Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 51
Found at i:6653637 original size:64 final size:64
Alignment explanation
Indices: 6653569--6653746 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
6653559 GAACACTTGA
* ** * *
6653569 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGTATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
*** * **
6653633 TGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * *
6653698 TGCATCGATGCATGGAGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
6653747 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 49 0.52
65 46 0.48
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (64 bp):
TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:6653720 original size:65 final size:64
Alignment explanation
Indices: 6653584--6653795 Score: 225
Period size: 65 Copynumber: 3.3 Consensus size: 64
6653574 CGGTGCACCA
* ** * *
6653584 AGTGTGCATCGATGCATGAAATGTATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATATTCAGAGTGCATCGATGCATGG
** *
6653648 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATTCAGAGTGCATCGATGCATGG
* * * *
6653713 AGTGTGCATCGGTGCATGGAATGCATTCGATG-TT-CAATTAATTCATCGA-TGCATCGATGCAT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-ATTCA--GAGTGCATCGATGCAT
6653775 GG
63 GG
*
6653777 ACTGATGCATCGATGCATG
1 AGTG-TGCATCGATGCATG
6653796 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 54 0.43
65 61 0.49
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGG
Found at i:6653986 original size:20 final size:21
Alignment explanation
Indices: 6653963--6654002 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6653953 GAATCGAATA
6653963 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
6653983 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
6654003 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:6655490 original size:13 final size:13
Alignment explanation
Indices: 6655472--6655498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6655462 TACTAGCACT
6655472 ATCGTTGCTTTCA
1 ATCGTTGCTTTCA
6655485 ATCGTTGCTTTCA
1 ATCGTTGCTTTCA
6655498 A
1 A
6655499 GCGCTAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (13 bp):
ATCGTTGCTTTCA
Found at i:6657739 original size:21 final size:20
Alignment explanation
Indices: 6657653--6657810 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
6657643 AAATGACCAA
**
6657653 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
6657672 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
6657692 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
6657712 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
6657733 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
6657754 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
6657774 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
6657795 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
6657811 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:6657872 original size:20 final size:20
Alignment explanation
Indices: 6657778--6658167 Score: 448
Period size: 20 Copynumber: 19.4 Consensus size: 20
6657768 GATTTTCAAT
* ** *
6657778 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
6657798 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
6657818 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6657838 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
6657858 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
* *
6657878 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6657898 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
6657918 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
6657939 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6657959 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6657979 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6657999 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6658019 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6658039 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
6658059 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6658079 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6658099 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6658119 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6658139 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6658159 AATCACAAC
1 AATCGCAAC
6658168 ACTGAAATTT
Statistics
Matches: 317, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.01
20 294 0.93
21 18 0.06
22 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:6658883 original size:24 final size:24
Alignment explanation
Indices: 6658844--6658890 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6658834 AAATTTGGTC
6658844 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
6658868 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
6658891 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:6659082 original size:12 final size:12
Alignment explanation
Indices: 6659065--6659089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6659055 ATATAATCCT
6659065 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6659077 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6659089 G
1 G
6659090 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6660079 original size:19 final size:19
Alignment explanation
Indices: 6660057--6660453 Score: 476
Period size: 19 Copynumber: 22.4 Consensus size: 19
6660047 CGGAAAATAC
*
6660057 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660076 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
6660090 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
6660110 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6660124 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660143 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
6660162 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
6660176 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660195 CATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660214 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
6660233 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660252 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660271 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
*
6660285 AATCGCAATGCGGAATGAA
1 AATCGCAATGCGAAATGAA
6660304 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660323 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6660337 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6660356 CATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660375 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660394 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
6660408 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660427 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6660446 AATCGCAA
1 AATCGCAA
6660454 CGAGATAATC
Statistics
Matches: 327, Mismatches: 20, Indels: 62
0.80 0.05 0.15
Matches are distributed among these distances:
14 57 0.17
15 3 0.01
16 17 0.05
17 18 0.06
18 4 0.01
19 215 0.66
20 13 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6660172 original size:52 final size:52
Alignment explanation
Indices: 6660085--6660434 Score: 494
Period size: 52 Copynumber: 6.6 Consensus size: 52
6660075 AAATCCCAAC
6660085 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
6660138 ATGAAAATCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCAAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
6660190 ATGAACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
* *
6660247 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGGA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6660299 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
6660351 ATGAACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
6660406 A-G--AATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
6660435 TGCGAAATGA
Statistics
Matches: 274, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
52 184 0.67
53 17 0.06
54 7 0.03
55 10 0.04
56 2 0.01
57 54 0.20
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:6660209 original size:71 final size:70
Alignment explanation
Indices: 6660124--6660475 Score: 388
Period size: 71 Copynumber: 5.0 Consensus size: 70
6660114 GCAACGAGAG
* * *
6660124 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
6660189 AATGA
66 AATGA
*
6660194 ACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCA
1 A-ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCA
6660259 ATGCGAAATGAA
60 ATGCGAAATG-A
*
6660271 AATCGCAA--CGAAA-G--AATCGCAATGCGGAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAA
*
6660331 --CGAGA-G-
61 TGCGAAATGA
*
6660337 AATCGCAATGCGAAATGAACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAA
6660402 --CGAAA-G-
61 TGCGAAATGA
*
6660408 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
6660473 AAT
66 AAT
6660476 TATAAACGCA
Statistics
Matches: 255, Mismatches: 12, Indels: 31
0.86 0.04 0.10
Matches are distributed among these distances:
66 18 0.07
67 1 0.00
68 11 0.04
69 7 0.03
70 1 0.00
71 181 0.71
73 3 0.01
74 5 0.02
75 1 0.00
76 25 0.10
77 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
AATGA
