Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000418.1 Hibiscus syriacus cultivar Beakdansim tig00000765_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: 909013
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:642108 original size:28 final size:28
Alignment explanation
Indices: 642073--642152 Score: 151
Period size: 28 Copynumber: 2.9 Consensus size: 28
642063 GCGAGAGCAT
642073 CCGAGGGCATCCGAGCGATGCCATCCGA
1 CCGAGGGCATCCGAGCGATGCCATCCGA
642101 CCGAGGGCATCCGAGCGATGCCATCCGA
1 CCGAGGGCATCCGAGCGATGCCATCCGA
*
642129 CCGAGGGCATCCGAGCGAGGCCAT
1 CCGAGGGCATCCGAGCGATGCCAT
642153 GCACGTCCCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.21, C:0.35, G:0.34, T:0.10
Consensus pattern (28 bp):
CCGAGGGCATCCGAGCGATGCCATCCGA
Found at i:642450 original size:48 final size:48
Alignment explanation
Indices: 642351--642443 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
642341 ACTGCTGCAC
* *
642351 GCAGCAATTAGTGTTGTATTATTGCAGCATTCAACAGTTGAAAAACAT
1 GCAGCAATTAGTGTTATATTATTGCAGCATTCAACAGTTAAAAAACAT
* * *
642399 GCAGTAATTAGTGTTATATTATTGCAG-AGTTGAACGGTTAAAAAA
1 GCAGCAATTAGTGTTATATTATTGCAGCA-TTCAACAGTTAAAAAA
642444 TTTGCAGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.03
48 38 0.97
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (48 bp):
GCAGCAATTAGTGTTATATTATTGCAGCATTCAACAGTTAAAAAACAT
Found at i:642800 original size:28 final size:28
Alignment explanation
Indices: 642694--642872 Score: 253
Period size: 28 Copynumber: 6.5 Consensus size: 28
642684 TTAGTTTAGG
*
642694 GTTTAAGTTAT-TTA-GTTAGTTTGTTA
1 GTTTAAGTTATATTATATTAGTTTGTTA
642720 GTTTAAGTTATATTAT-TTA-TTTAGTTA
1 GTTTAAGTTATATTATATTAGTTT-GTTA
* *
642747 G-TT-AGTTAGTATAAATTATTATTTTGTTA
1 GTTTAAGTTA-TAT-TA-TATTAGTTTGTTA
642776 GTTTAAGTTATATTATATTAGTTTGTTA
1 GTTTAAGTTATATTATATTAGTTTGTTA
642804 GTTTAAGTTATATTATATTAGTTTGTTA
1 GTTTAAGTTATATTATATTAGTTTGTTA
642832 GTTTAAGTTATATTATATTAGTTTGTTA
1 GTTTAAGTTATATTATATTAGTTTGTTA
642860 GTTTAAGTTATAT
1 GTTTAAGTTATAT
642873 ATCAAATTAT
Statistics
Matches: 140, Mismatches: 3, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
25 5 0.04
26 19 0.14
27 12 0.09
28 82 0.59
29 9 0.06
30 8 0.06
31 5 0.04
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (28 bp):
GTTTAAGTTATATTATATTAGTTTGTTA
Found at i:642897 original size:56 final size:56
Alignment explanation
Indices: 642777--642901 Score: 157
Period size: 56 Copynumber: 2.2 Consensus size: 56
642767 ATTTTGTTAG
* * *** *
642777 TTTAAGTTATATTATATTAGTTTGTTAGTTTAAGTTATATTATATTAGTTTGTTAG
1 TTTAAGTTATATTATATTAGTTTGTTAGTTTAAGTTATATTAAATTAGTATAAAAC
642833 TTTAAGTTATATTATATTAGTTTGTTAGTTTAAGTTATATATCAAATTA-TATAAAAC
1 TTTAAGTTATATTATATTAGTTTGTTAGTTTAAGTTATAT-T-AAATTAGTATAAAAC
642890 TTT-AGTTA-ATTA
1 TTTAAGTTATATTA
642902 GTTTCTTAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
55 4 0.07
56 45 0.74
57 7 0.11
58 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.54
Consensus pattern (56 bp):
TTTAAGTTATATTATATTAGTTTGTTAGTTTAAGTTATATTAAATTAGTATAAAAC
Found at i:646145 original size:20 final size:20
Alignment explanation
Indices: 646122--646164 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
646112 TATAATTCGA
*
646122 GGACTTGAACAGATTTGAAT
1 GGACTTGAACAGATTTAAAT
646142 GGACTTGAACAGATTTAAAT
1 GGACTTGAACAGATTTAAAT
646162 GGA
1 GGA
646165 TGTGTGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (20 bp):
GGACTTGAACAGATTTAAAT
Found at i:646422 original size:49 final size:49
Alignment explanation
Indices: 646358--646679 Score: 446
Period size: 49 Copynumber: 6.3 Consensus size: 49
646348 AGTAATGATT
*
646358 TAGTAATGATAAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
646407 TAGTAATGTTTAGTAATAATAAAATTATTATTAATATTTAATGATTTAATAGTAATA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TT--T-G----A
* *
646464 TTTAGTAATGATTAGTAATAATGAAATTACTATTACTATTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
646515 TATTAATGATTATTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * *
646564 TAGTAATAATTAGTAATAATGAAACTATTATTAATATTTAATGATTTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
646613 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
646662 TAGCAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
646680 GATTAGTAAT
Statistics
Matches: 242, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
49 184 0.76
50 10 0.04
51 1 0.00
52 1 0.00
53 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 2 0.01
59 40 0.17
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:646489 original size:108 final size:109
Alignment explanation
Indices: 646330--646700 Score: 541
Period size: 108 Copynumber: 3.5 Consensus size: 109
646320 TGAGTCAATC
* *
646330 AATATTTAATAATTTGATAGTAATGATTTAGTAATGATAAGTAATAATGAAATTATTATTAATAT
1 AATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
* *
646395 TTAATGATTTGATAGTAATGTTTAGTAATAATAAAATTATTATT
66 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATT
* * *
646439 AATATTTAATGATTTAATAGTAAT-ATTTAGTAATGATTAGTAATAATGAAATTACTATTACTAT
1 AATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
* *
646503 TTAATGATTTGATATTAATGATTATTAATAATGAAATTATTATT
66 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATT
*
646547 AATATTTAATGATTTGATAG---T-A---A-T-A--ATTAGTAATAATGAAACTATTATTAATAT
1 AATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
*
646601 TTAATGATTTAATAGTAATGATTAGTAATAATGAAATTATTATT
66 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATT
* *
646645 AATATTTAATGATTTGATAGCAATGATTTAGTAATGATTAGTAATCATGAAATTAT
1 AATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTAT
646701 AATAATTATT
Statistics
Matches: 233, Mismatches: 18, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
98 87 0.37
100 1 0.00
101 2 0.01
102 2 0.01
105 3 0.01
106 1 0.00
107 1 0.00
108 96 0.41
109 40 0.17
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (109 bp):
AATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATT
Found at i:646872 original size:11 final size:11
Alignment explanation
Indices: 646856--646980 Score: 65
Period size: 11 Copynumber: 10.4 Consensus size: 11
646846 CAATTAACCA
646856 TAATAATGATT
1 TAATAATGATT
646867 TAATAATGATTT
1 TAATAATGA-TT
*
646879 AGTAATAATCATT
1 --TAATAATGATT
646892 ATAATAATGATT
1 -TAATAATGATT
* * *
646904 TATTATTAATAT
1 TAATAATGAT-T
646916 T--TAATGATT
1 TAATAATGATT
646925 TGATATTAATGATT
1 T-A-A-TAATGATT
*
646939 AAATAATGATT
1 TAATAATGATT
*
646950 AATAATAATAAAATT
1 --TAATAAT--GATT
646965 GTAATAATGATT
1 -TAATAATGATT
646977 TAAT
1 TAAT
646981 CATTAATAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 26
0.69 0.10 0.20
Matches are distributed among these distances:
9 2 0.02
10 5 0.06
11 28 0.32
12 18 0.20
13 9 0.10
14 23 0.26
15 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (11 bp):
TAATAATGATT
Found at i:647243 original size:11 final size:11
Alignment explanation
Indices: 647229--647267 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
647219 AATGATTTGA
647229 TAATAATAATT
1 TAATAATAATT
**
647240 TAATAATGGTT
1 TAATAATAATT
647251 TAATAATAATTT
1 TAATAATAA-TT
647263 TAATA
1 TAATA
647268 TTAAATGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (11 bp):
TAATAATAATT
Found at i:647330 original size:14 final size:14
Alignment explanation
Indices: 647311--647379 Score: 78
Period size: 14 Copynumber: 5.3 Consensus size: 14
647301 ATAATCATTA
647311 TAATAATGATTTAG
1 TAATAATGATTTAG
*
647325 TAATAATCA-TTA-
1 TAATAATGATTTAG
647337 TAATAATGATTT-G
1 TAATAATGATTTAG
647350 ATAATAATGA-TT--
1 -TAATAATGATTTAG
647362 TAATAATGATTTAG
1 TAATAATGATTTAG
647376 TAAT
1 TAAT
647380 TATTATTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
11 9 0.19
12 10 0.21
13 7 0.15
14 21 0.45
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.43
Consensus pattern (14 bp):
TAATAATGATTTAG
Found at i:647330 original size:26 final size:26
Alignment explanation
Indices: 647301--647395 Score: 131
Period size: 26 Copynumber: 3.7 Consensus size: 26
647291 TGATTTGATG
647301 ATAATCATTATAATAATGATTTAGTA
1 ATAATCATTATAATAATGATTTAGTA
647327 ATAATCATTATAATAATGATTT-GATA
1 ATAATCATTATAATAATGATTTAG-TA
*
647353 ATAATGATT-TAATAATGATTTAGTA
1 ATAATCATTATAATAATGATTTAGTA
* *
647378 ATTATTATTAATAATAAT
1 ATAATCATT-ATAATAAT
647396 TTATTATTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
25 22 0.35
26 33 0.53
27 7 0.11
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
ATAATCATTATAATAATGATTTAGTA
Found at i:647416 original size:17 final size:16
Alignment explanation
Indices: 647376--647417 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
647366 AATGATTTAG
647376 TAATTATTATTAATAA
1 TAATTATTATTAATAA
*
647392 TAATTTATTATTAATATT
1 TAA-TTATTATTAATA-A
647410 TAATTATT
1 TAATTATT
647418 TGATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATTATTAATAA
Found at i:649553 original size:15 final size:16
Alignment explanation
Indices: 649533--649566 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
649523 CAAAAAAATT
649533 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
649548 TAATATAATAAACTTA
1 TAATATAATAAACTTA
649564 TAA
1 TAA
