Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 335 of 362
Found at i:111678083 original size:146 final size:146
Alignment explanation
Indices: 111677921--111678774 Score: 1121
Period size: 146 Copynumber: 5.9 Consensus size: 146
111677911 ATAAGTAAAA
* * * * *
111677921 TATTTTCGTATATTATTT-TTTATATTTTTTTAGTAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
111677985 TTTTTTTATATTAATTTAATAAATAACCTTGATTTT-GACACTTTCTTCGTATTTTTTTCGTATC
66 TTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAG-CACTTTCTTCGTATTTTTTTCGTATC
111678049 TTATTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
*
111678067 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * * *
111678131 ATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTTCTTATCT
66 TTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTCTTCGTATTTTTTTCGTATCT
111678196 TATTTTTTAAAATATAT
130 TATTTTTTAAAATATAT
* * *
111678213 TATTATT-TTATTTTATTTCTTTATTTTATTTTAGTACATAATGGTTCAAATGTATTATTTAAGT
1 TATT-TTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT
* *
111678277 GTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTAC-TCGTATTTTTTTCTTATA
65 GTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTT-CTTCGTATTTTTTTCGTATC
111678341 TTATTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
* * * *
111678359 TATTTTCGTATTTTATTTTTTTATATTATTTTAG-CCAAAAATGTTTCAAATGTATTATGTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAC-ATAATGTTTCAAATGTATTATTTAAGT
*
111678423 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTA-TTTTTTCGTAT
65 GTTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAG-CACTTTCTTCGTATTTTTTTCGTAT
111678486 CTTATTTTTTAAAATATAT
128 CTTATTTTTTAAAATATAT
*
111678505 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA-T-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
111678568 TATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT-GTATC
66 T-TTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTCTTCGTATTTTTTTCGTATC
111678632 TTA-TTTTT----TA-A-
129 TTATTTTTTAAAATATAT
* *
111678643 -A-------ATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATGTATTATTTAAGTT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAG-T
* * *
111678700 TTTTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTATTTTCGT
65 GTTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTCTTCGTA--TTT-TTTTCGT
*
111678765 ATATTATTTT
126 ATCTTATTTT
111678775 AGTAAATTAA
Statistics
Matches: 641, Mismatches: 42, Indels: 59
0.86 0.06 0.08
Matches are distributed among these distances:
130 50 0.08
132 43 0.07
133 7 0.01
134 3 0.00
135 4 0.01
136 7 0.01
137 4 0.01
139 1 0.00
140 2 0.00
144 9 0.01
145 57 0.09
146 362 0.56
147 92 0.14
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.57
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTCTTCGTATTTTTTTCGTATCTT
ATTTTTTAAAATATAT
Found at i:111678235 original size:13 final size:13
Alignment explanation
Indices: 111678219--111678243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111678209 ATATTATTAT
111678219 TTTATTTTATTTC
1 TTTATTTTATTTC
111678232 TTTATTTTATTT
1 TTTATTTTATTT
111678244 TAGTACATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTC
Found at i:111678652 original size:130 final size:131
Alignment explanation
Indices: 111678514--111678756 Score: 416
Period size: 132 Copynumber: 1.9 Consensus size: 131
111678504 TTATTTTCGT
*
111678514 ATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA-TTATTTTTTAT
1 ATTTTATTTCTTCATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTTATTTTTTAT
111678578 ATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAA
66 ATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAA
111678643 A
131 A
* * *
111678644 ATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATGTATTATTTAAGTTTTTTTTTTA
1 ATTTTATTTCTTCATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAG-TTATTTTTTA
* *
111678709 TATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTT
65 TATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTT
111678757 ATTTTCGTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
130 50 0.48
132 55 0.52
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.58
Consensus pattern (131 bp):
ATTTTATTTCTTCATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTTATTTTTTAT
ATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAA
A
Found at i:111678815 original size:132 final size:129
Alignment explanation
Indices: 111678539--111678816 Score: 282
Period size: 132 Copynumber: 2.1 Consensus size: 129
111678529 ATTATTTTAG
*
111678539 TACATAAT-GTTTCAAATGTATTATTTAATTATTTTTTATATTTTTTCAATAAATAACCCTGATT
1 TACATAATAATTT-AAATGTATTATTTAATTATTTTTTATATTTTTTCAATAAATAACCCTGATT
* * ** ** ***
111678603 TTAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAAAATTTTATTTCTTTATATTATTTTA
65 TTAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAAAATTTAATATCAATATAAAACACTA
* * * *
111678668 GTACATAATATTTTAAATGTATTATTTAAGTTTTTTTTTTATATTTTTTTAATAAATAACCTTGA
1 -TACATAATAATTTAAATGTATTATTTAA--TTATTTTTTATATTTTTTCAATAAATAACCCTGA
111678733 TTTTAGCACTTTATTCGTATTTTTATT-T-TCGTATATTATTTTAGTAAA-TTAATAT-AATA-A
63 TTTTAGCACTTTATTCGTATTTTT-TTGTATC-T-TATT-TTTTA--AAATTTAATATCAATATA
111678793 AAACACT-
122 AAACACTA
111678800 TACATAATACATTTAAA
1 TACATAATA-ATTTAAA
111678817 ACATTTTTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
130 23 0.19
131 14 0.11
132 63 0.51
133 9 0.07
134 7 0.06
135 5 0.04
136 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (129 bp):
TACATAATAATTTAAATGTATTATTTAATTATTTTTTATATTTTTTCAATAAATAACCCTGATTT
TAGCACTTTATTCGTATTTTTTTGTATCTTATTTTTTAAAATTTAATATCAATATAAAACACTA
Found at i:111683303 original size:24 final size:24
Alignment explanation
Indices: 111683271--111683316 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
111683261 TTATTTAACT
111683271 TAATCGAACATGTTCACGAACATA
1 TAATCGAACATGTTCACGAACATA
*
111683295 TAATTGAACATGTTCACGAACA
1 TAATCGAACATGTTCACGAACA
111683317 ATGATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:111695105 original size:95 final size:95
Alignment explanation
Indices: 111694938--111695110 Score: 217
Period size: 95 Copynumber: 1.8 Consensus size: 95
111694928 ATGCTCAGAC
* *
111694938 TTATCCTATAAATAAGTGTCAATTTTTTCACTATTTTCAATAAAAGTTAATTTTAATTTCACATT
1 TTATCCTATAAATAAATGTCAATTTTTTCACTATTTTCAATAAAAGTTAATTTTAATCTCACATT
**
111695003 GTTTAGAGAATACTAATATATATAGCACAT
66 GACTAGAGAATACTAATATATATAGCACAT
* ** * *
111695033 TTATCTTATAAATAAATGAT-AA-TTTTTCACTATTTTCGTTAAAAATTTAATTTTAATC-CTAT
1 TTATCCTATAAATAAATG-TCAATTTTTTCACTATTTTCAAT-AAAAGTTAATTTTAATCTC-AC
111695095 ATTGACTAGAGAATAC
63 ATTGACTAGAGAATAC
111695111 CTTCATAGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
94 17 0.26
95 48 0.73
96 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (95 bp):
TTATCCTATAAATAAATGTCAATTTTTTCACTATTTTCAATAAAAGTTAATTTTAATCTCACATT
GACTAGAGAATACTAATATATATAGCACAT
Found at i:111696073 original size:17 final size:17
Alignment explanation
Indices: 111696043--111696077 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
111696033 ACGTATTACT
* *
111696043 TAAAATATAGTTAAAAA
1 TAAAAAATAATTAAAAA
111696060 TAAAAAATAATTAAAAA
1 TAAAAAATAATTAAAAA
111696077 T
1 T
111696078 TAAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAAATAATTAAAAA
Found at i:111702517 original size:29 final size:29
Alignment explanation
Indices: 111702483--111702542 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
111702473 CAAAAAGTTG
*
111702483 AAATACCAACTTAAAAAAATGTCAAATTT
1 AAATACCAAATTAAAAAAATGTCAAATTT
*
111702512 AAATACCAAATTAAAAAAATGTCAAGTTT
1 AAATACCAAATTAAAAAAATGTCAAATTT
111702541 AA
1 AA
111702543 GTACTAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATACCAAATTAAAAAAATGTCAAATTT
Found at i:111703318 original size:33 final size:33
Alignment explanation
Indices: 111703281--111703344 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
111703271 CTAATATCGA
111703281 ATTCAACTAAATACATGCTAATATAAAAATTGG
1 ATTCAACTAAATACATGCTAATATAAAAATTGG
*
111703314 ATTCAACTAAATACATGCTAGTATAAAAATT
1 ATTCAACTAAATACATGCTAATATAAAAATT
111703345 CAGAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (33 bp):
ATTCAACTAAATACATGCTAATATAAAAATTGG
Found at i:111707642 original size:57 final size:57
Alignment explanation
Indices: 111707581--111707693 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
111707571 GTGATAAATT
111707581 TATATATATAATGTGTGTATTTATCGTCTAATTTCGGTTATGATTAATATCCCATTA
1 TATATATATAATGTGTGTATTTATCGTCTAATTTCGGTTATGATTAATATCCCATTA
111707638 TATATATATAATGTGTGTATTTATCGTCTAATTTCGGTTATGATTAATATCCCATT
1 TATATATATAATGTGTGTATTTATCGTCTAATTTCGGTTATGATTAATATCCCATT
111707694 TTAACATTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (57 bp):
TATATATATAATGTGTGTATTTATCGTCTAATTTCGGTTATGATTAATATCCCATTA
Found at i:111707737 original size:13 final size:12
Alignment explanation
Indices: 111707719--111707767 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
111707709 AAACTTTATT
111707719 TATTTTTATATA
1 TATTTTTATATA
*
111707731 GTATTTTTATAAA
1 -TATTTTTATATA
*
111707744 TATATTTTACATA
1 TAT-TTTTATATA
