Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 297 of 325
Found at i:96809748 original size:32 final size:32
Alignment explanation
Indices: 96809712--96809772 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
96809702 GGAGGTGCGG
*
96809712 CAATGTTGGTGTAATATGAGAAGAATGCACGA
1 CAATGTTGGCGTAATATGAGAAGAATGCACGA
96809744 CAATGTTGGCGTAATATGAGAAGAATGCA
1 CAATGTTGGCGTAATATGAGAAGAATGCA
96809773 AAATTGCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (32 bp):
CAATGTTGGCGTAATATGAGAAGAATGCACGA
Found at i:96814319 original size:15 final size:15
Alignment explanation
Indices: 96814299--96814330 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96814289 TATTTATTTA
*
96814299 TTTATTTTAATTAAT
1 TTTATTTAAATTAAT
96814314 TTTATTTAAATTAAT
1 TTTATTTAAATTAAT
96814329 TT
1 TT
96814331 CTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTAAATTAAT
Found at i:96814341 original size:17 final size:17
Alignment explanation
Indices: 96814307--96814349 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
96814297 TATTTATTTT
*
96814307 AATTAA-TT-TTATTTA
1 AATTAATTTCTTAATTA
96814322 AATTAATTTCTTAATTA
1 AATTAATTTCTTAATTA
*
96814339 AATTATTTTCT
1 AATTAATTTCT
96814350 CAACCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 16 0.67
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAATTTCTTAATTA
Found at i:96818738 original size:12 final size:12
Alignment explanation
Indices: 96818721--96818752 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
96818711 ATTTTTACCC
96818721 AATTTCTTCAAT
1 AATTTCTTCAAT
96818733 AATTTCTTCAAT
1 AATTTCTTCAAT
96818745 AATTTCTT
1 AATTTCTT
96818753 TTCCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:96829631 original size:17 final size:18
Alignment explanation
Indices: 96829590--96829632 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
96829580 TGTATTTACT
96829590 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
96829608 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
96829625 TATTATAT
1 TATTATAT
96829633 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:96831599 original size:22 final size:22
Alignment explanation
Indices: 96831569--96831624 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
96831559 CGGGTTGATG
* *
96831569 ACACAGGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACATCAACC
*
96831591 ACACGGGCGTGTCACATCAATC
1 ACACGGGCGTGTCACATCAACC
96831613 ACACGGGCGTGT
1 ACACGGGCGTGT
96831625 GGTACTATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTCACATCAACC
Found at i:96836180 original size:42 final size:42
Alignment explanation
Indices: 96836134--96836294 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 42
96836124 TCATTTTCTC
**
96836134 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
* * * * *
96836176 GATGCCAAACCCCAACTACGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
* * *
96836217 CGATGCCATAGTCCAGCTATGGTCTTACACGGATCACATATCACATATT
1 -GATGCCATAGCCCAACTATGGTCTTACAC--AT--C-T-TCACATAAT
*
96836266 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
96836295 GAATCACATA
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 56 0.59
44 2 0.02
47 1 0.01
48 33 0.35
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
Found at i:96836274 original size:48 final size:48
Alignment explanation
Indices: 96836202--96836337 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
96836192 TACGGTCTTA
* * *
96836202 CACATATTCATATATCGATGCCATAGTCCAGCTATGGTCTTACACGGAT
1 CACATA-TCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
*
96836251 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
* * *
96836299 CACATATCTC--ATTGATGCCATA-TCCCAGATATAGTCTTA
1 CACATATCACATATTGATGCCATAGT-CCAGCTATGGTCTTA
96836338 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
46 25 0.32
48 47 0.60
49 6 0.08
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
Found at i:96848010 original size:30 final size:30
Alignment explanation
Indices: 96847974--96848033 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96847964 CTAAATTACA
*
96847974 GAAGAAGAACCGGTTAAGATACTGGCATAT
1 GAAGAAGAACCGGTTAAGATACTAGCATAT
* *
96848004 GAAGAAGAACTGGTTACGATACTAGCATAT
1 GAAGAAGAACCGGTTAAGATACTAGCATAT
96848034 CGTGATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
GAAGAAGAACCGGTTAAGATACTAGCATAT
Found at i:96848637 original size:17 final size:18
Alignment explanation
Indices: 96848596--96848638 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
96848586 TGTATTTACT
96848596 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
96848614 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
96848631 TATTATAT
1 TATTATAT
96848639 TATATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:96850643 original size:22 final size:22
Alignment explanation
Indices: 96850618--96850660 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
96850608 ATGGGCGTGT
* *
96850618 CACATCAGCCACACGGGCATGC
1 CACATCAACCACACGAGCATGC
96850640 CACATCAACCACACGAGCATG
1 CACATCAACCACACGAGCATG
96850661 TGGTACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.40, G:0.19, T:0.09
Consensus pattern (22 bp):
CACATCAACCACACGAGCATGC
Found at i:96851903 original size:21 final size:21
Alignment explanation
Indices: 96851874--96851923 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
96851864 GGGTCTACAT
96851874 GCCCATGTGAAGGCCACACAC
1 GCCCATGTGAAGGCCACACAC
* * *
96851895 GCCCGTGTGGAGGGCACACAC
1 GCCCATGTGAAGGCCACACAC
96851916 GCCCATGT
1 GCCCATGT
96851924 AAGCAGCCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.30, T:0.12
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACACAC
Found at i:96853672 original size:12 final size:11
Alignment explanation
Indices: 96853650--96853674 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96853640 AACACTGTGG
96853650 TAAAATTTTTT
1 TAAAATTTTTT
96853661 TAAAATTTTTT
1 TAAAATTTTTT
96853672 TAA
1 TAA
96853675 CAAATACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAAAATTTTTT
Found at i:96856083 original size:11 final size:12
Alignment explanation
Indices: 96856061--96856090 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
96856051 TTAATATTTA
96856061 AATTTCTTATTC
1 AATTTCTTATTC
96856073 AATTT-TTATTC
1 AATTTCTTATTC
96856084 AATTTCT
1 AATTTCT
96856091 ACTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTCTTATTC
Found at i:96856617 original size:3 final size:3
Alignment explanation
Indices: 96856609--96856647 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
96856599 ATATATTAGT
* *
96856609 TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA
96856648 GATATCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:96856906 original size:12 final size:12
Alignment explanation
Indices: 96856889--96856927 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
96856879 TTTATTTCAT
96856889 TATAATATAATA
1 TATAATATAATA
96856901 TATAATATAATTAA
1 TATAATATAA-T-A
*
96856915 TATAATTTAATA
1 TATAATATAATA
96856927 T
1 T
96856928 TAACCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 12 0.50
13 2 0.08
14 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATAATATAATA
Found at i:96858159 original size:21 final size:21
Alignment explanation
Indices: 96858135--96858209 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
96858125 GGGGGTTTAC
* *
96858135 ATGCCCATGTGAAGGCCATAT
1 ATGCCCGTGTGAAGGCCACAT
96858156 ATGCCCGTGTGAAGGCCACAT
1 ATGCCCGTGTGAAGGCCACAT
* ** *
96858177 ATGCCCGTGTGGAGGGGACAC
1 ATGCCCGTGTGAAGGCCACAT
96858198 ATGCCCGTGTGA
1 ATGCCCGTGTGA
96858210 GTAGCTCGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (21 bp):
ATGCCCGTGTGAAGGCCACAT
Found at i:96858811 original size:15 final size:16
Alignment explanation
Indices: 96858791--96858820 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96858781 CTTTTATAAA
96858791 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
