Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 60 of 185
Found at i:18808788 original size:11 final size:11
Alignment explanation
Indices: 18808774--18808826 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
18808764 AAATAATGAT
*
18808774 AAAACAATAGG
1 AAAACAATAGC
* *
18808785 AAAACAACAAC
1 AAAACAATAGC
*
18808796 AAAACAAT-GA
1 AAAACAATAGC
18808806 AAAACAATAGC
1 AAAACAATAGC
18808817 AAAACAATAG
1 AAAACAATAG
18808827 TTTTTTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.08
Consensus pattern (11 bp):
AAAACAATAGC
Found at i:18808811 original size:21 final size:22
Alignment explanation
Indices: 18808774--18808826 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
18808764 AAATAATGAT
*
18808774 AAAACAATAGGAAAACAACAAC
1 AAAACAATAGAAAAACAACAAC
* *
18808796 AAAACAAT-GAAAAACAATAGC
1 AAAACAATAGAAAAACAACAAC
18808817 AAAACAATAG
1 AAAACAATAG
18808827 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.08
Consensus pattern (22 bp):
AAAACAATAGAAAAACAACAAC
Found at i:18808815 original size:32 final size:33
Alignment explanation
Indices: 18808757--18808823 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
18808747 ATAGTGAAAT
* *
18808757 AACAACAAAATAATGATAAAACAATAGGAAAAC
1 AACAACAAAACAATGATAAAACAATAGCAAAAC
18808790 AACAACAAAACAATGA-AAAACAATAGCAAAAC
1 AACAACAAAACAATGATAAAACAATAGCAAAAC
18808822 AA
1 AA
18808824 TAGTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.69, C:0.15, G:0.07, T:0.09
Consensus pattern (33 bp):
AACAACAAAACAATGATAAAACAATAGCAAAAC
Found at i:18809503 original size:18 final size:17
Alignment explanation
Indices: 18809476--18809530 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
18809466 TTTGAATTTT
*
18809476 ATTTAATATTTTTATAAA
1 ATTTATTATTTTT-TAAA
18809494 ATTTATTATTTATTTACAA
1 ATTTATTATTT-TTTA-AA
*
18809513 ATTTATAATTTTTTAAA
1 ATTTATTATTTTTTAAA
18809530 A
1 A
18809531 ATATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.09
18 16 0.48
19 14 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTTTTTAAA
Found at i:18809515 original size:50 final size:47
Alignment explanation
Indices: 18809446--18809545 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 47
18809436 TTTATTTATT
** * * *
18809446 TTTATTTTTATTTTTAAATTTTTGAATTTTATTTAATAT-TTTTATAAAA
1 TTTATTTTTATTTACAAATTTAT-AATTTT-TTAAAAATATTTT-TAAAA
18809495 TTTATTATTTATTTACAAATTTATAATTTTTTAAAAATATTTTTAAAA
1 TTTATT-TTTATTTACAAATTTATAATTTTTTAAAAATATTTTTAAAA
18809543 TTT
1 TTT
18809546 TAAAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
48 14 0.32
49 16 0.36
50 14 0.32
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (47 bp):
TTTATTTTTATTTACAAATTTATAATTTTTTAAAAATATTTTTAAAA
Found at i:18809532 original size:18 final size:18
Alignment explanation
Indices: 18809479--18809532 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
18809469 GAATTTTATT
18809479 TAATATTTTTATAAAATTTA
1 TAAT-TTTTTA-AAAATTTA
* *
18809499 TTATTTATTTACAAATTTA
1 TAATTT-TTTAAAAATTTA
18809518 TAATTTTTTAAAAAT
1 TAATTTTTTAAAAAT
18809533 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.28
19 14 0.48
20 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTTTTTAAAAATTTA
Found at i:18809560 original size:22 final size:21
Alignment explanation
Indices: 18809522--18809565 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18809512 AATTTATAAT
* *
18809522 TTTTTAAAAATATTTTTAAAA
1 TTTTAAAAAATAGTTTTAAAA
*
18809543 TTTTAAAAAATAAGTTTTGAAA
1 TTTTAAAAAAT-AGTTTTAAAA
18809565 T
1 T
18809566 AAATGAACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTTAAAAAATAGTTTTAAAA
Found at i:18813275 original size:58 final size:58
Alignment explanation
Indices: 18813206--18813327 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
18813196 ATAAAGAAAT
* *
18813206 AATCATACCAATGTTGATTGAAACACAGAGTAGTCAATCTCTCTATTGGGATAACGAG
1 AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTCGATTGGGATAACGAG
* * *
18813264 AATCATACCAATGTTGATTGAAATAGAGAGTAGTAAATCTCTCGATTTGGATAACGAG
1 AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTCGATTGGGATAACGAG
18813322 AATCAT
1 AATCAT
18813328 TGCTTGTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (58 bp):
AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTCGATTGGGATAACGAG
Found at i:18817029 original size:16 final size:16
Alignment explanation
Indices: 18817010--18817044 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
18817000 TTCTTGGAAA
18817010 ACATAACAGTTTGCAC
1 ACATAACAGTTTGCAC
18817026 ACATAACAGTTTGCAC
1 ACATAACAGTTTGCAC
18817042 ACA
1 ACA
18817045 AGTTATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (16 bp):
ACATAACAGTTTGCAC
Found at i:18819316 original size:72 final size:73
Alignment explanation
Indices: 18819188--18819326 Score: 262
Period size: 72 Copynumber: 1.9 Consensus size: 73
18819178 AAACATGGTC
*
18819188 AAAATATACCTATACCAACAAGGCACTCGTCATTTATGCTACATTTACATTCCAAACTTATATAA
1 AAAATATACCTATACCAACAAGGCACTCGTCATTTATGCTACATTTACATTCCAAACTTACATAA
18819253 TTCTAGTT
66 TTCTAGTT
18819261 AAAATATACCTATACCAACAAGGCACTC-TCATTTATGCTACATTTACATTCCAAACTTACATAA
1 AAAATATACCTATACCAACAAGGCACTCGTCATTTATGCTACATTTACATTCCAAACTTACATAA
18819325 TT
66 TT
18819327 GTAGCATATC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 37 0.57
73 28 0.43
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (73 bp):
AAAATATACCTATACCAACAAGGCACTCGTCATTTATGCTACATTTACATTCCAAACTTACATAA
TTCTAGTT
Found at i:18822374 original size:22 final size:22
Alignment explanation
Indices: 18822329--18822523 Score: 225
Period size: 22 Copynumber: 8.7 Consensus size: 22
18822319 TTATCACCCA
*
18822329 CCAAACACAACCAATCATAGCCT
1 CCAAACACAACCAAT-TTAGCCT
*
18822352 CCAACCACAACCAATTTAGCCT
1 CCAAACACAACCAATTTAGCCT
*
18822374 CCAAACACAATCAATTATAGCCT
1 CCAAACACAACCAATT-TAGCCT
18822397 CCAAACACAACCAATTTA-CCTT
1 CCAAACACAACCAATTTAGCC-T
18822419 CCAAACACAACCAATTTA-CCTT
1 CCAAACACAACCAATTTAGCC-T
*
18822441 CCAAACACAACCAATCATAGCCT
1 CCAAACACAACCAAT-TTAGCCT
18822464 CCAAACACAACCAATTT-GCCCT
1 CCAAACACAACCAATTTAG-CCT
* * * *
18822486 TCGAACACAACCAAGTGTACCCT
1 CCAAACACAACCAA-TTTAGCCT
*
18822509 CCAAAGACAACCAAT
1 CCAAACACAACCAAT
18822524 ATACCTTTCA
Statistics
Matches: 151, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.02
22 77 0.51
23 69 0.46
24 2 0.01
ACGTcount: A:0.41, C:0.37, G:0.05, T:0.17
Consensus pattern (22 bp):
CCAAACACAACCAATTTAGCCT
Found at i:18822379 original size:45 final size:44
Alignment explanation
Indices: 18822329--18822526 Score: 222
Period size: 45 Copynumber: 4.4 Consensus size: 44
18822319 TTATCACCCA
*
18822329 CCAAACACAACCAATCATAGCCTCCAACCACAACCAATTTAGCCT
1 CCAAACACAACCAAT-ATAGCCTCCAAACACAACCAATTTAGCCT
*
18822374 CCAAACACAATCAATTATAGCCTCCAAACACAACCAATTTA-CCTT
1 CCAAACACAACCAA-TATAGCCTCCAAACACAACCAATTTAGCC-T
* *
18822419 CCAAACACAACCAATTTA-CCTTCCAAACACAACCAATCATAGCCT
1 CCAAACACAACCAATATAGCC-TCCAAACACAACCAAT-TTAGCCT
* * * * *
18822464 CCAAACACAACCAAT-TTGCCCTTCGAACACAACCAAGTGTACCCT
1 CCAAACACAACCAATATAG-CCTCCAAACACAACCAA-TTTAGCCT
*
18822509 CCAAAGACAACCAATATA
1 CCAAACACAACCAATATA
18822527 CCTTTCAACA
Statistics
Matches: 132, Mismatches: 12, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
43 2 0.02
44 22 0.17
45 101 0.77
46 7 0.05
ACGTcount: A:0.41, C:0.36, G:0.05, T:0.18
Consensus pattern (44 bp):
CCAAACACAACCAATATAGCCTCCAAACACAACCAATTTAGCCT
Found at i:18822529 original size:112 final size:112
Alignment explanation
Indices: 18822329--18822530 Score: 307
Period size: 112 Copynumber: 1.8 Consensus size: 112
18822319 TTATCACCCA
* * * *
18822329 CCAAACACAACCAATCATAGCCTCCAACCACAACCAATTTAGCCTCCAAACACAATCAATTATAG
1 CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTAGCCTCCAAACACAACCAAGTATAC
*
18822394 CCTCCAAACACAACCAATTTACCTTCCAAACACAACCAATTTACCTT
66 CCTCCAAACACAACCAATATACCTTCCAAACACAACCAATTTACCTT
* * *
18822441 CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTT-GCCCTTCGAACACAACCAAGTGTA
1 CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTAG-CCTCCAAACACAACCAAGTATA
*
18822505 CCCTCCAAAGACAACCAATATACCTT
65 CCCTCCAAACACAACCAATATACCTT
18822531 TCAACATATC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 79 0.99
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.18
Consensus pattern (112 bp):
CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTAGCCTCCAAACACAACCAAGTATAC
CCTCCAAACACAACCAATATACCTTCCAAACACAACCAATTTACCTT
Found at i:18826232 original size:23 final size:23
Alignment explanation
Indices: 18826204--18826373 Score: 131
Period size: 23 Copynumber: 7.6 Consensus size: 23
18826194 AGTTACTTGT
*
18826204 AATGCCTTTGTGGCGTATCCTGA
1 AATGCCTTTGTGGCGTATTCTGA
* *
18826227 AATGCCTTTGTGGCGAATTCTGT
1 AATGCCTTTGTGGCGTATTCTGA
*
18826250 AATGCCTTTGTGGCGTATT-GGA
1 AATGCCTTTGTGGCGTATTCTGA
* * *
18826272 TAATGCCTTTGTGACATATTCTGT
1 -AATGCCTTTGTGGCGTATTCTGA
* *
18826296 AATGACTTTTGTGGCATATTCTG-
1 AATG-CCTTTGTGGCGTATTCTGA
* *
18826319 AA----TTTGTGGCATAGTCT-A