*
111707757 TTTTTTTATAT
1 TATTTTTATAT
111707768 TATAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTTTTATATA
Found at i:111709646 original size:27 final size:25
Alignment explanation
Indices: 111709584--111709651 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
111709574 AATTAATCAG
* *
111709584 ATATTAATTTAATTAAAAAAATTAA
1 ATATTAATATAATTAAAAAAAATAA
* *
111709609 AAATCATATATATATTAAAAAATAATAA
1 ATATTA-ATATA-ATTAAAAAA-AATAA
111709637 ATATTAATATAATTA
1 ATATTAATATAATTA
111709652 TGTTTCTACC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 14 0.41
28 8 0.24
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
ATATTAATATAATTAAAAAAAATAA
Found at i:111710753 original size:108 final size:108
Alignment explanation
Indices: 111710583--111710807 Score: 371
Period size: 108 Copynumber: 2.1 Consensus size: 108
111710573 TTTTTTTTAG
* *
111710583 TTTTTAATAATGAAATGACTTAATTAATATAACATCAATAGTTTAGAGTTGTAATTAGAATATTT
1 TTTTTAATAATGAAAGGACTTAATTAATATAACATCAATAGTTTAGAGTTGTAATTAAAATATTT
*
111710648 TGAAGTTTAAACTTATATTTTCTTCTTATTTTAATTATTAAAAA
66 TGAAATTTAAACTTATATTTTCTTCTTATTTT-ATTATTAAAAA
*
111710692 TTTTTAATAATGAAAGGACTTAATTAATA-AACATTAATAGTTTAGAGTTGTAATTAAAATATTT
1 TTTTTAATAATGAAAGGACTTAATTAATATAACATCAATAGTTTAGAGTTGTAATTAAAATATTT
*
111710756 TGAAATTTAAATTTATATTTTCTTCTTATTTTATTATTAAAAA
66 TGAAATTTAAACTTATATTTTCTTCTTATTTTATTATTAAAAA
* *
111710799 GTCTTAATA
1 TTTTTAATA
111710808 TAAAAAGGAT
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 18 0.17
108 63 0.58
109 28 0.26
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (108 bp):
TTTTTAATAATGAAAGGACTTAATTAATATAACATCAATAGTTTAGAGTTGTAATTAAAATATTT
TGAAATTTAAACTTATATTTTCTTCTTATTTTATTATTAAAAA
Found at i:111713877 original size:40 final size:40
Alignment explanation
Indices: 111713829--111713908 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
111713819 TTTGAATTTC
111713829 ATCTTTTAATTTGAAAAGTTAATTTTCTATTTTAATTTAT
1 ATCTTTTAATTTGAAAAGTTAATTTTCTATTTTAATTTAT
111713869 ATCTTTTAATTTGAAAAGTTAATTTTCTATTTTAATTTAT
1 ATCTTTTAATTTGAAAAGTTAATTTTCTATTTTAATTTAT
111713909 CAAAATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (40 bp):
ATCTTTTAATTTGAAAAGTTAATTTTCTATTTTAATTTAT
Found at i:111723030 original size:32 final size:32
Alignment explanation
Indices: 111722989--111723053 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
111722979 GTTGCTGACC
111722989 TACTCTTCTTCCTCCTCTTCTACGGTTCAAGT
1 TACTCTTCTTCCTCCTCTTCTACGGTTCAAGT
111723021 TACTCTTCTTCCTCCTCTTCTACGGTTCAAGT
1 TACTCTTCTTCCTCCTCTTCTACGGTTCAAGT
111723053 T
1 T
111723054 TTTCCTATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.34, G:0.09, T:0.45
Consensus pattern (32 bp):
TACTCTTCTTCCTCCTCTTCTACGGTTCAAGT
Found at i:111732352 original size:42 final size:42
Alignment explanation
Indices: 111732289--111732386 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
111732279 GGCTAGACTC
* * * *
111732289 TTGTAATAATATATCAATTATTGAGCTATCTGAATTCAATTA
1 TTGTAATAATAGATTAGTTATTAAGCTATCTGAATTCAATTA
* * *
111732331 TCT-TAATATTAGATTAGTTATTAAGTTATTTGAATTCAATTA
1 T-TGTAATAATAGATTAGTTATTAAGCTATCTGAATTCAATTA
111732373 TTGTAATAATAGAT
1 TTGTAATAATAGAT
111732387 CAATTCAGAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (42 bp):
TTGTAATAATAGATTAGTTATTAAGCTATCTGAATTCAATTA
Found at i:111732373 original size:22 final size:21
Alignment explanation
Indices: 111732302--111732374 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 21
111732292 TAATAATATA
* *
111732302 TCAATTATTGAGCTATCTGAAT
1 TCAATTATTAAG-TATTTGAAT
*
111732324 TCAATTATCTTAA-TATTAG-AT
1 TCAATTA--TTAAGTATTTGAAT
*
111732345 T-AGTTATTAAGTTATTTGAAT
1 TCAATTATTAAG-TATTTGAAT
111732366 TCAATTATT
1 TCAATTATT
111732375 GTAATAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.10
20 9 0.23
21 6 0.15
22 17 0.44
24 3 0.08
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (21 bp):
TCAATTATTAAGTATTTGAAT
Found at i:111737582 original size:27 final size:27
Alignment explanation
Indices: 111737552--111737604 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
111737542 TGTAATGTGG
*
111737552 TATTAAGAATATATATATACA-ATATAA
1 TATTAAAAATATATATA-ACATATATAA
111737579 TATTAAAAATATATATAACATATATA
1 TATTAAAAATATATATAACATATATA
111737605 GAACATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (27 bp):
TATTAAAAATATATATAACATATATAA
Found at i:111737721 original size:21 final size:22
Alignment explanation
Indices: 111737688--111737790 Score: 106
Period size: 21 Copynumber: 4.8 Consensus size: 22
111737678 ACTTACATAT
111737688 ATATA-AATAATAATATTAGAA
1 ATATACAATAATAATATTAGAA
*
111737709 ATATACAAT-ATAATATTAGAG
1 ATATACAATAATAATATTAGAA
* * *
111737730 ATATACATATAATAGTATAAAAA
1 ATATACA-ATAATAATATTAGAA
*
111737753 ATATATAACTAATAATATTA-AA
1 ATATACAA-TAATAATATTAGAA
*
111737775 ATATA-TATAATAATAT
1 ATATACAATAATAATAT
111737791 ATATAAAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.13
21 24 0.35
22 13 0.19
23 23 0.33
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATACAATAATAATATTAGAA
Found at i:111737765 original size:23 final size:21
Alignment explanation
Indices: 111737738--111737802 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 21
111737728 AGATATACAT
111737738 ATAATAGTATAAAAAATATATA
1 ATAATA-TATAAAAAATATATA
*
111737760 ACTAATAATATTAAAATATATATA
1 A-TAAT-ATA-TAAAAAATATATA
*
111737784 ATAATATATATAAAATATA
1 ATAATATATAAAAAATATA
111737803 ATATTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 9 0.24
22 4 0.11
23 10 0.27
24 14 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAATATATAAAAAATATATA
Found at i:111737794 original size:14 final size:13
Alignment explanation
Indices: 111737686--111737806 Score: 62
Period size: 14 Copynumber: 9.3 Consensus size: 13
111737676 ATACTTACAT
111737686 ATATATAAATAATA
1 ATATAT-AATAATA
111737700 ATAT-TAGA-AATA
1 ATATATA-ATAATA
* *
111737712 TACAATATAATATTA
1 -A-TATATAATAATA
*
111737727 GAGATATACAT-ATA
1 -ATATATA-ATAATA
111737741 ATAGTATAA-AA-A
1 ATA-TATAATAATA
111737753 ATATATAACTAATA
1 ATATATAA-TAATA
111737767 ATAT-TAA-AAT-
1 ATATATAATAATA
111737777 ATATATAATAAT-
1 ATATATAATAATA
*
111737789 ATATATAAAATATA
1 ATATATAATA-ATA
111737803 ATAT
1 ATAT
111737807 TAAAAACTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
10 4 0.05
11 11 0.13
12 21 0.25
13 14 0.16
14 27 0.32
15 8 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:111737804 original size:36 final size:38
Alignment explanation
Indices: 111737764--111737836 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
111737754 TATATAACTA
*
111737764 ATAATATTAAAATA-T-ATATA-ATAATATATATAAAAT
1 ATAATATTAAAA-ACTCATATACATAACATATATAAAAT
111737800 ATAATATTAAAAACTCATATACATAACATATATAAAA
1 ATAATATTAAAAACTCATATACATAACATATATAAAA
111737837 AAAACATATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 1 0.03
36 13 0.39
37 5 0.15
38 14 0.42
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (38 bp):
ATAATATTAAAAACTCATATACATAACATATATAAAAT
Found at i:111737812 original size:14 final size:11
Alignment explanation
Indices: 111737745--111737802 Score: 64
Period size: 11 Copynumber: 5.0 Consensus size: 11
111737735 CATATAATAG
*
111737745 TATAAAAAATA
1 TATAAAATATA
111737756 TATAACTAATA-A
1 TATAA--AATATA
111737768 TATTAAAATATA
1 TA-TAAAATATA
111737780 TATAATAATATA
1 TATAA-AATATA
111737792 TATAAAATATA
1 TATAAAATATA
111737803 ATATTAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
11 18 0.44
12 17 0.41
13 6 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAAAATATA
Found at i:111738292 original size:3 final size:3
Alignment explanation
Indices: 111738216--111738274 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
111738206 GAATATATAC
* *
111738216 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAC TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
111738262 TAA TAC TAA TAA T
1 TAA TAA TAA TAA T
111738275 TCAAAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:111741519 original size:31 final size:29
Alignment explanation
Indices: 111741450--111741523 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
111741440 ACAAAATAAT
**
111741450 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATGACA
*
111741479 AACATAAGTGACTAAAATGTAACCTGGGACA
1 AACATAAGTGACTAAAATGTAACAT--GACA
*
111741510 AACAAAAGTGACTA
1 AACATAAGTGACTA
111741524 TTTTTGCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATGACA
Found at i:111744363 original size:52 final size:52
Alignment explanation
Indices: 111744306--111744409 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
111744296 TGGTATTCCT
111744306 TTCAATTAAAATGTTTATGTGAATTTTTAAAAATATTCCTTCAAACATTAAA
1 TTCAATTAAAATGTTTATGTGAATTTTTAAAAATATTCCTTCAAACATTAAA
*
111744358 TTCAATTAAAATGTTTATGTGAGTTTTTAAAAATATTCCTTCAAACATTAAA
1 TTCAATTAAAATGTTTATGTGAATTTTTAAAAATATTCCTTCAAACATTAAA
111744410 AAATTAACAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (52 bp):
TTCAATTAAAATGTTTATGTGAATTTTTAAAAATATTCCTTCAAACATTAAA
Found at i:111745968 original size:20 final size:20
Alignment explanation
Indices: 111745943--111745982 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