96858806 AAATAAATATAAAAA
1 AAATAAATATAAAAA
96858821 ACACTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:96876403 original size:14 final size:14
Alignment explanation
Indices: 96876384--96876414 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
96876374 TTAACTTGTC
96876384 AATTCATATATTAT
1 AATTCATATATTAT
96876398 AATTCATATATTAT
1 AATTCATATATTAT
96876412 AAT
1 AAT
96876415 AGAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTCATATATTAT
Found at i:96878521 original size:53 final size:53
Alignment explanation
Indices: 96878446--96878559 Score: 185
Period size: 53 Copynumber: 2.2 Consensus size: 53
96878436 TACTGTTACC
*
96878446 GTTACTGTTACTGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACCGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
*
96878499 GTTACTGTTACCG-TTCCAGATTTGTTCTGATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACCGTTTCC-GATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
*
96878552 GCTACTGT
1 GTTACTGT
96878560 ATTGTTACTG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 4 0.07
53 53 0.93
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (53 bp):
GTTACTGTTACCGTTTCCGATTTGTTCCGATGAGGTACTCTGTGTACCGTACT
Found at i:96878814 original size:18 final size:18
Alignment explanation
Indices: 96878764--96878878 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
96878754 ACCGATCAAT
* *
96878764 TGATTGATACTGAAAAAC
1 TGATTGTTACTGAATAAC
* * *
96878782 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
96878800 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
96878818 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * *
96878836 TAATTGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
96878853 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
96878873 TGATTG
1 TGATTG
96878879 ATTAATTGCT
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
17 13 0.18
18 52 0.71
20 8 0.11
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:96881128 original size:26 final size:26
Alignment explanation
Indices: 96881099--96881206 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
96881089 TGGTACAAAT
96881099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
96881125 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96881151 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96881177 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96881203 TGAT
1 TGAT
96881207 GGGAATTTCA
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:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96883982 original size:18 final size:18
Alignment explanation
Indices: 96883961--96884004 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
96883951 TTTTTAACTA
96883961 ATAATTATAGCTTAAAT-T
1 ATAATTAT-GCTTAAATGT
**
96883979 ATAATTATTTTTAAATGT
1 ATAATTATGCTTAAATGT
96883997 ATAATTAT
1 ATAATTAT
96884005 CACCACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
ATAATTATGCTTAAATGT
Found at i:96888089 original size:25 final size:25
Alignment explanation
Indices: 96888019--96888089 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
96888009 ATATTTTCAC
* *
96888019 ATTAATGTTATTTACAATTTTT-TA
1 ATTAAAGTTATTTATAATTTTTATA
* * * **
96888043 ATTAAA-CTCTTCATAACATTTATA
1 ATTAAAGTTATTTATAATTTTTATA
96888067 ATTAAAGTTATTTATAATTTTTA
1 ATTAAAGTTATTTATAATTTTTA
96888090 ATATTTATAA
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
23 9 0.27
24 13 0.39
25 11 0.33
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (25 bp):
ATTAAAGTTATTTATAATTTTTATA
Found at i:96888440 original size:21 final size:21
Alignment explanation
Indices: 96888416--96888484 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
96888406 TATGTTCTAG
*
96888416 TACCTTATACCTATATTTTGA
1 TACCTTATACCTATGTTTTGA
**
96888437 TACCTCT-TGTCTATGTTTTGA
1 TACCT-TATACCTATGTTTTGA
* *
96888458 TAACTCATACCTATGTTCTT-A
1 TACCTTATACCTATGTT-TTGA
96888479 TACCTT
1 TACCTT
96888485 GGGTTTGAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.23, C:0.22, G:0.07, T:0.48
Consensus pattern (21 bp):
TACCTTATACCTATGTTTTGA
Found at i:96890284 original size:18 final size:19
Alignment explanation
Indices: 96890258--96890297 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
96890248 TACTTTTCCC
* *
96890258 AAACCAAAAA-CATTGTCA
1 AAACAAAAAATCAATGTCA
96890276 AAACAAAAAATCAATGTCA
1 AAACAAAAAATCAATGTCA
96890295 AAA
1 AAA
96890298 ACTACTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.15
Consensus pattern (19 bp):
AAACAAAAAATCAATGTCA
Found at i:96890398 original size:14 final size:15
Alignment explanation
Indices: 96890379--96890411 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
96890369 ATCAGTAATC
96890379 GAATAAAAATACTT-
1 GAATAAAAATACTTA
96890393 GAATAAAAATACTTA
1 GAATAAAAATACTTA
96890408 GAAT
1 GAAT
96890412 CCTGACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
GAATAAAAATACTTA
Found at i:96891273 original size:16 final size:16
Alignment explanation
Indices: 96891252--96891282 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96891242 CGAAACATGA
*
96891252 AACACATTATGGATGC
1 AACACATTATAGATGC
96891268 AACACATTATAGATG
1 AACACATTATAGATG
96891283 TGACTCTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (16 bp):
AACACATTATAGATGC
Found at i:96896612 original size:16 final size:16
Alignment explanation
Indices: 96896591--96896622 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96896581 TCATCACAAC
96896591 ATAGATACATTTATAT
1 ATAGATACATTTATAT
*
96896607 ATAGATTCATTTATAT
1 ATAGATACATTTATAT
96896623 TAAAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAGATACATTTATAT
Found at i:96906682 original size:21 final size:21
Alignment explanation
Indices: 96906656--96906696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96906646 AGACGAGCAA
* *
96906656 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96906677 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96906697 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96923600 original size:4 final size:4
Alignment explanation
Indices: 96923553--96923638 Score: 51
Period size: 4 Copynumber: 21.8 Consensus size: 4
96923543 CACTCAAACA
*
96923553 AAAT AAAGT -AAT AAA- AAAT AAAAT AAAAT AAAGT -AAT GAAT AAAT
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAA-T AAAT AAAT AAAT
*
96923598 AAAT -AAG AAAT AAA- ATAAT AAAT -AAT AAAT -AAT AAAAT AAA
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT AAA
96923639 AATAAAAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
3 14 0.21
4 38 0.57
5 15 0.22
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:96923609 original size:37 final size:35
Alignment explanation
Indices: 96923553--96923663 Score: 106
Period size: 37 Copynumber: 3.1 Consensus size: 35
96923543 CACTCAAACA
96923553 AAATAAAGT-AATAAAAAATAAAATAAAATAAAGTAAT
1 AAATAAA-TAAAT-AAAAATAAAATAAAATAAA-TAAT
*
96923590 GAATAAATAAATAAGAAATAAAAT--AATAAATAAT
1 AAATAAATAAATAA-AAATAAAATAAAATAAATAAT
*
96923624 AAAT-AATAAAATAAAAATAAAAATAAAGAAAAATAA-
1 AAATAAAT-AAATAAAAAT-AAAATAAA-ATAAATAAT
96923660 AAAT
1 AAAT
96923664 TGGGTTGCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
33 7 0.11
34 18 0.28
35 6 0.09
36 8 0.12
37 25 0.39
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.21
Consensus pattern (35 bp):
AAATAAATAAATAAAAATAAAATAAAATAAATAAT
Found at i:96923619 original size:19 final size:19
Alignment explanation
Indices: 96923552--96923663 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 19
96923542 CCACTCAAAC
* *
96923552 AAAATAAAGTAATAAAAAAT
1 AAAATAAA-TAAGAAATAAT
*
96923572 AAAATAAAATAAAGTAATGAAT
1 AAAAT-AAAT-AAGAAAT-AAT
96923594 -AAATAAATAAGAAATAA-
1 AAAATAAATAAGAAATAAT
*
96923611 AATAATAAATAATAAATAAT
1 AA-AATAAATAAGAAATAAT
*
96923631 AAAATAAA-AATAAA-AAT
1 AAAATAAATAAGAAATAAT
*
96923648 AAAGAAAAATAA-AAAT
1 AAA-ATAAATAAGAAAT
96923664 TGGGTTGCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.08
