Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 297 of 318
Found at i:93102252 original size:35 final size:35
Alignment explanation
Indices: 93102187--93102352 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
93102177 TCCTCATTGA
** *
93102187 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
93102221 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
93102261 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
93102296 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
93102331 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
93102353 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:93102311 original size:75 final size:72
Alignment explanation
Indices: 93102182--93102354 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
93102172 GGTTTTCCTC
* * * **
93102182 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
93102246 CAGTATGG
65 CAGTATGG
93102254 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
93102318 ACTCAGTATGG
62 ACTCAGTATGG
93102329 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
93102355 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:93109768 original size:75 final size:73
Alignment explanation
Indices: 93109680--93109851 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
93109670 GGTTTTCCTC
*** * * **
93109680 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
93109744 TCAGTATGG
65 TCAGTATGG
*
93109753 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
93109818 CTCAGTATGG
64 CTCAGTATGG
93109828 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
93109852 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:93109849 original size:35 final size:35
Alignment explanation
Indices: 93109685--93109851 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
93109675 TCCTCATTGA
*** *
93109685 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
93109720 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
93109760 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
93109795 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
93109830 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
93109852 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:93118531 original size:87 final size:88
Alignment explanation
Indices: 93118377--93118546 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 88
93118367 ATTAAGTCTA
* * * ***
93118377 TTTTTTCACTCATTTGGATATTTGAACTTTCAAAATACATCAAAAAAACCCTCAAACCTT-GTCA
1 TTTTTTCACACAATTGGATACTTGAACTTTCAAAATACATCAAAAAAACCCTCAAACCTTAAAAA
93118441 AAAAAGCAATTAAGCCCCTATCT
66 AAAAAGCAATTAAGCCCCTATCT
* * * **
93118464 TTTTTTCACACAATTGGATACTTGAACTTTCAAAATTCATCAAAAAGACCTTC-AATTTTAAAAA
1 TTTTTTCACACAATTGGATACTTGAACTTTCAAAATACATCAAAAAAACCCTCAAACCTT--AAA
93118528 AAAAAAAGCAATTAAGCCC
64 AAAAAAAGCAATTAAGCCC
93118547 ATGTTTTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 4 0.06
87 47 0.68
89 18 0.26
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (88 bp):
TTTTTTCACACAATTGGATACTTGAACTTTCAAAATACATCAAAAAAACCCTCAAACCTTAAAAA
AAAAAGCAATTAAGCCCCTATCT
Found at i:93118662 original size:20 final size:20
Alignment explanation
Indices: 93118634--93118673 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
93118624 AAAAATTCAA
* *
93118634 ATATTAAAAAATAGAAAAAT
1 ATATGAAAAAATAAAAAAAT
*
93118654 ATATGAAAATATAAAAAAAT
1 ATATGAAAAAATAAAAAAAT
93118674 TGTAAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (20 bp):
ATATGAAAAAATAAAAAAAT
Found at i:93118704 original size:18 final size:18
Alignment explanation
Indices: 93118669--93118707 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
93118659 AAAATATAAA
* **
93118669 AAAATTGTAAAATTTTAT
1 AAAATCGTAAAAAATTAT
93118687 AAAATCGTAAAAAATTAT
1 AAAATCGTAAAAAATTAT
93118705 AAA
1 AAA
93118708 TATATAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATCGTAAAAAATTAT
Found at i:93119064 original size:19 final size:18
Alignment explanation
Indices: 93119016--93119067 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
93119006 TTTGAAATTT
93119016 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
*
93119034 TTTAATAATTTTT-CTAAAA
1 TTT-AT-ATTTTTATTAAAA
93119053 TTTATTATTTTTATT
1 TTTA-TATTTTTATT
93119068 TTTTCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:93119262 original size:90 final size:91
Alignment explanation
Indices: 93119105--93119277 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 91
93119095 AGAGCAAGGT
* * * *
93119105 TTAATTGCTTTTTTGAAAAATTTTTAAGGTCTTTTTTTAATGTATTCTGAAAGTTTAAGTACCCA
1 TTAATTGCTTTTTTGAAAAATGTTTAAGGACTTTTTTTAATGCATTCTGAAAGTTTAAATACCCA
* *
93119170 ATTGAGTGGAAAAAAAAAGTAGAGGC
66 ATTAAGTGCAAAAAAAAAGTAGAGGC
* * * * * *
93119196 TTAATTGCTTTTCTTGAAGAA-GTTTGAGGAC-TTTTTTGATGCATTTTGAAAGTTTAAATGCTC
1 TTAATTGCTTTT-TTGAAAAATGTTTAAGGACTTTTTTTAATGCATTCTGAAAGTTTAAATACCC
93119259 AATTAAGTGCAAAAAAAAA
65 AATTAAGTGCAAAAAAAAA
93119278 AAAAAGTAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 43 0.62
91 19 0.28
92 7 0.10
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (91 bp):
TTAATTGCTTTTTTGAAAAATGTTTAAGGACTTTTTTTAATGCATTCTGAAAGTTTAAATACCCA
ATTAAGTGCAAAAAAAAAGTAGAGGC
Found at i:93124051 original size:23 final size:23
Alignment explanation
Indices: 93124021--93124067 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
93124011 GAAGGAGAAA
93124021 GAGAACTTTCGATTGGTGTAAAC
1 GAGAACTTTCGATTGGTGTAAAC
93124044 GAGAACTTTCGATTGGTGTAAAC
1 GAGAACTTTCGATTGGTGTAAAC
93124067 G
1 G
93124068 GACAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (23 bp):
GAGAACTTTCGATTGGTGTAAAC
Found at i:93126138 original size:17 final size:16
Alignment explanation
Indices: 93126100--93126137 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
93126090 TTCTATATGG
93126100 ATTTTACATTTATTTT
1 ATTTTACATTTATTTT
93126116 ATTTTACCATTGTATTTT
1 ATTTTA-CATT-TATTTT
93126134 ATTT
1 ATTT
93126138 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTTACATTTATTTT
Found at i:93128968 original size:45 final size:45
Alignment explanation
Indices: 93128916--93129002 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
93128906 TATGTAATCT
*
93128916 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGCCTAAGTTCATGATATATGTGACATCC
* *
93128961 GAACTCATTGAGTTGTGGCCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTGGCCTAAGTTCATGATATATGTGACA
93129003 CATGTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGCCTAAGTTCATGATATATGTGACATCC
Found at i:93141880 original size:20 final size:20
Alignment explanation
Indices: 93141842--93141889 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
93141832 TAAATTCTAA
**
93141842 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
93141862 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
93141882 AAA-ATAAA
1 AAAGATAAA
93141890 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:93141900 original size:19 final size:18
Alignment explanation
Indices: 93141876--93141919 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
93141866 ATAAATAGAG
93141876 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
93141896 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
93141913 ATAATTA
1 ATAATTA
93141920 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:93141935 original size:15 final size:15
Alignment explanation
Indices: 93141915--93141947 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
93141905 TAATCCTAAT
93141915 AATTATCCTAATATA
1 AATTATCCTAATATA
93141930 AATTATCCTAATATA
1 AATTATCCTAATATA
93141945 AAT
1 AAT
93141948 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:93142902 original size:18 final size:18
Alignment explanation
Indices: 93142860--93142895 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
93142850 GCACAGGCAC
93142860 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
93142878 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
93142896 TTTATCGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (18 bp):
GTCATCGACCTTGCCTAT
Found at i:93152388 original size:17 final size:17
Alignment explanation
Indices: 93152358--93152390 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
93152348 AAAAGTAATG
93152358 ATATGTAAATAAAATAA
1 ATATGTAAATAAAATAA
93152375 ATATGCTAAA-AAAATA
1 ATATG-TAAATAAAATA
93152391 TACAGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATGTAAATAAAATAA
Found at i:93152489 original size:3 final size:3
Alignment explanation
Indices: 93152483--93152700 Score: 60
Period size: 3 Copynumber: 73.3 Consensus size: 3
93152473 AAAATACAAC
* * * *
93152483 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
93152526 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * ** *
93152570 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT -CT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
93152614 ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT
1 AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
93152660 AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
93152701 GTGATGAGAA
Statistics
Matches: 154, Mismatches: 43, Indels: 36
0.66 0.18 0.15
Matches are distributed among these distances:
2 18 0.12
3 119 0.77
4 17 0.11
