Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold334
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: 475332
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 2 of 3
Found at i:194533 original size:37 final size:37
Alignment explanation
Indices: 194487--194588 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
194477 TGTGTCTGTG
* *
194487 AGATGTATTTGAAAGTCTTAAGCCTTTGCTAAAAGG-A
1 AGATGTATTTGAAAGTCTCAAGCTTTTGCT-AAAGGCA
* * *
194524 AGATGTATTTGAAATTCTCAAGTTTTTGCTGAAGGCA
1 AGATGTATTTGAAAGTCTCAAGCTTTTGCTAAAGGCA
**
194561 AGACATATTTGAAAGTCTCAAGCTTTTG
1 AGATGTATTTGAAAGTCTCAAGCTTTTG
194589 TCATCAACGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 4 0.07
37 51 0.93
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (37 bp):
AGATGTATTTGAAAGTCTCAAGCTTTTGCTAAAGGCA
Found at i:194859 original size:28 final size:28
Alignment explanation
Indices: 194802--194871 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
194792 TGAAGACGTG
* * **
194802 TTGGTTACATGATACCTTAGAAACTTTT
1 TTGGCTACATGATGCCTTAGAAACCCTT
194830 TTGGCTACATGATGCCTTAGAAACCCTT
1 TTGGCTACATGATGCCTTAGAAACCCTT
* *
194858 TTGACTAGATGATG
1 TTGGCTACATGATG
194872 TTTTAAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (28 bp):
TTGGCTACATGATGCCTTAGAAACCCTT
Found at i:195272 original size:14 final size:14
Alignment explanation
Indices: 195215--195284 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 14
195205 TCATTTTCCT
195215 TAGAAACATCTTGA
1 TAGAAACATCTTGA
* **
195229 TGGAAAACATCTTTTC
1 TAG-AAACATC-TTGA
*
195245 TA-AGAACATGTTGA
1 TAGA-AACATCTTGA
195259 TAGAAACATCTTGA
1 TAGAAACATCTTGA
*
195273 TAAGGAACATCT
1 T-AGAAACATCT
195285 CATCAAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
14 17 0.40
15 22 0.52
16 3 0.07
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (14 bp):
TAGAAACATCTTGA
Found at i:196187 original size:54 final size:54
Alignment explanation
Indices: 196088--196191 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
196078 TCCTTTCTCT
* * *
196088 TTTTTCAACCTTGGGGGTTGTTCCAACCTTGAAAAACCATCTTTTCTTTTTTTG
1 TTTTTCAACCTTGAGAGTTGTTCCAACCTTGAAAAACAATCTTTTCTTTTTTTG
* * * *
196142 TTTTTCTACCTTGAGAGTTTTTCTAACCTTGAAAAGATAAT-TTTTCTTTT
1 TTTTTCAACCTTGAGAGTTGTTCCAACCTTGAAAA-ACAATCTTTTCTTTT
196192 CTTATTTCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 39 0.93
55 3 0.07
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (54 bp):
TTTTTCAACCTTGAGAGTTGTTCCAACCTTGAAAAACAATCTTTTCTTTTTTTG
Found at i:196301 original size:49 final size:49
Alignment explanation
Indices: 196134--196342 Score: 152
Period size: 49 Copynumber: 4.1 Consensus size: 49
196124 CCATCTTTTC
* * * * *
196134 TTTTTTTGTTTTTCTACCTT-GAGAGTTTTTCTAACCTTGAAAAGATAATT
1 TTTTTTTG-TTTTCTACCTTAAAG-GTTATTCCAACCTTGAAAAGCTAACT
* * ** * * ** *
196184 TTTCTTTTCTTATTTCTACTTTAGGGGTTGTTTCAATTTTGAAGAGCTAACTT
1 TTT-TTTT-GT-TTTCTACCTTAAAGGTTATTCCAACCTTGAAAAGCTAAC-T
* *
196237 TTTGTTTTGTTTTCTACCTTAAAGGTTATTCCAACGTTGAAAAGTTAA-T
1 TTT-TTTTGTTTTCTACCTTAAAGGTTATTCCAACCTTGAAAAGCTAACT
* * * *
196286 TGTTTTTTGTTTTCTACTTTAGAGGTTGTTCTAACCTTGAAAAGCTAACT
1 T-TTTTTTGTTTTCTACCTTAAAGGTTATTCCAACCTTGAAAAGCTAACT
196336 TTTTTTT
1 TTTTTTT
196343 CACTCATTTG
Statistics
Matches: 124, Mismatches: 28, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
49 46 0.37
50 7 0.06
51 34 0.27
52 27 0.22
53 10 0.08
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (49 bp):
TTTTTTTGTTTTCTACCTTAAAGGTTATTCCAACCTTGAAAAGCTAACT
Found at i:196315 original size:100 final size:104
Alignment explanation
Indices: 196103--196339 Score: 252
Period size: 100 Copynumber: 2.3 Consensus size: 104
196093 CAACCTTGGG
* * * * * * * *
196103 GGTTGTTCCAACCTTGAAAAACCATCTTTTCTTTTTTTGTTTTTCTACCTTGAGAGTTTTTCTAA
1 GGTTGTTCTAACCTTGAAAAGCTAAC-TTT-TTGTTTTGTTTTTCTACCTTAAGAGTTATTCCAA
* * *
196168 CCTTGAAAAGATAATTTTTCTTTTCTTATTTCTACTTTAGG
64 CCTTGAAAAGATAATTGTTCTTTTCGTATTTCTACTTTAGA
** *
196209 GGTTGTT-TCAATTTTGAAGAGCTAACTTTTTGTTTTG-TTTTCTACCTTAA-AGGTTATTCCAA
1 GGTTGTTCT-AACCTTGAAAAGCTAACTTTTTGTTTTGTTTTTCTACCTTAAGA-GTTATTCCAA
* *
196271 CGTTGAAAAGTTAATTGTT-TTTT-GT-TTTCTACTTTAGA
64 CCTTGAAAAGATAATTGTTCTTTTCGTATTTCTACTTTAGA
196309 GGTTGTTCTAACCTTGAAAAGCTAACTTTTT
1 GGTTGTTCTAACCTTGAAAAGCTAACTTTTT
196340 TTTCACTCAT
Statistics
Matches: 109, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
100 38 0.35
101 2 0.02
102 5 0.05
103 36 0.33
104 7 0.06
105 3 0.03
106 18 0.17
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (104 bp):
GGTTGTTCTAACCTTGAAAAGCTAACTTTTTGTTTTGTTTTTCTACCTTAAGAGTTATTCCAACC
TTGAAAAGATAATTGTTCTTTTCGTATTTCTACTTTAGA
Found at i:197014 original size:28 final size:28
Alignment explanation
Indices: 196973--197036 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
196963 TATAATAAAT
196973 TTTTAACTTATATTCTTATAAT-ATTTTC
1 TTTTAACTTATATT-TTATAATAATTTTC
* *
197001 TTTTAA-TTAGTATTTTATTATAATTTTT
1 TTTTAACTTA-TATTTTATAATAATTTTC
197029 TATTTAAC
1 T-TTTAAC
197037 ACATTTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 9 0.30
28 16 0.53
29 5 0.17
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTAACTTATATTTTATAATAATTTTC
Found at i:197365 original size:2 final size:2
Alignment explanation
Indices: 197358--197386 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
197348 ATCACATGCA
197358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
197387 AGTATGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198484 original size:74 final size:74
Alignment explanation
Indices: 198335--198488 Score: 209
Period size: 74 Copynumber: 2.1 Consensus size: 74
198325 TTTTAATTAT
* * *
198335 TAATAAGATTTATCATATTCATAAAAAAAAATTTAAATTCAATTGAAAGACTTTAGTTAAATTAA
1 TAATAAGATTTATCACATTCATAAAAAAAAATTTAAATTCAATTAAAAGACTTTAGTTAAATGAA
* *
198400 TTTATTTGA
66 TGTATATGA
* * * * **
198409 TAATAAGATTTATCACATTTATAAATAAAAATTTTAATTCTATTAAAAGACTTTAGTTAAATGCG
1 TAATAAGATTTATCACATTCATAAAAAAAAATTTAAATTCAATTAAAAGACTTTAGTTAAATGAA
198474 TGTATATGA
66 TGTATATGA
198483 TAATAA
1 TAATAA
198489 ATAAAAAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (74 bp):
TAATAAGATTTATCACATTCATAAAAAAAAATTTAAATTCAATTAAAAGACTTTAGTTAAATGAA
TGTATATGA
Found at i:198766 original size:24 final size:26
Alignment explanation
Indices: 198739--198792 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
198729 TATTTTTAGC
*
198739 AAATTATTTAT-AAATAA-AATAGTT
1 AAATTATTTATCAAATAATAATAGTA
*
198763 AAA-T-TTTATCAAATAATAATTGTA
1 AAATTATTTATCAAATAATAATAGTA
198787 AAATTA
1 AAATTA
198793 AAGTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.21
23 7 0.29
24 11 0.46
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (26 bp):
AAATTATTTATCAAATAATAATAGTA
Found at i:199621 original size:74 final size:74
Alignment explanation
Indices: 199509--199663 Score: 184
Period size: 74 Copynumber: 2.1 Consensus size: 74
199499 TTTTTATTAT
* * * **
199509 TAATAAAATTTATCACATTTATAAATTAAAACACTAATTCTATTGAAAGATTTTAATTAAATTTA
1 TAATAAAATTTATCACATTTATAAATAAAAACACTAATTCTATTAAAAGATTTGAATTAAATGAA
199574 TTTATTTGA
66 TTTATTTGA
* * ** * * **
199583 TAATAAGATTTATCATATTTATAAATAAAAATTCTAATTTTATTAAAATATTTGGGTTAAATGAA
1 TAATAAAATTTATCACATTTATAAATAAAAACACTAATTCTATTAAAAGATTTGAATTAAATGAA
199648 TTTATTTGA
66 TTTATTTGA
*
199657 TGATAAA
1 TAATAAA
199664 TAAATAAGAT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (74 bp):
TAATAAAATTTATCACATTTATAAATAAAAACACTAATTCTATTAAAAGATTTGAATTAAATGAA
TTTATTTGA
Found at i:201054 original size:19 final size:18
Alignment explanation
Indices: 201022--201064 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
201012 TTATAACTAA
*
201022 ATTTAAATTAAAAATATT
1 ATTTAAATTAAAAATACT
*
201040 ATTTTAATTAAAAAATACT
1 ATTTAAATT-AAAAATACT
201059 ATTTAA
1 ATTTAA
201065 GCTCAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTAAATTAAAAATACT
Found at i:205040 original size:27 final size:26
Alignment explanation
Indices: 204999--205050 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
204989 TTTGATTGTC
*
204999 AGGGATACTCTAACCTCGCTCTTCTG
1 AGGGATACTCCAACCTCGCTCTTCTG
* *
205025 AGGGTATACTCCAACCTTGCTTTTCT
1 AGGG-ATACTCCAACCTCGCTCTTCT
205051 CCAAAATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (26 bp):
AGGGATACTCCAACCTCGCTCTTCTG
Found at i:214165 original size:21 final size:21
Alignment explanation
Indices: 214114--214165 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
214104 GATTCCTTGT
* *
214114 GGTGGCTAAATATCCTGAAAG
1 GGTGGCCAACTATCCTGAAAG
* *
214135 GGTGGCCAACTATCTTGAATG
1 GGTGGCCAACTATCCTGAAAG
214156 GGTGGCCAAC
1 GGTGGCCAAC
214166 ATAGTTCCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (21 bp):
GGTGGCCAACTATCCTGAAAG
Found at i:218370 original size:62 final size:62
Alignment explanation