649567 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:649672 original size:15 final size:15
Alignment explanation
Indices: 649624--649674 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
649614 CTTAAACAAC
649624 TAATAAACTATTCTT
1 TAATAAACTATTCTT
**
649639 TAATATAAC--TTCAAC
1 TAATA-AACTATTC-TT
649654 TAATAAACTATTCTT
1 TAATAAACTATTCTT
649669 TAATAA
1 TAATAA
649675 TAAACGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAAACTATTCTT
Found at i:649677 original size:18 final size:18
Alignment explanation
Indices: 649624--649688 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
649614 CTTAAACAAC
649624 TAATAAACTATTCTTTAA
1 TAATAAACTATTCTTTAA
649642 T-AT-AAC--TTC---AA
1 TAATAAACTATTCTTTAA
649653 CTAATAAACTATTCTTTAA
1 -TAATAAACTATTCTTTAA
*
649672 TAATAAACGATT-TTTAA
1 TAATAAACTATTCTTTAA
649689 ATTATAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 17
0.68 0.02 0.30
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 2 0.05
14 6 0.16
16 6 0.16
17 7 0.18
18 12 0.32
19 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAAACTATTCTTTAA
Found at i:650213 original size:22 final size:22
Alignment explanation
Indices: 650188--650237 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
650178 AAAGGTGCAT
*
650188 GGAGCAGACAAGCATGCAGTGG
1 GGAGCAGACAAGCATGCAGCGG
* *
650210 GGAGCAGGCGAGCATGCAGCGG
1 GGAGCAGACAAGCATGCAGCGG
650232 GGAGCA
1 GGAGCA
650238 AGCGCAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.46, T:0.06
Consensus pattern (22 bp):
GGAGCAGACAAGCATGCAGCGG
Found at i:650342 original size:14 final size:14
Alignment explanation
Indices: 650320--650362 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
650310 CCTACCCTTG
650320 CTCGCTCGGATGCC
1 CTCGCTCGGATGCC
* *
650334 CTCGGTCGGATGGC
1 CTCGCTCGGATGCC
650348 CTCGCTCGGATGCC
1 CTCGCTCGGATGCC
650362 C
1 C
650363 AGCGTGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.40, G:0.33, T:0.21
Consensus pattern (14 bp):
CTCGCTCGGATGCC
Found at i:650450 original size:29 final size:29
Alignment explanation
Indices: 650398--650458 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
650388 TGTAATCTTT
650398 CTAGTAGCTCGCCAGGAAGCCATGGCGAC
1 CTAGTAGCTCGCCAGGAAGCCATGGCGAC
* * * *
650427 CTAGTAGGTCGCCCGGATGGCATGGCGAC
1 CTAGTAGCTCGCCAGGAAGCCATGGCGAC
650456 CTA
1 CTA
650459 AGGCCAACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (29 bp):
CTAGTAGCTCGCCAGGAAGCCATGGCGAC
Found at i:650887 original size:36 final size:35
Alignment explanation
Indices: 650847--650955 Score: 86
Period size: 36 Copynumber: 3.1 Consensus size: 35
650837 TAAAAATAAG
650847 AGAACAAAACAATCTCACATGGCTAAGAAACATAGA
1 AGAACAAAACAATCTCACATGGCTAA-AAACATAGA
* * *
650883 AGAACATCCCAAA-AGTCT-A-AAGAG-T-AAAA-ATAGG
1 AGAACA----AAACAATCTCACATG-GCTAAAAACATAGA
650917 AGAACAAAACAATCTCACATGGCTAAAAAACATAGA
1 AGAACAAAACAATCTCACATGGCT-AAAAACATAGA
650953 AGA
1 AGA
650956 CAACTGATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 24
0.65 0.07 0.28
Matches are distributed among these distances:
30 3 0.05
31 4 0.07
32 2 0.04
33 3 0.05
34 10 0.18
35 7 0.13
36 14 0.25
37 3 0.05
38 2 0.04
39 4 0.07
40 3 0.05
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (35 bp):
AGAACAAAACAATCTCACATGGCTAAAAACATAGA
Found at i:650946 original size:34 final size:34
Alignment explanation
Indices: 650838--650946 Score: 84
Period size: 34 Copynumber: 3.1 Consensus size: 34
650828 ATAGAAGAAT
*
650838 AAAAATAAGAGAACAAAACAATCTCACATGGCTA
1 AAAAATAGGAGAACAAAACAATCTCACATGGCTA
* * *
650872 AGAAACATAGAAGAACATCCCAAA-AGTCT-A-AAGAG-T-
1 A-AAA-ATAGGAGAACA----AAACAATCTCACATG-GCTA
650908 AAAAATAGGAGAACAAAACAATCTCACATGGCTA
1 AAAAATAGGAGAACAAAACAATCTCACATGGCTA
650942 AAAAA
1 AAAAA
650947 CATAGAAGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 24
0.64 0.08 0.28
Matches are distributed among these distances:
30 3 0.05
31 4 0.07
32 2 0.04
33 3 0.05
34 16 0.29
35 6 0.11
36 10 0.18
37 3 0.05
38 2 0.04
39 4 0.07
40 3 0.05
ACGTcount: A:0.56, C:0.17, G:0.14, T:0.14
Consensus pattern (34 bp):
AAAAATAGGAGAACAAAACAATCTCACATGGCTA
Found at i:655200 original size:158 final size:159
Alignment explanation
Indices: 654977--655293 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 159
654967 ATTATTATTT
654977 GAAAATACAAAAAAATATTTAAAATATGTATTAATTTAAAATTTCTAGAAAGATGTGTCACTTGT
1 GAAAATACAAAAAAATATTTAAAATATGTATTAATTTAAAATTTCTAGAAAGATGTGTCACTTGT
655042 CTCCCTTCCATGCATCTTGTATGGATACAAATTAAAAATATAATGAAGAT-AAATTTATCAAGTA
66 CTCCCTTCCATGCATCTTGTATGGATACAAATTAAAAATATAATGAAGATAAAATTTATCAAGTA
655106 GCCTCAACAGTTAAAAGGAGTATTTTTCC
131 GCCTCAACAGTTAAAAGGAGTATTTTTCC
655135 GAAAATACAAAAAAATATTTAAAATATGTATTAATTTAAAATTTCTAGAAAGATGTGTCACTTGT
1 GAAAATACAAAAAAATATTTAAAATATGTATTAATTTAAAATTTCTAGAAAGATGTGTCACTTGT
655200 CTCCCTTCCATGCATCTTGTATGGATACAAATTAAAAATATAATGAAGATAAAATTTATCAAGTA
66 CTCCCTTCCATGCATCTTGTATGGATACAAATTAAAAATATAATGAAGATAAAATTTATCAAGTA
655265 GCCTCAACAGTTAAAAGGAGTATTTTTCC
131 GCCTCAACAGTTAAAAGGAGTATTTTTCC
655294 CCATAAATTA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 115 0.73
159 43 0.27
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (159 bp):
GAAAATACAAAAAAATATTTAAAATATGTATTAATTTAAAATTTCTAGAAAGATGTGTCACTTGT
CTCCCTTCCATGCATCTTGTATGGATACAAATTAAAAATATAATGAAGATAAAATTTATCAAGTA
GCCTCAACAGTTAAAAGGAGTATTTTTCC
Found at i:656898 original size:60 final size:60
Alignment explanation
Indices: 656790--656918 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 60
656780 TAAATGTTTT
* * * * *
656790 AATTTCATCTCTAAACTATGATTATCATTTTTAATTAGTCCTTAAAC-TTTTAAACATTTC
1 AATTTCATCCCTAAACTATGACTATCATGTTAAATTAGTCC-TAAACTTTTTAAACATTCC
*
656850 AATTTCATCCCTAAACTATGACCT-TCATGTTAAATTAGTACC-AGAACTTTTTGAACATTCC
1 AATTTCATCCCTAAACTATGA-CTATCATGTTAAATTAGT-CCTA-AACTTTTTAAACATTCC
*
656911 AAATTCAT
1 AATTTCAT
656919 TCCAAATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
59 1 0.02
60 36 0.62
61 21 0.36
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (60 bp):
AATTTCATCCCTAAACTATGACTATCATGTTAAATTAGTCCTAAACTTTTTAAACATTCC
Found at i:658558 original size:60 final size:60
Alignment explanation
Indices: 658372--658559 Score: 216
Period size: 60 Copynumber: 3.1 Consensus size: 60
658362 GTATTAAATG
* * * **
658372 TCCCCAAACTATAACTTTTATTTTAAATTGATCCTTAAACTTTTGAATATTCTAATTTTG
1 TCCCCAAACTATAACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCA
** * * *
658432 TCCATAAACTATAACTCTCATTTTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCT
1 TCCCCAAACTATAACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCA
* ** * * *
658492 TTCCCAAACTATGGC-CTCTTTTTAAATTTGGTCCTTAAACTTTTGAATATTCCAGTTTCA
1 TCCCCAAACTATAACTCTCATTTTAAA-TTGGTCCTTAAACTTTTGAATATTCTAATTTCA
658552 TCCCCAAA
1 TCCCCAAA
658560 TTCATCCAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
59 10 0.09
60 96 0.91
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (60 bp):
TCCCCAAACTATAACTCTCATTTTAAATTGGTCCTTAAACTTTTGAATATTCTAATTTCA
Found at i:659469 original size:2 final size:2
Alignment explanation
Indices: 659462--659489 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
659452 TTGAGTTTAA
659462 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
659490 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:661466 original size:12 final size:12
Alignment explanation
Indices: 661449--661473 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
661439 ACAAAGCACC
661449 ATTTGGTGCCTA
1 ATTTGGTGCCTA
661461 ATTTGGTGCCTA
1 ATTTGGTGCCTA
661473 A
1 A
661474 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:679191 original size:7 final size:7
Alignment explanation
Indices: 679179--679204 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
679169 TTTATATGAT
679179 TTTAAAA
1 TTTAAAA
679186 TTTAAAA
1 TTTAAAA
679193 TTTAAAA
1 TTTAAAA
679200 TTTAA
1 TTTAA
679205 TCTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:679871 original size:2 final size:2
Alignment explanation
Indices: 679864--679942 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
679854 TTGATTGAAT
679864 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
679906 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
679943 GTTCATAAGG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:680423 original size:21 final size:20
Alignment explanation
Indices: 680396--680493 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
680386 AATCAGTGTC
680396 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
680417 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
680437 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
680457 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
680478 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
680494 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:680446 original size:41 final size:41
Alignment explanation
Indices: 680337--680493 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
680327 AAATGACCAA
* **
680337 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
680376 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
680417 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
