Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 49
Found at i:6928220 original size:32 final size:33
Alignment explanation
Indices: 6928165--6928234 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
6928155 TTCACTTAGA
6928165 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
6928198 TTTCATTTCGCGTTGCTA-TCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
6928230 TTTCA
1 TTTCA
6928235 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:6928340 original size:21 final size:20
Alignment explanation
Indices: 6928314--6928387 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
6928304 TGCAGAAGAG
6928314 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
6928335 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
6928355 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
6928377 TCGCAACGAGA
1 TCGCAACGAGA
6928388 GAATCGCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 25 0.56
22 10 0.22
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:6928394 original size:14 final size:14
Alignment explanation
Indices: 6928375--6928431 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6928365 GAAAAATGAA
6928375 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
6928389 AATCGCAACGCGAAATAAA
1 AATCGCAA--CG--A-GAG
6928408 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6928422 AATCGCAACG
1 AATCGCAACG
6928432 CGAAACCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6928411 original size:33 final size:33
Alignment explanation
Indices: 6928368--6928436 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
6928358 GCAACGAGAA
*
6928368 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
6928401 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
6928434 AAA
1 AAA
6928437 CCTAAATCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.09
Consensus pattern (33 bp):
AAATAAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:6928444 original size:33 final size:33
Alignment explanation
Indices: 6928373--6928447 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
6928363 GAGAAAAATG
*
6928373 AAAATCGCAACGAGAGAATCGCAACGCGAAATA
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACA
*
6928406 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACA
*
6928439 TAAATCGCA
1 AAAATCGCA
6928448 TAGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACA
Found at i:6928484 original size:14 final size:14
Alignment explanation
Indices: 6928465--6928521 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6928455 TTTCATTTCG
6928465 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6928479 CGTTGCGATTTTCATTTT
1 CGTTGCGA--TTC--TCT
6928497 GCGTTGCGATTCTCT
1 -CGTTGCGATTCTCT
6928512 CGTTGCGATT
1 CGTTGCGATT
6928522 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 2 0.06
16 3 0.08
17 3 0.08
18 2 0.06
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6928492 original size:33 final size:33
Alignment explanation
Indices: 6928450--6928570 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 33
6928440 AAATCGCATA
6928450 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
6928483 GCGATTTTCATTTTGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
6928516 GCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCGTT
1 GCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCGTT
6928557 GCGATTTTCATTTC
1 GCGATTTTCATTTC
6928571 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 42 0.55
34 2 0.03
35 5 0.06
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:6928532 original size:21 final size:21
Alignment explanation
Indices: 6928506--6928570 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
6928496 TGCGTTGCGA
6928506 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6928527 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6928547 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
6928568 TTC
1 TTC
6928571 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6930413 original size:93 final size:93
Alignment explanation
Indices: 6930254--6930569 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
6930244 TAGATTGCTT
*
6930254 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6930319 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6930347 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6930412 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6930440 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6930505 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6930533 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
6930570 AATACCCTGA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:6930725 original size:33 final size:33
Alignment explanation
Indices: 6930667--6930790 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
6930657 TAGTTTACTT
* * *
6930667 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
6930701 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
* *
6930734 TCGCAATGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
6930767 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
6930791 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:6930737 original size:14 final size:14
Alignment explanation
Indices: 6930685--6930774 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
6930675 CGAAACTTAA
*
6930685 AATCGCAACGAGAG
1 AATCGCAACGACAG
*
6930699 AATCGCAACGCGAAATG
1 AATCGCAA--CGACA-G
6930716 AAAATCGCAACGACAG
1 --AATCGCAACGACAG
*
6930732 AATCGCAATGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
6930751 AATCGCAACGACAA
1 AATCGCAACGACAG
6930765 AATCGCAACG
1 AATCGCAACG
6930775 CGAAACCAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
14 29 0.46
15 1 0.02
16 7 0.11
17 7 0.11
18 1 0.02
19 18 0.29
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.09
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:6930756 original size:19 final size:19
Alignment explanation
Indices: 6930732--6930796 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
6930722 GCAACGACAG
6930732 AATCGCAATGCGAAACCAA
1 AATCGCAATGCGAAACCAA
6930751 AATCGCAA--CG--A-CAA
1 AATCGCAATGCGAAACCAA
*
6930765 AATCGCAACGCGAAACCAA
1 AATCGCAATGCGAAACCAA
*
6930784 AATCGCATTGCGA
1 AATCGCAATGCGA
6930797 TTTTCATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 11 0.28
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.56
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
AATCGCAATGCGAAACCAA
Found at i:6930808 original size:19 final size:19
Alignment explanation
Indices: 6930786--6930939 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
6930776 GAAACCAAAA
*
6930786 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6930805 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
6930819 TCTCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
6930838 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
6930854 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
6930871 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
6930890 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
6930909 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
6930929 TCGTGTTGCGA
1 TCGCGTTGCGA
6930940 AAGTAAACTA
Statistics
Matches: 105, Mismatches: 19, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
14 16 0.15
16 8 0.08
17 8 0.08
19 61 0.58
20 12 0.11
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6930836 original size:33 final size:33
Alignment explanation
Indices: 6930791--6930921 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
6930781 CAAAATCGCA
6930791 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
6930824 TTACGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6930857 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGA---T--TCTCTCG
*
6930895 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
6930922 TTAAGTTTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
33 54 0.64
35 1 0.01
36 1 0.01
38 29 0.34
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6932537 original size:14 final size:14
Alignment explanation
Indices: 6932518--6932553 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6932508 ATTGTTTAAT
6932518 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6932532 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
6932546 TGATTTGT
1 TGATTTGT
6932554 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6932676 original size:19 final size:19
Alignment explanation
Indices: 6932660--6932757 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
6932650 AAAAATGACT
6932660 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6932679 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6932698 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
