Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold643.1
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: 856865
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.33
Warning! 20449 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:796645 original size:46 final size:45
Alignment explanation
Indices: 796583--796669 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
796573 TTATTTATTA
*
796583 TTTTTTTTGGACTCAAAGCGCTC-TTTGCGGGTTTTCACCTTAGTC
1 TTTTTTTTGGAATCAAAGCGC-CATTTGCGGGTTTTCACCTTAGTC
* *
796628 TTTTTTTTAGGAATCAAAGTGCCATTTGTGGGTTTTCACCTT
1 TTTTTTTT-GGAATCAAAGCGCCATTTGCGGGTTTTCACCTT
796670 GGTCCCTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 9 0.24
46 28 0.76
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (45 bp):
TTTTTTTTGGAATCAAAGCGCCATTTGCGGGTTTTCACCTTAGTC
Found at i:797607 original size:18 final size:19
Alignment explanation
Indices: 797586--797622 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
797576 CCTTGGCCTC
797586 TCTTTTTT-CTTTTCTTTT
1 TCTTTTTTCCTTTTCTTTT
797604 TCTTTTTTCCTTTTCTTTT
1 TCTTTTTTCCTTTTCTTTT
797623 CATTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTTTTTCCTTTTCTTTT
Found at i:797685 original size:8 final size:8
Alignment explanation
Indices: 797672--797713 Score: 75
Period size: 8 Copynumber: 5.1 Consensus size: 8
797662 TTGATTTTGA
797672 TTTTGATT
1 TTTTGATT
797680 TTTTGATTT
1 TTTTGA-TT
797689 TTTTGATT
1 TTTTGATT
797697 TTTTGATT
1 TTTTGATT
797705 TTTTGATT
1 TTTTGATT
797713 T
1 T
797714 CTCTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTTGATT
Found at i:797694 original size:17 final size:16
Alignment explanation
Indices: 797672--797713 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
797662 TTGATTTTGA
797672 TTTTGATTTTTTGATTT
1 TTTTGATTTTTTGA-TT
797689 TTTTGATTTTTTGATT
1 TTTTGATTTTTTGATT
797705 TTTTGATTT
1 TTTTGATTT
797714 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (16 bp):
TTTTGATTTTTTGATT
Found at i:797706 original size:6 final size:6
Alignment explanation
Indices: 797641--797681 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
797631 TTATTTTTCT
797641 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
797682 TTGATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:798551 original size:29 final size:29
Alignment explanation
Indices: 798518--798576 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
798508 GAAAAAATGA
798518 TTATTCGAAAAAAATGAAAGAATATTAGC
1 TTATTCGAAAAAAATGAAAGAATATTAGC
*
798547 TTATTCGAAAAGAATGAAAGAATATTAGC
1 TTATTCGAAAAAAATGAAAGAATATTAGC
798576 T
1 T
798577 CAAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (29 bp):
TTATTCGAAAAAAATGAAAGAATATTAGC
Found at i:798582 original size:25 final size:25
Alignment explanation
Indices: 798500--798582 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 25
798490 AAGAAAATCC
* *
798500 AAAAGAATGAAAAAATGATTA-TTCGA
1 AAAAGAATGAAAGAAT-ATTAGCTC-A
*
798526 AAAA-AATGAAAGAATATTAGCTTATTCG
1 AAAAGAATGAAAGAATATTAGC----TCA
798554 AAAAGAATGAAAGAATATTAGCTCA
1 AAAAGAATGAAAGAATATTAGCTCA
798579 AAAA
1 AAAA
798583 TAAATGCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
24 4 0.09
25 16 0.34
26 4 0.09
28 4 0.09
29 19 0.40
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTAGCTCA
Found at i:800337 original size:16 final size:16
Alignment explanation
Indices: 800316--800351 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