111745933 GGAAGCTCTC
111745943 TGTTCTTTTTGTTTAAAGTT
1 TGTTCTTTTTGTTTAAAGTT
111745963 TGTTCTTTTTGTTTAAAGTT
1 TGTTCTTTTTGTTTAAAGTT
111745983 GGGGGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.65
Consensus pattern (20 bp):
TGTTCTTTTTGTTTAAAGTT
Found at i:111746971 original size:3 final size:3
Alignment explanation
Indices: 111746965--111746992 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
111746955 ATTTTACTAC
111746965 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
111746993 CCTAATATAT
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:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:111747098 original size:24 final size:21
Alignment explanation
Indices: 111747071--111747122 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
111747061 CATTATACCA
111747071 TATATGTTATTTATAAATATATAT
1 TATATGTT-TTT-TAAATAT-TAT
* *
111747095 TATATATTTTTTATATATTAT
1 TATATGTTTTTTAAATATTAT
111747116 TATATGT
1 TATATGT
111747123 GTACATGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 6 0.24
23 3 0.12
24 7 0.28
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TATATGTTTTTTAAATATTAT
Found at i:111747620 original size:3 final size:3
Alignment explanation
Indices: 111747612--111747656 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
111747602 ACTTCATTGC
*
111747612 ATT ATT ATT ATT ATT A-T ATT ATT ATT GTT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
111747657 CATTGTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:111747672 original size:23 final size:23
Alignment explanation
Indices: 111747611--111747663 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
111747601 TACTTCATTG
* *
111747611 CATTATTATTATTATTATATTAT
1 CATTGTTATTATTATTATTTTAT
*
111747634 TATTGTTATTATTATTATTTTAT
1 CATTGTTATTATTATTATTTTAT
111747657 CATTGTT
1 CATTGTT
111747664 TGTGTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
CATTGTTATTATTATTATTTTAT
Found at i:111758821 original size:35 final size:35
Alignment explanation
Indices: 111758782--111758852 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
111758772 ACGGCTATGG
*
111758782 GCATATTATATATGAAAGTGTAATATTTTAACTAA
1 GCATAATATATATGAAAGTGTAATATTTTAACTAA
111758817 GCATAATATATATGAAAGTGTAATATTTTAACTAA
1 GCATAATATATATGAAAGTGTAATATTTTAACTAA
111758852 G
1 G
111758853 GTTAAAAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (35 bp):
GCATAATATATATGAAAGTGTAATATTTTAACTAA
Found at i:111760081 original size:56 final size:56
Alignment explanation
Indices: 111759963--111760073 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
111759953 TTCGACTTGT
* * *
111759963 GATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGATTCCGATATATGTGTACGAGTAAGACCACGTATAAGACGTTGGCATC
111760019 GATATGTGATTCCGATATATGTGTACGAGTAAGACC-CTGTATAAGACAG-TGGCAT
1 GATATGTGATTCCGATATATGTGTACGAGTAAGACCAC-GTATAAGAC-GTTGGCAT
111760074 TGTTATGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 1 0.02
56 48 0.96
57 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (56 bp):
GATATGTGATTCCGATATATGTGTACGAGTAAGACCACGTATAAGACGTTGGCATC
Found at i:111763971 original size:95 final size:95
Alignment explanation
Indices: 111763808--111763990 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 95
111763798 TCTCAGCCAT
* ** * * *
111763808 TCATTAAGATTACAAGTATTCTCTACCAACATTTATCAATTTGGCATGTTAATTAAGTTATCAAA
1 TCATTAAGATTACAAATATTCTCTACCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
111763873 TATATAACTATTTTCTCACTTGGTTTATAA
66 TATATAACTATTTTCTCACTTGGTTTATAA
* * * *
111763903 TCATTAAGATTATAAATA-TCTTTCATCAACATTTATCAATTTCACATATTGATTAAATTATAAA
1 TCATTAAGATTACAAATATTCTCT-ACCAACATTTATCAATTTCACATATTAATTAAATTATAAA
111763967 ATATATAACTATTTTCTCACTTGG
65 ATATATAACTATTTTCTCACTTGG
111763991 CTTAAAACTA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 4 0.05
95 73 0.95
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.43
Consensus pattern (95 bp):
TCATTAAGATTACAAATATTCTCTACCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
TATATAACTATTTTCTCACTTGGTTTATAA
Found at i:111764014 original size:95 final size:93
Alignment explanation
Indices: 111763834--111764021 Score: 234
Period size: 95 Copynumber: 2.0 Consensus size: 93
111763824 TATTCTCTAC
** * * * *
111763834 CAACATTTATCAATTTGGCATGTTAATTAAGTTATCAAATATATAACTATTTTCTCACTTGGTTT
1 CAACATTTATCAATTTCACATATTAATTAAATTATAAAATATATAACTATTTTCTCACTTGGCTT
* *
111763899 ATAATCATTAAGATTATAAATATCTTTCAT
66 AAAATAATT-AGATTATAAATAT-TTTCAT
*
111763929 CAACATTTATCAATTTCACATATTGATTAAATTATAAAATATATAACTATTTTCTCACTTGGCTT
1 CAACATTTATCAATTTCACATATTAATTAAATTATAAAATATATAACTATTTTCTCACTTGGCTT
* *
111763994 AAAACTAATT-GTTGTTTAAATATTTTCA
66 AAAA-TAATTAGAT-TATAAATATTTTCA
111764022 ATTAGTTATT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
94 7 0.09
95 69 0.86
96 4 0.05
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (93 bp):
CAACATTTATCAATTTCACATATTAATTAAATTATAAAATATATAACTATTTTCTCACTTGGCTT
AAAATAATTAGATTATAAATATTTTCAT
Found at i:111767722 original size:27 final size:27
Alignment explanation
Indices: 111767665--111767723 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
111767655 TTCATACAGC
* * *
111767665 TCTGATTCCGGTTCTGATTCCTATTCT
1 TCTGATTCAGATTCTGATTCCTATTCA
*
111767692 TCTGATTCAGATTCTGATGT-CTCTTCA
1 TCTGATTCAGATTCTGAT-TCCTATTCA
111767719 TCTGA
1 TCTGA
111767724 GTCAAGTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (27 bp):
TCTGATTCAGATTCTGATTCCTATTCA
Found at i:111773423 original size:156 final size:154
Alignment explanation
Indices: 111773142--111773452 Score: 473
Period size: 156 Copynumber: 2.0 Consensus size: 154
111773132 ATTTGCAAGT
* * * *
111773142 ATCTCGATCCTAAACCGTAAGTATTTAAAATTTTCAGTATCATTTCTTTAGCATATGCTTACTAA
1 ATCTCGATCCTAAACCGTAAGCATTTAAAACTTTCAATATCATTTCTTTAGCATATACTTACTAA
* * *
111773207 CAAAGGGAACAAAAAATTATTTATATTATTATCAGGAAATTTTCCAAAGATCTATCATATTCATG
66 CAAAGGGAACAAAAAAATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATTCATG
111773272 TATGGAA-AAACTTGAGCCTAAAC
131 TATGGAAGAAACTTGAGCCTAAAC
* * * *
111773295 ATCTCGATCCTCAACCGTAAGCATTTTAAACTTTGAATATCATTTCTTTAGCATGTACTTTACTA
1 ATCTCGATCCTAAACCGTAAGCATTTAAAACTTTCAATATCATTTCTTTAGCATATAC-TTACTA
111773360 ACAAAGGGAACGGAAAAAGAAT-TTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATT
65 ACAAAGGGAAC--AAAAA-AATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATT
111773424 CATGTATGGAAGAAACTTGAGCCTAAAC
127 CATGTATGGAAGAAACTTGAGCCTAAAC
111773452 A
1 A
111773453 AATCGACAGA
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
153 50 0.35
154 17 0.12
156 56 0.39
157 19 0.13
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (154 bp):
ATCTCGATCCTAAACCGTAAGCATTTAAAACTTTCAATATCATTTCTTTAGCATATACTTACTAA
CAAAGGGAACAAAAAAATATTTATATTATTATCAGAAAATTCTCCAAAGATCTATCATATTCATG
TATGGAAGAAACTTGAGCCTAAAC
Found at i:111775318 original size:9 final size:9
Alignment explanation
Indices: 111775304--111775374 Score: 65
Period size: 9 Copynumber: 7.7 Consensus size: 9
111775294 TTCTTATATT
111775304 TTTTTTTAC
1 TTTTTTTAC
111775313 TTTTTTTAC
1 TTTTTTTAC
111775322 -TTTTTTAC
1 TTTTTTTAC
111775330 TTTTTTT-C
1 TTTTTTTAC
*
111775338 TTATATTTTGTC
1 TT-T-TTTT-AC
*
111775350 TTTTTCTTAG
1 TTTTT-TTAC
*
111775360 TTTTTTTTC
1 TTTTTTTAC
111775369 TTTTTT
1 TTTTTT
111775375 AAGTTTTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 11 0.21
9 24 0.46
10 11 0.21
11 3 0.06
12 3 0.06
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:111775325 original size:7 final size:8
Alignment explanation
Indices: 111775305--111775335 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
111775295 TCTTATATTT
111775305 TTTTTTAC
1 TTTTTTAC
111775313 TTTTTTTAC
1 -TTTTTTAC
111775322 TTTTTTAC
1 TTTTTTAC
111775330 TTTTTT
1 TTTTTT
111775336 TCTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:111775379 original size:18 final size:18
Alignment explanation
Indices: 111775343--111775414 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
111775333 TTTTCTTATA
* *
111775343 TTTTGTCTTTTTCTTAGTT
1 TTTTTTCTTTTT-TAAGTT
111775362 TTTTTTCTTTTTTAAGTT
1 TTTTTTCTTTTTTAAGTT
* *
111775380 TTATATTATTTTCTTAA-TT
1 TT-TTTTCTTTT-TTAAGTT
*
111775399 TATTTTTCTTATTTAA
1 T-TTTTTCTTTTTTAA
111775415 TTTATATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 11 0.26
19 27 0.63
20 5 0.12
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTTTCTTTTTTAAGTT
Found at i:111775430 original size:18 final size:17
Alignment explanation
Indices: 111775379--111775426 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
111775369 TTTTTTAAGT
*
111775379 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
111775397 TTTATTTTTCTTATTTAA
1 TTTA-TATTATTATTTAA
111775415 TTTATATTATTA
1 TTTATATTATTA
111775427 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:111775439 original size:23 final size:22
Alignment explanation
Indices: 111775413--111775502 Score: 64
Period size: 23 Copynumber: 4.1 Consensus size: 22
111775403 TTTCTTATTT
*
111775413 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
111775436 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
