Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 308 of 356
Found at i:100163408 original size:18 final size:18
Alignment explanation
Indices: 100163387--100163451 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
100163377 TCGGTTATCT
*
100163387 AGTAATAGTCAATTATTC
1 AGTAAAAGTCAATTATTC
* * *
100163405 AGTAAAAATCAAATATAC
1 AGTAAAAGTCAATTATTC
* *
100163423 AGTAACAATTAAATTATTC
1 AGTAA-AAGTCAATTATTC
*
100163442 AGTAACAGTC
1 AGTAAAAGTC
100163452 GATCTTTCCA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (18 bp):
AGTAAAAGTCAATTATTC
Found at i:100163446 original size:19 final size:19
Alignment explanation
Indices: 100163397--100163448 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
100163387 AGTAATAGTC
*
100163397 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
100163416 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
100163434 AATTATTCAGTAACA
1 AATTATTCAGTAACA
100163449 GTCGATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:100164751 original size:20 final size:18
Alignment explanation
Indices: 100164715--100164755 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
100164705 AAACCTTTAA
100164715 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
100164733 TTTTCTCCTTTCGTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
100164753 TTT
1 TTT
100164756 CACTGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:100164990 original size:16 final size:15
Alignment explanation
Indices: 100164958--100164992 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
100164948 TTTTTATTAT
*
100164958 ATAATATATTATTTA
1 ATAATATATTATATA
100164973 ATAATATACTTATATA
1 ATAATATA-TTATATA
100164989 ATAA
1 ATAA
100164993 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATATA
Found at i:100167387 original size:30 final size:30
Alignment explanation
Indices: 100167330--100167387 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
100167320 TTTTCGAGCA
* **
100167330 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATGTTACCAAAGTC
100167360 TAGGGGCAAAATGGTCATGTTACCAAAG
1 TAGGGGCAAAATGGTCATGTTACCAAAG
100167388 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATGTTACCAAAGTC
Found at i:100167874 original size:47 final size:46
Alignment explanation
Indices: 100167771--100167941 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 46
100167761 ACATTATTAG
* * * *
100167771 AGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC-CAGATGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGA-GAT
* *
100167819 GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGAT
* * *
100167866 AGCCAGTGTAAGACGTGTCTGGGACACGCATCAG-CT-A-AGAG-T
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT
* *
100167908 TGTTCTAGTGTAAGACATGTCTGGGACATGCATC
1 AG--CCAGTGTAAGACATGTCTGGGACATGCATC
100167942 AACACGCGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 28 0.27
46 12 0.12
47 43 0.41
48 15 0.14
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT
Found at i:100167930 original size:44 final size:46
Alignment explanation
Indices: 100167731--100167942 Score: 150
Period size: 47 Copynumber: 4.6 Consensus size: 46
100167721 TGTGCGCCAA
* * * * * *
100167731 TGTAAGACATGTCTGGGACACGCTTCAG-C-CACATTATTAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCACA-GA-GATAGCTAG
* * * * **
100167777 TGTAAGACCATATCTAGGACATGGCATCGGCATC-CAGATGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCACAGA-GATAGCTAG
* *
100167825 TGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC-ACAGAGATAGCTAG
* * *
100167872 TGTAAGACGTGTCTGGGACACGCATCAG-CT-A-AGAG-TTGTTCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATAG--CTAG
100167916 TGTAAGACATGTCTGGGACATGCATCA
1 TGTAAGACATGTCTGGGACATGCATCA
100167943 ACACGCGTAT
Statistics
Matches: 135, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 29 0.21
46 19 0.14
47 54 0.40
48 24 0.18
49 2 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATAGCTAG
Found at i:100182486 original size:30 final size:28
Alignment explanation
Indices: 100182451--100182525 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 28
100182441 TTTATTATCC
100182451 ATTATATTATTTTTATTATTATATATTTT
1 ATTATATTATTTTT-TTATTATATATTTT
*
100182480 ACTTATAAATTA-TATTTTATTATATATTTT
1 A-TTAT--ATTATTTTTTTATTATATATTTT
100182510 ATATATATTATTTTTT
1 AT-TATATTATTTTTT
100182526 ATTTTCTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 4 0.10
29 6 0.15
30 22 0.56
31 3 0.08
32 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTATATTATTTTTTTATTATATATTTT
Found at i:100182514 original size:28 final size:29
Alignment explanation
Indices: 100182466--100182528 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
100182456 ATTATTTTTA
100182466 TTATTATATATTTTACTTATAAATTATATT
1 TTATTATATATTTTAC-TATAAATTATATT
* *
100182496 TTATTATATATTTTA-TATATATTATTTT
1 TTATTATATATTTTACTATAAATTATATT
100182524 TTATT
1 TTATT
100182529 TTCTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 16 0.52
30 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTATTATATATTTTACTATAAATTATATT
Found at i:100182516 original size:11 final size:12
Alignment explanation
Indices: 100182490--100182518 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
100182480 ACTTATAAAT
100182490 TATATTTTATTA
1 TATATTTTATTA
100182502 TATATTTTA-TA
1 TATATTTTATTA
100182513 TATATT
1 TATATT
100182519 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:100182520 original size:21 final size:21
Alignment explanation
Indices: 100182453--100182549 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
100182443 TATTATCCAT
*
100182453 TATATTATT-TTTATTATTATA
1 TATATTATTATATATT-TTATA
* *
100182474 TATTTTACTTATA-A-ATTATA
1 TATATTA-TTATATATTTTATA
100182494 T-T-TTATTATATATTTTATA
1 TATATTATTATATATTTTATA
* * *
100182513 TATATTATTTTTTATTTTCTA
1 TATATTATTATATATTTTATA
*
100182534 TAAATTATGTAT-TATT
1 TATATTAT-TATATATT
100182550 ATTCATTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.08
18 4 0.07
19 7 0.12
20 7 0.12
21 31 0.52
22 5 0.08
23 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (21 bp):
TATATTATTATATATTTTATA
Found at i:100182674 original size:17 final size:17
Alignment explanation
Indices: 100182652--100182701 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
100182642 TATTTTATTT
100182652 ATATTTTATTACATATC
1 ATATTTTATTACATATC
100182669 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
100182686 ATATTTTATTATATAT
1 ATATTTTATTACATAT
100182702 TATTCCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:100182701 original size:12 final size:12
Alignment explanation
Indices: 100182640--100182762 Score: 64
Period size: 12 Copynumber: 10.4 Consensus size: 12
100182630 TTTATTTCAT
100182640 TATATTTTATT-
1 TATATTTTATTA
100182651 TATATTTTATTA
1 TATATTTTATTA
* **
100182663 CATATCATATT-
1 TATATTTTATTA
**
100182674 T-TATTACA-TA
1 TATATTTTATTA
100182684 TCATATTTTATTA
1 T-ATATTTTATTA
*
100182697 TATATTATTCCTTA
1 TATATT-TT-ATTA
100182711 TAGTA-TTT-TT-
1 TA-TATTTTATTA
*
100182721 TCT-TTTTATTA
1 TATATTTTATTA
100182732 TATATTTTATTA
1 TATATTTTATTA
*
100182744 TATACATCTTATTA
1 TAT--ATTTTATTA
100182758 TATAT
1 TATAT
100182763 ATATTTTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
9 5 0.06
10 9 0.10
11 15 0.17
12 31 0.36
13 7 0.08
14 17 0.20
15 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:100182718 original size:44 final size:43
Alignment explanation
Indices: 100182622--100182719 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 43
100182612 TATTTATATG
* *
100182622 ATAGTATTTTTATTTCATTATATTTTATTTATATTTTATTACAT
1 ATAGTA-TTTTATTACATTATATTTTATTTATATATTATTACAT
* *
100182666 ATCA-TATTTTATTACATATCATATTTTA-TTATATATTATTCCTT
1 AT-AGTATTTTATTACAT-T-ATATTTTATTTATATATTATTACAT
100182710 ATAGTATTTT
1 ATAGTATTTT
100182720 TTCTTTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
43 11 0.24
44 26 0.57
45 9 0.20
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (43 bp):
ATAGTATTTTATTACATTATATTTTATTTATATATTATTACAT
Found at i:100182793 original size:21 final size:19
Alignment explanation
Indices: 100182753--100182806 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
100182743 ATATACATCT
**
100182753 TATTATATATATATTTTTTA
1 TATTAT-TATATATGGTTTA
100182773 TATTACTTATCATATGGTTTA
1 TATTA-TTAT-ATATGGTTTA
100182794 TATTATTATATAT
1 TATTATTATATAT
100182807 TTTGTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTATTATATATGGTTTA
Found at i:100182813 original size:21 final size:21
Alignment explanation
Indices: 100182753--100182814 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
100182743 ATATACATCT
100182753 TATTA-TATATATATTT-TTTA
1 TATTATTATATAT-TTTGTTTA
*
100182773 TATTACTTATCATA--TGGTTTA
1 TATTA-TTAT-ATATTTTGTTTA
100182794 TATTATTATATATTTTGTTTA
1 TATTATTATATATTTTGTTTA
100182815 CAAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 15 0.44
22 3 0.09
23 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (21 bp):
TATTATTATATATTTTGTTTA
Found at i:100194951 original size:45 final size:44
Alignment explanation
Indices: 100194867--100195169 Score: 274
Period size: 44 Copynumber: 6.8 Consensus size: 44
100194857 AATCTAAGAT
* *
100194867 GATTTGGCATCTCTGTATTGTCAGAGGGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
100194911 GATTTGGCGTCTCTGTATTTTTCAGAGACCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCGAAGATAGCA
* * * * *
100194956 GATTTGGCATTTCTGTATGGTCAGAGAGCAAATC-AGAGAAAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA-AGATAGCA
* * * * *
100195000 GATTTGGCATCT-TCGTATTTTAACGAGGAGAAAATCCAAGA-AGCA
1 GATTTGGCATCTCT-GTATTGTCA-GA-GAGCAGATCGAAGATAGCA
* *
100195045 GATTTGGCATCCCTGTATTGTCAG-GAGCAGATCGAGGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * *
100195088 GATTTGGCATCTCTGTATGGTTAGAGAGCAAATCAGAA-ATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATC-GAAGATAGCA
* * * * *
100195132 GATTTGACATCTTTGTGTTCGACGGAGAGCAGATCGAA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAA
100195170 ATATCAGCAT
Statistics
Matches: 208, Mismatches: 40, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
42 10 0.05
43 27 0.13
44 84 0.40
45 74 0.36
46 12 0.06
47 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:100194979 original size:89 final size:89
Alignment explanation
Indices: 100194867--100195105 Score: 281
Period size: 89 Copynumber: 2.7 Consensus size: 89
100194857 AATCTAAGAT
* *
100194867 GATTTGGCATCTCTGTATTGTCAGAGGGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTTT
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTTT
* * *
100194932 -TC-A-GAGACCAGATCGAAGATAGCA
66 AACGAGGAGA--AAATCCAAGA-AGCA
* * * * * *
100194956 GATTTGGCATTTCTGTATGGTCAGAGAGCAAATCAGAGAAAGTAGATTTGGCATCT-TCGTATTT
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCT-GTATTT
100195020 TAACGAGGAGAAAATCCAAGAAGCA
65 TAACGAGGAGAAAATCCAAGAAGCA
* * *
100195045 GATTTGGCATCCCTGTATTGTCAG-GAGCAGATCGAGGATAGCAGATTTGGCATCTCTGTAT
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
100195106 GGTTAGAGAG
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
88 30 0.24
89 81 0.65
90 9 0.07
91 1 0.01
92 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (89 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTTT
AACGAGGAGAAAATCCAAGAAGCA
Found at i:100195079 original size:132 final size:135
Alignment explanation
Indices: 100194902--100195144 Score: 377
Period size: 132 Copynumber: 1.8 Consensus size: 135
100194892 GGGCAGATCA
* * * *
100194902 AAGATAGCAGATTTGGCGTCTCTGTATTTTTCAGAGACCAGATCGAAGATAGCAGATTTGGCATT
1 AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
*
100194967 TCTGTATGGTCAGAGAGCAAATCAGAGAA-AGTAGATTTGGCATCTTCGTATTTTAACGAGGAGA
66 TCTGTATGGTCAGAGAGCAAATCAGA-AATAGTAGATTTGACATCTTCGTATTTTAACGAGGAGA
100195031 AAATCC
130 AAATCC
* *
100195037 AAGA-AGCAGATTTGGCATCCCTGTA-TTGTCAG-GAGCAGATCGAGGATAGCAGATTTGGCATC
1 AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
*
100195099 TCTGTATGGTTAGAGAGCAAATCAGAAATAGTAGATTTGACATCTT
66 TCTGTATGGTCAGAGAGCAAATCAGAAATAGTAGATTTGACATCTT
100195145 TGTGTTCGAC
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
131 2 0.02
132 68 0.69
133 6 0.06
134 19 0.19
135 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (135 bp):
AAGATAGCAGATTTGGCATCCCTGTATTTGTCAGAGACCAGATCGAAGATAGCAGATTTGGCATC
TCTGTATGGTCAGAGAGCAAATCAGAAATAGTAGATTTGACATCTTCGTATTTTAACGAGGAGAA
AATCC
Found at i:100196268 original size:39 final size:39
Alignment explanation
Indices: 100196214--100196291 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
100196204 CCTCAACTTA
100196214 GCATTCTTGCTAGGCAGGAAATACTTCATGAGGAATATT
1 GCATTCTTGCTAGGCAGGAAATACTTCATGAGGAATATT
100196253 GCATTCTTGCTAGGCAGGAAATACTTCATGAGGAATATT
1 GCATTCTTGCTAGGCAGGAAATACTTCATGAGGAATATT
100196292 TCTGCTAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (39 bp):
GCATTCTTGCTAGGCAGGAAATACTTCATGAGGAATATT
Found at i:100201642 original size:18 final size:18
Alignment explanation
Indices: 100201615--100201651 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
100201605 AACCGACCCG
100201615 ATACGCTCGAT-AATCTC
1 ATACGCTCGATGAATCTC
100201632 ATACAGCTCGATGAATCTC
1 ATAC-GCTCGATGAATCTC
100201651 A
1 A
100201652 GACTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (18 bp):
ATACGCTCGATGAATCTC
Found at i:100210199 original size:26 final size:26
Alignment explanation
Indices: 100210170--100210219 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
100210160 GGGTCAACCT
100210170 ACAAACACCAAACCGAACATATATGC
1 ACAAACACCAAACCGAACATATATGC
100210196 ACAAACACCAAACCGAACATATAT
1 ACAAACACCAAACCGAACATATAT
100210220 ACCAAACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.52, C:0.30, G:0.06, T:0.12
Consensus pattern (26 bp):
ACAAACACCAAACCGAACATATATGC
Found at i:100217623 original size:13 final size:13
Alignment explanation
Indices: 100217605--100217639 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
100217595 GCTCGGTAGG
*
100217605 GACACGCCCGTGT
1 GACACGCCCATGT
100217618 GACACGCCCATGT
1 GACACGCCCATGT
100217631 GACACGCCC
1 GACACGCCC
100217640 TTGTACGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:100230222 original size:13 final size:13
Alignment explanation
Indices: 100230204--100230228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100230194 GGTTGTTTAT
100230204 TAAACTAATTAAC
1 TAAACTAATTAAC
100230217 TAAACTAATTAA
1 TAAACTAATTAA
100230229 GTAATTAAAC
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:100231284 original size:11 final size:11
Alignment explanation
Indices: 100231268--100231304 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
100231258 GTTTTGTCCC
100231268 TTTTTGGCTCG
1 TTTTTGGCTCG
*
100231279 TTTTTGGCTAG
1 TTTTTGGCTCG
*
100231290 TTTTTGGCTCC
1 TTTTTGGCTCG
100231301 TTTT
1 TTTT
100231305 GACTCTTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.16, G:0.22, T:0.59
Consensus pattern (11 bp):
TTTTTGGCTCG
Found at i:100234806 original size:15 final size:15
Alignment explanation
Indices: 100234786--100234816 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100234776 ATATTTTGAA
100234786 TCAAAGGTAATCACT
1 TCAAAGGTAATCACT
100234801 TCAAAGGTAATCACT
1 TCAAAGGTAATCACT
100234816 T
1 T
100234817 AAATGAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (15 bp):
TCAAAGGTAATCACT
Found at i:100245559 original size:10 final size:10
Alignment explanation
Indices: 100245546--100245580 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
100245536 AATTTTCCCT
100245546 TTTCTTTTTC
1 TTTCTTTTTC
*
100245556 TTTCTTTTTT
1 TTTCTTTTTC
100245566 TTTCTTCTTTC
1 TTTCTT-TTTC
100245577 TTTC
1 TTTC
100245581 CCTGCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:100258280 original size:5 final size:5
Alignment explanation
Indices: 100258270--100258311 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
100258260 AGTTTGAATA
*
100258270 AAAAT AAAAT AAAAT AAAAT AAAAT AACAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
100258312 TAAATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:100266696 original size:46 final size:46
Alignment explanation
Indices: 100266643--100266733 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
100266633 TATATATACA
* * *
100266643 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
100266689 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
100266734 ATACACATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:100266776 original size:22 final size:22
Alignment explanation
Indices: 100266750--100266825 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
100266740 ATCCACGTTC
100266750 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
100266772 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
100266797 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
100266819 ATCACAT
1 ATCACAT
100266826 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:100266778 original size:47 final size:47