1 AATGCCTTTGTGGCGTATTCTGA
* *
18826337 TAATGCCTTTGTGGTGTATT-TTA
1 -AATGCCTTTGTGGCGTATTCTGA
18826360 CAATGCCTTTGTGG
1 -AATGCCTTTGTGG
18826374 TAAGTTCTAT
Statistics
Matches: 120, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
18 14 0.12
19 2 0.02
22 2 0.02
23 85 0.71
24 17 0.14
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.41
Consensus pattern (23 bp):
AATGCCTTTGTGGCGTATTCTGA
Found at i:18826257 original size:46 final size:45
Alignment explanation
Indices: 18826201--18826372 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 45
18826191 GCAAGTTACT
*
18826201 TGTAATGCCTTTGTGGCGTATCCTGAAATGCCTTTGTGGCGA-ATTC
1 TGTAATGCCTTTGTGGCGTAT-CTGAAATGCCTTTGTGAC-ATATTC
18826247 TGTAATGCCTTTGTGGCGTAT-TGGATAATGCCTTTGTGACATATTC
1 TGTAATGCCTTTGTGGCGTATCT-GA-AATGCCTTTGTGACATATTC
* * * *
18826293 TGTAATGACTTTTGTGGCATATTCTG-AA----TTTGTGGCATAGTC
1 TGTAATG-CCTTTGTGGCGTA-TCTGAAATGCCTTTGTGACATATTC
* * * *
18826335 TATAATGCCTTTGTGGTGTATTTTACAATGCCTTTGTG
1 TGTAATGCCTTTGTGGCGTATCTGA-AATGCCTTTGTG
18826373 GTAAGTTCTA
Statistics
Matches: 103, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
40 2 0.02
41 10 0.10
42 20 0.19
44 1 0.01
45 3 0.03
46 53 0.51
47 11 0.11
48 2 0.02
49 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (45 bp):
TGTAATGCCTTTGTGGCGTATCTGAAATGCCTTTGTGACATATTC
Found at i:18830916 original size:91 final size:91
Alignment explanation
Indices: 18830754--18830942 Score: 254
Period size: 91 Copynumber: 2.1 Consensus size: 91
18830744 GTAACCATTT
* * * *
18830754 GATAACACACCAGATGCACATAGTGTAAAGCCCATAGGCTAAGTATTCTCCCCCGGTAACACAAC
1 GATAACACACCACATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCGATAACACAAC
*
18830819 AATTTTCTCATAAGAGCTTTCCAA-C
66 AATTTTCTCATAAGAACTTTCCAATC
* ***
18830844 AGATAACACACCACATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCTGATAACATGC
1 -GATAACACACCACATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCGATAACACAA
* * *
18830909 CAGTTTTCTCGTAAGAATTTTCCAATC
65 CAATTTTCTCATAAGAACTTTCCAATC
18830936 GATAACA
1 GATAACA
18830943 TGCTAGAATC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 84 0.99
92 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (91 bp):
GATAACACACCACATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCGATAACACAAC
AATTTTCTCATAAGAACTTTCCAATC
Found at i:18834236 original size:21 final size:21
Alignment explanation
Indices: 18834212--18834264 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
18834202 TTTAAAACCC
18834212 AATGAGTATCGATACTTTTTA
1 AATGAGTATCGATACTTTTTA
*
18834233 AATGAGTATCGATATTTTTTA
1 AATGAGTATCGATACTTTTTA
*
18834254 AA-AAGTATCGA
1 AATGAGTATCGA
18834265 AAAACAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
AATGAGTATCGATACTTTTTA
Found at i:18837697 original size:20 final size:21
Alignment explanation
Indices: 18837652--18837703 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
18837642 TACACCACAT
*
18837652 CAGAGGCATCAAAAATGCATAA
1 CAGAGGCA-CCAAAATGCATAA
*
18837674 CAGAGGCACCAAAGTGCA-AA
1 CAGAGGCACCAAAATGCATAA
18837694 CAGAGGCACC
1 CAGAGGCACC
18837704 GAATTACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 8 0.29
22 8 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (21 bp):
CAGAGGCACCAAAATGCATAA
Found at i:18844490 original size:28 final size:28
Alignment explanation
Indices: 18844450--18844527 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
18844440 CACTTACTTA
18844450 AAAGATAGTCCATGCAGACTCTTG-TTGG
1 AAAGATAGTCCATGCAGACTCTTGCTT-G
**
18844478 AAAGATAGTCCATGTGGACTCTTGCTTG
1 AAAGATAGTCCATGCAGACTCTTGCTTG
*
18844506 AAAGAGAGTCCATGCAGACTCT
1 AAAGATAGTCCATGCAGACTCT
18844528 CATATGGTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (28 bp):
AAAGATAGTCCATGCAGACTCTTGCTTG
Found at i:18846599 original size:27 final size:27
Alignment explanation
Indices: 18846569--18846814 Score: 144
Period size: 27 Copynumber: 9.1 Consensus size: 27
18846559 AAACCAACAG
* *
18846569 AGTCTACTAGGACAGTAAACACAGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * *
18846596 AGTCCATTGGGATAGTAAACACGGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * * * **
18846623 AATCC-GTCAGGACAATAAACATGGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
* * * * * *
18846650 AGTCTACCGAGATAATAAACACGGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * * * *
18846677 AATCCACCGAGACATTAAAGAC-GAGGT
1 AGTCCACTGGGACAGTAAACACAG-GGT
**
18846704 AGT-CTGTCGGGACAGTAAACACAGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
*
18846731 AGTCCACTAGGACA-TGAAACACAGGGT
1 AGTCCACTGGGACAGT-AAACACAGGGT
*
18846758 AGTCCA-TCGGGACATTAAACACAGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
**
18846785 AGTCCACTGGGAC-GTTAAACATGGGGT
1 AGTCCACTGGGACAG-TAAACACAGGGT
18846812 AGT
1 AGT
18846815 TTGCTGGGAC
Statistics
Matches: 170, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
26 5 0.03
27 160 0.94
28 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (27 bp):
AGTCCACTGGGACAGTAAACACAGGGT
Found at i:18846797 original size:81 final size:80
Alignment explanation
Indices: 18846569--18846814 Score: 223
Period size: 81 Copynumber: 3.0 Consensus size: 80
18846559 AAACCAACAG
* * * * *
18846569 AGTCTACTAGGACA-GTAAACACAGGGTAGTCCATTGGGATAGTAAACACGGGGTAATCCGTCAG
1 AGTCTACTAGGACATG-AAACACAGGGTAGTCCATCGGGACATTAAACAC-GGGTAGTCCGTCGG
*
18846633 GACAATAAACATGGGGT
64 GACAGTAAACATGGGGT
* * * * * * * *
18846650 AGTCTAC-CGAGATAAT-AAACACGGGGTAATCCACCGAGACATTAAAGACGAGGTAGTCTGTCG
1 AGTCTACTAG-GA-CATGAAACACAGGGTAGTCCATCGGGACATTAAACACG-GGTAGTCCGTCG
**
18846713 GGACAGTAAACACAGGGT
63 GGACAGTAAACATGGGGT
* *
18846731 AGTCCACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACAGGGTAGTCC-ACTGG
1 AGTCTACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACAC-GGGTAGTCCGTC-GG
18846795 GAC-GTTAAACATGGGGT
64 GACAG-TAAACATGGGGT
18846812 AGT
1 AGT
18846815 TTGCTGGGAC
Statistics
Matches: 128, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
80 6 0.05
81 119 0.93
82 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (80 bp):
AGTCTACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACGGGTAGTCCGTCGGGA
CAGTAAACATGGGGT
Found at i:18846805 original size:54 final size:54
Alignment explanation
Indices: 18846574--18846814 Score: 200
Period size: 54 Copynumber: 4.5 Consensus size: 54
18846564 AACAGAGTCT
* * * *
18846574 ACTAGGACAGTAAACACAGGGTAGTCCATTGGGATAGTAAACACGGGGTAATCC
1 ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * ** * * * * * *
18846628 -GTCAGGACAATAAACATGGGGTAGTCTACCGAGATAATAAACACGGGGTAATCC
1 ACT-AGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * ** *
18846682 AC-CGAGACATTAAAGAC-GAGGTAGTCTGTCGGGACAGTAAACACAGGGTAGTCC
1 ACTAG-GACATTAAACACAG-GGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * *
18846736 ACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACAGGGTAGTCC
1 ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * **
18846790 ACTGGGACGTTAAACATGGGGTAGT
1 ACTAGGACATTAAACACAGGGTAGT
18846815 TTGCTGGGAC
Statistics
Matches: 149, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
53 3 0.02
54 144 0.97
55 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (54 bp):
ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
Found at i:18852944 original size:46 final size:46
Alignment explanation
Indices: 18852893--18852988 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
18852883 AAGGACCTTA
*
18852893 AAATGTTCTAAAAATGTATGTATGAATCATATTGCACGAAACGGGT
1 AAATGTTCTAAAAATGTATATATGAATCATATTGCACGAAACGGGT
18852939 AAATGTTCTAAAAATGTATATATGAATCATATTGCACGAAACGGGT
1 AAATGTTCTAAAAATGTATATATGAATCATATTGCACGAAACGGGT
18852985 AAAT
1 AAAT
18852989 TTAAACCTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (46 bp):
AAATGTTCTAAAAATGTATATATGAATCATATTGCACGAAACGGGT
Found at i:18858611 original size:24 final size:24
Alignment explanation
Indices: 18858584--18858635 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18858574 TTAGTAAGTC
*
18858584 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18858608 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18858632 AAAT
1 AAAT
18858636 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18860581 original size:24 final size:24
Alignment explanation
Indices: 18860554--18860605 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18860544 TTAGTAAGTC
*
18860554 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18860578 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18860602 AAAT
1 AAAT
18860606 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18883200 original size:42 final size:42
Alignment explanation
Indices: 18883153--18883249 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
18883143 AGGTCGTGTG
18883153 GCCAGGCTGTGTAAC-ATTTGAACAAGCCACACACGGCCGTAT
1 GCCAGGCTGTGTAACTATTTG-ACAAGCCACACACGGCCGTAT
* *** * *
18883195 GCCAGGCTGTGTAACTCTTTGAGTTGCCACACACGGTCGTGT
1 GCCAGGCTGTGTAACTATTTGACAAGCCACACACGGCCGTAT
*
18883237 GCCAGGCCGTGTA