6932712 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6932731 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
6932751 ATCGCAA
1 ATCGCAA
6932758 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6932789 original size:53 final size:53
Alignment explanation
Indices: 6932660--6932776 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
6932650 AAAAATGACT
6932660 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
6932712 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
6932765 ATCGCAATGCGA
1 ATCGCAATGCGA
6932777 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:6932829 original size:14 final size:14
Alignment explanation
Indices: 6932810--6932864 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6932800 CATTTCTGCA
6932810 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
6932824 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
6932841 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
6932857 TTGCGATT
1 TTGCGATT
6932865 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:6932835 original size:53 final size:52
Alignment explanation
Indices: 6932766--6933074 Score: 375
Period size: 53 Copynumber: 5.9 Consensus size: 52
6932756 AACGAGAGAA
* * * *
6932766 TCGCAATGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCTGCA-TTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC-G-ATTTTC-ATT
* *
6932818 CTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 -TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
6932871 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
6932923 TCGCATTGTGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
6932976 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
6933032 T-G--TTG-GAATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCG-ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
6933075 GTAATTTCTG
Statistics
Matches: 233, Mismatches: 12, Indels: 28
0.85 0.04 0.10
Matches are distributed among these distances:
47 8 0.03
49 2 0.01
50 2 0.01
51 3 0.01
52 80 0.34
53 107 0.46
54 8 0.03
55 8 0.03
56 3 0.01
58 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:6933082 original size:33 final size:33
Alignment explanation
Indices: 6932790--6933074 Score: 292
Period size: 33 Copynumber: 8.2 Consensus size: 33
6932780 TCATTTCGCA
6932790 TTGCGATTTTCATTTCTGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTC-GCATTGCGATTCTCTCG
6932824 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
6932857 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
6932893 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
6932928 TTGTGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
6932962 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
6932998 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
6933034 TTG-GAATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCG-ATTTTCATTTCGCATTGCGATTCTCTCG
6933067 TTGCGATT
1 TTGCGATT
6933075 GTAATTTCTG
Statistics
Matches: 211, Mismatches: 18, Indels: 45
0.77 0.07 0.16
Matches are distributed among these distances:
31 4 0.02
32 7 0.03
33 85 0.40
34 47 0.22
35 8 0.04
36 10 0.05
37 5 0.02
38 23 0.11
39 13 0.06
40 9 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:6933082 original size:105 final size:106
Alignment explanation
Indices: 6932766--6933074 Score: 456
Period size: 105 Copynumber: 2.9 Consensus size: 106
6932756 AACGAGAGAA
* * *
6932766 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCTGCATTGCGATTCTC-TCGTTGCGA
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGA
6932830 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
66 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
6932871 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTCGCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--TCG--TT
*
6932930 GTGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
62 GCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
6932976 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTG-GA
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCG-
6933039 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
65 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
6933075 GTAATTTCTG
Statistics
Matches: 185, Mismatches: 6, Indels: 26
0.85 0.03 0.12
Matches are distributed among these distances:
99 10 0.05
101 1 0.01
102 5 0.03
103 3 0.02
104 14 0.08
105 118 0.64
106 13 0.07
107 3 0.02
108 3 0.02
109 3 0.02
111 12 0.06
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (106 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGCGA
TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:6935588 original size:24 final size:24
Alignment explanation
Indices: 6935554--6935600 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6935544 CTGAAACATC
6935554 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
6935578 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
6935601 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:6936321 original size:20 final size:20
Alignment explanation
Indices: 6936293--6936521 Score: 226
Period size: 20 Copynumber: 11.4 Consensus size: 20
6936283 AAATTTCAGT
* * *
6936293 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
6936313 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
6936333 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
6936353 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
6936373 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
6936393 GTTGCGATATATGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
6936413 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
6936433 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
6936453 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
6936473 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
6936493 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
6936513 GTTGCGATT
1 GTTGCGATT
6936522 CTTGAAAATC
Statistics
Matches: 179, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:6936574 original size:21 final size:20
Alignment explanation
Indices: 6936489--6936586 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
6936479 ATTTATGTGT
* *
6936489 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
6936509 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
6936530 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
6936551 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
6936572 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
6936587 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:6936582 original size:42 final size:43
Alignment explanation
Indices: 6936489--6936587 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
6936479 ATTTATGTGT
* *
6936489 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
6936530 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
6936572 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
6936588 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:6940089 original size:24 final size:24
Alignment explanation
Indices: 6940030--6940097 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
6940020 CAAAATTCAG
*
6940030 ATCAGATATCATAACAGAATCCAT
1 ATCAGATATCATAATAGAATCCAT
* *
6940054 ATCAGATATCATAATATAATCCGT
1 ATCAGATATCATAATAGAATCCAT
6940078 ATCAGATATCATAATAGAAT
1 ATCAGATATCATAATAGAAT
6940098 GTGGATCAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (24 bp):
ATCAGATATCATAATAGAATCCAT
Found at i:6940105 original size:24 final size:24
Alignment explanation
Indices: 6940006--6940120 Score: 104
Period size: 24 Copynumber: 4.8 Consensus size: 24
6939996 ATAAACAGAA
* * * * *
6940006 ATCAGAAATCAGAACAAAATTCAG
1 ATCAGATATCATAACAGAATCCGG
**
6940030 ATCAGATATCATAACAGAATCCAT
1 ATCAGATATCATAACAGAATCCGG
* * *
6940054 ATCAGATATCATAATATAATCCGT
1 ATCAGATATCATAACAGAATCCGG
* **
6940078 ATCAGATATCATAATAGAATGTGG
1 ATCAGATATCATAACAGAATCCGG
*
6940102 ATCAGAAATCATAACAGAA
1 ATCAGATATCATAACAGAA
6940121 ATCAGATAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
ATCAGATATCATAACAGAATCCGG
Found at i:6940996 original size:26 final size:27
Alignment explanation
Indices: 6940942--6941009 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
6940932 AATTCCAGGG
*
6940942 TTTAGAGGTATTTTAGGCCATTTTACAC
1 TTTAGGGGTATTTTA-GCCATTTTACAC
*
6940970 TTTAGGGGTATTTT-GTCATTTTACAC
1 TTTAGGGGTATTTTAGCCATTTTACAC
6940996 TTTAGGGGTATTTT
1 TTTAGGGGTATTTT
6941010 TATAATTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 25 0.66
28 13 0.34
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (27 bp):
TTTAGGGGTATTTTAGCCATTTTACAC
Found at i:6942378 original size:64 final size:63
Alignment explanation
Indices: 6942301--6942479 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 63