Found at i:6660435 original size:52 final size:52
Alignment explanation
Indices: 6660089--6660475 Score: 424
Period size: 52 Copynumber: 7.3 Consensus size: 52
6660079 CCCAACATGA
*
6660089 AAATCGCAATGCGGAAATGAAAATCGCAACG--AGAGAATCGCAATGCGAAATG
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAAAATCGCAA-GCGAAATG
* * *
6660141 AAAATCGCAATGCGAAATAAAAATCGCAACG--AGAGAATCGCAATGCAAAATG
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAAAATCGCAA-GCGAAATG
*
6660193 AACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATG
1 AA-ATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAAAATCGCAA-GCGAAATG
*
6660250 AAAATCGCAATGCGAAATGAAAATCGCAACGAAAG--AATCGCAATGCGGAATG
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAAAATCGCAA-GCGAAATG
*
6660302 AAAATCGCAATGCGAAATGAAAATCGCAACG--AGAGAATCGCAATGCGAAATG
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAAAATCGCAA-GCGAAATG
6660354 AACATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G
1 AA-ATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAAAATCGCAAGCGAAATG
*
6660408 -AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT-
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAAAATCGCAAGCGAAATG
6660460 -AATCGCAATGCGAAAT
1 AAATCGCAATGCGAAAT
6660476 TATAAACGCA
Statistics
Matches: 308, Mismatches: 10, Indels: 33
0.88 0.03 0.09
Matches are distributed among these distances:
50 2 0.01
51 4 0.01
52 216 0.70
53 13 0.04
54 6 0.02
55 10 0.03
56 2 0.01
57 53 0.17
58 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAAAATCGCAAGCGAAATG
Found at i:6660572 original size:19 final size:19
Alignment explanation
Indices: 6660482--6660564 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
6660472 AAATTATAAA
6660482 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
6660501 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
6660521 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
6660537 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
6660554 CGCATTGCGAT
1 CGCATTGCGAT
6660565 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:6660690 original size:14 final size:14
Alignment explanation
Indices: 6660671--6660707 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6660661 CATCAATTAC
6660671 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6660685 ACAAATCATCTTTT
1 ACAAATCAACTTTT
6660699 ACAAATCAA
1 ACAAATCAA
6660708 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6662679 original size:14 final size:14
Alignment explanation
Indices: 6662660--6662716 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6662650 GCGAAATGAA
*
6662660 AATCGCAACGACAG
1 AATCGCAACGAAAG
6662674 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
6662691 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
6662707 AATCGCAACG
1 AATCGCAACG
6662717 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:6662687 original size:33 final size:33
Alignment explanation
Indices: 6662641--6662733 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
6662631 GCGAAACCAA
*
6662641 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
6662674 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
6662707 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6662734 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:6662698 original size:19 final size:19
Alignment explanation
Indices: 6662604--6662738 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
6662594 TAGTTTACTT
* *
6662604 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
6662624 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
6662643 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6662662 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
6662676 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
6662695 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
6662709 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6662728 TCGCAATGCGA
1 TCGCAACGCGA
6662739 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:6662756 original size:19 final size:19
Alignment explanation
Indices: 6662734--6662862 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
6662724 AAAATCGCAA
6662734 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6662753 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
6662767 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6662786 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
6662800 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6662819 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6662838 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6662858 TGCGA
1 TGCGA
6662863 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6662776 original size:33 final size:33
Alignment explanation
Indices: 6662734--6662825 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
6662724 AAAATCGCAA
6662734 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
6662767 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
6662800 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
6662826 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:6663076 original size:92 final size:92
Alignment explanation
Indices: 6662906--6663376 Score: 915
Period size: 92 Copynumber: 5.1 Consensus size: 92
6662896 TTGAATGGAT
6662906 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
6662971 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
6662999 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
6663064 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
6663091 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
6663156 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
6663183 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
6663248 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
6663275 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
*
6663340 AGTTTAGCAGAATTGGCAGCAACCGAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
6663368 AAATTTACT
1 AAATTTACT
6663377 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 276 0.73
93 100 0.27
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6665100 original size:14 final size:14
Alignment explanation
Indices: 6665081--6665170 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6665071 TTGAAATGAA
6665081 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6665095 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
6665112 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
6665128 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6665147 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6665161 AATCGCAACG
1 AATCGCAACG
6665171 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6665118 original size:33 final size:33
Alignment explanation
Indices: 6665073--6665187 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
6665063 TCTTTTGGTT
6665073 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
6665106 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6665139 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6665172 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6665188 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6665119 original size:19 final size:18
Alignment explanation
Indices: 6665080--6665192 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
6665070 GTTGAAATGA
6665080 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
6665095 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
6665112 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
6665128 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
6665145 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
6665161 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
6665178 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
6665193 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:6665223 original size:14 final size:14
Alignment explanation
Indices: 6665204--6665258 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6665194 TTTGGTTTCG
6665204 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6665218 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6665237 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6665251 CGTTGCGA
1 CGTTGCGA
6665259 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6665236 original size:33 final size:33
Alignment explanation
Indices: 6665188--6665258 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6665178 AAAATCGCAA
**
6665188 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6665221 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6665254 TGCGA
1 TGCGA
6665259 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6665266 original size:33 final size:33
Alignment explanation
Indices: 6665199--6665280 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
6665189 GCGATTTTGG
***
6665199 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
6665232 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
6665265 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
6665281 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:6665285 original size:20 final size:20
Alignment explanation
Indices: 6665211--6665299 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