1 GCCAGGCTGTGTA
18883250 CTAAGTCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.23
Consensus pattern (42 bp):
GCCAGGCTGTGTAACTATTTGACAAGCCACACACGGCCGTAT
Found at i:18883385 original size:116 final size:116
Alignment explanation
Indices: 18883181--18883438 Score: 372
Period size: 116 Copynumber: 2.2 Consensus size: 116
18883171 TGAACAAGCC
* * * * * * *
18883181 ACACACGGCCGTATGCCAGGCTGTGTAACTCTTTGAGTTGCCACACACGGTCGTGTGCCAGGCCG
1 ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCCA
* *
18883246 TGTACTAAGTCATGAAACACACTGGCTTGAAATATCAAAATTTTGCAAATG
66 TGTACTAAGCCATGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
*
18883297 ACACATGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCCA
1 ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCCA
* * *
18883362 TGTACTAAGCCGTGAAACACACTGACTTGAAATATTAAAATTTTTCAAATG
66 TGTACTAAGCCATGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
* * *
18883413 ACACACGACCGTGTGACAGCCTGTGT
1 ACACACGGCCGTGTGCCAGGCTGTGT
18883439 CCCAGGCCAT
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 125 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (116 bp):
ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCCA
TGTACTAAGCCATGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
Found at i:18885401 original size:20 final size:20
Alignment explanation
Indices: 18885364--18885402 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18885354 TCATCTTTTC
*
18885364 TTACTTAATTTTCTTTTTAG
1 TTACTTAATTTTCATTTTAG
18885384 TTAC-TAATTTATCATTTTA
1 TTACTTAATTT-TCATTTTA
18885403 CCCTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
TTACTTAATTTTCATTTTAG
Found at i:18891081 original size:28 final size:28
Alignment explanation
Indices: 18891018--18891226 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
18891008 ATATTAAGTC
* * *
18891018 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
18891045 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
18891073 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
18891101 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
18891129 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
18891157 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
18891185 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
18891212 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18891227 GCACAATTTA
Statistics
Matches: 177, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 39 0.22
28 138 0.78
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:18907779 original size:10 final size:10
Alignment explanation
Indices: 18907764--18907795 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
18907754 AGTGAAAAAG
18907764 AAAAGTGAGA
1 AAAAGTGAGA
18907774 AAAAGTGAGA
1 AAAAGTGAGA
18907784 AAAAGTGAGA
1 AAAAGTGAGA
18907794 AA
1 AA
18907796 TTCTAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09
Consensus pattern (10 bp):
AAAAGTGAGA
Found at i:18907948 original size:51 final size:51
Alignment explanation
Indices: 18907893--18908096 Score: 207
Period size: 51 Copynumber: 4.0 Consensus size: 51
18907883 ATGTGAAAGT
* *
18907893 GAAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * **
18907944 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCATACCG
1 GAAAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * * *
18907994 GATAGCT-TTGATCACGTGTGTAGTGCTATGTGCAGGCTACTACGTGTATCG
1 GAAAG-TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * *
18908045 GATAGTGATGGTCACATGTGTAGTAATATGTGTAGGCTACTATGTGAACCG
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
18908096 G
1 G
18908097 TATCATTAAT
Statistics
Matches: 121, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.02
50 39 0.32
51 78 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:18908041 original size:101 final size:102
Alignment explanation
Indices: 18907904--18908088 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
18907894 AAAGTGATGG
*
18907904 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAA--GATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTGTAGT
* *
18907967 ACTATGTGCAGGCTATTATGCATACCGGATAGCTTTGA
65 AATATGTGCAGGCTACTATGCATACCGGATAGCTTTGA
* * * *
18908005 TCACGTGTGTAGTGCTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
*
18908070 ATATGTGTAGGCTACTATG
66 ATATGTGCAGGCTACTATG
18908089 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 40 0.54
102 31 0.42
103 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
ATATGTGCAGGCTACTATGCATACCGGATAGCTTTGA
Found at i:18908164 original size:46 final size:44
Alignment explanation
Indices: 18908092--18908190 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 44
18908082 TACTATGTGA
*
18908092 ACCGG-TATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
18908135 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCGGATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
*
18908181 ACCGTATATC
1 ACCGGATATC
18908191 TGTTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 27 0.57
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
ACCGGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:18911763 original size:32 final size:32
Alignment explanation
Indices: 18911722--18911788 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
18911712 TCCCATTCAA
*
18911722 TGAAACTAGAAGGGACAACAATATAGGGGGTT
1 TGAAACTAGAAGGGACAAAAATATAGGGGGTT
18911754 TGAAACTAGAAGGGACAAAAATATAGGGGGTT
1 TGAAACTAGAAGGGACAAAAATATAGGGGGTT
18911786 TGA
1 TGA
18911789 CCAAATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.07, G:0.31, T:0.19
Consensus pattern (32 bp):
TGAAACTAGAAGGGACAAAAATATAGGGGGTT
Found at i:18916608 original size:26 final size:26
Alignment explanation
Indices: 18916565--18916637 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
18916555 TCTCATTCCT
* * *
18916565 ATTTTACCTCTAGAAAAATTTTGACA
1 ATTTTACCCCTGGTAAAATTTTGACA
* * *
18916591 ATTTTACCCCTGTTAAAATTTTGGCG
1 ATTTTACCCCTGGTAAAATTTTGACA
* *
18916617 ATTTTGCCCTTGGTAAAATTT
1 ATTTTACCCCTGGTAAAATTT
18916638 CGAGAAAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGACA
Found at i:18920538 original size:25 final size:25
Alignment explanation
Indices: 18920481--18920528 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18920471 TAGGCCCATT
*
18920481 TCACAGCTCATGTGAGCATTTACAA
1 TCACAGCTCATGAGAGCATTTACAA
*
18920506 TCACAGCTCGTGAGAGCATTTAC
1 TCACAGCTCATGAGAGCATTTAC
18920529 TGTCATAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
TCACAGCTCATGAGAGCATTTACAA
Found at i:18920625 original size:27 final size:27
Alignment explanation
Indices: 18920595--18920652 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18920585 CATCGGGTGA
18920595 GAAATGAGTAAATGGAAAT-GGATATAT
1 GAAATGAGTAAATGGAAATAGG-TATAT
** *
18920622 GAAATGTTTATATGGAAATAGGTATAT
1 GAAATGAGTAAATGGAAATAGGTATAT
18920649 GAAA
1 GAAA
18920653 AGGTTAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (27 bp):
GAAATGAGTAAATGGAAATAGGTATAT
Found at i:18938064 original size:45 final size:45
Alignment explanation
Indices: 18938009--18938100 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
18937999 CAGATACTCA
* *
18938009 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCG
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCG
*
18938054 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCG
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCG
18938099 GT
1 GT
18938101 TCACATATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCG
Found at i:18938171 original size:51 final size:50
Alignment explanation
Indices: 18938109--18938292 Score: 158
Period size: 51 Copynumber: 3.6 Consensus size: 50
18938099 GTTCACATAT
*
18938109 TAGCCTGCACATAGTACTACACATGTGACCATTACGATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATTAC-ATCCGATACACGTAG
* * * * * * * *
18938160 TAGCCTACACATAGTACTACATACGTGATCGA-AACTATGC-AGTACGCATAC
1 TAGCCTGCACATAGTACTACACACGTGA-CCATTAC-ATCCGA-TACACGTAG
*** * * * *
18938211 TAGCCTGCACATAGTACTACACATACGACCTATTA-TTTCGGTAGACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACC-ATTACATCCGATACACGTAG
18938261 TAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGCCTGCACATAGTACTACACACGTGACCAT
18938293 CACTTTCACT
Statistics
Matches: 101, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
49 2 0.02
50 36 0.36
51 60 0.59
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCATTACATCCGATACACGTAG
Found at i:18938287 original size:101 final size:101
Alignment explanation
Indices: 18938104--18938288 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
18938094 GTTCGGTTCA
* **
18938104 CATATTAGCCTGCACATAGTACTACACATGTGACCATTACGATCCGATACACGTAGTAGCCTACA
1 CATACTAGCCTGCACATAGTACTACACATACGACCATTAC-ATCCGATACACGTAGTAGCCTACA
*
18938169 CATAGTACTACATACGTGATCGAAACTATGCAGTACG
65 CATAGTACTACACACGTGATCGAAACTATGCAGTACG
* * * * *
18938206 CATACTAGCCTGCACATAGTACTACACATACGACCTATTA-TTTCGGTAGACGTAGTAGCCTGCA