6942291 TGGAACACTT
* * * ** **
6942301 AGTGCATCAGTGCACCAAGTGTGCATCGATGCATTAAATGCATTCGATGTTTGAA-AATAGTCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
6942365 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
6942429 AGTGCATCGATGCATAGAGAGTGCATTGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
6942480 CAATTTATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
64 93 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:6950974 original size:64 final size:64
Alignment explanation
Indices: 6950861--6950984 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
6950851 GTGCACCAAG
* ** *
6950861 TGTGCATCAATGCATAAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGGTGCATTGCT
1 TGTGCATCAATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
* * *
6950925 TGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATGCAT
1 TGTGCATCAATGCATAAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGCAT
6950985 GAAATGCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (64 bp):
TGTGCATCAATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
Found at i:6952487 original size:12 final size:12
Alignment explanation
Indices: 6952470--6952494 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6952460 TATAATTGGA
6952470 AATAAAAATTTT
1 AATAAAAATTTT
6952482 AATAAAAATTTT
1 AATAAAAATTTT
6952494 A
1 A
6952495 TTTCTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAAAAATTTT
Found at i:6953184 original size:20 final size:20
Alignment explanation
Indices: 6953161--6953208 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
6953151 CTATGTATGT
6953161 TATCAATACTATATTATAAG
1 TATCAATACTATATTATAAG
*
6953181 TATCAATACTATATTATGAG
1 TATCAATACTATATTATAAG
*
6953201 CATCAATA
1 TATCAATA
6953209 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (20 bp):
TATCAATACTATATTATAAG
Found at i:6957967 original size:25 final size:22
Alignment explanation
Indices: 6957938--6957982 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 22
6957928 AAGGGTGTAT
6957938 ATATATATATATATATAATAAATAA
1 ATATA-AT-TATAT-TAATAAATAA
6957963 ATATAATTATATTAATAAAT
1 ATATAATTATATTAATAAAT
6957983 TGGTAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 2 0.10
25 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATAATTATATTAATAAATAA
Found at i:6958940 original size:4 final size:4
Alignment explanation
Indices: 6958931--6958961 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6958921 ACTGTTCAAC
6958931 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
6958962 ACATGCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:6959259 original size:17 final size:18
Alignment explanation
Indices: 6959227--6959260 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6959217 AATCAAGAAT
6959227 TTTATAATAAAAATTAAA
1 TTTATAATAAAAATTAAA
*
6959245 TTTATAA-ATAAATTAA
1 TTTATAATAAAAATTAA
6959261 GAAATACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTATAATAAAAATTAAA
Found at i:6959966 original size:4 final size:4
Alignment explanation
Indices: 6959957--6959982 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6959947 ATTATTGAAA
6959957 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
6959983 TTAGTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:6960237 original size:2 final size:2
Alignment explanation
Indices: 6960230--6960258 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6960220 TGTATTTAGA
6960230 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 A
6960259 ATTTAATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6961468 original size:60 final size:61
Alignment explanation
Indices: 6961373--6961531 Score: 164
Period size: 60 Copynumber: 2.6 Consensus size: 61
6961363 TAGTAATGTG
** * *
6961373 TATAGTTTG-GGATGAAATGGGAATGTTCAAAAAGTTTAG-GGACCAATTTAGAATTA-AGGT
1 TATAGTTTGAGGATGAAATTAGAATATTC-AAAAGTTTAGAGGACCAATTTAGAATGATA-GT
* * *
6961433 TATAGTTTGAGGATGAAATTAAAATATTCAAAAGTTT-GATGACTAATTTAGAATGATAGT
1 TATAGTTTGAGGATGAAATTAGAATATTCAAAAGTTTAGAGGACCAATTTAGAATGATAGT
* * * * *
6961493 CATAGTTTAAAGATAAAATTAGAATATTTAAAAGTTTAG
1 TATAGTTTGAGGATGAAATTAGAATATTCAAAAGTTTAG
6961532 TGATCAAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
59 1 0.01
60 64 0.78
61 17 0.21
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.35
Consensus pattern (61 bp):
TATAGTTTGAGGATGAAATTAGAATATTCAAAAGTTTAGAGGACCAATTTAGAATGATAGT
Found at i:6961555 original size:60 final size:59
Alignment explanation
Indices: 6961402--6961556 Score: 152
Period size: 60 Copynumber: 2.6 Consensus size: 59
6961392 GGAATGTTCA
* * * * * *
6961402 AAAAGTTTAGGGACCAATTTAGAATTAAGGTTATAGTTTGAGGATGAAATTAAAATATTC
1 AAAAGTTTAGTGA-CAATTTAGAATGAAGGTCATAGTTTAAAGATAAAATTAAAATATTC
* *
6961462 AAAAGTTT-GATGACTAATTTAGAATGATA-GTCATAGTTTAAAGATAAAATTAGAATATTT
1 AAAAGTTTAG-TGAC-AATTTAGAATGA-AGGTCATAGTTTAAAGATAAAATTAAAATATTC
* * *
6961522 AAAAGTTTAGTGATCAAATTATAATGAGGGTCATA
1 AAAAGTTTAGTGA-CAATTTAGAATGAAGGTCATA
6961557 CTTTGAGGAC
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
59 2 0.03
60 73 0.94
61 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (59 bp):
AAAAGTTTAGTGACAATTTAGAATGAAGGTCATAGTTTAAAGATAAAATTAAAATATTC
Found at i:6962705 original size:60 final size:58
Alignment explanation
Indices: 6962529--6962705 Score: 158
Period size: 60 Copynumber: 2.9 Consensus size: 58
6962519 AATTTGGGAT
* * * ** *
6962529 GAAATTGAAACGTTTAAAAAGTTTTGGGAATAATTTAGAATGAATATCATAGTTTGGGGAT
1 GAAATTGAAATGTTT-AAAAG-TTTGGG-ATAACTTAGAATGAAGATCATAGTTTAAGGAA
* * * *
6962590 GAAACTGAAATGATCAAATGTTTGAGGATTAACTTAGAATGATAG-TCATAGTTTAAGGAA
1 GAAATTGAAATGTTTAAAAGTTTG-GGA-TAACTTAGAATGA-AGATCATAGTTTAAGGAA
* * *
6962650 GAAATTGAAATGTTTAAAAGTTTAGGGATCAACTTAGAACGAAGATCGTAATTTAA
1 GAAATTGAAATGTTTAAAAGTTT-GGGAT-AACTTAGAATGAAGATCATAGTTTAA
6962706 TCTAATTATT
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
59 8 0.09
60 72 0.77
61 13 0.14
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (58 bp):
GAAATTGAAATGTTTAAAAGTTTGGGATAACTTAGAATGAAGATCATAGTTTAAGGAA
Found at i:6963481 original size:17 final size:18
Alignment explanation
Indices: 6963451--6963484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6963441 CTTAAATTTA
6963451 AAAAAGCCTCAAATCCCT
1 AAAAAGCCTCAAATCCCT
*
6963469 AAAAATCCT-AAATCCC
1 AAAAAGCCTCAAATCCC
6963485 CAACACTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAAGCCTCAAATCCCT
Found at i:6963796 original size:18 final size:19
Alignment explanation
Indices: 6963765--6963800 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6963755 GTTGAAATTA
6963765 GGGTTTTCAAAGTTTTTTG
1 GGGTTTTCAAAGTTTTTTG
6963784 GGGTTTT-AAAGTTTTTT
1 GGGTTTTCAAAGTTTTTT
6963801 CAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (19 bp):
GGGTTTTCAAAGTTTTTTG
Found at i:6967613 original size:2 final size:2
Alignment explanation
Indices: 6967606--6967659 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
6967596 TACAAAAGAA
6967606 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
6967648 AT AT AT AT AT AT
1 AT AT AT AT AT AT
6967660 TGATGAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6971061 original size:30 final size:29
Alignment explanation
Indices: 6971006--6971062 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
6970996 TAAAATTACT
* *
6971006 TATTAAATTAAATCAAGTTAAAATTTTAA
1 TATTAAATAAAATCAAGTAAAAATTTTAA
6971035 TATTAAATCAAAATCAA-TAAATAATTTT
1 TATTAAAT-AAAATCAAGTAAA-AATTTT
6971063 TTTCGCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
TATTAAATAAAATCAAGTAAAAATTTTAA
Found at i:6971313 original size:2 final size:2
Alignment explanation
Indices: 6971306--6971337 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6971296 CATACTTTTA
6971306 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
6971338 GACAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6971636 original size:21 final size:20
Alignment explanation
Indices: 6971610--6971676 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
6971600 ATCTTTTTTT
6971610 ATTTTTATAATTAGGTCCTTA
1 ATTTTTATAATTAGGT-CTTA
* * * *
6971631 ATTTTTAAAATTTA-TTTTTT
1 ATTTTTATAA-TTAGGTCTTA
6971651 ATTTTTATAATTGAGGTCTTA
1 ATTTTTATAATT-AGGTCTTA
6971672 ATTTT
1 ATTTT
6971677 ATTCAATCTC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 18 0.51
22 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTTATAATTAGGTCTTA
Found at i:6971676 original size:20 final size:19
Alignment explanation
Indices: 6971612--6971678 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
6971602 CTTTTTTTAT
6971612 TTTTATAATTAGGTCCTTAA
1 TTTTATAATTAGGT-CTTAA
* ** * *
6971632 TTTTTAAAATTTATTTTTTAT
1 -TTTTATAA-TTAGGTCTTAA
6971653 TTTTATAATTGAGGTCTTAA
1 TTTTATAATT-AGGTCTTAA
6971673 TTTTAT