6665201 TCGCGTTGCG
6665211 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6665231 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
6665244 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
6665264 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6665284 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
6665300 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:6665421 original size:33 final size:33
Alignment explanation
Indices: 6665379--6665449 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6665369 AATACTAACT
*
6665379 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
6665412 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6665445 TGAAA
1 TGAAA
6665450 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:6665683 original size:22 final size:22
Alignment explanation
Indices: 6665631--6665685 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6665621 TGGTTGTGAG
**
6665631 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
6665653 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6665675 GGATTTCTTCG
1 GGATTTCTTCG
6665686 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:6665856 original size:20 final size:20
Alignment explanation
Indices: 6665831--6666023 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
6665821 CTTTAAATAT
6665831 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6665851 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
6665873 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6665892 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
6665912 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
6665932 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6665952 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6665972 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6665992 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
6666012 CGCGTTGCGATT
1 CGCGTTGCGATT
6666024 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6666018 original size:60 final size:60
Alignment explanation
Indices: 6665831--6666023 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
6665821 CTTTAAATAT
**
6665831 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
6665892 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
6665952 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
6666012 CGCGTTGCGATT
1 CGCGTTGCGATT
6666024 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:6667237 original size:23 final size:23
Alignment explanation
Indices: 6667194--6667239 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6667184 CAATAATGTC
*
6667194 AAAATTAGTTTTCAGTATTTATT
1 AAAATTAATTTTCAGTATTTATT
*
6667217 AAAATATAATTTT-AGTTTTTATT
1 AAAAT-TAATTTTCAGTATTTATT
6667240 TTTTAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (23 bp):
AAAATTAATTTTCAGTATTTATT
Found at i:6667410 original size:27 final size:30
Alignment explanation
Indices: 6667379--6667433 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
6667369 ATCTATTTAG
6667379 TTTAAAAAT-AT-TAAAAA-AATATTTTTT
1 TTTAAAAATGATATAAAAATAATATTTTTT
*
6667406 TTTAAAAATGGTATAAAAATAATATTTT
1 TTTAAAAATGATATAAAAATAATATTTT
6667434 CATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 1 0.04
29 6 0.25
30 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (30 bp):
TTTAAAAATGATATAAAAATAATATTTTTT
Found at i:6671736 original size:17 final size:18
Alignment explanation
Indices: 6671716--6671753 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6671706 AATATATAAG
6671716 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
*
6671733 T-AAATACTTTAATAAAT
1 TAAAATACTTAAATAAAT
6671750 TAAA
1 TAAA
6671754 TACAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 5 0.28
17 11 0.61
18 2 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:6671807 original size:20 final size:20
Alignment explanation
Indices: 6671782--6671830 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
6671772 TACCTTAAAC
* *
6671782 AGAGAATTTAAGAGTATTTG
1 AGAGAATTTAAGAGAAATTG
* *
6671802 AGAGAACTTGAGAGAAATTG
1 AGAGAATTTAAGAGAAATTG
6671822 AGAGAATTT
1 AGAGAATTT
6671831 GGTGTGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.29
Consensus pattern (20 bp):
AGAGAATTTAAGAGAAATTG
Found at i:6673058 original size:132 final size:132
Alignment explanation
Indices: 6672814--6673081 Score: 401
Period size: 132 Copynumber: 2.0 Consensus size: 132
6672804 TCTTTATATT
* * *
6672814 AATAATTTTTAATATCATATTTAAATTATTTCAATCCTCACTTAATCTCTTAAATTAAAATTTGT
1 AATAATTTTTAATATCATATTTAAATTATTTCAATCCTCACATAATCGCTTAAATTAAAATATGT
*
6672879 TGTGAACAAGCTCAATTATCATTGTTATTCACATTACCTAGAAAAAATGTAATACTACATCATCA
66 TGTGAACAAGCTCAACTATCATTGTTATTCACATTACCTAGAAAAAATGTAATACTACATCATCA
*
6672944 TA
131 CA
* * *
6672946 AATATTTTTTAATATCATATTTGAATTATTTCAATCCTCACATATTCGCTTAAATTAAAATATGT
1 AATAATTTTTAATATCATATTTAAATTATTTCAATCCTCACATAATCGCTTAAATTAAAATATGT
* * * * ** *
6673011 TGTGAATATGCTCAACTATCATTGTTATTCATATTACCTTGGGAAAATGTATTACTACATCATCA
66 TGTGAACAAGCTCAACTATCATTGTTATTCACATTACCTAGAAAAAATGTAATACTACATCATCA
6673076 CA
131 CA
6673078 AATA
1 AATA
6673082 GGAATGAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (132 bp):
AATAATTTTTAATATCATATTTAAATTATTTCAATCCTCACATAATCGCTTAAATTAAAATATGT
TGTGAACAAGCTCAACTATCATTGTTATTCACATTACCTAGAAAAAATGTAATACTACATCATCA
CA
Found at i:6681280 original size:21 final size:21
Alignment explanation
Indices: 6681254--6681299 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6681244 CAATAGCACC
* *
6681254 CAATAGCGCTCGCGACGGCCG
1 CAATAGCGCCCGCGACGGCCA
*
6681275 CAATAGTGCCCGCGACGGCCA
1 CAATAGCGCCCGCGACGGCCA
6681296 CAAT
1 CAAT
6681300 CACGGTAAAC
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:0.24, C:0.37, G:0.28, T:0.11
Consensus pattern (21 bp):
CAATAGCGCCCGCGACGGCCA
Found at i:6689896 original size:21 final size:21
Alignment explanation
Indices: 6689872--6689911 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6689862 TTTATTTTAT
6689872 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
6689893 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
6689912 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:6689959 original size:33 final size:33
Alignment explanation
Indices: 6689906--6690004 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
6689896 TTTGTTTCAA
6689906 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
6689938 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
6689971 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
6690004 T
1 T
6690005 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:6690266 original size:21 final size:21
Alignment explanation
Indices: 6690240--6690296 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
6690230 TGGAGCGTGG
*
6690240 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
6690261 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
6690282 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
6690297 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:6690493 original size:15 final size:15
Alignment explanation
Indices: 6690463--6690517 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 15
6690453 ATCTGGAATA
*
6690463 TTAAAATCGG-TTTT
1 TTAAAACCGGTTTTT
*
6690477 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
6690492 TTAAAAAACCGGTTTTT
1 TT--AAAACCGGTTTTT
6690509 TTAAAACCG
1 TTAAAACCG
6690518 AAACCGGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 8 0.23
15 13 0.37
17 14 0.40
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:6690526 original size:21 final size:17
Alignment explanation
Indices: 6690481--6690514 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6690471 GGTTTTTTAT
6690481 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
6690498 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
6690515 CCGAAACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AACCGGTTTTTTTAAAA
Found at i:6690634 original size:15 final size:17
Alignment explanation
Indices: 6690608--6690639 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6690598 TTCTATGGGA
6690608 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
6690624 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
6690640 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:6696143 original size:3 final size:3
Alignment explanation
Indices: 6696135--6696194 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
6696125 TTTTAAAAAA
6696135 TAT TAT TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6696180 TAA TAT TATT TAT TA
1 TAT TAT TA-T TAT TA
6696195 CATTTGCAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6697878 original size:2 final size:2
Alignment explanation
Indices: 6697871--6697900 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6697861 TATGTGTCTA
6697871 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
6697901 TGGTATTATA
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:6697985 original size:2 final size:2
Alignment explanation
Indices: 6697978--6698003 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6697968 AACTCACGAG
6697978 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
6698004 GTACGCATGA