111775458 TGTTTTATAATATT-TTTT--AA
1 -AATTTATAATATTATTTTAAAA
*
111775478 AATTT-TAATTATTATTTTTAAA
1 AATTTATAA-TATTATTTTAAAA
111775500 AAT
1 AAT
111775503 ATTTTTTAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
18 3 0.06
19 7 0.13
20 6 0.11
21 2 0.04
22 16 0.30
23 18 0.34
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:111775476 original size:22 final size:22
Alignment explanation
Indices: 111775442--111775511 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
111775432 AAAAAATTTG
*
111775442 TAATATATATTTAAAATGTTTTA-
1 TAATAT-TTTTTAAAAT-TTTTAT
*
111775465 TAATATTTTTTAAAATTTTAAT
1 TAATATTTTTTAAAATTTTTAT
* *
111775487 TATTATTTTTAAAAATATTTT-T
1 TAATATTTTTTAAAAT-TTTTAT
111775509 TAA
1 TAA
111775512 CTTTATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.10
22 26 0.67
23 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTAAAATTTTTAT
Found at i:111775497 original size:21 final size:20
Alignment explanation
Indices: 111775434--111775500 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
111775424 TTAATTTTAA
*
111775434 AAAATTTGTAATA-TATATTT
1 AAAATTT-TAATATTATTTTT
* *
111775454 AAAATGTTTTATAATATTTTTT
1 AAAAT-TTTAATATTA-TTTTT
111775476 AAAATTTTAATTATTATTTTT
1 AAAATTTTAA-TATTATTTTT
111775497 AAAA
1 AAAA
111775501 ATATTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 9 0.23
21 17 0.44
22 13 0.33
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AAAATTTTAATATTATTTTT
Found at i:111775582 original size:24 final size:24
Alignment explanation
Indices: 111775555--111775616 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
111775545 TAAATTTTAA
111775555 AAATGTATTTTTAAATTAAT-TTTG
1 AAATGTATTTTTAAA-TAATATTTG
*
111775579 AAAT-TATTAGTTT-TATAATATTTG
1 AAATGTATT--TTTAAATAATATTTG
*
111775603 AAATGTATGTTTAA
1 AAATGTATTTTTAA
111775617 TATTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
23 11 0.37
24 13 0.43
25 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (24 bp):
AAATGTATTTTTAAATAATATTTG
Found at i:111775799 original size:25 final size:24
Alignment explanation
Indices: 111775762--111775819 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
111775752 TGACTATTAA
* *
111775762 TAAATATAAATATAAATATAACTTT
1 TAAAAATATATATAAATATAA-TTT
*
111775787 TAAAAATATATATAAATATTATTT
1 TAAAAATATATATAAATATAATTT
*
111775811 TATAAATAT
1 TAAAAATAT
111775820 TAAATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATATATATAAATATAATTT
Found at i:111775825 original size:21 final size:21
Alignment explanation
Indices: 111775766--111775831 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 21
111775756 TATTAATAAA
*
111775766 TATAAATA-TAAATATAACTTT
1 TATAAATATTAAATATTA-TTT
*
111775787 TAAAAATATATATAAATATTATTT
1 T-ATAA-ATAT-TAAATATTATTT
111775811 TATAAATATTAAATA-TATTT
1 TATAAATATTAAATATTATTT
111775831 T
1 T
111775832 TTTCTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 7 0.18
23 6 0.16
24 4 0.11
25 8 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAATATTAAATATTATTT
Found at i:111775832 original size:21 final size:21
Alignment explanation
Indices: 111775766--111775832 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 21
111775756 TATTAATAAA
*
111775766 TATAAATA-TAAATATAACTTT
1 TATAAATATTAAATAT-ATTTT
*
111775787 TAAAAATATATATAA-ATATTATTT
1 TATAAATAT-TA-AATATA-T-TTT
111775811 TATAAATATTAAATATATTTT
1 TATAAATATTAAATATATTTT
111775832 T
1 T
111775833 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 11 0.30
22 4 0.11
23 9 0.24
24 13 0.35
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATATTAAATATATTTT
Found at i:111776030 original size:26 final size:27
Alignment explanation
Indices: 111775981--111776043 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
111775971 TTTTAAATAC
* * *
111775981 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
111776008 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
111776034 AATATTTTAA
1 AATTTTTTAA
111776044 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:111776127 original size:18 final size:17
Alignment explanation
Indices: 111776089--111776131 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
111776079 CTTTTTTGAA
111776089 ATTTTATTTTTTTTCTT
1 ATTTTATTTTTTTTCTT
111776106 ATTTTATTTTGTTTAT-TT
1 ATTTTATTTT-TTT-TCTT
111776124 ATTTTATT
1 ATTTTATT
111776132 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 13 0.54
19 1 0.04
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
ATTTTATTTTTTTTCTT
Found at i:111776180 original size:21 final size:21
Alignment explanation
Indices: 111776138--111776183 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
111776128 TATTATTAAT
*
111776138 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
111776160 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
111776181 TTT
1 TTT
111776184 TTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:111776208 original size:21 final size:21
Alignment explanation
Indices: 111776168--111776212 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
111776158 TATTTAAAAT
111776168 ATTTTATAATATATTTTTTATA
1 ATTTTATAATATATTTTTTA-A
111776190 ATTTTA-AATAT-TATTTTTAA
1 ATTTTATAATATAT-TTTTTAA
111776210 ATT
1 ATT
111776213 CTTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATAATATATTTTTTAA
Found at i:111779390 original size:30 final size:30
Alignment explanation
Indices: 111779354--111779472 Score: 139
Period size: 30 Copynumber: 4.0 Consensus size: 30
111779344 AGTCCCAGAG
*
111779354 AAGTTCATATTACCCGGACATAGGTGGTTC
1 AAGTTCATATCACCCGGACATAGGTGGTTC
* * **
111779384 AAGTTCATATCACCCGAAAACGGGTGGTTC
1 AAGTTCATATCACCCGGACATAGGTGGTTC
* * *
111779414 GAGTTCATATCACTCGGACATGGGTGGTTC
1 AAGTTCATATCACCCGGACATAGGTGGTTC
* * *
111779444 GAGTTCATATCACCCGGATATAGGCGGTT
1 AAGTTCATATCACCCGGACATAGGTGGTT
111779473 TGAGTCCATT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (30 bp):
AAGTTCATATCACCCGGACATAGGTGGTTC
Found at i:111781900 original size:18 final size:18
Alignment explanation
Indices: 111781877--111782159 Score: 137
Period size: 18 Copynumber: 15.3 Consensus size: 18
111781867 GAATAATTAT
111781877 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
111781895 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
111781913 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
111781931 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
111781957 TTATCCAGTAACAAG-CAA
1 TTATTCAGTAAC-AGTCAG
* *
111781975 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
111781992 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
111782011 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
111782028 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
111782047 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
111782065 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
111782083 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
111782101 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
111782119 TTA-TCTGGTAACAGTCAA
1 TTATTC-AGTAACAGTCAG
* *
111782137 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
111782155 TTATT
1 TTATT
111782160 TTATACCTTT
Statistics
Matches: 197, Mismatches: 49, Indels: 38
0.69 0.17 0.13
Matches are distributed among these distances:
16 1 0.01
17 15 0.08
18 144 0.73
19 19 0.10
20 1 0.01
21 1 0.01
22 3 0.02
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:111781919 original size:36 final size:36
Alignment explanation
Indices: 111781877--111782159 Score: 180
Period size: 36 Copynumber: 7.6 Consensus size: 36
111781867 GAATAATTAT
* *
111781877 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
111781913 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
111781949 TTGATCGGTTATCCAGTAACAAGCAATTATTTAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
111781993 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
111782028 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
111782065 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
111782102 -TATCCAGTAACAGTCAATTA-TCTGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTC-AGTAACAATCAA
*
111782137 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
111782160 TTATACCTTT
Statistics
Matches: 186, Mismatches: 43, Indels: 35
0.70 0.16 0.13
Matches are distributed among these distances:
35 12 0.06
36 127 0.68
37 20 0.11
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:111782092 original size:72 final size:72
Alignment explanation
Indices: 111781958--111782159 Score: 207
Period size: 72 Copynumber: 2.8 Consensus size: 72
111781948 ATTGATCGGT
* * * *
111781958 TATCCAGTAACAAGCAATTATTTAGTAA-AATCAGA-TATTCAGTAACTATTAAGTTATTCAGTA
1 TATCCAGTAACAATCAATTATCTAGTAACAGTCA-ATTATTCAGTAA-TATTCAGTTATTCAGTA
* *
111782021 GCAGTC-AT
64 ACAGTCTAA
* * * *
111782029 TCATTCAGTGACAATCAGTTAT-TCAGTAA-TGATCAATTATTCAGTAATATTCAGTTATTCAGT
1 T-ATCCAGTAACAATCAATTATCT-AGTAACAG-TCAATTATTCAGTAATATTCAGTTATTCAGT
111782092 AACAGTCTAA
63 AACAGTCTAA
* * *
111782102 TATCCAGTAACAGTCAATTATCTGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATCTAGTAACAGTCAATTATTCAGTAATATTCAGTTATT