1 TTTTAT
6971679 TCAATCTCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 10 0.29
22 4 0.12
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTATAATTAGGTCTTAA
Found at i:6971701 original size:84 final size:81
Alignment explanation
Indices: 6971605--6971960 Score: 216
Period size: 89 Copynumber: 4.2 Consensus size: 81
6971595 AGGCTATCTT
* ** *
6971605 TTTTTATTTTTATAATT-AGGTCCTTAATTTTTAAAATTTATTTTTTATTTTTATAATTGAGGTC
1 TTTTTATCTTTATAATTAAGGTCCTTAATTTTT-AAATCCATTTTTTATTTTTATAATTGAGGCC
*
6971669 TTAATTTTATTCAATCTCAC
65 CTAA-TTT-TT-AATCTCAC
** * * *
6971689 TTTTTATCTTTATTGTTAAAGT-CTCTAATTTTTCAATCCCTTTTTTATTTTTATAATTGAGGCC
1 TTTTTATCTTTATAATTAAGGTCCT-TAATTTTTAAATCCATTTTTTATTTTTATAATTGAGGCC
6971753 CTAATTTTTAATCTCAC
65 CTAATTTTTAATCTCAC
* * * * * ** **
6971770 -TTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCAATTTCCACCTTTATAATTGAGG
1 TTTTTATCTTTATAATTAAGGTCCTTAA--TTTTTAAATC-CATTTTTTATTTTTATAATTGAGG
* * *
6971834 CCCCTACTTTTTTAGTCTCAAT
63 -CCCTA-ATTTTTAATCTC-AC
* * * * * *
6971856 TTTTTAACTTTATAATTGATG-CACTTAATTTTTTTTTCAATCTCACTTTTTATCTTTATAATTG
1 TTTTTATCTTTATAATTAAGGTC-CTTAA----TTTTTAAATC-CATTTTTTATTTTTATAATTG
* *
6971920 AGGCCCTTAAGTTTTTCAATCTAAA
60 AGGCCC-TAA-TTTTT-AATCTCAC
**
6971945 TTTCCATCTTTATAAT
1 TTTTTATCTTTATAAT
6971961 AGAGGCCCCT
Statistics
Matches: 218, Mismatches: 38, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
80 18 0.08
81 10 0.05
82 12 0.06
83 21 0.10
84 50 0.23
85 21 0.10
86 2 0.01
87 24 0.11
88 3 0.01
89 53 0.24
90 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.53
Consensus pattern (81 bp):
TTTTTATCTTTATAATTAAGGTCCTTAATTTTTAAATCCATTTTTTATTTTTATAATTGAGGCCC
TAATTTTTAATCTCAC
Found at i:6971773 original size:41 final size:43
Alignment explanation
Indices: 6971604--6972063 Score: 260
Period size: 43 Copynumber: 10.8 Consensus size: 43
6971594 AAGGCTATCT
* * ** *
6971604 TTTTTTATTTTTATAATT-AGGTCCTTAATTTTTAAAAT-TTA-
1 TTTTTTATCTTTATAATTGAGG-CCCTAATTTTTTCAATCTCAC
* * *
6971645 TTTTTTATTTTTATAATTGAGGTCTTAATTTTATTCAATCTCAC
1 TTTTTTATCTTTATAATTGAGGCCCTAATTTT-TTCAATCTCAC
** * * *
6971689 -TTTTTATCTTTATTGTTAAAGTCTCTAA-TTTTTCAATC-C-C
1 TTTTTTATCTTTATAATT-GAGGCCCTAATTTTTTCAATCTCAC
*
6971729 TTTTTTATTTTTATAATTGAGGCCCTAA-TTTTT-AATCTCAC
1 TTTTTTATCTTTATAATTGAGGCCCTAATTTTTTCAATCTCAC
*
6971770 --TTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCA-
1 TTTTTTATCTTTATAATTGAGGCCC-TAA-TTTTTTCAATCTCAC
* ** * * * *
6971812 ATTTCCACCTTTATAATTGAGGCCCCTACTTTTTT-AGTCTCAA
1 TTTTTTATCTTTATAATTGAGG-CCCTAATTTTTTCAATCTCAC
* * *
6971855 TTTTTTAACTTTATAATTGATGCACTTAATTTTTTTTTCAATCTCAC
1 TTTTTTATCTTTATAATTGAGGC-CCTAA---TTTTTTCAATCTCAC
* *
6971902 -TTTTTATCTTTATAATTGAGGCCCTTAAGTTTTTCAATCT-AA
1 TTTTTTATCTTTATAATTGAGGCCC-TAATTTTTTCAATCTCAC
* ** * *
6971944 ATTTCCATCTTTATAATAGAGGCCCCTGAGTTTTTTCAATCTCA-
1 TTTTTTATCTTTATAATTGAGG-CCCT-AATTTTTTCAATCTCAC
* * * *
6971988 -ATTATATC--T-TAATTGAGGCCCCTATTTTTTTAAATCTCA-
1 TTTTTTATCTTTATAATTGAGG-CCCTAATTTTTTCAATCTCAC
* * * * *
6972027 ATTTATACCTTTATAATTAAGGCTTCTAATTGTTTTC
1 TTTTTTATCTTTATAATTGAGGC-CCTAATT-TTTTC
6972064 CAATTACATA
Statistics
Matches: 331, Mismatches: 56, Indels: 61
0.74 0.12 0.14
Matches are distributed among these distances:
39 39 0.12
40 36 0.11
41 44 0.13
42 29 0.09
43 100 0.30
44 43 0.13
45 5 0.02
46 29 0.09
47 6 0.02
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.51
Consensus pattern (43 bp):
TTTTTTATCTTTATAATTGAGGCCCTAATTTTTTCAATCTCAC
Found at i:6971923 original size:89 final size:84
Alignment explanation
Indices: 6971717--6972049 Score: 275
Period size: 83 Copynumber: 3.9 Consensus size: 84
6971707 AAGTCTCTAA
*
6971717 TTTTTCAATC-C-CTTTTTTATTTTTATAATTGAGG-CCCTAATTTTTAATCTCACTTTTAACTT
1 TTTTTCAATCTCAC-TTTTTATCTTTATAATTGAGGCCCCTAATTTTTAATCTCACTTTTAACTT
*
6971779 TATAATTGAGGCCCTTAAGT
65 TATAATTGAGGCACTTAAGT
* ** * * * *
6971799 TTTTTCAATCTCAATTTCCACCTTTATAATTGAGGCCCCTACTTTTTTAGTCTCAATTTTTTAAC
1 TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCCTA-ATTTTTAATCTC-A-CTTTTAAC
* *
6971864 TTTATAATTGATGCACTTAATTTT
63 TTTATAATTGAGGCACTTAA--GT
* * * * *
6971888 TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCTTAAGTTTTTCAATCTAAATTTCCATC
1 TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCCTAA-TTTTT-AATCTCACTTT-TAAC
* * * *
6971953 TTTATAATAGAGGCCCCTGAGT
63 TTTATAATTGAGGCACTTAAGT
* * * * *
6971975 TTTTTCAATCTCA-ATTATATC--T-TAATTGAGGCCCCTATTTTTTTAAATCTCAATTTATACC
1 TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCCTA-ATTTTT-AATCTCACTTT-TAAC
*
6972036 TTTATAATTAAGGC
63 TTTATAATTGAGGC
6972050 TTCTAATTGT
Statistics
Matches: 200, Mismatches: 39, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
82 10 0.05
83 61 0.31
84 6 0.03
85 10 0.05
86 7 0.04
87 39 0.19
88 3 0.01
89 60 0.30
90 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (84 bp):
TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCCTAATTTTTAATCTCACTTTTAACTTT
ATAATTGAGGCACTTAAGT
Found at i:6972028 original size:132 final size:131
Alignment explanation
Indices: 6971757--6972049 Score: 343
Period size: 132 Copynumber: 2.3 Consensus size: 131
6971747 GAGGCCCTAA
*
6971757 TTTTT-AATCTCACTTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCAATTTCCACC
1 TTTTTCAATCTCACTTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTAAATTTCCACC
* * * * * *
6971821 TTTATAATTGAGGCCCCTACTTTTTTAGTCTCAATTTTTTAACTTTATAATTGATGCACTTAATT
66 TTTATAATAGAGGCCCCTACTTTTTTAATCTCAA-TTTATAACTCTATAATTGAGGCACCTAATT
6971886 TT
130 TT
* *
6971888 TTTTTCAATCTCACTTTTTATCTTTATAATTGAGGCCCTTAAG-TTTTTCAATCTAAATTTCCAT
1 TTTTTCAATCTCAC-TTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTAAATTTCCAC
* *
6971952 CTTTATAATAGAGGCCCCTGAGTTTTTTCAATCTCAA-TTAT-A-TCT-TAATTGAGGCCCCT-A
65 CTTTATAATAGAGGCCCCT-ACTTTTTT-AATCTCAATTTATAACTCTATAATTGAGGCACCTAA
6972012 --TT
128 TTTT
* * * *
6972014 TTTTTAAATCTCAATTTATACCTTTATAATTAAGGC
1 TTTTTCAATCTCACTTT-TAACTTTATAATTGAGGC
6972050 TTCTAATTGT
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
125 3 0.02
126 30 0.21
128 1 0.01
129 11 0.08
130 2 0.01
131 6 0.04
132 48 0.34
133 34 0.24
134 7 0.05
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (131 bp):
TTTTTCAATCTCACTTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTAAATTTCCACC
TTTATAATAGAGGCCCCTACTTTTTTAATCTCAATTTATAACTCTATAATTGAGGCACCTAATTT
T
Found at i:6973723 original size:183 final size:184
Alignment explanation
Indices: 6973519--6973905 Score: 638
Period size: 183 Copynumber: 2.1 Consensus size: 184
6973509 ATTAAATTTT
* * *
6973519 AAATATTAAATATATTATATATAACATATGGGTTCAA-CCCAAATCATTTAAAACTCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATA
* *
6973583 ATTTAAGATCTAGTAACTTTTAAACTTAAATCAATATTAATTAATT-AAAAAATTATATAAATTT
65 ATTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
* *
6973647 TTTATTTTATAATTATATATTATTTAAATTATTTGTAAACTGTTTTTT-AATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
6973702 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
6973767 TTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATCTAAAATTT
66 TTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
6973832 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* *
6973886 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
6973906 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 2 0.01
183 117 0.61
184 72 0.38
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:6974043 original size:15 final size:15
Alignment explanation
Indices: 6974023--6974051 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6974013 AAAAAAAGTT
6974023 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
6974038 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
6974052 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:6981543 original size:29 final size:29
Alignment explanation
Indices: 6981477--6981544 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
6981467 AAGAAGAATA
*
6981477 AGTTTGATTAATTAATTTTTTGTTAATTC
1 AGTTTGATTAATTAATTTTTTGTTAATCC
* *
6981506 AATTCGATTAATTTAA-TTTTTGTTAATCC
1 AGTTTGATTAA-TTAATTTTTTGTTAATCC
*
6981535 GGTTTGATTA
1 AGTTTGATTA
6981545 GTTATCAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (29 bp):
AGTTTGATTAATTAATTTTTTGTTAATCC
Found at i:6983018 original size:2 final size:2
Alignment explanation
Indices: 6983011--6983053 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6983001 AAGAAATTAT
6983011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6983053 T
1 T
6983054 TTAGCTTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6983153 original size:11 final size:11
Alignment explanation
Indices: 6983137--6983162 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6983127 TTAAATATAA
6983137 TATATATTATT