680458 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
680494 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:680503 original size:20 final size:20
Alignment explanation
Indices: 680480--680650 Score: 98
Period size: 20 Copynumber: 8.6 Consensus size: 20
680470 GCGAATATGA
680480 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
680500 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
680520 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
680540 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
680560 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
680580 AAAGCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
680600 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
680620 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
680640 AAATCGCAACG
1 AAATCGCAACG
680651 AGAATCTGTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.02
20 125 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:680545 original size:60 final size:58
Alignment explanation
Indices: 680460--680669 Score: 199
Period size: 60 Copynumber: 3.5 Consensus size: 58
680450 CGATTTTCCA
* ** * *
680460 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
680520 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* * *
680580 AAAGCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
680640 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
680670 ACTGAAATTT
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 118 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:680651 original size:20 final size:20
Alignment explanation
Indices: 680514--680669 Score: 165
Period size: 20 Copynumber: 7.8 Consensus size: 20
680504 CGCAATGCGT
*
680514 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
680534 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
680554 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
*
680574 ATCCGTAAAGCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
680594 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
680614 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
680634 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
680654 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
680670 ACTGAAATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
19 1 0.01
20 117 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:680651 original size:40 final size:40
Alignment explanation
Indices: 680480--680669 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 40
680470 GCGAATATGA
* *
680480 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
680520 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * * *
680560 ATATCGCAACGCGTATCCGTAAAGCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
680600 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
680640 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
680670 ACTGAAATTT
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 127 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:681396 original size:24 final size:24
Alignment explanation
Indices: 681352--681398 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
681342 AAATTTGGTC
*
681352 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGAACTTTGATA
*
681376 TTGGTCAATA-CACGAATTTTGAT
1 TTGGTCAATATC-CGAACTTTGAT
681399 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGAACTTTGATA
Found at i:683926 original size:33 final size:34
Alignment explanation
Indices: 683878--684205 Score: 270
Period size: 33 Copynumber: 9.5 Consensus size: 34
683868 CGGAAATTAC
* * *
683878 AATCGCAACGTGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
* *
683911 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
683944 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
683982 AATCGCAA--CGACA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* * *
684015 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
*
684048 AATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
684086 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
684124 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* *
684157 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
684190 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
684206 TATAAACGCA
Statistics
Matches: 256, Mismatches: 18, Indels: 42
0.81 0.06 0.13
Matches are distributed among these distances:
33 153 0.60
34 3 0.01
35 13 0.05
36 13 0.05
37 2 0.01
38 72 0.28
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACAATGAA
Found at i:683928 original size:19 final size:19
Alignment explanation
Indices: 683906--684183 Score: 380
Period size: 19 Copynumber: 15.7 Consensus size: 19
683896 AAATCCCAAC
683906 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
683925 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
683940 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
683958 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
683977 ATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
683994 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684010 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
684029 ATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
684046 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
684062 ATGAAACTCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684081 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684100 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684119 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
684136 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684152 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
684171 ATGAAAATCGCAA
1 ATGAAAATCGCAA
684184 CGAGAGAATC
Statistics
Matches: 231, Mismatches: 8, Indels: 40
0.83 0.03 0.14
Matches are distributed among these distances:
14 34 0.15
15 1 0.00
16 18 0.08
17 18 0.08
18 1 0.00
19 159 0.69
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:683938 original size:52 final size:52
Alignment explanation
Indices: 683906--684183 Score: 386
Period size: 52 Copynumber: 5.2 Consensus size: 52
683896 AAATCCCAAC
683906 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
683958 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
684010 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
684062 ATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
684119 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
684171 ATGAAAATCGCAA
1 ATGAAAATCGCAA
684184 CGAGAGAATC
Statistics
Matches: 216, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
52 180 0.83
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.12
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:684019 original size:71 final size:71
Alignment explanation
Indices: 683944--684183 Score: 382
Period size: 71 Copynumber: 3.4 Consensus size: 71
683934 GCAACGAGAG
*
683944 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
684009 AATGAA
66 AATGAA
*
684015 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATGAAACTCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-AA-TCGCAA
684075 TGCGAAATGAA
61 TGCGAAATGAA
684086 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
684151 AATGAA
66 AATGAA
684157 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
684184 CGAGAGAATC
Statistics
Matches: 156, Mismatches: 3, Indels: 20
0.87 0.02 0.11
Matches are distributed among these distances:
66 8 0.05
68 5 0.03
69 5 0.03
70 2 0.01
71 115 0.74
72 2 0.01
73 5 0.03
74 6 0.04
76 8 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:684321 original size:19 final size:19
Alignment explanation
Indices: 684212--684313 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
684202 AAATTATAAA
684212 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
684231 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
684251 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
684267 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
684284 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
684303 CGCATTGCGAT
1 CGCATTGCGAT
684314 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:684439 original size:14 final size:14
Alignment explanation
Indices: 684420--684456 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
684410 CATCAATTAC
684420 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
684434 ACAAATCATCTTTT
1 ACAAATCAACTTTT
684448 ACAAATCAA
1 ACAAATCAA
684457 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:685782 original size:14 final size:14
Alignment explanation
Indices: 685763--685819 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
685753 GCGAAATGAA
*
685763 AATCGCAACGACAG
1 AATCGCAACGAAAG
685777 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
685794 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
685810 AATCGCAACG
1 AATCGCAACG
685820 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:685790 original size:33 final size:33
Alignment explanation
Indices: 685744--685836 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
685734 GCGAAACCAA
*
685744 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