111782160 TTATACCTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
71 2 0.02
72 89 0.82
73 17 0.16
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (72 bp):
TATCCAGTAACAATCAATTATCTAGTAACAGTCAATTATTCAGTAATATTCAGTTATTCAGTAAC
AGTCTAA
Found at i:111782334 original size:6 final size:6
Alignment explanation
Indices: 111782323--111782347 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111782313 ACAAATCCGG
111782323 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
111782348 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:111782376 original size:45 final size:45
Alignment explanation
Indices: 111782327--111782521 Score: 309
Period size: 45 Copynumber: 4.3 Consensus size: 45
111782317 ATCCGGAACA
* * *
111782327 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
111782372 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
111782417 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
111782462 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
111782507 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
111782522 GCGGTAACAG
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 142 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:111782950 original size:5 final size:5
Alignment explanation
Indices: 111782942--111782992 Score: 75
Period size: 5 Copynumber: 10.0 Consensus size: 5
111782932 ATTCCGTTCC
* *
111782942 ATTCA ATTCA ATTCA ATTCA ATTTA ATTTA ATTCA ATTCA ATTCAA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA ATTC-A ATTCA
111782993 CTTTTCCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 38 0.88
6 5 0.12
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTCA
Found at i:111786447 original size:14 final size:13
Alignment explanation
Indices: 111786413--111786454 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
111786403 ACTTGAAATG
111786413 TATTTTTT-TAAA
1 TATTTTTTATAAA
*
111786425 -ATGTTTTATAATA
1 TATTTTTTATAA-A
111786438 TATTTTTTATAAA
1 TATTTTTTATAAA
111786451 TATT
1 TATT
111786455 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 6 0.24
12 3 0.12
13 6 0.24
14 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:111786577 original size:23 final size:23
Alignment explanation
Indices: 111786547--111786592 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
111786537 TTAAATTTTA
111786547 CATAGAATTTTGAAATTTATAAT
1 CATAGAATTTTGAAATTTATAAT
111786570 CATAGAATTTTGAAATTTATAAT
1 CATAGAATTTTGAAATTTATAAT
111786593 TTTATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
CATAGAATTTTGAAATTTATAAT
Found at i:111787278 original size:24 final size:24
Alignment explanation
Indices: 111787219--111787278 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
111787209 AAAAAAGAAA
*
111787219 AAATAATTATTTTTTTAAAATTTG
1 AAATAATTATATTTTTAAAATTTG
*
111787243 AAA-AA-TATATTTTTAAAATTTAT
1 AAATAATTATATTTTTAAAATTT-G
111787266 AAATAATTA-ATTT
1 AAATAATTATATTT
111787279 CACAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 15 0.48
23 5 0.16
24 9 0.29
25 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATAATTATATTTTTAAAATTTG
Found at i:111787374 original size:21 final size:19
Alignment explanation
Indices: 111787320--111787380 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
111787310 AAAAACAATA
111787320 ATTAAAAATTTTTAAAAAT
1 ATTAAAAATTTTTAAAAAT
*
111787339 ATTATAAAACATTTTAAATATAT
1 ATTA-AAAA-TTTTTAAA-A-AT
* *
111787362 ATTACAAATTTTTTAAAAT
1 ATTAAAAATTTTTAAAAAT
111787381 TAATAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 13 0.38
22 4 0.12
23 6 0.18
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAAAATTTTTAAAAAT
Found at i:111787427 original size:18 final size:18
Alignment explanation
Indices: 111787377--111787428 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
111787367 AAATTTTTTA
*
111787377 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
111787395 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
111787413 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
111787429 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:111787498 original size:10 final size:9
Alignment explanation
Indices: 111787469--111787497 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
111787459 TATAAGAAAG
111787469 AAAGT-AAA
1 AAAGTAAAA
111787477 AAAGTAAAA
1 AAAGTAAAA
111787486 AAAGTAAAA
1 AAAGTAAAA
111787495 AAA
1 AAA
111787498 AATATAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAGTAAAA
Found at i:111789091 original size:21 final size:22
Alignment explanation
Indices: 111789067--111789107 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
111789057 ATAGTATATA
111789067 AAAATATAACTA-ATAATATTG
1 AAAATATAACTACATAATATTG
*
111789088 AAAATATATCTACATAATAT
1 AAAATATAACTACATAATAT
111789108 ATATAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATATAACTACATAATATTG
Found at i:111789291 original size:28 final size:29
Alignment explanation
Indices: 111789228--111789305 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 29
111789218 TAAAAATACT
* *
111789228 TAATATATATAATATTTGAAATATATGCA
1 TAATAAATATAATATTAGAAATATATGCA
*
111789257 TAA-AAATATAATGTTAGTAAATAT-T-CA
1 TAATAAATATAATATTAG-AAATATATGCA
* *
111789284 TAATAAATA-CATATTAAAAATA
1 TAATAAATATAATATTAGAAATA
111789306 ATAATAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.12
27 10 0.24
28 17 0.41
29 9 0.22
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (29 bp):
TAATAAATATAATATTAGAAATATATGCA
Found at i:111789504 original size:17 final size:17
Alignment explanation
Indices: 111789471--111789504 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
111789461 TAATGTTTCA
*
111789471 TAAATATATAAATATAT
1 TAAATATATAAACATAT
*
111789488 TAAATATATACACATAT
1 TAAATATATAAACATAT
111789505 ATGTACATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATATAAACATAT
Found at i:111790850 original size:21 final size:21
Alignment explanation
Indices: 111790825--111790875 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
111790815 GTAGATAATT
111790825 TTTGTAAAATAGGTTAAGGGA
1 TTTGTAAAATAGGTTAAGGGA
* * *
111790846 TTTGTAAAGTGGGTTAAGGGG
1 TTTGTAAAATAGGTTAAGGGA
111790867 TTTGTAAAA
1 TTTGTAAAA
111790876 CGGCCCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.35
Consensus pattern (21 bp):
TTTGTAAAATAGGTTAAGGGA
Found at i:111791414 original size:18 final size:18
Alignment explanation
Indices: 111791391--111791428 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
111791381 TTGACTCTTT
*
111791391 AAAAAAACATAAACTAAA
1 AAAAAAACAAAAACTAAA
*
111791409 AAAAAAACAAAAATTAAA
1 AAAAAAACAAAAACTAAA
111791427 AA
1 AA
111791429 TAGCTCAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAACAAAAACTAAA
Found at i:111791529 original size:54 final size:54
Alignment explanation
Indices: 111791447--111791557 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
111791437 CGCGTGAGCC
111791447 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
111791501 AAAGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACATAAATTAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
111791555 AAA
1 AAA
111791558 CAGAAATTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (54 bp):
AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:111791727 original size:99 final size:98
Alignment explanation
Indices: 111791556--111791739 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 98
111791546 ATAAATTAAA
* ** *
111791556 AACAGAAATTGAAGATGTCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
111791621 TTTTGAAAACATGAATTAAAACAGAAATTGGAAG
66 TTCTGAAAACA-GAAATAAAACAGAAATTGGAAG
*
111791655 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
111791720 TTCTGAAAACAGAAATAAAA
66 TTCTGAAAACAGAAATAAAA
111791740 ACATCAGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 8 0.10
99 70 0.90
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (98 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTCTGAAAACAGAAATAAAACAGAAATTGGAAG
Found at i:111797258 original size:35 final size:35
Alignment explanation
Indices: 111797191--111797357 Score: 194
Period size: 35 Copynumber: 4.6 Consensus size: 35
111797181 TCCTCATTGA
**
111797191 AATACCATACCTACATTTTTCAACTC-GATATGGGA-
1 AATACCATACCTACATTTCACAACTCAG-TAT-GGAT
* **
111797226 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111797266 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111797301 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111797336 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111797358 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 86 0.74
36 1 0.01
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111797274 original size:75 final size:73
Alignment explanation
Indices: 111797186--111797357 Score: 219
Period size: 75 Copynumber: 2.4 Consensus size: 73
111797176 GGTTTTCCTC
** * **
111797186 ATTGAAATACCATACCTACATTTTTCAACTC-GATATGGGA-AATGCCATACCTACATTTCTTAA
1 ATTGAAATACCATACCTACATTTCACAACTCAG-TAT-GGATAATACCATACCTACATTTCACAA
111797249 CTCAGTATGG
64 CTCAGTATGG
*
111797259 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
111797324 CTCAGTATGG
64 CTCAGTATGG
