Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 28 of 150
Found at i:7244089 original size:35 final size:34
Alignment explanation
Indices: 7244050--7244134 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
7244040 TGTGTAAATT
7244050 TATTATATATATTATATT-ATTAAAGTTAA-TATATA
1 TATTATATATATTATATTAATT---GTTAAGTATATA
*
7244085 TATTATA-ATAGGTTATCTTAATTGTTAAGTATATA
1 TATTATATATA--TTATATTAATTGTTAAGTATATA
7244120 TATTATATA-ATTATA
1 TATTATATATATTATA
7244135 ATGAAACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
33 4 0.09
34 8 0.19
35 21 0.49
36 7 0.16
37 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (34 bp):
TATTATATATATTATATTAATTGTTAAGTATATA
Found at i:7246567 original size:15 final size:14
Alignment explanation
Indices: 7246544--7246580 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
7246534 CAAATGGCAG
*
7246544 ACATATTTGAATAC
1 ACATATTTGAATAA
7246558 ACAGTATTTGAATAA
1 ACA-TATTTGAATAA
7246573 ACATATTT
1 ACATATTT
7246581 AAAGTACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (14 bp):
ACATATTTGAATAA
Found at i:7249406 original size:2 final size:2
Alignment explanation
Indices: 7249399--7249424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7249389 AATTTATTTC
7249399 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
7249425 TTCTCAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7253937 original size:27 final size:28
Alignment explanation
Indices: 7253885--7253948 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
7253875 GTTATATTTG
* *
7253885 TAAAATTTTATAAATAGTTTTAATAAAA
1 TAAAATTTAAGAAATAGTTTTAATAAAA
* *
7253913 TAAAATTTAAGAATATATTTTATAATTAAA
1 TAAAATTTAAGAA-ATAGTTT-TAATAAAA
7253943 TAAAAT
1 TAAAAT
7253949 AAATTTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.37
29 6 0.20
30 13 0.43
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TAAAATTTAAGAAATAGTTTTAATAAAA
Found at i:7256311 original size:18 final size:18
Alignment explanation
Indices: 7256267--7256314 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7256257 CTTTATATCA
7256267 TTCAGGGATTTTAAATTC
1 TTCAGGGATTTTAAATTC
*
7256285 TTCTGGGATTTTAAA-TC
1 TTCAGGGATTTTAAATTC
*
7256302 TTTCAAGGATTTT
1 -TTCAGGGATTTT
7256315 CATATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (18 bp):
TTCAGGGATTTTAAATTC
Found at i:7260614 original size:104 final size:104
Alignment explanation
Indices: 7260440--7260636 Score: 304
Period size: 104 Copynumber: 1.9 Consensus size: 104
7260430 TTCACACGGG
* *
7260440 CAAGGACATGGGCATGAGTCCAGGTCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAG
1 CAAGGACATGGGCATGAGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
* * *
7260505 GGACATAGGCGTGTGCCCAGGCCGTGTGACCCACACAGA
66 CGACATAGGCGTATGCCCAAGCCGTGTGACCCACACAGA
* * *
7260544 CAAGGACATGGGCGTGTGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGGCAA
1 CAAGGACATGGGCATGAGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
* *
7260609 CGACATGGGCGTATGTCCAAGCCGTGTG
66 CGACATAGGCGTATGCCCAAGCCGTGTG
7260637 GCATTTAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 83 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
CAAGGACATGGGCATGAGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
CGACATAGGCGTATGCCCAAGCCGTGTGACCCACACAGA
Found at i:7266140 original size:6 final size:6
Alignment explanation
Indices: 7266124--7266203 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
7266114 TTCTATCGTC
* * *
7266124 CTTTTT C-TTTT CTTTTT C-CTTT CTTATT C-TCTT -TTTTT CTTTCTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT-TT
* * * * *
7266169 CTTCTT CTTCTT CTTCTT CTTCTT CTTCTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
7266204 ATATTTTTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 15 0.24
6 42 0.68
7 5 0.08
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:7266165 original size:20 final size:20
Alignment explanation
Indices: 7266136--7266173 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7266126 TTTTCTTTTC
7266136 TTTTTCCTTTCTTATTCTCT
1 TTTTTCCTTTCTTATTCTCT
* *
7266156 TTTTTTCTTTCTTCTTCT
1 TTTTTCCTTTCTTATTCT
7266174 TCTTCTTCTT
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:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCCTTTCTTATTCTCT
Found at i:7266170 original size:3 final size:3
Alignment explanation
Indices: 7266164--7266201 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7266154 CTTTTTTTCT
7266164 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7266202 TTATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7267063 original size:104 final size:102
Alignment explanation
Indices: 7266910--7267210 Score: 320
Period size: 92 Copynumber: 3.0 Consensus size: 102
7266900 TCCAGGCCTT
* * * * **
7266910 TAACTCACTATTTATGATTTGGAATCACACGGTCAGGGATATGAACGTGTGCCCAGTTCGTGT-A
1 TAACTCACTGTTTATGATTTAGAATCACACGGCCAGGGACATGGGCGTGTGCCCAGTTCGTGTGA
7266974 AGCCAAACGAGAAAGGATATGGGCGTGTGTCCAAGCCGTG
66 A-CCAAACGAG-AAGGA-ATGGGCGTGTGTCCAAGCCGTG
*
7267014 TAACTCACTGTTTATGATTTAGAATAACACGGCCAGGGACATGGGCGTGTGCCCAGGTT-GTGTG
1 TAACTCACTGTTTATGATTTAGAATCACACGGCCAGGGACATGGGCGTGTGCCCA-GTTCGTGTG
*
7267078 AACCACAC--G--GG--T----GTGTGTCCAAGCCGTG
65 AACCAAACGAGAAGGAATGGGCGTGTGTCCAAGCCGTG
* * * ** *
7267106 TAACTCACTGTTTATGATTTAGAATCACACGGGCAAGGACATAGGCGTGTGCCCAGGCCATGTGA
1 TAACTCACTGTTTATGATTTAGAATCACACGGCCAGGGACATGGGCGTGTGCCCAGTTCGTGTGA
* *
7267171 ACCATACGAGCAAGGACATGGGCGTGTGTCCAGGCCGTG
66 ACCAAACGAG-AAGGA-ATGGGCGTGTGTCCAAGCCGTG
7267210 T
1 T
7267211 GGCATCTGAA
Statistics
Matches: 165, Mismatches: 17, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
91 1 0.01
92 78 0.47
94 1 0.01
96 1 0.01
97 2 0.01
99 2 0.01
100 1 0.01
102 1 0.01
104 73 0.44
105 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (102 bp):
TAACTCACTGTTTATGATTTAGAATCACACGGCCAGGGACATGGGCGTGTGCCCAGTTCGTGTGA
ACCAAACGAGAAGGAATGGGCGTGTGTCCAAGCCGTG
Found at i:7267792 original size:23 final size:22
Alignment explanation
Indices: 7267766--7267808 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
7267756 AACTGATATG
7267766 TTCTGT-ATCTGAACTAGAATCGC
1 TTCTGTCATCT-AACT-GAATCGC
7267789 TTCTGTCATCTAACTGAATC
1 TTCTGTCATCTAACTGAATC
7267809 TTGGAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (22 bp):
TTCTGTCATCTAACTGAATCGC
Found at i:7276171 original size:19 final size:21
Alignment explanation
Indices: 7276127--7276176 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
7276117 TCTCTCTCAA
7276127 CAAAAATTACAAAATAATTTT
1 CAAAAATTACAAAATAATTTT
7276148 CAAAAATT-CAAAAT-ATTTAT
1 CAAAAATTACAAAATAATTT-T
*
7276168 AAAAAATTA
1 CAAAAATTA
7276177 AAATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
CAAAAATTACAAAATAATTTT
Found at i:7276172 original size:20 final size:20
Alignment explanation
Indices: 7276128--7276236 Score: 69
Period size: 21 Copynumber: 5.2 Consensus size: 20
7276118 CTCTCTCAAC
*
7276128 AAAAATTACAAAATAATTT-TC
1 AAAAATT-CAAAAT-ATTTATA
7276149 AAAAATTCAAAATATTTATA
1 AAAAATTCAAAATATTTATA
* *
7276169 AAAAATTAAAATTTATATTTTTA
1 AAAAATTCAAA---ATATTTATA
* * *
7276192 AAAAATT-ATAAGATTTTTA
1 AAAAATTCAAAATATTTATA
* * *
7276211 AAAAAATCTAAAAAATGTATA
1 AAAAATTC-AAAATATTTATA
7276232 AAAAA
1 AAAAA
7276237 GTTAAGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
19 18 0.25
20 17 0.24
21 20 0.28
22 2 0.03
23 15 0.21
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATATTTATA
Found at i:7276179 original size:19 final size:20
Alignment explanation
Indices: 7276149--7276241 Score: 57
Period size: 20 Copynumber: 4.5 Consensus size: 20
7276139 AATAATTTTC
7276149 AAAAATTCAAA-ATATTTATA
1 AAAAATT-AAATATATTTATA
*
7276169 AAAAATTAAAATTTATATTTTTA
1 AAAAATT-AAA--TATATTTATA
* *
7276192 AAAAATTATAAGATTTTTA-A
1 AAAAATTA-AATATATTTATA
* *
7276212 AAAAATCTAAA-AAATGTATA
1 AAAAAT-TAAATATATTTATA
7276232 AAAAAGTTAA
1 AAAAA-TTAA
7276242 GATTTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
19 4 0.07
20 28 0.48
21 8 0.14
22 1 0.02
23 17 0.29
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAAATTAAATATATTTATA
Found at i:7276197 original size:64 final size:64
Alignment explanation
Indices: 7276128--7276254 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
7276118 CTCTCTCAAC
* * * * *
7276128 AAAAATTACAAAATAATTTTCAAAAATTC-AAAATATTTATAAAAAA-TTAAAATTTATATTTTT
1 AAAAATTACAAAAT--TTTTAAAAAAATCTAAAAAATGTATAAAAAAGTTAAAATTTAAATTTTT
7276191 A
64 A
* * *
7276192 AAAAATTATAAGATTTTTAAAAAAATCTAAAAAATGTATAAAAAAGTTAAGATTTAAATTTTT
1 AAAAATTACAAAATTTTTAAAAAAATCTAAAAAATGTATAAAAAAGTTAAAATTTAAATTTTT
7276255 TTTCTAAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 11 0.21
63 15 0.28
64 27 0.51
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (64 bp):
AAAAATTACAAAATTTTTAAAAAAATCTAAAAAATGTATAAAAAAGTTAAAATTTAAATTTTTA
Found at i:7281985 original size:41 final size:42
Alignment explanation
Indices: 7281899--7282002 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 42