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:93152489 original size:22 final size:21
Alignment explanation
Indices: 93152438--93152498 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
93152428 ATAAGTAAAT
* *
93152438 ACAAAAATAAAAGAAAATATA
1 ACAAAAATAATAGAAAATACA
* *
93152459 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAG-AAAATACA
*
93152481 ACAATAATAATAGTAAAA
1 ACAAAAATAATAG-AAAA
93152499 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (21 bp):
ACAAAAATAATAGAAAATACA
Found at i:93152858 original size:16 final size:16
Alignment explanation
Indices: 93152829--93152866 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
93152819 TATACGTATG
*
93152829 AAAA-ATAATGATAGT
1 AAAATATAATAATAGT
93152844 AAAATATAATAATAGT
1 AAAATATAATAATAGT
93152860 AATAATA
1 AA-AATA
93152867 ATAGTGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AAAATATAATAATAGT
Found at i:93152974 original size:3 final size:3
Alignment explanation
Indices: 93152966--93152995 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
93152956 ACACTACCAT
93152966 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93152996 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93153103 original size:3 final size:3
Alignment explanation
Indices: 93153089--93153129 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
93153079 AAATATACAC
93153089 TAA TATA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
93153130 TTAAAATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:93153127 original size:20 final size:19
Alignment explanation
Indices: 93153089--93153129 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
93153079 AAATATACAC
93153089 TAATATATAATAATAATAA
1 TAATATATAATAATAATAA
93153108 TAATAATATAATAATAATAA
1 TAAT-ATATAATAATAATAA
93153128 TA
1 TA
93153130 TTAAAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATATATAATAATAATAA
Found at i:93153891 original size:14 final size:12
Alignment explanation
Indices: 93153858--93153882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93153848 TTGGGTTAGT
93153858 GTTTTGGGCTAA
1 GTTTTGGGCTAA
93153870 GTTTTGGGCTAA
1 GTTTTGGGCTAA
93153882 G
1 G
93153883 GATTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:93160753 original size:17 final size:16
Alignment explanation
Indices: 93160717--93160751 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
93160707 AAATTAAAAC
*
93160717 TTTAAAAAAATTAAGG
1 TTTAAAAAAAATAAGG
93160733 TTTAAAAAAAATAAGG
1 TTTAAAAAAAATAAGG
93160749 TTT
1 TTT
93160752 TAGTCAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
TTTAAAAAAAATAAGG
Found at i:93160971 original size:30 final size:30
Alignment explanation
Indices: 93160935--93160993 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
93160925 CATAATACTG
93160935 ACCCTAAAAGATAACATTACAATGATATTT
1 ACCCTAAAAGATAACATTACAATGATATTT
*
93160965 ACCCTAAAAGATAACATTACGATGATATT
1 ACCCTAAAAGATAACATTACAATGATATT
93160994 ATTATAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (30 bp):
ACCCTAAAAGATAACATTACAATGATATTT
Found at i:93161797 original size:3 final size:3
Alignment explanation
Indices: 93161789--93161820 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
93161779 TTCACTTCCC
93161789 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
93161821 GGTTCTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:93164404 original size:13 final size:14
Alignment explanation
Indices: 93164369--93164405 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
93164359 TATTTTTAAC
*
93164369 AAATATTT-AGATT
1 AAATATTTAATATT
93164382 AAATATTTAATATT
1 AAATATTTAATATT
93164396 AAA-ATTTAAT
1 AAATATTTAAT
93164406 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AAATATTTAATATT
Found at i:93169891 original size:20 final size:20
Alignment explanation
Indices: 93169854--93169892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93169844 AAGTTAGTTT
* * *
93169854 AAATGATTTTATATTTTAAA
1 AAATGATTTAAAAGTTTAAA
93169874 AAATGATTTAAAAGTTTAA
1 AAATGATTTAAAAGTTTAA
93169893 GTATATTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATGATTTAAAAGTTTAAA
Found at i:93170153 original size:2 final size:2
Alignment explanation
Indices: 93170148--93170181 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93170138 GGTGTGTGTG
93170148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93170182 AATTTAGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93171619 original size:20 final size:20
Alignment explanation
Indices: 93171581--93171619 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93171571 TTTTTCCTCA
* *
93171581 TAAAAAAATTTAAATTCAAC
1 TAAAAAAATTAAAAATCAAC
*
93171601 TAAAAATATTAAAAATCAA
1 TAAAAAAATTAAAAATCAA
93171620 GAGAAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAAATTAAAAATCAAC
Found at i:93177148 original size:31 final size:32
Alignment explanation
Indices: 93177110--93177180 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
93177100 CTTCCTGCAT
*
93177110 AAAAACAGCAAATATAACAT-AAAATACAACC
1 AAAAACAGCAAATATAACATAAAAATACAACA
* *
93177141 AAAAACAGCAAATTTAGCATAAAAAATACAACA
1 AAAAACAGCAAATATAACAT-AAAAATACAACA
93177174 AAAAACA
1 AAAAACA
93177181 TTAATTCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 18 0.51
33 17 0.49
ACGTcount: A:0.66, C:0.17, G:0.04, T:0.13
Consensus pattern (32 bp):
AAAAACAGCAAATATAACATAAAAATACAACA
Found at i:93177426 original size:21 final size:20
Alignment explanation
Indices: 93177397--93177462 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
93177387 ACTTTCTACT
93177397 CTGCTCTG-CTGCCATCGCTG
1 CTGCTCTGCCT-CCATCGCTG
*
93177417 CTGCTTCTGCCTCCCTCGCTG
1 CTGC-TCTGCCTCCATCGCTG
* * * *
93177438 CTACCGCTGCCTCCCTCTCTG
1 CT-GCTCTGCCTCCATCGCTG
93177459 CTGC
1 CTGC
93177463 CTCCTCTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.13
21 30 0.79
22 3 0.08
ACGTcount: A:0.03, C:0.47, G:0.20, T:0.30
Consensus pattern (20 bp):
CTGCTCTGCCTCCATCGCTG
Found at i:93177901 original size:13 final size:14
Alignment explanation
Indices: 93177875--93177903 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93177865 ACTAATGACG
93177875 AATTAAACCATTAT
1 AATTAAACCATTAT
93177889 AATTAAA-CATTAT
1 AATTAAACCATTAT
93177902 AA
1 AA
93177904 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:93180749 original size:18 final size:18
Alignment explanation
Indices: 93180726--93180766 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
93180716 TCTTCTCTAT
93180726 AACATACCCATATGAAAC
1 AACATACCCATATGAAAC
*
93180744 AACATACCCATATGAAAT
1 AACATACCCATATGAAAC
93180762 AACAT
1 AACAT
93180767 GAAGACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (18 bp):
AACATACCCATATGAAAC
Found at i:93181524 original size:40 final size:40
Alignment explanation
Indices: 93181424--93181524 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
93181414 TTTAGTGGCG
* ** * * * *
93181424 TTTTACAAAAGCATCGCTAAATCTCAATCTTTTGCGGTGT
1 TTTTACAAAAACGCCGCTAATTCTCAATCTTTAGCAGCGT
* *
93181464 TTTTACAAAAGCGCCGCTAATTCTCTATCTTTAGCAGCGT
1 TTTTACAAAAACGCCGCTAATTCTCAATCTTTAGCAGCGT
*
93181504 TTTTAGAAAAACGCCGCTAAT
1 TTTTACAAAAACGCCGCTAAT
93181525 GCCTCTGGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (40 bp):
TTTTACAAAAACGCCGCTAATTCTCAATCTTTAGCAGCGT
Found at i:93182899 original size:26 final size:26
Alignment explanation
Indices: 93182863--93182972 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
93182853 TGATACAAAT
93182863 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93182889 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93182915 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93182941 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
93182967 TGATAA
1 TGATAA
93182973 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:93188744 original size:26 final size:26
Alignment explanation
Indices: 93188682--93188790 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
93188672 TGATACAAAT
93188682 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93188707 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93188733 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93188759 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
93188785 TGATAA
1 TGATAA
93188791 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:93190299 original size:26 final size:26
Alignment explanation
Indices: 93190270--93190322 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
93190260 TTTACAGTTT
93190270 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
93190296 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
93190322 T
1 T
93190323 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:93191606 original size:36 final size:36
Alignment explanation
Indices: 93191561--93191638 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 36
93191551 CCCAGCCCAT
* *
93191561 ACCATAAACTTAACATACTA-TACCATTGAACCCTAA
1 ACCACAAACTTAAAATA-TATTACCATTGAACCCTAA
93191597 ACCACAAACTTAAAATATATTCTACCATTGAACCCTAA
1 ACCACAAACTTAAAATATA-T-TACCATTGAACCCTAA
93191635 ACCA
1 ACCA
93191639 TAGGCCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.05
36 15 0.41
38 20 0.54