800306 TTTCTATGAT
800316 AAAATGCCATGCAATC
1 AAAATGCCATGCAATC
* *
800332 AAAATGTCATGCAGTC
1 AAAATGCCATGCAATC
800348 AAAA
1 AAAA
800352 CAAAACACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.19
Consensus pattern (16 bp):
AAAATGCCATGCAATC
Found at i:802108 original size:16 final size:18
Alignment explanation
Indices: 802077--802119 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
802067 CAAGATAAAA
*
802077 ATAATTAAACATAAATTGT
1 ATAA-TAAACATAAATAGT
802096 AT-ATAAACA-AAATAGT
1 ATAATAAACATAAATAGT
802112 ATAATAAA
1 ATAATAAA
802120 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 1 0.05
19 2 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAATAAACATAAATAGT
Found at i:804146 original size:129 final size:124
Alignment explanation
Indices: 804016--804308 Score: 300
Period size: 125 Copynumber: 2.3 Consensus size: 124
804006 TTTAATAAGA
* * ** * *
804016 AAAATGGAACCCCGTAAGTTAGGATATGATTTTCTCGGGTTACCAAAACACAAAG-TGTTACCTC
1 AAAATGGAACCCCGTAAGTTAGGATACGA-TCTCTCGAATCACCAAAACACAAAGATATTACCT-
* * *
804080 ATAACAAAATTTATTTCATTGTTGAAAATTTTAAAAGGATACTTTGCTATTTAGGTTTAGCGAG
64 -TAACAAAATTCATTTCATTGTTG-AAATCTTAAAAGGATACTTTGCTA-TTAGGTTTAACGAG
* * * * *
804144 AAAATCGAAACCCCGTAAGTTAGGGTACGATCTCTCGAATCACTAAAACGCAAAGATATTGCCTT
1 AAAAT-GGAACCCCGTAAGTTAGGATACGATCTCTCGAATCACCAAAACACAAAGATATTACCTT
* * * * * *
804209 ATCGAAATTCCTTTCATTTTTGAAATCTTAAAAGGATATTTTGCTATTAGTTTTAACGAG
65 AACAAAATTCATTTCATTGTTGAAATCTTAAAAGGATACTTTGCTATTAGGTTTAACGAG
* * * *
804269 AAAATTGAGACCCCGTAAGTTAGGGTACAATTTCTCGAAT
1 AAAATGGA-ACCCCGTAAGTTAGGATACGATCTCTCGAAT
804309 TTCCAAAGCG
Statistics
Matches: 138, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
124 1 0.01
125 46 0.33
126 22 0.16
127 18 0.13
128 24 0.17
129 27 0.20
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (124 bp):
AAAATGGAACCCCGTAAGTTAGGATACGATCTCTCGAATCACCAAAACACAAAGATATTACCTTA
ACAAAATTCATTTCATTGTTGAAATCTTAAAAGGATACTTTGCTATTAGGTTTAACGAG
Found at i:804288 original size:125 final size:128
Alignment explanation
Indices: 804093--804343 Score: 339
Period size: 125 Copynumber: 2.0 Consensus size: 128
804083 ACAAAATTTA
* *
804093 TTTCATTGTTGAAAATTTTAAAAGGATACTTTGCTATTTAGGTTTAGCGAGAAAATCGAAACCCC
1 TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCC
* * *
804158 GTAAGTTAGGGTACGATCTCTCGAATCACTAAAACGCAAAGATATTGCC-T-TATCGAAATTCC
66 GTAAGTTAGGGTACAATCTCTCGAATCACCAAAACGCAAA-ATATGGCCTTATATCGAAATTCC
* * * * *
804220 TTTCATTTTTG-AAATCTTAAAAGGATATTTTGCTA-TTAGTTTTAACGAGAAAATTGAGACCCC
1 TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCC
* ** *
804283 GTAAGTTAGGGTACAATTTCTCGAATTTCCAAAGCGCAAAATATGGCCTTATATCGAAATT
66 GTAAGTTAGGGTACAATCTCTCGAATCACCAAAACGCAAAATATGGCCTTATATCGAAATT
804344 TTCATTTTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
124 7 0.06
125 59 0.55
126 32 0.30
127 10 0.09
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (128 bp):
TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCC
GTAAGTTAGGGTACAATCTCTCGAATCACCAAAACGCAAAATATGGCCTTATATCGAAATTCC
Found at i:805861 original size:26 final size:24
Alignment explanation
Indices: 805825--805873 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
805815 AAATAAATAA
805825 ATAAAATAAAATA-AAAAAGAAAGC
1 ATAAAATAAAATAGAAAAA-AAAGC
805849 ATAAAATAGAAAATAGAAAAAAAAG
1 ATAAAAT--AAAATAGAAAAAAAAG
