 TTTTGAAAACATCATGCATTGTAGGTCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCAAAGG
*
18357759 TTTTGAAAATATCA
1 TTTTGAAAACATCA
18357773 AAAAGCTCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCAAAGG
Found at i:18357762 original size:121 final size:121
Alignment explanation
Indices: 18357548--18357870 Score: 513
Period size: 121 Copynumber: 2.7 Consensus size: 121
18357538 GACCCGAAGG
* * **
18357548 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * *
18357613 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAGTATCAAAAAGCTC-CTGAAGGCT
66 GTAGGTCTTACAGATGACCCAAAGGTTTTGAAAATATCAAAAAGCTCTC-GAAGGCT
*
18357669 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCATT
1 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
18357734 GTAGGTCTTACAGATGACCCAAAGGTTTTGAAAATATCAAAAAGCTCTCGAAGGTT
66 GTAGGTCTTACAGATGACCCAAAGGTTTTGAAAATATCAAAAAGCTCTCGAAGGCT
* *
18357790 TTTTGAAAACAACCTACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT
* *
18357855 GTAGGTCATAAAGATG
66 GTAGGTCTTACAGATG
18357871 TGGGAAATAG
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
121 186 0.99
122 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (121 bp):
TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT
GTAGGTCTTACAGATGACCCAAAGGTTTTGAAAATATCAAAAAGCTCTCGAAGGCT
Found at i:18358579 original size:22 final size:22
Alignment explanation
Indices: 18358524--18358580 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
18358514 AATAAAGCTT
* *
18358524 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATATA
18358546 TCATCTTTGAAGAGAGAATATA
1 TCATCTTTGAAGAGAGAATATA
18358568 TCATCTTTGAAGA
1 TCATCTTTGAAGA
18358581 ATGTAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATATA
Found at i:18360054 original size:75 final size:75
Alignment explanation
Indices: 18359974--18360150 Score: 282
Period size: 75 Copynumber: 2.4 Consensus size: 75
18359964 ATAAGATGAT
* * * *
18359974 ATGGGCCTTCATCATGCCCCAACATTTACTGATACAAGCGTTCAAAATGCGTCAACATTCCTTAT
1 ATGGGCTTTCAGCATGCCCCAACATTTACTGATACAAACGTTCAAAATGCGTCAACATTCCTGAT
18360039 TATGATTGAA
66 TATGATTGAA
* * *
18360049 ATGGGCTTTCAGCATGCCCCAATATTTACTGATATAAACGTTCAAAATGCGTCAATATTCCTGAT
1 ATGGGCTTTCAGCATGCCCCAACATTTACTGATACAAACGTTCAAAATGCGTCAACATTCCTGAT
18360114 TATGATTGAA
66 TATGATTGAA
*
18360124 ATGGGCTTTCAGCATGCCCCAGCATTT
1 ATGGGCTTTCAGCATGCCCCAACATTT
18360151 TCTTCTTGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (75 bp):
ATGGGCTTTCAGCATGCCCCAACATTTACTGATACAAACGTTCAAAATGCGTCAACATTCCTGAT
TATGATTGAA
Found at i:18363625 original size:8 final size:8
Alignment explanation
Indices: 18363612--18363640 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18363602 CTTTATTCAA
18363612 TTTTTTCC
1 TTTTTTCC
18363620 TTTTTTCC
1 TTTTTTCC
18363628 -TTTTTCC
1 TTTTTTCC
18363635 TTTTTT
1 TTTTTT
18363641 TTGGTATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:18366040 original size:7 final size:7
Alignment explanation
Indices: 18366022--18366053 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
18366012 TACAAACGTA
18366022 AAAATGC
1 AAAATGC
18366029 AAAAATGC
1 -AAAATGC
18366037 AAAATGC
1 AAAATGC
18366044 AAAATGC
1 AAAATGC
18366051 AAA
1 AAA
18366054 TGTAACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATGC
Found at i:18366069 original size:20 final size:20
Alignment explanation
Indices: 18366046--18366083 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18366036 CAAAATGCAA
18366046 AATGCAAA-TGTAACAATAAG
1 AATGCAAATTGT-ACAATAAG
18366066 AATGCAAATTGTACAATA
1 AATGCAAATTGTACAATA
18366084 CAAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (20 bp):
AATGCAAATTGTACAATAAG
Found at i:18366798 original size:36 final size:36
Alignment explanation
Indices: 18366738--18366809 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
18366728 TCTTGATGTA
* *
18366738 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
* *
18366774 GAATACTTTTGGTATTAATATAACATGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
18366810 TACATAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:18370069 original size:3 final size:3
Alignment explanation
Indices: 18370061--18370139 Score: 88
Period size: 3 Copynumber: 25.0 Consensus size: 3
18370051 AATATTTATT
* *
18370061 TAA TAA TAA TAA TAA GAAA TAA TAA TAA TAA TGTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