1 TATATATTATT
6983148 TATATATTATT
1 TATATATTATT
6983159 TATA
1 TATA
6983163 AATTTCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:6984747 original size:34 final size:34
Alignment explanation
Indices: 6984698--6984768 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
6984688 AGAAAATAGG
6984698 AATAAAAACTTCTCTC-GATATAACAAGGAGAAAAC
1 AATAAAAACTTCTCTCTGATA-AA-AAGGAGAAAAC
*
6984733 AATAACAA-TTCTCTCTTGATAAAAAGGAGAAAAC
1 AATAAAAACTTCTCTC-TGATAAAAAGGAGAAAAC
6984767 AA
1 AA
6984769 CTCTCAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 20 0.61
35 9 0.27
36 4 0.12
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.21
Consensus pattern (34 bp):
AATAAAAACTTCTCTCTGATAAAAAGGAGAAAAC
Found at i:6990182 original size:20 final size:18
Alignment explanation
Indices: 6990147--6990187 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6990137 TGAATAATTG
*
6990147 AATCGAATATAATATTTA
1 AATCGAATATAATATTAA
6990165 AATCGAATATGAAATATTAA
1 AATCGAATAT--AATATTAA
6990185 AAT
1 AAT
6990188 TCATTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (18 bp):
AATCGAATATAATATTAA
Found at i:6992020 original size:12 final size:13
Alignment explanation
Indices: 6992003--6992035 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6991993 ATGGGCAAAA
*
6992003 TTTGAAAACT-AT
1 TTTGAAAACTAAG
6992015 TTTGAAAACTAAG
1 TTTGAAAACTAAG
6992028 TTTGAAAA
1 TTTGAAAA
6992036 ATTATAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACTAAG
Found at i:6996323 original size:21 final size:21
Alignment explanation
Indices: 6996278--6996324 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6996268 TCGAAAGAAG
**
6996278 CTTTAAGATCATCAATTTTCT
1 CTTTAAGATCATCAATTGACT
6996299 -TTTAATGATCATC-ATTGACT
1 CTTTAA-GATCATCAATTGACT
6996319 CTTTAA
1 CTTTAA
6996325 AGTAAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (21 bp):
CTTTAAGATCATCAATTGACT
Found at i:6999977 original size:27 final size:27
Alignment explanation
Indices: 6999943--7000095 Score: 130
Period size: 29 Copynumber: 5.5 Consensus size: 27
6999933 TGTTTTTTAT
*
6999943 TTTATTGTAAATTACAAAATGTTGTCT
1 TTTATTGTAAATTACAAAATGTTGTCC
* *
6999970 TTTATTGTAAATTACAATAAGTTTTGACC
1 TTTATTGTAAATTACAA-AA-TGTTGTCC
* *
6999999 TTTATTGTAAATTCCAAAAAAGTTTGTCC
1 TTTATTGTAAATTAC-AAAATG-TTGTCC
* * * *
7000028 TTTGTTATAAATTTA-ATTAAT-TTTTCC
1 TTTATTGTAAA-TTACA-AAATGTTGTCC
* *
7000055 TTTATTGTAAATTCCAAAAGTTTTGTCC
1 TTTATTGTAAATTACAAAA-TGTTGTCC
7000083 TTTATTGTAAATT
1 TTTATTGTAAATT
7000096 CTAAAAAAAG
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
26 4 0.04
27 33 0.33
28 21 0.21
29 37 0.37
30 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTATTGTAAATTACAAAATGTTGTCC
Found at i:6999994 original size:56 final size:54
Alignment explanation
Indices: 6999936--7000150 Score: 173
Period size: 56 Copynumber: 3.8 Consensus size: 54
6999926 TTTAAAGTGT
* * *
6999936 TTTTTATTTTATTGTAAATTACAAAATGTTGTCTTTTATTGTAAATTACAATAAG
1 TTTTTACTTTATTGTAAATTCCAAAATGTTGTCCTTTATTGTAAATTA-AATAAG
* * * * *
6999991 TTTTGACCTTTATTGTAAATTCCAAAAAAGTTTGTCCTTTGTTATAAATTTAATTAA-
1 TTTTTA-CTTTATTGTAAATTCC-AAAATG-TTGTCCTTTATTGTAAA-TTAAATAAG
* * *
7000048 TTTTTCCTTTATTGTAAATTCCAAAAGTTTTGTCCTTTATTGTAAATTCTAAAAAAAG
1 TTTTTACTTTATTGTAAATTCCAAAA-TGTTGTCCTTTATTGTAAA-T-T-AAATAAG
* * * * *
7000106 TTTTATCCTTTATTATAAATTTCAAAAGTTTTATCC-TTATTGTAA
1 TTTT-TACTTTATTGTAAATTCCAAAA-TGTTGTCCTTTATTGTAA
7000151 TTTTATATTT
Statistics
Matches: 132, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
55 26 0.20
56 31 0.23
57 13 0.10
58 31 0.23
59 31 0.23
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (54 bp):
TTTTTACTTTATTGTAAATTCCAAAATGTTGTCCTTTATTGTAAATTAAATAAG
Found at i:7000087 original size:28 final size:28
Alignment explanation
Indices: 6999943--7000150 Score: 185
Period size: 27 Copynumber: 7.4 Consensus size: 28
6999933 TGTTTTTTAT
* * *
6999943 TTTATTGTAAATTACAAAA-TGTTGTCT
1 TTTATTGTAAATTCCAAAAGTTTTGTCC
* *
6999970 TTTATTGTAAATTACAATAAGTTTTGACC
1 TTTATTGTAAATTCCAA-AAGTTTTGTCC
6999999 TTTATTGTAAATTCCAAAAAAG-TTTGTCC
1 TTTATTGTAAATTCC--AAAAGTTTTGTCC
* * *
7000028 TTTGTTATAAATT-TAATTAA-TTTT-TCC
1 TTTATTGTAAATTCCAA--AAGTTTTGTCC
7000055 TTTATTGTAAATTCCAAAAGTTTTGTCC
1 TTTATTGTAAATTCCAAAAGTTTTGTCC
* *
7000083 TTTATTGTAAATTCTAAAAAAAGTTTTATCC
1 TTTATTGTAAATTC---CAAAAGTTTTGTCC
* * *
7000114 TTTATTATAAATTTCAAAAGTTTTATCC
1 TTTATTGTAAATTCCAAAAGTTTTGTCC
7000142 -TTATTGTAA
1 TTTATTGTAA
7000151 TTTTATATTT
Statistics
Matches: 151, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
26 4 0.03
27 43 0.28
28 39 0.26
29 36 0.24
30 3 0.02
31 26 0.17
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTATTGTAAATTCCAAAAGTTTTGTCC
Found at i:7000092 original size:84 final size:87
Alignment explanation
Indices: 6999970--7000127 Score: 250
Period size: 84 Copynumber: 1.9 Consensus size: 87
6999960 AATGTTGTCT
* * *
6999970 TTTATTGTAAATTACAATAAGTTTTGACCTTTATTGTAAATTC-CAAAAAAG-TTTGTCCTTTGT
1 TTTATTGTAAATTACAATAAGTTTTGACCTTTATTGTAAATTCTAAAAAAAGTTTTATCCTTTAT
7000033 TATAAATTTAATTAATTTTTCC
66 TATAAATTTAATTAATTTTTCC
* *
7000055 TTTATTGTAAATTCCAA-AAGTTTTGTCCTTTATTGTAAATTCTAAAAAAAGTTTTATCCTTTAT
1 TTTATTGTAAATTACAATAAGTTTTGACCTTTATTGTAAATTCTAAAAAAAGTTTTATCCTTTAT
7000119 TATAAATTT
66 TATAAATTT
7000128 CAAAAGTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 24 0.36
85 23 0.35
86 19 0.29
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.49
Consensus pattern (87 bp):
TTTATTGTAAATTACAATAAGTTTTGACCTTTATTGTAAATTCTAAAAAAAGTTTTATCCTTTAT
TATAAATTTAATTAATTTTTCC
Found at i:7014879 original size:25 final size:25
Alignment explanation
Indices: 7014845--7014902 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
7014835 ATTTCTAAGA
*
7014845 AGGGTTTCTTAGGAATCATGGCTTT
1 AGGGTTTCTTAGGAATCATAGCTTT
*
7014870 AGGGTTTCTTAGGAATTATAGCTTT
1 AGGGTTTCTTAGGAATCATAGCTTT
*
7014895 AGGTTTTC
1 AGGGTTTC
7014903 ATTCGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (25 bp):
AGGGTTTCTTAGGAATCATAGCTTT
Found at i:7015063 original size:32 final size:32
Alignment explanation
Indices: 7015025--7015089 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
7015015 AAAAGGCAAG
7015025 ATTAAGCTTAGTAAAATTTTCT-AAATAAAATT
1 ATTAAGCTTAGTAAAATTTT-TGAAATAAAATT
7015057 ATTAAGCTTAGTAAAATTTTTGAAATAAAATT
1 ATTAAGCTTAGTAAAATTTTTGAAATAAAATT
7015089 A
1 A
7015090 AGTCTGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (32 bp):
ATTAAGCTTAGTAAAATTTTTGAAATAAAATT
Found at i:7015449 original size:16 final size:16
Alignment explanation
Indices: 7015425--7015456 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7015415 TGTATGCTTG
*
7015425 AGTTTAGTTTAGGTTT
1 AGTTAAGTTTAGGTTT
7015441 AGTTAAGTTTAGGTTT
1 AGTTAAGTTTAGGTTT
7015457 CATATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (16 bp):
AGTTAAGTTTAGGTTT
Found at i:7017444 original size:40 final size:39
Alignment explanation
Indices: 7017380--7017487 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
7017370 ACATTTTTAG
* * *
7017380 TACATTTTCGGTTACAACCTAAAATGTTACGAAGAATAT
1 TACATTTTCAGTTACAACCAAAAATATTACGAAGAATAT
* *
7017419 TACATTTTCAGTTGCCAACCAAAAATATTACGAAGAAAAT
1 TACATTTTCAGTT-ACAACCAAAAATATTACGAAGAATAT
* * * **
7017459 AATATTTTAAGTTACAATAAAAAATATTA
1 TACATTTTCAGTTACAACCAAAAATATTA
7017488 TGAAAGAAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 25 0.44
40 32 0.56
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (39 bp):
TACATTTTCAGTTACAACCAAAAATATTACGAAGAATAT
Found at i:7024020 original size:27 final size:25
Alignment explanation
Indices: 7023972--7024022 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7023962 TTTTTAATTC
* *
7023972 AACTATAAATAAATTAATTAAACTA
1 AACTAAAAATAAAATAATTAAACTA
7023997 AACTAAAAACTAAAATAATTTAAACT
1 AACTAAAAA-TAAAATAA-TTAAACT
7024023 CTATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 7 0.32
27 7 0.32
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (25 bp):
AACTAAAAATAAAATAATTAAACTA
Found at i:7029028 original size:22 final size:24
Alignment explanation
Indices: 7029000--7029052 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
7028990 GTAAATCCAG
7029000 AATCAGAT-AAATCATT-TA-GTCA
1 AATCAGATCAAA-CATTGTATGTCA
*
7029022 AATCAGATCAAACATTGTATTTCA
1 AATCAGATCAAACATTGTATGTCA
7029046 AATCAGA
1 AATCAGA
7029053 GAAAATAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 12 0.44
23 5 0.19
24 10 0.37
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (24 bp):
AATCAGATCAAACATTGTATGTCA
Found at i:7029582 original size:16 final size:16
Alignment explanation
Indices: 7029557--7029599 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
7029547 CTTTTTTGGG
*
7029557 TCAAATTCAACTCTGA
1 TCAAAGTCAACTCTGA
*
7029573 TCAAAGTCAACTCTGG
1 TCAAAGTCAACTCTGA