Alignment explanation
Indices: 100266747--100267144 Score: 602
Period size: 47 Copynumber: 8.5 Consensus size: 47
100266737 CACATCCACG
* *
100266747 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
100266794 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
100266841 TTCTTCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
100266888 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
100266935 GTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
100266982 TTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
100267029 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
100267076 TTCATCACATTTGCCATTCGGCCTTAGCTCACA-A-ATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTA--TCACATATATGCATGTTCACA
* *
100267123 TTCATCACATTTGCCATCCGGC
1 TTCATCACATTGGCCATTCGGC
100267145 ATTAGCTCAT
Statistics
Matches: 323, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 317 0.98
48 1 0.00
49 5 0.02
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:100266870 original size:22 final size:22
Alignment explanation
Indices: 100266845--100266919 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
100266835 TTCATATTCT
100266845 TCACATTGGCCATTCAGCCTTA
1 TCACATTGGCCATTCAGCCTTA
*
100266867 TCACACATAT-G-CATGTTCA-CATTCA
1 T--CACAT-TGGCCA--TTCAGCCTT-A
*
100266892 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCAGCCTTA
100266914 TCACAT
1 TCACAT
100266920 ATATACATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 12 0.29
23 11 0.27
24 11 0.27
25 7 0.17
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
TCACATTGGCCATTCAGCCTTA
Found at i:100267168 original size:141 final size:141
Alignment explanation
Indices: 100266713--100267179 Score: 623
Period size: 141 Copynumber: 3.3 Consensus size: 141
100266703 TTCGCATTAA
* ** * * * *
100266713 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGGCCATTCTGCCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
100266778 TGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
*
100266843 CTTCACATTGG
131 CATCACATTGG
* * **
100266854 CCATTCAGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
100266919 TATATACATGTTCACAGTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
100266984 CATCACATTGG
131 CATCACATTGG
** *
100266995 CCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGTCTTATCACA
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* * * *
100267060 CAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCTCACA-A-ATGCATGTTCACA
66 TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA--TCACATATATGCATGTTCATA
*
100267123 TTCATCACATTTG
129 TTCATCACATTGG
* * * * ** *
100267136 CCATCCGGCATTAGCTCATGTATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACACATATACACATTCACATTCATCACAT
100267180 AAAATTCTAA
Statistics
Matches: 289, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
141 283 0.98
142 1 0.00
143 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (141 bp):
CCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCACA
TATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATT
CATCACATTGG
Found at i:100275547 original size:6 final size:6
Alignment explanation
Indices: 100275538--100275576 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
100275528 CACCGTAAGG
* *
100275538 GTAATA GTAACA GTAACA GTAACA GTAATA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
100275577 GCGGTACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:100275553 original size:12 final size:12
Alignment explanation
Indices: 100275538--100275576 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
100275528 CACCGTAAGG
100275538 GTAATAGTAACA
1 GTAATAGTAACA
*
100275550 GTAACAGTAACA
1 GTAATAGTAACA
100275562 GTAATAGTAACA
1 GTAATAGTAACA
100275574 GTA
1 GTA
100275577 GCGGTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (12 bp):
GTAATAGTAACA
Found at i:100276569 original size:16 final size:17
Alignment explanation
Indices: 100276516--100276569 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
100276506 ATTAATATAT
* *
100276516 TATAATTATATAATTTA
1 TATAATTATTTACTTTA
* *
100276533 -AT-ATAATTTACTTTT
1 TATAATTATTTACTTTA
100276548 TATAATTATTTAC-TTA
1 TATAATTATTTACTTTA
100276564 TATAAT
1 TATAAT
100276570 AAGTAAATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTATTTACTTTA
Found at i:100278702 original size:4 final size:4
Alignment explanation
Indices: 100278693--100278720 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
100278683 ATAAGTTTAC
100278693 ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT
100278721 TTCCGTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:100291264 original size:49 final size:49
Alignment explanation
Indices: 100291207--100291306 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
100291197 AGAAGAAGAG
* *
100291207 AATTAAACATG-AAGTAATTCATATATAAAATAAAACGAAACGAAATGAC
1 AATTAAACATGAAAG-AATTCATATAAAAAATAAAACAAAACGAAATGAC
* *
100291256 AATTAAACATGAAAGAATTCATATAAAAAATAAGACAAAACGAATTGAC
1 AATTAAACATGAAAGAATTCATATAAAAAATAAAACAAAACGAAATGAC
100291305 AA
1 AA
100291307 GTAGTAGAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 43 0.93
50 3 0.07
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (49 bp):
AATTAAACATGAAAGAATTCATATAAAAAATAAAACAAAACGAAATGAC
Found at i:100293996 original size:21 final size:21
Alignment explanation
Indices: 100293972--100294020 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
100293962 AAATCTTTAG
100293972 TATTTATTGTATCATTT-TATT
1 TATTTATT-TATCATTTCTATT
*
100293993 TATTTAATTATCATTTCTATT
1 TATTTATTTATCATTTCTATT
*
100294014 TAATTAT
1 TATTTAT
100294021 GTTGTCAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTATTTATCATTTCTATT
Found at i:100294687 original size:7 final size:7
Alignment explanation
Indices: 100294666--100294710 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
100294656 TATTCAGTTC
100294666 ACTCTCA
1 ACTCTCA
100294673 ACAT-TCA
1 AC-TCTCA
100294680 ACTCTCA
1 ACTCTCA
*
100294687 AGTCTCA
1 ACTCTCA
100294694 ACTCTCA
1 ACTCTCA
100294701 ACTCTCA
1 ACTCTCA
100294708 ACT
1 ACT
100294711 TATTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 1 0.03
7 32 0.94
8 1 0.03
ACGTcount: A:0.31, C:0.38, G:0.02, T:0.29
Consensus pattern (7 bp):
ACTCTCA
Found at i:100295362 original size:16 final size:17
Alignment explanation
Indices: 100295341--100295386 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
100295331 GGTATTTACT
100295341 TATATTTTA-AGT-ATAA
1 TATATTTTATA-TAATAA
100295357 TATATTTTATATAATAA
1 TATATTTTATATAATAA
100295374 TATATTATTATAT
1 TATATT-TTATAT
100295387 TAATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.37
17 11 0.41
18 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TATATTTTATATAATAA
Found at i:100295399 original size:16 final size:16
Alignment explanation
Indices: 100295353--100295395 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
100295343 TATTTTAAGT
*
100295353 ATAATATATTTTATATA
1 ATAATATATTAT-TATA
100295370 ATAATATATTATTATA
1 ATAATATATTATTATA
*
100295386 TTAAT-TATTA
1 ATAATATATTA
100295396 ATTAACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 8 0.33
17 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATTATTATA
Found at i:100298134 original size:25 final size:23
Alignment explanation
Indices: 100298092--100298144 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
100298082 AAATTTATTT
*
100298092 TTATTATTAATTCTATTATTACTA
1 TTATTATTAATTCCATTATT-CTA
100298116 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
100298140 TTATT
1 TTATT
100298145 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:100298184 original size:21 final size:22
Alignment explanation
Indices: 100298153--100298193 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
100298143 TTTCTTATAT
100298153 TTTATCATCATTGTTGTTACTA
1 TTTATCATCATTGTTGTTACTA
*
100298175 TTTAT-ATCATTGTTTTTAC
1 TTTATCATCATTGTTGTTAC
100298194 ATTATAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTATCATCATTGTTGTTACTA
Found at i:100300630 original size:46 final size:46
Alignment explanation
Indices: 100300514--100300632 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
100300504 CCATAGTGTG
* * *
100300514 TTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCA-TTTCATGTCACGCTGCCATGGTATC
*
100300560 TTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTCATGTCACGCTGCCATGGTATC
*
100300606 TTTCAACCATGGTCTTACACATTTCAT
1 TTTCAACCATGGTCTTACTCATTTCAT
100300633 ATCAGAGAGC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.06
46 62 0.94
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTCATGTCACGCTGCCATGGTATC
Found at i:100317020 original size:42 final size:42
Alignment explanation
Indices: 100316932--100317078 Score: 124
Period size: 42 Copynumber: 3.5 Consensus size: 42
100316922 ATAAGAATAT
* * * *
100316932 GTGTAAGACCATATCTGGGATATGGCATACG-TATGATATTAT
1 GTGTAAGACCATGTCTGGGACATGGCAT-CGATATGAAATTAC
100316974 GTGTAAGACCATGTCTGGGACATGGCATCGATACT-AAACTT-C
1 GTGTAAGACCATGTCTGGGACATGGCATCGATA-TGAAA-TTAC
*
100317016 GTGTAAGACCATAG-CTGGG-CTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCAT-GTCTGGGAC-A-TGGCATCGATATGAAATTAC
* * * *
100317059 ATGTAAAACTATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
100317079 TATGACATTG
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
41 3 0.03
42 51 0.59
43 32 0.37
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATGAAATTAC
Found at i:100319384 original size:47 final size:47
Alignment explanation
Indices: 100319325--100319454 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
100319315 CTCTATCGAT
* *
100319325 AGTACCTATACCATGGCCTATAACCAAATCAAGGTAACT-TATCCTGG
1 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCT-TCCTCG
* *
100319372 AGTATCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCTTCG
1 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCCTCG
*
100319419 AATACCTATACCATGG-CTCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCT-ATAGCCAAATCAAGGTA
100319455 TCATTCGCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 2 0.03
47 72 0.96
48 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (47 bp):
AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCTTCCTCG
Found at i:100324942 original size:11 final size:11
Alignment explanation
Indices: 100324926--100324950 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100324916 ATGCTATGGG
100324926 TGGGAACATGT
1 TGGGAACATGT
100324937 TGGGAACATGT
1 TGGGAACATGT
100324948 TGG
1 TGG
100324951 CCTAGTGAGG
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:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (11 bp):
TGGGAACATGT
Found at i:100326327 original size:39 final size:40
Alignment explanation
Indices: 100326232--100326454 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
100326222 TTGAATGATG
*
100326232 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
100326270 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
100326311 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
100326350 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
100326389 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
100326428 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
100326455 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:100326418 original size:79 final size:81
Alignment explanation
Indices: 100326232--100326454 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
100326222 TTGAATGATG
* * *
100326232 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
100326294 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
100326311 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
100326372 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
100326389 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
100326453 TG
66 TG
100326455 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:100326476 original size:79 final size:79
Alignment explanation
Indices: 100326232--100326487 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
100326222 TTGAATGATG
* * * *
100326232 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
100326293 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
100326311 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
100326375 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
100326389 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
100326452 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
100326469 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
100326488 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:100337572 original size:47 final size:47
Alignment explanation
Indices: 100337503--100337790 Score: 429
Period size: 47 Copynumber: 6.2 Consensus size: 47
100337493 ATGATAGTAT
100337503 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
100337550 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
* *
100337597 ATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAAC
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
* * * *
100337644 ATGTATATGTGTGACAAGGCTGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
* *
100337691 ATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGAT-AAATGTGAGC
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA-GTGAAC
* * * * *
100337738 ATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGAAGAATGTGAA-
1 ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
100337784 A-GTGTAT
1 ATGTGTAT
100337791 AAATGTGATA
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 6 0.03
46 3 0.01
47 209 0.95
48 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAAC
Found at i:100337653 original size:23 final size:23
Alignment explanation
Indices: 100337580--100337654 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
100337570 CGAATGGCCA
100337580 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
100337603 ATGTG-TGATAAAGCCG-A-ATGGCCA-
1 ATGTGATG--AAAG-TGAACAT-G-TAT
100337627 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
100337650 ATGTG
1 ATGTG
100337655 TGACAAGGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:100337977 original size:37 final size:37
Alignment explanation
Indices: 100337921--100338000 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
100337911 CCGGGCTCTA
* * *
100337921 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
* *
100337958 AAGACTCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
100337995 AAGACT
1 AAGACT
100338001 TCGTAATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:100343771 original size:42 final size:42
Alignment explanation
Indices: 100343724--100343875 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
100343714 ATGAGAATAC
* * *
100343724 GTGTAAGACCATATCTGGGATATGGCATCGGTATGATATCAT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAT
* * *
100343766 GTGTAAGCCCATGTCTGGGACT-TGGCATCGATATGAAATTTT
1 GTGTAAGACCATATCTGGGA-TATGGCATCGATATGAAATTAT
* * * *
100343808 GTGTAAGACCATAACTGGGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAAATTAT
* *
100343851 ATGTAAGACCATATCCGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
100343876 AATTGTAAGA
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 53 0.59
43 36 0.40
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAAATTAT
Found at i:100356923 original size:55 final size:55
Alignment explanation
Indices: 100356831--100356935 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
100356821 TAGCACTAGC
** * *
100356831 GTGCAACACGCCCGTGCCTTGAACCCGTGGCTGAACCTGTCAAATTAACACGGGG
1 GTGCAACACGCCCGTGCCAAGAACCCGTGGCTAAACCTATCAAATTAACACGGGG
* * *
100356886 GTGCGACACGCCCGTGCCAAGTACCCGTGG-TCAAACCTATTAAATTAACA
1 GTGCAACACGCCCGTGCCAAGAACCCGTGGCT-AAACCTATCAAATTAACA
100356936 TAAGCGTGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 1 0.02
55 41 0.98
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (55 bp):
GTGCAACACGCCCGTGCCAAGAACCCGTGGCTAAACCTATCAAATTAACACGGGG
Found at i:100357479 original size:23 final size:23
Alignment explanation
Indices: 100357453--100357498 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100357443 CATTCTCTTG
*
100357453 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
100357476 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
100357499 CAATGTCACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:100370854 original size:27 final size:27
Alignment explanation
Indices: 100370824--100370875 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
100370814 CCTAATTTGA
**
100370824 TAAAATGACTGTTATACCCCTATGAGG
1 TAAAATGACTGACATACCCCTATGAGG
*
100370851 TAAAATGACTGACATGCCCCTATGA
1 TAAAATGACTGACATACCCCTATGA
100370876 TATATATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATGACTGACATACCCCTATGAGG
Found at i:100371190 original size:34 final size:34