Indices: 218299--218620 Score: 391
Period size: 62 Copynumber: 5.2 Consensus size: 62
218289 TTTAAAACCC
* * *
218299 GTTGGTGGCACCTGTTTAGTCCTCAAAGAGTATGACACCTTTTTCTTTTAAAGCCCACACAA
1 GTTGGTGGCACCTGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAA
* *
218361 GTTGGTGGCACCCT-TTTAGTCCTCAAAGAGCAAGACGCCCCTTTTTTTTTTAAAGCCCACACAA
1 GTTGGTGGCA-CCTGTTTAGTCCTCAAAGAGCAGGACG--CCTTTTTCTTTTAAAGCCCACACAA
* *
218425 GTTGGTGGCACCCGTTTAGTCCTCAAAGTGCAGGACGCC--TTT-TTTTAAAGCCCACACAA
1 GTTGGTGGCACCTGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAA
* * **
218484 GTTGGTGGCACCTGTTTAGTCCTCAAAGAACAGGATGCCTTTTTCTTTTAAAAACCACACAA
1 GTTGGTGGCACCTGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAA
* * ** * * * **
218546 GTTAGTGGTACCCATTCAGTCCTCAAAGAGGAGGATGCCTTTTTCTTTTTAAAGCCCACATGA
1 GTTGGTGGCACCTGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAA
*
218609 GTTAGTGGCACC
1 GTTGGTGGCACC
218621 CTAACTAAAG
Statistics
Matches: 227, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
59 52 0.23
60 3 0.01
61 3 0.01
62 85 0.37
63 29 0.13
64 55 0.24
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (62 bp):
GTTGGTGGCACCTGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAA
Found at i:218705 original size:31 final size:31
Alignment explanation
Indices: 218658--218931 Score: 217
Period size: 32 Copynumber: 8.5 Consensus size: 31
218648 CACTTGAGTC
* *
218658 AAAGTCCATACAAGTTGGTGGCAACCCTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTT
*
218689 AAAGCTCACACAAGTTGGTGGCAACCCTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTT
* *
218720 AAAGCTCACACAAGTTGGTGGCAACCTTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTT
* * **
218751 CAAAGCCTACACAAGTTGGTGGCATCTTTTTT
1 -AAAGCCCACACAAGTTGGTGGCAACCCTTTT
* *
218783 AAAAAAAGCCCACACAAGTCT-ATGGCAACCCTCTCT
1 ----AAAGCCCACACAAGT-TGGTGGCAACCCT-TTT
* * ** * *
218819 AAAGTCTACACAAGTCAGTGGCAATTACCTTTC
1 AAAGCCCACACAAGTTGGTGGCAA--CCCTTTT
* **
218852 AAAGCCCACACAAGTTGGTGGCATCTTTTTTT
1 AAAGCCCACACAAGTTGGTGGCAAC-CCTTTT
* **
218884 CAAAGCCCACACAAGTTGGTAGCAACCCTCCCT
1 -AAAGCCCACACAAGTTGGTGGCAACCCT-TTT
*
218917 GAAGCCCACACAAGT
1 AAAGCCCACACAAGT
218932 CAACAACAAC
Statistics
Matches: 193, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
31 58 0.30
32 64 0.33
33 44 0.23
34 3 0.02
35 21 0.11
36 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTT
Found at i:218866 original size:33 final size:33
Alignment explanation
Indices: 218787--218899 Score: 90
Period size: 33 Copynumber: 3.5 Consensus size: 33
218777 TTTTTTAAAA
* *
218787 AAAGCCCACACAAGTCTA-TGGCAA--CCCTCTC
1 AAAGCCCACACAAGTC-AGTGGCAATTACCTTTC
* *
218818 TAAAGTCTACACAAGTCAGTGGCAATTACCTTTC
1 -AAAGCCCACACAAGTCAGTGGCAATTACCTTTC
** ***
218852 AAAGCCCACACAAGTTGGTGGC-ATCTTTTTTTC
1 AAAGCCCACACAAGTCAGTGGCAAT-TACCTTTC
218885 AAAGCCCACACAAGT
1 AAAGCCCACACAAGT
218900 TGGTAGCAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
31 1 0.02
32 22 0.33
33 38 0.58
34 5 0.08
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (33 bp):
AAAGCCCACACAAGTCAGTGGCAATTACCTTTC
Found at i:218900 original size:33 final size:32
Alignment explanation
Indices: 218656--218910 Score: 207
Period size: 31 Copynumber: 7.9 Consensus size: 32
218646 GGCACTTGAG
* * *
218656 TCAAAGTCCATACAAGTTGGTGGCAACCCTTT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTT
* *
218688 T-AAAGCTCACACAAGTTGGTGGCAACCCTTT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTT
*
218719 T-AAAGCTCACACAAGTTGGTGGCAACCTTTT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTT
* * *
218750 TCAAAGCCTACACAAGTTGGTGGCATCTTTTT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTT
* * * *
218782 TAAAAAAAGCCCACACAAGTCT-ATGGCAACC-CTC
1 T---CAAAGCCCACACAAGT-TGGTGGCAACCTTTT
* * **
218816 TCTAAAGTCTACACAAGTCAGTGGCAA--TTACCTT
1 TC-AAAGCCCACACAAGTTGGTGGCAACCTT---TT
* *
218850 TCAAAGCCCACACAAGTTGGTGGCATCTTTTTT
1 TCAAAGCCCACACAAGTTGGTGGCAAC-CTTTT
*
218883 TCAAAGCCCACACAAGTTGGTAGCAACC
1 TCAAAGCCCACACAAGTTGGTGGCAACC
218911 CTCCCTGAAG
Statistics
Matches: 179, Mismatches: 30, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
31 58 0.32
32 47 0.26
33 46 0.26
34 5 0.03
35 20 0.11
36 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (32 bp):
TCAAAGCCCACACAAGTTGGTGGCAACCTTTT
Found at i:218933 original size:98 final size:95
Alignment explanation
Indices: 218656--218933 Score: 285
Period size: 98 Copynumber: 2.9 Consensus size: 95
218646 GGCACTTGAG
* * * ** * *
218656 TCAAAGTCCATACAAGTTGGTGGCAAC-CCTTTTAAAGCTCACACAAGTTGGTGGCAACCCT-TT
1 TCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTAAAGCCCACACAAGTTGGTGGCAACCCTCTC
* **
218719 TAAAGCTCACACAAGTTGGTGGCAACCTTTT
66 TAAAGCCCACACAAGTCAGTGGCAACC-TTT
* * *
218750 TCAAAGCCTACACAAGTTGGTGGCATCTTTTTTAAAAAAAGCCCACACAAGTCT-ATGGCAACCC
1 TCAAAGCCCACACAAGTTGGTGGCATCTTTTTT---TAAAGCCCACACAAGT-TGGTGGCAACCC
* *
218814 TCTCTAAAGTCTACACAAGTCAGTGGCAATTACC-TT
62 TCTCTAAAGCCCACACAAGTCAGTGGC-A--ACCTTT
* *
218850 TCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTCAAAGCCCACACAAGTTGGTAGCAACCCTCC
1 TCAAAGCCCACACAAGTTGGTGGCATCTTTTTTT-AAAGCCCACACAAGTTGGTGGCAACCCTCT
*
218915 CTGAAGCCCACACAAGTCA
65 CTAAAGCCCACACAAGTCA
218934 ACAACAACCT
Statistics
Matches: 150, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
94 23 0.15
95 3 0.02
97 1 0.01
98 65 0.43
99 20 0.13
100 35 0.23
102 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (95 bp):
TCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTAAAGCCCACACAAGTTGGTGGCAACCCTCTC
TAAAGCCCACACAAGTCAGTGGCAACCTTT
Found at i:218959 original size:98 final size:99
Alignment explanation
Indices: 218741--218964 Score: 233
Period size: 98 Copynumber: 2.3 Consensus size: 99
218731 AAGTTGGTGG
* *
218741 CAACCTTTTTCAAAGCCTACACAAGTTGGTGGCATCTTTTTTAAAAAAAGCCCACACAAGTCTAT
1 CAACCTTTTTCAAAACCCACACAAGTTGGTGGCATCTTTTTT-AAAAAAGCCCACACAAGTCTAT
* * * * *
218806 GGCAACCCTCTCTAAAGTCTACACAAGTCAGTGGCAA
65 AGCAACCCTCCCTAAAGCCCACACAAGTCA--GACAA
** * ** *
218843 TTACC--TTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTT-TCAAAGCCCACACAAGT-TGGT
1 CAACCTTTTTCAAAACCCACACAAGTTGGTGGCATCTTTTTTAAAAAAGCCCACACAAGTCT-AT
*
218904 AGCAACCCTCCCTGAAGCCCACACAAGTCA-ACAA
65 AGCAACCCTCCCTAAAGCCCACACAAGTCAGACAA
*
218938 CAACCTTTTTCTAAAATCCACACAAGT
1 CAACCTTTTTC-AAAACCCACACAAGT
218965 CGATGTATCT
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
95 6 0.06
97 5 0.05
98 54 0.53
100 34 0.33
102 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (99 bp):
CAACCTTTTTCAAAACCCACACAAGTTGGTGGCATCTTTTTTAAAAAAGCCCACACAAGTCTATA
GCAACCCTCCCTAAAGCCCACACAAGTCAGACAA
Found at i:219086 original size:52 final size:52
Alignment explanation
Indices: 218980--219087 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 52
218970 TATCTCTTTC
* * * *
218980 TAAGCCCAATGTCGCTGGCCTTAAATCAACACACTGGCACCTTTATTATTTT
1 TAAGCCCAATGTCACTGGCCTTAAATCAACACACTGGCACCATTATCATCTT
* * * * *
219032 TAAGCCCAATGTCATTGGCCTTGAATCAGCTCACTGGCACCATTGTCATCTT
1 TAAGCCCAATGTCACTGGCCTTAAATCAACACACTGGCACCATTATCATCTT
219084 TAAG
1 TAAG
219088 TTTGATATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (52 bp):
TAAGCCCAATGTCACTGGCCTTAAATCAACACACTGGCACCATTATCATCTT
Found at i:220172 original size:29 final size:29
Alignment explanation
Indices: 220130--220187 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
220120 TTTTGGGTTT
*
220130 TTCTTTGAGGTGAGAAAGGAAGAAGGAAG
1 TTCTTTGAGGTGAGAAAGAAAGAAGGAAG
220159 TTCTTTGAGGTGAGAAAGAAAGAAGGAAG
1 TTCTTTGAGGTGAGAAAGAAAGAAGGAAG
220188 AAAATGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.03, G:0.36, T:0.21
Consensus pattern (29 bp):
TTCTTTGAGGTGAGAAAGAAAGAAGGAAG
Found at i:226129 original size:18 final size:18
Alignment explanation
Indices: 226093--226127 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
226083 CAACAATTCA
226093 CTACACATTAGATATTTT
1 CTACACATTAGATATTTT
*
226111 CTACAC-TTAGATCTTTT
1 CTACACATTAGATATTTT
226128 TCAGTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (18 bp):
CTACACATTAGATATTTT
Found at i:229907 original size:2 final size:2
Alignment explanation
Indices: 229900--229930 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
229890 AAGCATGGGC
229900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
229931 TAAAAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:232593 original size:2 final size:2
Alignment explanation
Indices: 232581--232620 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
232571 TCGTGGTTCT
232581 TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
232621 TTAAATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:234964 original size:26 final size:26
Alignment explanation
Indices: 234910--234970 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