1 CATACTAGCCTGCACATAGTACTACACATACGACC-ATTACATCCGATACACGTAGTAGCCTACA
18938270 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
18938289 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATACTAGCCTGCACATAGTACTACACATACGACCATTACATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATGCAGTACG
Found at i:18945946 original size:10 final size:10
Alignment explanation
Indices: 18945888--18945950 Score: 65
Period size: 10 Copynumber: 6.1 Consensus size: 10
18945878 CCCTTTTATA
18945888 TTTTTT-AAT
1 TTTTTTAAAT
*
18945897 TTTTTTGAAT
1 TTTTTTAAAT
18945907 TTTTTTAAAT
1 TTTTTTAAAT
**
18945917 TTTTTTATTTT
1 TTTTTTA-AAT
18945928 TCCTTTTTAAAT
1 T--TTTTTAAAT
18945940 TTTTTTAAAT
1 TTTTTTAAAT
18945950 T
1 T
18945951 ACATGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 6 0.13
10 29 0.64
11 2 0.04
12 2 0.04
13 6 0.13
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:18949491 original size:45 final size:45
Alignment explanation
Indices: 18949442--18949615 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
18949432 TACCATAAAC
* * * *
18949442 GAGTAATACCATAGTTGAAAGACGTTATGGCATCACGATTTTATT
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTTTATA
* *
18949487 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTTTATA
* * * *
18949532 GAGTAAGACCATAGCTAAAAGATGATATGGCATCACGA-ATTAAA
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTTTATA
* * ** *
18949576 GAAGTAAGACCATAGTTGAAAGACACTATGGCAACACGAT
1 G-AGTAAGACCATAGCTAAAAGACGTTATGGCATCACGAT
18949616 GGAAAATGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
44 3 0.03
45 107 0.97
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTTTATA
Found at i:18949553 original size:90 final size:90
Alignment explanation
Indices: 18949441--18949615 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 90
18949431 ATACCATAAA
* * * * * **
18949441 CGAGTAATACCATAGTTGAAAGACGTTATGGCATCACGATTTTATTG-AGTAAGACCATAGCTAA
1 CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGA-ATTAAAGAAGTAAGACCATAGCTAA
** *
18949505 AAGACGTTATGGCATCACGATTCTAT
65 AAGACACTATGGCAACACGATTCTAT
* * *
18949531 CGAGTAAGACCATAGCTAAAAGATGATATGGCATCACGAATTAAAGAAGTAAGACCATAGTTGAA
1 CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGAATTAAAGAAGTAAGACCATAGCTAAA
18949596 AGACACTATGGCAACACGAT
66 AGACACTATGGCAACACGAT
18949616 GGAAAATGAA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 4 0.06
90 67 0.94
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (90 bp):
CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGAATTAAAGAAGTAAGACCATAGCTAAA
AGACACTATGGCAACACGATTCTAT
Found at i:18953329 original size:23 final size:22
Alignment explanation
Indices: 18953281--18953329 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18953271 AGGTTGTTGC
* * * *
18953281 TTTTTTTTTCTTTTTTTTCGTC
1 TTTTATTTTATTTTTTTTCCTA
18953303 TTTTATTTTATTTTCTTTTCCTA
1 TTTTATTTTATTTT-TTTTCCTA
18953326 TTTT
1 TTTT
18953330 CAAAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTATTTTATTTTTTTTCCTA
Found at i:18954015 original size:12 final size:12
Alignment explanation
Indices: 18954000--18954029 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18953990 TTAATAAATC
18954000 TATTATGATTAT
1 TATTATGATTAT
18954012 TATTATGATTAT
1 TATTATGATTAT
*
18954024 TTTTAT
1 TATTAT
18954030 TTATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TATTATGATTAT
Found at i:18954178 original size:33 final size:31
Alignment explanation
Indices: 18954105--18954181 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
18954095 TGCATGCGGC
* * *
18954105 ATTTTTTATATTATACGTACATATTTTTATA
1 ATTTTTTATATTATACATACATACTTATATA
* *
18954136 ATTTATTTATTTATATATATACATACTTATATA
1 ATTT-TTTATAT-TATACATACATACTTATATA
18954169 TATTTTTTATATT
1 -ATTTTTTATATT
18954182 TTATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
31 4 0.11
32 7 0.19
33 22 0.59
34 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTTATATTATACATACATACTTATATA
Found at i:18954194 original size:29 final size:29
Alignment explanation
Indices: 18954127--18954215 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
18954117 ATACGTACAT
*
18954127 ATTTTTATAATTTATTTATTTATATATATAC
1 ATTTTTAT-ATATATTT-TTTATATATATAC
** *
18954158 ATACTTATATATATTTTTTATATTTTATA-
1 ATTTTTATATATATTTTTTATA-TATATAC
* * *
18954187 ATTTTTATATACATTTTGTATACATATAC
1 ATTTTTATATATATTTTTTATATATATAC
18954216 GTGCATATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
28 4 0.09
29 24 0.52
30 12 0.26
31 6 0.13
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTTTATATATATTTTTTATATATATAC
Found at i:18954518 original size:4 final size:4
Alignment explanation
Indices: 18954509--18954533 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18954499 TGTTTTAGTG
18954509 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
18954534 GTTATGGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:18954594 original size:15 final size:15
Alignment explanation
Indices: 18954576--18954606 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18954566 TTATTATTCT
18954576 TTTTTGTTCATATTA
1 TTTTTGTTCATATTA
18954591 TTTTTGTTCATATTA
1 TTTTTGTTCATATTA
18954606 T
1 T
18954607 CGTATTTATT
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:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTTGTTCATATTA
Found at i:18954927 original size:108 final size:108
Alignment explanation
Indices: 18954655--18954988 Score: 415
Period size: 109 Copynumber: 3.1 Consensus size: 108
18954645 TCGAAAAACG
* * * *
18954655 AAAATTTTTCAAAGTAAGGCAATATTTTGTGTTTGGAAATTCGAGAAAACGTTCCCTAATTTGCT
1 AAAA-TTTT-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCT
* **
18954720 GGGTTTT-GATTTTTCCCGTTCAACCAAATAGGTAAATATCCTTTT
64 -GGTTTTCGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTT
* * * *
18954765 GAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGTAAATTCAAGAAAACGTGCCCTAATGTGCTG
1 -AAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* *
18954830 GTTTTCGATTTTTCTCGTTCGATCAAATAGCAAAATATCCTTTT
65 GTTTTCGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTT
* * * *
18954874 AAAATTTTGAAATAAGACAATATTTTGCGTTTGGAAATTCGAGGAAATGTGCCCTAATGTGCTGG
1 AAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* * * *
18954939 GTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTT
66 TTTTCGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTT
18954980 -AAATTTTAA
1 AAAATTTTAA
18954989 TCCATGTCAT
Statistics
Matches: 194, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
105 8 0.04
106 29 0.15
108 69 0.36
109 81 0.42
110 3 0.02
111 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (108 bp):
AAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
TTTTCGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTT
Found at i:18958208 original size:10 final size:9
Alignment explanation
Indices: 18958184--18958248 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
18958174 GTATGGGATG
18958184 CAAAAAAAA
1 CAAAAAAAA
*
18958193 -ATAACAAAA
1 CA-AAAAAAA
18958202 CAAAACAAAA
1 CAAAA-AAAA
18958212 CAAAAAACAA
1 CAAAAAA-AA
18958222 -AAAATAAAA
1 CAAAA-AAAA
18958231 -ATAAAAAAA
1 CA-AAAAAAA
18958240 CAAAAAAAA
1 CAAAAAAAA
18958249 TCTCTGCCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
8 1 0.02
9 28 0.60
10 18 0.38
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.05
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:18959938 original size:46 final size:46
Alignment explanation
Indices: 18959865--18960283 Score: 633
Period size: 46 Copynumber: 9.1 Consensus size: 46
18959855 CCCAGAGAAC
*
18959865 AGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
*
18959911 AGACCGAAGATAGCAGATCTTGTCTTCC-AGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTA-TATTTGGCAGCGGAGT
* * *
18959957 AGATCAAAGATAGCAGATCTTTTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
*
18960003 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
* * * *
18960049 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTAGCAACGGAGA
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
* * * * * *
18960095 AGATCGAAGATAGAAGATCTTATCTTCCTCTTTTTCGCAACGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
18960141 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
**
18960187 AGATAAAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
** *
18960233 AGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
18960279 AGATC
1 AGATC
18960284 TGTATTTACC
Statistics
Matches: 344, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 343 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
Found at i:18960113 original size:138 final size:138
Alignment explanation
Indices: 18959865--18961588 Score: 1244
Period size: 138 Copynumber: 12.5 Consensus size: 138
18959855 CCCAGAGAAC
* * *
18959865 AGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGACCGAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * *
18959930 TTGTCTTCCAGTATTTGGCAGCGGAGTAGATCAAAGATAGCAGATCTTTTCTTCCTGTATTTGGC