18 16 0.21
19 29 0.38
20 12 0.16
21 11 0.14
22 3 0.04
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAATAAATAAGAAATAAT
Found at i:96923635 original size:15 final size:15
Alignment explanation
Indices: 96923554--96923643 Score: 66
Period size: 15 Copynumber: 6.1 Consensus size: 15
96923544 ACTCAAACAA
* *
96923554 AATAAAGTAATAAAA
1 AATAAAATAATAAAT
96923569 AATAAAAT-A-AAAT
1 AATAAAATAATAAAT
*
96923582 AA-AGTAATGAATAAAT
1 AATA-AAAT-AATAAAT
*
96923598 AAATAAGA-AATAAAAT
1 -AATAAAATAAT-AAAT
96923614 AAT-AAATAATAAAT
1 AATAAAATAATAAAT
96923628 AATAAAATAA-AAAT
1 AATAAAATAATAAAT
96923642 AA
1 AA
96923644 AAATAAAGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.02
13 8 0.13
14 16 0.27
15 23 0.38
16 8 0.13
17 3 0.05
18 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:96936303 original size:39 final size:39
Alignment explanation
Indices: 96936247--96936386 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
96936237 ATCGTGATCT
**
96936247 GAAGCCCGAAATCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* * *
96936286 GCAGCCCAAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
96936325 GAAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
96936364 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
96936387 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:96936329 original size:21 final size:21
Alignment explanation
Indices: 96936265--96936368 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
96936255 AAATCTAACT
96936265 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
* * *
96936286 GCAGCCCA-AAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
*
96936304 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACG
* * *
96936325 GAAGCTC-GAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
96936343 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
96936364 GAAGC
1 GAAGC
96936369 CCGGAGGCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
18 18 0.28
19 12 0.18
20 12 0.18
21 23 0.35
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:96949007 original size:17 final size:17
Alignment explanation
Indices: 96948985--96949020 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
96948975 ATTTCTGCTT
96948985 TCAAGCAAGATGACCGC
1 TCAAGCAAGATGACCGC
*
96949002 TCAAGCAAGATGATCGC
1 TCAAGCAAGATGACCGC
96949019 TC
1 TC
96949021 GGTCACTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (17 bp):
TCAAGCAAGATGACCGC
Found at i:96958878 original size:35 final size:35
Alignment explanation
Indices: 96958832--96958903 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
96958822 TCTAGCAATT
96958832 CAAAGCAAAGCAAAGCAACAATCAAGAATGACAAA
1 CAAAGCAAAGCAAAGCAACAATCAAGAATGACAAA
96958867 CAAAGCAAAGCAAAGCAACAATCAAGAATGACAAA
1 CAAAGCAAAGCAAAGCAACAATCAAGAATGACAAA
96958902 CA
1 CA
96958904 CAAATATGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.60, C:0.21, G:0.14, T:0.06
Consensus pattern (35 bp):
CAAAGCAAAGCAAAGCAACAATCAAGAATGACAAA
Found at i:96976719 original size:18 final size:18
Alignment explanation
Indices: 96976696--96976733 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
96976686 AATTTAGAGT
96976696 ATGTTTTATCAAAAACTA
1 ATGTTTTATCAAAAACTA
96976714 ATGTTTTATCAAAAACTA
1 ATGTTTTATCAAAAACTA
96976732 AT
1 AT
96976734 TATCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (18 bp):
ATGTTTTATCAAAAACTA
Found at i:96980087 original size:46 final size:46
Alignment explanation
Indices: 96980035--96980189 Score: 292
Period size: 46 Copynumber: 3.4 Consensus size: 46
96980025 AGTGTGCTCT
*
96980035 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
96980081 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
96980127 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
96980173 CTGATATGAAATGTGTA
1 CTGATATGAAATGTGTA
96980190 CCATGGCAAC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 106 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:96980197 original size:73 final size:73
Alignment explanation
Indices: 96980115--96980262 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
96980105 GGTTGAAAGA
*
96980115 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATAT
96980180 GAAATGTG
66 GAAATGTG
96980188 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATAT
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATAT
96980253 GAAATGTG
66 GAAATGTG
96980261 TA
1 TA
96980263 TGACCATGGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (73 bp):
TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATAT
GAAATGTG
Found at i:96980248 original size:46 final size:46
Alignment explanation
Indices: 96980188--96980381 Score: 246
Period size: 46 Copynumber: 4.2 Consensus size: 46
96980178 ATGAAATGTG
* *
96980188 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGA
* * * *
96980234 TACCACGGCAACCTGATATGAAATGTGTATGACCATGGTTGAAAGA
1 TACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGA
* * *
96980280 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGA
* * *
96980326 TACCATGGAAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TACCATGGCAACCTGACATG-AAATGAGTAAGACCATGGTTGAAAGA
* *
96980372 AACTATGGCA
1 TACCATGGCA
96980382 TCATGTCAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 129 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TACCATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGA
Found at i:96980284 original size:119 final size:119
Alignment explanation
Indices: 96980073--96980302 Score: 415
Period size: 119 Copynumber: 1.9 Consensus size: 119
96980063 GAAAGATACT
* *
96980073 ATGGCAACCTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAA
*
96980138 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTACC
66 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTACC
96980192 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAA
1 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAA
* *
96980257 TGTGTATGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
66 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
96980303 AGAATAAGAC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 106 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (119 bp):
ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAA
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTACC
Found at i:96980313 original size:165 final size:165
Alignment explanation
Indices: 96980035--96980333 Score: 517
Period size: 165 Copynumber: 1.8 Consensus size: 165
96980025 AGTGTGCTCT
* *
96980035 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAATGTGTAAG
* * * **
96980100 ACCGTGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
96980165 ATGGCAACCTGATATGAAATGTGTACCATGGCAAC
131 ATGGCAACCTGATATGAAATGTGTACCATGGCAAC
*
96980200 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAATGTGTATG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAATGTGTAAG
*
96980265 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
96980330 ATGG
131 ATGG
96980334 AAACATGACA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 125 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (165 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
ATGGCAACCTGATATGAAATGTGTACCATGGCAAC
Found at i:96984812 original size:27 final size:27
Alignment explanation
Indices: 96984779--96984841 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
96984769 ATATTTTAAA
* *
96984779 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
96984806 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
96984833 TATT-TTTAT
1 TATTATTTAT
96984842 TCATTTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:96984842 original size:24 final size:26
Alignment explanation
Indices: 96984779--96984863 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
96984769 ATATTTTAAA
* *
96984779 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