234900 TGTATATAAC
*
234910 TTAAAGAAAAGAACTAACAGCACAAT
1 TTAAAGAAAAGAACTAACAGCAAAAT
*
234936 TTAAAGTAAA-AACATAA-AGCAAAACT
1 TTAAAGAAAAGAAC-TAACAGCAAAA-T
234962 TTAACAGAA
1 TTAA-AGAA
234971 TTTAAAGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.31
26 17 0.59
27 3 0.10
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (26 bp):
TTAAAGAAAAGAACTAACAGCAAAAT
Found at i:235856 original size:17 final size:17
Alignment explanation
Indices: 235826--235862 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
235816 AGAGGAAAAT
235826 AAACAAAAAAAAAAAGA
1 AAACAAAAAAAAAAAGA
* *
235843 AAACAGAAACAAAAAGA
1 AAACAAAAAAAAAAAGA
235860 AAA
1 AAA
235863 TGAATGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (17 bp):
AAACAAAAAAAAAAAGA
Found at i:237459 original size:5 final size:5
Alignment explanation
Indices: 237447--237479 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
237437 ACAACTATTT
*
237447 GGTT- GGTTT GGTTA GGTTA GGTTA GGTTA GGTT
1 GGTTA GGTTA GGTTA GGTTA GGTTA GGTTA GGTT
237480 TTTCTAGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.45
Consensus pattern (5 bp):
GGTTA
Found at i:239065 original size:3 final size:3
Alignment explanation
Indices: 239057--239096 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
239047 ATGATTCTGA
239057 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
239097 TTGGTGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:240008 original size:14 final size:14
Alignment explanation
Indices: 239972--240010 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
239962 TGCATACATT
* *
239972 CATTCATTCAAATG
1 CATTCATTTATATG
239986 CATTCATTTATATG
1 CATTCATTTATATG
*
240000 CATTTATTTAT
1 CATTCATTTAT
240011 TCATCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (14 bp):
CATTCATTTATATG
Found at i:240293 original size:21 final size:22
Alignment explanation
Indices: 240269--240316 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
240259 CTCTTTAAGT
*
240269 TAAAACAAGA-TAAATTACACA
1 TAAAACAAGATTAAATTACAAA
* *
240290 TAAAACTAGATTAAATTTCAAA
1 TAAAACAAGATTAAATTACAAA
240312 TAAAA
1 TAAAA
240317 GCTTTTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (22 bp):
TAAAACAAGATTAAATTACAAA
Found at i:240899 original size:34 final size:35
Alignment explanation
Indices: 240861--240927 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
240851 CCTTACAACA
240861 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
240895 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
240928 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:241424 original size:19 final size:18
Alignment explanation
Indices: 241368--241424 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
241358 CAAGCCAATG
*
241368 TATCGATACAATTTTTTGGTG
1 TATCGATACAA---TTTGGTA
*
241389 TATCGATACATACTTGGTA
1 TATCGATACA-ATTTGGTA
241408 TATCGATACAAGTTTGG
1 TATCGATACAA-TTTGG
241425 CTACTGCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 19 0.61
21 10 0.32
22 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (18 bp):
TATCGATACAATTTGGTA
Found at i:243893 original size:23 final size:24
Alignment explanation
Indices: 243848--243894 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
243838 CAAAGAATTG
*
243848 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
243872 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
243895 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:246477 original size:34 final size:35
Alignment explanation
Indices: 246439--246505 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
246429 CCTTACAACA
246439 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
246473 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
246506 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:246969 original size:21 final size:20
Alignment explanation
Indices: 246944--246996 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
246934 TACAAGCCAA
**
246944 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA-TACTTGG
246965 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
246984 TGTATCGATACAA
1 TGTATCGATACAA
246997 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:247002 original size:19 final size:18
Alignment explanation
Indices: 246944--247002 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 18
246934 TACAAGCCAA
246944 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA---TTTGG
*
246965 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
246984 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
247003 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
21 12 0.35
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:247802 original size:24 final size:24
Alignment explanation
Indices: 247775--247823 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
247765 TACACTTGAG
* *
247775 ATCCTATGAAGTATTGAAATCCTT
1 ATCCTATAAAATATTGAAATCCTT
247799 ATCCTATAAAATATTGAAATCCTT
1 ATCCTATAAAATATTGAAATCCTT
247823 A
1 A
247824 CACTTAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (24 bp):
ATCCTATAAAATATTGAAATCCTT
Found at i:251530 original size:14 final size:14
Alignment explanation
Indices: 251511--251546 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
251501 ACATTCATTT
251511 ATCCAAATGCACTC
1 ATCCAAATGCACTC
*
251525 ATCCAAATGCATTC
1 ATCCAAATGCACTC
*
251539 ATTCAAAT
1 ATCCAAAT
251547 ATATCCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (14 bp):
ATCCAAATGCACTC
Found at i:251557 original size:18 final size:18
Alignment explanation
Indices: 251534--251582 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
251524 CATCCAAATG
251534 CATTCATTCAAATATATC
1 CATTCATTCAAATATATC
*
251552 CATTCATTTAAATATATC
1 CATTCATTCAAATATATC
251570 CATTCATTCAAAT
1 CATTCATTCAAAT
251583 GCATTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (18 bp):
CATTCATTCAAATATATC
Found at i:254116 original size:26 final size:26
Alignment explanation
Indices: 254062--254122 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
254052 ATTTTTTAAA
**
254062 TAAAAAT-TATAAAAATAATAACTTCT
1 TAAAAATATATAAAAATAATAAC-AAT
254088 TAAAAATATATAAAAATAATGAA-AAT
1 TAAAAATATATAAAAATAAT-AACAAT
*
254114 TAATAATAT
1 TAAAAATAT
254123 TATTTTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 16 0.53
27 12 0.40
28 2 0.07
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAAAATATATAAAAATAATAACAAT
Found at i:255100 original size:24 final size:23
Alignment explanation
Indices: 255072--255154 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 23
255062 ATAAACTTAG
255072 AATTAAAATTAAATTATTATAATT
1 AATTAAAA-TAAATTATTATAATT
* *
255096 AATTATAAAAAAATCTAAT-TAATT
1 AATTA-AAATAAAT-TATTATAATT
*
255120 AATCTAAAATATAATTAATATATAAAT
1 AAT-TAAAATA-AATT-AT-TATAATT
255147 AATTAAAA
1 AATTAAAA
255155 ATATGATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
24 22 0.47
25 12 0.26
26 6 0.13
27 7 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTAAAATAAATTATTATAATT
Found at i:255406 original size:2 final size:2
Alignment explanation
Indices: 255399--255423 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
255389 TCATAACTTC
255399 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
255424 ACATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:255449 original size:14 final size:14
Alignment explanation
Indices: 255430--255539 Score: 50
Period size: 14 Copynumber: 7.6 Consensus size: 14
255420 TATAACATAA
255430 ATAAAATATAAAAT
1 ATAAAATATAAAAT
* *
255444 ATAAAATTTTTTAAAT
1 ATAAAA--TATAAAAT
*
255460 -T-AAATTTACAAAT
1 ATAAAATATA-AAAT
* *
255473 ATAATATAAAAAAT
1 ATAAAATATAAAAT
*
255487 -TAAAA-ATAATAT
1 ATAAAATATAAAAT
255499 AATAAATAATATAAAAAT
1 -AT-AA-AATAT-AAAAT
255517 AATAAAATATATAAA-
1 -ATAAAATATA-AAAT
255532 ATAAAATA
1 ATAAAATA
255540 AATTATTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
12 8 0.11
13 8 0.11
14 23 0.31
15 8 0.11
16 16 0.22
17 4 0.05
18 7 0.09
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAATATAAAAT
Found at i:255486 original size:22 final size:20
Alignment explanation
Indices: 255461--255520 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 20
255451 TTTTTAAATT
255461 AAATTTACAAATATAATATAAA
1 AAATTTA-AAA-ATAATATAAA
255483 AAA-TTAAAAATAATATAATAA
1 AAATTTAAAAATAATAT-A-AA
*
255504 ATAATATAAAAATAATA
1 A-AATTTAAAAATAATA
255521 AAATATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 6 0.18
22 5 0.15
23 11 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATTTAAAAATAATATAAA
Found at i:255517 original size:23 final size:23
Alignment explanation
Indices: 255469--255537 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
255459 TTAAATTTAC
* *
255469 AAAT-ATAATATAAAAAAT-TAA