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.24
Consensus pattern (36 bp):
ACCACAAACTTAAAATATATTACCATTGAACCCTAA
Found at i:93192163 original size:188 final size:191
Alignment explanation
Indices: 93191833--93192251 Score: 558
Period size: 188 Copynumber: 2.2 Consensus size: 191
93191823 CCGTTGAGCC
* * *
93191833 TTTAGTGGCTTTAGCGATGCTTTTTAAAAACGCCGCTAAAGATCGAGTACTAGCGGCATTTTTTT
1 TTTAGTGGCTTTAGCGGTGCTTTTTAAAAACGCCGCTAAAGATCGAGTACTAGCGACATTTTTTA
* * *
93191898 TAAAAACAATGCTATATGTACACATTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATAT
66 TAAAAACAACGCTATAGGTACACATTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTCGATAT
*
93191963 TTAGCAGCATTTTTTGAAAAAA-GCCGCAAAAGAATTTTGCAAAATGCCATC-G-TCAGCT
131 TTAGCAGCATTTTTTGAAAAAATGCCGCAAAAGAATTTTGCAAAACGCCATCTGTTCAGCT
* * *
93192021 TTTAGTGGCTTTAGCGGTGCTTTTTAAAAATGCCGCTAAAGATCGAGTATTAGCGACGGTTTTTT
1 TTTAGTGGCTTTAGCGGTGCTTTTTAAAAACGCCGCTAAAGATCGAGTACTAGCGAC-ATTTTTT
* ** * * *
93192086 AT-GAAACGCCGCTATAGGTACACCTTTAGCGGCGCTTTTTAGAAAACGTCGCTAATGCTCGATC
65 ATAAAAACAACGCTATAGGTACACATTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTCGATA
** * * *
93192150 TTTAGTGGCATTTTTTGAAAAAATGCCGCAAAAGGATTTTGCAAAACGCTATCGTTTTGTATTGA
130 TTTAGCAGCATTTTTTGAAAAAATGCCGCAAAAGAATTTTGCAAAACGCCATC----TG--TTCA
93192215 GCT
189 GCT
93192218 TTTAGTGGCTTTAGCGGTGCTTTTTAAAAACGCC
1 TTTAGTGGCTTTAGCGGTGCTTTTTAAAAACGCC
93192252 ACAAAAAATG
Statistics
Matches: 199, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
188 127 0.64
189 33 0.17
194 1 0.01
197 38 0.19
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (191 bp):
TTTAGTGGCTTTAGCGGTGCTTTTTAAAAACGCCGCTAAAGATCGAGTACTAGCGACATTTTTTA
TAAAAACAACGCTATAGGTACACATTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTCGATAT
TTAGCAGCATTTTTTGAAAAAATGCCGCAAAAGAATTTTGCAAAACGCCATCTGTTCAGCT
Found at i:93192582 original size:30 final size:31
Alignment explanation
Indices: 93192532--93192602 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
93192522 TTTTAAGGTC
93192532 TTTAGCGGCGCTTAAAAGCGCCGCCAAAACTA
1 TTTA-CGGCGCTTAAAAGCGCCGCCAAAACTA
*
93192564 TTTACGGCGCTT-AAAGCGCCGCTAAAACTA
1 TTTACGGCGCTTAAAAGCGCCGCCAAAACTA
*
93192594 TTTGCGGCG
1 TTTACGGCG
93192603 TTTTTACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 25 0.68
31 8 0.22
32 4 0.11
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (31 bp):
TTTACGGCGCTTAAAAGCGCCGCCAAAACTA
Found at i:93197920 original size:18 final size:19
Alignment explanation
Indices: 93197897--93197947 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 19
93197887 TTAATTTTAA
93197897 TTTTTTTATTTTTAAC-TT
1 TTTTTTTATTTTTAACATT
93197915 TTTTTTTATTTTTAACATT
1 TTTTTTTATTTTTAACATT
93197934 TATTTATTTATTTT
1 T-TTT-TTTATTTT
93197948 AAATATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.53
19 3 0.10
20 3 0.10
21 8 0.27
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTTAACATT
Found at i:93198011 original size:8 final size:8
Alignment explanation
Indices: 93198000--93198101 Score: 81
Period size: 7 Copynumber: 12.9 Consensus size: 8
93197990 ATATTAAATA
93198000 TTAAATTT
1 TTAAATTT
*
93198008 TTAAGTTT
1 TTAAATTT
*
93198016 TT-TATTT
1 TTAAATTT
93198023 TTAAA-TT
1 TTAAATTT
93198030 TTAAA-TT
1 TTAAATTT
93198037 TTAAATTT
1 TTAAATTT
93198045 TT--ATTT
1 TTAAATTT
**
93198051 TTTTATTT
1 TTAAATTT
93198059 TTAAA-TT
1 TTAAATTT
93198066 TTAAATTTTT
1 TTAAA--TTT
93198076 TTGAATATTT
1 TT-AA-ATTT
93198086 TTATAATTT
1 TTA-AATTT
93198095 TTAAATT
1 TTAAATT
93198102 AACATATAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
6 6 0.08
7 26 0.33
8 25 0.32
9 8 0.10
10 10 0.13
11 2 0.03
12 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
TTAAATTT
Found at i:93198011 original size:15 final size:15
Alignment explanation
Indices: 93197993--93198074 Score: 78
Period size: 15 Copynumber: 5.6 Consensus size: 15
93197983 AATTAAAATA
*
93197993 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
93198008 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
93198023 TTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
* *
93198037 TTAAATTTTTATTTT
1 TTAAATTTTAAATTT
* *
93198052 TTTATTTTTAAA-TT
1 TTAAATTTTAAATTT
93198066 TTAAATTTT
1 TTAAATTTT
93198075 TTTGAATATT
Statistics
Matches: 51, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
14 21 0.41
15 30 0.59
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:93198016 original size:7 final size:7
Alignment explanation
Indices: 93197988--93198074 Score: 66
Period size: 7 Copynumber: 12.0 Consensus size: 7
93197978 ATATGAATTA
*
93197988 AAATATT
1 AAATTTT
*
93197995 AAATATT
1 AAATTTT
93198002 AAATTTTT
1 AAA-TTTT
*
93198010 AAGTTTTT
1 AA-ATTTT
* *
93198018 TATTTTT
1 AAATTTT
93198025 AAATTTT
1 AAATTTT
93198032 AAATTTT
1 AAATTTT
93198039 AAATTTTT
1 AAA-TTTT
**
93198047 ATTTTTT
1 AAATTTT
* *
93198054 TATTTTT
1 AAATTTT
93198061 AAATTTT
1 AAATTTT
93198068 AAATTTT
1 AAATTTT
93198075 TTTGAATATT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
7 51 0.77
8 15 0.23
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (7 bp):
AAATTTT
Found at i:93198060 original size:36 final size:37
Alignment explanation
Indices: 93197988--93198074 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 37
93197978 ATATGAATTA
* *
93197988 AAATATTAAATATTAAATTTTTAAGTTTTTTATTTTT
1 AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTT
*
93198025 AAATTTTAAATTTTAAATTTTT-ATTTTTTTATTTTT
1 AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTT
93198061 AAATTTTAAATTTT
1 AAATTTTAAATTTT
93198075 TTTGAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 27 0.57
37 20 0.43
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (37 bp):
AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTT
Found at i:93198095 original size:36 final size:32
Alignment explanation
Indices: 93198000--93198101 Score: 108
Period size: 29 Copynumber: 3.2 Consensus size: 32
93197990 ATATTAAATA
*
93198000 TTAAATTTTTAAGTTTTT-TATTTTTA-AA-TT
1 TTAAA-TTTTAAATTTTTATATTTTTATAATTT
93198030 TTAAATTTTAAATTTTTAT-TTTTT-T-ATTT
1 TTAAATTTTAAATTTTTATATTTTTATAATTT
93198059 TTAAATTTTAAATTTTTTTGAATATTTTTATAATTT
1 TTAAATTTTAAA--TTTTT--ATATTTTTATAATTT
93198095 TTAAATT
1 TTAAATT
93198102 AACATATAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
28 1 0.02
29 30 0.49
30 6 0.10
31 5 0.08
33 2 0.03
34 5 0.08
35 1 0.02
36 11 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (32 bp):
TTAAATTTTAAATTTTTATATTTTTATAATTT
Found at i:93198507 original size:21 final size:21
Alignment explanation
Indices: 93198483--93198525 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93198473 CACTAAAAAT
*
93198483 TAAACCCCAAATCTTAAACCA
1 TAAACCCCAAATCCTAAACCA
* *
93198504 TAAACCCTAAATCCTAGACCA
1 TAAACCCCAAATCCTAAACCA
93198525 T
1 T
93198526 GAACATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCCCAAATCCTAAACCA
Found at i:93199290 original size:41 final size:41
Alignment explanation
Indices: 93199245--93199442 Score: 208
Period size: 41 Copynumber: 4.9 Consensus size: 41
93199235 TTACACGACT
93199245 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* **
93199286 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTCATC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
93199327 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCT-GTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * ** * * * *
93199367 TTTGGCGGTGTTTTAACAAAAAATGCCGTTATTGCTC-AGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGTC
* *
93199408 TTTAGCGGCG--TTA-CAAAAACGCCGCTATTGCTCTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
93199443 TGTTTTATAA
Statistics
Matches: 135, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
37 17 0.13
38 1 0.01
39 2 0.01
40 12 0.09
41 103 0.76
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:93199552 original size:21 final size:22
Alignment explanation
Indices: 93199528--93199588 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
93199518 GTTTAAGGGT
*
93199528 GGTTTAAGGGTT-GTGGTTTAA
1 GGTTTAAGGGTTAGAGGTTTAA
*
93199549 GGTTTAAGTGTTAGAGGTTT-A
1 GGTTTAAGGGTTAGAGGTTTAA
* *
93199570 GGGTTAGGGGTTAGAGGTT
1 GGTTTAAGGGTTAGAGGTT
93199589 CAGGTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 28 0.82
22 6 0.18
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGGTTTAA
Found at i:93199783 original size:22 final size:21
Alignment explanation
Indices: 93199758--93199807 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
93199748 GAGTTACTAT
*
93199758 TTTAAGGTTTATGAATTATGAG
1 TTTAAGGATTATGAATTATG-G
* *
93199780 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGAATTATGG
93199801 TTTAAGG
1 TTTAAGG
93199808 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGAATTATGG
Found at i:93199816 original size:14 final size:15
Alignment explanation
Indices: 93199799--93199831 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
93199789 TATGATTTAT
*
93199799 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
93199813 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
93199828 GGTT
1 GGTT
93199832 AGGGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:93200650 original size:37 final size:37