96984806 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
96984833 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
96984856 TATTATTA
1 TATTATTA
96984864 CTCCAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:96984850 original size:27 final size:27
Alignment explanation
Indices: 96984796--96984863 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
96984786 TATATTATCC
*
96984796 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
96984823 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
96984847 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
96984864 CTCCAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Found at i:96985365 original size:14 final size:14
Alignment explanation
Indices: 96985346--96985375 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
96985336 ACATCATGTT
96985346 TTTTTAATACTATA
1 TTTTTAATACTATA
96985360 TTTTTAATACTATA
1 TTTTTAATACTATA
96985374 TT
1 TT
96985376 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:96985454 original size:64 final size:58
Alignment explanation
Indices: 96985346--96985502 Score: 136
Period size: 64 Copynumber: 2.5 Consensus size: 58
96985336 ACATCATGTT
* * * *
96985346 TTTTTAATACTATATTTTTAATACTATATTATGTATATATTTTTACAT-GCATTATGTACATA
1 TTTTTAATA-TATATATGT-ATA-TAT-TTATGTACATACTTTTA-ATAGCATTATGTACATA
** **
96985408 TTTTCAATAACTATATCATATGTATATATTTTATGTACATACTTTTAATATTATTATGTATTTA
1 TTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATACTTTTAATAGCATTATGTACATA
96985472 TTTTTAATATATATATGTATATATTTATGTA
1 TTTTTAATATATATATGTATATATTTATGTA
96985503 GTATTATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
58 8 0.10
59 11 0.14
60 5 0.06
61 3 0.04
62 4 0.05
63 2 0.03
64 31 0.39
65 10 0.12
66 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (58 bp):
TTTTTAATATATATATGTATATATTTATGTACATACTTTTAATAGCATTATGTACATA
Found at i:96985465 original size:23 final size:23
Alignment explanation
Indices: 96985433--96985490 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
96985423 TCATATGTAT
96985433 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
96985455 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
96985478 ATA-TATATATGTA
1 ATATTAT-TATGTA
96985491 TATATTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:96985497 original size:23 final size:23
Alignment explanation
Indices: 96985356--96985439 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
96985346 TTTTTAATAC
96985356 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATA-TATA-TATGTA
**
96985381 TATATTTTTACATGCAT-TATGTA
1 TATATTTTTA-ATATATATATGTA
*
96985404 CATATTTTCAATAACTATATCATATGTA
1 TATATTTT---TAA-TATAT-ATATGTA
96985432 TATATTTT
1 TATATTTT
96985440 ATGTACATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
23 13 0.28
25 13 0.28
26 7 0.15
28 13 0.28
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATATATATGTA
Found at i:96985582 original size:24 final size:23
Alignment explanation
Indices: 96985539--96985600 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
96985529 TTCTAATATG
* * *
96985539 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTTAA
**
96985562 TACTATATTATGTATACATTTTTT
1 TA-TATATTATGTATACATTTTAA
*
96985586 TATATATTACGTATA
1 TATATATTATGTATA
96985601 TATATATCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATATTATGTATACATTTTAA
Found at i:96985758 original size:25 final size:25
Alignment explanation
Indices: 96985695--96985758 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
96985685 GTATATATAT
**
96985695 TTTTTAATAACTATATTATGTATGTA
1 TTTTTAAT-ACTATATTATGTACATA
**
96985721 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
96985746 TTTTTAATACTAT
1 TTTTTAATACTAT
96985759 GTATATACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:96989210 original size:48 final size:48
Alignment explanation
Indices: 96989096--96989196 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
96989086 CACAATATAT
* *
96989096 ATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
* *
96989144 ATATGCATGGCTCATACATATTTCACATTAGCC-TTTCGGCTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTT-GGCTTTACCAC
96989192 ATATA
1 ATATA
96989197 TATATCTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 3 0.06
48 44 0.94
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (48 bp):
ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
Found at i:96991526 original size:6 final size:6
Alignment explanation
Indices: 96991426--96991506 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
96991416 ATTTGTTTTC
96991426 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
96991474 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
96991507 CTTATACTTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:96994946 original size:11 final size:11
Alignment explanation
Indices: 96994930--96994954 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96994920 TATGTTAATG
96994930 ATAATATTGAA
1 ATAATATTGAA
96994941 ATAATATTGAA
1 ATAATATTGAA
96994952 ATA
1 ATA
96994955 TTGAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
ATAATATTGAA
Found at i:96995281 original size:3 final size:3
Alignment explanation
Indices: 96995275--96995326 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
96995265 CCTTTCATCA
96995275 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
96995323 TCT T
1 TCT T
96995327 GAACTTTGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:97005388 original size:29 final size:30
Alignment explanation
Indices: 97005331--97005394 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
97005321 ATATCAAAAC
**
97005331 TATATATGAACTTTGATTTAATGTATAATTG
1 TATATATGAACTACGATTT-ATGTATAATTG
* *
97005362 TATATATGAACTACGATTT-TGTGTAATTT
1 TATATATGAACTACGATTTATGTATAATTG
97005391 TATA
1 TATA
97005395 CATAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (30 bp):
TATATATGAACTACGATTTATGTATAATTG
Found at i:97006917 original size:3 final size:3
Alignment explanation
Indices: 97006909--97006950 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
97006899 TACAACATGC
* * *
97006909 TAA TAA TAA TAA CAA -AA AAA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
97006951 GGTGGTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:97008321 original size:15 final size:14
Alignment explanation
Indices: 97008301--97008331 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
97008291 TATACGATGA
97008301 ATTGATTGAATTTAT
1 ATTGATTGAA-TTAT
97008316 ATTGATTGAATTAT
1 ATTGATTGAATTAT
97008330 AT
1 AT
97008332 AATATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (14 bp):
ATTGATTGAATTAT
Found at i:97008772 original size:42 final size:42
Alignment explanation
Indices: 97008705--97008787 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
97008695 TTTATCGATT
* *
97008705 AGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTAGTATCAGGCACCTCATGTGTCGTATC
* * * *
97008747 AGGCACCTCGTGTGTAGTTTTAGGCACTTTATGTGTCGTAT
1 AGGCACCTCGTGTGTAGTATCAGGCACCTCATGTGTCGTAT
97008788 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.34
Consensus pattern (42 bp):
AGGCACCTCGTGTGTAGTATCAGGCACCTCATGTGTCGTATC
Found at i:97008773 original size:21 final size:21
Alignment explanation
Indices: 97008705--97008761 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
97008695 TTTATCGATT
97008705 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
97008726 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
97008747 AGGCACCTCGTGTGT
1 AGGCACCTCGTGTGT
97008762 AGTTTTAGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:97019922 original size:18 final size:18
Alignment explanation
Indices: 97019872--97019943 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 18
97019862 TTATTACTAG
*
97019872 TATTTATATATTAATAAAT
1 TATTTAT-TATTAATAATT
* * *
97019891 TATTTTTTAGTAATTTATT