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:6698812 original size:15 final size:16
Alignment explanation
Indices: 6698775--6698814 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
6698765 AACGAAGACC
6698775 AATT-TTTTTCTTAAA
1 AATTATTTTTCTTAAA
*
6698790 AATGATTTTTCTT-AA
1 AATTATTTTTCTTAAA
6698805 AATTATTTTT
1 AATTATTTTT
6698815 AAAAGATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (16 bp):
AATTATTTTTCTTAAA
Found at i:6702762 original size:42 final size:42
Alignment explanation
Indices: 6702715--6702967 Score: 221
Period size: 42 Copynumber: 6.0 Consensus size: 42
6702705 ATAATTAAAC
* * *
6702715 TAGGGGTCTCAGTTATAAAGGTAAAAAGTTAGATCGAAAAAA
1 TAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA
* ** *
6702757 TAGGGGTCTTAATTATAAAAATAAAAAGTGAGA-TAAAAAAA
1 TAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA
* * * * *
6702798 GTAAGAGACTCAATTATAAAGGTAGAAAGTGATATTGAAAAAA
1 -TAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA
* *
6702841 TCAGGGG-CTTCAATTGTAAAGATAAAAAGTGAGATTG-AAAAA
1 T-AGGGGTC-TCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA
* *
6702883 TAGGGGCCTCAATTATAGAA-GTAAAATGTGTA-ATT-AAAAAA
1 TAGGGGTCTCAATTATA-AAGGTAAAAAGTG-AGATTGAAAAAA
* * * *
6702924 TTAGAGGCCTCTATTATAAAAGTAAAAAAGTGAGATTGAAAAAA
1 -TAGGGGTCTCAATTATAAAGGT-AAAAAGTGAGATTGAAAAAA
6702968 AAAATAGATG
Statistics
Matches: 170, Mismatches: 28, Indels: 24
0.77 0.13 0.11
Matches are distributed among these distances:
41 37 0.22
42 83 0.49
43 44 0.26
44 6 0.04
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.25
Consensus pattern (42 bp):
TAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAA
Found at i:6702940 original size:126 final size:128
Alignment explanation
Indices: 6702730--6702967 Score: 295
Period size: 126 Copynumber: 1.9 Consensus size: 128
6702720 GTCTCAGTTA
* * * *
6702730 TAAAGGTAAAAAGTTAGATCGAAAAAATAGGGGTCTTAATTATAAAAATAAAAAGTGAGATAAAA
1 TAAAGATAAAAAGTGAGATCGAAAAAATAGGGGCCTCAATTATAAAAATAAAAAGTGAGATAAAA
* * *
6702795 AAAGTAAGAGACTCAATTATAAAGGT-AGAAAGTGATATTGAAAAAATCAGGGGCTTCAATTG
66 AAAGTAAGAGACTCAATTATAAAAGTAAAAAAGTGAGATTGAAAAAATCAGGGGCTTCAATTG
* * * * *
6702857 TAAAGATAAAAAGTGAGATTG-AAAAATAGGGGCCTCAATTATAGAAGTAAAATGTGTA-ATTAA
1 TAAAGATAAAAAGTGAGATCGAAAAAATAGGGGCCTCAATTATAAAAATAAAAAGTG-AGATAAA
* * *
6702920 AAAA-TTAGAGGCCTCTATTATAAAAGTAAAAAAGTGAGATTGAAAAAA
65 AAAAGTAAGA-GACTCAATTATAAAAGTAAAAAAGTGAGATTGAAAAAA
6702968 AAAATAGATG
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
125 4 0.04
126 52 0.56
127 37 0.40
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (128 bp):
TAAAGATAAAAAGTGAGATCGAAAAAATAGGGGCCTCAATTATAAAAATAAAAAGTGAGATAAAA
AAAGTAAGAGACTCAATTATAAAAGTAAAAAAGTGAGATTGAAAAAATCAGGGGCTTCAATTG
Found at i:6703040 original size:43 final size:41
Alignment explanation
Indices: 6702780--6703101 Score: 113
Period size: 43 Copynumber: 7.5 Consensus size: 41
6702770 TATAAAAATA
* * * *
6702780 AAAAGTGAGATAAAAAAAGTAA-GAGACTCAATTATAAAGGT
1 AAAAGTAAGATTAAAAAATTAAGGAG-CTCAATTATAAATGT
* * * * *
6702821 AGAAAGTGATATTGAAAAAA-TCAGGGGCTTCAATTGTAAA-GAT
1 A-AAAGTAAGATT-AAAAAATTAAGGAGC-TCAATTATAAATG-T
* * *
6702864 AAAAAGTGAGATTGAAAAA-T-AGGGGCCTCAATTATAGAA-GT
1 -AAAAGTAAGATTAAAAAATTAAGGAG-CTCAATTATA-AATGT
* * * *
6702905 AAAATGTGTA-ATTAAAAAATTAGAGG-CCTCTATTATAAAAGT
1 AAAA-GT-AAGATTAAAAAATTA-AGGAGCTCAATTATAAATGT
* ** * * * *
6702947 AAAAAAGTGAGATTGAAAAAAAAAATAGATGCCTTAATTGTAAAGGT
1 --AAAAGTAAGATT-AAAAAATTAA-GGA-G-CTCAATTATAAATGT
*
6702994 AAAATGTAGGATTACAAAAATTAAGG-GTCTCAATTATAAATGT
1 AAAA-GTAAGATTA-AAAAATTAAGGAG-CTCAATTATAAATGT
* * * *
6703037 AAAAATAAAATTGAAAACAATTAAGGAGCTTAATTATAAATAT
1 AAAAGTAAGATT-AAAA-AATTAAGGAGCTCAATTATAAATGT
*
6703080 AAAAAGTATGATTAAAAAATTA
1 -AAAAGTAAGATTAAAAAATTA
6703102 GATACTCTAT
Statistics
Matches: 215, Mismatches: 38, Indels: 55
0.70 0.12 0.18
Matches are distributed among these distances:
40 4 0.02
41 27 0.13
42 50 0.23
43 78 0.36
44 26 0.12
45 6 0.03
46 13 0.06
47 11 0.05
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (41 bp):
AAAAGTAAGATTAAAAAATTAAGGAGCTCAATTATAAATGT
Found at i:6704862 original size:32 final size:32
Alignment explanation
Indices: 6704793--6704908 Score: 99
Period size: 32 Copynumber: 3.6 Consensus size: 32
6704783 GAATATCTTG
* * *
6704793 GGGGCCTAAGAGCTTACCCAGGGGAGTACCTT
1 GGGGCCTAAGAGCCTACCCAGGGAAGTACATT
* *
6704825 AGGGCCTAAGAGCCTACCC-GAGGAAGTATATT
1 GGGGCCTAAGAGCCTACCCAG-GGAAGTACATT
* ** * * *
6704857 GGGGCCTTAGAGCCTACCCAAAGAAATGCCTT
1 GGGGCCTAAGAGCCTACCCAGGGAAGTACATT
* *
6704889 GGGGACTCAGAGCCTACCCA
1 GGGGCCTAAGAGCCTACCCA
6704909 AGGTCACCTT
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
31 1 0.01
32 66 0.99
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (32 bp):
GGGGCCTAAGAGCCTACCCAGGGAAGTACATT
Found at i:6706025 original size:28 final size:29
Alignment explanation
Indices: 6705994--6706067 Score: 93
Period size: 27 Copynumber: 2.7 Consensus size: 29
6705984 TAGGACTTGG
* *
6705994 GGGTATTTTAGGTCATTTCT-CACTTTAT
1 GGGTATTTTAGGTCATTTCTACAATTTAA
6706022 GGGTATTTT-GGTCATTT-TACAATTTAA
1 GGGTATTTTAGGTCATTTCTACAATTTAA
*
6706049 GGGTATTTCA-GTCATTTCT
1 GGGTATTTTAGGTCATTTCT
6706068 TTTCATCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.03
27 29 0.73
28 10 0.25
ACGTcount: A:0.20, C:0.12, G:0.19, T:0.49
Consensus pattern (29 bp):
GGGTATTTTAGGTCATTTCTACAATTTAA
Found at i:6714527 original size:2 final size:2
Alignment explanation
Indices: 6714520--6714546 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6714510 GCTTATAAAT
6714520 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 T
6714547 TAATGTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6718177 original size:2 final size:2
Alignment explanation
Indices: 6718172--6718202 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6718162 TTAACGTTAT
*
6718172 TA TA TA CA 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
6718203 TTTATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6718338 original size:20 final size:20
Alignment explanation
Indices: 6718302--6718344 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6718292 CTTCCTAGCG
*
6718302 TTTATGAATATATTTATTTA
1 TTTATGAATATATTTATATA
*
6718322 TTTATGCATA-ATATTATATA
1 TTTATGAATATAT-TTATATA
6718342 TTT
1 TTT
6718345 TTATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATGAATATATTTATATA
Found at i:6718501 original size:24 final size:24
Alignment explanation
Indices: 6718474--6718534 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
6718464 TCATTTCCTT
6718474 TTTTTTTTCTTAGT-T-CTCATTTTA
1 TTTTTTTTCTTAGTATGCT--TTTTA
*
6718498 TTTTTGTTTCTTTGTATGCTTTTTA
1 TTTTT-TTTCTTAGTATGCTTTTTA
*
6718523 TTTTTATTCTTA
1 TTTTTTTTCTTA
6718535 TTGTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 10 0.32
25 18 0.58
26 1 0.03
27 2 0.06
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.72
Consensus pattern (24 bp):
TTTTTTTTCTTAGTATGCTTTTTA
Found at i:6718554 original size:56 final size:60
Alignment explanation
Indices: 6718494--6718606 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 60
6718484 TAGTTCTCAT
* *
6718494 TTTATTTTTGTTTCTTTGT-ATGCTT-TTTATTTT-T-ATTCTTA-TTGTTTT-CTTATTCA
1 TTTATTTTTGTTT-TATGTCATGCTTATTCATTTTATCATT-TTATTTGTTTTCCTTATTCA
6718550 TTTATTTTTGTTTTATGTCATGCTTATTCATTTTATCATTTTATTTGTTTTCCTTAT
1 TTTATTTTTGTTTTATGTCATGCTTATTCATTTTATCATTTTATTTGTTTTCCTTAT
6718607 GTTATTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
55 4 0.08
56 19 0.39
57 7 0.14
58 4 0.08
59 10 0.20
60 5 0.10
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (60 bp):
TTTATTTTTGTTTTATGTCATGCTTATTCATTTTATCATTTTATTTGTTTTCCTTATTCA
Found at i:6719481 original size:28 final size:27
Alignment explanation
Indices: 6719415--6719645 Score: 218
Period size: 28 Copynumber: 8.4 Consensus size: 27
6719405 GTTATGGTGG
* * * *
6719415 TATTTTTGTAAATATTGTTAAAAAATGT
1 TATTTTGGTAATTATT-TTAAAAAGTGA
* * *
6719443 TAGTTTCGTAAATATTTTGAAAAAGTGA
1 TATTTTGGTAATTATTTT-AAAAAGTGA
*
6719471 TATTTTGGTAATTATTTCAAAAAAGTGA
1 TATTTTGGTAATTATTT-TAAAAAGTGA
6719499 TATTTTGGTAATTATTTTTAAAAAAGTGA
1 TATTTTGGTAATTA-TTTT-AAAAAGTGA
*
6719528 TATTTTGGT-A--A-TTTGAAAAGTGA
1 TATTTTGGTAATTATTTTAAAAAGTGA
*
6719551 TATTTTGGTAATTATTTCTAAAAAGCGA
1 TATTTTGGTAATTATTT-TAAAAAGTGA
*
6719579 TATTTTGGTAATTATTGTTAAATAGTGA
1 TATTTTGGTAATTATT-TTAAAAAGTGA
* ** * *
6719607 TATTTTTGTAATTATTAAAAAAAATGT
1 TATTTTGGTAATTATTTTAAAAAGTGA
*
6719634 TATTTTCGTAAT
1 TATTTTGGTAAT
6719646 AGTTTACTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.10
24 4 0.02
26 2 0.01
27 21 0.12
28 106 0.62
29 22 0.13
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.46
Consensus pattern (27 bp):
TATTTTGGTAATTATTTTAAAAAGTGA
Found at i:6719546 original size:23 final size:23
Alignment explanation
Indices: 6719520--6719563 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6719510 TTATTTTTAA
6719520 AAAAGTGATATTTTGGTAATTTG
1 AAAAGTGATATTTTGGTAATTTG
6719543 AAAAGTGATATTTTGGTAATT
1 AAAAGTGATATTTTGGTAATT
6719564 ATTTCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (23 bp):
AAAAGTGATATTTTGGTAATTTG
Found at i:6719556 original size:80 final size:80
Alignment explanation
Indices: 6719458--6719619 Score: 263