Alignment explanation
Indices: 93200609--93200686 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
93200599 ATGGGTATCC
* *
93200609 TCAAAACACCCCTAATCTCACCCCTCCGTTGCTCTTT
1 TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
*
93200646 TCAAAACACCCCCAATCTCATCCCTCCATTGCTCTTT
1 TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
93200683 TCAA
1 TCAA
93200687 TCAAGAAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.42, G:0.04, T:0.29
Consensus pattern (37 bp):
TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
Found at i:93203142 original size:18 final size:18
Alignment explanation
Indices: 93203115--93203151 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
93203105 TCTGATTTTA
*
93203115 ACATTTGTGAATTCCATG
1 ACATTCGTGAATTCCATG
93203133 ACATTCGTGAATTCCATG
1 ACATTCGTGAATTCCATG
93203151 A
1 A
93203152 ATTAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (18 bp):
ACATTCGTGAATTCCATG
Found at i:93205065 original size:30 final size:30
Alignment explanation
Indices: 93205026--93205093 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
93205016 GATATTTAAT
* *
93205026 AATAGATTTAAAATA-TAATATATAATAAAA
1 AATATATTTAAAAGAGTAATA-ATAATAAAA
* * *
93205056 AATATATTTATAAGAGTAATAATTATATAA
1 AATATATTTAAAAGAGTAATAATAATAAAA
93205086 AATATATT
1 AATATATT
93205094 GGTTTAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (30 bp):
AATATATTTAAAAGAGTAATAATAATAAAA
Found at i:93205354 original size:15 final size:17
Alignment explanation
Indices: 93205334--93205367 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93205324 AAATGATAAT
93205334 AATAT-ATAG-ATAAAA
1 AATATAATAGTATAAAA
93205349 AATATAATAGTATAAAA
1 AATATAATAGTATAAAA
93205366 AA
1 AA
93205368 ATGGCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AATATAATAGTATAAAA
Found at i:93205402 original size:20 final size:20
Alignment explanation
Indices: 93205373--93205592 Score: 79
Period size: 20 Copynumber: 10.9 Consensus size: 20
93205363 AAAAAATGGC
93205373 ATAATA-ATATAAAATAATT
1 ATAATATATATAAAATAATT
** *
93205392 ATAATATATATAATAGGAA-A
1 ATAATATATATAA-AATAATT
* *
93205412 ATACATATGTA-AAAATAATAC
1 ATA-ATATATATAAAATAAT-T
93205433 ATAATATATAT-AAATAATT
1 ATAATATATATAAAATAATT
* * *
93205452 AATAA-ATATATAACACAAGT
1 -ATAATATATATAAAATAATT
93205472 A-AA-A-ATATAATAATAATAT
1 ATAATATATATAA-AATAAT-T
* *
93205491 ATAAATAATGATGTAAAATAATA
1 AT-AAT-AT-ATATAAAATAATT
* *
93205514 ATAATTTGTGA-AAAATAATAT
1 ATAATATAT-ATAAAATAAT-T
*
93205535 ATAATA-A-ATAATAATAA-C
1 ATAATATATATAA-AATAATT
*
93205553 ATAAATAATATATAAAGTAATT
1 AT-AAT-ATATATAAAATAATT
*
93205575 AT-ATAATATATAATATAA
1 ATAAT-ATATATAAAATAA
93205593 AAATAAGGTT
Statistics
Matches: 148, Mismatches: 28, Indels: 49
0.66 0.12 0.22
Matches are distributed among these distances:
17 6 0.04
18 9 0.06
19 23 0.16
20 62 0.42
21 25 0.17
22 9 0.06
23 3 0.02
24 6 0.04
25 5 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATATATATAAAATAATT
Found at i:93205540 original size:7 final size:7
Alignment explanation
Indices: 93205528--93205591 Score: 53
Period size: 7 Copynumber: 9.1 Consensus size: 7
93205518 TTTGTGAAAA
93205528 ATAATAT
1 ATAATAT
*
93205535 ATAATAA
1 ATAATAT
93205542 ATAATA-
1 ATAATAT
*
93205548 ATAACATAA
1 AT-A-ATAT
93205557 ATAATAT
1 ATAATAT
93205564 ATAA-AGT
1 ATAATA-T
*
93205571 A-ATTAT
1 ATAATAT
93205577 ATAATAT
1 ATAATAT
93205584 ATAATAT
1 ATAATAT
93205591 A
1 A
93205592 AAAATAAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
6 6 0.13
7 35 0.74
8 4 0.09
9 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:93205563 original size:27 final size:27
Alignment explanation
Indices: 93205428--93205598 Score: 90
Period size: 27 Copynumber: 6.2 Consensus size: 27
93205418 ATGTAAAAAT
93205428 AATACATAATATATATAAATAAT-TAATA
1 AATA-ATAATATA-ATAAATAATATAATA
* *
93205456 AATATATAACACAAGTAAA-AATATAAT-
1 AATA-ATAATATAA-TAAATAATATAATA
* * *
93205483 AATAAT-ATATAA-ATAATGATGTAAAA
1 AATAATAATATAATA-AATAATATAATA
*
93205509 TAATAATAATTTGTGAA-AAATAATATATAATA
1 -AATAATAA--TAT-AATAAAT-A-ATATAATA
93205541 AATAATAATA-ACATAAATAATAT-ATA
1 AATAATAATATA-ATAAATAATATAATA
* *
93205567 AAGTAATTATATAATATATAATATAA-A
1 AA-TAATAATATAATAAATAATATAATA
93205594 AATAA
1 AATAA
93205599 GGTTAAAAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 9 0.08
26 10 0.09
27 39 0.35
28 23 0.21
29 5 0.05
30 5 0.05
31 11 0.10
32 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
AATAATAATATAATAAATAATATAATA
Found at i:93205588 original size:15 final size:15
Alignment explanation
Indices: 93205526--93205588 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
93205516 AATTTGTGAA
93205526 AAATAA-TATATAAT
1 AAATAATTATATAAT
*
93205540 AAATAATAATA-ACAT
1 AAATAATTATATA-AT
93205555 AAATAA-TATAT-A-
1 AAATAATTATATAAT
*
93205567 AAGTAATTATATAAT
1 AAATAATTATATAAT
*
93205582 ATATAAT
1 AAATAAT
93205589 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
12 5 0.13
13 6 0.16
14 11 0.29
15 16 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATAATTATATAAT
Found at i:93207571 original size:205 final size:205
Alignment explanation
Indices: 93207216--93207797 Score: 957
Period size: 205 Copynumber: 2.8 Consensus size: 205
93207206 AATTTGCTTC
* * *
93207216 TTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTCCAGCGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* * *
93207281 CGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTTTAAGCACAAGGATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
**
93207346 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTTTGTCGAAGTGGA
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
93207411 GATGCCAGAA
196 GATGCCAGAA
*
93207421 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
** *
93207486 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTTATTGTAAGCACAAGGATGCCAAACCATATTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
93207551 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
* *
93207616 GATGCTAGAC
196 GATGCCAGAA
* * * * *
93207626 TTCAATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTAAATGTAAGTACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* * *
93207691 TGAAAGCCAAATCGGCTAAGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
*
93207756 GATCTACTTCAGTATAAACATCTGAAGGCTGGATCTGCTATG
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATG
93207798 CTGCGGCCTA
Statistics
Matches: 350, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 350 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
GATGCCAGAA
Found at i:93220636 original size:16 final size:16
Alignment explanation
Indices: 93220607--93220674 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
93220597 GTGATATTTA
* *
93220607 ATAATAGATTTAAAAT
1 ATAATATATATAAAAT
93220623 ATAATATATATAAAA-
1 ATAATATATATAAAAT
*
93220638 A-AATATATTTATAAGAGT
1 ATAATATA--TATAA-AAT
93220656 AATAAT-TATATAAAAT
1 -ATAATATATATAAAAT
93220672 ATA
1 ATA
93220675 TTGGTTTAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.14
15 4 0.10
16 20 0.48
17 6 0.14
19 3 0.07
20 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
ATAATATATATAAAAT
Found at i:93220938 original size:15 final size:17
Alignment explanation
Indices: 93220918--93220951 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93220908 AAATGATAAT
93220918 AATAT-ATAG-ATAAAA
1 AATATAATAGTATAAAA
93220933 AATATAATAGTATAAAA
1 AATATAATAGTATAAAA
93220950 AA
1 AA
93220952 ATGACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AATATAATAGTATAAAA
Found at i:93220950 original size:18 final size:18
Alignment explanation
Indices: 93220918--93220985 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 18
93220908 AAATGATAAT
93220918 AATAT-ATAG-AT-AAAA
1 AATATAATAGTATAAAAA
93220933 AATATAATAGTATAAAAA
1 AATATAATAGTATAAAAA
*
93220951 AATGACATAATAATATAAAATA
1 AAT---ATAATAGTATAAAA-A
*
93220973 ACTATAATA-TATA
1 AATATAATAGTATA
93220986 TAATATGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
15 5 0.11
16 4 0.09
17 2 0.05
18 11 0.25
19 6 0.14
21 13 0.30
22 3 0.07
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (18 bp):
AATATAATAGTATAAAAA
Found at i:93221124 original size:7 final size:7
Alignment explanation
Indices: 93221112--93221175 Score: 53
Period size: 7 Copynumber: 9.1 Consensus size: 7
93221102 TTTGTGAAAA
93221112 ATAATAT
1 ATAATAT
*
93221119 ATAATAA
1 ATAATAT
93221126 ATAATA-
1 ATAATAT
*
93221132 ATAACATAA
1 AT-A-ATAT
93221141 ATAATAT
1 ATAATAT
93221148 ATAA-AGT
1 ATAATA-T
*
93221155 A-ATTAT
1 ATAATAT
93221161 ATAATAT
1 ATAATAT
93221168 ATAATAT
1 ATAATAT
93221175 A
1 A
93221176 AAAATAAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
6 6 0.13
7 35 0.74
8 4 0.09
9 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:93221134 original size:20 final size:20
Alignment explanation
Indices: 93220907--93221173 Score: 104
Period size: 20 Copynumber: 13.4 Consensus size: 20
93220897 AGTTAAAACT
*
93220907 TAAATGATAATAATATATAGA
1 TAAATAATAATAATATATA-A
*
93220928 TAAAAAAT-ATAATAGTATAAA
1 TAAATAATAATAATA-TAT-AA
* *
93220949 AAAATGACATAATAATATAAAA
1 TAAAT-A-ATAATAATATATAA
*
93220971 TAACT-ATAAT-ATATATAA
1 TAAATAATAATAATATATAA
*