685777 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
685810 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
685837 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:685801 original size:19 final size:19
Alignment explanation
Indices: 685707--685841 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
685697 TAGTTTACTT
* *
685707 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
685727 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
685746 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
685765 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
685779 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
685798 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
685812 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
685831 TCGCAATGCGA
1 TCGCAACGCGA
685842 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:685859 original size:19 final size:19
Alignment explanation
Indices: 685837--685949 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
685827 AAAATCGCAA
685837 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
685856 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
685870 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
685889 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
685903 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
685922 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
685941 TGCGATTTT
1 TGCGATTTT
685950 AACTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:685879 original size:33 final size:33
Alignment explanation
Indices: 685837--685928 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
685827 AAAATCGCAA
685837 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
685870 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
685903 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
685929 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:685962 original size:20 final size:18
Alignment explanation
Indices: 685867--685965 Score: 80
Period size: 19 Copynumber: 5.4 Consensus size: 18
685857 GCGATCTTGT
*
685867 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
* *
685886 CGTTGCGA--TTCTGT--
1 CGTTGCGATTTTATTTCG
685900 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-ATTTCG
*
685919 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
685938 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTT-A-TTTCG
*
685958 TGTTGCGA
1 CGTTGCGA
685966 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 8 0.12
16 4 0.06
17 4 0.06
19 37 0.57
20 12 0.18
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTATTTCG
Found at i:686129 original size:93 final size:93
Alignment explanation
Indices: 686013--686481 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
686003 ATGGATTGCA
*
686013 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
686077 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686105 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
686170 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686198 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
686263 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686291 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
686356 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686384 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
686449 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686477 TTACT
1 TTACT
686482 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 370 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:688205 original size:14 final size:14
Alignment explanation
Indices: 688186--688275 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
688176 TTGAAATGAA
688186 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
688200 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
*
688219 AATCGCAACGATAG
1 AATCGCAACGAGAG
* *
688233 AATAGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
688252 AATCGCAACGAGAG
1 AATCGCAACGAGAG
688266 AATCGCAACG
1 AATCGCAACG
688276 CGAAATAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
14 28 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 18 0.31
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:688223 original size:33 final size:33
Alignment explanation
Indices: 688178--688290 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
688168 TCTTTTGGTT
688178 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
688211 GAAATGACAATCGCAACGATAGAATAGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
688244 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
688277 GAAATAAAAATCGC
1 GAAATGAAAATCGC
688291 TATGCGATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:688224 original size:19 final size:19
Alignment explanation
Indices: 688200--688290 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 19
688190 GCAACGAGAG
*
688200 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
688219 AATCGCAA--CG--AT-AG
1 AATCGCAACGCGAAATGAA
*
688233 AATAGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
688252 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
688266 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
688285 AATCGC
1 AATCGC
688291 TATGCGATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 18 0.33
15 3 0.05
16 4 0.07
17 4 0.07
18 3 0.05
19 23 0.42
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:688326 original size:19 final size:19
Alignment explanation
Indices: 688293--688397 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
688283 AAAATCGCTA
**
688293 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
688312 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
688331 TGCGA--TT-A--TCTCGT
1 TGCGATTTTCATTTCGCGT
*
688345 TGCGATTGTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*** *
688364 TGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATT-TCGCGT
688384 TGCGATTTTCATTT
1 TGCGATTTTCATTT
688398 ATCTCGTTGC
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
14 10 0.14
16 2 0.03
17 3 0.04
19 39 0.57
20 15 0.22
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:688531 original size:33 final size:33
Alignment explanation
Indices: 688489--688559 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
688479 AATACTAACT
688489 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
688522 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
688555 TGAAA
1 TGAAA
688560 TCTAAGTGAA
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:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:688793 original size:22 final size:22
Alignment explanation
Indices: 688741--688794 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
688731 TGGTTGTGAG
**
688741 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
688763 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
688785 GGATTTCTTC
1 GGATTTCTTC
688795 ACCGTAGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:688967 original size:20 final size:20
Alignment explanation
Indices: 688942--689135 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
688932 CTTTAAATAT
688942 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
688962 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
688984 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
689003 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
689023 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
689043 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
689063 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
689083 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
689103 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
689123 CGCGTTGCGATTT
1 CGCGTTGCGATTT
689136 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:689129 original size:60 final size:60
Alignment explanation
Indices: 688942--689135 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
688932 CTTTAAATAT
* ** *
688942 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * *
689003 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
689063 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
689123 CGCGTTGCGATTT
1 CGCGTTGCGATTT
689136 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:689152 original size:21 final size:20
Alignment explanation
Indices: 689102--689199 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
689092 ATTTATGTGT
* * * *
689102 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
689122 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
689143 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
689163 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
689184 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
689200 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:689194 original size:41 final size:41
Alignment explanation
Indices: 689102--689199 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
689092 ATTTATGTGT
* * *
689102 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
689143 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
689184 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