Alignment explanation
Indices: 100371146--100371212 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
100371136 ATGTTACTAT
100371146 TATTGAAATGGGCTAAGG-CCTACACTGATACTGA
1 TATTGAAATGGGCTAAGGCCCTA-ACTGATACTGA
*
100371180 TATTGTAATGGGCTAAGGCCCTAACTGATACTG
1 TATTGAAATGGGCTAAGGCCCTAACTGATACTG
100371213 GATTGTTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (34 bp):
TATTGAAATGGGCTAAGGCCCTAACTGATACTGA
Found at i:100375455 original size:15 final size:15
Alignment explanation
Indices: 100375435--100375467 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100375425 TGTTTTCATT
*
100375435 TTATTATCTTTATTA
1 TTATTATCATTATTA
100375450 TTATTATCATTATTA
1 TTATTATCATTATTA
100375465 TTA
1 TTA
100375468 AAGTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:100384850 original size:16 final size:16
Alignment explanation
Indices: 100384831--100384861 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100384821 TTATTATTAA
100384831 TATAATTATTCTTTTT
1 TATAATTATTCTTTTT
100384847 TATAATTATTCTTTT
1 TATAATTATTCTTTT
100384862 ATTTGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TATAATTATTCTTTTT
Found at i:100388171 original size:28 final size:25
Alignment explanation
Indices: 100388121--100388183 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
100388111 ACACACATTA
100388121 AAATATAAAAAATAAAAATATATAT
1 AAATATAAAAAATAAAAATATATAT
* *
100388146 ATATATAAAAATTCAGAAAATTATATAT
1 AAATATAAAAAAT-A-AAAA-TATATAT
*
100388174 AAAAATAAAA
1 AAATATAAAA
100388184 TTTACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 4 0.13
28 15 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAATATAAAAAATAAAAATATATAT
Found at i:100388193 original size:28 final size:26
Alignment explanation
Indices: 100388119--100388193 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 26
100388109 ATACACACAT
*
100388119 TAAAATATAAAAAAT-AAAAATATATA
1 TAAAA-ATAAAAATTCAAAAATATATA
* *
100388145 TATATATAAAAATTCAGAAAATTATATA
1 TAAAAATAAAAATTCA-AAAA-TATATA
*
100388173 TAAAAATAAAATTTACAAAAA
1 TAAAAATAAAAATT-CAAAAA
100388194 ATACGATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 8 0.21
26 4 0.10
27 4 0.10
28 21 0.54
29 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (26 bp):
TAAAAATAAAAATTCAAAAATATATA
Found at i:100388261 original size:8 final size:8
Alignment explanation
Indices: 100388240--100388273 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
100388230 ATTATTACAA
100388240 AAAAATAT
1 AAAAATAT
100388248 AAAAAATTAT
1 -AAAAA-TAT
100388258 AAAAATAT
1 AAAAATAT
100388266 AAAAATAT
1 AAAAATAT
100388274 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 10 0.42
10 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:100388315 original size:23 final size:23
Alignment explanation
Indices: 100388254--100388323 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
100388244 ATATAAAAAA
*
100388254 TTATAAAAATATAAAAATATTTTT
1 TTAT-AAAATTTAAAAATATTTTT
* *
100388278 TTAAAAAAGTTTAAAGAT-TTTTT
1 TTATAAAA-TTTAAAAATATTTTT
100388301 TTATAAAATTCTAAAAAGTATTT
1 TTATAAAATT-TAAAAA-TATTT
100388324 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 21 0.57
24 11 0.30
25 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (23 bp):
TTATAAAATTTAAAAATATTTTT
Found at i:100388647 original size:15 final size:14
Alignment explanation
Indices: 100388626--100388678 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
100388616 CCAATAATTT
100388626 TTTTAATATTTAAA
1 TTTTAATATTTAAA
*
100388640 TATTTAATATTTTAA
1 T-TTTAATATTTAAA
*
100388655 TTTT-ATATTTTAA
1 TTTTAATATTTAAA
100388668 -TTTAA-ATTTAA
1 TTTTAATATTTAA
100388679 TAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.23
13 10 0.29
14 4 0.11
15 13 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATATTTAAA
Found at i:100388648 original size:7 final size:7
Alignment explanation
Indices: 100388627--100388680 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 7
100388617 CAATAATTTT
100388627 TTTAATA
1 TTTAATA
100388634 TTTAAATA
1 TTT-AATA
100388642 TTTAATA
1 TTTAATA
100388649 TTTTAAT-
1 -TTTAATA
100388656 TTT-ATA
1 TTTAATA
*
100388662 TTTTA-A
1 TTTAATA
100388668 TTTAA-A
1 TTTAATA
100388674 TTTAATA
1 TTTAATA
100388681 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
5 2 0.05
6 17 0.41
7 9 0.22
8 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAATA
Found at i:100388662 original size:13 final size:14
Alignment explanation
Indices: 100388626--100388670 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 14
100388616 CCAATAATTT
*
100388626 TTTTAATATTTAAA
1 TTTTAATATTTTAA
100388640 TATTTAATATTTTAA
1 T-TTTAATATTTTAA
100388655 TTTT-ATATTTTAA
1 TTTTAATATTTTAA
100388668 TTT
1 TTT
100388671 AAATTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.41
14 4 0.14
15 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATATTTTAA
Found at i:100388675 original size:19 final size:19
Alignment explanation
Indices: 100388618--100388693 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
100388608 GGTCAAAGCC
100388618 AATAATTTT-TTTAATATTT
1 AATAATTTTATTTAA-ATTT
*
100388637 AA-ATATTTAATATTTTAATTT
1 AATA-ATTT--TATTTAAATTT
*
100388658 TAT-ATTTTAATTTAAATTT
1 AATAATTTT-ATTTAAATTT
100388677 AATAATTTTATTTAAAT
1 AATAATTTTATTTAAAT
100388694 AAATCTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.04
19 25 0.54
20 9 0.20
21 6 0.13
22 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATAATTTTATTTAAATTT
Found at i:100394463 original size:32 final size:32
Alignment explanation
Indices: 100394427--100394490 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
100394417 AACTTCTTCA
*
100394427 ACACCCAAGCCTAGCCGAACCATTTTCATACT
1 ACACCCAAGCCTAGCAGAACCATTTTCATACT
100394459 ACACCCAAGCCTAGCAGAACCATTTTCATACT
1 ACACCCAAGCCTAGCAGAACCATTTTCATACT
100394491 CATAACAGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (32 bp):
ACACCCAAGCCTAGCAGAACCATTTTCATACT
Found at i:100407923 original size:35 final size:35
Alignment explanation
Indices: 100407877--100408180 Score: 292
Period size: 35 Copynumber: 8.7 Consensus size: 35
100407867 TTTCCTCATT
* *
100407877 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* * **
100407912 GAAATGCCATACCTATGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* * *
100407946 GATAATACCATGCCTACTTTTCACAACTCGGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * * *
100407982 TTAATACCATACGTACGTTTCACAAATCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
**
100408017 TTAATACCATACCTACGTTTCACAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
100408051 GATGATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * **
100408087 TTAATACCATACCTAAGTTTTGCAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* * *
100408121 GATAATATCATACCTACGTTTCACAACTTATTAT-G
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
* * *
100408156 GATGATACCATACCTCCATTTCACA
1 GA-AATACCATACCTACGTTTCACA
100408181 CTTTGCCATG
Statistics
Matches: 221, Mismatches: 43, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
34 5 0.02
35 214 0.97
36 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:100407992 original size:70 final size:70
Alignment explanation
Indices: 100407879--100408180 Score: 365
Period size: 70 Copynumber: 4.3 Consensus size: 70
100407869 TCCTCATTGA
* * * **
100407879 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACGTTTCACAACTCAGT
100407943 ATGGAT
65 ATGGAT
* * * * * * *
100407949 AATACCATGCCTACTTTTCACAACTCGGTATGGTTAATACCATACGTACGTTTCACAAATCGGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
100408014 TGGTT
66 TGGAT
* *
100408019 AATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
100408084 TGGTT
66 TGGAT
** * * *
100408089 AATACCATACCTA-AGTTTTGCAACTCAGTATGGATAATATCATACCTACGTTTCACAACTTATT
1 AATACCATACCTACA-TTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGT
100408153 ATGGAT
65 ATGGAT
* *
100408159 GATACCATACCTCCATTTCACA
1 AATACCATACCTACATTTCACA
100408181 CTTTGCCATG
Statistics
Matches: 198, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
69 2 0.01
70 195 0.98
71 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:100408061 original size:105 final size:105
Alignment explanation
Indices: 100407879--100408180 Score: 399
Period size: 105 Copynumber: 2.9 Consensus size: 105
100407869 TCCTCATTGA
* * * **
100407879 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTAT-GGATAATACCATACCTACGTTTCACAACTCAGT