1 AAATAATAAAATAAATAATATAA
*
255490 AAATAATATAATAAATAATATAA
1 AAATAATAAAATAAATAATATAA
* *
255513 AAATAATAAAATATATAAAATAA
1 AAATAATAAAATAAATAATATAA
255536 AA
1 AA
255538 TAAATTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.10
22 11 0.28
23 25 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAATAAAATAAATAATATAA
Found at i:255520 original size:18 final size:18
Alignment explanation
Indices: 255497--255594 Score: 64
Period size: 18 Copynumber: 5.6 Consensus size: 18
255487 TAAAAATAAT
255497 ATAATAAATAATATAAAA
1 ATAATAAATAATATAAAA
255515 ATAATAAA-ATATATAAAA
1 ATAATAAATA-ATATAAAA
* * *
255533 TAAAATAAAT--TATTAAT
1 -ATAATAAATAATATAAAA
* *
255550 ATAA-AAAT-TTACATAAA
1 ATAATAAATAATATA-AAA
* *
255567 ATAATAAATAATACAAAC
1 ATAATAAATAATATAAAA
255585 ATAA-AAATAA
1 ATAATAAATAA
255595 GAAAATTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
15 4 0.06
16 5 0.08
17 18 0.28
18 26 0.41
19 11 0.17
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAATAAATAATATAAAA
Found at i:255524 original size:31 final size:32
Alignment explanation
Indices: 255473--255536 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
255463 ATTTACAAAT
* *
255473 ATAATATAAAAAATTAAAAATA-ATATAATAA
1 ATAATATAAAAAAATAAAAATATATAAAATAA
255504 ATAATATAAAAATAAT-AAAATATATAAAATAA
1 ATAATATAAAAA-AATAAAAATATATAAAATAA
255536 A
1 A
255537 ATAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (32 bp):
ATAATATAAAAAAATAAAAATATATAAAATAA
Found at i:258603 original size:3 final size:3
Alignment explanation
Indices: 258597--258624 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
258587 GTACTAGCAG
258597 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
258625 CTTCTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:259845 original size:18 final size:18
Alignment explanation
Indices: 259817--259875 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
259807 TAATATTTTT
259817 ATATT-TTTAATTAATTA
1 ATATTATTTAATTAATTA
*
259834 ATATTATTTAATTCA-TA
1 ATATTATTTAATTAATTA
*
259851 ATATTAATTTAATCAATT-
1 ATATT-ATTTAATTAATTA
259869 ATATTAT
1 ATATTAT
259876 ATAGTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.39
18 21 0.58
19 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTATTTAATTAATTA
Found at i:259852 original size:25 final size:24
Alignment explanation
Indices: 259788--259852 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 24
259778 CATCCTGTTC
* *
259788 TTTAATATGATAATTTATTTAATATT
1 TTTAAT-TCATAA-TTAATTAATATT
**
259814 TTTATATTTTTAATTAATTAATATT
1 TTTA-ATTCATAATTAATTAATATT
259839 ATTTAATTCATAAT
1 -TTTAATTCATAAT
259853 ATTAATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 18 0.56
26 12 0.38
27 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTAATTCATAATTAATTAATATT
Found at i:260270 original size:19 final size:19
Alignment explanation
Indices: 260234--260273 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
260224 TTTTGCAAAT
* **
260234 AAAAAATATTTTTTTTTAA
1 AAAAAATATTGTGATTTAA
260253 AAAAAATATTGTGATTTAA
1 AAAAAATATTGTGATTTAA
260272 AA
1 AA
260274 GGAATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
AAAAAATATTGTGATTTAA
Found at i:260526 original size:26 final size:26
Alignment explanation
Indices: 260473--260547 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
260463 TTAAAAAATT
* *
260473 AATATTATTATTTAAAATT--ATTT-
1 AATATTAATATTTATAATTAAATTTA
*
260496 TATATTAATATTTATAATTAAATTTA
1 AATATTAATATTTATAATTAAATTTA
* * * *
260522 AATATAAAAATTTTTATTTAAATTTA
1 AATATTAATATTTATAATTAAATTTA
260548 CCAAATTAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 16 0.39
25 4 0.10
26 21 0.51
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATTAATATTTATAATTAAATTTA
Found at i:260893 original size:21 final size:21
Alignment explanation
Indices: 260846--260893 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
260836 ATTTATTAAT
*
260846 ATATTATTTATAATAATAATA
1 ATATTATTTATAATAATAAAA
260867 ATATTATATTA-AAT-ATAAAA
1 ATATTAT-TTATAATAATAAAA
260887 ATTATTA
1 A-TATTA
260894 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTATTTATAATAATAAAA
Found at i:261060 original size:29 final size:29
Alignment explanation
Indices: 261005--261060 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
260995 TGAATAAGTA
*
261005 ATTTAAAATATTTTTTAAAGTTTAATATT
1 ATTTAAAATATTTTTTAAAGTTAAATATT
* *
261034 ATTTATAATATTTTATTATA-TTAAATA
1 ATTTAAAATATTTT-TTAAAGTTAAATA
261061 AAATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
ATTTAAAATATTTTTTAAAGTTAAATATT
Found at i:261856 original size:48 final size:50
Alignment explanation
Indices: 261799--261908 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
261789 AGTTGCTTAG
* * *
261799 AGTCAACAATTACGA-C-CATCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACATCTCTCGATTGTCAAAGGTTAGTGAAAAAT
* *
261847 CGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTGAAAAAT
1 AGTCAACAATTACGATCACATCTCTCGATTGTCAAAGGTTAGTGAAAAAT
*
261897 AGTCAATAATTA
1 AGTCAACAATTA
261909 GTTTTGGTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 14 0.26
49 1 0.02
50 38 0.72
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGATCACATCTCTCGATTGTCAAAGGTTAGTGAAAAAT
Found at i:266399 original size:50 final size:50
Alignment explanation
Indices: 266321--266452 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
266311 AGTTGCTTAG
* * *
266321 AGTCAACAATTACGGCCACCTCTCTTGATTGT-TAAAGGTTGGTGAAGAAT
1 AGTCAATAATTACGGTCACCTCTCTTGATTGTCTAAA-GTTAGTGAAGAAT
* *
266371 AGTCAATAATTACGATCACCTCTTTTGATTGTCTAAAGTTAGTGAAGAAT
1 AGTCAATAATTACGGTCACCTCTCTTGATTGTCTAAAGTTAGTGAAGAAT
* * *
266421 CGTTAATAATTACGGTCACCTCTCTCGATTGT
1 AGTCAATAATTACGGTCACCTCTCTTGATTGT
266453 AATCTCTCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 67 0.94
51 4 0.06
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (50 bp):
AGTCAATAATTACGGTCACCTCTCTTGATTGTCTAAAGTTAGTGAAGAAT
Found at i:267055 original size:20 final size:19
Alignment explanation
Indices: 267030--267083 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
267020 TTTATTATTA
267030 ATAATTAATTAAATAAATTT
1 ATAATT-ATTAAATAAATTT
*
267050 ATAATTATTTAATAAA-TT
1 ATAATTATTAAATAAATTT
*
267068 ATTATT-TTAAATAAAT
1 ATAATTATTAAATAAAT
267084 CATTTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.27
18 7 0.23
19 9 0.30
20 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATTATTAAATAAATTT
Found at i:267981 original size:2 final size:2
Alignment explanation
Indices: 267976--268000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
267966 AAAACAAGAT
267976 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
268001 TTAAAAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:268957 original size:19 final size:19
Alignment explanation
Indices: 268935--268974 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
268925 AGATGACATT
268935 TTTTATATTAA-TATAACAA
1 TTTTATATTAATTAT-ACAA
*
268954 TTTTGTATTAATTATACAA
1 TTTTATATTAATTATACAA
268973 TT
1 TT
268975 AAATATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTATATTAATTATACAA
Found at i:272308 original size:16 final size:17
Alignment explanation
Indices: 272278--272310 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
272268 AAATAAAAGA
*
272278 TAAAAATTATGAAAAAT
1 TAAAAATTATAAAAAAT
272295 TAAAAA-TATAAAAAAT
1 TAAAAATTATAAAAAAT
272311 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAAATTATAAAAAAT
Found at i:272692 original size:24 final size:25
Alignment explanation
Indices: 272665--272717 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
272655 TTATTTAAAA
272665 TTAATTAAATAAATTTATA-A-TTAT
1 TTAATTAAAT-AATTTATATATTTAT
*
272689 TTAA-TAAATTATTTATATATTTAT
1 TTAATTAAATAATTTATATATTTAT
272713 TTAAT
1 TTAAT
272718 AATTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.28
23 6 0.24
24 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAATTAAATAATTTATATATTTAT
Found at i:272696 original size:19 final size:20
Alignment explanation
Indices: 272657--272698 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
272647 TCTTTTTATT
272657 ATTTAAAATTAATTAAATAA
1 ATTTAAAATTAATTAAATAA
* *
272677 ATTTATAATT-ATTTAATAA
1 ATTTAAAATTAATTAAATAA
272696 ATT
1 ATT
272699 ATTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAAATTAATTAAATAA
Found at i:272700 original size:12 final size:12
Alignment explanation
Indices: 272683--272724 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
272673 ATAAATTTAT
272683 AATTATTTAATA
1 AATTATTTAATA
272695 AATTATTT-ATA
1 AATTATTTAATA
*
272706 TATTTATTTAAT-
1 -AATTATTTAATA
272718 AATTATT
1 AATTATT
272725 ATTCGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 9 0.35
12 15 0.58
13 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTATTTAATA
Found at i:272718 original size:24 final size:21
Alignment explanation
Indices: 272654--272724 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
272644 TATTCTTTTT
* *
272654 ATTATTTAAAATTAATTAAATA
1 ATTATTTATAATT-ATTTAATA
272676 A--ATTTATAATTATTTAATAA
1 ATTATTTATAATTATTTAAT-A
272696 ATTATTTATATATTTATTTAATA
1 ATTATTTATA-A-TTATTTAATA
272719 ATTATT
1 ATTATT
272725 ATTCGTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.14
20 11 0.26
22 8 0.19
23 8 0.19
24 9 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTATAATTATTTAATA
Found at i:276291 original size:20 final size:20
Alignment explanation
Indices: 276266--276314 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
276256 AAATAGAGGC
276266 TCCCTCTTCCCTCTCAAGCA
1 TCCCTCTTCCCTCTCAAGCA
* ** *
276286 TCCCTCATCCCTCTCTTGTA
1 TCCCTCTTCCCTCTCAAGCA
276306 TCCCTCTTC
1 TCCCTCTTC
276315 AATTTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.49, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCTTCCCTCTCAAGCA
Found at i:278793 original size:21 final size:22
Alignment explanation
Indices: 278764--278809 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
278754 TGTTCAGACA
** *
278764 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
278786 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
278807 AGT
1 AGT
278810 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:287435 original size:25 final size:25
Alignment explanation
Indices: 287401--287449 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
287391 TTTATTTAAC
*
287401 TCATAATTATTACT-ATATTAAAATA
1 TCATAATTATGA-TGATATTAAAATA
287426 TCATAATTATGATGATATTAAAAT
1 TCATAATTATGATGATATTAAAAT
287450 TATGAGGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
TCATAATTATGATGATATTAAAATA
Found at i:287651 original size:28 final size:29
Alignment explanation
Indices: 287588--287651 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
287578 TACATAATAT
* *
287588 ATATT-AATTTGTAATTTTTATCATATAA
1 ATATTAAATATGTAATTATTATCATATAA
* * *
287616 AAAATAAATATGT-ATTATTATGATATAA
1 ATATTAAATATGTAATTATTATCATATAA
287644 ATATTAAA
1 ATATTAAA
287652 AAATATATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (29 bp):
ATATTAAATATGTAATTATTATCATATAA
Found at i:287733 original size:14 final size:14
Alignment explanation
Indices: 287714--287756 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
287704 AAATGGTAAA
287714 TTTAAAAAATATAT
1 TTTAAAAAATATAT
*
287728 TTTAAAAAATAAAT
1 TTTAAAAAATATAT
*
287742 TATAAAAAAATATAT
1 T-TTAAAAAATATAT
287757 AACTGAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTAAAAAATATAT
Found at i:288126 original size:18 final size:18
Alignment explanation
Indices: 288070--288127 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
288060 TTAATTTCCA
*
288070 AATAAAAATT-TTC-ATT
1 AATAAAATTTATTCAATT
**
288086 AA-ATAAATTTATTTGATT
1 AATA-AAATTTATTCAATT
288104 AATAAAATTTATTCAATT
1 AATAAAATTTATTCAATT
*
288122 TATAAA
1 AATAAA
288128 TAAAAAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.03
16 7 0.21
17 2 0.06
18 22 0.67
19 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAAAATTTATTCAATT
Found at i:288820 original size:14 final size:14
Alignment explanation
Indices: 288791--288825 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
288781 AAGATTAAGG
288791 AAAGAAA-GAAAAT
1 AAAGAAAGGAAAAT
*
288804 AAAGAAAGGAAAGT
1 AAAGAAAGGAAAAT
288818 AAAGAAAG
1 AAAGAAAG
288826 AAGAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (14 bp):
AAAGAAAGGAAAAT
Found at i:292236 original size:14 final size:13
Alignment explanation
Indices: 292199--292274 Score: 63
Period size: 14 Copynumber: 6.0 Consensus size: 13
292189 AAGATAATAT
292199 AATTATTA-ATTA
1 AATTATTATATTA
**
292211 TTTTA-TATATTA
1 AATTATTATATTA
*
292223 AATATATCATATT-
1 AAT-TATTATATTA
292236 AATTA-TAT-TTA
1 AATTATTATATTA
292247 AATATATTATATTA
1 AAT-TATTATATTA
292261 TAATTATTATATTA
1 -AATTATTATATTA
292275 TTTAATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
10 2 0.04
11 7 0.14
12 12 0.24
13 8 0.16
14 18 0.36
15 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTATTATATTA
Found at i:292252 original size:24 final size:25
Alignment explanation
Indices: 292213--292274 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 25
292203 ATTAATTATT
292213 TTATATATTAAATATATCATATTAA
1 TTATATATTAAATATATCATATTAA
*
292238 TTATAT-TTAAATATATTATATTATAA
1 TTATATATTAAATATATCATA-T-TAA
292264 TTATTATATTA
1 TTA-TATATTA
292275 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 13 0.41
25 7 0.22
26 6 0.19
27 3 0.09
28 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATATTAAATATATCATATTAA
Found at i:292882 original size:2 final size:2
Alignment explanation
Indices: 292877--292901 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
292867 TAAAAATTAC
292877 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
292902 CTTTTGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:293789 original size:28 final size:28
Alignment explanation
Indices: 293735--293789 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
293725 TTCTCATTCG
* *
293735 ATTTAAATTGTCATTTAATTATAAAATT
1 ATTTAAATTGTCATTAAATAATAAAATT
*
293763 ATTTAAATT-TTATTAAATAATACAAAT
1 ATTTAAATTGTCATTAAATAATA-AAAT
293790 ATTAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAAATTGTCATTAAATAATAAAATT
Found at i:293824 original size:19 final size:19
Alignment explanation
Indices: 293767--293825 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
293757 AAAATTATTT
*
293767 AAATTTTATTAA-ATAATA
1 AAATTTTAATAATATAATA
* *
293785 CAAATATTAATAATAAAATA
1 -AAATTTTAATAATATAATA
*
293805 AAATTTTAATAATATTATA
1 AAATTTTAATAATATAATA
293824 AA
1 AA
293826 CAATAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTTAATAATATAATA
Found at i:293831 original size:31 final size:30
Alignment explanation
Indices: 293796--293855 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
293786 AAATATTAAT
293796 AATAAAATAAAATT-TTAATAATATTATAAAC
1 AATAAAATAAAATTATTAATAA-ATT-TAAAC
*
293827 AATAAAATAAATTTATTAATAAATTTAAA
1 AATAAAATAAAATTATTAATAAATTTAAA
293856 TTTAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 16 0.59
32 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AATAAAATAAAATTATTAATAAATTTAAAC
Found at i:298566 original size:2 final size:2
Alignment explanation
Indices: 298553--298586 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
298543 AAAAAGTAAA
*
298553 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
298587 TTGGTGGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:300638 original size:47 final size:47
Alignment explanation
Indices: 300576--300669 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
300566 TCAAAGACTT
* * *
300576 GGTAATGCAACCCATGAAATATCCAACTCAGACAAGTCACCAAACTA
1 GGTAATACAACCCATGAAATATCAAACTCAGACAAGTCAACAAACTA
*
300623 GGTAATACAATCCATGAAATATCAAACTCAGACAAGTCAACAAACTA
1 GGTAATACAACCCATGAAATATCAAACTCAGACAAGTCAACAAACTA
300670 TTAAAATCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (47 bp):
GGTAATACAACCCATGAAATATCAAACTCAGACAAGTCAACAAACTA
Found at i:305671 original size:25 final size:25
Alignment explanation
Indices: 305623--305672 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
305613 TGAAAATACA
* * *
305623 AAAAATTAAATATAATTATATTATT
1 AAAAATAAAATAAAAATATATTATT
*
305648 AAAAATAAAATAAAAATATTTTATT
1 AAAAATAAAATAAAAATATATTATT
305673 TATAACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAAATAAAATAAAAATATATTATT
Found at i:308080 original size:12 final size:13
Alignment explanation
Indices: 308063--308091 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
308053 CAATGCCAAC
308063 TTTTATTTTTA-T
1 TTTTATTTTTACT
308075 TTTTATTTTTACT
1 TTTTATTTTTACT
308088 TTTT
1 TTTT
308092 TTCATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTACT
Found at i:310639 original size:23 final size:23
Alignment explanation
Indices: 310605--310648 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
310595 GTTGTACCAT
*
310605 TTAATTTATGATAAATTAATTAG
1 TTAATTTATGATAAATCAATTAG
*
310628 TTAATTTTTGATAAATCAATT
1 TTAATTTATGATAAATCAATT
310649 GGTTTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
TTAATTTATGATAAATCAATTAG
Found at i:312172 original size:12 final size:14
Alignment explanation
Indices: 312140--312173 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
312130 AAAATTAAAA
312140 AATATTTATATATT
1 AATATTTATATATT
312154 AATATTTATA-ATT
1 AATATTTATATATT
312167 AA-ATTTA
1 AATATTTA
312174 CATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 5 0.25
14 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:312918 original size:17 final size:17
Alignment explanation