1 TATTTATTATTAA-TAATT
97019910 TA-TTATTATTAATAA-T
1 TATTTATTATTAATAATT
* *
97019926 TACTT-TTATTAACAATT
1 TATTTATTATTAATAATT
97019943 T
1 T
97019944 TTTTTACCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 12 0.29
17 6 0.14
18 13 0.31
19 11 0.26
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
TATTTATTATTAATAATT
Found at i:97027797 original size:20 final size:21
Alignment explanation
Indices: 97027768--97027808 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97027758 ATTAAACTTA
*
97027768 TAAAATTA-TTATGTATTTTT
1 TAAAAATATTTATGTATTTTT
*
97027788 TAAAAATATTTATTTATTTTT
1 TAAAAATATTTATGTATTTTT
97027809 AATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TAAAAATATTTATGTATTTTT
Found at i:97030386 original size:5 final size:5
Alignment explanation
Indices: 97030376--97030416 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
97030366 TGCCTTTGGT
*
97030376 TTTTA TTTTA TTTTA TTTATA TTTTA TTATA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA
97030417 ATGACTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:97037976 original size:27 final size:27
Alignment explanation
Indices: 97037946--97037998 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
97037936 TTTATCGAGG
*
97037946 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATATT
* *
97037973 TTATTAATTTATTGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
97037999 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (27 bp):
TTATTAATTTATCGATAAATGAATATT
Found at i:97042395 original size:93 final size:93
Alignment explanation
Indices: 97042283--97042455 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
97042273 CGCCCATAAG
* *
97042283 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACACTCGCATCCATAAATGAACTCGGACTCAACTC
97042347 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
97042376 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAATGAACTCGGACTCAACTCA
*
97042441 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
97042456 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:97042451 original size:46 final size:46
Alignment explanation
Indices: 97042284--97042451 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
97042274 GCCCATAAGC
** *
97042284 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAAT
* * * * ** *
97042330 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCATCCAT-AAAT
*
97042377 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
*
97042423 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
97042452 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 63 0.63
47 35 0.35
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
Found at i:97043878 original size:15 final size:14
Alignment explanation
Indices: 97043830--97043912 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
97043820 CAAAGATAAC
*
97043830 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
97043844 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
97043859 GAGAAACCCGAACTA
1 AAGAAACCCGAA-TA
*
97043874 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
97043889 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
97043904 AAGAAACCC
1 AAGAAACCC
97043913 AAGATACGCT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 13 0.24
15 35 0.65
16 6 0.11
ACGTcount: A:0.55, C:0.18, G:0.17, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:97043918 original size:15 final size:15
Alignment explanation
Indices: 97043841--97043918 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
97043831 AGAAAACCGA
97043841 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
97043856 ATAGAGAAACCCGAA-
1 ATAAAGAAATCC-AAG
*
97043871 CTAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
97043885 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
97043901 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
97043916 ATA
1 ATA
97043919 CGCTACTATG
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.02
15 44 0.92
16 3 0.06
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:97046899 original size:45 final size:46
Alignment explanation
Indices: 97046835--97047008 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
97046825 TGTAACCCGC
97046835 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
97046880 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * *
97046930 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
97046972 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
97047009 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:97046953 original size:92 final size:92
Alignment explanation
Indices: 97046842--97047012 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 92
97046832 CGCCCATAAG
*
97046842 CGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCA
97046906 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGCTCGGATGCCTAGTTACATCTCA
*
97046934 CGAACTCGGACTCAACTCAACGAGTTCGGACATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
97046999 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
97047013 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 74 0.99
93 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:97051545 original size:22 final size:22
Alignment explanation
Indices: 97051518--97051562 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
97051508 TTACCAGTAG
97051518 CACTGAAAATATAATACTGGAA
1 CACTGAAAATATAATACTGGAA
97051540 CACTGAAAATATAATACTGGAA
1 CACTGAAAATATAATACTGGAA
97051562 C
1 C
97051563 GATATTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (22 bp):
CACTGAAAATATAATACTGGAA
Found at i:97056768 original size:16 final size:15
Alignment explanation
Indices: 97056749--97056816 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 15
97056739 TTTTATGTGT
97056749 TATAAATTACATA-AGA
1 TATAAATTA-ATATA-A
97056765 TATAAAATTAATATAA
1 TAT-AAATTAATATAA
* * **
97056781 TATAAATTATTTTTT
1 TATAAATTAATATAA
97056796 TGATAAA-TAATATAA
1 T-ATAAATTAATATAA
97056811 TATAAA
1 TATAAA
97056817 ATATTACAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 15 0.37
17 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (15 bp):
TATAAATTAATATAA
Found at i:97057050 original size:4 final size:4
Alignment explanation
Indices: 97057041--97057131 Score: 67
Period size: 4 Copynumber: 22.2 Consensus size: 4
97057031 GTTGGATAAC
* ** * * * *
97057041 GGGA GGGA GGGA GGGA GGGA AGGA AAGA GGGA GAGA GAGA GAGA GAGA
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA
* *
97057089 GAGG- GGGA GGGA GGGA GATAGA GGGA GCGA GGGA GGGA GGGA G
1 G-GGA GGGA GGGA GGGA G--GGA GGGA GGGA GGGA GGGA GGGA G
97057132 AGCAAGGGAG
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
3 2 0.03
4 67 0.92
5 1 0.01
6 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.64, T:0.01
Consensus pattern (4 bp):
GGGA
Found at i:97057084 original size:10 final size:10
Alignment explanation
Indices: 97057066--97057157 Score: 60
Period size: 10 Copynumber: 9.2 Consensus size: 10
97057056 AGGGAAGGAA
*
97057066 AGAGGGAGAG
1 AGAGAGAGAG
97057076 AGAGAGAGAG
1 AGAGAGAGAG
* *
97057086 AGAGAGGGGG
1 AGAGAGAGAG
* *
97057096 AGGGAGGGAG
1 AGAGAGAGAG
* *
97057106 ATAGAGGGAG
1 AGAGAGAGAG
* * *
97057116 CGAGGGAGGG
1 AGAGAGAGAG
*
97057126 AGGGAGAGCA-
1 AGAGAGAG-AG
*
97057136 AGGGAGAGAG
1 AGAGAGAGAG
97057146 AGAGAGAGAG
1 AGAGAGAGAG
97057156 AG
1 AG
97057158 GAAGACGAAG
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
9 1 0.02
10 62 0.98
ACGTcount: A:0.38, C:0.02, G:0.59, T:0.01
Consensus pattern (10 bp):
AGAGAGAGAG
Found at i:97057106 original size:22 final size:22
Alignment explanation
Indices: 97057049--97057158 Score: 82
Period size: 22 Copynumber: 5.0 Consensus size: 22
97057039 ACGGGAGGGA
*
97057049 GGGAGGGAGGGA-AGGAAAGAGG
1 GGGAGGGAGGGAGA-GAGAGAGG
* * *
97057071 GAGAGAGAGAGAGAGAGAGAGG
1 GGGAGGGAGGGAGAGAGAGAGG
*
97057093 GGGAGGGAGGGAGATAGAG-GG