93220989 T--ATGAA-AATACATATGTAA
1 TAAAT-AATAATA-ATATATAA
93221008 -AAATAATACATAATATAT-A
1 TAAATAATA-ATAATATATAA
93221027 TAAATAATTAATAA-ATAT-A
1 TAAATAA-TAATAATATATAA
*
93221046 TAACACAAGTAA-AA-ATATAA
1 TAA-ATAA-TAATAATATATAA
*
93221066 T-AATAAT-AT-ATAAATAA
1 TAAATAATAATAATATATAA
**
93221083 TGATGTAA-AATAATA-ATAA
1 T-AAATAATAATAATATATAA
*** *
93221102 TTTGTGAAAAATAATATATAA
1 TAAAT-AATAATAATATATAA
*
93221123 TAAATAATAATAACATA-AA
1 TAAATAATAATAATATATAA
93221142 T-AATATATAAAGTAATTATATAA
1 TAAATA-AT-AA-TAA-TATATAA
*
93221165 TATATAATA
1 TAAATAATA
93221174 TAAAAATAAG
Statistics
Matches: 189, Mismatches: 25, Indels: 63
0.68 0.09 0.23
Matches are distributed among these distances:
16 3 0.02
17 10 0.05
18 19 0.10
19 47 0.25
20 54 0.29
21 27 0.14
22 11 0.06
23 9 0.05
24 9 0.05
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAATAATAATAATATATAA
Found at i:93221147 original size:27 final size:27
Alignment explanation
Indices: 93221010--93221182 Score: 59
Period size: 27 Copynumber: 6.4 Consensus size: 27
93221000 ATATGTAAAA
* *
93221010 ATAATACATAATAT-ATATA-AATAAT
1 ATAATAAATAATATAATAAATAATAAT
* *
93221035 -TAATAAAT-ATATAACACAAGTAAAAAT
1 ATAATAAATAATATAATA-AA-TAATAAT
*
93221062 ATAAT-AATAATAT-ATAAATAATGATGT
1 ATAATAAATAATATAATAAATAAT-A-AT
* *
93221089 AAAATAATAATAATTTGTGAA-AAATAAT-AT
1 ATAAT-A-AATAA--TAT-AATAAATAATAAT
93221119 ATAATAAAT-A-ATAATAACATAAATAAT
1 ATAATAAATAATATAATAA-AT-AATAAT
93221146 AT-ATAAAGTAAT-T-ATATAATATATAAT
1 ATAATAAA-TAATATAATA-AATA-ATAAT
93221173 ATAA-AAATAA
1 ATAATAAATAA
93221183 GGTTCAAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 49
0.65 0.07 0.28
Matches are distributed among these distances:
23 6 0.05
24 12 0.11
25 6 0.05
26 15 0.14
27 36 0.32
28 15 0.14
29 1 0.01
30 10 0.09
32 2 0.02
33 7 0.06
34 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (27 bp):
ATAATAAATAATATAATAAATAATAAT
Found at i:93221172 original size:15 final size:15
Alignment explanation
Indices: 93221110--93221172 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
93221100 AATTTGTGAA
93221110 AAATAA-TATATAAT
1 AAATAATTATATAAT
*
93221124 AAATAATAATA-ACAT
1 AAATAATTATATA-AT
93221139 AAATAA-TATAT-A-
1 AAATAATTATATAAT
*
93221151 AAGTAATTATATAAT
1 AAATAATTATATAAT
*
93221166 ATATAAT
1 AAATAAT
93221173 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
12 5 0.13
13 6 0.16
14 11 0.29
15 16 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATAATTATATAAT
Found at i:93223564 original size:19 final size:19
Alignment explanation
Indices: 93223541--93223587 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
93223531 ATTTAATCTA
*
93223541 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
93223559 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
93223579 ATTTTTATT
1 ATTTTTATT
93223588 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:93223917 original size:43 final size:43
Alignment explanation
Indices: 93223839--93223969 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
93223829 TTTTAGTGCG
*
93223839 TTTGT-GGTAAAAGCGCCGCTAAAGGTCATG-CTTTTAGTGGCA
1 TTTGTGGGT-AAAGCGCCGCTAAAGGTCATGACTTTTAGCGGCA
** * * *
93223881 TTTGTGGGTAAAGTACCGCTAAAGGTTATGATTTTTAGCGGCG
1 TTTGTGGGTAAAGCGCCGCTAAAGGTCATGACTTTTAGCGGCA
* *
93223924 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCA
1 TTTGTGGGTAAAGCGCCGCTAAAGGTCATGACTTTTAGCGGCA
93223967 TTT
1 TTT
93223970 TTTCACATAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
42 23 0.31
43 51 0.69
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
TTTGTGGGTAAAGCGCCGCTAAAGGTCATGACTTTTAGCGGCA
Found at i:93224227 original size:21 final size:21
Alignment explanation
Indices: 93224188--93224253 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
93224178 GGTTTAGGGT
*
93224188 TTTAGAGTTTATGGA-TTAGTG
1 TTTAGGGTTTAT-GATTTAGTG
* * **
93224209 TTTATGGTTTATGTTTTAGAA
1 TTTAGGGTTTATGATTTAGTG
*
93224230 TTTAGGGTTTA-GATTTAATG
1 TTTAGGGTTTATGATTTAGTG
93224250 TTTA
1 TTTA
93224254 AGACTTAAGG
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTAGTG
Found at i:93224655 original size:41 final size:41
Alignment explanation
Indices: 93224557--93224687 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 41
93224547 AACTTTTTGC
* * *
93224557 GGCGTTTGGACCAAAAACGCCGCTGTTGCTCAGTTTTTGGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
93224598 GGTGTTT-TACATAAAAACACTGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGAC-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
93224639 GGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
93224680 GGCGTTTG
1 GGCGTTTG
93224688 CTATTGATCA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
40 2 0.03
41 69 0.96
42 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:93224692 original size:27 final size:27
Alignment explanation
Indices: 93224662--93224714 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
93224652 AAAACGCCGT
*
93224662 TATTGATTAGTTTTTAGTGGCGTTTGC
1 TATTGATCAGTTTTTAGTGGCGTTTGC
93224689 TATTGATCAGTTTTTAGTGGCGTTTG
1 TATTGATCAGTTTTTAGTGGCGTTTG
93224715 GGCCAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.08, G:0.26, T:0.51
Consensus pattern (27 bp):
TATTGATCAGTTTTTAGTGGCGTTTGC
Found at i:93224727 original size:68 final size:68
Alignment explanation
Indices: 93224618--93224755 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
93224608 ATAAAAACAC
93224618 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
1 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
93224683 GTT
66 GTT
93224686 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
1 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
93224751 GTT
66 GTT
93224754 TG
1 TG
93224756 GCCAAAAACG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (68 bp):
TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
GTT
Found at i:93224746 original size:41 final size:41
Alignment explanation
Indices: 93224687--93224939 Score: 402
Period size: 41 Copynumber: 6.2 Consensus size: 41
93224677 AGTGGCGTTT
93224687 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
* *
93224728 GTTATTGATTAGTTTTTAGTGGCGTTT-GGCCAAAAACGCC
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
* * *
93224768 GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGCT
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
93224809 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
* *
93224850 GCTATTGATAAGTTTTTAGTGGCGTTT-GGCCGAAAACGCC
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
* * *
93224890 GCTATTGATCAGTTTTTAGTGGTGTTTGGGCGAAAAATGCC
1 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
93224931 GCTATTGAT
1 GCTATTGAT
93224940 GCAAAACGCC
Statistics
Matches: 194, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 75 0.39
41 119 0.61
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCC
Found at i:93224823 original size:81 final size:82
Alignment explanation
Indices: 93224687--93224939 Score: 411
Period size: 81 Copynumber: 3.1 Consensus size: 82
93224677 AGTGGCGTTT
* * *
93224687 GCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGCG
1 GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG
93224752 TTT-GGCCAAAAACGCC
66 TTTGGGCCAAAAACGCC
* *
93224768 GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGCTGCTATTGATCAGTTTTTAGTGGCG
1 GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG
93224833 TTTGGGCCAAAAACGCC
66 TTTGGGCCAAAAACGCC
* *
93224850 GCTATTGATAAGTTTTTAGTGGCGTTT-GGCCGAAAACGCCGCTATTGATCAGTTTTTAGTGGTG
1 GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG
* *
93224914 TTTGGGCGAAAAATGCC
66 TTTGGGCCAAAAACGCC
93224931 GCTATTGAT
1 GCTATTGAT
93224940 GCAAAACGCC
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
81 120 0.75
82 40 0.25
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (82 bp):
GCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG
TTTGGGCCAAAAACGCC
Found at i:93224904 original size:122 final size:122
Alignment explanation
Indices: 93224686--93224939 Score: 445
Period size: 122 Copynumber: 2.1 Consensus size: 122
93224676 TAGTGGCGTT
* *
93224686 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGTTATTGATTAGTTTTTAGTGGC
1 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGC
93224751 GTTTGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGC
66 GTTTGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGC
93224808 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGC
1 TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGC
* * * *
93224873 GTTTGGCCGAAAACGCCGCTATTGATCAGTTTTTAGTGGTGTTTGGGCGAAAAATGC
66 GTTTGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGC
*
93224930 CGCTATTGAT
1 TGCTATTGAT
93224940 GCAAAACGCC
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 125 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (122 bp):
TGCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGC
GTTTGGCCAAAAACGCCGCTATTGATAAGTTTTTAGTGGCGTTTGGGCCAAAAATGC
Found at i:93228448 original size:3 final size:3
Alignment explanation
Indices: 93228440--93228486 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
93228430 CCAACCGCAA
93228440 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