689200 GAAACTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:690518 original size:2 final size:2
Alignment explanation
Indices: 690511--690551 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
690501 GATCCTAAAC
690511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
690552 GGATATGATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:692493 original size:37 final size:38
Alignment explanation
Indices: 692434--692826 Score: 276
Period size: 39 Copynumber: 10.1 Consensus size: 38
692424 CAAATATAGT
** **
692434 TTTTTGAAAGTATATAGA-ATAT-GTTTTTAAAAATGTA
1 TTTTTGAAAACATATA-ATATATAGTTTTTAAAAACATA
* * * *
692471 TTTTTGAAAACGTATAATATAT-GGTTTTCAAAACAAA
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAACATA
* * *
692508 ATTTGGAAAACATATAATATATAGTTTTTAAAAAATATA
1 TTTTTGAAAACATATAATATATAGTTTTT-AAAAACATA
* *
692547 TTTTTGAAAACGTATAATATATAGTATTTTAGAAAACACA
1 TTTTTGAAAACATATAATATATAGT-TTTTA-AAAACATA
* ** *
692587 TTTTTTGAAAACATATATTATATAGTTTCGAAAAACAATT
1 -TTTTTGAAAACATATAATATATAGTTTTTAAAAAC-ATA
* * *** *
692627 TTTTTGAAAACATATATTATATAGCTGCGAAAAACATTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAACA-TA
* * *
692666 TTTTTGAAAACTTATATTATATAGTTTTAAAAAACA-A
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAACATA
** *
692703 TTTTTGAAAACATATATATTATATAG-TTTCGAAAATA-A
1 TTTTTGAAAACATATA-A-TATATAGTTTTTAAAAACATA
* * * *
692741 TTTTTGAAATCATATTAAATATATAGTTTTAAAAAATGATT
1 TTTTTGAAAACATA-T-AATATATAGTTTTTAAAAA-CATA
* * * * *
692782 TTTTTGGAAACCTATATAATATATAATTTTTGAAGACATG
1 TTTTT-GAAAAC-ATATAATATATAGTTTTTAAAAACATA
692822 TTTTT
1 TTTTT
692827 AGTTTTTATT
Statistics
Matches: 288, Mismatches: 51, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.00
37 61 0.21
38 35 0.12
39 116 0.40
40 23 0.08
41 43 0.15
42 6 0.02
43 3 0.01
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (38 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAACATA
Found at i:692869 original size:11 final size:10
Alignment explanation
Indices: 692848--692887 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
692838 TATATTAATA
692848 TTATTTATTT
1 TTATTTATTT
692858 TTATTCTATTT
1 TTATT-TATTT
*
692869 TTA-TTAATT
1 TTATTTATTT
692878 TTATTTATTT
1 TTATTTATTT
692888 ATTTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 7 0.27
10 11 0.42
11 8 0.31
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTATTT
Found at i:692900 original size:30 final size:30
Alignment explanation
Indices: 692840--692898 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
692830 TTTTATTATA
*
692840 TATTAATATTATTTATTTTTATTCTATTTT
1 TATTAATATTATTTATTTATATTCTATTTT
*
692870 TATTAATTTTATTTATTTAT-TTC-ATTTT
1 TATTAATATTATTTATTTATATTCTATTTT
692898 T
1 T
692899 TTCAGGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 6 0.22
29 3 0.11
30 18 0.67
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (30 bp):
TATTAATATTATTTATTTATATTCTATTTT
Found at i:693718 original size:24 final size:25
Alignment explanation
Indices: 693655--693719 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
693645 ATTTAAACCA
* **
693655 TTTTAATTTAA-AATTTTCTTTTAC
1 TTTTATTTTAATAATTTAATTTTAC
**
693679 TTTATATTTTCTTAATTTAATTTT-C
1 TTT-TATTTTAATAATTTAATTTTAC
693704 TTTTATTTTAATAATT
1 TTTTATTTTAATAATT
693720 AAAACTGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 14 0.44
25 9 0.28
26 9 0.28
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTATTTTAATAATTTAATTTTAC
Found at i:701581 original size:19 final size:19
Alignment explanation
Indices: 701532--701583 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
701522 AATATTTTAA
701532 AATAATTAAACTA-ATTTTT
1 AATAATTAAA-TATATTTTT
* *
701551 AATACTAAAATATATTTTT
1 AATAATTAAATATATTTTT
*
701570 AATAATTTAATATA
1 AATAATTAAATATA
701584 ATGACAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTAAATATATTTTT
Found at i:702332 original size:20 final size:20
Alignment explanation
Indices: 702296--702333 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
702286 ATCCTATTCC
**
702296 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
702316 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
702334 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:702990 original size:17 final size:18
Alignment explanation
Indices: 702970--703003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
702960 AATTTTTAAA
702970 AAATAT-AATTAAAAAAT
1 AAATATAAATTAAAAAAT
*
702987 AAATTTAAATTAAAAAA
1 AAATATAAATTAAAAAA
703004 CACGTGTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATAAATTAAAAAAT
Found at i:702994 original size:13 final size:14
Alignment explanation
Indices: 702964--702995 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
702954 TAAATAAATT
702964 TTTAAAAAATATAA
1 TTTAAAAAATATAA
702978 -TTAAAAAATA-AA
1 TTTAAAAAATATAA
702990 TTTAAA
1 TTTAAA
702996 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TTTAAAAAATATAA
Found at i:707093 original size:12 final size:12
Alignment explanation
Indices: 707064--707138 Score: 66
Period size: 12 Copynumber: 6.3 Consensus size: 12
707054 AATTATTAAC
707064 ATATTTAA-AAT
1 ATATTTAATAAT
*
707075 ATATTTATTAAT
1 ATATTTAATAAT
*
707087 ATTTTTAATAAT
1 ATATTTAATAAT
*
707099 ATAATATAATAAT
1 AT-ATTTAATAAT
* *
707112 ATACTCAAT--T
1 ATATTTAATAAT
707122 ATATTATAATAAT
1 ATATT-TAATAAT
707135 ATAT
1 ATAT
707139 GATACTATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
10 5 0.10
11 10 0.20
12 19 0.39
13 15 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:707093 original size:23 final size:23
Alignment explanation
Indices: 707046--707103 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
707036 CATTTTAATA
707046 AAAATATTAATTATTAACATATTT
1 AAAATA-TAATTATTAACATATTT
* * *
707070 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAACATATTT
707093 AATAATATAAT
1 AA-AATATAAT
707104 ATAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATATAATTATTAACATATTT
Found at i:707492 original size:21 final size:19
Alignment explanation
Indices: 707447--707483 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
707437 ACTATCGCAA
707447 TGCGATAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
*
707466 TGCGATAGTCGAAGTTCG
1 TGCGATAGTCCAAGTTCG
707484 CGTTGCGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
TGCGATAGTCCAAGTTCGT
Found at i:711181 original size:2 final size:2
Alignment explanation
Indices: 711133--711169 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
711123 AAATAAATAA
711133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
711170 TGATAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:711856 original size:60 final size:60
Alignment explanation
Indices: 711758--711874 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
711748 TTAATCGGGT
* * * * *
711758 GACTATTTTATAACTTATAATAGTCGGATGACTTAATAAAGTAATA-CTTTATAATCGATA
1 GACTATTTTATAACTTATAATAATCGAAAGACTTAATAAAATAACATC-TTATAATCGATA
* *
711818 GACTATTTTATAACTTTTAATAATTGAAAGA-TTCAATAAAATAACATCTTATAATCG
1 GACTATTTTATAACTTATAATAATCGAAAGACTT-AATAAAATAACATCTTATAATCG
711875 GAAATTATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 45 0.94
61 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (60 bp):
GACTATTTTATAACTTATAATAATCGAAAGACTTAATAAAATAACATCTTATAATCGATA
Found at i:732143 original size:22 final size:22
Alignment explanation
Indices: 732118--732162 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
732108 AGTTATTGAG
* *
732118 TCCGTTGCTGAGTTGCTCATGT
1 TCCGTTGCTAAGTTACTCATGT
732140 TCCGTTGCTAAGTTACTCATGT
1 TCCGTTGCTAAGTTACTCATGT
732162 T
1 T
732163 ATAAATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (22 bp):
TCCGTTGCTAAGTTACTCATGT
Found at i:735092 original size:15 final size:16
Alignment explanation
Indices: 735055--735094 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
735045 TTCATACAGA
*
735055 GAATCATTCAACATTT
1 GAATCATTCAACACTT
*
735071 GAATCATTCAACGCTT
1 GAATCATTCAACACTT
735087 -AATCATTC
1 GAATCATTC
735095 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (16 bp):
GAATCATTCAACACTT
Found at i:737815 original size:3 final size:3
Alignment explanation
Indices: 737807--737841 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
737797 AATTAAGGAT
737807 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
737842 ACCTTTGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:740014 original size:3 final size:3
Alignment explanation
Indices: 740006--740035 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
739996 ATTATAAGTA
740006 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
740036 TCACGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:741856 original size:2 final size:2
Alignment explanation
Indices: 741849--741877 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
741839 CAACAATACC
741849 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
741878 CTCAAAACTA
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:743151 original size:58 final size:58
Alignment explanation
Indices: 743079--743192 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 58
743069 CTTCTTCTCC
*