7029589 TCAAAGTCAAC
1 TCAAAGTCAAC
7029600 AGGTCCGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (16 bp):
TCAAAGTCAACTCTGA
Found at i:7030364 original size:20 final size:20
Alignment explanation
Indices: 7030339--7030380 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7030329 CTGCCACTAC
7030339 ATTATTTTATTCTTAGTGCT
1 ATTATTTTATTCTTAGTGCT
7030359 ATTATTTTATTCTTAGTGCT
1 ATTATTTTATTCTTAGTGCT
7030379 AT
1 AT
7030381 AAGATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (20 bp):
ATTATTTTATTCTTAGTGCT
Found at i:7033755 original size:19 final size:19
Alignment explanation
Indices: 7033733--7033797 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
7033723 TGACTTTTTT
*
7033733 GGGTCAAAGTCAACGGGTT
1 GGGTCAAAGTCAACGGGTC
7033752 GGGTCAAAGTCAACGGGTC
1 GGGTCAAAGTCAACGGGTC
*
7033771 AGGTCAAAGTCAACGGGTC
1 GGGTCAAAGTCAACGGGTC
7033790 GGGTCAAA
1 GGGTCAAA
7033798 CATTTTGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.17
Consensus pattern (19 bp):
GGGTCAAAGTCAACGGGTC
Found at i:7034540 original size:20 final size:20
Alignment explanation
Indices: 7034515--7034553 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7034505 GCCACTACAT
7034515 TATTTTATTCTTAGTGCTAC
1 TATTTTATTCTTAGTGCTAC
*
7034535 TATTTTATTTTTAGTGCTA
1 TATTTTATTCTTAGTGCTA
7034554 TAAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (20 bp):
TATTTTATTCTTAGTGCTAC
Found at i:7036045 original size:15 final size:14
Alignment explanation
Indices: 7036021--7036050 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
7036011 TTATTTAAAA
7036021 TAAAAAATATTTTT
1 TAAAAAATATTTTT
7036035 TAAAAATATATTTTT
1 TAAAAA-ATATTTTT
7036050 T
1 T
7036051 CAAATCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAAAAATATTTTT
Found at i:7037367 original size:2 final size:2
Alignment explanation
Indices: 7037356--7037427 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
7037346 AACTTAAAAT
7037356 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7037397 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 T
7037428 TTTTTCCTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7039527 original size:22 final size:22
Alignment explanation
Indices: 7039499--7039543 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7039489 GAAGGTGCAT
7039499 AAGTAGGATCACATCATCCTTG
1 AAGTAGGATCACATCATCCTTG
7039521 AAGTAGGATCACATCATCCTTG
1 AAGTAGGATCACATCATCCTTG
7039543 A
1 A
7039544 TGTAAGGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (22 bp):
AAGTAGGATCACATCATCCTTG
Found at i:7040420 original size:20 final size:20
Alignment explanation
Indices: 7040389--7040464 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
7040379 GTGAAATTTA
*
7040389 TCCCGAATGACCTATGTATG
1 TCCCGAAGGACCTATGTATG
*
7040409 TCACGAAGGACCTATGTATG
1 TCCCGAAGGACCTATGTATG
* *
7040429 TCCCGAATGACCTCTGTATG
1 TCCCGAAGGACCTATGTATG
7040449 TCCCGAAGGACCTATG
1 TCCCGAAGGACCTATG
7040465 AACCTTCCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (20 bp):
TCCCGAAGGACCTATGTATG
Found at i:7040447 original size:40 final size:40
Alignment explanation
Indices: 7040389--7040464 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
7040379 GTGAAATTTA
7040389 TCCCGAATGACCTATGTATGTCACGAAGGACCTATGTATG
1 TCCCGAATGACCTATGTATGTCACGAAGGACCTATGTATG
* *
7040429 TCCCGAATGACCTCTGTATGTCCCGAAGGACCTATG
1 TCCCGAATGACCTATGTATGTCACGAAGGACCTATG
7040465 AACCTTCCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TCCCGAATGACCTATGTATGTCACGAAGGACCTATGTATG
Found at i:7040650 original size:24 final size:23
Alignment explanation
Indices: 7040610--7040655 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
7040600 ATGATTTCAT
7040610 ATTCATATGTCACATATTCATATC
1 ATTCATATGTCACATA-TCATATC
7040634 ATTCATTATGTCA-ATATCATAT
1 ATTCA-TATGTCACATATCATAT
7040656 AACTTATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTCATATGTCACATATCATATC
Found at i:7043404 original size:29 final size:29
Alignment explanation
Indices: 7043371--7043428 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7043361 TCACCATATT
*
7043371 CTATCTTATCCACGTAATAACAGAACTAC
1 CTATCTTATCCACGTAATAACAAAACTAC
7043400 CTATCTTATCCACGTAATAACAAAACTAC
1 CTATCTTATCCACGTAATAACAAAACTAC
7043429 TCCATATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (29 bp):
CTATCTTATCCACGTAATAACAAAACTAC
Found at i:7044826 original size:24 final size:23
Alignment explanation
Indices: 7044797--7044841 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
7044787 ATGATTTCAT
7044797 ATTCA-TATGTCACATATTCATAAC
1 ATTCATTATGTCA-ATA-TCATAAC
7044821 ATTCATTATGTCAATATCATA
1 ATTCATTATGTCAATATCATA
7044842 TAACTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTCATTATGTCAATATCATAAC
Found at i:7048651 original size:16 final size:16
Alignment explanation
Indices: 7048632--7048684 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
7048622 ATAACATGAT
7048632 AACATACAATCATGCA
1 AACATACAATCATGCA
*
7048648 AACAATA-ATAACATG-A
1 AAC-ATACA-ATCATGCA
7048664 TAACATACAATCATGCA
1 -AACATACAATCATGCA
7048681 AACA
1 AACA
7048685 CTTTGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.19
Consensus pattern (16 bp):
AACATACAATCATGCA
Found at i:7048655 original size:33 final size:33
Alignment explanation
Indices: 7048613--7048684 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
7048603 TGATTCAATA
7048613 CAAACAATAATAACATGATAACATACAATCATG
1 CAAACAATAATAACATGATAACATACAATCATG
7048646 CAAACAATAATAACATGATAACATACAATCATG
1 CAAACAATAATAACATGATAACATACAATCATG
7048679 CAAACA
1 CAAACA
7048685 CTTTGCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (33 bp):
CAAACAATAATAACATGATAACATACAATCATG
Found at i:7049873 original size:17 final size:17
Alignment explanation
Indices: 7049842--7049875 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7049832 TCAAGAATCA
* *
7049842 AAAGAAACTATAAAATT
1 AAAGAAACAAGAAAATT
7049859 AAAGAAACAAGAAAATT
1 AAAGAAACAAGAAAATT
7049876 GAATCCAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAGAAACAAGAAAATT
Found at i:7051523 original size:29 final size:30
Alignment explanation
Indices: 7051469--7051528 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
7051459 ATATCGGGTT
* * *
7051469 AGTGACTGAATTGAGAGATTTTAAAA-TTC
1 AGTGACTAAATTGAGAGAATTGAAAAGTTC
7051498 AGTGACTAAATT-AGATGAATTGAAAAGTTC
1 AGTGACTAAATTGAGA-GAATTGAAAAGTTC
7051528 A
1 A
7051529 ACGGTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.12
29 19 0.73
30 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.32
Consensus pattern (30 bp):
AGTGACTAAATTGAGAGAATTGAAAAGTTC
Found at i:7052958 original size:23 final size:23
Alignment explanation
Indices: 7052919--7052976 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
7052909 TCTTATATGG
* *
7052919 CACTTCGGTGTATTTCTACATGC
1 CACTTCGGTGCAATTCTACATGC
* *
7052942 CATTTCGGTGCAATTCTACATGG
1 CACTTCGGTGCAATTCTACATGC
7052965 CACTTCGGTGCA
1 CACTTCGGTGCA
7052977 TTTATACGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACATGC
Found at i:7058541 original size:37 final size:37
Alignment explanation
Indices: 7058500--7058575 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
7058490 TTTATTCTTC
* *
7058500 TCCACCGTGAAGCACTTGAGCAAAGGTGAGTTTGCTT
1 TCCACCGTGAAGCACTTGAACAAAGGTGAGTTGGCTT
7058537 TCCACCGTGAAGCACTTGAACAAAGGTGAGTTGGCTT
1 TCCACCGTGAAGCACTTGAACAAAGGTGAGTTGGCTT
7058574 TC
1 TC
7058576 TTTTGGTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (37 bp):
TCCACCGTGAAGCACTTGAACAAAGGTGAGTTGGCTT
Found at i:7062276 original size:85 final size:85
Alignment explanation
Indices: 7062133--7062304 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
7062123 GGTGTTATGG
7062133 TTGGGACACTGATTTACAATATGGCCTCTCCCTAAGCATTTAAAATATTTAATGTCTTGGGACCT
1 TTGGGACACTGATTTACAATATGGCCTCTCCCTAAGCATTTAAAATATTTAATGTCTTGGGACCT
7062198 CTTTGTGCTTGATTATTGCA
66 CTTTGTGCTTGATTATTGCA
7062218 TTGGGACACTGATTTACAATATGGCCTCTCCCTAAGCATTTAAAATATTTAATGTCTTGGGACCT
1 TTGGGACACTGATTTACAATATGGCCTCTCCCTAAGCATTTAAAATATTTAATGTCTTGGGACCT
7062283 CTTTGTGCTTGATTATTGCA
66 CTTTGTGCTTGATTATTGCA
7062303 TT
1 TT
7062305 TCTTTACCTC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (85 bp):
TTGGGACACTGATTTACAATATGGCCTCTCCCTAAGCATTTAAAATATTTAATGTCTTGGGACCT
CTTTGTGCTTGATTATTGCA
Found at i:7065106 original size:30 final size:29
Alignment explanation
Indices: 7065070--7065139 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 29
7065060 AATGCATAGG
*
7065070 ATGAGCTAG-TATATGTTGTGTATGAAT-GA
1 ATGAGCTAGATA-ATGAT-TGTATGAATGGA
7065099 CATGAGCTAAGATAATGATTGTATGAATGGA
1 -ATGAGCT-AGATAATGATTGTATGAATGGA
7065130 ATGAGCTAGA
1 ATGAGCTAGA
7065140 ATAAGATGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 3 0.08
30 23 0.64
31 8 0.22
32 2 0.06