111797334 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111797358 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.64
76 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111809106 original size:16 final size:16
Alignment explanation
Indices: 111809085--111809121 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
111809075 TTATGGGCTT
111809085 GGCCCAAACCCGACCC
1 GGCCCAAACCCGACCC
* *
111809101 GGCCCAAACCTGGCCC
1 GGCCCAAACCCGACCC
111809117 GGCCC
1 GGCCC
111809122 GGCCCATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.54, G:0.24, T:0.03
Consensus pattern (16 bp):
GGCCCAAACCCGACCC
Found at i:111813335 original size:29 final size:29
Alignment explanation
Indices: 111813271--111813335 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
111813261 ACATTATATC
111813271 AATTT-AGTCTTAATTTTAAAAAAATCACT
1 AATTTAAGTCTTAATTTTAAAAAAA-CACT
* * *
111813300 AAATTAAGTCTTAATATTTACATAAA-ACT
1 AATTTAAGTCTTAAT-TTTAAAAAAACACT
111813329 AATTTAA
1 AATTTAA
111813336 ATTCAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (29 bp):
AATTTAAGTCTTAATTTTAAAAAAACACT
Found at i:111813433 original size:5 final size:5
Alignment explanation
Indices: 111813423--111813448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
111813413 AATTAGAAGT
111813423 TGTAG TGTAG TGTAG TGTAG TGTAG T
1 TGTAG TGTAG TGTAG TGTAG TGTAG T
111813449 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (5 bp):
TGTAG
Found at i:111819584 original size:21 final size:22
Alignment explanation
Indices: 111819536--111819582 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
111819526 TAGTATTTCG
111819536 AAATTAATATTTTTATTAAATAA
1 AAATTAATATTTTTATT-AATAA
111819559 AAATTAATATTTTTATCTAA-AA
1 AAATTAATATTTTTAT-TAATAA
111819581 AA
1 AA
111819583 TTGATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 18 0.78
24 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTAATATTTTTATTAATAA
Found at i:111819678 original size:11 final size:11
Alignment explanation
Indices: 111819646--111819672 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
111819636 TACACACACC
111819646 AGAAAAAAAAA
1 AGAAAAAAAAA
111819657 AGAAAAAAAAA
1 AGAAAAAAAAA
111819668 AGAAA
1 AGAAA
111819673 GGAAAAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:111824476 original size:17 final size:18
Alignment explanation
Indices: 111824454--111824487 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
111824444 CAATCGAATC
111824454 GATTTTTTTAT-ATTTAT
1 GATTTTTTTATGATTTAT
111824471 GATTTTTTTATGATTTA
1 GATTTTTTTATGATTTA
111824488 CTTAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
GATTTTTTTATGATTTAT
Found at i:111832515 original size:29 final size:28
Alignment explanation
Indices: 111832460--111832516 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
111832450 TTTATGTTAG
*
111832460 ATAAATATAATTATTTATTTATACAATAT
1 ATAAATATAA-TATTGATTTATACAATAT
111832489 ATAAATATAA-ATTGATGTTATATCAATA
1 ATAAATATAATATTGAT-TTATA-CAATA
111832517 ATTGCATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 5 0.20
29 15 0.60
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (28 bp):
ATAAATATAATATTGATTTATACAATAT
Found at i:111835843 original size:13 final size:13
Alignment explanation
Indices: 111835825--111835854 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
111835815 TTATTAAATT
111835825 TAAATATGATTTA
1 TAAATATGATTTA
111835838 TAAATATGATTTA
1 TAAATATGATTTA
111835851 -AAAT
1 TAAAT
111835855 TTTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TAAATATGATTTA
Found at i:111835860 original size:19 final size:20
Alignment explanation
Indices: 111835833--111835872 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
111835823 TTTAAATATG
*
111835833 ATTTATAAATATGATTTAAA
1 ATTTATAAATATAATTTAAA
*
111835853 ATTT-TAAATCTAATTTAAA
1 ATTTATAAATATAATTTAAA
111835872 A
1 A
111835873 ATGTCAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
ATTTATAAATATAATTTAAA
Found at i:111837086 original size:18 final size:16
Alignment explanation
Indices: 111837060--111837113 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 16
111837050 GTCAACAAAT
111837060 AATTTAAAAATCATAAA
1 AATTTAAAAA-CATAAA
*
111837077 AATATTAAAAAAAGTAAA
1 AAT-TTAAAAACA-TAAA
111837095 AATTTAAAAACATATAA
1 AATTTAAAAACATA-AA
111837112 AA
1 AA
111837114 AGCTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.06
17 16 0.50
18 14 0.44
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (16 bp):
AATTTAAAAACATAAA
Found at i:111837114 original size:18 final size:17
Alignment explanation
Indices: 111837060--111837114 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
111837050 GTCAACAAAT
111837060 AATTT-AAAAATCATAAA
1 AATTTAAAAAAT-ATAAA
111837077 AATATTAAAAAA-AGTAAA
1 AAT-TTAAAAAATA-TAAA
111837095 AATTTAAAAACATATAAA
1 AATTTAAAAA-ATATAAA
111837113 AA
1 AA
111837115 GCTTATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.33
18 16 0.48
19 6 0.18
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AATTTAAAAAATATAAA
Found at i:111847713 original size:20 final size:20
Alignment explanation
Indices: 111847680--111847754 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
111847670 ATACGTGGGA
111847680 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
111847697 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
111847718 TATGATATACACATGATATG
1 TATGATATGCACATGATATG
* *
111847738 TATAAAATGCACATGAT
1 TATGATATGCACATGAT
111847755 GAATTCATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:111847882 original size:52 final size:51
Alignment explanation
Indices: 111847804--111847939 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
111847794 GAGGAAGTGC
111847804 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
111847856 AAAAGGGCTTATCCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
111847907 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
111847940 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 25 0.31
52 35 0.43
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:111847903 original size:25 final size:26
Alignment explanation
Indices: 111847804--111847939 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
111847794 GAGGAAGTGC
111847804 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
111847830 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
111847856 AAAAGGGCTTATCCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
111847882 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
111847907 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
111847930 AAAAGAGGCT
1 AAAAG-GGCT
111847940 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.30
26 57 0.58
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:111852971 original size:18 final size:17
Alignment explanation
Indices: 111852944--111852977 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
111852934 TTCTAAAAAT
111852944 TATAAAGATATAAATTAA
1 TATAAAGATA-AAATTAA
*
111852962 TATAATGATAAAATTA
1 TATAAAGATAAAATTA
111852978 TGTTTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TATAAAGATAAAATTAA
Found at i:111861766 original size:193 final size:197
Alignment explanation
Indices: 111861435--111861993 Score: 488
Period size: 193 Copynumber: 2.9 Consensus size: 197
111861425 AGCCGATCTG
* * * * *
111861435 TAAACTCAGCTTAGTCTGTTTGTTGTTTTCGACGAGGGTGAAAAGTAAACACTGTTCAGATTTAT
1 TAAACTCAGCTTTGTCTGCTTGTCGTTTTCGACGAGGGTGAAAAGTAAACACTATTCAGATTTAG
* * * * * *
111861500 CTCTATGATGAATTTATCATATGTTCATAACACTATACAGTTAGTGGTGAGCTTTGTATTTTCTG
66 CTCAATGATGAAGTTACCATATGTTCATAACACTATAAACTTAGTGGTGAGCTTTGCATTTTCTG
* * *
111861565 AATGATTCTGCTATGTTA-T-AAAGTTCACTAATTGCTATACAGATTTAGCT-TCACTTGCTGAT
131 AATGATTCTGCTATGTTATTAAAAGTTCACTAATTGCCATACAGATTTAACTGT-ACTAGCTGAT
111861627 CCT
195 CCT
* * * *
111861630 TAAACTCAGCTTTGTCTGCTTGTCGTTTTTGATGAGGGTGAAAAGTAGATAC-ATTCAGATTTAG
1 TAAACTCAGCTTTGTCTGCTTGTCGTTTTCGACGAGGGTGAAAAGTAAACACTATTCAGATTTAG
**
111861694 CTCAATGATG-AGTTACCAT-TAGTTCATGGCAGC-ATAAACTTCA-TGGTGAGCTTTGCATTTT
66 CTCAATGATGAAGTTACCATAT-GTTCATAACA-CTATAAACTT-AGTGGTGAGCTTTGCATTTT
* * *
111861755 CTGAATGATTCTGGTATGTTATTGAAAAGTTCACTCATTGCCATACAGATTTAACTGTGCTAGCT
128 CTGAATGATTCTGCTATGTTATT-AAAAGTTCACTAATTGCCATACAGATTTAACTGTACTAGCT
111861820 GATCCT
192 GATCCT
* * * * * *
111861826 TAATCTCAG-TTTAATCTGC-T-T-G-TTTCG-GGTGCCAGTG-AAAGTAAATA-TCATTCAGAT
1 TAAACTCAGCTTT-GTCTGCTTGTCGTTTTCGACGAG--GGTGAAAAGTAAACACT-ATTCAGAT
* * * * * * * * * * *
111861883 TTAGCTCTATGA-AAAATTATCATAAGTTCATTACA-TCATAAATTTATTGGCGAGTTTTTCATT
62 TTAGCTCAATGATGAAGTTACCATATGTTCATAACACT-ATAAACTTAGTGGTGAGCTTTGCATT
** * * *
111861946 TTCTGAATGATTCTAATATGTTATAGAAAAGATCACTCATTGCCATAC
126 TTCTGAATGATTCTGCTATGTTAT-TAAAAGTTCACTAATTGCCATAC
111861994 TGTTTTAAGA
Statistics
Matches: 301, Mismatches: 45, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
191 2 0.01
192 15 0.05
193 159 0.53
194 23 0.08
195 49 0.16
196 52 0.17
197 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (197 bp):
TAAACTCAGCTTTGTCTGCTTGTCGTTTTCGACGAGGGTGAAAAGTAAACACTATTCAGATTTAG
CTCAATGATGAAGTTACCATATGTTCATAACACTATAAACTTAGTGGTGAGCTTTGCATTTTCTG