7281889 GGCTTAGCGC
* * * *
7281899 CTAGCAGGCTTATTACCAGTGAAACAATATCAGATTTTACGT
1 CTAGCAGGCTTATTGCCGGTGAAACAATATCAGACTATACGT
* *
7281941 CTAGCAGGCTTATTGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTATTGCCGGTGAAACAATATCAGACTATACGT
* * *
7281982 CTAGAAGGCTAAGTGCCGGTG
1 CTAGCAGGCTTATTGCCGGTG
7282003 TACTGAATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 30 0.57
42 23 0.43
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTATTGCCGGTGAAACAATATCAGACTATACGT
Found at i:7298156 original size:15 final size:15
Alignment explanation
Indices: 7298136--7298165 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7298126 TAAAAAATAC
7298136 TCATTTGGTAACAAT
1 TCATTTGGTAACAAT
7298151 TCATTTGGTAACAAT
1 TCATTTGGTAACAAT
7298166 GTAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
TCATTTGGTAACAAT
Found at i:7305908 original size:17 final size:17
Alignment explanation
Indices: 7305873--7305925 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
7305863 AGCTCACATT
* * *
7305873 TTTTGGTGAGTTTGCAG
1 TTTTGGTGAGCTCGTAG
7305890 TTTTGGTGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
*
7305907 TTCTGGTGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
7305924 TT
1 TT
7305926 CACAGTTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.11, C:0.11, G:0.34, T:0.43
Consensus pattern (17 bp):
TTTTGGTGAGCTCGTAG
Found at i:7307930 original size:16 final size:17
Alignment explanation
Indices: 7307904--7307935 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7307894 CTTCCCTTCA
7307904 ACTGCTTTAGTAGGTAG
1 ACTGCTTTAGTAGGTAG
7307921 ACTG-TTTAGTAGGTA
1 ACTGCTTTAGTAGGTA
7307936 AACAACAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (17 bp):
ACTGCTTTAGTAGGTAG
Found at i:7308793 original size:11 final size:11
Alignment explanation
Indices: 7308777--7308801 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7308767 ATTTTTTAAC
7308777 TTTAAAATACT
1 TTTAAAATACT
7308788 TTTAAAATACT
1 TTTAAAATACT
7308799 TTT
1 TTT
7308802 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:7308822 original size:40 final size:40
Alignment explanation
Indices: 7308761--7308909 Score: 221
Period size: 40 Copynumber: 3.7 Consensus size: 40
7308751 TTTATTTTTA
* *
7308761 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
7308799 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
7308839 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
7308879 TTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
7308910 AAATTTTGGT
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 6 0.06
39 1 0.01
40 75 0.74
42 3 0.03
43 6 0.06
44 10 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:7308852 original size:8 final size:9
Alignment explanation
Indices: 7308798--7308859 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
7308788 TTTAAAATAC
7308798 TTTTTTTAA
1 TTTTTTTAA
7308807 TTTTTTTAA
1 TTTTTTTAA
**
7308816 -TTTTAAAA
1 TTTTTTTAA
7308824 TTTTTTTAAAATA
1 TTTTTTT---A-A
7308837 CTTTTTTTAA
1 -TTTTTTTAA
7308847 TTTTTTTAA
1 TTTTTTTAA
7308856 TTTT
1 TTTT
7308860 AAAATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.14
9 26 0.60
10 1 0.02
11 1 0.02
12 1 0.02
13 1 0.02
14 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:7313251 original size:43 final size:43
Alignment explanation
Indices: 7313153--7313551 Score: 518
Period size: 43 Copynumber: 9.3 Consensus size: 43
7313143 AGGTTACGTT
* * *
7313153 TTTAGCGGCGTTTCTG-CAAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGACAA-AAGCGCCGCTAAAGGTCATGATC
* * *
7313195 TTTCGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* * *
7313238 TTTAGCGCCGTTTGTGACAAAAGCCCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* * *
7313281 TTTAGCGGCATTTGTGACAAAAGCGCCGCTACAGGTCAAGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* *
7313324 TTTAGCGGCGTTTGTGACTAAAGCGCC-CTAAAGGTCAAGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* * *
7313366 TTTAGCGGTGTTTGTGACAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
*
7313409 TTTAGCAGC-TTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
*** * * *
7313451 TTTAGCAATGTTTGTGACAAAAGTGCCACTAAAGGTCAAGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* *
7313494 TTTAACGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
*
7313537 TTTAGCGACGTTTGT
1 TTTAGCGGCGTTTGT
7313552 TCACATTAGC
Statistics
Matches: 312, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
42 106 0.34
43 206 0.66
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
Found at i:7313381 original size:128 final size:128
Alignment explanation
Indices: 7313140--7313543 Score: 521
Period size: 128 Copynumber: 3.2 Consensus size: 128
7313130 ATATATTTTT
* * * * * *
7313140 TAAAGGTTACGTT-TTTAGCGGCGTTTCTG-CAAGAAGCGCCGCTAAAGGT-TTGTTCTTTCGCG
1 TAAAGGTCATGTTCTTTAGCGGC-TTTGTGACAA-AAGCGCCGCTAAAGGTCATGATCTTTAGCG
* * * * *
7313202 GCGTTTGTGA-TAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGCCGTTTGTGACAAAAGCCCCG
64 GCGTTTGTGACT-AAAGCGCCACTAAAGGTCAAGATCTTTAGCGGCGTTTGTGACAAAAGCGCCG
7313266 C
128 C
* *
7313267 TAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAAGCGCCGCTACAGGTCAAGATCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGC-TTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
* *
7313332 CGTTTGTGACTAAAGCGCC-CTAAAGGTCAAGATCTTTAGCGGTGTTTGTGACAAAAGTGCCGC
65 CGTTTGTGACTAAAGCGCCACTAAAGGTCAAGATCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
* ***
7313395 TAAAGGTCATGTTCTTTAGCAGCTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCAAT
1 TAAAGGTCATGTTCTTTAGCGGCTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
* * * *
7313460 GTTTGTGACAAAAGTGCCACTAAAGGTCAAGATCTTTAACGGCGTTTGTGATAAAAGCGCCGC
66 GTTTGTGACTAAAGCGCCACTAAAGGTCAAGATCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
*
7313523 TAAAGGTCATGATCTTTAGCG
1 TAAAGGTCATGTTCTTTAGCG
7313544 ACGTTTGTTC
Statistics
Matches: 243, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
127 64 0.26
128 148 0.61
129 30 0.12
130 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (128 bp):
TAAAGGTCATGTTCTTTAGCGGCTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
GTTTGTGACTAAAGCGCCACTAAAGGTCAAGATCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
Found at i:7313402 original size:85 final size:86
Alignment explanation
Indices: 7313153--7313551 Score: 518
Period size: 85 Copynumber: 4.7 Consensus size: 86
7313143 AGGTTACGTT
* * * * *
7313153 TTTAGCGGCGTTTCTG-CAAGAAGCGCCGCTAAAGGT-TTGTTCTTTCGCGGCGTTTGTGATAAA
1 TTTAGCGGCGTTTGTGACAA-AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAAA
* *
7313216 AGCGCCGCTAAAGGTCATGTTC
65 AGCGCCGCTAAAGGTCAAGATC
* * * *
7313238 TTTAGCGCCGTTTGTGACAAAAGCCCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAAAA
*
7313303 GCGCCGCTACAGGTCAAGATC
66 GCGCCGCTAAAGGTCAAGATC
* * *
7313324 TTTAGCGGCGTTTGTGACTAAAGCGCC-CTAAAGGTCAAGATCTTTAGCGGTGTTTGTGACAAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAAAA
* * *
7313388 GTGCCGCTAAAGGTCATGTTC
66 GCGCCGCTAAAGGTCAAGATC
* ***
7313409 TTTAGCAGC-TTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCAATGTTTGTGACAAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAAAA
* *
7313473 GTGCCACTAAAGGTCAAGATC
66 GCGCCGCTAAAGGTCAAGATC
* * *
7313494 TTTAACGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGT
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGT
7313552 TCACATTAGC
Statistics
Matches: 276, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
84 16 0.06
85 146 0.53
86 114 0.41
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGACAAAA
GCGCCGCTAAAGGTCAAGATC
Found at i:7315007 original size:17 final size:17
Alignment explanation
Indices: 7314981--7315026 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
7314971 AGCTCACATT
7314981 TTTTGGTGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
*
7314998 TTTTGATGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
*
7315015 TTCTGGTGAGCT
1 TTTTGGTGAGCT
7315027 TGCAATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.41
Consensus pattern (17 bp):
TTTTGGTGAGCTCGTAG
Found at i:7321658 original size:46 final size:46
Alignment explanation
Indices: 7321555--7321756 Score: 347
Period size: 46 Copynumber: 4.5 Consensus size: 46
7321545 TACGTATGAT
* *
7321555 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
7321598 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
7321644 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
7321690 CACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
7321736 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
7321757 TCACTGATCA
Statistics
Matches: 151, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
43 10 0.07
44 5 0.03
45 20 0.13
46 116 0.77
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:7332118 original size:22 final size:22
Alignment explanation