Indices: 312897--312940 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
312887 GGTTCATTTT
312897 ATTTTAAGTTTAAATAA
1 ATTTTAAGTTTAAATAA
* * *
312914 TTTTTGAGTTTGAATAA
1 ATTTTAAGTTTAAATAA
312931 ATTTTAAGTT
1 ATTTTAAGTT
312941 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (17 bp):
ATTTTAAGTTTAAATAA
Found at i:314080 original size:18 final size:19
Alignment explanation
Indices: 314030--314082 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
314020 GTTAAAATAA
*
314030 AATTGATAATTAAAAGTTT
1 AATTAATAATTAAAAGTTT
* * *
314049 ATTTAATAA-AAAAATTTT
1 AATTAATAATTAAAAGTTT
314067 AATT-ATAATTAAAAGT
1 AATTAATAATTAAAAGT
314083 GCTTGTGGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
AATTAATAATTAAAAGTTT
Found at i:314487 original size:25 final size:25
Alignment explanation
Indices: 314453--314503 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
314443 CTTGAAACTT
314453 AAATGTTGGAGCTAAGTTCAGGCTC
1 AAATGTTGGAGCTAAGTTCAGGCTC
* * *
314478 AAATGTTGGAGTTAATTTCGGGCTC
1 AAATGTTGGAGCTAAGTTCAGGCTC
314503 A
1 A
314504 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (25 bp):
AAATGTTGGAGCTAAGTTCAGGCTC
Found at i:317019 original size:45 final size:45
Alignment explanation
Indices: 316969--317058 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
316959 AGGTATTGTT
*
316969 GATAATTATCAAGAAAAGTTTGAAGAACGTAGGCCTTACATGCTC
1 GATAATTATCAAGAAAAGTTTAAAGAACGTAGGCCTTACATGCTC
317014 GATAATTATCAAGAAAAGTTTAAAGAACGTAGGCCTTACATGCTC
1 GATAATTATCAAGAAAAGTTTAAAGAACGTAGGCCTTACATGCTC
317059 TAACATAACC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (45 bp):
GATAATTATCAAGAAAAGTTTAAAGAACGTAGGCCTTACATGCTC
Found at i:329559 original size:11 final size:12
Alignment explanation
Indices: 329529--329561 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
329519 AAATATTTTT
329529 TAAAAATAATAG
1 TAAAAATAATAG
*
329541 TTAAAATAATA-
1 TAAAAATAATAG
329552 TAAAAATAAT
1 TAAAAATAAT
329562 TTTTCCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAAAATAATAG
Found at i:329629 original size:16 final size:16
Alignment explanation
Indices: 329608--329663 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
329598 TATTTTAAGC
329608 TAATTTAATTAAAATT
1 TAATTTAATTAAAATT
*
329624 TAATTT-TTTAATAATTT
1 TAATTTAATTAA-AA-TT
* *
329641 TAAATTAATTAAATTTT
1 TAATTTAATTAAA-ATT
329658 TAATTT
1 TAATTT
329664 TTGATTCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 15 0.48
18 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTTAATTAAAATT
Found at i:329866 original size:20 final size:21
Alignment explanation
Indices: 329828--329872 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
329818 AAAATTTAAT
329828 TTAATTTAATTATTTATATAA
1 TTAATTTAATTATTTATATAA
*
329849 TTAA-TTAA-TATTTAATATAT
1 TTAATTTAATTATTT-ATATAA
329869 TTAA
1 TTAA
329873 AATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATTTAATTATTTATATAA
Found at i:331398 original size:25 final size:25
Alignment explanation
Indices: 331355--331427 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
331345 ATTTATTAAT
* *
331355 TTAATTATATATTAATTTTGAGATAAA
1 TTAATTA-A-ATTAATTTTAAAATAAA
*
331382 TTAATTAAATTATTTTTAAAATAAA
1 TTAATTAAATTAATTTTAAAATAAA
*
331407 TTAATTAAA-AAATTTTAAAAT
1 TTAATTAAATTAATTTTAAAAT
331428 TTTTAGTGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.24
25 23 0.56
26 1 0.02
27 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
TTAATTAAATTAATTTTAAAATAAA
Found at i:335982 original size:2 final size:2
Alignment explanation
Indices: 335975--336017 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
335965 TTGTTTTGGA
335975 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
336017 A
1 A
336018 AATAACAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:336442 original size:4 final size:4
Alignment explanation
Indices: 336433--336468 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
336423 CGGGCAGCTG
336433 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
336469 TGGAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:336807 original size:19 final size:18
Alignment explanation
Indices: 336785--336820 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
336775 ATGTTATGTT
*
336785 TTAATTTTCTATATATATG
1 TTAAGTTTCTAT-TATATG
336804 TTAAGTTTCTATTATAT
1 TTAAGTTTCTATTATAT
336821 CTCAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
TTAAGTTTCTATTATATG
Found at i:337287 original size:17 final size:17
Alignment explanation
Indices: 337265--337298 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
337255 TTATATGTAC
337265 GTATATTCATATT-ATGT
1 GTATATT-ATATTCATGT
337282 GTATATTATATTCATGT
1 GTATATTATATTCATGT
337299 TATGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
GTATATTATATTCATGT
Found at i:337724 original size:14 final size:14
Alignment explanation
Indices: 337696--337745 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
337686 AACTTTATGT
337696 ATTAAATATTT-TTA
1 ATTAAAT-TTTATTA
*
337710 AATAAATTTTATTA
1 ATTAAATTTTATTA
337724 ATTATAATTTTAGTTA
1 ATTA-AATTTTA-TTA
337740 ATTAAA
1 ATTAAA
337746 AATTTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 3 0.10
14 12 0.39
15 9 0.29
16 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTAAATTTTATTA
Found at i:337734 original size:15 final size:16
Alignment explanation
Indices: 337714--337743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
337704 TTTTTAAATA
337714 AATTTTA-TTAATTAT
1 AATTTTAGTTAATTAT
337729 AATTTTAGTTAATTA
1 AATTTTAGTTAATTA
337744 AAAATTTATA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTTTAGTTAATTAT
Found at i:338000 original size:27 final size:26
Alignment explanation
Indices: 337926--338001 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 26
337916 TATATGTTTG
*
337926 TATTTATATTTTTTTTATATTTAAAATAT
1 TATTT-TA-TTTTTGTATA-TTAAAATAT
* *
337955 TATTATATTTTTGACATATTAATAAT-T
1 TATTTTATTTTTG-TATATTAA-AATAT
337982 TATTTTATTTTATGTATATT
1 TATTTTATTTT-TGTATATT
338002 TTTATGTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 25 0.64
28 10 0.26
29 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (26 bp):
TATTTTATTTTTGTATATTAAAATAT
Found at i:338076 original size:19 final size:19
Alignment explanation
Indices: 338048--338112 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
338038 TATTATTTAA
338048 AATA-TTATAAATTTATGT
1 AATATTTATAAATTTATGT
*
338066 AATATTTATAAATATT-TTT
1 AATATTTATAAAT-TTATGT
* * *
338085 TATATTTGTATATTTATGT
1 AATATTTATAAATTTATGT
*
338104 CATATTTAT
1 AATATTTAT
338113 TTTTTATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 6 0.16
19 29 0.78
20 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
AATATTTATAAATTTATGT
Found at i:338086 original size:98 final size:96
Alignment explanation
Indices: 337937--338121 Score: 225
Period size: 97 Copynumber: 1.9 Consensus size: 96
337927 ATTTATATTT
* * *
337937 TTTTTATATTTAAAATATTATTATATTTTTGACATATTAATAATTTATTTTATTTTATGTATATT
1 TTTTTATATTTAAAATATTATTAAATTTATGACATATTAATAATTTATTTTATATT-TGTATATT
* *
338002 TTTAT-GTATTTATTATTTTATATATGAGAAAA
65 TATATCATATTTATT-TTTTATATATGAGAAAA
*
338034 TTTTTATTATTTAAAATATTA-TAAATTTATGTA-ATATTTATAAATATT-TTTTATATTTGTAT
1 TTTTTA-TATTTAAAATATTATTAAATTTATG-ACATATTAAT-AAT-TTATTTTATATTTGTAT
*
338096 ATTTATGTCATATTTATTTTTTATAT
62 ATTTATATCATATTTATTTTTTATAT
338122 TATGTTTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
97 40 0.53
98 34 0.45
99 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (96 bp):
TTTTTATATTTAAAATATTATTAAATTTATGACATATTAATAATTTATTTTATATTTGTATATTT
ATATCATATTTATTTTTTATATATGAGAAAA
Found at i:341491 original size:33 final size:33
Alignment explanation
Indices: 341444--341506 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
341434 GAAGTTGCTC
*
341444 ATATCTTCTTCTTTCTTCTTCTCTT-GCTTCTTT
1 ATATCTTCTCCTTTCTTCTTCT-TTCGCTTCTTT
* *
341477 ATATTTTCTCCTTTCTTTTTCTTTCGCTTC
1 ATATCTTCTCCTTTCTTCTTCTTTCGCTTC
341507 CTCATTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.08
33 24 0.92
ACGTcount: A:0.06, C:0.27, G:0.03, T:0.63
Consensus pattern (33 bp):
ATATCTTCTCCTTTCTTCTTCTTTCGCTTCTTT
Found at i:344372 original size:79 final size:78
Alignment explanation
Indices: 344287--344728 Score: 493
Period size: 76 Copynumber: 5.7 Consensus size: 78
344277 ATAATAACGG
* * * * *
344287 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATCGATGATTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATT-TGAAAAATTGATGTTTT
* * *
344352 GGAAATAAAAGCAA
65 AGAAATAAAACCGA
* * * * * * * *
344366 GATTGGAGCATTCCCT-TAGAAATAACGGGGTTGGAGTAT-CTCGACTATAAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCGA-AAATAACGGGATTGGAGTATCCCCGA-TTTGAAAAATTGATGTTT
344429 TAGAAATAAAACCGA
64 TAGAAATAAAACCGA
* * *