1 GGGAGGGAGGGAGAGAGAGAGG
* * *
97057114 AGCGAGGGAGGGAGGGAGAGCA-A
1 -GGGAGGGAGGGAGAGAGAG-AGG
* *
97057137 GGGAGAGAGAGAGAGAGAGAGG
1 GGGAGGGAGGGAGAGAGAGAGG
97057159 AAGACGAAGA
Statistics
Matches: 66, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
21 3 0.05
22 62 0.94
23 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.60, T:0.01
Consensus pattern (22 bp):
GGGAGGGAGGGAGAGAGAGAGG
Found at i:97057140 original size:36 final size:34
Alignment explanation
Indices: 97057043--97057155 Score: 113
Period size: 32 Copynumber: 3.3 Consensus size: 34
97057033 TGGATAACGG
* * *
97057043 GAGGGAGGGAGGGAGGGAAGGAAAGAGGGAGAGA
1 GAGGGAGAGAGGGAGGGAGGGAGAGAGGGAGAGA
* * * *
97057077 GAGAGAGAGAGAGA-GG-GGGAGGGAGGGAGATA
1 GAGGGAGAGAGGGAGGGAGGGAGAGAGGGAGAGA
*
97057109 GAGGGAGCGAGGGAGGGAGGGAGAGCAAGGGAGAGA
1 GAGGGAGAGAGGGAGGGAGGGAGAG--AGGGAGAGA
*
97057145 GAGAGAGAGAG
1 GAGGGAGAGAG
97057156 AGGAAGACGA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
32 23 0.38
33 4 0.07
34 17 0.28
36 17 0.28
ACGTcount: A:0.37, C:0.02, G:0.60, T:0.01
Consensus pattern (34 bp):
GAGGGAGAGAGGGAGGGAGGGAGAGAGGGAGAGA
Found at i:97057150 original size:8 final size:8
Alignment explanation
Indices: 97057066--97057157 Score: 60
Period size: 8 Copynumber: 11.5 Consensus size: 8
97057056 AGGGAAGGAA
*
97057066 AGAGGGAG
1 AGAGAGAG
97057074 AGAGAGAG
1 AGAGAGAG
97057082 AGAGAGAG
1 AGAGAGAG
* *
97057090 AGGGGGAG
1 AGAGAGAG
* *
97057098 GGAGGGAG
1 AGAGAGAG
* *
97057106 ATAGAGGG
1 AGAGAGAG
* *
97057114 AGCGAGGG
1 AGAGAGAG
* *
97057122 AGGGAGGG
1 AGAGAGAG
97057130 AGAGCA-AG
1 AGAG-AGAG
*
97057138 GGAGAGAG
1 AGAGAGAG
97057146 AGAGAGAG
1 AGAGAGAG
97057154 AGAG
1 AGAG
97057158 GAAGACGAAG
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
7 1 0.02
8 64 0.97
9 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.59, T:0.01
Consensus pattern (8 bp):
AGAGAGAG
Found at i:97057150 original size:18 final size:18
Alignment explanation
Indices: 97057100--97057151 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
97057090 AGGGGGAGGG
* * *
97057100 AGGGAGATAGAGGGAGCG
1 AGGGAGAGAGAGAGAGCA
* *
97057118 AGGGAGGGAGGGAGAGCA
1 AGGGAGAGAGAGAGAGCA
97057136 AGGGAGAGAGAGAGAG
1 AGGGAGAGAGAGAGAG
97057152 AGAGAGGAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.58, T:0.02
Consensus pattern (18 bp):
AGGGAGAGAGAGAGAGCA
Found at i:97057172 original size:3 final size:3
Alignment explanation
Indices: 97057158--97057188 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
97057148 AGAGAGAGAG
*
97057158 GAA GAC GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
97057189 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.03, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:97060632 original size:30 final size:29
Alignment explanation
Indices: 97060575--97060633 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
97060565 TTTTAAATTA
*
97060575 AAAATTTAAAATTAATAACAAATTTCAAT
1 AAAATTTAAAATTAATAACAAAATTCAAT
* * *
97060604 AAAATTTAAAAATTAGTGATAAAATTCAAT
1 AAAATTT-AAAATTAATAACAAAATTCAAT
97060634 TACATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTTAAAATTAATAACAAAATTCAAT
Found at i:97062751 original size:24 final size:23
Alignment explanation
Indices: 97062701--97062754 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
97062691 AATCAAATAA
** *
97062701 AAATTAATTAACCGAAATAACAT
1 AAATTAATTAAAAGAAATAACAC
97062724 AAATTAATTAAAAGTAAATAACAC
1 AAATTAATTAAAAG-AAATAACAC
97062748 AAATTAA
1 AAATTAA
97062755 CAATCGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
AAATTAATTAAAAGAAATAACAC
Found at i:97064660 original size:24 final size:24
Alignment explanation
Indices: 97064633--97064687 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
97064623 CCGATATATA
*
97064633 AGCTTCCTAATTATGGCTCTTATG
1 AGCTTCCTAATTATGACTCTTATG
*
97064657 AGCTTCCTGATTATGACTCTTATG
1 AGCTTCCTAATTATGACTCTTATG
*
97064681 AACTTCC
1 AGCTTCC
97064688 CATTATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (24 bp):
AGCTTCCTAATTATGACTCTTATG
Found at i:97066222 original size:18 final size:17
Alignment explanation
Indices: 97066194--97066255 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
97066184 TTAGATTTTT
*
97066194 TTAAATATATTATT-TAA
1 TTAATTATATTATTAT-A
97066211 TTAGATTATATTATTATA
1 TTA-ATTATATTATTATA
* *
97066229 TTAATTATATCATAATA
1 TTAATTATATTATTATA
97066246 TTATATTATA
1 TTA-ATTATA
97066256 AAATAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 18 0.46
18 20 0.51
19 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAATTATATTATTATA
Found at i:97066234 original size:22 final size:22
Alignment explanation
Indices: 97066200--97066253 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
97066190 TTTTTTAAAT
*
97066200 ATATTAT-TTAATTAGATTATA
1 ATATTATATTAATTAGATCATA
* *
97066221 TTATTATATTAATTATATCATA
1 ATATTATATTAATTAGATCATA
97066243 ATATTATATTA
1 ATATTATATTA
97066254 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTATATTAATTAGATCATA
Found at i:97078877 original size:67 final size:67
Alignment explanation
Indices: 97078765--97078901 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
97078755 TCCCTCCTCT
* *
97078765 AATAGGTTTTGGTTTTAGAATTAACCCAATTGGAAATGTAGCATTGTTACATGAATATAGAAATC
1 AATAGGTTTTGGTTTCAGAATTAACCCAATTGGAAATGTAACATTGTTACATGAATATAGAAATC
97078830 AA
66 AA
*
97078832 AATAGGTTTTGGTTTCAGAATTAACCCAATTGGGAATGTAACATTGTTACATGAATATAGAAATC
1 AATAGGTTTTGGTTTCAGAATTAACCCAATTGGAAATGTAACATTGTTACATGAATATAGAAATC
97078897 AA
66 AA
97078899 AAT
1 AAT
97078902 GGGGTTTCTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (67 bp):
AATAGGTTTTGGTTTCAGAATTAACCCAATTGGAAATGTAACATTGTTACATGAATATAGAAATC
AA
Found at i:97079773 original size:62 final size:62
Alignment explanation
Indices: 97079676--97079800 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
97079666 ACATAGGCAG
*
97079676 AAGAGCTGAAAACCAACATATTCAGCATGAAAATAAAGAATGACCTCTTCTTTTTTTCAAAA
1 AAGAGCTGAAAACCAACATATTCAGCATGAAAATAAAGAATAACCTCTTCTTTTTTTCAAAA
97079738 AAGAGCTGAAAACCAACATATTCAGCACT-AAAATAAAGAATAACCTCTTCTTTTTTTCAAAA
1 AAGAGCTGAAAACCAACATATTCAGCA-TGAAAATAAAGAATAACCTCTTCTTTTTTTCAAAA
97079800 A
1 A
97079801 CGTCCTTACA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 60 0.98
63 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (62 bp):
AAGAGCTGAAAACCAACATATTCAGCATGAAAATAAAGAATAACCTCTTCTTTTTTTCAAAA
Found at i:97083262 original size:15 final size:15
Alignment explanation
Indices: 97083242--97083277 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
97083232 TGTGACTAAA
97083242 CTTTACAATTTAGTC
1 CTTTACAATTTAGTC
97083257 CTTTACAATTTAGTC
1 CTTTACAATTTAGTC
97083272 CTTTAC
1 CTTTAC
97083278 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (15 bp):
CTTTACAATTTAGTC
Found at i:97086591 original size:18 final size:18
Alignment explanation
Indices: 97086568--97086605 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
97086558 GAGTCGGTTA
97086568 CATACGAGGAAGGATTAG
1 CATACGAGGAAGGATTAG
97086586 CATACGAGGAAGGATTAG
1 CATACGAGGAAGGATTAG
97086604 CA
1 CA
97086606 CCCTCGCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (18 bp):
CATACGAGGAAGGATTAG
Found at i:97087405 original size:22 final size:21
Alignment explanation
Indices: 97087370--97087445 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
97087360 AAAAGGTATC
* *
97087370 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
97087391 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
97087414 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
97087433 TGC-AATCATATCT
1 TACAAATCATATCT
97087446 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:97087462 original size:35 final size:37
Alignment explanation
Indices: 97087399--97087496 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
97087389 ATTACAAAAT
97087399 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