Indices: 7332090--7332141 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7332080 GTTAATCTAC
*
7332090 CTCGAGACATTGG-AAATTGTGT
1 CTCGAGAC-TTGGTAAATTATGT
**
7332112 CTCGAGACTTGGTCCATTATGT
1 CTCGAGACTTGGTAAATTATGT
7332134 CTCGAGAC
1 CTCGAGAC
7332142 CAACCTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (22 bp):
CTCGAGACTTGGTAAATTATGT
Found at i:7332896 original size:19 final size:19
Alignment explanation
Indices: 7332874--7332911 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7332864 TGCATTAAGA
7332874 ATAAAAAAAACAATTATAT
1 ATAAAAAAAACAATTATAT
* *
7332893 ATAAAAATATCAATTATAT
1 ATAAAAAAAACAATTATAT
7332912 TAATGTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAAAAACAATTATAT
Found at i:7341389 original size:16 final size:16
Alignment explanation
Indices: 7341368--7341400 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7341358 TTAATTGTTT
7341368 TAATCTAGTTAATTTA
1 TAATCTAGTTAATTTA
7341384 TAATCTAGTTAATTTA
1 TAATCTAGTTAATTTA
7341400 T
1 T
7341401 TGACAAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
TAATCTAGTTAATTTA
Found at i:7344851 original size:22 final size:22
Alignment explanation
Indices: 7344789--7344870 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
7344779 TCATCCTATA
*
7344789 AAAGGGCTCTCATACGTCCCCT
1 AAAGGGCTCTCATACGTCCCAT
* * * * *
7344811 GAGGGGTTCTCAAATGTCCCAT
1 AAAGGGCTCTCATACGTCCCAT
* *
7344833 AAAGGGCTCTTATACGTCCCGCAG
1 AAAGGGCTCTCATACGT-CC-CAT
*
7344857 AAGGGGCTCTCATA
1 AAAGGGCTCTCATA
7344871 TACAGGTGTG
Statistics
Matches: 43, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
22 27 0.63
23 2 0.05
24 14 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (22 bp):
AAAGGGCTCTCATACGTCCCAT
Found at i:7346156 original size:100 final size:99
Alignment explanation
Indices: 7345983--7346183 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 99
7345973 CCAACCTGCC
*
7345983 ACTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAACTTTTCAATTTAATCCGCAATTCT
1 ACTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCGCAATTCT
7346048 CCTTTGCAACATACGACTTAACAAATATGGGTGCA
66 CCTTTGCAA-ATACGACTTAACAAATATGGGTGCA
*
7346083 ACTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCTGCAATTCT
1 ACTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCGCAATTCT
7346148 CCTTTGCAAATACGACTTAACAAATATGGGTGCA
66 CCTTTGCAAATACGACTTAACAAATATGGGTGCA
7346182 AC
1 AC
7346184 AATATCTACA
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
99 27 0.27
100 72 0.73
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (99 bp):
ACTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCGCAATTCT
CCTTTGCAAATACGACTTAACAAATATGGGTGCA
Found at i:7365436 original size:22 final size:22
Alignment explanation
Indices: 7365388--7365437 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7365378 CAATAACAAT
* *
7365388 AAAATAGTAGCAATATAATAGC
1 AAAATAGTAGCAATACAACAGC
*
7365410 GAAATAGTAGCAA-AGCAACAGC
1 AAAATAGTAGCAATA-CAACAGC
7365432 AAAATA
1 AAAATA
7365438 ACTTATTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (22 bp):
AAAATAGTAGCAATACAACAGC
Found at i:7368797 original size:22 final size:21
Alignment explanation
Indices: 7368767--7368807 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7368757 GATATGATAA
*
7368767 TTTTATTTATGTTATTTTTAAT
1 TTTTATTTAT-TCATTTTTAAT
*
7368789 TTTTGTTTATTCATTTTTA
1 TTTTATTTATTCATTTTTA
7368808 TTGGTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTATTTATTCATTTTTAAT
Found at i:7376734 original size:54 final size:54
Alignment explanation
Indices: 7376632--7376801 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
7376622 CAAGTCAGTC
* * * * * *
7376632 AGTTACATGGCCTAACACACGGCTTGATACATGGGCGTGTGTGACAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
* * *
7376686 AGGTACACGACCTAGCACACGGTTTGACACACAGGCGTGTGTGGCAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
* * *** * *
7376740 AGTTAGACGACCTAGCACATGGCCCAACACACGGGCATGAGTGGCAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
7376794 AGTTACAC
1 AGTTACAC
7376802 AGGTGAGGAC
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (54 bp):
AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
Found at i:7378526 original size:72 final size:73
Alignment explanation
Indices: 7378438--7378574 Score: 195
Period size: 74 Copynumber: 1.9 Consensus size: 73
7378428 AATTAGTTAT
* * *
7378438 ATATCACAATTTCCATTTCATAAACTCAATG-ATAAGTCATTTCATATACATGCCTTTTCAATCC
1 ATATCACAATTCCCATTTCATAAACTCAATGAATAACTCATTTCATATACATACCTTTTCAATCC
7378502 CTTTACAC
66 CTTTACAC
* * * *
7378510 ATATTACAATTCCCATTTCGTAAGCTCAATGACATAACTCATTTCATATACATACTTTTTCAATC
1 ATATCACAATTCCCATTTCATAAACTCAATGA-ATAACTCATTTCATATACATACCTTTTCAATC
7378575 AAGCTCATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 27 0.48
74 29 0.52
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (73 bp):
ATATCACAATTCCCATTTCATAAACTCAATGAATAACTCATTTCATATACATACCTTTTCAATCC
CTTTACAC
Found at i:7392673 original size:31 final size:31
Alignment explanation
Indices: 7392606--7392675 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
7392596 TATATGAAGA
*
7392606 ATGATAGATCATGGAAAATAAAAAATTGTTC
1 ATGATCGATCATGGAAAATAAAAAATTGTTC
7392637 ATGATCGATCATGGAAAATAAAAAATTGTTC
1 ATGATCGATCATGGAAAATAAAAAATTGTTC
7392668 ATGATCGA
1 ATGATCGA
7392676 GATGAGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.29
Consensus pattern (31 bp):
ATGATCGATCATGGAAAATAAAAAATTGTTC
Found at i:7393623 original size:18 final size:18
Alignment explanation
Indices: 7393600--7393634 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7393590 TTTGTTATAT
*
7393600 TTTTTTATTATTCATTTA
1 TTTTTTATTATTAATTTA
7393618 TTTTTTATTATTAATTT
1 TTTTTTATTATTAATTT
7393635 TAGCTGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATTATTAATTTA
Found at i:7393625 original size:15 final size:15
Alignment explanation
Indices: 7393588--7393636 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
7393578 CTTGCTTTAA
*
7393588 ATTTTGTTA-TATTT
1 ATTTTATTATTATTT
7393602 -TTTTATTATTCATTT
1 ATTTTATTATT-ATTT
*
7393617 ATTTT-TTATTATTA
1 ATTTTATTATTATTT
7393631 ATTTTA
1 ATTTTA
7393637 GCTGTGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 7 0.24
14 9 0.31
15 9 0.31
16 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTTTATTATTATTT
Found at i:7397405 original size:43 final size:43
Alignment explanation
Indices: 7397240--7397471 Score: 168
Period size: 42 Copynumber: 5.5 Consensus size: 43
7397230 ATTGATTCAA
* * *
7397240 TTTATCCGATGATGCACT-TATGTGTCAGTATAATTTCTTTGG
1 TTTATCCGATGATGCACTATATGTGCCAATATAATTGCTTTGG
* * * * * *
7397282 TATATCTGATGATGCA-TTTACGTGCCAATATATTTGCTTTAG
1 TTTATCCGATGATGCACTATATGTGCCAATATAATTGCTTTGG
** ** * * *
7397324 TACATCTAATGATGCA-TTTATGTGCCAACATGATTGCTTTGG
1 TTTATCCGATGATGCACTATATGTGCCAATATAATTGCTTTGG
* * * *
7397366 TTTATCCGATGATGCACTATGTGTGCTAGTATAATTGCTTCGG
1 TTTATCCGATGATGCACTATATGTGCCAATATAATTGCTTTGG
** * *
7397409 TTCGTCCGATGATACAACTTATATGT--TAATATAATTGCTTTGG
1 TTTATCCGATGATGC-AC-TATATGTGCCAATATAATTGCTTTGG
* **
7397452 CTTGCCCGATGATGCACTAT
1 TTTATCCGATGATGCACTAT
7397472 GGGTGCCAGT
Statistics
Matches: 150, Mismatches: 36, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
41 4 0.03
42 81 0.54
43 57 0.38
44 2 0.01
45 6 0.04
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (43 bp):
TTTATCCGATGATGCACTATATGTGCCAATATAATTGCTTTGG
Found at i:7407029 original size:7 final size:7
Alignment explanation
Indices: 7407017--7407061 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
7407007 TTTAAAAATA
7407017 AATTTAT
1 AATTTAT
7407024 AATTTAT
1 AATTTAT
7407031 AATTTAT
1 AATTTAT
7407038 AATTTAT
1 AATTTAT
7407045 AATTTAT
1 AATTTAT
7407052 AATTT-T
1 AATTTAT
7407058 AATT
1 AATT
7407062 GAAAGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:7407098 original size:17 final size:17
Alignment explanation
Indices: 7407076--7407110 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7407066 GTAAAATTAT
*
7407076 TTTAAATTTGTCTTGCA
1 TTTAAATTTGACTTGCA
7407093 TTTAAATTTGACTTGCA
1 TTTAAATTTGACTTGCA
7407110 T
1 T
7407111 GTATTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
TTTAAATTTGACTTGCA
Found at i:7408422 original size:47 final size:47
Alignment explanation
Indices: 7408288--7408425 Score: 170
Period size: 47 Copynumber: 2.9 Consensus size: 47
7408278 AAAAAAAAAA
* * * *
7408288 TTGACTGGTTATAGTTTTAAATAAAGAAAAT-GAGAGAGGAAAAACTT
1 TTGACTGGTTATAGTTTCAAACAGAGAAAATGGA-AGAAGAAAAACTT
* * * *
7408335 TTGACTGGTTATAGTTTCAAACAGAGGAAACGGGACAAGAAAAACTT
1 TTGACTGGTTATAGTTTCAAACAGAGAAAATGGAAGAAGAAAAACTT
* *
7408382 TTGACTAGTTATAGTTTGAAACAGAGAAAATGGAAGAAGAAAAA
1 TTGACTGGTTATAGTTTCAAACAGAGAAAATGGAAGAAGAAAAA
7408426 AGGGTGTTAG
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 75 0.99
48 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.25
Consensus pattern (47 bp):
TTGACTGGTTATAGTTTCAAACAGAGAAAATGGAAGAAGAAAAACTT