344444 GGTTGGAGTATCCCCTCGGAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATTGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATT-TGAAAAATTGATGTTTT
**
344509 AGAAATAAAATTGA
65 AGAAATAAAACCGA
* *
344523 GGTTGGAGTATCCCCTCGAAAATAACAGGATTGGGGTATCCCCGA--TGAAAAATTGATGTTTTA
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTTGAAAAATTGATGTTTTA
*
344586 GAAATAAAACCGG
66 GAAATAAAACCGA
* *
344599 GGTTGGAGTGTCCCCTCGAAAATAACGGGATTAGAGTATCCCCGA--TGAAAAATTGATGTTTTA
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTTGAAAAATTGATGTTTTA
*
344662 AAAATAAAACCGA
66 GAAATAAAACCGA
* * * * *
344675 GGTTGGAGTGTCCCTTCAAAAATAACAGGG-TTAGAGTATCCTCGATTGTGAAAA
1 GGTTGGAGTATCCCCTCGAAAATAAC-GGGATTGGAGTATCCCCGATT-TGAAAA
344729 GTCAGTGTTT
Statistics
Matches: 311, Mismatches: 43, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
76 136 0.44
77 3 0.01
78 62 0.20
79 110 0.35
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTTGAAAAATTGATGTTTTA
GAAATAAAACCGA
Found at i:344496 original size:157 final size:155
Alignment explanation
Indices: 344287--344720 Score: 439
Period size: 157 Copynumber: 2.8 Consensus size: 155
344277 ATAATAACGG
* * * * * *
344287 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATCGATGATTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATCGATGATTT
* * * * *
344352 GGAAATAAAAGCAAGATTGGAGCATTCCCTTAG-AAATAACGGGGTTGGAGTATCTCGACTATAA
66 AGAAATAAAAGCAAGATTGGAGCA-TCCCCTAGAAAATAACAGGATTGGAGTATC-C-ACGATAA
344416 AAAATTGATGTTTTAGAAATAAAACCGA
128 AAAATTGATGTTTTAGAAATAAAACCGA
* * *
344444 GGTTGGAGTATCCCCTCGGAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATTGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATCGATGATTT
*** * * * * * *
344509 AGAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGGGGTATCCCCGATGAAAA
66 AGAAATAAAAGCAAGATTGGAGCATCCCCTAGAAAATAACAGGATTGGAGTATCCACGATAAAAA
*
344574 ATTGATGTTTTAGAAATAAAACCGG
131 ATTGATGTTTTAGAAATAAAACCGA
* * * *
344599 GGTTGGAGTGTCCCCTCGAAAATAACGGGATT-AGAGTATCCCC---GATGAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGA-AGTATCCCCAATTATGAAAAATCGATGATT
* * * * ** * * * *
344660 TAAAAATAAAACCGAGGTTGGAGTGTCCCTTCA-AAAATAACAGGGTTAGAGTATCCTCGAT
65 TAGAAATAAAAGCAAGATTGGAGCATCCCCT-AGAAAATAACAGGATTGGAGTATCCACGAT
344721 TGTGAAAAGT
Statistics
Matches: 237, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
152 67 0.28
154 1 0.00
155 70 0.30
156 7 0.03
157 92 0.39
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (155 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATCGATGATTT
AGAAATAAAAGCAAGATTGGAGCATCCCCTAGAAAATAACAGGATTGGAGTATCCACGATAAAAA
ATTGATGTTTTAGAAATAAAACCGA
Found at i:344738 original size:155 final size:151
Alignment explanation
Indices: 344284--344767 Score: 474
Period size: 155 Copynumber: 3.1 Consensus size: 151
344274 GAGATAATAA
* * * * *
344284 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATT-GAGTATCCCCGA---TGAAAAATTGATGT
* * * * * *
344349 TTTGGAAATAAAAGCAAGATTGGAGCATTCCCTT-AGAAATAACGGGGTTGGAGTAT-CTCGACT
62 TTTAGAAATAAAACCGAGGTTGGAG--TTCCCTTCAAAAATAACAGGGTTGGAGTATCCTCGA-T
* *
344412 ATAAAAAATTGATGTTTTAGAAATAAAAC
124 GTAAAAAATAG-TGTTTTAGAAATAAAAC
* * *
344441 CGAGGTTGGAGTATCCCCTCGGAAATAACGGGATTGAAGTATCCCCAATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTG-AGTATCCCC---GATGAAAAATTGATGT
** * * * * *
344506 TTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGGGGTATCCCCGATG-
62 TTTAGAAATAAAACCGAGGTTGGAGT-TCCCTTCAAAAATAACAGGGTTGGAGTATCCTCGATGT
*
344570 -AAAAATTGATGTTTTAGAAATAAAAC
126 AAAAAATAG-TGTTTTAGAAATAAAAC
*
344596 CGGGGTTGGAGTGTCCCCTCGAAAATAACGGGATTAGAGTATCCCCGATGAAAAATTGATGTTTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATT-GAGTATCCCCGATGAAAAATTGATGTTTT
* * *
344661 AAAAATAAAACCGAGGTTGGAGTGTCCCTTCAAAAATAACAGGGTTAGAGTATCCTCGATTGTGA
65 AGAAATAAAACCGAGGTTGGAGT-TCCCTTCAAAAATAACAGGGTTGGAGTATCCTCGA-TGTAA
* * *
344726 AAAGTCAGTGTTTTGGAAATAAAAT
128 AAAAT-AGTGTTTTAGAAATAAAAC
* *
344751 CGGAGTTTGAGTA-CCCC
1 CGGGGTTGGAGTATCCCC
344768 ACATTAAGAA
Statistics
Matches: 273, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
152 67 0.25
153 2 0.01
154 4 0.01
155 98 0.36
156 8 0.03
157 89 0.33
158 4 0.01
160 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (151 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAGTATCCCCGATGAAAAATTGATGTTTTA
GAAATAAAACCGAGGTTGGAGTTCCCTTCAAAAATAACAGGGTTGGAGTATCCTCGATGTAAAAA
ATAGTGTTTTAGAAATAAAAC
Found at i:346557 original size:42 final size:42
Alignment explanation
Indices: 346511--346611 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
346501 TTGTTTTTCA
*
346511 AGGACAAAGGAAAAAGG-GAA-ACGAAATACGTCCTGCTCTCTG
1 AGGACAAAAGAAAAAGGAGAATA--AAATACGTCCTGCTCTCTG
* * *
346553 AGGACAAAAGAAAAAGGAGAATAAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGAAAAAGGAGAATAAAATACGTCCTGCTCTCTG
346595 AGGACAAAAGAGAAAAG
1 AGGACAAAAGA-AAAAG
346612 AAGGGGAGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 43 0.83
43 8 0.15
44 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.14
Consensus pattern (42 bp):
AGGACAAAAGAAAAAGGAGAATAAAATACGTCCTGCTCTCTG
Found at i:346857 original size:60 final size:61
Alignment explanation
Indices: 346635--346862 Score: 293
Period size: 61 Copynumber: 3.8 Consensus size: 61
346625 GTGTTCTACT
* * *
346635 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTGCC
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGACATCCTGCC
*
346696 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAA-AGCATCCTGCC
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGA-CATCCTGCC
* * *
346757 CTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCTTT-AAAAGTTGAAGACATCCTGCT
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AGAAGACATCCTGCC
* * ** *
346818 CTTTGAGGATTG-AAGGTGCCACCAGTTTGTGTGGGCTTTAAAAAG
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
346863 CATCCTGCTC
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
59 4 0.03
60 23 0.16
61 116 0.78
62 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGACATCCTGCC
Found at i:347067 original size:215 final size:214
Alignment explanation
Indices: 346689--347096 Score: 554
Period size: 215 Copynumber: 1.9 Consensus size: 214
346679 AGAAAAGGCA
*
346689 TCCTGCCCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCT
1 TCCTGCCCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-CAAAAAGAAAGCATCAT
* *** *
346754 GCCCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGTTGAAGACATCCTGCTC
65 GCCCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACATCATGCTC
* ** **
346819 TTTGAGGATTGAAGGTGCCACCAGTTTGTGTGGGCTTTAAAAAGCATCCTGCTCTTTAAGGACAA
130 TTTGAGGATAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCATCCTGCTCTTTAAGGACAA
346884 AAAGGTGAAAGGAGAGAGCG
195 AAAGGTGAAAGGAGAGAGCG
* * * *
346904 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTC
1 TCCTGCCCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAA--AGAAAGCATC
* *
346967 ATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG-CATCATG
63 ATGCCCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGACATCATG
* * *
347030 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGG
127 CTCTTTGAGGA-TAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCATCCTGCTCTTTAAGG
347095 AC
191 AC
347097 TGGAAAATGC
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
213 4 0.02
214 42 0.25
215 119 0.71
216 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (214 bp):
TCCTGCCCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTCAAAAAGAAAGCATCATG
CCCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGACATCATGCTCT
TTGAGGATAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCATCCTGCTCTTTAAGGACAAA
AAGGTGAAAGGAGAGAGCG
Found at i:347095 original size:55 final size:54
Alignment explanation
Indices: 346904--347822 Score: 931
Period size: 55 Copynumber: 16.0 Consensus size: 54
346894 GGAGAGAGCG
* * *
346904 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCA
* **
346965 TCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
*
347025 TCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
**
347080 TCCTGCTCTTTGAGGACTGGAAAATGCCAATAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
*
347141 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGGTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
347196 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* **
347251 TCCTGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCA
* ** * *
347312 TCCTGCTCTTTGAGGAATGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
*
347371 TCCTGCTCTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
* ** *
347432 TCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG--CA
* ** * * *