805874 AAAGACGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.32
26 10 0.45
27 5 0.23
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (24 bp):
ATAAAATAAAATAGAAAAAAAAGC
Found at i:806672 original size:41 final size:41
Alignment explanation
Indices: 806619--806816 Score: 157
Period size: 41 Copynumber: 4.8 Consensus size: 41
806609 GTGGCTTTTG
806619 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCTA
* * * * * **
806660 TCTGCTCTACTGCGACTTTAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATGCT-A
* * * ** *
806704 T-TCGCTCCACTGCAACTTCAGGGAGACAGGA-TTGGCTTTTG
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGACTT-GATGCTA
* * * *
806745 TCTGCTCCACTACAACTTTAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCTA
* * *
806786 TCTGCTCTACTACAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
806817 TCTGTGGTTT
Statistics
Matches: 122, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
41 83 0.68
42 10 0.08
43 5 0.04
44 24 0.20
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCTA
Found at i:806980 original size:148 final size:148
Alignment explanation
Indices: 806712--807008 Score: 567
Period size: 148 Copynumber: 2.0 Consensus size: 148
806702 AATTCGCTCC
*
806712 ACTGCAACTTCAGGGAGACAGGATTGGCTTTTGTCTGCTCCACTACAACTTTAGGGAGATAAGAC
1 ACTGCAACTTCAGGGAGACAGGATTGGCTTTTGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
806777 TGGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTATAGCTTCAATATGT
66 TGGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTATAGCTTCAATATGT
806842 TCCACTGTACCATTAAGG
131 TCCACTGTACCATTAAGG
806860 ACTGCAACTTCAGGGAGACAGGATTGGCTTTTGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
1 ACTGCAACTTCAGGGAGACAGGATTGGCTTTTGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
*
806925 TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTATAGCTTCAATATGT
66 TGGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTATAGCTTCAATATGT
*
806990 TCCACTGTACCGTTAAGG
131 TCCACTGTACCATTAAGG
807008 A
1 A
807009 AGTAAGATTC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 146 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (148 bp):
ACTGCAACTTCAGGGAGACAGGATTGGCTTTTGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
TGGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTATAGCTTCAATATGT
TCCACTGTACCATTAAGG
Found at i:807043 original size:50 final size:50
Alignment explanation
Indices: 806976--807695 Score: 259
Period size: 50 Copynumber: 14.3 Consensus size: 50
806966 CTGTGGTTTA
* * * * *
806976 TAGCTTCAATATGTTCCACTGTACCGTTAAGGAAGTAAGATTCGCTGTCG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* ** * * * *
807026 TAGCTTCAATCTATTCCAAGGAAGTAAGGTTCATCAAGGAAGT-AGATTCGCTGTTG
1 TAGCTTCAATCTGTTCC-A--CTGTAA----CGTCAGGGAAGTAAGATTCGCCGTCG
** * * *
807082 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * * ** * * * * * *
807132 TGGCTTCAATATTTTTAATTGCAATGTCAGGGAAATGAGATTCGCCATCG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * * * *
807182 CAGCTTCAATCTGTTCCACTATACCG-CTGGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTC-AGGGAAGTAAGATTCGCCGTCG
* * ** * * * * * *
807232 TGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAATGAGATTCACCGTCG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * * * *
807282 TAGCTTCAATCTATTCCACTGTATCGCCA-GGAAGGTAAGATTCACCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAA-GTAAGATTCGCCGTCG