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
18959995 AGCGGAGT
131 AGCGGAGT
18960003 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * * * * * * *
18960068 TTGTCTTCCTGTATTTAGCAACGGAGAAGATCGAAGATAGAAGATCTTATCTTCCTCTTTTTCGC
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
*
18960133 AACGGAGT
131 AGCGGAGT
* **
18960141 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* **
18960206 TTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
18960271 AGCGGAGT
131 AGCGGAGT
* * ** * ** * * ** * * * *
18960279 AGATCTGTATTTACCAGCAGAGTAGATCGAAG-ATAACAG-ATCTTGTCTTCCTGTATTTGGCAG
1 AGATC-G-----A--AG-ATAGCAGATC-TTGTCTTCCTGTAT-TTGGC-AGC-GGA-GTAG-AT
* *
18960342 CGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAG
51 C-GA--AGATAGCAGAT-------CTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAG
* * *
18960407 AAGATCTTGTCTTCCGGTATTTGGCAGCGGAAT
106 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
* **
18960440 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTCGCAGTAGAGTAGATCGAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * * * * *
18960505 TTGTCTTTCTGTATTTGGCAGCGAAGTAGATCAAAGATAGCAGCTCTTGTCTTCCTGTATTTCGT
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
18960570 AGCGGAGT
131 AGCGGAGT
* * **** * ** * *
18960578 -GATCGAAGATAGCATAT-TCTGTC-TCC-CTAAGCAGTAATGGAGCAGATCGAAGATGGC-GAA
1 AGATCGAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG-A
* * * * ** ** ** * * * *
18960638 TCTTATCTTCCCAAG-ATAATGG-A--GAAGTAGATTTAAGCCATTAG-TCCTATC-TCC-CTAA
64 TCTTGTCTT-CC-TGTAT-TTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
*** * *
18960696 GCAGTAGTGGAGT
126 TTGGCAGCGGAGT
* * * ** **** * * * * *
18960709 AGGTTGAAGATGGCAGAT-TCTGTC--CCCCTAAGAAGTAGTGGAGAAGATCGAACATGGC-GAA
1 AGATCGAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG-A
* * * * ** ** ** * * *
18960770 TCTTATCTTCCCAAG-ATAGTGG-A--GAAGTAGATTTAAGCCATTAG-TCTTATC-TCC-CTAA
64 TCTTGTCTT-CC-TGTAT-TTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * *
18960828 GTAGTAGTGGAGT
126 TTGGCAGCGGAGT
* * * ** * * * *
18960841 AGGTTGAAGATTGCAGAT-TCTGTCCCCCTAAGTA-AT---AGTGGAGCAGATCGAAGATGGC-G
1 AGATCGAAGATAGCAGATCT-TGTCTTCCT--GTATTTGGCAGCGGAGTAGATCGAAGATAGCAG
* * * * * ** **
18960900 AATCTTATCTTCCCAAG-ATAGTGG-A--GAAGCAGATTTAAGCA-ATTAG-TC-TGATC-TCC-
63 -ATCTTGTCTT-CC-TGTAT-TTGGCAGCGGAGTAGATCGAAG-ATAGCAGATCTTG-TCTTCCT
* ** * * **
18960956 CTAAGTAGTAGTAGAGT
122 GTATTTGGCAGCGGAGT
* *
18960973 AGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * * * * * *
18961038 TTGTCTTCCTGTATTTTGTAGCGGAGTAGATCGACGATAGCGGAACTTGTCTTCCTATATTTTGC
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
*
18961103 AGTGGAGT
131 AGCGGAGT
*
18961111 AGATCGAAGATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* *
18961176 TTGTCTTCTTGTATTTGGCAGCGGAGTAGATCGAAGATA-CTAGATCTTGTCTTCCTGTATTTGA
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGC-AGATCTTGTCTTCCTGTATTTGG
* *
18961240 CAACAGAGT
130 CAGCGGAGT
* * * * *
18961249 AGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTTGGTAGCGGAGTAGATCGAAGATGGCAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
*
18961314 TTGTCTTCCTGTATTTGGCAGCGGAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
**
18961379 AGCAAAGT
131 AGCGGAGT
* * * *
18961387 AGATCGAAGAAAGAAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATC
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
*
18961452 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGT
66 TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
18961517 AGCGGAGT
131 AGCGGAGT
* * * *
18961525 AGATCGAAGATAGGAGATCTTGTCTTCCTGTATTTCGCAGCAGAGTAGATCGAAGCTAGCAGAT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGAT
18961589 TCTGTCTCCC
Statistics
Matches: 1327, Mismatches: 202, Indels: 114
0.81 0.12 0.07
Matches are distributed among these distances:
130 3 0.00
131 15 0.01
132 257 0.19
133 11 0.01
134 47 0.04
135 42 0.03
136 13 0.01
137 30 0.02
138 761 0.57
139 2 0.00
144 1 0.00
145 9 0.01
146 4 0.00
147 16 0.01
148 4 0.00
149 4 0.00
150 3 0.00
151 2 0.00
152 15 0.01
153 4 0.00
154 9 0.01
155 1 0.00
160 1 0.00
161 73 0.06
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (138 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
TTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
AGCGGAGT
Found at i:18960286 original size:23 final size:23
Alignment explanation
Indices: 18960260--18960306 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18960250 TCTTGTCTTC
** *
18960260 CTGTATTTGGCAGCGGAGTAGAT
1 CTGTATTTACCAGCAGAGTAGAT
18960283 CTGTATTTACCAGCAGAGTAGAT
1 CTGTATTTACCAGCAGAGTAGAT
18960306 C
1 C
18960307 GAAGATAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (23 bp):
CTGTATTTACCAGCAGAGTAGAT
Found at i:18960328 original size:69 final size:69
Alignment explanation
Indices: 18960224--18960352 Score: 222
Period size: 69 Copynumber: 1.9 Consensus size: 69
18960214 CTATATTTGG
* *
18960224 CAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTAT
1 CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTAT
18960289 TTAC
66 TTAC
**
18960293 CAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC
1 CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC
18960353 GAAGATAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (69 bp):
CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTAT
TTAC
Found at i:18960335 original size:46 final size:46
Alignment explanation
Indices: 18960283--18960588 Score: 420
Period size: 46 Copynumber: 6.7 Consensus size: 46
18960273 CGGAGTAGAT
** *
18960283 CTGTATTTACCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTC
18960329 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGA-AGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATA-ACAGATCTTGTCTTC
18960375 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGA-AGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATA-ACAGATCTTGTCTTC
* * *
18960421 CGGTATTTGGCAGCGGAATAGATCGAAGATAGCAGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTC
* ** * *
18960467 CTGTATTTCGCAGTAGAGTAGATCGAAGATAGCAGATCTTGTCTTT
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTC
* * * *
18960513 CTGTATTTGGCAGCGAAGTAGATCAAAGATAGCAGCTCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTC
* *
18960559 CTGTATTTCGTAGCGGAGT-GATCGAAGATA
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATA
18960589 GCATATTCTG
Statistics
Matches: 235, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
45 10 0.04
46 224 0.95
47 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (46 bp):
CTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTC
Found at i:18960373 original size:115 final size:115
Alignment explanation
Indices: 18960178--18960398 Score: 370
Period size: 115 Copynumber: 1.9 Consensus size: 115
18960168 CTATATTTGG
* *
18960178 CAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGA
1 CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGA
*
18960243 TAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTATTTAC
66 TAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTATTTAC
** * **
18960293 CAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGA
1 CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGA
18960358 TAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC
66 TAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC
18960399 GAAGATAGAA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 98 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (115 bp):
CAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGA
TAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCTGTATTTAC
Found at i:18960406 original size:161 final size:161
Alignment explanation
Indices: 18960137--18960444 Score: 517
Period size: 161 Copynumber: 1.9 Consensus size: 161
18960127 TTTCGCAACG
* *
18960137 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCA
1 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
* *
18960202 GATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATT
66 GATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGATCTTGTCTTCCGGTATT
*
18960267 TGGCAGCGGAGTAGATCTGTATTTACCAGCA
131 TGGCAGCGGAATAGATCTGTATTTACCAGCA
* **
18960298 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGAA
1 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
* **
18960363 GATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCGGTATT
66 GATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGATCTTGTCTTCCGGTATT
18960428 TGGCAGCGGAATAGATC
131 TGGCAGCGGAATAGATC
18960445 GAAGATAGCA
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
161 136 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (161 bp):
GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
GATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGATCTTGTCTTCCGGTATT
TGGCAGCGGAATAGATCTGTATTTACCAGCA
Found at i:18960431 original size:207 final size:207