Found at i:7411329 original size:14 final size:14
Alignment explanation
Indices: 7411310--7411336 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7411300 AACTACCATC
7411310 CTAGACAATCTTCT
1 CTAGACAATCTTCT
7411324 CTAGACAATCTTC
1 CTAGACAATCTTC
7411337 ATAGTCAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (14 bp):
CTAGACAATCTTCT
Found at i:7418126 original size:18 final size:18
Alignment explanation
Indices: 7418105--7418143 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7418095 CTTACCCATA
7418105 AATGTCCACTAACCCTTT
1 AATGTCCACTAACCCTTT
*
7418123 AATGTCCAGTAACCCTTT
1 AATGTCCACTAACCCTTT
7418141 AAT
1 AAT
7418144 TGGTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (18 bp):
AATGTCCACTAACCCTTT
Found at i:7426252 original size:28 final size:28
Alignment explanation
Indices: 7426210--7426270 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
7426200 ATACAGATAC
7426210 CATAACCTAAAGCTTGTGTGAA-CCATTT
1 CATAACCTAAAGCTTGTGT-AAGCCATTT
*
7426238 CATAACCTAAGGCTTGTGTAAGCCATTT
1 CATAACCTAAAGCTTGTGTAAGCCATTT
7426266 CATAA
1 CATAA
7426271 ATAAAAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (28 bp):
CATAACCTAAAGCTTGTGTAAGCCATTT
Found at i:7431381 original size:25 final size:26
Alignment explanation
Indices: 7431339--7431391 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
7431329 ACTCATTTCC
7431339 TCTCATCATTCACTAACCTCTTATTT
1 TCTCATCATTCACTAACCTCTTATTT
*
7431365 TCTC-TCATTCA-TAAACCTTTTATTT
1 TCTCATCATTCACT-AACCTCTTATTT
7431390 TC
1 TC
7431392 CCCTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 20 0.80
26 4 0.16
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (26 bp):
TCTCATCATTCACTAACCTCTTATTT
Found at i:7432527 original size:15 final size:16
Alignment explanation
Indices: 7432507--7432543 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
7432497 TCTTATTTAA
7432507 TTATTTTTTTAT-TCT
1 TTATTTTTTTATGTCT
7432522 TTA-TTTTTTATGTCT
1 TTATTTTTTTATGTCT
*
7432537 TTCTTTT
1 TTATTTT
7432544 CAGGTCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 8 0.42
16 3 0.16
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (16 bp):
TTATTTTTTTATGTCT
Found at i:7432530 original size:14 final size:15
Alignment explanation
Indices: 7432511--7432543 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7432501 ATTTAATTAT
7432511 TTTTTTAT-TCTTTA
1 TTTTTTATGTCTTTA
*
7432525 TTTTTTATGTCTTTC
1 TTTTTTATGTCTTTA
7432540 TTTT
1 TTTT
7432544 CAGGTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTTATGTCTTTA
Found at i:7434909 original size:12 final size:12
Alignment explanation
Indices: 7434892--7434942 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
7434882 ACTTAATCAC
7434892 TTTAATATTAAA
1 TTTAATATTAAA
*
7434904 TTTAAT-CTAATA
1 TTTAATATTAA-A
*
7434916 TTTATTAGATTAAA
1 TTTA--ATATTAAA
7434930 TTTAATATTAAA
1 TTTAATATTAAA
7434942 T
1 T
7434943 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 3 0.10
12 19 0.61
14 6 0.19
15 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:7434921 original size:21 final size:21
Alignment explanation
Indices: 7434897--7434938 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7434887 ATCACTTTAA
*
7434897 TATTAAATTTAATCTAATATT
1 TATTAAATTAAATCTAATATT
* *
7434918 TATTAGATTAAATTTAATATT
1 TATTAAATTAAATCTAATATT
7434939 AAATCTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTAAATTAAATCTAATATT
Found at i:7441832 original size:12 final size:12
Alignment explanation
Indices: 7441815--7441844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7441805 TTAGGCTGTT
*
7441815 ACACGGCTTAGC
1 ACACGGCCTAGC
7441827 ACACGGCCTAGC
1 ACACGGCCTAGC
7441839 ACACGG
1 ACACGG
7441845 GCGTGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:7453890 original size:28 final size:28
Alignment explanation
Indices: 7453850--7453909 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
7453840 TTGTTTGATT
* *
7453850 GAAAATGGTTTCCAAAAAATGATTTCTA
1 GAAAATAGTTTCCAAAAAATAATTTCTA
* *
7453878 GAAAATAGTTTCCGAAAAATAATTTCTG
1 GAAAATAGTTTCCAAAAAATAATTTCTA
7453906 GAAA
1 GAAA
7453910 GTGGCTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (28 bp):
GAAAATAGTTTCCAAAAAATAATTTCTA
Found at i:7463406 original size:16 final size:16
Alignment explanation
Indices: 7463385--7463434 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
7463375 TGGTTCGCTA
7463385 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
7463401 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
7463417 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
7463433 TA
1 TA
7463435 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:7463499 original size:44 final size:45
Alignment explanation
Indices: 7463415--7463505 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7463405 GGATTAGAGG
* * *
7463415 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
7463460 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
7463504 TG
1 TG
7463506 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:7463687 original size:16 final size:16
Alignment explanation
Indices: 7463650--7463704 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
7463640 TTAATCATAT
*
7463650 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
7463666 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
7463681 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
7463699 -TAAAAT
1 TTAAAAT
7463705 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:7463697 original size:18 final size:18
Alignment explanation
Indices: 7463656--7463704 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
7463646 ATATTTAAAC
7463656 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
7463674 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
7463690 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
7463705 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:7463841 original size:156 final size:156
Alignment explanation
Indices: 7463557--7463878 Score: 590
Period size: 156 Copynumber: 2.1 Consensus size: 156
7463547 TAGAATACCC
* * *
7463557 TTAGCATAAAATTGTGTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATGTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
7463622 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
7463687 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
7463713 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATGTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
* *
7463778 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTTTGATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
7463843 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
7463869 TTAGCAGAAA
1 TTAGCAGAAA
7463879 TTTGTTATTG
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 160 1.00
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (156 bp):
TTAGCAGAAAATTATGTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:7463846 original size:16 final size:16
Alignment explanation
Indices: 7463806--7463860 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
7463796 TTAATCATAT
*
7463806 TTAAACATA-ATTTTGA
1 TTAAA-ATATATTTTAA
7463822 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
7463837 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
7463855 -TAAAAT
1 TTAAAAT
7463861 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:7463853 original size:18 final size:17
Alignment explanation
Indices: 7463826--7463860 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7463816 TTTTGATTAA
*
7463826 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7463844 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7463861 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7463885 original size:137 final size:138
Alignment explanation
Indices: 7463743--7464008 Score: 419
Period size: 137 Copynumber: 1.9 Consensus size: 138
7463733 TAAATGATTA
* * *
7463743 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
7463808 AAACATAATT-TTGATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATT
66 AAACATAATTATT-ATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
7463871 AGCAGAAAT
130 AGCAGAAAT
*
7463880 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
****
7463945 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
7464009 CATATTCTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
137 109 0.93
138 8 0.07
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:7464042 original size:137 final size:135
Alignment explanation
Indices: 7463764--7464042 Score: 323
Period size: 137 Copynumber: 2.0 Consensus size: 135
7463754 ATTTAAATTT
* * *
7463764 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTTTGATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTTTGATTAAATA
* * * *
7463829 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
7463894 TAAATTT
129 CAAATCA
7463901 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATT-ATTAAAT