* * * *
100407943 ATGGATAATACCATGCCTACTTTTCACAACTCGGTATGGTT
65 ATGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
* * *
100407984 AATACCATACGTACGTTTCACAAATCGGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
100408049 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
66 TGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
* ** * * * *
100408089 AATACCATACCTAAGTTTTGCAACTCAGTATGGATAATATCATACCTACGTTTCACAACTTATTA
1 AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
*
100408154 TGGATGATACCATACCTCCATTTCACA
66 TGGATGATACCATACCTACATTTCACA
100408181 CTTTGCCATG
Statistics
Matches: 172, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
104 2 0.01
105 170 0.99
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (105 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACAACTCAGTA
TGGATGATACCATACCTACATTTCACAACTCAGTATGGTT
Found at i:100409585 original size:13 final size:13
Alignment explanation
Indices: 100409567--100409597 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
100409557 TTAAACTTAC
100409567 ATGAAGCTAGAGT
1 ATGAAGCTAGAGT
100409580 ATGAAGCTAGAGT
1 ATGAAGCTAGAGT
100409593 ATGAA
1 ATGAA
100409598 AACCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (13 bp):
ATGAAGCTAGAGT
Found at i:100437702 original size:35 final size:35
Alignment explanation
Indices: 100437662--100437763 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
100437652 AAGTATGTAG
* *
100437662 ATGTGAGGTCATATTGAGTTTGTATATTCGGCTAC
1 ATGTGAGGTTATATTGAATTTGTATATTCGGCTAC
* * * * ** *
100437697 TTGTGAAGTTATATTAAACTTGTATATTCGATTTC
1 ATGTGAGGTTATATTGAATTTGTATATTCGGCTAC
*
100437732 ATATGAGGTTATATTGAATTTGTATATTCGGC
1 ATGTGAGGTTATATTGAATTTGTATATTCGGC
100437764 CATATGAGAT
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAATTTGTATATTCGGCTAC
Found at i:100437890 original size:50 final size:52
Alignment explanation
Indices: 100437836--100437941 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 52
100437826 TATTCAGCCA
* * *
100437836 TATGAGATAATATAATGAACCTTGTGTA-TTT-GGTTATATAGGTAAGTTTT
1 TATGAGATAATATAATGAACCTTATATATTTTCGGTTATATAGGTAAGTATT
* * * *
100437886 TATGAGATGATATATTGGATCTTATATATTTTCGGTTATATAGGTAAGTATT
1 TATGAGATAATATAATGAACCTTATATATTTTCGGTTATATAGGTAAGTATT
100437938 TATG
1 TATG
100437942 TGGTGTTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 22 0.47
51 3 0.06
52 22 0.47
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (52 bp):
TATGAGATAATATAATGAACCTTATATATTTTCGGTTATATAGGTAAGTATT
Found at i:100438815 original size:38 final size:38
Alignment explanation
Indices: 100438764--100438840 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
100438754 TATATACATG
100438764 TACATGTAGTGTATTCGATTGAAGCTTGACATAATGGT
1 TACATGTAGTGTATTCGATTGAAGCTTGACATAATGGT
*
100438802 TACATGTTGTGTATTCGATTGAAGCTTGACATAATGGT
1 TACATGTAGTGTATTCGATTGAAGCTTGACATAATGGT
100438840 T
1 T
100438841 TGGTTTATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.39
Consensus pattern (38 bp):
TACATGTAGTGTATTCGATTGAAGCTTGACATAATGGT
Found at i:100442714 original size:17 final size:17
Alignment explanation
Indices: 100442676--100442712 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
100442666 TGTCCATAAC
100442676 CAAATTTCACAAATGTT
1 CAAATTTCACAAATGTT
100442693 CAAATTTC-CGAAA-GTT
1 CAAATTTCAC-AAATGTT
100442709 CAAA
1 CAAA
100442713 ATCTTGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (17 bp):
CAAATTTCACAAATGTT
Found at i:100450481 original size:20 final size:20
Alignment explanation
Indices: 100450456--100450495 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100450446 GATGGTGAAG
100450456 TAAGCATATTAGAGGCTAGA
1 TAAGCATATTAGAGGCTAGA
100450476 TAAGCATATTAGAGGCTAGA
1 TAAGCATATTAGAGGCTAGA
100450496 CCTAACATTT
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:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGCATATTAGAGGCTAGA
Found at i:100451683 original size:20 final size:20
Alignment explanation
Indices: 100451633--100451687 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
100451623 TTTATTATTT
100451633 ATTATTATTCTATTAAATCATA
1 ATTATTA-T-TATTAAATCATA
* *
100451655 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATCATA
100451675 ATTATTATTATTA
1 ATTATTATTATTA
100451688 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 21 0.72
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATTATTATTAAATCATA
Found at i:100451981 original size:13 final size:14
Alignment explanation
Indices: 100451963--100452000 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
100451953 TTATAAAGTT
100451963 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
100451976 AATAAAAGAAATGA
1 AATAAAATAAAAGA
100451990 AATAAAATAAA
1 AATAAAATAAA
100452001 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:100452064 original size:16 final size:15
Alignment explanation
Indices: 100452038--100452068 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
100452028 AATAGAACAG
100452038 GAAAGAAAAAGGAAA
1 GAAAGAAAAAGGAAA
100452053 GAAAGAAGAAAGGAAA
1 GAAAGAA-AAAGGAAA
100452069 AATTTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAGGAAA
Found at i:100452107 original size:13 final size:13
Alignment explanation
Indices: 100452089--100452123 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
100452079 TTAAAGCTTG
100452089 AAGTTTAATTGGT
1 AAGTTTAATTGGT
100452102 AAGTTTAATTGGT
1 AAGTTTAATTGGT
100452115 AAGTTTAAT
1 AAGTTTAAT
100452124 CAAGTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (13 bp):
AAGTTTAATTGGT
Found at i:100453151 original size:45 final size:45
Alignment explanation
Indices: 100453073--100453183 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
100453063 CGACTATTGT
*
100453073 TACTGTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
* * *
100453118 TACTATTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAA
100453163 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
100453184 TGCTACTGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
Found at i:100459284 original size:38 final size:37
Alignment explanation
Indices: 100459240--100459350 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
100459230 TAATTATGTA
100459240 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
100459277 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
100459314 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
100459351 ATTAAAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:100459333 original size:20 final size:20
Alignment explanation
Indices: 100459300--100459356 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
100459290 TTTATTATTT
100459300 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
100459322 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
100459342 ATTATTATTATTAAA
1 ATTATTATTATTAAA
100459357 AATAAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 24 0.75
21 3 0.09
22 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:100459339 original size:25 final size:26
Alignment explanation
Indices: 100459291--100459339 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
100459281 ATATAGATAT
* **
100459291 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
100459317 TTATAATTTA-TATTATTAAATTA
1 TTATAATTTATTATTATTAAATTA
100459340 TGATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:100459607 original size:3 final size:3
Alignment explanation
Indices: 100459599--100459623 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100459589 AATAAGATAT
100459599 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
100459624 AAAGTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100459648 original size:13 final size:14
Alignment explanation
Indices: 100459630--100459667 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
100459620 TTATAAAGTT
100459630 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
100459643 AATAAAAGAAATGA
1 AATAAAATAAAAGA
100459657 AATAAAATAAA
1 AATAAAATAAA
100459668 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:100459731 original size:16 final size:15
Alignment explanation
Indices: 100459705--100459735 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
100459695 AATAGAACAG
100459705 GAAAGAAAAAGGAAA
1 GAAAGAAAAAGGAAA
100459720 GAAAGAAGAAAGGAAA
1 GAAAGAA-AAAGGAAA
100459736 AATTTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAGGAAA
Found at i:100460777 original size:45 final size:45