Alignment explanation
Indices: 18960076--18960490 Score: 616
Period size: 207 Copynumber: 2.0 Consensus size: 207
18960066 TCTTGTCTTC
* * *
18960076 CTGTATTTAGCAACGGAGAAGATCGAAGATAGAAGATCTTATCTTCCTCTTTTTCGCAACGGAGT
1 CTGTATTTACCAACAGAGAAGATCGAAGATAGAAGATCTTATCTTCCTCTATTTCGCAACGGAGT
* *
18960141 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATC
66 AGATCGAAGATAGAAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGATC
* * *
18960206 TTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
131 TTGTCTTCCGATATTTGGCAGCGGAATAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTCGC
*
18960271 AGCGGAGTAGAT
196 AGCAGAGTAGAT
* * * * * *
18960283 CTGTATTTACCAGCAGAGTAGATCGAAGATA-ACAGATCTTGTCTTCCTGTATTTGGCAGCGGAG
1 CTGTATTTACCAACAGAGAAGATCGAAGATAGA-AGATCTTATCTTCCTCTATTTCGCAACGGAG
* **
18960347 TAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGAAGAT
65 TAGATCGAAGATAGAAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGAT
* **
18960412 CTTGTCTTCCGGTATTTGGCAGCGGAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTCG
130 CTTGTCTTCCGATATTTGGCAGCGGAATAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTCG
*
18960477 CAGTAGAGTAGAT
195 CAGCAGAGTAGAT
18960490 C
1 C
18960491 GAAGATAGCA
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
206 1 0.01
207 184 0.99
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (207 bp):
CTGTATTTACCAACAGAGAAGATCGAAGATAGAAGATCTTATCTTCCTCTATTTCGCAACGGAGT
AGATCGAAGATAGAAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAAGATC
TTGTCTTCCGATATTTGGCAGCGGAATAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTCGC
AGCAGAGTAGAT
Found at i:18960732 original size:132 final size:132
Alignment explanation
Indices: 18960582--18960990 Score: 660
Period size: 132 Copynumber: 3.1 Consensus size: 132
18960572 CGGAGTGATC
* * * *
18960582 GAAGATAGCATATTCTGTCTCCCTAAGCAGTAATGGAGCAGATCGAAGATGGCGAATCTTATCTT
1 GAAGATAGCAGATTCTGTCCCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTT
* *
18960647 CCCAAGATAATGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGG
66 CCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGTGGAGTAGG
18960712 TT
131 TT
* * *
18960714 GAAGATGGCAGATTCTGTCCCCCTAAGAAGTAGTGGAGAAGATCGAACATGGCGAATCTTATCTT
1 GAAGATAGCAGATTCTGTCCCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTT
*
18960779 CCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGTAGTAGTGGAGTAGG
66 CCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGTGGAGTAGG
18960844 TT
131 TT
*
18960846 GAAGATTGCAGATTCTGTCCCCCTAAGTAA-TAGTGGAGCAGATCGAAGATGGCGAATCTTATCT
1 GAAGATAGCAGATTCTGTCCCCCTAAG-AAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCT
* * *
18960910 TCCCAAGATAGTGGAGAAGCAGATTTAAGCAATTAGT-CTGATCTCCCTAAGTAGTAGTAGAGTA
65 TCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCCT-ATCTCCCTAAGTAGTAGTGGAGTA
18960974 GGTT
129 GGTT
18960978 GAAGATAGCAGAT
1 GAAGATAGCAGAT
18960991 CTTGTCTTCC
Statistics
Matches: 257, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 254 0.99
133 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
GAAGATAGCAGATTCTGTCCCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTT
CCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGTGGAGTAGG
TT
Found at i:18960873 original size:44 final size:45
Alignment explanation
Indices: 18960685--18960908 Score: 142
Period size: 44 Copynumber: 5.1 Consensus size: 45
18960675 CCATTAGTCC
* * *
18960685 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATGGCAGATTC-
1 TATCCCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATTCT
* * * * * *
18960729 TGTCCCCCTAAGAAGTAGTGGAGAAGATCGAACATGGC-GAATCT
1 TATCCCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATTCT
* * * * * *
18960773 TATCTTCCC-AAGATAGTGGAGAAGTAGATTTAAGCCAT--TAG--TCT
1 TATC-CCCCTAAG-TAGTAGTGGAGTAGATTGAAG--ATGGCAGATTCT
* * *
18960817 TATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-
1 TATCCCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATTCT
* * * * *
18960861 TGTCCCCCTAAGTAATAGTGGAGCAGATCGAAGATGGC-GAATCT
1 TATCCCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATTCT
18960905 TATC
1 TATC
18960909 TTCCCAAGAT
Statistics
Matches: 134, Mismatches: 34, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
43 30 0.22
44 81 0.60
45 18 0.13
46 1 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (45 bp):
TATCCCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATTCT
Found at i:18961595 original size:46 final size:46
Alignment explanation
Indices: 18960969--18961588 Score: 936
Period size: 46 Copynumber: 13.5 Consensus size: 46
18960959 AGTAGTAGTA
* *
18960969 GAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* *
18961015 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTTGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * * * * *
18961061 GAGTAGATCGACGATAGCGGAACTTGTCTTCCTATATTTTGCAGTG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961107 GAGTAGATCGAAGATAGCAAATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961153 GAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
18961199 GAGTAGATCGAAGATA-CTAGATCTTGTCTTCCTGTATTTGACAACA
1 GAGTAGATCGAAGATAGC-AGATCTTGTCTTCCTGTATTTGGCAGCG
* * * *
18961245 GAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTTGGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961291 GAGTAGATCGAAGATGGCAGATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* *
18961337 GAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCA
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * * *
18961383 AAGTAGATCGAAGAAAGAAGATCTTGTCTTCTTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961429 GAGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961475 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
18961521 GAGTAGATCGAAGATAGGAGATCTTGTCTTCCTGTATTTCGCAGCA
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
18961567 GAGTAGATCGAAGCTAGCAGAT
1 GAGTAGATCGAAGATAGCAGAT
18961589 TCTGTCTCCC
Statistics
Matches: 516, Mismatches: 56, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 515 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (46 bp):
GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
Found at i:18961872 original size:44 final size:45
Alignment explanation
Indices: 18961808--18962146 Score: 204
Period size: 44 Copynumber: 7.7 Consensus size: 45
18961798 AAGCCATTAG
* *
18961808 TCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAAATTGCAGAT
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
* * * ** *
18961853 TC-TATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAA
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
* * * * * *
18961896 TCTTATCTTCCCATAA-TAGTGGAGAAGCAGATTTAAGCCATT--AG--
1 TCTTATC--CCCCTAAGTAGTAGTGGAGCAGATTGAA--AATTGCAGAT
* *
18961940 TCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAAATTGCAGAT
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
* * * * * ** *
18961985 TC-TATCCCCCTGAGCAGTGGTGGAGCAGATCGAAGA-TGGTGAA
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
* * * * * *
18962028 TCTTATCTTCCCATAA-TAGTGGAGAAGCAGATTTAAGCCATT--AG--
1 TCTTATC--CCCCTAAGTAGTAGTGGAGCAGATTGAA--AATTGCAGAT
* *
18962072 TCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAAATTGCAGAT
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
*
18962117 TC-TATCCCCCTAAGCAGTAGTGGAGCAGAT
1 TCTTATCCCCCTAAGTAGTAGTGGAGCAGAT
18962147 CGAAGATGGT
Statistics
Matches: 217, Mismatches: 55, Indels: 45
0.68 0.17 0.14
Matches are distributed among these distances:
41 6 0.03
42 10 0.05
43 46 0.21
44 103 0.47
45 35 0.16
46 13 0.06
47 2 0.01
48 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCCCCCTAAGTAGTAGTGGAGCAGATTGAAAATTGCAGAT
Found at i:18962216 original size:88 final size:87
Alignment explanation
Indices: 18961854--18962229 Score: 230
Period size: 88 Copynumber: 4.3 Consensus size: 87
18961844 ATTGCAGATT
*
18961854 CTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCATAATAGTGGA
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATC-TCCCATAATAGTGGA
* *
18961919 GAAGCAGATTTAAGCCATTAGTC
65 GAAGCAGATTGAAGTCATTAGTC
* * * * * ** * * **
18961942 TTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAAATTGCAGATTC-TATC-CCCCTGAGCAGTGG
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTTATCTCCCAT-AATAGTGG
* * * ** * *
18962005 TGGAGCAGATCGAAGATGGTGAATC
64 AGAAGCAGATTGAAG-TCATTAGTC
* * * * * ** *
18962030 TTATCTTCCCATAA-TAGTGGAGAAGCAGATTTAAGCCAT--T-AGTCTTATCTCCC-TAAGTAG
1 CTATC-TCCC-TAAGCAGTAGTGGAGCAGATCGAAG--ATGGTGAATCTTATCTCCCATAA-TAG
* * * * * *
18962090 TAGTGGAGTAGATTGAA--AATTGCAGATT
61 TGGAGAAGCAGATTGAAGTCATT--AG-TC
*
18962118 CTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCATAATAGTGGA
1 CTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATC-TCCCATAATAGTGGA
*
18962183 GAAGCAGATTTAAGTCATTAGTC
65 GAAGCAGATTGAAGTCATTAGTC
*
18962206 CAATCTCCCTAAGCAGTAGTGGAG
1 CTATCTCCCTAAGCAGTAGTGGAG