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATT-TTGATTAAAT
**** *
7463965 ACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATT
65 ACATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---T
7464027 TACTCAAATCA
125 TACTCAAATCA
7464038 TAATA
1 TAATA
7464043 TATGATACTA
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 102 0.84
138 8 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTTTGATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:7467227 original size:33 final size:33
Alignment explanation
Indices: 7467184--7467247 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
7467174 ATTATAAAGC
* **
7467184 ATGTATAATTGACCTAGCATTAATTGTTGGTGT
1 ATGTACAATTGACCTAAAATTAATTGTTGGTGT
*
7467217 ATGTACAATTGACCTAAAATTACTTGTTGGT
1 ATGTACAATTGACCTAAAATTAATTGTTGGT
7467248 TTAATGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (33 bp):
ATGTACAATTGACCTAAAATTAATTGTTGGTGT
Found at i:7467347 original size:18 final size:18
Alignment explanation
Indices: 7467324--7467368 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
7467314 CCTAAAAAAC
7467324 ATTGTTGGTGTATGTATA
1 ATTGTTGGTGTATGTATA
7467342 ATTGTTGGTGTATGTATA
1 ATTGTTGGTGTATGTATA
7467360 ATTGTTGGT
1 ATTGTTGGT
7467369 TTAATTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (18 bp):
ATTGTTGGTGTATGTATA
Found at i:7467353 original size:70 final size:70
Alignment explanation
Indices: 7467272--7467420 Score: 298
Period size: 70 Copynumber: 2.1 Consensus size: 70
7467262 CCTAAAAAAC
7467272 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTAT
1 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTAT
7467337 GTATA
66 GTATA
7467342 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTAT
1 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTAT
7467407 GTATA
66 GTATA
7467412 ATTGTTGGT
1 ATTGTTGGT
7467421 TTAATGTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (70 bp):
ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTAT
GTATA
Found at i:7467364 original size:52 final size:51
Alignment explanation
Indices: 7467240--7467350 Score: 213
Period size: 52 Copynumber: 2.2 Consensus size: 51
7467230 CTAAAATTAC
7467240 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
7467291 TTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAA-TGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
7467343 TTGTTGGT
1 TTGTTGGT
7467351 GTATGTATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 12 0.20
52 47 0.80
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:7467419 original size:122 final size:120
Alignment explanation
Indices: 7467240--7467464 Score: 407
Period size: 122 Copynumber: 1.9 Consensus size: 120
7467230 CTAAAATTAC
7467240 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATT
1 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA-T
7467305 GTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTGTATGTATAA
65 GTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTGTATGTATAA
7467361 TTGTTGGTTTAATTGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
1 TTGTTGGTTTAA-TGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
*
7467426 GTTATTTACCTTAAAAAACATTGTTGGTGTATGTATAAT
65 GTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAAT
7467465 CTTTTAATTT
Statistics
Matches: 101, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
120 1 0.01
121 49 0.49
122 51 0.50
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (120 bp):
TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATG
TTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTGTATGTATAA
Found at i:7467450 original size:51 final size:52
Alignment explanation
Indices: 7467342--7467464 Score: 214
Period size: 51 Copynumber: 2.4 Consensus size: 52
7467332 TGTATGTATA
7467342 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAAC
1 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAAC
*
7467394 ATTGTTGGTGTATGTATAATTGTTGGTTTAA-TGTTATT-TACCTTAAAAAAC
1 ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGT-CCCTAAAAAAC
7467445 ATTGTTGGTGTATGTATAAT
1 ATTGTTGGTGTATGTATAAT
7467465 CTTTTAATTT
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
50 1 0.01
51 37 0.54
52 31 0.45
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.47
Consensus pattern (52 bp):
ATTGTTGGTGTATGTATAATTGTTGGTTTAATTGTTATTGTCCCTAAAAAAC
Found at i:7475283 original size:13 final size:13
Alignment explanation
Indices: 7475267--7475295 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7475257 TATGAGCTTA
7475267 AATCATGATCAAT
1 AATCATGATCAAT
7475280 AATCATGATCAAT
1 AATCATGATCAAT
7475293 AAT
1 AAT
7475296 ACGCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (13 bp):
AATCATGATCAAT
Found at i:7476312 original size:41 final size:40
Alignment explanation
Indices: 7476252--7476651 Score: 433
Period size: 41 Copynumber: 9.6 Consensus size: 40
7476242 GGACCCCGGT
7476252 GGAATCAGCACTTTA-CAACCACCTTATAATCAATGATACGG
1 GGAATCAGCAC-TTAGCAACC-CCTTATAATCAATGATACGG
* * * * *
7476293 GGAATCAGTACATAGCAACCCCTTTCACAATCAAGGATACAGT
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATAC-GG
* *
7476336 GGAATCAGCACTTAGCAAGCACCTTATAATCAATGATACGT
1 GGAATCAGCACTTAGCAA-CCCCTTATAATCAATGATACGG
* * *
7476377 GGAATCAGCACATAGCAACCCCTTTTACAGTCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTATA-A-TCAATGATACGG
* *
7476419 TGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * *
7476461 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
7476503 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
7476545 GGAATCAGCACATAGCAACCCCTTTTTGATCAATGATTCGG
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
* * * *
7476586 GGAATCTGCACTTAGCAACCCCTTTTTGATCAATGATTCGG
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
*
7476627 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACTTAGCAACCCCTTA
7476652 CATTCAAAGA
Statistics
Matches: 310, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
40 17 0.05
41 152 0.49
42 71 0.23
43 59 0.19
44 11 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:7476359 original size:84 final size:84
Alignment explanation
Indices: 7476248--7476650 Score: 589
Period size: 84 Copynumber: 4.8 Consensus size: 84
7476238 CAAAGGACCC
*
7476248 CGGTGGAATCAGCACTTTA-CAACCACCTTATAATCAATGATACGGGGAATCAGTACATAGCAAC
1 CGGTGGAATCAGCAC-TTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC
7476312 CCCTTTCACAATCAAGGATA
65 CCCTTTCACAATCAAGGATA
* * *
7476332 CAGTGGAATCAGCACTTAGCAAGCACCTTATAATCAATGATACGTGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
* *
7476397 CCTTTTACAGTCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
7476416 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
7476481 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
7476500 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*** * *
7476565 CCTTT-TTGATCAATGATT
66 CCTTTCACAATCAAGGATA
* * * * * *
7476583 CGG-GGAATCTGCACTTAGCAACC-CCTTTTTGATCAATGATTCGGGGAATCTGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAGCACATAGCAAC
7476646 CCCTT
65 CCCTT
7476651 ACATTCAAAG
Statistics
Matches: 291, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
81 2 0.01
82 56 0.19
83 14 0.05
84 219 0.75
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:7478182 original size:20 final size:19
Alignment explanation
Indices: 7478147--7478184 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7478137 ATCAATTAAA
*
7478147 AAATAATTATAGATAATAC
1 AAATAATTATAAATAATAC
7478166 AAATAATATATAAATAATA
1 AAATAAT-TATAAATAATA
7478185 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATTATAAATAATAC
Found at i:7479726 original size:30 final size:30
Alignment explanation
Indices: 7479692--7479754 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
7479682 TCTTAGCAAT
*
7479692 AAATTTTG-GAGGTATCTAATTAAAATTTCA
1 AAATTTTGAG-GGTATCTAATGAAAATTTCA
* * *
7479722 AAATTTTTAGGGTGTTTAATGAAAATTTCA
1 AAATTTTGAGGGTATCTAATGAAAATTTCA
7479752 AAA
1 AAA
7479755 AATATTGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (30 bp):
AAATTTTGAGGGTATCTAATGAAAATTTCA
Found at i:7480089 original size:31 final size:31
Alignment explanation
Indices: 7480043--7480114 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
7480033 AATTTGATGC
* * *
7480043 AATTATACACGTGAAACTCTAATTGTTGTTT
1 AATTATATACTTGAAACTCTAATTGTTATTT
* * *
7480074 AATTGTATACTTGAAACTTTAATTTTTATTT
1 AATTATATACTTGAAACTCTAATTGTTATTT
7480105 AATTATATAC
1 AATTATATAC
7480115 AATTAGAGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (31 bp):
AATTATATACTTGAAACTCTAATTGTTATTT
Found at i:7480284 original size:29 final size:30
Alignment explanation
Indices: 7480241--7480297 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
7480231 GAATTTGATC
7480241 AAATCAAAATCTCATGTATAAAATTGCACA
1 AAATCAAAATCTCATGTATAAAATTGCACA
* *
7480271 AAATCAAAGT-TCATGTATACAATTGCA
1 AAATCAAAATCTCATGTATAAAATTGCA