AATGATTCTGCTATGTTATTAAAAGTTCACTAATTGCCATACAGATTTAACTGTACTAGCTGATC
CT
Found at i:111861846 original size:196 final size:193
Alignment explanation
Indices: 111861544--111861993 Score: 491
Period size: 193 Copynumber: 2.3 Consensus size: 193
111861534 ATACAGTTAG
* * * *
111861544 TGGTGAGCTTTGTATTTTCTGAATGATTCTGCTATGTTA-T--AAAGTTCACTAATTGCTATACA
1 TGGTGAGCTTTGCATTTTCTGAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACA
* * * ** **
111861606 GATTTAGCTTCACTTGCTGATCCTTAAACTCAGCTTTGTCTGCTTGTCGTTTTTGATGAGGGTGA
66 GATTTAACTTCACTAGCTGATCCTTAAACTCAGCTTTATCTGC-T-T-GTTTCGGATGACAGTG-
* ** * * *
111861671 AAAGTAGATA-CATTCAGATTTAGCTCAATGATGAGTTACCATTAGTTCATGGCAGCATAAACTT
127 AAAGTAAATATCATTCAGATTTAGCTCAATGAAAAATTACCATAAGTTCATGACAGCATAAA-TT
111861735 CA-
191 CAT
*
111861737 TGGTGAGCTTTGCATTTTCTGAATGATTCTGGTATGTTATTGAAAAGTTCACTCATTGCCATACA
1 TGGTGAGCTTTGCATTTTCTGAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACA
* * * *
111861802 GATTTAACTGT-GCTAGCTGATCCTTAATCTCAG-TTTAATCTGCTTGTTTCGGGTGCCAGTGAA
66 GATTTAACT-TCACTAGCTGATCCTTAAACTCAGCTTT-ATCTGCTTGTTTCGGATGACAGTGAA
* * * * *
111861865 AGTAAATATCATTCAGATTTAGCTCTATGAAAAATTATCATAAGTTCATTACATCATAAATTTAT
129 AGTAAATATCATTCAGATTTAGCTCAATGAAAAATTACCATAAGTTCATGACAGCATAAATTCAT
* * * * * *
111861930 TGGCGAGTTTTTCATTTTCTGAATGATTCTAATATGTTATAGAAAAGATCACTCATTGCCATAC
1 TGGTGAGCTTTGCATTTTCTGAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATAC
111861994 TGTTTTAAGA
Statistics
Matches: 217, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
192 12 0.06
193 146 0.67
194 2 0.01
195 4 0.02
196 52 0.24
197 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (193 bp):
TGGTGAGCTTTGCATTTTCTGAATGATTCTGATATGTTATTGAAAAGTTCACTCATTGCCATACA
GATTTAACTTCACTAGCTGATCCTTAAACTCAGCTTTATCTGCTTGTTTCGGATGACAGTGAAAG
TAAATATCATTCAGATTTAGCTCAATGAAAAATTACCATAAGTTCATGACAGCATAAATTCAT
Found at i:111863412 original size:45 final size:45
Alignment explanation
Indices: 111863360--111863448 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
111863350 TGCTAACAAA
*
111863360 CACAGATCATGTAAATTCTCTTGCTTCCATCTCATTATTAAGTCG
1 CACAGATCATGTAAATTCTCTTGCTTCCATCGCATTATTAAGTCG
111863405 CACAGATCATGTAAATTCTCTTGCTTCCATCGCATTATTAAGTC
1 CACAGATCATGTAAATTCTCTTGCTTCCATCGCATTATTAAGTC
111863449 ACACTTACAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (45 bp):
CACAGATCATGTAAATTCTCTTGCTTCCATCGCATTATTAAGTCG
Found at i:111864677 original size:17 final size:18
Alignment explanation
Indices: 111864655--111864701 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
111864645 AAGATAAAAT
*
111864655 TTTTGGGTTTTGAGTCA-
1 TTTTGGGTTTAGAGTCAG
*
111864672 TTTT-GGTTGAGAGTCAG
1 TTTTGGGTTTAGAGTCAG
111864689 TTTTGGGTTTAGA
1 TTTTGGGTTTAGA
111864702 CTTCAGTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 10 0.40
17 8 0.32
18 7 0.28
ACGTcount: A:0.15, C:0.04, G:0.32, T:0.49
Consensus pattern (18 bp):
TTTTGGGTTTAGAGTCAG
Found at i:111866389 original size:12 final size:12
Alignment explanation
Indices: 111866374--111866403 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111866364 AGGAACATTT
*
111866374 CGAGGATTTCTA
1 CGAGGATATCTA
111866386 CGAGGATATCTA
1 CGAGGATATCTA
111866398 CGAGGA
1 CGAGGA
111866404 ACTAAGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (12 bp):
CGAGGATATCTA
Found at i:111867783 original size:16 final size:16
Alignment explanation
Indices: 111867746--111867783 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
111867736 TACTATGCAG
*
111867746 AATTTTATTAATTTTT
1 AATTTTATTAATTTTA
*
111867762 ATTTTTATTAATTTTA
1 AATTTTATTAATTTTA
111867778 AATTTT
1 AATTTT
111867784 GAAATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTATTAATTTTA
Found at i:111872320 original size:2 final size:2
Alignment explanation
Indices: 111872315--111872349 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
111872305 CAGCAAAAAA
111872315 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
111872350 TACCCATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:111876372 original size:18 final size:18
Alignment explanation
Indices: 111876349--111876384 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
111876339 CATTTTACAC
111876349 GCTTTTAATGCATTGGCT
1 GCTTTTAATGCATTGGCT
111876367 GCTTTTAATGCATTGGCT
1 GCTTTTAATGCATTGGCT
111876385 TACTTGTTTA
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:0.17, G:0.22, T:0.44
Consensus pattern (18 bp):
GCTTTTAATGCATTGGCT
Found at i:111887554 original size:3 final size:3
Alignment explanation
Indices: 111887546--111887575 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
111887536 TTAACAAAGA
111887546 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
111887576 TAAACTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:111887918 original size:21 final size:20
Alignment explanation
Indices: 111887886--111887938 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
111887876 GTGAAAATAA
111887886 TAAAATAAATAATACATTAAAT
1 TAAAA-AAATAATAC-TTAAAT
* *
111887908 TAAAAAAATAATTCTTAATT
1 TAAAAAAATAATACTTAAAT
111887928 TAAAGAAAATA
1 TAAA-AAAATA
111887939 GACATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 14 0.50
22 5 0.18
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAAAATAATACTTAAAT
Found at i:111896234 original size:19 final size:20
Alignment explanation
Indices: 111896201--111896239 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
111896191 TACAACAATC
* *
111896201 AAATTAAATATATTATTTAA
1 AAATAAAATATATTAATTAA
111896221 AAATAAAATA-ATTAATTAA
1 AAATAAAATATATTAATTAA
111896240 TTTTTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAAAATATATTAATTAA
Found at i:111898223 original size:18 final size:18
Alignment explanation
Indices: 111898200--111898236 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
111898190 ATAAAGAAGA
111898200 AAAAATATGCATATATAT
1 AAAAATATGCATATATAT
*
111898218 AAAAATATGTATATATAT
1 AAAAATATGCATATATAT
111898236 A
1 A
111898237 TATAGGTGTA
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:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
AAAAATATGCATATATAT
Found at i:111898671 original size:3 final size:3
Alignment explanation
Indices: 111898651--111898734 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
111898641 GAATAGAGAT
* * * ** * * *
111898651 ATA AAA ATA ACA ACA ATA ATA CCA ATA CTA ATA ATA GTA A-A GATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
111898696 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111898735 GCAAAAGTAC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.98
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:111900985 original size:39 final size:39
Alignment explanation
Indices: 111900940--111901040 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
111900930 ATCGTGATCT
* *
111900940 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
* *
111900979 GCAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
* *
111901018 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAAGCTAACTGAAGC
111901041 TCATCAGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:111901022 original size:21 final size:21
Alignment explanation
Indices: 111900958--111901022 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
111900948 AAATCTAGCT
111900958 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
* ** *
111900979 GCAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
111900997 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
111901018 GAAGC
1 GAAGC
111901023 CCGGAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:111902596 original size:15 final size:15
Alignment explanation
Indices: 111902576--111902607 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
111902566 AATTTCAAGA
111902576 AATAATCAAGAATTG
1 AATAATCAAGAATTG
111902591 AATAATCAAGAATTG
1 AATAATCAAGAATTG
111902606 AA
1 AA
111902608 CTTACTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAATCAAGAATTG
Found at i:111904771 original size:214 final size:210
Alignment explanation
Indices: 111904402--111904826 Score: 778
Period size: 214 Copynumber: 2.0 Consensus size: 210
111904392 AAATTTCATT
111904402 TTTAATTCAATTTCGTCCTTTTTTTCACTTTTCCTCATTATTTTATTTTAATGTTAATATTATTT
1 TTTAATTCAATTTCGTCCTTTTTTTCACTTTTCCTCATTATTTTATTTTAATGTTAATATTATTT
111904467 ATACTATTATATTTTATTACTGTTATTATTATTATATTTGTTATTTATTAGCATTTCATTATTGT
66 ATACTATTATATTTTATTACTGTTATTATTATTATATTTGTTATTTATTAGCATTTCATTATTGT
*
111904532 TATTTTTACTTAATACTTATATATATATATTATATAGTATTATTAATTGTTTTTAATATTATTGT
131 TATTTTTACTTAATAC-T-TATATATATA-T-TATAGTATTATTAATAGTTTTTAATATTATTGT
*
111904597 TTTTGTTAATATTTTCGTA
192 TTTTGTTAATATATTCGTA
* *
111904616 TTTAATTCAATTTCGTCCTTTTTTTCACTTTTTCTCATTATTTTATTTTAATTTTAATATTATTT
1 TTTAATTCAATTTCGTCCTTTTTTTCACTTTTCCTCATTATTTTATTTTAATGTTAATATTATTT
111904681 ATACTATTATATTTTATTACTGTTATTATTATTATATTTGTTATTTATTAGCATTTCATTATTGT
66 ATACTATTATATTTTATTACTGTTATTATTATTATATTTGTTATTTATTAGCATTTCATTATTGT
111904746 TATTTTTACTTAATACTTATATATATATTATAGTATTATTAATAGTTTTTAATATTATTGTTTTT
131 TATTTTTACTTAATACTTATATATATATTATAGTATTATTAATAGTTTTTAATATTATTGTTTTT