97087435 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
97087470 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
97087497 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:97087504 original size:17 final size:19
Alignment explanation
Indices: 97087406--97087496 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
97087396 AATCATATCT
97087406 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
97087425 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
97087443 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
97087460 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
97087479 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
97087497 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:97087904 original size:45 final size:45
Alignment explanation
Indices: 97087855--97087994 Score: 183
Period size: 45 Copynumber: 3.1 Consensus size: 45
97087845 TGCTATATTT
97087855 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTC
* * *
97087900 GATCTGCTCCCCGTCTAATACAGAGACACAAAATTTGCT-TCTTC
1 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTC
* * * ** * *
97087944 AATCTGCTCCCTGCCTAATACAGAGATGCCAAATCTGTCATCTTG
1 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTC
97087989 GATCTG
1 GATCTG
97087995 TTTCAATGTA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 35 0.44
45 45 0.56
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTC
Found at i:97087962 original size:44 final size:45
Alignment explanation
Indices: 97087842--97087969 Score: 168
Period size: 45 Copynumber: 2.9 Consensus size: 45
97087832 AGAAGGCGAT
* ** *
97087842 ATCTGCTATATTTGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAA
* *
97087887 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACAAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAA
* * *
97087932 ATTTGCT-TCTTCAATCTGCTCCCTGCCTAATACAGAGA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGA
97087970 TGCCAAATCT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 28 0.38
45 46 0.62
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (45 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACACAAA
Found at i:97088081 original size:41 final size:41
Alignment explanation
Indices: 97088031--97088162 Score: 106
Period size: 41 Copynumber: 3.3 Consensus size: 41
97088021 ATGTACTATG
*
97088031 TCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
1 TCTTGGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
97088072 TCTTGGATCTGCT-----TC-AATGA-AG-G-T-CC-AATCTGTTA
1 TCTTGGATCTGCTCCCCGTCTAAT-ATAGAGATGCCAAATC----A
*
97088107 TGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
1 --TCTTGGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
97088150 TCTTGGATCTGCT
1 TCTTGGATCTGCT
97088163 TCAATGAAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 36
0.64 0.03 0.33
Matches are distributed among these distances:
31 4 0.06
32 2 0.03
33 1 0.01
34 1 0.01
35 6 0.09
36 3 0.04
37 12 0.17
41 24 0.34
42 3 0.04
43 6 0.09
44 1 0.01
45 1 0.01
46 2 0.03
47 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (41 bp):
TCTTGGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCA
Found at i:97088139 original size:78 final size:78
Alignment explanation
Indices: 97088010--97088304 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
97088000 ATGTAAACAC
* * *
97088010 ATGAATGTCAGATGTACTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
97088075 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
97088088 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
97088152 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * * *
97088166 ATGAAGGTCAGATCTACTGTGTTTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
97088231 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * * *
97088244 ATGAATGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCTAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC
97088305 TGTTTCTTCG
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 188 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:97095051 original size:40 final size:40
Alignment explanation
Indices: 97095005--97095085 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
97094995 AAGTAACAAG
*
97095005 AATGTTTCGAGAATTACTCTGAAAAATTCCTAAAGACTAC
1 AATGTTTCAAGAATTACTCTGAAAAATTCCTAAAGACTAC
97095045 AATGTTTCAAGAATTACTCTGAAAAATTCCTAAAGACTAC
1 AATGTTTCAAGAATTACTCTGAAAAATTCCTAAAGACTAC
97095085 A
1 A
97095086 TGAAGTTCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (40 bp):
AATGTTTCAAGAATTACTCTGAAAAATTCCTAAAGACTAC
Found at i:97098971 original size:22 final size:21
Alignment explanation
Indices: 97098936--97099011 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
97098926 AAAAGGTATC
* *
97098936 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
97098957 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
97098980 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
97098999 TGC-AATCATATCT
1 TACAAATCATATCT
97099012 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:97099028 original size:35 final size:37
Alignment explanation
Indices: 97098965--97099043 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
97098955 ATTACAAAAT
97098965 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
97099001 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
97099036 CATATCAT
1 CATATCAT
97099044 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:97099041 original size:14 final size:15
Alignment explanation
Indices: 97098986--97099041 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
97098976 AGATTGCATA
97098986 TCATATCTAAGATTG
1 TCATATCTAAGATTG
97099001 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
97099019 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
97099036 -CATATC
1 TCATATC
97099042 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:97099051 original size:17 final size:19
Alignment explanation
Indices: 97098972--97099043 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
97098962 AATCATATCT
97098972 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
97098991 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
97099009 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
97099026 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
97099044 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:97101527 original size:3 final size:3
Alignment explanation
Indices: 97101513--97101550 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
97101503 AAACATAAAC
*
97101513 TAA TACA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA T
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
97101551 GTAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:97102027 original size:16 final size:16
Alignment explanation
Indices: 97101988--97102033 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
97101978 AAAAAAAGAA
* *
97101988 AAAAAAGAGAAGGGAG
1 AAAAGAGAGAGGGGAG
97102004 AAAAGAGAGAGGGGAG
1 AAAAGAGAGAGGGGAG
**
97102020 AAGGGAGAGAGGGG
1 AAAAGAGAGAGGGG
97102034 TTCCGGCGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (16 bp):
AAAAGAGAGAGGGGAG
Found at i:97102700 original size:16 final size:16
Alignment explanation
Indices: 97102679--97102726 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
97102669 TTTTGTGTAA
*
97102679 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
97102695 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
97102711 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
97102727 GTTATTGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.12, C:0.06, G:0.42, T:0.40
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:97108288 original size:4 final size:4
Alignment explanation
Indices: 97108279--97108315 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
97108269 CCATGCCAAC