7480298 TATTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (30 bp):
AAATCAAAATCTCATGTATAAAATTGCACA
Found at i:7480909 original size:2 final size:2
Alignment explanation
Indices: 7480902--7480942 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7480892 AGCACGTATT
7480902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7480943 AAAAAGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7502457 original size:15 final size:16
Alignment explanation
Indices: 7502437--7502466 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7502427 AAATATGCCA
7502437 TTCAACC-ATTTCCAT
1 TTCAACCAATTTCCAT
7502452 TTCAACCAATTTCCA
1 TTCAACCAATTTCCA
7502467 CACATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
TTCAACCAATTTCCAT
Found at i:7504030 original size:46 final size:46
Alignment explanation
Indices: 7503963--7504055 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
7503953 CGGGTAAAAA
*
7503963 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGCAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
7504009 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
7504055 T
1 T
7504056 ATATGATTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (46 bp):
TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
Found at i:7505728 original size:18 final size:18
Alignment explanation
Indices: 7505705--7505743 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7505695 AAAAAGAATA
7505705 AGCATACAGTAAACTAAT
1 AGCATACAGTAAACTAAT
*
7505723 AGCATACGGTAAACTAAT
1 AGCATACAGTAAACTAAT
7505741 AGC
1 AGC
7505744 TTCTCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (18 bp):
AGCATACAGTAAACTAAT
Found at i:7527469 original size:14 final size:14
Alignment explanation
Indices: 7527450--7527481 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7527440 CTTTCTTTAT
7527450 TTTATGTGGAAAAC
1 TTTATGTGGAAAAC
7527464 TTTATGTGGAAAAC
1 TTTATGTGGAAAAC
7527478 TTTA
1 TTTA
7527482 AATTTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (14 bp):
TTTATGTGGAAAAC
Found at i:7530495 original size:27 final size:27
Alignment explanation
Indices: 7530476--7530758 Score: 273
Period size: 27 Copynumber: 10.5 Consensus size: 27
7530466 GTATAACAGA
7530476 CATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * * *
7530503 TATTGTACACTATAGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
7530530 CATTTTACCCTATAGAGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
7530557 TATTTTATCCTATGGGGGTATTTCATT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
7530584 CATTTTACCTTGTGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
7530611 TATTTTACCCTGTGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
7530638 TATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
****
7530665 CATTTTACCCTGCAAGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
* * * *
7530692 CATTTTATCCTGTAGAGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
** *
7530719 CATTTTACCCTATTAGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
7530746 CATTTTACCCTAT
1 CATTTTACCCTAT
7530759 TTTGGGGTTT
Statistics
Matches: 214, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
26 1 0.00
27 212 0.99
28 1 0.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCAGT
Found at i:7530755 original size:81 final size:81
Alignment explanation
Indices: 7530476--7530756 Score: 364
Period size: 81 Copynumber: 3.5 Consensus size: 81
7530466 GTATAACAGA
* * * *
7530476 CATTTTACCCTATGGGGGTATTTCAGTTATTGTACACTATAGGGGTATTTCGGTCATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
*
7530541 ATAGAGGTATTTCGGT
66 GTAGAGGTATTTCGGT
* * * * * *
7530557 TATTTTATCCTATGGGGGTATTTCATTCATTTTACCTTGTGGGGGTATTTCGGTTATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
* *
7530622 GTGGGGGTATTTCGGT
66 GTAGAGGTATTTCGGT
* * * * *
7530638 TATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGCAAGGGTATTTCGATCATTTTATCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
*
7530703 GTAGAGGTATTTCGAT
66 GTAGAGGTATTTCGGT
** *
7530719 CATTTTACCCTATTAGGGTATTTTAGTCATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCT
7530757 ATTTTGGGGT
Statistics
Matches: 171, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 171 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (81 bp):
CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
GTAGAGGTATTTCGGT
Found at i:7534274 original size:12 final size:12
Alignment explanation
Indices: 7534257--7534283 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7534247 GATGATGACA
7534257 AAAGTAGATCAC
1 AAAGTAGATCAC
7534269 AAAGTAGATCAC
1 AAAGTAGATCAC
7534281 AAA
1 AAA
7534284 TATTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAGTAGATCAC
Found at i:7535330 original size:13 final size:13
Alignment explanation
Indices: 7535312--7535336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7535302 ACCCATCGAT
7535312 ATTTAATAATATA
1 ATTTAATAATATA
7535325 ATTTAATAATAT
1 ATTTAATAATAT
7535337 GATCAGACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATAATATA
Found at i:7545258 original size:39 final size:39
Alignment explanation
Indices: 7545200--7545471 Score: 391
Period size: 39 Copynumber: 6.9 Consensus size: 39
7545190 AACATGTATT
* *
7545200 TGAGTATTATGATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
7545239 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
7545278 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
7545317 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* **
7545356 TGAGTATTGTGATATATGCTTAAATGTTATGTGAAAATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * * *
7545395 TGAGTGTTGTGGTATATGCTTAAATCTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** * * *
7545434 TGCTTAATGTGATATATGCTTAAATGTTAACGTGATTA
1 TGAGTATTGTGATATATGCTTGAATGTT-ATGTGATTA
7545472 CCATGTAAAT
Statistics
Matches: 213, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 204 0.96
40 9 0.04
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:7545460 original size:17 final size:17
Alignment explanation
Indices: 7545425--7545456 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7545415 TAAATCTTAC
7545425 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAT
7545442 GTGA-TATATGCTTAA
1 GTGATTATATGCTTAA
7545457 ATGTTAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
GTGATTATATGCTTAAT
Found at i:7548692 original size:36 final size:36
Alignment explanation
Indices: 7548651--7548734 Score: 134
Period size: 35 Copynumber: 2.4 Consensus size: 36
7548641 TTTTTTATGG
7548651 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
1 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
*
7548687 ATTTTTTT-AAAAACTACAATTCCACAAAACACGAT
1 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
* *
7548722 GTTTTTCTAAAAA
1 ATTTTTTTAAAAA
7548735 CTAAGGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 32 0.73
36 12 0.27
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
Found at i:7558298 original size:12 final size:11
Alignment explanation
Indices: 7558261--7558303 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7558251 CTTAATTGTT
7558261 AAATTTTTTTG
1 AAATTTTTTTG
* *
7558272 AGATTTTTCT-
1 AAATTTTTTTG
7558282 AAATTTTTTTG
1 AAATTTTTTTG
7558293 ACAATTTTTTT
1 A-AATTTTTTT
7558304 ATATTCTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:7558299 original size:22 final size:21
Alignment explanation
Indices: 7558260--7558301 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7558250 TCTTAATTGT
*
7558260 TAAATTTTTTTGAGATTTTTC
1 TAAATTTTTTTGAAATTTTTC
7558281 TAAATTTTTTTGACAATTTTT
1 TAAATTTTTTTGA-AATTTTT
7558302 TTATATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TAAATTTTTTTGAAATTTTTC
Found at i:7561349 original size:40 final size:41
Alignment explanation
Indices: 7561293--7561426 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
7561283 GACACTTTTG
* * *
7561293 TGCAATTCAGGGGTATCAAAGTACAAAGAGGGGCACATATA
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
* * *
7561334 TGCAA-TTAGGGGTATCGAAGTACAAACAATGGCACATATC
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
* * * *
7561374 TGCAATTTAGGGGTACCAGAGTACAAACAAGGGCACGTATG
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
7561415 TGCAATTTAGGG
1 TGCAATTTAGGG
7561427 AATAATTAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 34 0.43
41 46 0.57
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
Found at i:7578479 original size:30 final size:30
Alignment explanation
Indices: 7578406--7578484 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
7578396 TTCGACAACT
* * * *
7578406 GAAGCCATCCCCTTCCATAGTTCGACTGCA
1 GAAGCTATCCCTTTCCATAGTTCAACAGCA
* *
7578436 GAAGGTATTCCTTTCCATAGTTCAACAGTC-
1 GAAGCTATCCCTTTCCATAGTTCAACAG-CA
*
7578466 GAAGCTATCCCTTTTCATA
1 GAAGCTATCCCTTTCCATA
7578485 ATTTTGATGG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (30 bp):
GAAGCTATCCCTTTCCATAGTTCAACAGCA