Period size: 80 Copynumber: 2.0 Consensus size: 80
6719448 TCGTAAATAT
* *
6719458 TTTGAAAAAGTGATATTTTGGTAATTATTTCAAAAAAGTGATATTTTGGTAATTATTTTTAAAAA
1 TTTGAAAAAGTGATATTTTGGTAATTATTTCAAAAAAGCGATATTTTGGTAATTATTGTT-AAAA
6719523 AGTGATATTTTGGTAA
65 AGTGATATTTTGGTAA
* *
6719539 TTTG-AAAAGTGATATTTTGGTAATTATTTCTAAAAAGCGATATTTTGGTAATTATTGTTAAATA
1 TTTGAAAAAGTGATATTTTGGTAATTATTTCAAAAAAGCGATATTTTGGTAATTATTGTTAAAAA
*
6719603 GTGATATTTTTGTAA
66 GTGATATTTTGGTAA
6719618 TT
1 TT
6719620 ATTAAAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 20 0.26
80 52 0.68
81 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (80 bp):
TTTGAAAAAGTGATATTTTGGTAATTATTTCAAAAAAGCGATATTTTGGTAATTATTGTTAAAAA
GTGATATTTTGGTAA
Found at i:6723933 original size:55 final size:57
Alignment explanation
Indices: 6723865--6723991 Score: 172
Period size: 55 Copynumber: 2.3 Consensus size: 57
6723855 AAATATTTGG
* *
6723865 GAAAAAGTGATATTTTGCTAATTATT-TCGAAAA-GTGATATTTTGGTAATTATTTT
1 GAAAAAGTGATATTTTGATAATTATTGTCAAAAAGGTGATATTTTGGTAATTATTTT
* * *
6723920 GAAAAAGTGATATTTTGATAATTATTGTTAAAAAGGTGTTATTTTTGTAATTATTTT
1 GAAAAAGTGATATTTTGATAATTATTGTCAAAAAGGTGATATTTTGGTAATTATTTT
6723977 -AAAAAGT-ATTATTTT
1 GAAAAAGTGA-TATTTT
6723992 CGTAATAGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
55 26 0.41
56 18 0.28
57 20 0.31
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (57 bp):
GAAAAAGTGATATTTTGATAATTATTGTCAAAAAGGTGATATTTTGGTAATTATTTT
Found at i:6723996 original size:27 final size:26
Alignment explanation
Indices: 6723866--6723997 Score: 149
Period size: 28 Copynumber: 4.8 Consensus size: 26
6723856 AATATTTGGG
*
6723866 AAAAAGTGATATTTTGCTAATTATTTC
1 AAAAAGTGATATTTTG-TAATTATTTT
*
6723893 GAAAAGTGATATTTTGGTAATTATTTT
1 AAAAAGTGATATTTT-GTAATTATTTT
6723920 GAAAAAGTGATATTTTGATAATTATTGTT
1 -AAAAAGTGATATTTTG-TAATTATT-TT
*
6723949 AAAAAGGTGTTATTTTTGTAATTATTTT
1 AAAAA-GTGATA-TTTTGTAATTATTTT
6723977 AAAAAGT-ATTATTTTCGTAAT
1 AAAAAGTGA-TATTTT-GTAAT
6723998 AGTTAATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
26 4 0.04
27 33 0.36
28 35 0.38
29 15 0.16
30 5 0.05
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.47
Consensus pattern (26 bp):
AAAAAGTGATATTTTGTAATTATTTT
Found at i:6725729 original size:36 final size:36
Alignment explanation
Indices: 6725682--6725755 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
6725672 ACACGGATCA
6725682 TATTTTTTAGCTTTTAATTTAAACTTTCAATTTTCT
1 TATTTTTTAGCTTTTAATTTAAACTTTCAATTTTCT
6725718 TATTTTTTAGCTTTTAATTTAAACTTTCAATTTTCT
1 TATTTTTTAGCTTTTAATTTAAACTTTCAATTTTCT
6725754 TA
1 TA
6725756 ATTAAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (36 bp):
TATTTTTTAGCTTTTAATTTAAACTTTCAATTTTCT
Found at i:6731397 original size:14 final size:14
Alignment explanation
Indices: 6731374--6731412 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6731364 ATATTGGTAA
6731374 ATTT-TAATTTTGT
1 ATTTATAATTTTGT
6731387 ATTTATAATTTTGT
1 ATTTATAATTTTGT
*
6731401 ATTTATTATTTT
1 ATTTATAATTTT
6731413 ATATGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (14 bp):
ATTTATAATTTTGT
Found at i:6736900 original size:24 final size:25
Alignment explanation
Indices: 6736859--6736905 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
6736849 GAACTCAAAA
6736859 AAAATTAGAAGCTCGATTGAAGCCT
1 AAAATTAGAAGCTCGATTGAAGCCT
* *
6736884 AAAATTCG-AGCTTGATTGAAGC
1 AAAATTAGAAGCTCGATTGAAGC
6736906 GAAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGCCT
Found at i:6737331 original size:21 final size:21
Alignment explanation
Indices: 6737280--6737332 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6737270 ATTATGACTA
6737280 TCGCAATGCGATTTTACAATT
1 TCGCAATGCGATTTTACAATT
** *
6737301 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-ACAATT
6737322 TCGCAATGCGA
1 TCGCAATGCGA
6737333 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTACAATT
Found at i:6737347 original size:20 final size:21
Alignment explanation
Indices: 6737322--6737373 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6737312 TTTTCCCAAT
*
6737322 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
6737342 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
6737363 TCGCAATGCGA
1 TCGCAATGCGA
6737374 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:6737386 original size:41 final size:42
Alignment explanation
Indices: 6737359--6737471 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 42
6737349 GCGAATTTGG
*
6737359 AAAATCGCAATGCGATACTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
* * *
6737400 AAAATCGCAACGCGATACTGACTTTCGCAACGCG-ATACT-G
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
*** *
6737440 ATTTTCGCAACGCGATACTGACTTTCGCAACG
1 AAAATCGCAACGCGATACTGACTATCGCAACG
6737472 AGATTCTGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 29 0.45
41 36 0.55
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGAATAATAC
Found at i:6737459 original size:40 final size:40
Alignment explanation
Indices: 6737358--6737489 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
6737348 TGCGAATTTG
* * *
6737358 GAAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT
*
6737398 ACAAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT
1 -GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT
*** * *
6737439 GATTTTCGCAACGCGATACTGACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT
6737479 GAAAATCGCAA
1 GAAAATCGCAA
6737490 TCATCTTCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 42 0.54
41 36 0.46
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (40 bp):
GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATACT
Found at i:6737480 original size:20 final size:20
Alignment explanation
Indices: 6737363--6737471 Score: 139
Period size: 20 Copynumber: 5.4 Consensus size: 20
6737353 ATTTGGAAAA
* *
6737363 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTT
* **
6737383 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
6737404 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
6737424 TCGCAACGCGATACTGATTT
1 TCGCAACGCGATACTGACTT
6737444 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
6737464 TCGCAACG
1 TCGCAACG
6737472 AGATTCTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
19 2 0.03
20 59 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:6737731 original size:20 final size:20
Alignment explanation
Indices: 6737706--6737778 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
6737696 CGGGGAAATC
*
6737706 GCAACGCGAAAATGACTATT
1 GCAACGCGAAAATGGCTATT
6737726 GCAACGCGAAAATGGCTATT
1 GCAACGCGAAAATGGCTATT
*
6737746 GCAACGCGAAAATGGCTATC
1 GCAACGCGAAAATGGCTATT
*
6737766 GCAACGAGAAAAT
1 GCAACGCGAAAAT
6737779 CACAATGCGA
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:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
GCAACGCGAAAATGGCTATT
Found at i:6737841 original size:19 final size:19
Alignment explanation
Indices: 6737819--6737861 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
6737809 TTTCTCGTTA
*
6737819 CGATTTTTATTTCGCATTG
1 CGATTTTCATTTCGCATTG
6737838 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
6737857 CGATT
1 CGATT
6737862 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:6739502 original size:41 final size:42
Alignment explanation
Indices: 6739448--6739539 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
6739438 CCTCTTCAAC
* *
6739448 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
6739489 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
6739531 GATGACAGG
1 GATGACAGG
6739540 TGAGTTAGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:6739504 original size:21 final size:21
Alignment explanation
Indices: 6739475--6739535 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
6739465 GAACGGTGGG
*
6739475 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
6739496 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
6739517 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
6739536 CAGGTGAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:6739914 original size:20 final size:20
Alignment explanation
Indices: 6739876--6739956 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
6739866 GAAGAATAGT
** *
6739876 TTACTTTCGCAACAAGAAAC
1 TTACTTTCGCAACGCGAAAA
6739896 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACGCGAAAA
* * *
6739916 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACGCGAAAA
** * *
6739936 TGGCTATCGCAACGCTAAAA
1 TTACTTTCGCAACGCGAAAA
6739956 T
1 T
6739957 GGCTATCGCA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (20 bp):
TTACTTTCGCAACGCGAAAA
Found at i:6739957 original size:20 final size:20
Alignment explanation
Indices: 6739902--6739974 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
6739892 AAACTTACTT
*
6739902 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGGCTA
*
6739922 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
6739942 TCGCAACGCTAAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
6739962 TCGCAATGCGAAA
1 TCGCAACGCGAAA
6739975 TGAAAATCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGGCTA
Found at i:6739995 original size:39 final size:40
Alignment explanation
Indices: 6739902--6739988 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