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (29 bp):
ATGAGCTAGATAATGATTGTATGAATGGA
Found at i:7068418 original size:20 final size:20
Alignment explanation
Indices: 7068393--7068462 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
7068383 TTAAATAATC
7068393 TAAGATTTAGTATTTAGATT
1 TAAGATTTAGTATTTAGATT
*
7068413 TAAGATTCAG-ATTTTAGATT
1 TAAGATTTAGTA-TTTAGATT
*
7068433 TAATGA-TTA-TATGTTGGATTT
1 TAA-GATTTAGTAT-TTAGA-TT
7068454 TAAGATTTA
1 TAAGATTTA
7068463 TAATTATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 2 0.05
20 29 0.71
21 10 0.24
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (20 bp):
TAAGATTTAGTATTTAGATT
Found at i:7069748 original size:2 final size:2
Alignment explanation
Indices: 7069704--7069733 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7069694 TCTTATATTC
7069704 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
7069734 TACCGTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7069960 original size:25 final size:25
Alignment explanation
Indices: 7069917--7069967 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7069907 GAAAGATAAA
*
7069917 AAAATTATATCTGAAAAATATTTAT
1 AAAATTATATCTGAAAAATAATTAT
* * *
7069942 AAAATTTTATTTGATAAATAATTAT
1 AAAATTATATCTGAAAAATAATTAT
7069967 A
1 A
7069968 TGTTGGAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
AAAATTATATCTGAAAAATAATTAT
Found at i:7070743 original size:16 final size:17
Alignment explanation
Indices: 7070710--7070749 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
7070700 TATTTTAAAA
7070710 TTTAAATATAATAATAT
1 TTTAAATATAATAATAT
7070727 TTTAAAT-TAA-AATTAT
1 TTTAAATATAATAA-TAT
7070743 TTTAAAT
1 TTTAAAT
7070750 CAACCTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.59
17 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAATATAATAATAT
Found at i:7072501 original size:22 final size:24
Alignment explanation
Indices: 7072469--7072518 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
7072459 TGTTAAAATG
7072469 AAATATAAAAT-ACTAAAAAT-AA
1 AAATATAAAATCACTAAAAATGAA
*
7072491 AAATATTAAATCACTAAAAATGAA
1 AAATATAAAATCACTAAAAATGAA
7072515 AAAT
1 AAAT
7072519 CTATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.40
23 9 0.36
24 6 0.24
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATATAAAATCACTAAAAATGAA
Found at i:7074246 original size:7 final size:7
Alignment explanation
Indices: 7074203--7074304 Score: 50
Period size: 7 Copynumber: 14.7 Consensus size: 7
7074193 TAATCACCAC
*
7074203 TAAACTT
1 TAAACCT
7074210 TAAA-CT
1 TAAACCT
*
7074216 CTAATCCT
1 -TAAACCT
7074224 T-AACCT
1 TAAACCT
*
7074230 CTAAATCT
1 -TAAACCT
7074238 TAAACCT
1 TAAACCT
* *
7074245 TAAATCA
1 TAAACCT
*
7074252 TATATCC-
1 TA-AACCT
7074259 TAAACCT
1 TAAACCT
*
7074266 TAATCCT
1 TAAACCT
*
7074273 TAAACTT
1 TAAACCT
*
7074280 TAAATC-
1 TAAACCT
*
7074286 TAAACCC
1 TAAACCT
*
7074293 TAAACCC
1 TAAACCT
7074300 TAAAC
1 TAAAC
7074305 ATCAAATCCT
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
6 13 0.18
7 51 0.71
8 8 0.11
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (7 bp):
TAAACCT
Found at i:7074311 original size:27 final size:28
Alignment explanation
Indices: 7074238--7074317 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 28
7074228 CTCTAAATCT
* * *
7074238 TAAACCTTAAATCAT-ATATCCTAAACCT
1 TAAACCCTAAA-CATCAAATCCTAAACCC
* * * *
7074266 TAATCCTTAAACTTTAAAT-CTAAACCC
1 TAAACCCTAAACATCAAATCCTAAACCC
7074293 TAAACCCTAAACATCAAATCCTAAA
1 TAAACCCTAAACATCAAATCCTAAA
7074318 ACATGTCAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (28 bp):
TAAACCCTAAACATCAAATCCTAAACCC
Found at i:7074426 original size:21 final size:21
Alignment explanation
Indices: 7074409--7074448 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7074399 ACTTTAAATG
*
7074409 CTAAATCTTAATCCTTAAACT
1 CTAAATCTAAATCCTTAAACT
*
7074430 TTAAATCTAAATCC-TAAAC
1 CTAAATCTAAATCCTTAAAC
7074449 AATAAACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (21 bp):
CTAAATCTAAATCCTTAAACT
Found at i:7074446 original size:151 final size:151
Alignment explanation
Indices: 7074258--7074568 Score: 478
Period size: 151 Copynumber: 2.1 Consensus size: 151
7074248 ATCATATATC
** *
7074258 CTAAACCTTAATCCTTAAACTTTAAATCTAAACCCTAAACCCTAAACATCAAATCCTAAAACATG
1 CTAAACCTTAATCCTTAAACTTTAAATCTAAACCCTAAACAATAAACATCAAATCCTAAAACATA
*
7074323 TCAACCTCAAAACCTAAAGTTTACTAACCCTAAACTTTAAGCCATAAATCATAAATCATATACTT
66 TCAACCTCAAAACCTAAAGTTTACTAACCCTAAACTTTAAGCCACAAATCATAAATCATATACTT
7074388 TTAACCTTTTAACTTTAAATG
131 TTAACCTTTTAACTTTAAATG
* * * *
7074409 CTAAATCTTAATCCTTAAACTTTAAATCTAAATCCTAAACAATAAACCTCAAATCCTAAAACCTA
1 CTAAACCTTAATCCTTAAACTTTAAATCTAAACCCTAAACAATAAACATCAAATCCTAAAACATA
* * * * **
7074474 TCAACCTCAAAACCTATAGTTTACTAAGCCTAAACTTTGATCCACGGATCATAAATCATATACTT
66 TCAACCTCAAAACCTAAAGTTTACTAACCCTAAACTTTAAGCCACAAATCATAAATCATATACTT
*
7074539 TTGACCTTTTAACTTTAAATG
131 TTAACCTTTTAACTTTAAATG
*
7074560 TTAAACCTT
1 CTAAACCTT
7074569 TAATATATAG
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 143 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.32
Consensus pattern (151 bp):
CTAAACCTTAATCCTTAAACTTTAAATCTAAACCCTAAACAATAAACATCAAATCCTAAAACATA
TCAACCTCAAAACCTAAAGTTTACTAACCCTAAACTTTAAGCCACAAATCATAAATCATATACTT
TTAACCTTTTAACTTTAAATG
Found at i:7074717 original size:14 final size:14
Alignment explanation
Indices: 7074679--7074717 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7074669 CCTTTAACGC
7074679 TTAATCCTAAACTT
1 TTAATCCTAAACTT
*
7074693 TTAACCCTAAACTT
1 TTAATCCTAAACTT
*
7074707 TTAATCATAAA
1 TTAATCCTAAA
7074718 TCCTAAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAATCCTAAACTT
Found at i:7075385 original size:8 final size:7
Alignment explanation
Indices: 7075369--7075448 Score: 70
Period size: 7 Copynumber: 11.3 Consensus size: 7
7075359 CCCTATTAAC
7075369 CCTAAAA
1 CCTAAAA
7075376 CCTAATAA
1 CCTAA-AA
*
7075384 CCTTAAA
1 CCTAAAA
*
7075391 CCTTAAA
1 CCTAAAA
*
7075398 CCTTAAA
1 CCTAAAA
*
7075405 CCTTAAA
1 CCTAAAA
*
7075412 CCTTAAA
1 CCTAAAA
*
7075419 CCTTAAA
1 CCTAAAA
*
7075426 CCTTAAA
1 CCTAAAA
*
7075433 CCTTAAA
1 CCTAAAA
*
7075440 CCTTAAA
1 CCTAAAA
7075447 CC
1 CC
7075449 ATGAATCTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
7 65 0.92
8 6 0.08
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (7 bp):
CCTAAAA
Found at i:7075408 original size:21 final size:21
Alignment explanation
Indices: 7075373--7075508 Score: 136
Period size: 21 Copynumber: 6.5 Consensus size: 21
7075363 ATTAACCCTA
*
7075373 AAACCTAATAACCTTAAACCTT
1 AAACCTTA-AACCTTAAACCTT
7075395 AAACCTTAAACCTTAAACCTT
1 AAACCTTAAACCTTAAACCTT
7075416 AAACCTTAAACCTTAAACCTT
1 AAACCTTAAACCTTAAACCTT
* * *
7075437 AAACCTTAAACCATGAATCTT
1 AAACCTTAAACCTTAAACCTT
* *
7075458 AAATCTTAAA--TTATACACCCT
1 AAACCTTAAACCTTA-A-ACCTT
*
7075479 -AA-CTATAAACTTTAAACCTT
1 AAACCT-TAAACCTTAAACCTT
*
7075499 AAACCCTAAA
1 AAACCTTAAA
7075509 ACCATAAATC
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.03
20 11 0.11
21 71 0.74
22 11 0.11
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (21 bp):
AAACCTTAAACCTTAAACCTT
Found at i:7075468 original size:7 final size:7
Alignment explanation
Indices: 7075382--7075467 Score: 136
Period size: 7 Copynumber: 12.3 Consensus size: 7
7075372 AAAACCTAAT
7075382 AACCTTA
1 AACCTTA
7075389 AACCTTA
1 AACCTTA
7075396 AACCTTA
1 AACCTTA
7075403 AACCTTA
1 AACCTTA
7075410 AACCTTA
1 AACCTTA
7075417 AACCTTA
1 AACCTTA
7075424 AACCTTA
1 AACCTTA
7075431 AACCTTA
1 AACCTTA
7075438 AACCTTA
1 AACCTTA
* *
7075445 AACCATG
1 AACCTTA
*
7075452 AATCTTA
1 AACCTTA
*
7075459 AATCTTA
1 AACCTTA
7075466 AA
1 AA
7075468 TTATACACCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 74 1.00
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (7 bp):
AACCTTA
Found at i:7075809 original size:29 final size:29
Alignment explanation
Indices: 7075772--7075828 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
7075762 CTAAACAACA
* * *
7075772 TACTTTAAATCTTAAACCCTAGACCTTAT
1 TACTCTAAATCATAAACCCTAAACCTTAT
*
7075801 TACTCTAAATCATAAATCCTAAACCTTA
1 TACTCTAAATCATAAACCCTAAACCTTA
7075829 CTAATTCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
TACTCTAAATCATAAACCCTAAACCTTAT
Found at i:7075968 original size:7 final size:7
Alignment explanation
Indices: 7075956--7076106 Score: 86
Period size: 7 Copynumber: 21.9 Consensus size: 7
7075946 AACCTAAATC
7075956 CCTTAAA
1 CCTTAAA
7075963 CCTTAAA
1 CCTTAAA
7075970 CC-TAAA
1 CCTTAAA
7075976 CC-TAAA
1 CCTTAAA
7075982 CC-TAAA
1 CCTTAAA
*
7075988 CCTTAGA
1 CCTTAAA
**
7075995 GTTTAAA
1 CCTTAAA
7076002 -CTCTAAA
1 CCT-TAAA
* *
7076009 TCATAAA
1 CCTTAAA
*
7076016 CC-CAAA
1 CCTTAAA
7076022 TCCTT-AA
1 -CCTTAAA
7076029 CCTTTAAA
1 CC-TTAAA
7076037 CCCTTAAA
1 -CCTTAAA