Found at i:7578512 original size:32 final size:31
Alignment explanation
Indices: 7578470--7578548 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 31
7578460 ACAGTCGAAG
*
7578470 CTATCCCTTTTCATAATTTTGATGGTTGTCA
1 CTATCCCTTTTCATAATTTTAATGGTTGTCA
*
7578501 CTATCCCCTTTT-AT--TGTTAATGGTTGTCA
1 CTAT-CCCTTTTCATAATTTTAATGGTTGTCA
*
7578530 CCATCCCTTTTCATAATTT
1 CTATCCCTTTTCATAATTT
7578549 GATAATCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.17
29 18 0.45
31 8 0.20
32 7 0.17
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (31 bp):
CTATCCCTTTTCATAATTTTAATGGTTGTCA
Found at i:7578545 original size:60 final size:60
Alignment explanation
Indices: 7578472--7578675 Score: 170
Period size: 60 Copynumber: 3.4 Consensus size: 60
7578462 AGTCGAAGCT
*
7578472 ATCCCTTTTCATAATTTTGATGGTTGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
** * * * *
7578532 ATCCCTTTTCATAA-TTTGATAATCG-GAGCTAT--CCTTTTCA-TGATTAGATAGCTG-AAGCC
1 ATCCCTTTTCATAATTTTGATGGTCGTCA-CTATCCCCTTTT-ATTG-TTA-ATGGTTGTCA-CC
* * * * * ** *
7578591 ATCCCTTTTCGTAATTTTGATGGTCGTCACCATCCCATTTCATTGTTGATGGTCATCGCC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
*
7578651 ATCCCTTTTCATAA-TTTGATAGTCG
1 ATCCCTTTTCATAATTTTGATGGTCG
7578676 AAGCTATCCC
Statistics
Matches: 110, Mismatches: 23, Indels: 23
0.71 0.15 0.15
Matches are distributed among these distances:
57 8 0.07
58 6 0.05
59 42 0.38
60 44 0.40
61 4 0.04
62 6 0.05
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
Found at i:7578600 original size:30 final size:31
Alignment explanation
Indices: 7578530--7578723 Score: 133
Period size: 30 Copynumber: 6.5 Consensus size: 31
7578520 ATGGTTGTCA
* *
7578530 CCATCCCTTTTCATAATTTGATA-ATCGGAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* * * *
7578560 CTAT-CCTTTTCATGATTAGATAGCT-GAAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* *
7578589 CCATCCCTTTTCGTAATTTTGAT-GGTCGTCA-
1 CCATCCCTTTTCATAA-TTTGATAGGTCG-AAG
* *
7578620 CCATCCCATTTCAT--TGTTGAT-GGTC-ATCG
1 CCATCCCTTTTCATAAT-TTGATAGGTCGA-AG
7578649 CCATCCCTTTTCATAATTTGATA-GTCGAAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* * * *
7578679 CTATCCCTTTTCATGAA-TCGACA-GTTGAAG
1 CCATCCCTTTTCAT-AATTTGATAGGTCGAAG
7578709 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
7578724 GTTCGATGGC
Statistics
Matches: 129, Mismatches: 22, Indels: 27
0.72 0.12 0.15
Matches are distributed among these distances:
28 1 0.01
29 45 0.35
30 60 0.47
31 22 0.17
32 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (31 bp):
CCATCCCTTTTCATAATTTGATAGGTCGAAG
Found at i:7578652 original size:29 final size:29
Alignment explanation
Indices: 7578607--7578662 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7578597 TTTCGTAATT
*
7578607 TTGATGGTCGTCACCATCCCATTTCATTG
1 TTGATGGTCATCACCATCCCATTTCATTG
* *
7578636 TTGATGGTCATCGCCATCCCTTTTCAT
1 TTGATGGTCATCACCATCCCATTTCAT
7578663 AATTTGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (29 bp):
TTGATGGTCATCACCATCCCATTTCATTG
Found at i:7578712 original size:60 final size:58
Alignment explanation
Indices: 7578530--7578723 Score: 169
Period size: 60 Copynumber: 3.3 Consensus size: 58
7578520 ATGGTTGTCA
* *
7578530 CCATCCCTTTTCATAATTTGATAATCGGAGCTAT-CCTTTTCATGATTAGATAGCTGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGA-TAGA-AGCTGAAG
* * * * * * * * * *
7578589 CCATCCCTTTTCGTAATTTTGATGGTCGTCA-CCATCCCATTTCATTG-TTGATGGTCATCG
1 CCATCCCTTTTCATAA-TTTGATAGTCG-AAGCTATCCCTTTTCA-TGATAGAAGCTGA-AG
* *
7578649 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGAATCGACAGTTGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATG-ATAGA-AGCTGAAG
7578709 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
7578724 GTTCGATGGC
Statistics
Matches: 105, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 39 0.37
60 50 0.48
61 11 0.10
62 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (58 bp):
CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGATAGAAGCTGAAG
Found at i:7578732 original size:119 final size:119
Alignment explanation
Indices: 7578460--7578723 Score: 366
Period size: 119 Copynumber: 2.2 Consensus size: 119
7578450 CCATAGTTCA
* * * * * *
7578460 ACAGTCGAAGCTATCCCTTTTCATAATTTTGATGGTTGTCACTATCCCCTTTTATTGTTAATGGT
1 ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
** * *
7578525 TGTCACCATCCCTTTTCATAATTTGATAATCGGAGCTATCCTTTTCATGATTAG
66 CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTATCCTTTTCATGAATAG
* * * *
7578579 ATAGCTGAAGCCATCCCTTTTCGTAATTTTGATGGTCGTCACCATCCCATTTCATTGTTGATGGT
1 ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
* * *
7578644 CATCGCCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGAATCG
66 CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTAT-CCTTTTCATGAATAG
7578699 ACAGTTGAAGCCATCCCTTTTCATA
1 ACAGTTGAAGCCATCCCTTTTCATA
7578724 GTTCGATGGC
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
119 89 0.72
120 35 0.28
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (119 bp):
ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTATCCTTTTCATGAATAG
Found at i:7581539 original size:41 final size:41
Alignment explanation
Indices: 7581481--7581615 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 41
7581471 AAGCGCACTG
* * * *
7581481 ATGTGCAATTCAAGGGTACTGAAGTACAAAAAAGGGCATGT
1 ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
* *
7581522 ATGTGTAATTCAGGGGTA-TCGAAGTACAAACAGGGGCACAT
1 ATGTGCAATTCAGGGGTACT-GAAGTACAAACAGGGGCATAT
* * *
7581563 ATGTACAATTTAGGGGTACCGAAGTACAAACAGGGGCATAT
1 ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
*
7581604 ATGTGTAATTCA
1 ATGTGCAATTCA
7581616 AGGAATAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.01
41 77 0.99
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (41 bp):
ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
Found at i:7581555 original size:20 final size:19
Alignment explanation
Indices: 7581532--7581598 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
7581522 ATGTGTAATT
7581532 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* *
7581552 CAGGGGCAC-ATATGTACAATT
1 CAGGGGTACGA-A-GTACAA-A
*
7581573 TAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
7581593 CAGGGG
1 CAGGGG
7581599 CATATATGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 18 0.50
21 12 0.33
22 2 0.06
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:7582083 original size:27 final size:27
Alignment explanation
Indices: 7582053--7582113 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
7582043 TTTTATAAAT
7582053 AAGTCCCTAAATGACATTTTCATCAAA
1 AAGTCCCTAAATGACATTTTCATCAAA
* *
7582080 AAGTCCCTAAGTGGCATTTTCATCAAA
1 AAGTCCCTAAATGACATTTTCATCAAA
7582107 AA-TCCCT
1 AAGTCCCT
7582114 TTACAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (27 bp):
AAGTCCCTAAATGACATTTTCATCAAA
Found at i:7582874 original size:20 final size:21
Alignment explanation
Indices: 7582851--7582891 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
7582841 TCAACTTTAC
7582851 CATTT-CCTATTCAAAACAAT
1 CATTTACCTATTCAAAACAAT
7582871 CATTTAACCTATTCAAAACAA
1 CATTT-ACCTATTCAAAACAA
7582892 GATCAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (21 bp):
CATTTACCTATTCAAAACAAT
Found at i:7589406 original size:53 final size:53
Alignment explanation
Indices: 7589344--7589451 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
7589334 TTTTACTATT
*
7589344 CTAATTATCACTAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
1 CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
*
7589397 CTAATTATCACCAGAATTCAAATTCGTAACATACGTTAGAAAAGCTTCACAAC
1 CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
7589450 CT
1 CT
7589452 TGATTAAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
Found at i:7593865 original size:13 final size:13
Alignment explanation
Indices: 7593847--7593871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7593837 CGATCACTCA
7593847 TTCTTTTTCTTTC
1 TTCTTTTTCTTTC
7593860 TTCTTTTTCTTT
1 TTCTTTTTCTTT
7593872 TAATTGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTCTTTC
Found at i:7606568 original size:5 final size:5
Alignment explanation
Indices: 7606558--7606582 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7606548 ACTACACTTC
7606558 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
7606583 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:7610562 original size:37 final size:39
Alignment explanation
Indices: 7610482--7610564 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 39
7610472 TATTTTTATT
* * *
7610482 AATTCATATTTTAATAATAATTATATTATGAATATTATTA
1 AATT-ATATTTTAACAATAATTATATTATAAATATGATTA
*
7610522 AATTATA-TTTAACAATAATTATGTTA-AAATATGATTA
1 AATTATATTTTAACAATAATTATATTATAAATATGATTA
7610559 AATTAT
1 AATTAT
7610565 TTACTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 15 0.38
38 17 0.44
39 3 0.08
40 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (39 bp):