* * ** * ** * * * *
807332 TGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCGCCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* ** * * * * *
807382 TAGCTTTAATCTGTTTAACTGCATCG-CTAGGGAGGTAAGATTTGCCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTC-AGGGAAGTAAGATTCGCCGTCG
* * * ** * * * * * *
807432 TGGCTTCAATTTTTTTAATTGCAATGTCAGGAAAATGAA-ATTCACCGTCG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGT-AAGATTCGCCGTCG
* * * ** * * * * *
807482 TAGCGTCAATATATT-CACTACATCGCCAGGGAGGTAAGATTCACCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * * * * ** * **
807531 TGGCTTCAATCT-TT-AATTGCAATGTTGGGGAAGTAAGATTCGTCGTTA
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * * * * * *
807579 TAGCTTCAATCTATTCCACTGCATCGCCAGGGAGGTAAGATTCGTCGTTG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
* * ** * * * * *
807629 TGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGTCGTCG
1 TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
807679 TAGCTTCAATCTGTTCC
1 TAGCTTCAATCTGTTCC
807696 GCTGCACTGC
Statistics
Matches: 486, Mismatches: 166, Indels: 36
0.71 0.24 0.05
Matches are distributed among these distances:
48 37 0.08
49 47 0.10
50 350 0.72
51 9 0.02
53 4 0.01
55 1 0.00
56 28 0.06
57 10 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
TAGCTTCAATCTGTTCCACTGTAACGTCAGGGAAGTAAGATTCGCCGTCG
Found at i:807701 original size:100 final size:100
Alignment explanation
Indices: 807063--807701 Score: 775
Period size: 100 Copynumber: 6.4 Consensus size: 100
807053 GGTTCATCAA
* * * * *
807063 GGAAGT-AGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
*
807127 CGTTGTGGCTTCAATATTTTTAATTGCAATGTCAG
66 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* * * * ** * ** *
807162 GGAAATGAGATTCGCCATCGCAGCTTCAATCTGTTCCACTATACCGCTGGGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
807227 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
66 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* * * * * * *
807262 GGAAATGAGATTCACCGTCGTAGCTTCAATCTATTCCACTGTATCGCCAGGAAGGTAAGATTCAC
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
* *
807327 CGTTGTGGCTTCAATCTTTTTAATTACAATGTCGG
66 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* * * ** * *
807362 GGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTTAACTGCATCGCTAGGGAGGTAAGATTTGC
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
*
807427 CGTTGTGGCTTCAATTTTTTTAATTGCAATGTCAG
66 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* * * * * * * *
807462 GAAAATGAA-ATTCACCGTCGTAGCGTCAATATATT-CACTACATCGCCAGGGAGGTAAGATTCA
1 GGAAGT-AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCG
**
807525 CCGTTGTGGCTTCAATC--TTTAATTGCAATGTTGG
65 CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* ** * *
807559 GGAAGTAAGATTCGTCGTTATAGCTTCAATCTATTCCACTGCATCGCCAGGGAGGTAAGATTCGT
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
807624 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
66 CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
* * *
807659 GGAAGCAAGATTCGTCGTCGTAGCTTCAATCTGTTCCGCTGCA
1 GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCA
807702 CTGCCAAAGA
Statistics
Matches: 460, Mismatches: 74, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
96 2 0.00
97 39 0.08
98 42 0.09
99 44 0.10
100 331 0.72
101 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAGGTAAGATTCGC
CGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
Found at i:808760 original size:24 final size:21
Alignment explanation
Indices: 808732--808779 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 21
808722 TGGCCTCTCC
808732 TTTTTCTTTTTCATTCTTCTTTTCT
1 TTTTTC-TTTTC-TT-TTCTTTT-T
808757 TTTTT-TTTTCTTTTCTTTTT
1 TTTTTCTTTTCTTTTCTTTTT
808777 TTT
1 TTT
808780 CAAGTGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 2 0.09
23 5 0.22
25 5 0.22
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTCTTTTCTTTTT
Found at i:808769 original size:16 final size:16
Alignment explanation
Indices: 808733--808779 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
808723 GGCCTCTCCT
*
808733 TTTTCTTTTTCATTCTTC
1 TTTTCTTTTT--TTTTTC
808751 TTTTCTTTTTTTTTTC
1 TTTTCTTTTTTTTTTC
808767 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
808780 CAAGTGAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 18 0.64
18 10 0.36
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:809193 original size:17 final size:17
Alignment explanation
Indices: 809171--809210 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
809161 CCGGTAGAGG
* *
809171 TTTTTTGTTTTTTTATT
1 TTTTTTATTTTTCTATT
*
809188 TTTTTTATTTTTCTGTT
1 TTTTTTATTTTTCTATT
809205 TTTTTT
1 TTTTTT
809211 CCTCCACTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTTTCTATT
Found at i:812417 original size:22 final size:22
Alignment explanation
Indices: 812391--812434 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
812381 ATGTTTGAGT
812391 AAATTTGAAAATGAGTTAAAGA
1 AAATTTGAAAATGAGTTAAAGA
812413 AAATTTGAAAATGAGTTAAAGA
1 AAATTTGAAAATGAGTTAAAGA
812435 CCCGCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (22 bp):
AAATTTGAAAATGAGTTAAAGA
Found at i:812860 original size:125 final size:126
Alignment explanation
Indices: 812659--812892 Score: 310
Period size: 125 Copynumber: 1.9 Consensus size: 126
812649 ACGAAATTTA
* * * *
812659 TTTCATTGTTGAAAATTTTAAAAGGATACTTTGCTATTTAGGTTTAGCGAGAAAACCGAAATCCT
1 TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAACCGAAACCCC
*
812724 GTAAGTTAGGGTACGATCTCTCGAATCACTAAAACGCAAATATATTGCCTTATCAAAATTCC
66 GTAAGTTAGGGTACAATCTCTCGAATCACTAAAACGCAAA-ATATTGCCTTATCAAAATTCC
* * * ** *
812786 TTTCATTTTTG-AAATCTTAAAAGGATATTTTGCTA-TTAGTTTTAACGAGAAAATTGAGACCCC
1 TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAACCGAAACCCC
* ** *
812849 GTAAGTTAGGGTACAATTTCTCGAATTTCTAAAGCGCAAAATAT
66 GTAAGTTAGGGTACAATCTCTCGAATCACTAAAACGCAAAATAT
812893 GGCATTATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
124 4 0.04
125 56 0.61
126 22 0.24
127 10 0.11
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (126 bp):
TTTCATTGTTGAAAATCTTAAAAGGATACTTTGCTATTTAGGTTTAACGAGAAAACCGAAACCCC
GTAAGTTAGGGTACAATCTCTCGAATCACTAAAACGCAAAATATTGCCTTATCAAAATTCC
Found at i:816473 original size:28 final size:24
Alignment explanation
Indices: 816436--816499 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
816426 AATAAAAAAT
816436 TTCAAATAAATAAAATTTTATTTA
1 TTCAAATAAATAAAATTTTATTTA
816460 TTCAAATAAATAAAATTTTATTTA
1 TTCAAATAAATAAAATTTTATTTA
*
816484 TTCATATAAATAAAAT
1 TTCAAATAAATAAAAT
816500 GAATAGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (24 bp):
TTCAAATAAATAAAATTTTATTTA
Found at i:817272 original size:13 final size:13
Alignment explanation
Indices: 817254--817285 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