* *
7076045 CATTGAA
1 CCTTAAA
7076052 CCTTAAA
1 CCTTAAA
*
7076059 CCATAAA
1 CCTTAAA
7076066 TCC-TAAA
1 -CCTTAAA
7076073 CCTTAAA
1 CCTTAAA
7076080 -CTCTAAA
1 CCT-TAAA
*
7076087 -TTATAAA
1 CCT-TAAA
7076094 CCTTAAA
1 CCTTAAA
7076101 CCTTAA
1 CCTTAA
7076107 TCTCTAAATC
Statistics
Matches: 115, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
6 28 0.24
7 74 0.64
8 11 0.10
9 2 0.02
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (7 bp):
CCTTAAA
Found at i:7075977 original size:6 final size:6
Alignment explanation
Indices: 7075959--7075990 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
7075949 CTAAATCCCT
7075959 TAAACC TTAAACC TAAACC TAAACC TAAACC T
1 TAAACC -TAAACC TAAACC TAAACC TAAACC T
7075991 TAGAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAACC
Found at i:7076092 original size:28 final size:28
Alignment explanation
Indices: 7076061--7076129 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
7076051 ACCTTAAACC
7076061 ATAAATCC-TAAACCTTAAACTCTAAATT
1 ATAAA-CCTTAAACCTTAAACTCTAAATT
*
7076089 ATAAACCTTAAACCTTAATCTCTAAATCT
1 ATAAACCTTAAACCTTAAACTCTAAAT-T
*
7076118 A-GAACCTTAAAC
1 ATAAACCTTAAAC
7076130 TATAAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (28 bp):
ATAAACCTTAAACCTTAAACTCTAAATT
Found at i:7076451 original size:2 final size:2
Alignment explanation
Indices: 7076446--7076478 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7076436 AAATAAAATT
7076446 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 T
7076479 TTGAGATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7077281 original size:3 final size:3
Alignment explanation
Indices: 7077275--7077333 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
7077265 TCCATTTAAA
7077275 TAT TAT T-T ATAT TAT TAT TAT TAT TA- TAT ATAT TAT TA- TAT ATAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
7077320 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
7077334 AAAAAATTAC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
2 5 0.10
3 38 0.76
4 7 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7082876 original size:15 final size:15
Alignment explanation
Indices: 7082858--7082894 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7082848 TTTTGGATCA
*
7082858 ATACCTTTTGCATAC
1 ATACATTTTGCATAC
7082873 ATACATTTTGCATAC
1 ATACATTTTGCATAC
*
7082888 ATTCATT
1 ATACATT
7082895 ATTCATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (15 bp):
ATACATTTTGCATAC
Found at i:7090226 original size:10 final size:10
Alignment explanation
Indices: 7090208--7090250 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
7090198 ATGCTTGAAG
*
7090208 AAAAGAAAGA
1 AAAAAAAAGA
7090218 AAAAAAAAG-
1 AAAAAAAAGA
7090227 AAAAAAAAGA
1 AAAAAAAAGA
*
7090237 AAGAAAAAGA
1 AAAAAAAAGA
7090247 AAAA
1 AAAA
7090251 GGGGGTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.31
10 20 0.69
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:7090229 original size:19 final size:19
Alignment explanation
Indices: 7090205--7090250 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
7090195 ATTATGCTTG
*
7090205 AAGAAAAGAAAGAAAAAAA
1 AAGAAAAAAAAGAAAAAAA
*
7090224 AAGAAAAAAAAGAAAGAAA
1 AAGAAAAAAAAGAAAAAAA
7090243 AAGAAAAA
1 AAGAAAAA
7090251 GGGGGTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAAGAAAAAAA
Found at i:7091397 original size:93 final size:93
Alignment explanation
Indices: 7091237--7091433 Score: 324
Period size: 93 Copynumber: 2.1 Consensus size: 93
7091227 ACAAGTGCCG
7091237 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAATATGAACCCTAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAATATGAACCCTAA
*
7091302 AAACCAATCATTAAATTTGGAAGATGAA
66 AAACCAATCATTAAATTTGAAAGATGAA
* **
7091330 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGATCTGGTTTGGTATGAACCAC-A
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAATATGAACC-CTA
**
7091394 AAAACCAATCATTGGATTTGAAAGATGAA
65 AAAACCAATCATTAAATTTGAAAGATGAA
7091423 TGTGCTCATAG
1 TGTGCTCATAG
7091434 TAGAAATAAG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 96 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAATATGAACCCTAA
AAACCAATCATTAAATTTGAAAGATGAA
Found at i:7092436 original size:113 final size:113
Alignment explanation
Indices: 7092259--7092903 Score: 722
Period size: 113 Copynumber: 5.7 Consensus size: 113
7092249 TTACCAGTTC
* *
7092259 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
7092324 CAACCTTTTG-TTAAATTCATTATTTGATGGATTAACATTGCCAGAAA
66 CAACCTTTTGCTTAAATTCATCATTCGATGGATCAACTTTTCCAGAAA
7092371 GAGTTCATAATGAGAAGAACTCATCTGATAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 GAGTTCATAATGAGAAGAACTCATCTGA-AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
7092436 TCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAA
65 TCAACCTTTTGCTTAAATTCATCATTCGATGGATCAACTTTTCCAGAAA
*
7092485 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
7092550 CAA-CTTTTCGCTTGAATTCATCATTCGATGAATCAACTTTTCCAGAGAA
66 CAACCTTTT-GCTTAAATTCATCATTCGATGGATCAACTTTTCCAGA-AA
* *
7092599 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * ***
7092663 CAACCTTTTGCTCAAATCCATCACTT-GATGGATCAGCTTTTCCAGTTC
66 CAACCTTTTGCTTAAATTCATCA-TTCGATGGATCAACTTTTCCAGAAA
** * * *
7092711 GAGTTCATAATGAGAAGAACTCATCAT-CTGAA-G-A-AA-AAGTTCACAATGAGAAGAGCTTAT
1 GAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* ** *
7092771 TCAACCTTTTGCAT-AATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAA
65 TCAACCTTTTGCTTAAATTC-AT--C--ATTC-GAT-G----G-ATCAACTTTTCCAGA-AA
* * * *
7092832 -AGTTCATAAT--GAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
7092894 CAATCTTTTG
66 CAACCTTTTG
7092904 AATGACTCTA
Statistics
Matches: 460, Mismatches: 46, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
108 4 0.01
109 33 0.07
110 2 0.00
111 2 0.00
112 32 0.07
113 241 0.52
114 71 0.15
115 1 0.00
117 1 0.00
118 14 0.03
119 1 0.00
120 23 0.05
121 2 0.00
122 33 0.07
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTAAATTCATCATTCGATGGATCAACTTTTCCAGAAA
Found at i:7093133 original size:3 final size:3
Alignment explanation
Indices: 7093127--7093179 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
7093117 TCCATTTAAA
7093127 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TA- TAT ATAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
7093172 TAT TAT TA
1 TAT TAT TA
7093180 AAAAAATTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.07
3 39 0.85
4 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7093188 original size:21 final size:21
Alignment explanation
Indices: 7093143--7093188 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7093133 TTATATTATT
* * *
7093143 ATTATTATTATTATTATATAT
1 ATTATTATTATTATTAAAAAA
7093164 ATTATTATTATTATTAAAAAA
1 ATTATTATTATTATTAAAAAA
7093185 ATTA
1 ATTA
7093189 CAAGCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTATTATTATTAAAAAA
Found at i:7094831 original size:23 final size:26
Alignment explanation
Indices: 7094799--7094848 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
7094789 CCTTTTCTGA
*
7094799 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
7094822 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
7094848 T
1 T
7094849 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:7095371 original size:19 final size:19
Alignment explanation
Indices: 7095347--7095385 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7095337 TTTATACCGC
*
7095347 TGTTTTTGACCATAATAAT
1 TGTTTTTGACAATAATAAT
7095366 TGTTTTTGACAATAATAAT
1 TGTTTTTGACAATAATAAT
7095385 T
1 T
7095386 TTGAAAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (19 bp):
TGTTTTTGACAATAATAAT
Found at i:7096936 original size:43 final size:44
Alignment explanation
Indices: 7096852--7096940 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
7096842 TTCAACAATT
7096852 TTCTATAATTATATACCACACATATGTTTTTCATTTGTTTAAATG
1 TTCTATAATTATATACCACACA-ATGTTTTTCATTTGTTTAAATG
7096897 TTCTATAATTATATACCACAC-ATGTTTTTCATTTGTTTAAATG
1 TTCTATAATTATATACCACACAATGTTTTTCATTTGTTTAAATG
7096940 T
1 T
7096941 GTTATACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 23 0.52
45 21 0.48
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.49
Consensus pattern (44 bp):
TTCTATAATTATATACCACACAATGTTTTTCATTTGTTTAAATG
Found at i:7099634 original size:30 final size:29
Alignment explanation
Indices: 7099598--7099660 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
7099588 CCCGAAAAAT
7099598 CACCGGTGACTAGTATATTTATCGATCTAA
1 CACCGGTGA-TAGTATATTTATCGATCTAA
* * *
7099628 CACCGGTTATATTATATTTTTCGATCTAA
1 CACCGGTGATAGTATATTTATCGATCTAA
7099657 CACC
1 CACC
7099661 CGTAGCAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (29 bp):
CACCGGTGATAGTATATTTATCGATCTAA
Done.