AATTATATTTTAACAATAATTATATTATAAATATGATTA
Found at i:7610811 original size:16 final size:15
Alignment explanation
Indices: 7610784--7610846 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
7610774 TTACTAATTG
7610784 CAGTTCTATTCCATTA
1 CAGTT-TATTCCATTA
7610800 CAGCTTTATTCCATT-
1 CAG-TTTATTCCATTA
* *
7610815 CAATTTCTATTTCATTA
1 C-AGTT-TATTCCATTA
7610832 CAGTCTTATTCCATT
1 CAGT-TTATTCCATT
7610847 CACCCCAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
15 3 0.08
16 31 0.82
17 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.48
Consensus pattern (15 bp):
CAGTTTATTCCATTA
Found at i:7610831 original size:32 final size:32
Alignment explanation
Indices: 7610787--7610848 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
7610777 CTAATTGCAG
7610787 TTCTATTCCATTACAG-CTTTATTCCATTCAAT
1 TTCTATTCCATTACAGTC-TTATTCCATTCAAT
*
7610819 TTCTATTTCATTACAGTCTTATTCCATTCA
1 TTCTATTCCATTACAGTCTTATTCCATTCA
7610849 CCCCAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (32 bp):
TTCTATTCCATTACAGTCTTATTCCATTCAAT
Found at i:7614490 original size:62 final size:61
Alignment explanation
Indices: 7614424--7614547 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 61
7614414 AAATGTAAAT
* ** * *
7614424 AAATTCAACAACTTTAGCCCTCAATATTTACAAAATTTATCATTTTAGTTCAAATTCCAAAA
1 AAATT-AACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
* * * * *
7614486 AAATTAATAAATTTATCAATCAACATTTACAAAATTTTTCAATTTAGTTCTAATTCTAAAA
1 AAATTAACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
7614547 A
1 A
7614548 TTTTAAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
61 47 0.90
62 5 0.10
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (61 bp):
AAATTAACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
Found at i:7616900 original size:4 final size:4
Alignment explanation
Indices: 7616891--7616999 Score: 218
Period size: 4 Copynumber: 27.2 Consensus size: 4
7616881 GGTGAAGAAA
7616891 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7616939 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7616987 ATGT ATGT ATGT A
1 ATGT ATGT ATGT A
7617000 AATGTTGGGA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 105 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:7622255 original size:51 final size:51
Alignment explanation
Indices: 7622174--7622337 Score: 303
Period size: 51 Copynumber: 3.2 Consensus size: 51
7622164 TTATCAATTG
7622174 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
7622225 TCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
7622276 TCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
7622326 TCACTTGTCACT
1 TCACTTGTCACT
7622338 GATCAGAAGT
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
50 25 0.23
51 85 0.77
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:7627623 original size:51 final size:50
Alignment explanation
Indices: 7627562--7627680 Score: 193
Period size: 51 Copynumber: 2.4 Consensus size: 50
7627552 TCACATTTAT
* * *
7627562 CACTTGTCACTTGTCATTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTAC
7627613 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
*
7627663 CACTTATTACTTGTCACT
1 CACTTATCACTTGTCACT
7627681 AATCAGAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 24 0.38
51 40 0.62
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (50 bp):
CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
Found at i:7630144 original size:32 final size:34
Alignment explanation
Indices: 7630090--7630197 Score: 88
Period size: 33 Copynumber: 3.3 Consensus size: 34
7630080 ACACTAGGCA
7630090 AGTA-CAGTCTGGGCC-TATGCCCAATTCA-A-TAAC
1 AGTATCAGT-TGGGCCTTA-GCCCAATT-ATAGTAAC
*
7630123 AGT-TCAGTTGGGCCTTAGCCC-ATTATAGTATC
1 AGTATCAGTTGGGCCTTAGCCCAATTATAGTAAC
* *
7630155 AGTATCAG-TGTGGCCTTAGCCC-ATTACAGTGAC
1 AGTATCAGTTG-GGCCTTAGCCCAATTATAGTAAC
*
7630188 AGTAACAGTT
1 AGTATCAGTT
7630198 CAGACATGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
30 1 0.02
31 4 0.06
32 18 0.29
33 39 0.62
34 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
AGTATCAGTTGGGCCTTAGCCCAATTATAGTAAC
Found at i:7630191 original size:33 final size:32
Alignment explanation
Indices: 7630121--7630197 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
7630111 CAATTCAATA
*
7630121 ACAGT-TCAGTTGGGCCTTAGCCCATTATAGT
1 ACAGTATCAGTTGGGCCTTAGCCCATTACAGT
7630152 ATCAGTATCAG-TGTGGCCTTAGCCCATTACAGT
1 A-CAGTATCAGTTG-GGCCTTAGCCCATTACAGT
*
7630185 GACAGTAACAGTT
1 -ACAGTATCAGTT
7630198 CAGACATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 1 0.03
32 6 0.15
33 30 0.77
34 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (32 bp):
ACAGTATCAGTTGGGCCTTAGCCCATTACAGT
Found at i:7635095 original size:25 final size:25
Alignment explanation
Indices: 7635067--7635131 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
7635057 TTGGCTTTGA
* *
7635067 TAGTATATCCTAAAACTGCTATAGG
1 TAGTATATACTAAAACTACTATAGG
* **
7635092 TAGTATATACTAAGACTACTATATA
1 TAGTATATACTAAAACTACTATAGG
7635117 TAG-ACTATACTAAAA
1 TAGTA-TATACTAAAA
7635132 ACACTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (25 bp):
TAGTATATACTAAAACTACTATAGG
Found at i:7639951 original size:24 final size:24
Alignment explanation
Indices: 7639920--7639973 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
7639910 GACTTTGAAA
7639920 AATTATTAAACATTGTATACAAAT
1 AATTATTAAACATTGTATACAAAT
7639944 AATTATTAAACATTGTATACAAAT
1 AATTATTAAACATTGTATACAAAT
7639968 AATTAT
1 AATTAT
7639974 GGGTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
AATTATTAAACATTGTATACAAAT
Found at i:7640970 original size:100 final size:100
Alignment explanation
Indices: 7640795--7640991 Score: 376
Period size: 100 Copynumber: 2.0 Consensus size: 100
7640785 ATATTCCCAT
*
7640795 ATGGAGTGTAGGGTTGGACAGAGATGGTGTGAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
1 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
*
7640860 TATCTGTTACTGCTACTGATACTGTGATGGGCCAC
66 TATCTATTACTGCTACTGATACTGTGATGGGCCAC
7640895 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
1 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
7640960 TATCTATTACTGCTACTGATACTGTGATGGGC
66 TATCTATTACTGCTACTGATACTGTGATGGGC
7640992 TAAAGCCCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (100 bp):
ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
TATCTATTACTGCTACTGATACTGTGATGGGCCAC
Found at i:7642057 original size:2 final size:2
Alignment explanation
Indices: 7642052--7642087 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7642042 TTATATAAAA
7642052 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7642088 AAGATTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7643337 original size:17 final size:16
Alignment explanation
Indices: 7643297--7643339 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
7643287 GTAAATTATT
7643297 TTGGACTTTATTTTTGC
1 TTGGA-TTTATTTTTGC
* *
7643314 TTTGATTTGATTTTTGG
1 TTGGATTT-ATTTTTGC
7643331 TTGGATTTA
1 TTGGATTTA
7643340 GTATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.14, C:0.05, G:0.21, T:0.60
Consensus pattern (16 bp):
TTGGATTTATTTTTGC
Found at i:7643438 original size:66 final size:66
Alignment explanation
Indices: 7643356--7643492 Score: 222
Period size: 66 Copynumber: 2.1 Consensus size: 66
7643346 TTTTTAATTA
* * *
7643356 CAAACCTATCTGGTTTTACAAACTAAATCACGATTTTCAAATTTAAGAACTCA-AAACTTTTCGC
1 CAAAACTATCTAGTTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAA-TTTTCGC
7643420 TG
65 TG
*
7643422 CAAAACTATCTAGTTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCGTT
1 CAAAACTATCTAGTTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCGCT
7643487 G
66 G
7643488 CAAAA
1 CAAAA
7643493 TATAGTATTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 63 0.95
67 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (66 bp):
CAAAACTATCTAGTTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCGCT
G
Found at i:7652311 original size:104 final size:103
Alignment explanation
Indices: 7652046--7652299 Score: 404
Period size: 103 Copynumber: 2.5 Consensus size: 103
7652036 TAGCCGTTAT
*
7652046 TGGTGGATCCCGCACTTAGCACCA-CCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCACGCACTTAGCACCACCCA-TGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* **
7652110 GAATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 GAATCAGCACATACCAACCCCCTTTACATTTCAAAGATA
*
7652149 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
7652213 GAATCAGCACATACCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATACCAACCCCCTTT-ACATTTCAAAGATA
* *
7652253 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCAC
1 TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCAC
7652300 ACATCAACCC
Statistics
Matches: 139, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
103 82 0.59
104 56 0.40
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATACCAACCCCCTTTACATTTCAAAGATA
Done.