97108279 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
97108316 GTTACTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:97110680 original size:22 final size:22
Alignment explanation
Indices: 97110655--97110700 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
97110645 TGCAAAATAA
*
97110655 AAATAAAAAATGAAG-AGGATGC
1 AAATAAAAAA-GAAGAAGAATGC
*
97110677 AAATGAAAAAGAAGAAGAATGC
1 AAATAAAAAAGAAGAAGAATGC
97110699 AA
1 AA
97110701 GTGGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (22 bp):
AAATAAAAAAGAAGAAGAATGC
Found at i:97110799 original size:1 final size:1
Alignment explanation
Indices: 97110793--97110820 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
97110783 TTCAAAGTTT
97110793 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
97110821 CGTGCCCAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:97120821 original size:3 final size:3
Alignment explanation
Indices: 97120813--97120844 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
97120803 AATTGATTAG
97120813 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
97120845 GCTAATGTAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:97129805 original size:138 final size:139
Alignment explanation
Indices: 97129458--97129806 Score: 371
Period size: 138 Copynumber: 2.6 Consensus size: 139
97129448 AACTAATATG
* *
97129458 TTAAAA-AAAAAAAACTTGAAGCAACATGAAATAAAAAATATAAATGTG--T-AGA-AG-AATTG
1 TTAAAATATAAAAAGCTTGAAGCAACATGAAAT-AAAAATATAAATGTGAATAAGAGAGTAATTG
* * * * *
97129517 GACTCGAGACTTAATAATGTAATTACAACTATCTAACCATCTAACGAAAAGGACTAATATGTTAA
65 AACTCGAGACTCAATAATGTAATTACAACTATCTAACCATCAAACGAAAAGAACTAATATGCTAA
97129582 AAAATATTAA
130 AAAATATTAA
* * ** * * *
97129592 TTAAAATATAAAAAGCTTCAAACAACATGAAA-AAAAATATAAAT-ACAAGTAGGAGATTAATCG
1 TTAAAATATAAAAAGCTTGAAGCAACATGAAATAAAAATATAAATGTGAA-TAAGAGAGTAATTG
* * * * *
97129655 AACTCAAAACTCAATGATGTAATTGCAACTATCTAACCATCAAAC-CAAAGAACTAATATGCTAA
65 AACTCGAGACTCAATAATGTAATTACAACTATCTAACCATCAAACGAAAAGAACTAATATGCTAA
*
97129719 AAGA-A-TAA
130 AAAATATTAA
* *
97129727 TTAAAATTTTAAAAAGCTTGAAGCAACATGAAATGAAAAATACAAATGTGAATAAGAGAGTAATT
1 TTAAAA-TATAAAAAGCTTGAAGCAACATGAAAT-AAAAATATAAATGTGAATAAGAGAGTAATT
97129792 GAAC-CTGAGACTCAA
64 GAACTC-GAGACTCAA
97129807 GGATAAGAAC
Statistics
Matches: 172, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
133 12 0.07
134 6 0.03
135 31 0.18
136 26 0.15
137 21 0.12
138 74 0.43
139 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (139 bp):
TTAAAATATAAAAAGCTTGAAGCAACATGAAATAAAAATATAAATGTGAATAAGAGAGTAATTGA
ACTCGAGACTCAATAATGTAATTACAACTATCTAACCATCAAACGAAAAGAACTAATATGCTAAA
AAATATTAA
Found at i:97136646 original size:12 final size:12
Alignment explanation
Indices: 97136629--97136661 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
97136619 TGGATGGGGT
97136629 TTTGGTCCTGGC
1 TTTGGTCCTGGC
97136641 TTTGGTCCTGGC
1 TTTGGTCCTGGC
97136653 TTTGGTCCT
1 TTTGGTCCT
97136662 TTACATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.30, T:0.45
Consensus pattern (12 bp):
TTTGGTCCTGGC
Found at i:97137485 original size:24 final size:24
Alignment explanation
Indices: 97137454--97137508 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
97137444 TTCCGTTATT
*
97137454 CAGCTCGGAAGAGCTTACT-ATTTA
1 CAGCTCGGAAAAGCTTA-TAATTTA
*
97137478 TAGCTCGGAAAAGCTTATAATTTA
1 CAGCTCGGAAAAGCTTATAATTTA
97137502 CAGCTCG
1 CAGCTCG
97137509 TATGAGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
CAGCTCGGAAAAGCTTATAATTTA
Found at i:97139817 original size:2 final size:2
Alignment explanation
Indices: 97139810--97139835 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97139800 CAAATTCATC
97139810 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
97139836 TAAGGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97142573 original size:30 final size:30
Alignment explanation
Indices: 97142537--97142663 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 30
97142527 AATTACAACA
97142537 ACAACAACAATGGCTACAC-CACAAGTAAG-T
1 ACAACAACAATGGCTACACTCAC-AG-AAGCT
* *
97142567 ACAACAACAATGGCTACACTCTCAGCAGCT
1 ACAACAACAATGGCTACACTCACAGAAGCT
* **
97142597 ACAACAACAATGGCTACA-GC-GGGAA-CT
1 ACAACAACAATGGCTACACTCACAGAAGCT
* * *
97142624 ACAACACCAATGGCTACAATGAC--AA-CT
1 ACAACAACAATGGCTACACTCACAGAAGCT
97142651 ACAACAACAATGG
1 ACAACAACAATGG
97142664 GTATGAGACA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
27 35 0.43
28 2 0.02
29 3 0.04
30 40 0.49
31 2 0.02
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.13
Consensus pattern (30 bp):
ACAACAACAATGGCTACACTCACAGAAGCT
Found at i:97148857 original size:26 final size:26
Alignment explanation
Indices: 97148818--97148925 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
97148808 TGAAATTTTC
97148818 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
97148844 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
97148870 AACACGAAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97148896 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97148922 ATCA
1 ATCA
97148926 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:97149785 original size:92 final size:92
Alignment explanation
Indices: 97149677--97149894 Score: 303
Period size: 92 Copynumber: 2.4 Consensus size: 92
97149667 TTTGATATCT
* * *
97149677 AACTATCAAAATGTGTTTTATTATGGTACCT-GTACATTCATAAAATGTCAAATGTGATACCTGC
1 AACTATCAATATGTGTTTTATTATGGTACCTGGT-CATTCATAAAATGTCAAATATAATACCTGC
* *
97149741 ACTTTGAAAATGTTCAATATGGTATTTG
65 ACTTTGAAAATATCCAATATGGTATTTG
* * **
97149769 AACTATCAATATGTGTTTTATTATGGTACTTGGTCTTTCATAAAATGTCAAATATAATATTTGCA
1 AACTATCAATATGTGTTTTATTATGGTACCTGGTCATTCATAAAATGTCAAATATAATACCTGCA
97149834 CTTTGAAAATATCCAATATGGTATTTG
66 CTTTGAAAATATCCAATATGGTATTTG
* * * *
97149861 AACTATCAATATATGCTTTATTGTGGTACTTGGT
1 AACTATCAATATGTGTTTTATTATGGTACCTGGT
97149895 GTTAACATCG
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 111 0.98
93 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (92 bp):
AACTATCAATATGTGTTTTATTATGGTACCTGGTCATTCATAAAATGTCAAATATAATACCTGCA
CTTTGAAAATATCCAATATGGTATTTG
Found at i:97150583 original size:16 final size:15
Alignment explanation
Indices: 97150562--97150603 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
97150552 AAATACTTTA
97150562 ATTATTATTTGAAGTT
1 ATTATTATTTGAAG-T
97150578 ATTATTATTATTGAAGT
1 ATTATTA-T-TTGAAGT
97150595 ATT-TTATTT
1 ATTATTATTT
97150604 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 1 0.04
16 10 0.42
17 5 0.21
18 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
ATTATTATTTGAAGT
Found at i:97150586 original size:19 final size:17
Alignment explanation
Indices: 97150562--97150602 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
97150552 AAATACTTTA
97150562 ATTATTATTTGAAGTTATT
1 ATTATTA-TTGAAG-TATT
97150581 ATTATTATTGAAGTATT
1 ATTATTATTGAAGTATT
97150598 -TTATT
1 ATTATT
97150603 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 4 0.18
18 6 0.27
19 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (17 bp):
ATTATTATTGAAGTATT
Found at i:97150717 original size:33 final size:32
Alignment explanation
Indices: 97150656--97150717 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
97150646 AATAATAATT
*
97150656 ATTACTTTAAATTAATTACAATAATTAAAAAA
1 ATTACTTTAAATTAATTACAACAATTAAAAAA
*
97150688 ATTATTTTAAAATCTAATTA-AACAATTAAA
1 ATTACTTT-AAAT-TAATTACAACAATTAAA
97150718 TGTGTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 7 0.27
33 13 0.50
34 6 0.23
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (32 bp):
ATTACTTTAAATTAATTACAACAATTAAAAAA
Found at i:97153101 original size:2 final size:2
Alignment explanation
Indices: 97153094--97153122 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97153084 GGAGGTAATT
97153094 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 T
97153123 TATTTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.