6739892 AAACTTACTT
***
6739902 TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGAAAA
* * *
6739942 TCGCAACGCTAAAATGGCTATCGCAATGC-GAAATGAAAA
1 TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGAAAA
6739981 TCGCAACG
1 TCGCAACG
6739989 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 15 0.37
40 26 0.63
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (40 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGAAAA
Found at i:6740036 original size:19 final size:19
Alignment explanation
Indices: 6740014--6740163 Score: 123
Period size: 19 Copynumber: 8.6 Consensus size: 19
6740004 GAAACACAAA
6740014 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
6740033 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
6740049 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6740066 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
6740082 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6740099 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
6740115 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
6740132 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
6740151 TCCGCATTGCGAT
1 T-CGCATTGCGAT
6740164 AGTCATTTTC
Statistics
Matches: 105, Mismatches: 10, Indels: 31
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.17
15 9 0.09
16 12 0.11
17 12 0.11
18 9 0.09
19 34 0.32
20 11 0.10
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:6740055 original size:14 final size:14
Alignment explanation
Indices: 6740036--6740127 Score: 76
Period size: 14 Copynumber: 5.9 Consensus size: 14
6740026 TTTCATTTCG
6740036 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
6740050 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
6740067 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
6740083 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
6740100 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
6740116 CGTTGCGATTTT
1 CGTTGCGATTTT
6740128 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 24 0.38
15 6 0.09
16 8 0.12
17 8 0.12
18 6 0.09
19 12 0.19
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:6740061 original size:33 final size:33
Alignment explanation
Indices: 6740019--6740143 Score: 241
Period size: 33 Copynumber: 3.8 Consensus size: 33
6740009 ACAAATCGCA
*
6740019 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
6740052 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
6740085 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
6740118 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
6740144 AGCCATTTCC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:6740180 original size:20 final size:20
Alignment explanation
Indices: 6740128--6740171 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6740118 TTGCGATTTT
6740128 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
6740147 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
6740167 CATTT
1 CATTT
6740172 TCGTGTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:6740747 original size:18 final size:18
Alignment explanation
Indices: 6740724--6740771 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
6740714 CGGGTCGATA
6740724 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
6740742 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
6740760 AGGTGATGGCTC
1 AGGTGATGGCTC
6740772 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:6742138 original size:20 final size:20
Alignment explanation
Indices: 6742090--6742148 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6742080 AATAGTTTCT
* *
6742090 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
6742110 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
6742130 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
6742149 AGCGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:6742424 original size:22 final size:22
Alignment explanation
Indices: 6742397--6742440 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6742387 GATGGAGATA
6742397 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
6742419 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
6742441 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:6742741 original size:20 final size:20
Alignment explanation
Indices: 6742627--6742740 Score: 149
Period size: 20 Copynumber: 5.7 Consensus size: 20
6742617 GATTATGTAT
*
6742627 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
6742647 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
6742667 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
6742687 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
6742708 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
6742728 TATCGCGTTGCGA
1 TATCGCGTTGCGA
6742741 TTTTCCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:6742744 original size:41 final size:41
Alignment explanation
Indices: 6742607--6742742 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 41
6742597 CGCTTTGAAA
* *
6742607 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* *
6742648 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* *
6742688 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
6742729 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
6742743 TTCCAAATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.04
40 33 0.39
41 46 0.55
42 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:6742760 original size:41 final size:40
Alignment explanation
Indices: 6742627--6742762 Score: 157
Period size: 41 Copynumber: 3.4 Consensus size: 40
6742617 GATTATGTAT
* *** *
6742627 TATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAA
* *
6742667 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT-AAA
*
6742708 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT--AAA
*
6742750 T-TCGCATTGCGAA
1 TATCGCGTTGCGAA
6742763 TTGGGAAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 33 0.40
41 47 0.57
42 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAA
Found at i:6742775 original size:21 final size:20
Alignment explanation
Indices: 6742751--6742803 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
6742741 TTTTCCAAAT
6742751 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
***
6742772 TCGCAACACGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
6742793 TCGCATTGCGA
1 TCGCATTGCGA
6742804 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:6753222 original size:39 final size:39
Alignment explanation
Indices: 6753162--6753290 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
6753152 TCTATGACTT
*
6753162 GTAAGACCTTACCGCAAGCTCCTCGGCTTTGTGCTCAAG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAAG
* * * *
6753201 GTAAGTCCTTACCACAGGCTCCTCGGTTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAAG
* * * * *
6753240 GTAAGTCATTACCGCATGCTCCTCTGCTTTATGCTCATG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAAG
6753279 GTAAGTCCTTAC
1 GTAAGTCCTTAC
6753291 TGCAGATCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.31
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAAG
Found at i:6753808 original size:25 final size:25
Alignment explanation
Indices: 6753780--6753832 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
6753770 ACCTAGATTT
6753780 GGGCATAACGTCTAGGACAGATCTA
1 GGGCATAACGTCTAGGACAGATCTA
*
6753805 GGGCATAGCGTCTAGGACAGATCTA
1 GGGCATAACGTCTAGGACAGATCTA
6753830 GGG
1 GGG
6753833 GTTACATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.19
Consensus pattern (25 bp):
GGGCATAACGTCTAGGACAGATCTA
Found at i:6757241 original size:21 final size:21
Alignment explanation
Indices: 6757198--6757290 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
6757188 TTTTCCCAAT
** *
6757198 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
6757218 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
6757239 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
6757259 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
6757280 TCGCAATGCGA
1 TCGCAATGCGA
6757291 TACTGACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:6757304 original size:20 final size:20
Alignment explanation
Indices: 6757279--6757373 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
6757269 AATTGGGAAA
*
6757279 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
6757299 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
** *
6757320 ATCGCAACGAAATACTTACT
1 ATCGCAACGCGATACTGACT
*
6757340 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
6757360 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6757374 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6757310 original size:41 final size:41
Alignment explanation
Indices: 6757198--6757290 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
6757188 TTTTCCCAAT
*
6757198 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
6757239 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
6757280 TCGCAATGCGA
1 TCGCAATGCGA
6757291 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
Found at i:6757321 original size:41 final size:41
Alignment explanation
Indices: 6757276--6757353 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
6757266 GCGAATTGGG
* ** *