347487 TGCGTCTTGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAATGCG
1 T-C--C-TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
*
347550 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
347605 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
347660 TCCTGCTCTTTGAGGACTGAAAAATGCCACTAACGTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
347715 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
347770 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG
347823 AAAAGGCATC
Statistics
Matches: 753, Mismatches: 64, Indels: 88
0.83 0.07 0.10
Matches are distributed among these distances:
53 1 0.00
54 4 0.01
55 359 0.48
56 13 0.02
58 5 0.01
59 79 0.10
60 154 0.20
61 132 0.18
62 1 0.00
63 1 0.00
65 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:347736 original size:26 final size:26
Alignment explanation
Indices: 347706--347793 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
347696 GTGTGGGCTT
347706 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
347732 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
347759 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
347787 TGAAAGG
1 TGAAAGG
347794 TGCCACCGAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 18 0.40
27 5 0.11
28 5 0.11
29 11 0.24
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:348815 original size:1 final size:1
Alignment explanation
Indices: 348809--348895 Score: 75
Period size: 1 Copynumber: 87.0 Consensus size: 1
348799 AAGCAGATTC
* * * * * * * *
348809 TTTTTTTTTCTCTTTTTTCTTTGTTTTGTTTTTTTTTTTGTTTTTTTTTATTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
348874 TGTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
348896 GAAAAAAAGA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:348840 original size:27 final size:23
Alignment explanation
Indices: 348809--348895 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
348799 AAGCAGATTC
* * *
348809 TTTTTTTTTCTCTTTTTTCTTTG
1 TTTTTTTTTTTTTTTTTTTTTTG
348832 TTTTGTTTTTTTTTTTGTTTTTTT-
1 TTTT-TTTTTTTTTTT-TTTTTTTG
* * *
348856 TTATTTTTTTTGTTTTTTTGTTG
1 TTTTTTTTTTTTTTTTTTTTTTG
*
348879 TTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
348896 GAAAAAAAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
22 6 0.12
23 28 0.54
24 12 0.23
25 6 0.12
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTTTTTTG
Found at i:348842 original size:18 final size:16
Alignment explanation
Indices: 348809--348895 Score: 95
Period size: 16 Copynumber: 5.4 Consensus size: 16
348799 AAGCAGATTC
* *
348809 TTTTTTTTTCTCTTTT
1 TTTTTTTTTTTGTTTT
* *
348825 TTCTTTGTTTTGTTTT
1 TTTTTTTTTTTGTTTT
*
348841 TTTTTTTGTTT-TTTT
1 TTTTTTTTTTTGTTTT
*
348856 TTATTTTTTTTGTTTT
1 TTTTTTTTTTTGTTTT
348872 TTTGTTGTTTTTTGTTTT
1 TTT-TT-TTTTTTGTTTT
348890 TTTTTT
1 TTTTTT
348896 GAAAAAAAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
15 13 0.22
16 27 0.47
17 4 0.07
18 14 0.24
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTTGTTTT
Found at i:348847 original size:31 final size:31
Alignment explanation
Indices: 348809--348874 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
348799 AAGCAGATTC
* *
348809 TTTTTTTTT-CTCTTTTTTCTTTGTTTTGTT
1 TTTTTTTTTGTTCTTTTTTATTTGTTTTGTT
* *
348839 TTTTTTTTTGTTTTTTTTTATTTTTTTTGTT
1 TTTTTTTTTGTTCTTTTTTATTTGTTTTGTT
348870 TTTTT
1 TTTTT
348875 GTTGTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.02, C:0.05, G:0.06, T:0.88
Consensus pattern (31 bp):
TTTTTTTTTGTTCTTTTTTATTTGTTTTGTT
Found at i:348884 original size:31 final size:30
Alignment explanation
Indices: 348821--348896 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
348811 TTTTTTTCTC
* * *
348821 TTTTTTCTTTGTTTTGTTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTGTTTTTTTTTGTGTT
*
348851 TTTTTTTATTTTTTTTGTTTTTTTGT-TGTT
1 TTTTTTT-TTTTTTTTGTTTTTTTTTGTGTT
*
348881 TTTTGTTTTTTTTTTG
1 TTTTTTTTTTTTTTTG
348897 AAAAAAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 9 0.22
30 16 0.39
31 16 0.39
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.87
Consensus pattern (30 bp):
TTTTTTTTTTTTTTTGTTTTTTTTTGTGTT
Found at i:361356 original size:77 final size:78
Alignment explanation
Indices: 361238--361467 Score: 275
Period size: 79 Copynumber: 2.9 Consensus size: 78
361228 TGGAGTATCT
* *
361238 CCTTGAAAATAACGGGGATGGAGTATCCCCGATTGTGAAAAATCGATGATTTGGAAATAAAATCG
1 CCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCG
*
361303 GG-TGGAGCATTC
66 GGTTGGAACATTC
* * * * * *
361315 CCTTGAAAATAACGGGGTTGGAGTATTCCCGACTATAAAAAATTGATGTTTTAGAAATAAAA-CT
1 CCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATC-
*
361379 GAGGTTGGAATATTC
65 G-GGTTGGAACATTC
* * * * * *
361394 CCTCGGAAATAACAGGATTGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCG
1 CCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCG
361459 GAGTTGGAA
66 G-GTTGGAA
361468 TATCCCTGAT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
76 1 0.01
77 55 0.44
78 3 0.02
79 66 0.52
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (78 bp):
CCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCG
GGTTGGAACATTC
Found at i:361472 original size:51 final size:51
Alignment explanation
Indices: 361411--361525 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
361401 AATAACAGGA
* * *
361411 TTGGAGTATCCCCGATTG-TGAAAAGTCGGTGTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGCGGAAAA-TCGGTGTTTTAGAAATAAAACCGGAG
* * * * *
361462 TTGGAATATCCCTGATTGCGGAGAATTGGTGTTTTAGAAATAAAACCGGGG
1 TTGGAGTATCCCCGATTGCGGAAAATCGGTGTTTTAGAAATAAAACCGGAG
361513 TTGGAGTATCCCC
1 TTGGAGTATCCCC
361526 TCGGAAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 49 0.92
52 4 0.08
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGCGGAAAATCGGTGTTTTAGAAATAAAACCGGAG
Found at i:361545 original size:79 final size:77
Alignment explanation
Indices: 361485--361834 Score: 463
Period size: 76 Copynumber: 4.5 Consensus size: 77
361475 GATTGCGGAG
* * *
361485 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAATGGGATTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTAT
361550 CCCCGATTATGAAA
66 CCCCGA-T-TGAAA
* *
361564 AATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGGGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTAT
*
361629 CCCCGA-TAAAA
66 CCCCGATTGAAA
* * *
361640 AATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTAT
361705 CCCCGA-TGAAA
66 CCCCGATTGAAA
* * * *
361716 AATTGATGTTTTAGAAATAAAA-CGGGGTTGGAGTGTCCCTTCAAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTAT
*
361780 CCCCGATTGTGAA
66 CCCCGATTG-AAA
* * * * * *
361793 AAGTCAGTGTTTTGGAAATAAAATCGGAGTTGGAGTACCCCC
1 AATTGA-TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
361835 GATTAAGAAA
Statistics
Matches: 244, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
75 46 0.19
76 97 0.40
77 6 0.02
78 15 0.06
79 80 0.33
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (77 bp):
AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTAT
CCCCGATTGAAA
Found at i:361564 original size:130 final size:130
Alignment explanation
Indices: 361355--361603 Score: 356
Period size: 130 Copynumber: 1.9 Consensus size: 130
361345 GACTATAAAA
* *
361355 AATTGATGTTTTAGAAATAAAACTGAGGTTGGAATATTCCCTCGGAAATAACAGGATTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGAGGTTGGAATATCCCCTCGGAAATAACAGGATTGGAGTAT
* * * * *
361420 CCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCG-GAGTTGGAATATCCCTGATTGCGGA
66 CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGAG-GTTGGAATATCCCTGATTGCGGA
361484 G
130 G
* * * **
361485 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAATGGGATTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGAGGTTGGAATATCCCCTCGGAAATAACAGGATTGGAGTAT
* *
361550 CCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
66 CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAATATCCC
361604 CTCGAAAATA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 103 0.99
131 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (130 bp):
AATTGATGTTTTAGAAATAAAACCGAGGTTGGAATATCCCCTCGGAAATAACAGGATTGGAGTAT
CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAATATCCCTGATTGCGGAG
Found at i:361825 original size:51 final size:51
Alignment explanation
Indices: 361770--361870 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
361760 AAATAACGGG
* ** *
361770 GTTGGAGTATCCCCGATTGTGAAAAGTCAG-TGTTTTGGAAATAAAATCGGA
1 GTTGGAGTACCCCCGATTAAGAAAAAT-AGATGTTTTGGAAATAAAATCGGA
* *
361821 GTTGGAGTACCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAATCGG
1 GTTGGAGTACCCCCGATTAAGAAAAATAGATGTTTTGGAAATAAAATCGG
361871 GATTAGAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GTTGGAGTACCCCCGATTAAGAAAAATAGATGTTTTGGAAATAAAATCGGA
Done.