18962230 TAGGTTGAAG
Statistics
Matches: 210, Mismatches: 57, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
85 3 0.01
86 7 0.03
87 41 0.20
88 99 0.47
89 49 0.23
90 7 0.03
91 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (87 bp):
CTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCCATAATAGTGGAG
AAGCAGATTGAAGTCATTAGTC
Found at i:18962560 original size:132 final size:132
Alignment explanation
Indices: 18961583--18962542 Score: 1299
Period size: 132 Copynumber: 7.3 Consensus size: 132
18961573 ATCGAAGCTA
* * * **
18961583 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGGAGATCGAAGATGGCAAATCTTATCTTCCCAAGA
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
* * * * * *
18961648 TAATGGAGAAGAAGATTTAAGCCATTAGTCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTGATGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
*
18961713 TG
131 TT
* * * *
18961715 GCAGATTCT-GCACCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCGAATCTTATCTTCCCAAG
1 GCAGATTCTATC-CCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAG
* *
18961779 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAA
65 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAA
18961844 -ATT
129 GATT
18961847 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCATA-
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCA-AG
* *
18961911 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAA
65 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAA
18961976 -ATT
129 GATT
* *
18961979 GCAGATTCTATCCCCCTGAGCAGTGGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCATA-
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCA-AG
* *
18962043 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAA
65 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAA
18962108 -ATT
129 GATT
18962111 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCATA-
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCA-AG
* ** *
18962175 ATAGTGGAGAAGCAGATTTAAGTCATTAGTCCAATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAG
65 ATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAG
18962240 ATT
130 ATT
* * * * *
18962243 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTGAATCTTATCTTCCGAGGA
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
* * * * *
18962308 TAGTGAAGAAGCAAATTTAATCCATTAGTCATATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
18962373 TT
131 TT
* * * ** * * * *
18962375 GTAGATTTTGTATCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCTCAAGA
1 GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
*
18962440 TAGTGGAGAAGCTGATTTAAGCCATTAGTAC-TATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAG
66 TAGTGGAGAAGCAGATTTAAGCCATTAGT-CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAG
18962504 ATT
130 ATT
* * * * *
18962507 G-TGAATCCTATCTCTCTAAGCAGTAGTAGAGCAGAT
1 GCAG-ATTCTATCCCCCTAAGCAGTAGTGGAGCAGAT
18962543 AAAAAACAGC
Statistics
Matches: 757, Mismatches: 63, Indels: 16
0.91 0.08 0.02
Matches are distributed among these distances:
131 4 0.01
132 749 0.99
133 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (132 bp):
GCAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
TAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
TT
Found at i:18964785 original size:109 final size:109
Alignment explanation
Indices: 18964587--18964908 Score: 470
Period size: 109 Copynumber: 3.0 Consensus size: 109
18964577 AAGGAAAATT
* *
18964587 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
18964652 CGATTTTTCTCGTTCAACCGAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* *
18964696 TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
18964761 CGATTTTTCTCGTTCGATCAAATAGCCAAATATCCTTTT-AAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* * * * * *
18964804 TTTCGAAATAAGACAATATTTTACGTTTAGAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
18964869 CGA--TTTCTTGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAA
18964909 TTTTAATCCA
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
106 29 0.15
107 2 0.01
108 64 0.34
109 96 0.50
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:18966590 original size:20 final size:20
Alignment explanation
Indices: 18966565--18966615 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
18966555 TTATGCTAAG
18966565 TAAATGGAATGAAAAGTAAA
1 TAAATGGAATGAAAAGTAAA
* *
18966585 TAAAT-GAAGTGGAAAGTAAG
1 TAAATGGAA-TGAAAAGTAAA
18966605 TAAATGGAATG
1 TAAATGGAATG
18966616 GTTCATCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (20 bp):
TAAATGGAATGAAAAGTAAA
Found at i:18970621 original size:6 final size:6
Alignment explanation
Indices: 18970610--18970640 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
18970600 GTGAAATTTA
18970610 TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT T
1 TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT T
18970641 AAGAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTAT
Found at i:18972577 original size:175 final size:176
Alignment explanation
Indices: 18972279--18972630 Score: 661
Period size: 175 Copynumber: 2.0 Consensus size: 176
18972269 TATGGGGACC
* *
18972279 AATTGTGTAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGTATACC
1 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
*
18972344 GTTATACCGTTAATGACAATTAATAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
66 GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
18972409 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACC-GAA
131 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTGAA
18972454 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
1 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
*
18972519 GTTATACCGTTAATGATAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
66 GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
18972584 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTGAA
131 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTGAA
18972630 A
1 A
18972631 CAAACAAAAG
Statistics
Matches: 172, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
175 168 0.98
176 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (176 bp):
AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTGAA
Found at i:18972726 original size:32 final size:34
Alignment explanation
Indices: 18972689--18972765 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
18972679 TATAATTTAG
*
18972689 TAAAAATTATTTAGAAAATT-TTAATA-TTTA-TT
1 TAAAAATTATTTA-AAAATTGTTAAAATTTTATTT
18972721 TAAAAA-TATATTAAAAATTGTTAAAATTTTATTT
1 TAAAAATTAT-TTAAAAATTGTTAAAATTTTATTT
*
18972755 TTAAAATTATT
1 TAAAAATTATT
18972766 ATAATTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 9 0.24
32 14 0.37
33 4 0.11
34 8 0.21
35 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TAAAAATTATTTAAAAATTGTTAAAATTTTATTT
Found at i:18973121 original size:51 final size:51
Alignment explanation
Indices: 18973065--18973167 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
18973055 CTAACATCAC
18973065 ATATTTATTTGGTAAAACATTATCTGTTCTTTTTAGCGTATGACAGATTTT
1 ATATTTATTTGGTAAAACATTATCTGTTCTTTTTAGCGTATGACAGATTTT
18973116 ATATTTATTTGGTAAAACATTATCTGTTCTTTTTAGCGTATGACAGATTTT
1 ATATTTATTTGGTAAAACATTATCTGTTCTTTTTAGCGTATGACAGATTTT
18973167 A
1 A
18973168 AGTATCGCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.49
Consensus pattern (51 bp):
ATATTTATTTGGTAAAACATTATCTGTTCTTTTTAGCGTATGACAGATTTT
Found at i:18975817 original size:21 final size:21
Alignment explanation
Indices: 18975793--18975833 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18975783 TTTTACAATT
*
18975793 TAATCTTTATGTTTTAATTAA
1 TAATCTTTATGATTTAATTAA
* *
18975814 TAATTTTTTTGATTTAATTA
1 TAATCTTTATGATTTAATTA
18975834 TTCAACCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TAATCTTTATGATTTAATTAA
Found at i:18980085 original size:21 final size:21
Alignment explanation
Indices: 18980040--18980086 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18980030 AAATAATAAA
*
18980040 GTAG-ATTATATATTATTTTT
1 GTAGTATTATATATTATATTT
18980060 GTAGTATTATATATTATGATTT
1 GTAGTATTATATATTAT-ATTT
18980082 -TAGTA
1 GTAGTA
18980087 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (21 bp):
GTAGTATTATATATTATATTT
Found at i:18980165 original size:58 final size:57
Alignment explanation
Indices: 18980069--18980233 Score: 183
Period size: 58 Copynumber: 2.9 Consensus size: 57
18980059 TGTAGTATTA
* * *
18980069 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAAT
* * *
18980127 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
* * *
18980184 TATTTATTACTTTTATAAAATTATTTTTAATAATAATCT-TATTAAAATTT
1 TATATATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
18980234 AATAACAATA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
56 3 0.03
57 33 0.36
58 55 0.60
59 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
Found at i:18980420 original size:16 final size:17