Alignment explanation
Indices: 100460727--100460837 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
100460717 TGACTATTGT
* *
100460727 TACTGTTACTGTTACTGTTACCGATTC-GATACTTTATGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTATGTGTCGAA
* * * *
100460772 TACTGTTACCGTTACAGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAA
100460817 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
100460838 TGCTACCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAA
Found at i:100461553 original size:13 final size:13
Alignment explanation
Indices: 100461532--100461564 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
100461522 GTCGAAAATT
100461532 ATAAAAAAATAAA
1 ATAAAAAAATAAA
*
100461545 ATAATAAAATAAA
1 ATAAAAAAATAAA
100461558 ATAAAAA
1 ATAAAAA
100461565 TTTGGAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:100461986 original size:24 final size:25
Alignment explanation
Indices: 100461954--100462005 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
100461944 ACTATTATTA
100461954 TTGTAT-AAAAATAAATTTTAAAAC
1 TTGTATAAAAAATAAATTTTAAAAC
* *
100461978 TTGTTTAAAAAAATAACTTTTAAAAC
1 TTGTAT-AAAAAATAAATTTTAAAAC
100462004 TT
1 TT
100462006 AAATCGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
26 19 0.79
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (25 bp):
TTGTATAAAAAATAAATTTTAAAAC
Found at i:100462783 original size:16 final size:15
Alignment explanation
Indices: 100462757--100462790 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
100462747 TAATTTGTGA
100462757 TAATATTTTAATATT
1 TAATATTTTAATATT
*
100462772 TAATATTTTTAATTTT
1 TAATA-TTTTAATATT
100462788 TAA
1 TAA
100462791 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTTAATATT
Found at i:100464066 original size:14 final size:15
Alignment explanation
Indices: 100464049--100464082 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
100464039 AAACAGAGAG
100464049 GAAAAAG-AAGGAAA
1 GAAAAAGAAAGGAAA
*
100464063 GAAAAAGAAAGGAAG
1 GAAAAAGAAAGGAAA
100464078 GAAAA
1 GAAAA
100464083 TTAGGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:100465462 original size:46 final size:45
Alignment explanation
Indices: 100465395--100465512 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 45
100465385 GTGAGCCAAC
* * *
100465395 GTAAGACATGTTTGGGACATGCATCAGCCA-TATCATGAGTGCCAGT
1 GTAAGACATGTCTGGGACATGCATC-GCCATTA-CACGAGAGCCAGT
* *
100465441 GTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGCCATT-ACACGAGAGCCAGT
*
100465487 GTAAGACATGTCTGAGACATGCATCG
1 GTAAGACATGTCTGGGACATGCATCG
100465513 GCCTCGGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
45 3 0.05
46 60 0.94
47 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGCCATTACACGAGAGCCAGT
Found at i:100465632 original size:49 final size:49
Alignment explanation
Indices: 100465575--100465754 Score: 157
Period size: 49 Copynumber: 3.7 Consensus size: 49
100465565 TGTTGTGTAT
* *
100465575 CAGTGTAAGACCTGTCTAGGACATGACATCAACACTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCAACACTGATAGATGAAAGC
* * * ** * *
100465624 CAGTGTAAGACCTGTCTGGGACATGGCATTAGCTTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGACATCAACACTGATAGATGAAAGC
* * * * ** * **
100465673 CAGTGTAAAACCTGTCTGGGACACGGCATCGACTTTAAT-G-TGTTAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCAACACTGATAGATGAAAGC
* *
100465720 CAGTGTAAGACCATGTCTGGGACATGGCGTCAACA
1 CAGTGTAAGACC-TGTCTGGGACATGACATCAACA
100465755 TTTTATCCCA
Statistics
Matches: 106, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
47 15 0.14
48 18 0.17
49 73 0.69
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCAACACTGATAGATGAAAGC
Found at i:100465658 original size:93 final size:96
Alignment explanation
Indices: 100465532--100465747 Score: 235
Period size: 98 Copynumber: 2.3 Consensus size: 96
100465522 TATACAAGCT
** * * *
100465532 AGTGTAAGACCTGTCTGGGACATGGTGTCAGC-TTG-T-TGTG-TA-TCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTTGATATATGAAAGTCAGTGTAAAACCTGTCT
* *
100465592 AGGACATGACATCAACACTGATAGATGAGAGCC
66 AGGACACGACATCAACACTAAT-G-TGAGAGCC
*
100465625 AGTGTAAGACCTGTCTGGGACATGGCATTAGCTTTGATATATGAAAGTCAGTGTAAAACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTTGATATATGAAAGTCAGTGTAAAACCTGTCT
* * * ** **
100465690 GGGACACGGCATCGACTTTAATGTGTTAGCC
66 AGGACACGACATCAACACTAATGTGAGAGCC
100465721 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
100465748 GTCAACATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
93 29 0.28
94 3 0.03
95 1 0.01
96 20 0.20
97 17 0.17
98 32 0.31
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTTGATATATGAAAGTCAGTGTAAAACCTGTCT
AGGACACGACATCAACACTAATGTGAGAGCC
Found at i:100475298 original size:49 final size:49
Alignment explanation
Indices: 100475242--100475342 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
100475232 AAAATGAGAA
100475242 TGAATTAAAACCCTGCAACTTCAATTCAATTAAACTTAATGTGAAGGCT
1 TGAATTAAAACCCTGCAACTTCAATTCAATTAAACTTAATGTGAAGGCT
100475291 TGAATTAAAACCCTGCAACTTCAATTCAATTAAACTTAATGTGAAGGCT
1 TGAATTAAAACCCTGCAACTTCAATTCAATTAAACTTAATGTGAAGGCT
100475340 TGA
1 TGA
100475343 TAATTTGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (49 bp):
TGAATTAAAACCCTGCAACTTCAATTCAATTAAACTTAATGTGAAGGCT
Found at i:100477555 original size:33 final size:33
Alignment explanation
Indices: 100477517--100477615 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
100477507 GACTGAGTGG
*
100477517 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
100477550 GAGTGTTTTGCTGCTGGACAGAAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
100477583 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
100477616 CAAGAAGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.18, C:0.10, G:0.40, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:100484625 original size:154 final size:154
Alignment explanation
Indices: 100484345--100484650 Score: 603
Period size: 154 Copynumber: 2.0 Consensus size: 154
100484335 TTGAACAGAT
100484345 TAGTATATATGTTTATATCATAGAAATTAAAGAGATTATCCATTGGAGATTTAAAACTATACAAA
1 TAGTATATATGTTTATATCATAGAAATTAAAGAGATTATCCATTGGAGATTTAAAACTATACAAA
100484410 GGTAGGGGATTACCATATAAAACATAAAAGAATCGAAAAACTAGTATGTATATGTTCTAGTAAAA
66 GGTAGGGGATTACCATATAAAACATAAAAGAATCGAAAAACTAGTATGTATATGTTCTAGTAAAA
100484475 GCTACGAATTTGGAGATGAAAAAC
131 GCTACGAATTTGGAGATGAAAAAC
100484499 TAGTATATATGTTTATATCATAGAAATTAAAGAGATTATCCATTGGAGATTTAAAACTATACAAA
1 TAGTATATATGTTTATATCATAGAAATTAAAGAGATTATCCATTGGAGATTTAAAACTATACAAA
100484564 GGTAGGGGATTACCATATAAAACATAAAAGAATCGAAAAACTAGTATGTATATGTTCTAGTAAAA
66 GGTAGGGGATTACCATATAAAACATAAAAGAATCGAAAAACTAGTATGTATATGTTCTAGTAAAA
*
100484629 GCTACGAATTTGGAGGTGAAAA
131 GCTACGAATTTGGAGATGAAAA
100484651 TAAAAGTTAA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.29
Consensus pattern (154 bp):
TAGTATATATGTTTATATCATAGAAATTAAAGAGATTATCCATTGGAGATTTAAAACTATACAAA
GGTAGGGGATTACCATATAAAACATAAAAGAATCGAAAAACTAGTATGTATATGTTCTAGTAAAA
GCTACGAATTTGGAGATGAAAAAC
Found at i:100484677 original size:14 final size:14
Alignment explanation
Indices: 100484660--100484692 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
100484650 ATAAAAGTTA
100484660 ACAAATATAGGGGG
1 ACAAATATAGGGGG
100484674 ACAAATATAGGGGG
1 ACAAATATAGGGGG
100484688 ACAAA
1 ACAAA
100484693 GAATATGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.30, T:0.12
Consensus pattern (14 bp):
ACAAATATAGGGGG
Found at i:100487151 original size:27 final size:27
Alignment explanation
Indices: 100487121--100487175 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
100487111 CAAATTCAGC
100487121 TCTCTCTA-TTCTCTCTAAA-CTCTCAAT
1 TCTCT-TAGTTCTCTC-AAATCTCTCAAT
*
100487148 TCTCTTAGTTCTCTCAAATTTCTCAAT
1 TCTCTTAGTTCTCTCAAATCTCTCAAT
100487175 T
1 T
100487176 TTTGTTCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (27 bp):
TCTCTTAGTTCTCTCAAATCTCTCAAT
Found at i:100502116 original size:21 final size:21
Alignment explanation
Indices: 100502092--100502163 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
100502082 CTCTCTGATA
100502092 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
100502113 TGAAA-GATATCATGGCAACC-TGGT
1 TGAAATG-TGT-A-AG--ACCATGGT
100502137 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
100502159 TGAAA
1 TGAAA
100502164 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 5 0.13
23 2 0.05
24 5 0.13
25 10 0.26