6757276 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAAATACTGACTATCGCAACGCGATAATAA
* *
6757317 AAAATCGCAACGAAATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAAATACTGACTATCGCAACGCGATA
6757354 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAAATACTGACTATCGCAACGCGATAATAA
Found at i:6757325 original size:21 final size:20
Alignment explanation
Indices: 6757198--6757326 Score: 66
Period size: 20 Copynumber: 6.3 Consensus size: 20
6757188 TTTTCCCAAT
*
6757198 TCGCAATGCG-AATAAGTAAA
1 TCGCAATGCGAAATAA-AAAA
* * **
6757218 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAAAT-AAAAAA
*
6757239 TCGCAATGCG-AATAAGTAAA
1 TCGCAATGCGAAATAA-AAAA
* **
6757259 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAAAT-AAAAAA
* * **
6757280 TCGCAATGCGATACT-GACTA
1 TCGCAATGCGA-AATAAAAAA
6757300 TCGCAATGCGATAATAAAAAA
1 TCGCAATGCGA-AATAAAAAA
6757321 TCGCAA
1 TCGCAA
6757327 CGAAATACTT
Statistics
Matches: 81, Mismatches: 21, Indels: 13
0.70 0.18 0.11
Matches are distributed among these distances:
20 41 0.51
21 38 0.47
22 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAAATAAAAAA
Found at i:6757589 original size:22 final size:22
Alignment explanation
Indices: 6757561--6757602 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6757551 CACTCTCTCA
6757561 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6757583 CCCATCTCCGGCGAAATCCG
1 CCCATCTCCGACGAAATCCG
6757603 ACTATCTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6757894 original size:20 final size:20
Alignment explanation
Indices: 6757869--6757906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6757859 CGATTCTCTC
6757869 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
6757889 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
6757907 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:6760123 original size:33 final size:33
Alignment explanation
Indices: 6760070--6760153 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
6760060 GGAAATGACT
* *
6760070 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGACTATCGCAACCAGACA
*
6760104 ATCGCAACGCGAAATGACTATCGCGACCAGACA
1 ATCGCAACGCGAAATGACTATCGCAACCAGACA
6760137 ATCGCAACGCGAAATGA
1 ATCGCAACGCGAAATGA
6760154 AAATTGCAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 37 0.79
34 10 0.21
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACCAGACA
Found at i:6760162 original size:19 final size:19
Alignment explanation
Indices: 6760021--6760263 Score: 254
Period size: 19 Copynumber: 13.1 Consensus size: 19
6760011 TCTTTTGGTT
*
6760021 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
6760040 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
6760060 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
**
6760080 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
6760098 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
6760114 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
6760132 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6760147 GAAATGAAAATTGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
6760167 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6760186 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6760205 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6760224 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6760243 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
6760262 GA
1 GA
6760264 TTTTGGTTTC
Statistics
Matches: 194, Mismatches: 17, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
14 19 0.10
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.02
19 99 0.51
20 64 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6760293 original size:20 final size:20
Alignment explanation
Indices: 6760270--6760326 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
6760260 GCGATTTTGG
6760270 TTTCGCGTTGCGATTTTTTA
1 TTTCGCGTTGCGATTTTTTA
**
6760290 TTTCGCGTTGCGA-TAGTTA
1 TTTCGCGTTGCGATTTTTTA
6760309 TTTCCGCGTTGCGATTTT
1 TTT-CGCGTTGCGATTTT
6760327 CATTCTCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 7 0.23
20 23 0.74
21 1 0.03
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTTTA
Found at i:6760867 original size:20 final size:20
Alignment explanation
Indices: 6760842--6760894 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6760832 GCGCTATGTA
*
6760842 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTAAG
6760862 AATCGCGTTGCGAAAGTAAG
1 AATCGCGTTGCGAAAGTAAG
* *
6760882 TATCTCGTTGCGA
1 AATCGCGTTGCGA
6760895 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTAAG
Found at i:6760954 original size:21 final size:21
Alignment explanation
Indices: 6760925--6761017 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
6760915 ATAGTCATTA
6760925 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
6760946 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
6760966 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
6760987 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
6761007 TCGCATTGCGA
1 TCGCATTGCGA
6761018 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:6760955 original size:41 final size:41
Alignment explanation
Indices: 6760925--6761017 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
6760915 ATAGTCATTA
*
6760925 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACTTAT
*
6760966 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACTTAT
6761007 TCGCATTGCGA
1 TCGCATTGCGA
6761018 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACTTAT
Found at i:6761088 original size:21 final size:21
Alignment explanation
Indices: 6761048--6761088 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6761038 ACTGTAGACC
**
6761048 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
6761069 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
6761089 GCGAATTTGC
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:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:6764279 original size:13 final size:13
Alignment explanation
Indices: 6764261--6764292 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6764251 ATTTGGCAAT
6764261 GTAGAAGGGAACA
1 GTAGAAGGGAACA
6764274 GTAGAAGGGAACA
1 GTAGAAGGGAACA
*
6764287 ATAGAA
1 GTAGAA
6764293 CGGTATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.34, T:0.09
Consensus pattern (13 bp):
GTAGAAGGGAACA
Found at i:6766155 original size:15 final size:15
Alignment explanation
Indices: 6766135--6766165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6766125 ATTATCGATG
6766135 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
6766150 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
6766165 A
1 A
6766166 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:6772068 original size:3 final size:3
Alignment explanation
Indices: 6772060--6772087 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6772050 TTAAATATAT
6772060 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6772088 ATGTATCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6773608 original size:2 final size:2
Alignment explanation
Indices: 6773601--6773646 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
6773591 TTTGGTTTGA
6773601 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
6773643 AT AT
1 AT AT
6773647 TGTTTGCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6781807 original size:3 final size:3
Alignment explanation
Indices: 6781801--6781861 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
6781791 TTCATTTAAA
*
6781801 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT ATAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
6781847 TATT TAT TAA TAT TA
1 TA-T TAT TAT TAT TA
6781862 CAAACAGGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 1 0.02
3 42 0.84
4 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6783865 original size:16 final size:16
Alignment explanation
Indices: 6783844--6783880 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6783834 TCTTTCAAAT
6783844 TTTTTAT-TACTTATTA
1 TTTTTATATA-TTATTA
6783860 TTTTTATATATTATTA
1 TTTTTATATATTATTA
6783876 TTTTT
1 TTTTT
6783881 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATATATTATTA
Found at i:6788195 original size:2 final size:2
Alignment explanation
Indices: 6788188--6788219 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6788178 TATCCTTTTA
6788188 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
6788220 CATTTGTTGT
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:6788532 original size:6 final size:6
Alignment explanation
Indices: 6788521--6788574 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
6788511 GCAAATAAAG
* *
6788521 AAGAAA AAGAAA AAGAAA AAGAAA ACA-AAA CA-AAA CA-AAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA
6788567 AAGAAA AA
1 AAGAAA AA
6788575 AATTGAATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 10 0.23
6 33 0.75
7 1 0.02
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6791036 original size:114 final size:114
Alignment explanation
Indices: 6790821--6791040 Score: 343
Period size: 114 Copynumber: 1.9 Consensus size: 114
6790811 CACATTCTCG
* * *
6790821 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
* *