743079 ATTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGCAGCTACACCCCACCATCA
1 ATTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCATCA
* * * *
743137 ATTCTTCTTCTCTCTTACCTTTCCGCTTAAAAACCAGGGAAGCTACATCCCACCAT
1 ATTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCAT
743193 GAATAAAGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.27, C:0.34, G:0.08, T:0.31
Consensus pattern (58 bp):
ATTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCATCA
Found at i:744807 original size:31 final size:31
Alignment explanation
Indices: 744769--744851 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
744759 GTTAGCGGTA
744769 AGTGACTAATTTATTATAAATTAATAACATT
1 AGTGACTAATTTATTATAAATTAATAACATT
* * *
744800 AGTGACTAATTTGTTATAAATTGATAACGTT
1 AGTGACTAATTTATTATAAATTAATAACATT
* *
744831 ATTGA-TCAATTTATTACAAAT
1 AGTGACT-AATTTATTATAAAT
744852 CAAAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.02
31 44 0.98
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTGACTAATTTATTATAAATTAATAACATT
Found at i:746251 original size:35 final size:35
Alignment explanation
Indices: 746186--746255 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
746176 AACATCTACC
746186 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
*
746221 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
746256 TTGGTTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:750726 original size:35 final size:35
Alignment explanation
Indices: 750661--750730 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
750651 AACATCTACC
750661 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
*
750696 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
750731 TTGGTTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:753219 original size:18 final size:18
Alignment explanation
Indices: 753193--753233 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
753183 CCTCTTGAAA
*
753193 ATTTAAATTTTTTCATAT
1 ATTTTAATTTTTTCATAT
* *
753211 ATTTTAATTTTTTTATGT
1 ATTTTAATTTTTTCATAT
753229 ATTTT
1 ATTTT
753234 CTATTGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTAATTTTTTCATAT
Found at i:753222 original size:19 final size:18
Alignment explanation
Indices: 753194--753233 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
753184 CTCTTGAAAA
753194 TTTAAATTTTTTCATATAT
1 TTTAAATTTTTT-ATATAT
* *
753213 TTTAATTTTTTTATGTAT
1 TTTAAATTTTTTATATAT
753231 TTT
1 TTT
753234 CTATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTAAATTTTTTATATAT
Found at i:753878 original size:2 final size:2
Alignment explanation
Indices: 753871--753907 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
753861 TCATCAATTG
753871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
753908 TTCATATCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:755461 original size:28 final size:29
Alignment explanation
Indices: 755412--755474 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
755402 AAGGATTTCC
*
755412 AAATAATGAACAGTTACTTTTTTAAAAA-
1 AAATAATGAACAGTTACTTTTTCAAAAAT
*
755440 AAATAATGAACAGTT-TTCTTTTCAAAAAT
1 AAATAATGAACAGTTACT-TTTTCAAAAAT
755469 AAATAA
1 AAATAA
755475 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.77
29 6 0.19
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (29 bp):
AAATAATGAACAGTTACTTTTTCAAAAAT
Found at i:759463 original size:67 final size:67
Alignment explanation
Indices: 759355--759486 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
759345 TTCATACCCC
* *
759355 TCTACTTCTCTTTATCCAAACATACCAGTCACTAGCATCAACTTATTGACTTAGGTGCTGCACTG
1 TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
759420 CT
66 CT
* *
759422 TCTACTTCTCTTTATCCAAGCATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTTCACTG
1 TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
759487 GTAGCTCTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (67 bp):
TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
CT
Found at i:761468 original size:14 final size:14
Alignment explanation
Indices: 761446--761497 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
761436 AAAAACTAAT
*
761446 AAATCGAACCGAAA
1 AAATTGAACCGAAA
761460 AAATTGAACCGTTAAAA
1 AAATTGAACCG---AAA
*
761477 AAACTGAACCGAAA
1 AAATTGAACCGAAA
761491 AAATTGA
1 AAATTGA
761498 TTTCACATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 19 0.59
17 13 0.41
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (14 bp):
AAATTGAACCGAAA
Found at i:770422 original size:20 final size:20
Alignment explanation
Indices: 770394--770431 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
770384 GAGCTCATAC
*
770394 AGGATCATATAGATGCATTT
1 AGGAGCATATAGATGCATTT
*
770414 AGGAGCATATAGTTGCAT
1 AGGAGCATATAGATGCAT
770432 GTGGTGAAAT
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (20 bp):
AGGAGCATATAGATGCATTT
Found at i:778775 original size:20 final size:20
Alignment explanation
Indices: 778747--778784 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
778737 GAGCTCATAC
*
778747 AGGATCATATAGATGCATTT
1 AGGAGCATATAGATGCATTT
*
778767 AGGAGCATATAGTTGCAT
1 AGGAGCATATAGATGCAT
778785 GTGGTGAAAT
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (20 bp):
AGGAGCATATAGATGCATTT
Found at i:780811 original size:22 final size:21
Alignment explanation
Indices: 780765--780825 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
780755 GGGTCTATGC
* *
780765 GGTCATTCGGGACATATATAGA
1 GGTCATTC-GGACAAATACAGA
*
780787 GGTCATTCGAGACAAATACATA
1 GGTCATTCG-GACAAATACAGA
*
780809 GGTCCTTCTGGACAAAT
1 GGTCATTC-GGACAAAT
780826 TTCATATGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (21 bp):
GGTCATTCGGACAAATACAGA
Found at i:785371 original size:22 final size:22
Alignment explanation
Indices: 785343--785403 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
785333 GGGTTTACGC
*
785343 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACAAATACAGA
*
785365 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACAGA
* *
785387 TGTCCTTCTGGACAAAT
1 GGTCCTTCGGGACAAAT
785404 TTTACATGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:794624 original size:115 final size:115
Alignment explanation
Indices: 794429--794758 Score: 513
Period size: 115 Copynumber: 2.9 Consensus size: 115
794419 TTTGATTCCT
*
794429 TGAATTAGGGCAGACTTGTTCCACTTACTCT-AAAGGCAATATCAAATCTTGGGAAAGAGAGACA
1 TGAATTAGGGCAGACTTGTTCCACTTACTCTGAAAGG-AATATCAAATCTTAGGAAAGAGAGACA
*
794493 TGTTCCGCTTACTCTGAAGGGAATATCAGATCTT-AGAGGAGTTTGA-TCCAC
65 TGTTCCGCTTACTCTGAAGGGAATATCAGATCTTGA-AGGAGTTCGACTCC-C
* *
794544 TGAATTGGGGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTAGGAAAGAGAGACCT
1 TGAATTAGGGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTAGGAAAGAGAGACAT
* *
794609 GTTCCGCTTATTCTGAAGGGAATATCAGATCTTGAAGGAGTTCGACTCCT
66 GTTCCGCTTACTCTGAAGGGAATATCAGATCTTGAAGGAGTTCGACTCCC
* * * *
794659 TAAATCAGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGGAAAGAGAGACTT
1 TGAATTAGGGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTAGGAAAGAGAGACAT
*
794724 GTTCCGCTTACTATGAAGGGAATATCAGATCTTGA
66 GTTCCGCTTACTCTGAAGGGAATATCAGATCTTGA
794759 GAAAGAGATG
Statistics
Matches: 199, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
115 190 0.95
116 9 0.05
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (115 bp):
TGAATTAGGGCAGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTTAGGAAAGAGAGACAT
GTTCCGCTTACTCTGAAGGGAATATCAGATCTTGAAGGAGTTCGACTCCC
Found at i:794725 original size:48 final size:49
Alignment explanation
Indices: 794670--794810 Score: 198
Period size: 48 Copynumber: 2.9 Consensus size: 49
794660 AAATCAGGGC
* *
794670 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAG-GAAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAGATCTTAGAGAAAGAG
*
794718 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTT-GAGAAAGAG
1 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAGATCTTAGAGAAAGAG
* * *
794766 ATG-CCTATTCCGCTTACTCTGAAGGGAATATCAGATCTTACAGAA
1 A-GACTTGTTCCGCTTACTCTGAAGGGAATATCAGATCTTAGAGAA
794811 GTTTGATCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
47 1 0.01
48 77 0.93
49 5 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (49 bp):
AGACTTGTTCCGCTTACTCTGAAGGGAATATCAGATCTTAGAGAAAGAG
Found at i:794779 original size:163 final size:164
Alignment explanation
Indices: 794555--794925 Score: 536
Period size: 163 Copynumber: 2.3 Consensus size: 164
794545 GAATTGGGGC
* * * * *
794555 AGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTT-AGGAAAGAGAGACCTGTTCCGCTTA
1 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTTGAGGAAAGAGAGACCTATTCCGCTTA
* * * *
794619 TTCTGAAGGGAATATCAGATCTTGA-AGGAGTTCGACTCC-TTAAATCAGGGCAGACTTGTTCCA
66 CTCTGAAGGGAATATCAGATCTT-ACAGAAGTTCGA-TCCACTAAATCAGGGCAAACTTGTTCCA
794682 CTTACTCTGAAGGGAATATCAAATCTTAGGAAAGAG
129 CTTACTCTGAAGGGAATATCAAATCTTAGGAAAGAG
794718 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTTGA-GAAAGAGATG-CCTATTCCGCTT
1 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTTGAGGAAAGAGA-GACCTATTCCGCTT
* * **
794781 ACTCTGAAGGGAATATCAGATCTTACAGAAGTTTGATCCACTGAATGGGGGCAAACTTGTTCCAC
65 ACTCTGAAGGGAATATCAGATCTTACAGAAGTTCGATCCACTAAATCAGGGCAAACTTGTTCCAC