817244 TAAATAAAAG
817254 AAACTTCGTGTAA
1 AAACTTCGTGTAA
817267 AAACTTCGTGTAA
1 AAACTTCGTGTAA
817280 AAACTT
1 AAACTT
817286 TGCATCTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (13 bp):
AAACTTCGTGTAA
Found at i:818632 original size:20 final size:20
Alignment explanation
Indices: 818607--818662 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
818597 ATTTTGCTTT
818607 AATTATTAAAAAAGTTTTAA
1 AATTATTAAAAAAGTTTTAA
*
818627 AATTA-TAAAAAAGTTAATAA
1 AATTATTAAAAAAGTT-TTAA
*
818647 AATT-TAAAAAAAGTTT
1 AATTATTAAAAAAGTTT
818663 AATAAAGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTATTAAAAAAGTTTTAA
Found at i:818657 original size:21 final size:19
Alignment explanation
Indices: 818614--818668 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
818604 TTTAATTATT
*
818614 AAAAAAGTT-TTAAAATTA
1 AAAAAAGTTAATAAAATTA
818632 TAAAAAAGTTAATAAAATTTA
1 -AAAAAAGTTAATAAAA-TTA
818653 AAAAAAGTTTAATAAA
1 AAAAAAG-TTAATAAA
818669 GTTCTTGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 9 0.28
20 12 0.38
21 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAAAGTTAATAAAATTA
Found at i:826536 original size:38 final size:38
Alignment explanation
Indices: 826494--826569 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
826484 GATCGGAATT
* *
826494 TTAAAAGAAAAAGAATCTTTAGATCATTTAAAGGATGA
1 TTAAAAGAAAAAGAATCCTTAAATCATTTAAAGGATGA
826532 TTAAAAGAAAAAGAATCCTTAAATCATTTAAAGGATGA
1 TTAAAAGAAAAAGAATCCTTAAATCATTTAAAGGATGA
826570 GTAGATTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (38 bp):
TTAAAAGAAAAAGAATCCTTAAATCATTTAAAGGATGA
Found at i:829342 original size:23 final size:24
Alignment explanation
Indices: 829316--829370 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
829306 TTAGCGCACT
**
829316 CTCTGATTATTAGCACGTTGGTGC
1 CTCTGATTATTAGCACGTCAGTGC
829340 TCTCTGATTATTAGCACGTCAGTGC
1 -CTCTGATTATTAGCACGTCAGTGC
829365 TCTCTG
1 -CTCTG
829371 TTTAGCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (24 bp):
CTCTGATTATTAGCACGTCAGTGC
Found at i:829342 original size:25 final size:24
Alignment explanation
Indices: 829314--829422 Score: 118
Period size: 22 Copynumber: 4.6 Consensus size: 24
829304 CTTTAGCGCA
*
829314 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
*
829339 CTCTCTGATTATTAGCACGTCAGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* *
829364 CTCTCTG-T-TTAGCACATTTGTG
1 CTCTCTGTTATTAGCACGTTAGTG
*
829386 CTCTCTG-TA-TAGCACTTTAGTG
1 CTCTCTGTTATTAGCACGTTAGTG
829408 CTCTCTGTTCATTAG
1 CTCTCTGTT-ATTAG
829423 TGCATAATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
22 37 0.51
23 2 0.03
24 1 0.01
25 33 0.45
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (24 bp):
CTCTCTGTTATTAGCACGTTAGTG
Found at i:830995 original size:20 final size:20
Alignment explanation
Indices: 830970--831019 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
830960 TGGCTTAAAA
830970 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
830990 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
831007 GTGGTAGTGGATT
1 TTGGTAGTGGATT
831020 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:835634 original size:20 final size:20
Alignment explanation
Indices: 835609--835658 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
835599 TGGCTTAAAA
835609 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