93228487 TTTATAAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93236930 original size:50 final size:50
Alignment explanation
Indices: 93236875--93236976 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
93236865 TTTGTGTGTA
93236875 TATACATATCCCTAGTTTTTATGTAAAATATTTCGAATTCTAGCATACGC
1 TATACATATCCCTAGTTTTTATGTAAAATATTTCGAATTCTAGCATACGC
*
93236925 TATACATATCCCTAGTTTTTATGTAAAATATTTCGAATTCTAGTATACGC
1 TATACATATCCCTAGTTTTTATGTAAAATATTTCGAATTCTAGCATACGC
93236975 TA
1 TA
93236977 GTTTTTATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (50 bp):
TATACATATCCCTAGTTTTTATGTAAAATATTTCGAATTCTAGCATACGC
Found at i:93263238 original size:111 final size:111
Alignment explanation
Indices: 93263044--93263340 Score: 423
Period size: 111 Copynumber: 2.7 Consensus size: 111
93263034 TGTTATCAGA
* * * *
93263044 TGGATTAGCTCTTGTGAGCATTTGGCGTGTTATCAGTTGGATTAGATCTTATGAGCATTTGGTGT
1 TGGATTAGCTCTTATGAGCATTTGGTGTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGTGT
* * **
93263109 GTTATTGGTTGGATTAGCTCTTATGAGCATTTGGCATGTTTTCGGT
66 GTTTTTGGTTGGATTAGCTCTGATGAGCATTTGGCATGTTAGCGGT
* * * **
93263155 TGGATCAGCTCTTATGAACATTTGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATTTGGAAT
1 TGGATTAGCTCTTATGAGCATTTGGTGTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGTGT
*
93263220 GTTTTTGGTTGGATTAGCTCTGATGAGCATTTGGCGTGTTAGCGGT
66 GTTTTTGGTTGGATTAGCTCTGATGAGCATTTGGCATGTTAGCGGT
* * * * *
93263266 TGGATTAGTTGTTATGAGCATGTGGTGTGTTTTCAGTTGGATTAGCTCTTATAAACATTTGGTGT
1 TGGATTAGCTCTTATGAGCATTTGGTGTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGTGT
93263331 GTTTTTGGTT
66 GTTTTTGGTT
93263341 TAATTACTTG
Statistics
Matches: 162, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
111 162 1.00
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (111 bp):
TGGATTAGCTCTTATGAGCATTTGGTGTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGTGT
GTTTTTGGTTGGATTAGCTCTGATGAGCATTTGGCATGTTAGCGGT
Found at i:93263334 original size:37 final size:37
Alignment explanation
Indices: 93263029--93263340 Score: 374
Period size: 37 Copynumber: 8.4 Consensus size: 37
93263019 CTTAGTGCCG
* * * *
93263029 TGGTGTGTTATCAGATGGATTAGCTCTTGTGAGCATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
* * * *
93263066 TGGCGTGTTATCAGTTGGATTAGATCTTATGAGCATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
93263103 TGGTGTGTTATT-GGTTGGATTAGCTCTTATGAGCATT
1 TGGTGTGTT-TTCGGTTGGATTAGCTCTTATGAGCATT
** * *
93263140 TGGCATGTTTTCGGTTGGATCAGCTCTTATGAACATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
93263177 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
** * *
93263214 TGGAATGTTTTTGGTTGGATTAGCTCTGATGAGCATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
* ** * * *
93263251 TGGCGTGTTAGCGGTTGGATTAGTTGTTATGAGCATG
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
* * *
93263288 TGGTGTGTTTTCAGTTGGATTAGCTCTTATAAACATT
1 TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
*
93263325 TGGTGTGTTTTTGGTT
1 TGGTGTGTTTTCGGTT
93263341 TAATTACTTG
Statistics
Matches: 233, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
36 2 0.01
37 230 0.99
38 1 0.00
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (37 bp):
TGGTGTGTTTTCGGTTGGATTAGCTCTTATGAGCATT
Found at i:93271805 original size:21 final size:21
Alignment explanation
Indices: 93271781--93271829 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
93271771 CATCTGAGCC
93271781 TTTAGCTCC-TGAAGCTAAGCT
1 TTTAGCTCCAT-AAGCTAAGCT
* *
93271802 TTTAGCTCCATAAGTTGAGCT
1 TTTAGCTCCATAAGCTAAGCT
93271823 TTTAGCT
1 TTTAGCT
93271830 TGATAGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (21 bp):
TTTAGCTCCATAAGCTAAGCT
Found at i:93274836 original size:47 final size:47
Alignment explanation
Indices: 93274785--93274961 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
93274775 TGGTTGAACA
*
93274785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
93274832 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* *
93274879 TCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
93274925 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93274962 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 3 0.03
46 34 0.31
47 57 0.52
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:93277736 original size:26 final size:26
Alignment explanation
Indices: 93277705--93277812 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93277695 TGAAATGCCC
*
93277705 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93277731 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93277757 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93277783 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93277809 ATCA
1 ATCA
93277813 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93285470 original size:47 final size:46
Alignment explanation
Indices: 93285417--93285587 Score: 195
Period size: 47 Copynumber: 3.7 Consensus size: 46
93285407 GTTGAACATT
*
93285417 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AAACGTC
* * * *
93285464 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CGTC
* * *
93285511 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
*
93285557 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTT
93285588 TTGGGCGGGT
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 33 0.32
47 53 0.51
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
Found at i:93293545 original size:30 final size:30
Alignment explanation
Indices: 93293510--93293597 Score: 117
Period size: 30 Copynumber: 2.9 Consensus size: 30
93293500 CTGGGCATTT
* *
93293510 CCACACAGGCTGGCCACACCCCCATGTGAG
1 CCACACAGGTTGGCCACACACCCATGTGAG
*
93293540 CCACACCA-GTTGGCCACACGCCCATGTGAG
1 CCACA-CAGGTTGGCCACACACCCATGTGAG
93293570 CCACAC-GAGTTGGCCACACACCCATGTG
1 CCACACAG-GTTGGCCACACACCCATGTG
93293598 CCAGTCCATG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.02
30 49 0.94
31 2 0.04
ACGTcount: A:0.24, C:0.41, G:0.23, T:0.12
Consensus pattern (30 bp):
CCACACAGGTTGGCCACACACCCATGTGAG
Found at i:93293576 original size:17 final size:17
Alignment explanation
Indices: 93293522--93293576 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
93293512 ACACAGGCTG
*
93293522 GCCACACCCCCATGTGA
1 GCCACACGCCCATGTGA
93293539 GCCACA---CCA-GTTG-
1 GCCACACGCCCATG-TGA
93293552 GCCACACGCCCATGTGA
1 GCCACACGCCCATGTGA
93293569 GCCACACG
1 GCCACACG
93293577 AGTTGGCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 7 0.22
14 5 0.16
16 5 0.16
17 15 0.47
ACGTcount: A:0.24, C:0.44, G:0.22, T:0.11
Consensus pattern (17 bp):
GCCACACGCCCATGTGA
Found at i:93298835 original size:2 final size:2
Alignment explanation
Indices: 93298830--93298871 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93298820 ACACACACAC
93298830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93298872 GTTTTTAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93306581 original size:38 final size:39
Alignment explanation
Indices: 93306531--93306696 Score: 172
Period size: 46 Copynumber: 3.9 Consensus size: 39
93306521 CTGATATGAA
93306531 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
93306570 -TGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
93306613 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
93306654 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
93306697 ATGACAGAAA
Statistics
Matches: 109, Mismatches: 5, Indels: 19
0.82 0.04 0.14
Matches are distributed among these distances:
38 35 0.32
41 6 0.06
43 2 0.02
44 1 0.01
46 65 0.60
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:93306637 original size:46 final size:46
Alignment explanation
Indices: 93306573--93306730 Score: 228
Period size: 46 Copynumber: 3.4 Consensus size: 46
93306563 CAACCTGTGT
* * * *
93306573 GTAAGACCATGGTTGAAAGATACCATGGAAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
93306619 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
93306665 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
*
93306711 GTAAGACCATAGTTGAAAGA
1 GTAAGACCATGGTTGAAAGA
93306731 CACTATGCCA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 100 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:93307046 original size:23 final size:25
Alignment explanation
Indices: 93307001--93307047 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93306991 AATAAATATA
*
93307001 CATAAAATATATAGAAATGATGAAG
1 CATAAAATATATAGAAATAATGAAG
*
93307026 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATAGAAATAATGAA
93307048 ATGAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATAGAAATAATGAAG
Found at i:93307680 original size:14 final size:14
Alignment explanation
Indices: 93307661--93307742 Score: 59
Period size: 14 Copynumber: 6.0 Consensus size: 14
93307651 CTTGAGACCT
*
93307661 TAAAAAAATCGAAA
1 TAAAAAAATCAAAA
93307675 TAAAAAAATCAAAA
1 TAAAAAAATCAAAA
93307689 TCAAAACAAA--AAAA
1 T-AAAA-AAATCAAAA
*
93307703 -AAAAAAGA-AAAAA
1 TAAAAAA-ATCAAAA
93307716 TTAAAAAAAT-AAAA
1 -TAAAAAAATCAAAA
*
93307730 TAAATAAAT-AAAA
1 TAAAAAAATCAAAA
93307743 AAAGAAGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
11 2 0.03
12 5 0.08
13 16 0.27
14 23 0.39
15 10 0.17