*
794846 TTACTCTGAAGGGAATATCAAATCTTGGGAAAGAG
130 TTACTCTGAAGGGAATATCAAATCTTAGGAAAGAG
*
794881 AGACATGTTCCGCTTACTATGAAGGGAATATCAGATCTTGGAGGA
1 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTT-GAGGA
794926 GTTTGATCCA
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
162 4 0.02
163 177 0.95
164 4 0.02
165 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (164 bp):
AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTTGAGGAAAGAGAGACCTATTCCGCTTA
CTCTGAAGGGAATATCAGATCTTACAGAAGTTCGATCCACTAAATCAGGGCAAACTTGTTCCACT
TACTCTGAAGGGAATATCAAATCTTAGGAAAGAG
Found at i:795006 original size:116 final size:115
Alignment explanation
Indices: 794718--795077 Score: 562
Period size: 116 Copynumber: 3.1 Consensus size: 115
794708 TAGGAAAGAG
* * * * *
794718 AGACTTGTTCCGCTTACTATGAAGGGAATATCAGATCTTGAGAAAGAGATG-CCTATTCCGCTTA
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGA-GACCTGTTCCGCTTA
* ** *
794782 CTCTGAAGGGAATATCAGATCTTACAGAAGTTTGATCCACTGAATGGGGGC
65 CTATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAATGGGGGC
* *
794833 AAACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACATGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCTTAC
794898 TATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAATGGGGGAC
66 TATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAATGGGGG-C
* *
794949 AGACTTGTTTCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCACTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCTTAC
795014 TATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAAT-GGGGC
66 TATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAATGGGGGC
*
795063 AGACTTATTCCACTT
1 AGACTTGTTCCACTT
795078 GTCTTTAAGA
Statistics
Matches: 226, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
114 15 0.07
115 105 0.46
116 106 0.47
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (115 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGACCTGTTCCGCTTAC
TATGAAGGGAATATCAGATCTTGGAGGAGTTTGATCCACTGAATGGGGGC
Found at i:796193 original size:45 final size:45
Alignment explanation
Indices: 796126--796211 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
796116 TATACAATTC
* * **
796126 TCAAGCCGCCCTTTACGGGTTTTCAACTTGAGGCCTCATTTGGTT
1 TCAAGACGCCCTTTACGAGTTTTCAACTTGAACCCTCATTTGGTT
* *
796171 TCAAGACGCTCTTTACGAGTTTTCATCTTGAACCCTCATTT
1 TCAAGACGCCCTTTACGAGTTTTCAACTTGAACCCTCATTT
796212 TTATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (45 bp):
TCAAGACGCCCTTTACGAGTTTTCAACTTGAACCCTCATTTGGTT
Found at i:802741 original size:21 final size:21
Alignment explanation
Indices: 802715--802761 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
802705 TAGCTATTTG
802715 GCGTCAATTCCATATAGGCTA
1 GCGTCAATTCCATATAGGCTA
802736 GCGTCAATTCCATATAGGCTA
1 GCGTCAATTCCATATAGGCTA
802757 GCGTC
1 GCGTC
802762 TTCTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (21 bp):
GCGTCAATTCCATATAGGCTA
Found at i:807305 original size:29 final size:26
Alignment explanation
Indices: 807249--807336 Score: 92
Period size: 26 Copynumber: 3.5 Consensus size: 26
807239 GTTGGCAGCA
*
807249 GTGGTGGCTGTTGAGTGGTCCAAGCG
1 GTGGTGGCTGTTAAGTGGTCCAAGCG
*
807275 GTGGTGGTTGTTAAGTGGTCCAAGCG
1 GTGGTGGCTGTTAAGTGGTCCAAGCG
** *
807301 ACGGTGGCATG---AGTGGTCCAAGTG
1 GTGGTGGC-TGTTAAGTGGTCCAAGCG
*
807325 GTGGTGGATGTT
1 GTGGTGGCTGTT
807337 CTAGAAACCC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
23 2 0.04
24 17 0.34
26 29 0.58
27 2 0.04
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.28
Consensus pattern (26 bp):
GTGGTGGCTGTTAAGTGGTCCAAGCG
Found at i:807589 original size:23 final size:24
Alignment explanation
Indices: 807555--807614 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
807545 ATTATTATTT
*
807555 TTAATATTATTAATAATAAT-ATA
1 TTAATATAATTAATAATAATAATA
*
807578 TTAATATAATT-ATAATTATAATA
1 TTAATATAATTAATAATAATAATA
* *
807601 ATAATATAAATAAT
1 TTAATATAATTAAT
807615 GATGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 7 0.23
23 22 0.71
24 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAATATAATTAATAATAATAATA
Found at i:823132 original size:2 final size:2
Alignment explanation
Indices: 823125--823156 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
823115 CTCTTAAGAA
823125 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
823157 GTGTCAAAGC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:825034 original size:29 final size:29
Alignment explanation
Indices: 824988--825044 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
824978 ATTCATTTAT
* **
824988 TCTTTTATTCAATTGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
825017 TCTTTTACTCAACAGTGTTTAACCGTTC
1 TCTTTTACTCAACAGTGTTTAACCGTTC
825045 CTCTAACTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:825159 original size:81 final size:81
Alignment explanation
Indices: 825017--825822 Score: 1117
Period size: 81 Copynumber: 9.9 Consensus size: 81
825007 TAACCGTTCA
* ** * *
825017 TCTTTTACTCAACAGTGTTTAACCGTTCCTCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
825082 ACAACTAGGCCATTAT
66 ACAGCTAGGCTATTAT
* * * * *
825098 TCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGTATAATTGACATCTTTATATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
825163 ACGGCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* *
825179 TCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
825244 ACAGTTAGACTATTAT
66 ACAGCTAGGCTATTAT
* * *
825260 TCTTTTACTCAACGGTACTTAACCATTCATCTAATTGGAATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
825325 ACAGCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* * *
825341 TCTTTTACTCAACGGTACTTAATCGATCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
825406 ACAACTAGGCTATTAT
66 ACAGCTAGGCTATTAT
** * * ** * * *
825422 TCTTTTACTCAGTGGTACTTAACCATTCATCTAACTGGCATAATTGATAGTTTTTTTTATCAATT
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA--CCTTTCTGTCAAAT
*
825487 ACACAGCTAGGCTATTAT
64 GCACAGCTAGGCTATTAT
* *
825505 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
825570 ACAACTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* * * ** * *
825586 TCTTTTACTCAACGGTACTTAACTGTTCATCTAACTGGTATAATTGATATATTTATGTCAAATAC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
825651 ACATCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
* * *
825667 TATTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
825732 ACAGCTAGGCTATTAT
66 ACAGCTAGGCTATTAT
** * *
825748 TCTTTTACTCAACATTACTTAACCGTTCATCTAACTAGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
825813 ACAGTTAGGC
66 ACAGCTAGGC
825823 CTCAAAGGCA
Statistics
Matches: 642, Mismatches: 81, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 571 0.89
83 71 0.11
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCTATTAT
Found at i:825617 original size:326 final size:323
Alignment explanation
Indices: 825017--825822 Score: 1144
Period size: 326 Copynumber: 2.5 Consensus size: 323
825007 TAACCGTTCA
* ** * * * *
825017 TCTTTTACTCAACAGTGTTTAACCGTTCCTCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAA-CGATCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * *
825082 ACAACTAGGCCATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGTATAATTGACA
65 ACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA
* * * *
825147 TCTTTATATCAAATGCACGGCTAGGCTATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTA
130 TCTTTATATCAAATACACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAACCATTCATCTA
* **
825212 ACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGACTATTATTCTTTTACTCAACGGTA
195 ACTGGCATAATTGACACATTTCTATCAAATGCACAACTAGACTATTATTCTTTTACTCAACGGTA
* * * *
825277 CTTAACCATTCATCTAATTGGAATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCTATTAT
260 CTTAACCATTCATCTAACTGGAATAATTGACACATTTATGTCAAATACACAGCTAGGCTATTAT
825341 TCTTTTACTCAACGGTACTTAATCGATCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAA-CGATCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
** * *
825406 ACAACTAGGCTATTATTCTTTTACTCAGTGGTACTTAACCATTCATCTAACTGGCATAATTGATA
65 ACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA
* * *
825471 GTTTTTTTTATCAATTACACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAACCATTCATC
130 --TCTTTATATCAAATACACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAACCATTCATC
* *
825536 TAACTGGCATAATTGACACATTTCTGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAACGG
193 TAACTGGCATAATTGACACATTTCTATCAAATGCACAACTAGACTATTATTCTTTTACTCAACGG
** * * * *
825601 TACTTAACTGTTCATCTAACTGGTATAATTGATATATTTATGTCAAATACACATCTAGGCTATTA
258 TACTTAACCATTCATCTAACTGGAATAATTGACACATTTATGTCAAATACACAGCTAGGCTATTA
825666 T
323 T
* *
825667 TATTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACGA-TCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* ** *
825732 ACAGCTAGGCTATTATTCTTTTACTCAACATTACTTAACCGTTCATCTAACTAGCATAATTGACA
65 ACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA
* * * * *
825797 CCTTTTTGTCAAATGCACAGTTAGGC
130 TCTTTATATCAAATACACAGCTAGGC
825823 CTCAAAGGCA
Statistics
Matches: 426, Mismatches: 53, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
324 135 0.32