835629 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
835646 GTGGTAGTGGATT
1 TTGGTAGTGGATT
835659 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:836633 original size:6 final size:6
Alignment explanation
Indices: 836622--836673 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
836612 GTTGAGCTTC
836622 CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA
1 CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA
836670 CTGC
1 CTGC
836674 TCCAAAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (6 bp):
CTGCAA
Found at i:837579 original size:32 final size:33
Alignment explanation
Indices: 837536--837608 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
837526 AAAGGAGTTC
* * * * *
837536 AAAATATTGTTTTCTAATTTTTAAAGTA-CTCAA
1 AAAAT-TTGTTTACGAACTTTTAAAGCATCTAAA
837569 AAAATTTGTTTACGAACTTTTAAAGCATCTAAA
1 AAAATTTGTTTACGAACTTTTAAAGCATCTAAA
837602 AAAATTT
1 AAAATTT
837609 TCTCCCAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 18 0.53
33 16 0.47
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (33 bp):
AAAATTTGTTTACGAACTTTTAAAGCATCTAAA
Found at i:840191 original size:16 final size:16
Alignment explanation
Indices: 840170--840226 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
840160 TAATATTAAA
*
840170 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
*
840186 ATTAAAATTAATTATT
1 ATTAAAATTAATTGTT
*
840202 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
840218 ATTAAAATT
1 ATTAAAATT
840227 GTATCAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:841950 original size:28 final size:28
Alignment explanation
Indices: 841915--841972 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
841905 TTACTCCTTT
841915 ATATTAAGATATTAAGTTATTATATATA
1 ATATTAAGATATTAAGTTATTATATATA
*
841943 ATATTAAGATATTACGTTATTATATATA
1 ATATTAAGATATTAAGTTATTATATATA
841971 AT
1 AT
841973 GTGAATGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (28 bp):
ATATTAAGATATTAAGTTATTATATATA
Found at i:842318 original size:22 final size:23
Alignment explanation
Indices: 842291--842342 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
842281 CGTATGTCCA
842291 AAACTA-ACAACTTTTATTTTAC
1 AAACTAGACAACTTTTATTTTAC
* ***
842313 AAACTAGTCTTTTTTTATTTTAC
1 AAACTAGACAACTTTTATTTTAC
842336 AAACTAG
1 AAACTAG
842343 TCTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (23 bp):
AAACTAGACAACTTTTATTTTAC
Found at i:842354 original size:24 final size:23
Alignment explanation
Indices: 842302--842351 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
842292 AACTAACAAC
842302 TTTTATTTTACAAACTAGTCTTT
1 TTTTATTTTACAAACTAGTCTTT
842325 TTTTATTTTACAAACTAGTCTTT
1 TTTTATTTTACAAACTAGTCTTT
842348 TTTT
1 TTTT
842352 TATATGATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTATTTTACAAACTAGTCTTT
Found at i:844229 original size:50 final size:55
Alignment explanation
Indices: 844150--844298 Score: 209
Period size: 50 Copynumber: 2.8 Consensus size: 55
844140 TGATAATAAC
* *
844150 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-G-TC-T-CGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGATCTTAAGG
* *
844201 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-GATCTTAAGG
*
844256 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
844299 TTACCCAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
50 40 0.47
52 1 0.01
53 2 0.02
54 1 0.01
55 2 0.02
56 39 0.46