16 3 0.05
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.13
Consensus pattern (14 bp):
TAAAAAAATCAAAA
Found at i:93307688 original size:8 final size:8
Alignment explanation
Indices: 93307672--93307742 Score: 56
Period size: 8 Copynumber: 8.4 Consensus size: 8
93307662 AAAAAAATCG
93307672 AAATAAAA
1 AAATAAAA
93307680 AAATCAAAA
1 AAAT-AAAA
93307689 TCAAA-ACAAA
1 --AAATA-AAA
93307699 AAA-AAAA
1 AAATAAAA
*
93307706 AAAGAAAA
1 AAATAAAA
*
93307714 AATTAAAA
1 AAATAAAA
93307722 AAATAAAA
1 AAATAAAA
93307730 TAAATAAATA
1 -AAATAAA-A
93307740 AAA
1 AAA
93307743 AAAGAAGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
7 6 0.11
8 25 0.47
9 15 0.28
10 4 0.08
11 3 0.06
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:93307690 original size:20 final size:20
Alignment explanation
Indices: 93307665--93307702 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93307655 AGACCTTAAA
* *
93307665 AAAATCGAAATAAAAAAATC
1 AAAATCAAAACAAAAAAATC
93307685 AAAATCAAAACAAAAAAA
1 AAAATCAAAACAAAAAAA
93307703 AAAAAAGAAA
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:0.76, C:0.11, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAATCAAAACAAAAAAATC
Found at i:93308923 original size:64 final size:62
Alignment explanation
Indices: 93308850--93309022 Score: 182
Period size: 54 Copynumber: 2.9 Consensus size: 62
93308840 TATCATCCAT
* **
93308850 ATCACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTAACATCAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTT--ATCATAGCATCCTAATTATTTAACAAAAGC
**
93308914 ATCACATCTAGTTAGGAGCATTTG--------ATCATAGCATCCTAATTATTTGTCAAAAGC
1 ATCACATCTAGTTAGGAGCATTTGATTCATTTATCATAGCATCCTAATTATTTAACAAAAGC
* * *
93308968 ATCACATCTAGTTAGGAGTATTTGATTCATTTTGATCATAACTTCCTAATTATTT
1 ATCACATCTAGTTAGGAGCATTTGATTCA-TTT-ATCATAGCATCCTAATTATTT
93309023 GGCATAAGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
54 48 0.53
64 43 0.47
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (62 bp):
ATCACATCTAGTTAGGAGCATTTGATTCATTTATCATAGCATCCTAATTATTTAACAAAAGC
Found at i:93309434 original size:177 final size:177
Alignment explanation
Indices: 93309232--93309979 Score: 980
Period size: 177 Copynumber: 4.2 Consensus size: 177
93309222 AAAAATGGCA
* * * * *
93309232 AATCTTATCTCTATGTATTGGCAATGGAGCATATTTAAGCCACTAGCCTTATCTGC-CTGAAGTT
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCT-CTCTGAGGTA
* * * *** * * *
93309296 GCAATAGAGCAGGCTCAATATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAAACTAAAGAT
65 GCAAGAGAGCAGGTTCAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
*
93309361 TGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTG
130 TGAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGGTG
* *
93309409 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGTCTTATCTTTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAG
* * * * *
93309474 CAAGAGAGCAGGTTGACGATTGTAGTCTTCTCTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATT
66 CAAGAGAGCAGGTTCAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
* * * *
93309539 GAAGATCTTATCTCCCTAAGCAGTAGTGGAACAAATCAAAGATGGTG
131 GAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGGTG
*
93309586 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCTACTAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAG
* * *
93309651 CAAGAGAGCAGGTTGACGATTGTAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
66 CAAGAGAGCAGGTTCAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
* * **
93309716 GAAGCTCTTATCTCCCAAAGCAGTAGTAGAGCAGATCGAAGATGGAA
131 GAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGGTG
* * * *
93309763 AATCTTATCTCCATGTA-CTGGCAATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGGGGTA
1 AATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTA
* *** *
93309827 GCAAAAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGAT
65 GCAAGAGAGCAGGTTCAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
* * * * * *
93309892 TGAAGATCTTATTTCCCAAAAGAAGTTGTGGAGTAGAT-TAAGGATGGCG
130 TGAAGATCTTATCTCCC-AAAGCAGTAGTGGAGCAGATCGAA-GATGGTG
* *
93309941 AATCTTATCTCCATGTATCGGCAATGAAACAGATTTAAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAG
93309980 ACACCGGTCC
Statistics
Matches: 507, Mismatches: 59, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.00
177 451 0.89
178 54 0.11
179 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTCAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
GAAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGGTG
Found at i:93309500 original size:44 final size:45
Alignment explanation
Indices: 93309452--93309551 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 45
93309442 TTTAAGCCAC
* *
93309452 TAGTCTTATCTTTC-TGAGGTAGCAA-GAGAGCAGGTTGACGATTG
1 TAGTCTTATCTTTCTTGAGGTAGCAAGGA-AGCAGATTGAAGATTG
*
93309496 TAGTCTTCTC-TTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTG
1 TAGTCTTATCTTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTG
*
93309540 AAGATCTTATCT
1 TAG-TCTTATCT
93309552 CCCTAAGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.06
44 36 0.77
45 8 0.17
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (45 bp):
TAGTCTTATCTTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTG
Found at i:93310164 original size:19 final size:19
Alignment explanation
Indices: 93310128--93310180 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
93310118 GAGCCCATAC
*
93310128 CAAAACCAAAATGAAAAAA
1 CAAAACCAAAATAAAAAAA
*
93310147 CAAAA-CAAAATAACAAAA
1 CAAAACCAAAATAAAAAAA
*
93310165 TAAAATCCAATAATAA
1 CAAAA-CCAA-AATAA
93310181 GTGTCCAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 15 0.54
19 5 0.18
20 3 0.11
21 5 0.18
ACGTcount: A:0.72, C:0.15, G:0.02, T:0.11
Consensus pattern (19 bp):
CAAAACCAAAATAAAAAAA
Found at i:93311786 original size:2 final size:2
Alignment explanation
Indices: 93311779--93311816 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93311769 ATTTATGCAC
93311779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93311817 GTTTTTAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93312176 original size:2 final size:2
Alignment explanation
Indices: 93312169--93312205 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
93312159 CGTTTTTATG
93312169 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93312206 GTTTTTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93314110 original size:10 final size:10
Alignment explanation
Indices: 93314095--93314140 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
93314085 ATCATCCCAT
93314095 TTTTATTTTA
1 TTTTATTTTA
93314105 TTTTA-TTTA
1 TTTTATTTTA
93314114 TTATTATTTGTA
1 TT-TTATTT-TA
93314126 TATTT-TTTTA
1 T-TTTATTTTA
93314136 TTTTA
1 TTTTA
93314141 CTAATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 9 0.29
10 11 0.35
11 5 0.16
12 5 0.16
13 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:93314138 original size:16 final size:15
Alignment explanation
Indices: 93314100--93314154 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
93314090 CCCATTTTTA
93314100 TTTTATTTTAT-TTAT
1 TTTTATTTTATATT-T
*
93314115 TATTATTTGTATATTT
1 TTTTATTT-TATATTT
*
93314131 TTTTATTTTACTAATT
1 TTTTATTTTA-TATTT
93314147 TTTTATTT
1 TTTTATTT
93314155 ATTATTCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 9 0.26
16 23 0.68
17 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTATTTTATATTT
Found at i:93317368 original size:35 final size:35
Alignment explanation
Indices: 93317329--93317474 Score: 213
Period size: 35 Copynumber: 4.2 Consensus size: 35
93317319 GTTAGACTAA
*
93317329 CTCTTATTAGCATTGGTGTGTTTTGGAGGGATTAG
1 CTCTTATAAGCATTGGTGTGTTTTGGAGGGATTAG
93317364 CTCTTATAAGCATTGGTGTGTTTTGGAGGGATTAG
1 CTCTTATAAGCATTGGTGTGTTTTGGAGGGATTAG
* * *
93317399 CTCTTATTAGCATTGGTGTGCTTTAGAGGGATTAG
1 CTCTTATAAGCATTGGTGTGTTTTGGAGGGATTAG
* * *
93317434 CTCTTATAAGAATTGGTGTGTTTCGG-GTGGATTGG
1 CTCTTATAAGCATTGGTGTGTTTTGGAG-GGATTAG
93317469 CTCTTA
1 CTCTTA
93317475 CGAGTATCTA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
34 1 0.01
35 99 0.99
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.41
Consensus pattern (35 bp):
CTCTTATAAGCATTGGTGTGTTTTGGAGGGATTAG
Found at i:93317466 original size:70 final size:70
Alignment explanation
Indices: 93317306--93317474 Score: 232
Period size: 70 Copynumber: 2.4 Consensus size: 70
93317296 CTATAATTTT
* * * * * * *
93317306 TTGGTGTGTTTCAGTTAGACTAACTCTTATTAGCATTGGTGTGTTTTGGAGGGATTAGCTCTTAT
1 TTGGTGTGTTTCGGGTGGATTAGCTCTTATTAGCATTGGTGTGCTTTAGAGGGATTAGCTCTTAT
*
93317371 AAGCA
66 AAGAA
*
93317376 TTGGTGTGTTTTGGAG-GGATTAGCTCTTATTAGCATTGGTGTGCTTTAGAGGGATTAGCTCTTA
1 TTGGTGTGTTTCGG-GTGGATTAGCTCTTATTAGCATTGGTGTGCTTTAGAGGGATTAGCTCTTA
93317440 TAAGAA
65 TAAGAA
*
93317446 TTGGTGTGTTTCGGGTGGATTGGCTCTTA
1 TTGGTGTGTTTCGGGTGGATTAGCTCTTA
93317475 CGAGTATCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 1 0.01
70 85 0.99
ACGTcount: A:0.19, C:0.10, G:0.30, T:0.41
Consensus pattern (70 bp):
TTGGTGTGTTTCGGGTGGATTAGCTCTTATTAGCATTGGTGTGCTTTAGAGGGATTAGCTCTTAT
AAGAA
Found at i:93321476 original size:37 final size:37
Alignment explanation
Indices: 93321420--93321552 Score: 169