325 2 0.00
326 289 0.68
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (323 bp):
TCTTTTACTCAACGGTACTTAACGATCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
CAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACAT
CTTTATATCAAATACACAGCTAGGCTATTATTCTTTTACTCAACGGTACTTAACCATTCATCTAA
CTGGCATAATTGACACATTTCTATCAAATGCACAACTAGACTATTATTCTTTTACTCAACGGTAC
TTAACCATTCATCTAACTGGAATAATTGACACATTTATGTCAAATACACAGCTAGGCTATTAT
Found at i:831029 original size:21 final size:23
Alignment explanation
Indices: 830978--831029 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
830968 GATTCCCCTG
*
830978 TGGGGGGAATCGGTTCTCCTTCA
1 TGGGGGGAATCAGTTCTCCTTCA
**
831001 AAGGGGGAATCAGTTC-CC-TCA
1 TGGGGGGAATCAGTTCTCCTTCA
831022 TGGGGGGA
1 TGGGGGGA
831030 TCGATTCCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 13 0.54
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (23 bp):
TGGGGGGAATCAGTTCTCCTTCA
Found at i:837990 original size:22 final size:22
Alignment explanation
Indices: 837961--838099 Score: 208
Period size: 22 Copynumber: 6.3 Consensus size: 22
837951 ATTATGTCTT
837961 GAAGGACCACTGGATACGTCCC
1 GAAGGACCACTGGATACGTCCC
837983 GGAA-GACCACTGGATACGTCCC
1 -GAAGGACCACTGGATACGTCCC
* * * *
838005 GAAGGACCAATGAATATGTCCT
1 GAAGGACCACTGGATACGTCCC
* *
838027 GAAAGACCACTGGATACATCCC
1 GAAGGACCACTGGATACGTCCC
838049 GAAGGACCACTGGATACGTCCC
1 GAAGGACCACTGGATACGTCCC
838071 GAAGGACCACTGGATACGTCCC
1 GAAGGACCACTGGATACGTCCC
838093 GAAGGAC
1 GAAGGAC
838100 TAATATACCC
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
21 3 0.03
22 97 0.94
23 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.26, T:0.14
Consensus pattern (22 bp):
GAAGGACCACTGGATACGTCCC
Found at i:839656 original size:18 final size:18
Alignment explanation
Indices: 839622--839656 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
839612 AGGGATTATC
* *
839622 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGAGACAT
839640 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGAGACA
839657 AATTTTCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:840322 original size:12 final size:12
Alignment explanation
Indices: 840305--840329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
840295 GATAATGTGT
840305 TTATGTGGAAAA
1 TTATGTGGAAAA
840317 TTATGTGGAAAA
1 TTATGTGGAAAA
840329 T
1 T
840330 GAACTAATAG
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TTATGTGGAAAA
Found at i:844074 original size:15 final size:16
Alignment explanation
Indices: 844054--844083 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
844044 AAATAAACTC
844054 AATGAAAA-AATGATA
1 AATGAAAACAATGATA
844069 AATGAAAACAATGAT
1 AATGAAAACAATGAT
844084 TAAACGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
AATGAAAACAATGATA
Found at i:846458 original size:15 final size:15
Alignment explanation
Indices: 846438--846473 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
846428 CTATCGTGTC
846438 AGTTCCGTTGTAAGA
1 AGTTCCGTTGTAAGA
846453 AGTTCCGTTGTAAGA
1 AGTTCCGTTGTAAGA
846468 AGTTCC
1 AGTTCC
846474 CGTGAGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (15 bp):
AGTTCCGTTGTAAGA
Found at i:848945 original size:33 final size:34
Alignment explanation
Indices: 848874--848945 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
848864 TATATATTCC
848874 AATGCCATCTAAGATAAAGGAAATGTTATAGAGT
1 AATGCCATCTAAGATAAAGGAAATGTTATAGAGT
848908 AATGCCATCT-AGATAAAGGGAAATGTTATAGAG-
1 AATGCCATCTAAGATAAA-GGAAATGTTATAGAGT
848941 AATGC
1 AATGC
848946 AGGTATTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
33 12 0.32
34 25 0.68
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (34 bp):
AATGCCATCTAAGATAAAGGAAATGTTATAGAGT
Found at i:849088 original size:35 final size:35
Alignment explanation
Indices: 849042--849116 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
849032 ATATTATTCC
849042 AATGCCATCTAAGATAAAGGGAAATGTTATAGAGT
1 AATGCCATCTAAGATAAAGGGAAATGTTATAGAGT
849077 AATGCCATCTAAGATAAAGGGAAATGTTATAGAGT
1 AATGCCATCTAAGATAAAGGGAAATGTTATAGAGT
849112 AATGC
1 AATGC
849117 AGGTATTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (35 bp):
AATGCCATCTAAGATAAAGGGAAATGTTATAGAGT
Found at i:849602 original size:15 final size:15
Alignment explanation
Indices: 849582--849612 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
849572 CAACAGATAA
849582 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
849597 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
849612 A
1 A
849613 TTTAGAATTT
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:856577 original size:26 final size:27
Alignment explanation
Indices: 856525--856579 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
856515 AATAAAAGGA
**
856525 AAAAGAAAAAGTAGAGTAGGATCTTAT
1 AAAAGAAAAAGTAGAGTAGGAAATTAT
*
856552 AAAA-AAAAAGTAGTGTAGGAAATTAT
1 AAAAGAAAAAGTAGAGTAGGAAATTAT
856578 AA
1 AA
856580 TTGCTGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (27 bp):
AAAAGAAAAAGTAGAGTAGGAAATTAT
Found at i:862440 original size:16 final size:16
Alignment explanation
Indices: 862416--862449 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
862406 GATAATAATC
862416 AATAAAAATATTTTAA
1 AATAAAAATATTTTAA
* *
862432 AATATAAATCTTTTAA
1 AATAAAAATATTTTAA
862448 AA
1 AA
862450 GAACCAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAAATATTTTAA
Found at i:864818 original size:41 final size:44
Alignment explanation
Indices: 864756--864846 Score: 143
Period size: 42 Copynumber: 2.1 Consensus size: 44
864746 AAAGATACAT
864756 TTTATATGTATATAAATTTTAATCTATTA-TAATTTGTATTGAA
1 TTTATATGTATATAAATTTTAATCTATTAGTAATTTGTATTGAA
* *
864799 TTTATAT-T-TATACATTTTAATTTATTAGTAATTTGTATTGAA
1 TTTATATGTATATAAATTTTAATCTATTAGTAATTTGTATTGAA
864841 TTTATA
1 TTTATA
864847 ACATTTTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 17 0.38
42 21 0.47
43 7 0.16
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (44 bp):
TTTATATGTATATAAATTTTAATCTATTAGTAATTTGTATTGAA
Found at i:867190 original size:45 final size:45
Alignment explanation
Indices: 867155--867252 Score: 169
Period size: 45 Copynumber: 2.2 Consensus size: 45
867145 AGCTGTGACT
*
867155 ATATGAAATGATATATGAATATGCAATACGTGATAATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATAATGTGATATG
*
867200 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATA-ATGTGATATG
867246 ATATGAA
1 ATATGAA
867253 TACATGGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 33 0.66
46 17 0.34
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (45 bp):
ATATGAAATGACATATGAATATGCAATACGTGATAATGTGATATG
Found at i:867462 original size:38 final size:38
Alignment explanation
Indices: 867406--867501 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
867396 TATAAGACAT
* * *
867406 ATGATAGGTCATACGGGACACAGATTACATCCTTCGGG
1 ATGACAGGTCATTCGGGACACAGATGACATCCTTCGGG
* *
867444 ATGACAGGTCCTTTGGGACACAGATGACATCCTTCGGG
1 ATGACAGGTCATTCGGGACACAGATGACATCCTTCGGG
*
867482 ATGATAGGTCATTCGGGACA
1 ATGACAGGTCATTCGGGACA
867502 TTTGTACGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (38 bp):
ATGACAGGTCATTCGGGACACAGATGACATCCTTCGGG
Found at i:867482 original size:21 final size:21
Alignment explanation
Indices: 867419--867482 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
867409 ATAGGTCATA
*
867419 CGGGACACAGATTACATCCTT
1 CGGGACACAGATGACATCCTT
*
867440 CGGGATGACAG--G---TCCTT
1 CGGGA-CACAGATGACATCCTT
*
867457 TGGGACACAGATGACATCCTT
1 CGGGACACAGATGACATCCTT
867478 CGGGA
1 CGGGA
867483 TGATAGGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 1 0.03
21 14 0.44
22 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (21 bp):
CGGGACACAGATGACATCCTT
Found at i:873069 original size:21 final size:21
Alignment explanation
Indices: 873044--873083 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
873034 AGTATGTTCA
*
873044 GGGGGTATCGATTCCCCCTGG
1 GGGGGAATCGATTCCCCCTGG
873065 GGGGGAATCGATTCCCCCT
1 GGGGGAATCGATTCCCCCT
873084 TAAAGGAAAA
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:0.12, C:0.30, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCCTGG
Found at i:873534 original size:23 final size:22
Alignment explanation
Indices: 873508--873582 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
873498 ATATATATGA
873508 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
873531 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
873553 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
873577 ATATGA
1 ATATGA
873583 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:873552 original size:46 final size:45
Alignment explanation
Indices: 873497--873594 Score: 169
Period size: 46 Copynumber: 2.2 Consensus size: 45
873487 TATATGAAAT
*
873497 AATATATATGAATATGCAATACGTGATACATGTGATATGATATGA
1 AATACATATGAATATGCAATACGTGATACATGTGATATGATATGA
*
873542 AATGACATATGAATATGTAATACGTGATACATGTGATATGATATGA
1 AAT-ACATATGAATATGCAATACGTGATACATGTGATATGATATGA
873588 AATACAT
1 AATACAT
873595 GGTTACACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 7 0.14
46 43 0.86
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (45 bp):
AATACATATGAATATGCAATACGTGATACATGTGATATGATATGA
Done.