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:100502157 original size:46 final size:46
Alignment explanation
Indices: 100502086--100502224 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
100502076 AGTGTGCTCT
*
100502086 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100502132 CTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
100502178 GTGACATGAAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100502225 ATGACAGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 49 0.58
47 35 0.42
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100502272 original size:50 final size:48
Alignment explanation
Indices: 100502094--100502261 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 48
100502084 CTCTGATATG
* * * **
100502094 AAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGGTATG--
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* *
100502140 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
*
100502188 AAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AA
*
100502235 ATGAATGAGTAAGACCATAGTTGAAAG
1 A--AATGAGTAAGACCATGGTTGAAAG
100502262 GCACTATGGC
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
46 43 0.40
47 40 0.37
48 3 0.03
49 2 0.02
50 19 0.18
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (48 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
Found at i:100506899 original size:16 final size:17
Alignment explanation
Indices: 100506873--100506919 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
100506863 ATGTAAAAAA
*
100506873 ATTTAAAATATAAATTT
1 ATTTAATATATAAATTT
100506890 ATTAATATATATATAAATTT
1 ATT--TA-ATATATAAATTT
100506910 A-TTAATATAT
1 ATTTAATATAT
100506920 GTAAAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 3 0.12
20 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATATATAAATTT
Found at i:100506905 original size:20 final size:20
Alignment explanation
Indices: 100506880--100506919 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100506870 AAAATTTAAA
100506880 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
100506900 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
100506920 GTAAAAACAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:100507024 original size:19 final size:20
Alignment explanation
Indices: 100507000--100507045 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
100506990 CATCCAAACA
100507000 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
*
100507019 CCAGAAAAGTAAATTATTTT
1 CCAGAAAAGTAAATCATTTT
100507039 CCAGAAA
1 CCAGAAA
100507046 TCATTTTCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:100508593 original size:13 final size:13
Alignment explanation
Indices: 100508550--100508593 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
100508540 AATATATATT
*
100508550 AACCCAAGTACCC
1 AACCCAATTACCC
100508563 AACCC-A--ACCC
1 AACCCAATTACCC
100508573 AACCCAATTACCC
1 AACCCAATTACCC
100508586 AACCCAAT
1 AACCCAAT
100508594 CATAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.41, C:0.48, G:0.02, T:0.09
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:100508659 original size:7 final size:6
Alignment explanation
Indices: 100508595--100508658 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
100508585 CAACCCAATC
* * *
100508595 ATAAAA ATTAAAA AT-AAT TTAATAA ATAAAA ATAAAA ATGTAAAA CTAAAA
1 ATAAAA A-TAAAA ATAAAA ATAA-AA ATAAAA ATAAAA A--TAAAA ATAAAA
100508646 ATAAAA ATAAAA A
1 ATAAAA ATAAAA A
100508659 AATATAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 3 0.06
6 29 0.62
7 10 0.21
8 5 0.11
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:100508659 original size:20 final size:20
Alignment explanation
Indices: 100508621--100508659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
100508611 ATTTAATAAA
**
100508621 TAAAAATAAAAATGTAAAAC
1 TAAAAATAAAAATAAAAAAC
100508641 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
100508660 ATATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:100508691 original size:9 final size:9
Alignment explanation
Indices: 100508677--100508744 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
100508667 TTTATACAAA
100508677 TAATTCGGT
1 TAATTCGGT
*
100508686 TAATTCAGT
1 TAATTCGGT
*
100508695 TAATTCAAG-
1 TAATTC-GGT
100508704 TAATTCGGT
1 TAATTCGGT
* *
100508713 CAATTCGAT
1 TAATTCGGT
100508722 TAATTCGGT
1 TAATTCGGT
100508731 TAATTCGGT
1 TAATTCGGT
100508740 TAATT
1 TAATT
100508745 TTATACTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
8 1 0.02
9 48 0.94
10 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:100512692 original size:24 final size:24
Alignment explanation
Indices: 100512662--100512709 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
100512652 TACTAATTTC
100512662 ATCACAACATCATATCATACCGAT
1 ATCACAACATCATATCATACCGAT
100512686 ATCACAACATCATATCATACCGAT
1 ATCACAACATCATATCATACCGAT
100512710 CCAAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (24 bp):
ATCACAACATCATATCATACCGAT
Found at i:100513544 original size:41 final size:41
Alignment explanation
Indices: 100513487--100513567 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
100513477 TTGGGGACTT
*
100513487 AAATAGCAATTGATCTAAAAGGCCAAAATGGTTATTGGACC
1 AAATAGAAATTGATCTAAAAGGCCAAAATGGTTATTGGACC
*
100513528 AAATAGAAATTGATCTAAAGGGCCAAAATGGTTATTGGAC
1 AAATAGAAATTGATCTAAAAGGCCAAAATGGTTATTGGAC
100513568 TATTTTTGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (41 bp):
AAATAGAAATTGATCTAAAAGGCCAAAATGGTTATTGGACC
Found at i:100516815 original size:31 final size:30
Alignment explanation
Indices: 100516777--100516905 Score: 147
Period size: 31 Copynumber: 4.3 Consensus size: 30
100516767 TAGGCATCAA
100516777 TATTCATATTTGCATTATCATACCCTATAAT
1 TATTCATATTTGCA-TATCATACCCTATAAT
100516808 TATTCATATTTGCATATTCATACCCTATAAT
1 TATTCATATTTGCATA-TCATACCCTATAAT
* *
100516839 TATTCATATTTGCATGTTCATACCTTAT-AT
1 TATTCATATTTGCAT-ATCATACCCTATAAT
* * *
100516869 TCATTCACA--TACATATCATACCCTGTAAT
1 T-ATTCATATTTGCATATCATACCCTATAAT
*
100516898 TTTTCATA
1 TATTCATA
100516906 CCTTGTACAT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
28 14 0.16
29 7 0.08
30 5 0.06
31 59 0.69
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (30 bp):
TATTCATATTTGCATATCATACCCTATAAT
Found at i:100516844 original size:17 final size:17
Alignment explanation
Indices: 100516790--100516846 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
100516780 TCATATTTGC
100516790 ATTA-TCATACCCTATA
1 ATTATTCATACCCTATA
* *
100516806 ATTATTCATA---TTTGC
1 ATTATTCATACCCTAT-A
100516821 A-TATTCATACCCTATA
1 ATTATTCATACCCTATA
100516837 ATTATTCATA
1 ATTATTCATA
100516847 TTTGCATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 5 0.16
17 15 0.48
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTATTCATACCCTATA
Found at i:100518242 original size:13 final size:12
Alignment explanation
Indices: 100518214--100518256 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
100518204 AAAACTCTTC
100518214 TAAAAGAAAACT
1 TAAAAGAAAACT
*
100518226 TAAAAGAAATTCT
1 TAAAAGAAA-ACT
100518239 TAAAAAGAAAACT
1 T-AAAAGAAAACT
*
100518252 CAAAA
1 TAAAA
100518257 AGAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 13 0.50
13 5 0.19
14 8 0.31
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (12 bp):
TAAAAGAAAACT
Found at i:100522672 original size:42 final size:42
Alignment explanation
Indices: 100522625--100522705 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
100522615 ATATATATGT
100522625 ATGTAAGTGGTTGCTTCAATGGTAGACTATAGACAGCGTGAA
1 ATGTAAGTGGTTGCTTCAATGGTAGACTATAGACAGCGTGAA
100522667 ATGTAAGTGGTTGCTTCAATGGTAGACTATAGACAGCGT
1 ATGTAAGTGGTTGCTTCAATGGTAGACTATAGACAGCGT
100522706 ACTCCCACGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (42 bp):
ATGTAAGTGGTTGCTTCAATGGTAGACTATAGACAGCGTGAA
Found at i:100523288 original size:9 final size:9
Alignment explanation
Indices: 100523260--100523325 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
100523250 AAAATTATTT
100523260 TTAAAAA-A
1 TTAAAAATA
100523268 -TAAAAATCA
1 TTAAAAAT-A
100523277 TTAAAAATA
1 TTAAAAATA
100523286 TTAAAAATA
1 TTAAAAATA
100523295 -TAAAAATA
1 TTAAAAATA
*
100523303 -TATATAATA
1 TTA-AAAATA
*
100523312 TTTTAAAATA
1 -TTAAAAATA
100523322 TTAA
1 TTAA
100523326 TTAAATGTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
7 6 0.12
8 10 0.21
9 19 0.40
10 12 0.25
11 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Done.