111904811 GTTAATATATTCGTA
196 GTTAATATATTCGTA
111904826 T
1 T
111904827 GTCATATATA
Statistics
Matches: 207, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
210 51 0.25
211 1 0.00
212 10 0.05
213 1 0.00
214 144 0.70
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.60
Consensus pattern (210 bp):
TTTAATTCAATTTCGTCCTTTTTTTCACTTTTCCTCATTATTTTATTTTAATGTTAATATTATTT
ATACTATTATATTTTATTACTGTTATTATTATTATATTTGTTATTTATTAGCATTTCATTATTGT
TATTTTTACTTAATACTTATATATATATTATAGTATTATTAATAGTTTTTAATATTATTGTTTTT
GTTAATATATTCGTA
Found at i:111904926 original size:39 final size:39
Alignment explanation
Indices: 111904878--111905000 Score: 108
Period size: 39 Copynumber: 3.0 Consensus size: 39
111904868 TTACACACAT
111904878 ATATATATATTA-ATATTATATTATGTATATTATTTTTAAA
1 ATATATATATTATATA-TATATTATGTATA-TATTTTTAAA
* * *
111904918 ATAT-TATATTTTTTATATATTATGTATATATTTTTAAT
1 ATATATATATTATATATATATTATGTATATATTTTTAAA
111904956 ATCATAT-TATTCATATATTTTATTATAATATGTATATATTTTTAA
1 AT-ATATATATT-ATATA---TA-TAT--TATGTATATATTTTTAA
111905001 TACTATGTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
38 11 0.16
39 25 0.37
40 10 0.15
43 2 0.03
44 3 0.04
46 17 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (39 bp):
ATATATATATTATATATATATTATGTATATATTTTTAAA
Found at i:111904936 original size:11 final size:11
Alignment explanation
Indices: 111904922--111904982 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
111904912 TTTAAAATAT
111904922 TATATTTTTTA
1 TATATTTTTTA
* *
111904933 TATATTATGTA
1 TATATTTTTTA
111904944 TATATTTTTAATA
1 TATATTTTT--TA
* *
111904957 TCATATTATTCA
1 T-ATATTTTTTA
111904969 TATATTTTATTA
1 TATATTTT-TTA
111904981 TA
1 TA
111904983 ATATGTATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
11 22 0.58
12 6 0.16
13 3 0.08
14 7 0.18
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:111904948 original size:22 final size:22
Alignment explanation
Indices: 111904922--111905050 Score: 115
Period size: 24 Copynumber: 5.7 Consensus size: 22
111904912 TTTAAAATAT
111904922 TATATTTTTTATATATTATGTA
1 TATATTTTTTATATATTATGTA
111904944 TATATTTTTAATATCATATTAT-TCA
1 TATATTTTT--TAT-ATATTATGT-A
111904969 TATATTTTATTATA-A-TATGTA
1 TATATTTT-TTATATATTATGTA
*
111904990 TATA-TTTTTA-ATACTATGTA
1 TATATTTTTTATATATTATGTA
* *
111905010 TATACTTTTTAATATTATTATGTT
1 TATA-TTTTTTATA-TATTATGTA
*
111905034 TATATTTTAATATATAT
1 TATATTTT-TTATATAT
111905051 ACGTATGTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 25
0.75 0.04 0.21
Matches are distributed among these distances:
18 1 0.01
19 4 0.04
20 13 0.15
21 8 0.09
22 16 0.18
23 9 0.10
24 21 0.24
25 16 0.18
26 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (22 bp):
TATATTTTTTATATATTATGTA
Found at i:111904972 original size:36 final size:38
Alignment explanation
Indices: 111904894--111904974 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 38
111904884 ATATTAATAT
* * *
111904894 TATATTATGTATATTATTTTTAAAATATTATATTTTTTA
1 TATATTATGTATATTATTTTT-AAATATCATATTATTCA
111904933 TATATTATGTATA-TATTTTT-AATATCATATTATTCA
1 TATATTATGTATATTATTTTTAAATATCATATTATTCA
111904969 TATATT
1 TATATT
111904975 TTATTATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 19 0.49
38 7 0.18
39 13 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (38 bp):
TATATTATGTATATTATTTTTAAATATCATATTATTCA
Found at i:111905026 original size:46 final size:41
Alignment explanation
Indices: 111904896--111905045 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 41
111904886 ATTAATATTA
*
111904896 TATTATGTATATTATTTTTAA-AATATTATAT-TTTTTATA-
1 TATTATGTATA-TATTTTTAATACTATTATATATTTTTATAT
111904935 TATTATGTATATATTTTTAATATCATATTATTCATATATTTTAT-T
1 TATTATGTATATATTTTTAATA-C-TATTA-T-ATAT-TTTTATAT
*
111904980 ATAATATGTATATATTTTTAATACTATGTATATACTTTTTAATAT
1 -TATTATGTATATATTTTTAATACTAT-TATATA-TTTTT-ATAT
*
111905025 TATTATGTTTATA-TTTTAATA
1 TATTATGTATATATTTTTAATA
111905046 TATATACGTA
Statistics
Matches: 94, Mismatches: 4, Indels: 22
0.78 0.03 0.18
Matches are distributed among these distances:
38 9 0.10
39 12 0.13
41 5 0.05
42 1 0.01
43 17 0.18
44 19 0.20
45 10 0.11
46 21 0.22
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (41 bp):
TATTATGTATATATTTTTAATACTATTATATATTTTTATAT
Found at i:111908119 original size:22 final size:24
Alignment explanation
Indices: 111908094--111908140 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
111908084 TAAGCCGATT
*
111908094 AATAATACT-AATTAATAA-TGGA
1 AATAATACTAAAATAATAAGTGGA
*
111908116 AATAATAGTAAAATAATAAGTGGA
1 AATAATACTAAAATAATAAGTGGA
111908140 A
1 A
111908141 CATTAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (24 bp):
AATAATACTAAAATAATAAGTGGA
Found at i:111919013 original size:17 final size:15
Alignment explanation
Indices: 111918966--111919006 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
111918956 TAAATATTCA
111918966 AAAAATTATAATTAT
1 AAAAATTATAATTAT
*
111918981 AAAATATTAAAAATTAT
1 AAAA-ATT-ATAATTAT
111918998 AAAAATTAT
1 AAAAATTAT
111919007 GAGATTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAATTATAATTAT
Found at i:111919077 original size:29 final size:28
Alignment explanation
Indices: 111919039--111919095 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
111919029 TTTTTATTAA
*
111919039 ATAAAGTAAAA-TTATAAAAACTATAAAAT
1 ATAAAGTAAAACTAAT-AAAA-TATAAAAT
*
111919068 ATAAATTAAAACTAATAAAATATAAAAT
1 ATAAAGTAAAACTAATAAAATATAAAAT
111919096 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.32
29 14 0.56
30 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAAGTAAAACTAATAAAATATAAAAT
Found at i:111919080 original size:20 final size:21
Alignment explanation
Indices: 111919055--111919093 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
111919045 TAAAATTATA
111919055 AAAACT-ATAAAATATAAATT
1 AAAACTAATAAAATATAAATT
111919075 AAAACTAATAAAATATAAA
1 AAAACTAATAAAATATAAA
111919094 ATTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAACTAATAAAATATAAATT
Found at i:111936342 original size:17 final size:17
Alignment explanation
Indices: 111936320--111936370 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
111936310 ATTTTCATTA
*
111936320 AATATAAAAATTAAATT
1 AATATAAAAAATAAATT
111936337 AATATAAAAAATAAATT
1 AATATAAAAAATAAATT
*
111936354 AAAATAAAAAATAAATT
1 AATATAAAAAATAAATT
111936371 TTATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAAAAAATAAATT
Found at i:111941964 original size:45 final size:45
Alignment explanation
Indices: 111941900--111941990 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
111941890 TTTGCCGCTT
111941900 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
1 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
* *
111941945 ATTTAGAAATCCAATCTAACTTGACTCTAAATATAGTTAAGACTA
1 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
111941990 A
1 A
111941991 CGTGTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (45 bp):
ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
Found at i:111945386 original size:112 final size:112
Alignment explanation
Indices: 111945189--111945419 Score: 444
Period size: 112 Copynumber: 2.1 Consensus size: 112
111945179 CTACAAGGGT
* *
111945189 AAGGCCCATTTCAACAATATGACGATGCTTGCGCTTAGCAATGCCATTCTGCTCAGAGGTATAGG
1 AAGGCTCATTTCAACAATATGACGATGCTTGCACTTAGCAATGCCATTCTGCTCAGAGGTATAGG
111945254 GGCACGTCAACCTATGAACAATTCTTTGAGACGCTAAAACACGAGTG
66 GGCACGTCAACCTATGAACAATTCTTTGAGACGCTAAAACACGAGTG
111945301 AAGGCTCATTTCAACAATATGACGATGCTTGCACTTAGCAATGCCATTCTGCTCAGAGGTATAGG
1 AAGGCTCATTTCAACAATATGACGATGCTTGCACTTAGCAATGCCATTCTGCTCAGAGGTATAGG
111945366 GGCACGTCAACCTATGAACAATTCTTTGAGACGCTAAAACACGAGTG
66 GGCACGTCAACCTATGAACAATTCTTTGAGACGCTAAAACACGAGTG
111945413 AAGGCTC
1 AAGGCTC
111945420 GGTACTCCCC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 117 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (112 bp):
AAGGCTCATTTCAACAATATGACGATGCTTGCACTTAGCAATGCCATTCTGCTCAGAGGTATAGG
GGCACGTCAACCTATGAACAATTCTTTGAGACGCTAAAACACGAGTG
Found at i:111956415 original size:18 final size:18
Alignment explanation
Indices: 111956376--111956449 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
111956366 AAACAATTAT
* * *
111956376 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAA
* *
111956394 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAA
*
111956412 TTATTCAATAATAATCAA
1 TTATTCAGTAATAATCAA
* *
111956430 TAATTCAGTATTAATCAA
1 TTATTCAGTAATAATCAA
111956448 TT
1 TT
111956450 GATCGATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAA
Found at i:111956734 original size:47 final size:47
Alignment explanation
Indices: 111956665--111956781 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
111956655 CAGTAACAGT
** *
111956665 AACAGTAGTAGTACAGTACACAGAGTACCTCATCGGAACAAATCCAA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
**
111956712 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
111956759 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
111956782 TAACAATATC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 58 0.91
48 6 0.09
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
Done.