18370108 TAAA TAAA TAAA TAA -AA TAA TAA TAA TAA TAA
1 T-AA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA
18370140 AAGCAAACTA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 51 0.75
4 15 0.22
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18370083 original size:16 final size:16
Alignment explanation
Indices: 18370062--18370139 Score: 81
Period size: 16 Copynumber: 4.9 Consensus size: 16
18370052 ATATTTATTT
18370062 AATAATAATAATAAGA
1 AATAATAATAATAAGA
18370078 AATAATAATAATAATG-
1 AATAATAATAATAA-GA
* *
18370094 TATAATAATAATAATA
1 AATAATAATAATAAGA
*
18370110 AATAAATAAATAA-AA-T
1 AAT-AAT-AATAATAAGA
18370126 AATAATAATAATAA
1 AATAATAATAATAA
18370140 AAGCAAACTA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.09
15 5 0.09
16 32 0.60
17 6 0.11
18 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAAGA
Found at i:18370085 original size:19 final size:19
Alignment explanation
Indices: 18370061--18370133 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
18370051 AATATTTATT
18370061 TAATAATAATAATAAGAAA
1 TAATAATAATAATAAGAAA
18370080 TAATAATAATAAT--GTATAA
1 TAATAATAATAATAAG-A-AA
*
18370099 TAATAATAATAAATAAATAAA
1 TAATAATAAT-AAT-AAGAAA
18370120 TAA-AATAATAATAA
1 TAATAATAATAATAA
18370134 TAATAAAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.02
18 3 0.06
19 28 0.60
20 9 0.19
21 5 0.11
22 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
TAATAATAATAATAAGAAA
Found at i:18370099 original size:32 final size:32
Alignment explanation
Indices: 18370061--18370139 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
18370051 AATATTTATT
18370061 TAATAATAATAATAAGAAAT-AAT-AATAATAA
1 TAATAATAATAATAAGAAATAAATAAATAA-AA
* *
18370092 TGTATAATAATAATAATAAATAAATAAATAAAA
1 T-AATAATAATAATAAGAAATAAATAAATAAAA
18370125 TAATAATAATAATAA
1 TAATAATAATAATAA
18370140 AAGCAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.02
32 30 0.71
33 6 0.14
34 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (32 bp):
TAATAATAATAATAAGAAATAAATAAATAAAA
Found at i:18377609 original size:21 final size:21
Alignment explanation
Indices: 18377583--18377627 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18377573 GATTTCTGGG
* *
18377583 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
18377604 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
18377625 CAA
1 CAA
18377628 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:18378596 original size:31 final size:31
Alignment explanation
Indices: 18378558--18378713 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
18378548 AGGGTCGAGG
18378558 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
18378589 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
18378620 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
18378651 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
18378682 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
18378713 G
1 G
18378714 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:18384764 original size:22 final size:22
Alignment explanation
Indices: 18384728--18384770 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18384718 ACTAAATATA
18384728 AAATTACTTAAAATTAAAAATT
1 AAATTACTTAAAATTAAAAATT
*
18384750 AAATTAC-TAACAATTTAAAAT
1 AAATTACTTAA-AATTAAAAAT
18384771 ACATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTACTTAAAATTAAAAATT
Found at i:18388290 original size:31 final size:31
Alignment explanation
Indices: 18388255--18388321 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18388245 ATGATATCCC
*
18388255 AGAAAAAAAAGA-GTTTGACGTA-GACTCCTAG
1 AGAAAAAAAAGATGTTT-ACATAGGA-TCCTAG
*
18388286 AGAAAAAAATGATGTTTACATAGGATCCTAG
1 AGAAAAAAAAGATGTTTACATAGGATCCTAG
18388317 AGAAA
1 AGAAA
18388322 GTAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (31 bp):
AGAAAAAAAAGATGTTTACATAGGATCCTAG
Found at i:18393205 original size:33 final size:33
Alignment explanation
Indices: 18393161--18393227 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18393151 TCCATGATTT
18393161 TGAATGCCAAATTACCTCTATTATTTATAGAAG
1 TGAATGCCAAATTACCTCTATTATTTATAGAAG
*
18393194 TGAATGTCAAATTACCTCTATTATTTATAGAAG
1 TGAATGCCAAATTACCTCTATTATTTATAGAAG
18393227 T
1 T
18393228 TAGTTGGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (33 bp):
TGAATGCCAAATTACCTCTATTATTTATAGAAG
Done.