Period size: 37 Copynumber: 3.6 Consensus size: 37
93321410 CTTAGTGACA
* *
93321420 TGGCATGTTATCAGCTGGATTAGCTCTTGTGAGCATT
1 TGGCATGTTATCAGTTGGATTAGCTCTTATGAGCATT
* *
93321457 TGGCATGTTATCGGTTGGATTAGATCTTATGAGCATT
1 TGGCATGTTATCAGTTGGATTAGCTCTTATGAGCATT
* *
93321494 TGGCGTGTTATC-GATTGGATTAACTCTTATGAGCATT
1 TGGCATGTTATCAG-TTGGATTAGCTCTTATGAGCATT
* * *
93321531 TTGTATGTTTTCAGTTGGATTA
1 TGGCATGTTATCAGTTGGATTA
93321553 CTTATGTACT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
36 1 0.01
37 81 0.98
38 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.42
Consensus pattern (37 bp):
TGGCATGTTATCAGTTGGATTAGCTCTTATGAGCATT
Found at i:93326212 original size:37 final size:40
Alignment explanation
Indices: 93326128--93326218 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 40
93326118 AATGAATTTA
*
93326128 TTATTAAATTTAATTTAATATTTATCTGAATATTAATATGGG
1 TTATTAAATTTAATTTAATATTTATCT-AACATTAATAT-GG
* *
93326170 ATATTAAATTTAATTTAATATTTATCT-ACA-TAATAT-T
1 TTATTAAATTTAATTTAATATTTATCTAACATTAATATGG
93326207 TTATT-AATTTAA
1 TTATTAAATTTAA
93326219 CATTAATGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 7 0.16
37 4 0.09
39 6 0.13
40 2 0.04
42 26 0.58
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (40 bp):
TTATTAAATTTAATTTAATATTTATCTAACATTAATATGG
Found at i:93327179 original size:15 final size:15
Alignment explanation
Indices: 93327159--93327187 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93327149 TTTAACCCTT
93327159 TTAATTAAATTTATG
1 TTAATTAAATTTATG
93327174 TTAATTAAATTTAT
1 TTAATTAAATTTAT
93327188 AAAGGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTAATTAAATTTATG
Found at i:93332735 original size:17 final size:18
Alignment explanation
Indices: 93332702--93332738 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
93332692 TTACATGTAT
93332702 TTTATTATTTATTAATTA
1 TTTATTATTTATTAATTA
*
93332720 TTTATT-TTTGTTAATTA
1 TTTATTATTTATTAATTA
93332737 TT
1 TT
93332739 GTTTAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTATTTATTAATTA
Found at i:93334721 original size:35 final size:35
Alignment explanation
Indices: 93334682--93334951 Score: 260
Period size: 35 Copynumber: 7.7 Consensus size: 35
93334672 ATGGCAAAGT
* * **
93334682 TATGACACATAGGTATGGTATTGTCCATATTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* * *
93334717 TATGACACGTAGGTATGGTATTATCCATATCGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
*
93334752 TAT-AATACGTAGGTATGGTATT-TCTCATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTGTC-CATACCGAGC
* * **
93334787 TGTGAAACGTAAGTATGGTATTGTCCATACTAAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* *
93334822 TATGAAACGTAGGTATGGTATTATCCAAACCGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* * *
93334857 TAT-AATATGTAGGTATGGTATT-TCACATACGGAGT
1 TATGAA-ACGTAGGTATGGTATTGTC-CATACCGAGC
* * **
93334892 TGTGAAACGTAGGTATCGTATTGTCCATACTAAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* *
93334927 GATGAAACGTAGATATGGTAGTTGT
1 TATGAAACGTAGGTATGGTA-TTGT
93334952 AACAGCCCAA
Statistics
Matches: 195, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
34 7 0.04
35 176 0.90
36 12 0.06
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
Found at i:93334843 original size:105 final size:105
Alignment explanation
Indices: 93334694--93334946 Score: 398
Period size: 105 Copynumber: 2.4 Consensus size: 105
93334684 TGACACATAG
* * * * *
93334694 GTATGGTATTGTCCATATTGAGCTATGACACGTAGGTATGGTATTATCCATATCGAGCTATAATA
1 GTATGGTATTGTCCATACTAAGCTATGAAACGTAGGTATGGTATTATCCAAACCGAGCTATAATA
*
93334759 CGTAGGTATGGTATTTCTCATACCGAGTTGTGAAACGTAA
66 CGTAGGTATGGTATTTCACATACCGAGTTGTGAAACGTAA
93334799 GTATGGTATTGTCCATACTAAGCTATGAAACGTAGGTATGGTATTATCCAAACCGAGCTATAATA
1 GTATGGTATTGTCCATACTAAGCTATGAAACGTAGGTATGGTATTATCCAAACCGAGCTATAATA
* * *
93334864 TGTAGGTATGGTATTTCACATACGGAGTTGTGAAACGTAG
66 CGTAGGTATGGTATTTCACATACCGAGTTGTGAAACGTAA
* * *
93334904 GTATCGTATTGTCCATACTAAGCGATGAAACGTAGATATGGTA
1 GTATGGTATTGTCCATACTAAGCTATGAAACGTAGGTATGGTA
93334947 GTTGTAACAG
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 136 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (105 bp):
GTATGGTATTGTCCATACTAAGCTATGAAACGTAGGTATGGTATTATCCAAACCGAGCTATAATA
CGTAGGTATGGTATTTCACATACCGAGTTGTGAAACGTAA
Found at i:93338034 original size:15 final size:15
Alignment explanation
Indices: 93338014--93338082 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
93338004 GTATCTTGGG
93338014 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
93338029 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
93338044 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
93338059 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
93338074 TTTCTTTAT
1 TTTCTTTAT
93338083 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:93338083 original size:30 final size:30
Alignment explanation
Indices: 93338005--93338092 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
93337995 CATAGTATCG
* * * *
93338005 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
93338035 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
93338065 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
93338093 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:93347892 original size:20 final size:20
Alignment explanation
Indices: 93347867--93347908 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
93347857 CTCGATTAGC
*
93347867 ATTAACATTGTTGTCAGTAT
1 ATTAACATTGTTGCCAGTAT
93347887 ATTAACATTGTTGCCAGTAT
1 ATTAACATTGTTGCCAGTAT
93347907 AT
1 AT
93347909 GAGAATGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (20 bp):
ATTAACATTGTTGCCAGTAT
Found at i:93350034 original size:46 final size:47
Alignment explanation
Indices: 93349974--93350204 Score: 319
Period size: 46 Copynumber: 5.0 Consensus size: 47
93349964 TTTGACGTGA
* * * * *
93349974 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
93350020 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATCTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
**
93350066 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCCCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
93350112 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
93350158 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
93350204 T
1 T
93350205 TTGATGCGGT
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.03
46 163 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:93351821 original size:1 final size:1
Alignment explanation
Indices: 93351815--93351852 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
93351805 TTAGTACTTA
* *
93351815 TTTTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
93351853 AAATTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:93352138 original size:118 final size:118
Alignment explanation
Indices: 93351978--93352208 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
93351968 TATTTCCAGT
93351978 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
93352043 CCTACCCCAGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCAGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
93352096 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* **
93352161 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCAGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
93352209 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCAGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:93353046 original size:42 final size:42
Alignment explanation
Indices: 93353000--93353104 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
93352990 GGGATTCTAA
* * *
93353000 GGCTGAAATAGGACTGTTTGGCTGCA-GAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGGA-ATATGACATTCTG
* * *
93353042 GGCTGGAATAGAACTATTTGGCAGCAGGAATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGGAATATGACATTCTG
93353084 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
93353105 TACCATGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGGAATATGACATTCTG
Found at i:93353103 original size:20 final size:19
Alignment explanation
Indices: 93353040--93353104 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
93353030 TATGACATTC
93353040 TGGGCTGGAATAGAACTATT
1 TGGGCTGGAATAGAACT-TT
* *
93353060 TGGCAGCAGGAATATG-GCATTT
1 TGG--GCTGGAATA-GAAC-TTT
93353082 TGGGCTGGAATAGAACTGTT
1 TGGGCTGGAATAGAACT-TT
93353102 TGG
1 TGG
93353105 TACCATGGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
22 14 0.40
23 2 0.06
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (19 bp):
TGGGCTGGAATAGAACTTT
Found at i:93353240 original size:7 final size:7
Alignment explanation
Indices: 93353228--93353288 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
93353218 AAATAAAATA
93353228 AAATAAT
1 AAATAAT
93353235 AAATAAT
1 AAATAAT
93353242 AAATAAT
1 AAATAAT
*
93353249 AAAGAAAAT
1 -AA-ATAAT
**
93353258 AAAGGA-
1 AAATAAT
93353264 AAATAAT
1 AAATAAT
93353271 AAATAA-
1 AAATAAT
93353277 AAATAA-
1 AAATAAT
93353283 AAATAA
1 AAATAA
93353289 ATATTGGGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
6 16 0.35
7 22 0.48
8 4 0.09
9 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (7 bp):
AAATAAT
Done.