6790886 GGTATGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGTTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGTTCA
6790935 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
* * * *
6791000 GGTAGGAATCCCATAGCCAATCATT-GAAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAG-AATTAAAAGATGAA
6791041 CTGCATGATC
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 1 0.01
114 95 0.99
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGTTCA
Found at i:6793162 original size:54 final size:53
Alignment explanation
Indices: 6793014--6793222 Score: 232
Period size: 54 Copynumber: 4.0 Consensus size: 53
6793004 AGAAATCTTG
* * * *
6793014 GCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTAA
1 GCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC-TCTGA
* *
6793068 GAAGAAACCACA-AGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAACCACAGA-AAAAGATGAATGTGTTGTCAAATGTTTTACGAAC-TCTGA
* * * *
6793122 GCAGAAGCCACAGAAAAATATGAATGTGTTGTCAAGTGTTTTAC-ATCTC-GA
1 GCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACGAACTCTGA
* *
6793173 -CAGATAA-CACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAA-TCTG
1 GCAGA-AACCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACGAACTCTG
6793223 CTATTCTGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
50 38 0.29
51 5 0.04
52 2 0.02
53 3 0.02
54 84 0.63
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (53 bp):
GCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACGAACTCTGA
Found at i:6793604 original size:22 final size:22
Alignment explanation
Indices: 6793571--6793625 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
6793561 ATCTACACTC
6793571 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* * *
6793593 TTTAAATATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
6793615 TTCAAAGATGA
1 TTCAAAGATGA
6793626 AAGCTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:6794659 original size:116 final size:113
Alignment explanation
Indices: 6794058--6794983 Score: 1162
Period size: 113 Copynumber: 8.2 Consensus size: 113
6794048 CAGCTTTTCC
* *
6794058 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* *
6794123 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
** * *
6794171 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* * * *
6794236 ACATTACCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGA
66 ACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
6794284 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT-GAATTCATCA-TTCAATGGAT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG-TTCAAATCCATCACTT-GATGGAT
**** *
6794347 CAACATTTCCAGTTCGAGTTCATAATGAGGAGAACTCATCTG-A-AA-GA
64 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
6794394 AG-A-AA-TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
***
6794456 GTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
** * *
6794504 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* * *
6794569 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
66 ACATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* * * * *
6794620 AGAAGAAATTTATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* * **
6794685 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACAAATCTGAAGAAGGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ** * * *
6794733 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATAA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* *
6794798 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
66 ACATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* *
6794849 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
* *
6794914 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---GAA-GA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
6794958 AGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
6794984 CATCTGAAAG
Statistics
Matches: 705, Mismatches: 86, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
106 2 0.00
107 78 0.11
108 5 0.01
109 30 0.04
110 11 0.02
111 3 0.00
112 8 0.01
113 369 0.52
114 4 0.01
115 2 0.00
116 191 0.27
117 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTCAAATCCATCACTTGATGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:6794726 original size:229 final size:226
Alignment explanation
Indices: 6794058--6794983 Score: 1291
Period size: 229 Copynumber: 4.1 Consensus size: 226
6794048 CAGCTTTTCC
* ** * *
6794058 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTTGATGGATCA
* * * * * *
6794123 GCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
66 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAAT
** ** * * * * *
6794187 GAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTACCAG-GTCAA
130 GAGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAG-AAA
* *
6794251 GTTCATAATGAGAAGAACTCATCTGAAAAAAGA
194 GTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
6794284 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTTGATGGATCA
* * * *
6794349 ACATTTCCAGTTCGAGTTCATAATGAGGAGAACTCATCT------GAAAGAAGAAATTCATAATG
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATG
* *
6794408 AGAAGAATTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGTTTTTCCAGAGAAAGT
131 AGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGT
6794473 TCATAATGAGAAGAACTCATCTGAAGAAGGA
196 TCATAATGAGAAGAACTCATCTGAAGAAGGA
*
6794504 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTTGATGGATCA
*
6794569 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAAGAAGAAATTTATA
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAGAAATTCATA
* * * *
6794634 ATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
128 ATGAGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAA
**
6794699 AGTTCATAATGAGAAGAACAAATCTGAAGAAGGA
193 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
6794733 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATAA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTTGATGGATCA
* *
6794798 ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATA
66 ACATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAGAAATTCATA
*
6794863 ATAAGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAA
128 ATGAGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAA
6794928 AGTTCATAATGAGAAGAACTCATCT---GAA-GA
193 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
6794958 AGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
6794984 CATCTGAAAG
Statistics
Matches: 633, Mismatches: 56, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
220 189 0.30
221 1 0.00
222 1 0.00
223 6 0.01
225 27 0.04
226 93 0.15
229 316 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (226 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATG
AGAAGAACTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:6794974 original size:36 final size:34
Alignment explanation
Indices: 6794927--6795015 Score: 151
Period size: 36 Copynumber: 2.6 Consensus size: 34
6794917 TTTCCAGAGA
6794927 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAG
6794963 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
*
6794997 AAATTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
6795016 TTTGTTCAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
34 24 0.46
35 1 0.02
36 27 0.52
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (34 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
Found at i:6795004 original size:143 final size:145
Alignment explanation
Indices: 6794812--6795162 Score: 571
Period size: 143 Copynumber: 2.4 Consensus size: 145
6794802 TGCCAGGTAG
*
6794812 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
1 AGTTCATAATGAGAAGAA--C-TCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
6794877 TTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
59 TTCAACCTTTTGTTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
6794942 AGAACTCATCTGAAGAAGAAGA
124 AGAACTCATCTGAAGAAGAAGA
* *
6794964 AGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
*
6795027 TTTTGTTCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
66 TTTTGTTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
6795092 ATCTGAAGAAGAAGA
131 ATCTGAAGAAGAAGA
6795107 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACT
6795163 CATCTGAAGA
Statistics
Matches: 189, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
143 136 0.72
144 1 0.01
145 26 0.14
146 1 0.01
149 6 0.03
150 1 0.01
152 18 0.10
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (145 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
TTTTGTTCAAAACCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
ATCTGAAGAAGAAGA
Found at i:6795117 original size:36 final size:36
Alignment explanation
Indices: 6795070--6795195 Score: 234
Period size: 36 Copynumber: 3.5 Consensus size: 36
6795060 TTTCCAGAGA
6795070 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
6795106 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
6795142 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
* *
6795178 AAGTTCACAATGAAAAGA
1 AAGTTCATAATGAGAAGA
6795196 GCTTGTTCAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.19
Consensus pattern (36 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
Done.