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (55 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGATCTTAAGG
Found at i:844414 original size:13 final size:13
Alignment explanation
Indices: 844393--844424 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
844383 GCTTGGATCA
*
844393 TCATCAAATAAAT
1 TCATAAAATAAAT
844406 TCATAAAATAAAT
1 TCATAAAATAAAT
844419 TCATAA
1 TCATAA
844425 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:844671 original size:30 final size:30
Alignment explanation
Indices: 844636--844693 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
844626 CCTCGACTCT
*
844636 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
844666 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
844694 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:849385 original size:21 final size:22
Alignment explanation
Indices: 849326--849385 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 22
849316 TCAGAAGCAT
* * *
849326 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTCA
** *
849348 A-ACGACACACGTGGTGCC-CA
1 ATACGACACATATAGTGCCTCA
849368 ATACGACACATATAGTGC
1 ATACGACACATATAGTGC
849386 TTGATCGGCA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.89
22 1 0.04
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTCA
Found at i:854382 original size:73 final size:73
Alignment explanation
Indices: 854263--854407 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
854253 AGAGTTCTCT
854263 AGATAACTCTTCAAAGGGTAAAGATAACTTATGCTATCAATGTGATATGAAAGATTATTGGCCAC
1 AGATAACTCTTCAAAGGGTAAAGATAACTTATGCTATCAATGTGATATGAAAGATTATTGGCCAC
854328 ATATGTGA
66 ATATGTGA
* *
854336 AGATAACTTTTCAAAGGGTAAAGATAACTTATGTTATCAATGTGATATGAAAGATTATTGGCCAC
1 AGATAACTCTTCAAAGGGTAAAGATAACTTATGCTATCAATGTGATATGAAAGATTATTGGCCAC
854401 ATATGTG
66 ATATGTG
854408 GCATATGCCT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (73 bp):
AGATAACTCTTCAAAGGGTAAAGATAACTTATGCTATCAATGTGATATGAAAGATTATTGGCCAC
ATATGTGA
Found at i:854789 original size:73 final size:73
Alignment explanation
Indices: 854700--854842 Score: 277
Period size: 73 Copynumber: 2.0 Consensus size: 73
854690 ATTATTATAA
854700 ATATCTATTTTAAAAGGATGAAAAAGAGAGGATTGAGTTATTAATTTATATTTATTTTATAATAT
1 ATATCTATTTTAAAAGGATGAAAAAGAGAGGATTGAGTTATTAATTTATATTTATTTTATAATAT
854765 TTGTGGCT
66 TTGTGGCT
*
854773 ATATCTATTTTGAAAGGATGAAAAAGAGAGGATTGAGTTATTAATTTATATTTATTTTATAATAT
1 ATATCTATTTTAAAAGGATGAAAAAGAGAGGATTGAGTTATTAATTTATATTTATTTTATAATAT
854838 TTGTG
66 TTGTG
854843 ATATTCTTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (73 bp):
ATATCTATTTTAAAAGGATGAAAAAGAGAGGATTGAGTTATTAATTTATATTTATTTTATAATAT
TTGTGGCT
Found at i:856704 original size:82 final size:82
Alignment explanation
Indices: 856567--856729 Score: 281
Period size: 82 Copynumber: 2.0 Consensus size: 82
856557 TGATCAAAAC
* * * *
856567 AGAAAGACACAACTCAAGTAAATTTACATTCGTGGAGTTTTTGGATCAATAGTCCAAATATCTAA
1 AGAAAGACACAAATCAAGTAAAATTAAATTCGTGGAGTTTTTGGACCAATAGTCCAAATATCTAA
856632 AGGTATAAAGCTAGTGT
66 AGGTATAAAGCTAGTGT
*
856649 AGAAAGACACAAATCAAGTAAAATTAAATTCGTGGAGTTTTTGGACCAGTAGTCCAAATATCTAA
1 AGAAAGACACAAATCAAGTAAAATTAAATTCGTGGAGTTTTTGGACCAATAGTCCAAATATCTAA
856714 AGGTATAAAGCTAGTG
66 AGGTATAAAGCTAGTG
856730 AGGGTGCAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (82 bp):
AGAAAGACACAAATCAAGTAAAATTAAATTCGTGGAGTTTTTGGACCAATAGTCCAAATATCTAA
AGGTATAAAGCTAGTGT
Done.