Alignment explanation
Indices: 18980399--18980438 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
18980389 TGAATTACTG
*
18980399 ATTACAGT-TTTATTCA
1 ATTACAGTCTCTATTCA
18980415 ATTACA-TCTCTATTCA
1 ATTACAGTCTCTATTCA
18980431 ATTACAGT
1 ATTACAGT
18980439 GAACCAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTACAGTCTCTATTCA
Found at i:18980641 original size:20 final size:22
Alignment explanation
Indices: 18980616--18980655 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18980606 GGCTGCGTAC
18980616 TGTTT-GG-GAGTTGATTTTAT
1 TGTTTGGGCGAGTTGATTTTAT
18980636 TGTTTGGGCGAGTTGATTTT
1 TGTTTGGGCGAGTTGATTTT
18980656 GTGTAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.53
Consensus pattern (22 bp):
TGTTTGGGCGAGTTGATTTTAT
Found at i:18991224 original size:20 final size:20
Alignment explanation
Indices: 18991199--18991243 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18991189 TTAACTTTTA
18991199 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAATGATTTC
* **
18991219 AATCAAGTTAGAATTTTTTC
1 AATCAAGTTAAAATGATTTC
18991239 AATCA
1 AATCA
18991244 GTAAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (20 bp):
AATCAAGTTAAAATGATTTC
Found at i:18996255 original size:62 final size:58
Alignment explanation
Indices: 18996180--18996305 Score: 137
Period size: 62 Copynumber: 2.1 Consensus size: 58
18996170 ATAATTTTAT
** * * *
18996180 TTTAAT-AGATTAATATTTAATTTAATTTAATGTTTATCTTATACATAAATATTCTATTAA
1 TTTAATAAGATTAATATGAAATTTAATCTAATATTTATC-T-T-CATAAATATTATATTAA
* * *
18996240 TTTAATAAGATTTAATGTGAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAA
1 TTTAATAAGA-TTAATATGAAATTTAATCTAATATTTATCTTCATAAATATTATATTAA
18996299 TTTAATA
1 TTTAATA
18996306 TTAAAGTGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 21 0.38
60 7 0.12
61 4 0.07
62 24 0.43
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (58 bp):
TTTAATAAGATTAATATGAAATTTAATCTAATATTTATCTTCATAAATATTATATTAA
Found at i:18997786 original size:73 final size:73
Alignment explanation
Indices: 18997662--18997837 Score: 223
Period size: 73 Copynumber: 2.4 Consensus size: 73
18997652 AAAATAAGAA
* * * *
18997662 TTAGCGGCATTTTCCAA-AAAGCGCCGCCAAGA-ACCTAAGCCCAACGACGCCGTTTACC-GAGC
1 TTAGCGGCGTTTT-TAAGAAAGCGCCGCTAAAAGACCTAAGCCCAACGACGCCGTTT-CCTGAGC
* *
18997724 TTTTGGGGAT
64 TGTCGGGGAT
** * *
18997734 TTAGCGGCGTTTTTGGGAAAGCGCTGCTAAAAGACCTAAGCCCAACGGCGCCGTTTCCTGAGCTG
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAAAAGACCTAAGCCCAACGACGCCGTTTCCTGAGCTG
18997799 TCGGGGAT
66 TCGGGGAT
18997807 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAAA
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAAA
18997838 GCTCAAGGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
72 26 0.30
73 62 0.70
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (73 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCTAAAAGACCTAAGCCCAACGACGCCGTTTCCTGAGCTG
TCGGGGAT
Found at i:18997885 original size:114 final size:114
Alignment explanation
Indices: 18997730--18998172 Score: 471
Period size: 114 Copynumber: 3.9 Consensus size: 114
18997720 GAGCTTTTGG
* * * * * *
18997730 GGATTTAGCGGCGTTTTTGGGAAAGCGCTGCTAAAAGACCTAAGCCCAACGGCGCCGTTTCCTGA
1 GGATTTAGCGGCATTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGA
* *
18997795 GCTGTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAAAGCTCAA
66 GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
* ** * ** * *
18997844 GGATTTATCGGCATTTTTTGGAAAGCGCCGGTAAAAAACCTAAGCACAACTACGTCGTTTTCTCA
1 GGATTTAGCGGCATTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGA
* * * * * * * *
18997909 GCTTTCGAGGATATAGCAGCGCTTTCAAGAAAGCGCCACTAATGTTCAG
66 GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
* * * * * *
18997958 GGCTTTAGCGGC-GTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAATGGCACCTTTTTCTG
1 GGATTTAGCGGCATTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTG
* * *
18998022 AGCTTTCGGGGATTTACCGGCGTTTGTACGAAAGCGCCGCTAATGCTC-A
65 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
* * * * *
18998071 GGTCTTTAGCGGCA-TTCTTGGAAAAGCGCCACAAAAAAAACTAAGCCCAACGGTGCCGTTTTCT
1 GG-ATTTAGCGGCATTTTTTGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCT
*
18998135 GAGCTTTCGGGGATTAAGCGGCGTTTTTTAA-AAAGCGC
64 GAGCTTTCGGGGATTTAGCGGCG-TTTTTAAGAAAGCGC
18998173 TGCAAAAAAA
Statistics
Matches: 265, Mismatches: 59, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
113 9 0.03
114 251 0.95
115 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (114 bp):
GGATTTAGCGGCATTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGA
GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAA
Found at i:18998172 original size:228 final size:228
Alignment explanation
Indices: 18997733--18998148 Score: 548
Period size: 228 Copynumber: 1.8 Consensus size: 228
18997723 CTTTTGGGGA
* * * * * *
18997733 TTTAGCGGCGTTTTTGGGAAAGCGCTGCTAAAAGACCTAAGCCCAACGGCGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTCCTGAGCT
* * * *
18997798 GTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAAAGCTCAAGGATTTATCGGCATTTTTT
66 GTCGGGGATTTACCGGCGTTTGTAAGAAAGCGCCGCTAAAGCTCAAGGATTTAGCGGCATTTCTT
*** * * *
18997863 GGAAAGCGCCGGTAAAAAACCTAAGCACAACTACGTCGTTTTCTCAGCTTTCGAGGATATAGCAG
131 GGAAAGCGCCACAAAAAAAACTAAGCACAACGACGCCGTTTTCTCAGCTTTCGAGGATATAGCAG
18997928 CGCTTTCAAGAAAGCGCCACTAATGTTCAGGGC
196 CGCTTTCAAGAAAGCGCCACTAATGTTCAGGGC
* * *
18997961 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAATGGCACCTTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTCCTGAGCT
* * * *
18998026 TTCGGGGATTTACCGGCGTTTGTACGAAAGCGCCGCTAATGCTC-AGGTCTTTAGCGGCA-TTCT
66 GTCGGGGATTTACCGGCGTTTGTAAGAAAGCGCCGCTAAAGCTCAAGG-ATTTAGCGGCATTTCT
* ** * *
18998089 TGGAAAAGCGCCACAAAAAAAACTAAGCCCAACGGTGCCGTTTTCTGAGCTTTCGGGGAT
130 TGG-AAAGCGCCACAAAAAAAACTAAGCACAACGACGCCGTTTTCTCAGCTTTCGAGGAT
18998149 TAAGCGGCGT
Statistics
Matches: 158, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
227 9 0.06
228 149 0.94
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTCCTGAGCT
GTCGGGGATTTACCGGCGTTTGTAAGAAAGCGCCGCTAAAGCTCAAGGATTTAGCGGCATTTCTT
GGAAAGCGCCACAAAAAAAACTAAGCACAACGACGCCGTTTTCTCAGCTTTCGAGGATATAGCAG
CGCTTTCAAGAAAGCGCCACTAATGTTCAGGGC
Found at i:18998208 original size:187 final size:190
Alignment explanation
Indices: 18997964--18998359 Score: 530
Period size: 187 Copynumber: 2.1 Consensus size: 190
18997954 TCAGGGCTTT
* * * *
18997964 AGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAATGGCACCTTTTTCTGAGCTTTC
1 AGCGGCGTTTTTTAAAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTTCTGAGCTTTC
* * * *
18998029 GGGGATTTACCGGCGTTTGTACGAAAGCGCCGCTAATGCTCAGGTC-TTTAGCGG-CATTCTTGG
66 AGGGATTTACCGGCCTTTGTACGAAAGCGCCGCTAATGATCAGGGCTTTTAGCGGTCATTCTTGG
** *
18998092 AAAAGCGCCAC-AAAAAAAACTAAGCCCAACGGTGCCGTTTTCTG-AGCTTTCGGGGATTA
131 AAAAGCGCCACAAAAAAAAACTAAGCCCAACGGCACCGTTTTCGGTA-CTTTCGGGGATTA
* *
18998151 AGCGGCGTTTTTTAAAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCGTTTTCTGAGCTTTC
1 AGCGGCGTTTTTTAAAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTTCTGAGCTTTC
** * * ** *
18998216 AGGGATTTAGTGGCCTTTTTATGAAAGCGCCGCTAATGATCAGGGCTTTTAGCGGTGTTTTTTGG
66 AGGGATTTACCGGCCTTTGTACGAAAGCGCCGCTAATGATCAGGGCTTTTAGCGGTCATTCTTGG
* * *
18998281 GAAAGCGCCGCAAAAAAAAACTAAGCCCAACGGCACCGTTTTCGGTACTTTCGGGGATTT
131 AAAAGCGCCACAAAAAAAAACTAAGCCCAACGGCACCGTTTTCGGTACTTTCGGGGATTA
*
18998341 AGCGGCATTTTTTAGAAAA
1 AGCGGCGTTTTTTA-AAAA
18998360 CGCCTCTAAT
Statistics
Matches: 180, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
187 97 0.54
188 8 0.04
189 15 0.08
190 55 0.31
191 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (190 bp):
AGCGGCGTTTTTTAAAAAGCACCGCAAAAAAACCTAAGCCCAACGGCACCGTTTTCTGAGCTTTC
AGGGATTTACCGGCCTTTGTACGAAAGCGCCGCTAATGATCAGGGCTTTTAGCGGTCATTCTTGG
AAAAGCGCCACAAAAAAAAACTAAGCCCAACGGCACCGTTTTCGGTACTTTCGGGGATTA
Found at i:18998245 original size:73 final size:73
Alignment explanation
Indices: 18998092--18998235 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 73
18998082 GCATTCTTGG
** *
18998092 AAAAGCGCCACAAAAAAAACTAAGCCCAACGGTGCCGTTTTCTGAGCTTTCGGGGATTAAGCGGC
1 AAAAGCGCCACAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGGATTAAGCGGC
*
18998157 GTTTTTTA
66 CTTTTTTA
** * * *
18998165 AAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGGATTTAGTGGC
1 AAAAGCGCCACAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGGATTAAGCGGC
18998230 CTTTTT
66 CTTTTT
18998236 ATGAAAGCGC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (73 bp):
AAAAGCGCCACAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCAGGGATTAAGCGGC
CTTTTTTA
Found at i:18998676 original size:37 final size:36
Alignment explanation
Indices: 18998618--18998705 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 36
18998608 GGATTTAAGG
* *
18998618 TTTATGGGTTAGGTGTTATGCTTTAGGGGTTAGGAGA
1 TTTA-GGGTTAGGGGTTATGCTTTAGAGGTTAGGAGA
*
18998655 TTTAGGGATTAGGGGTTATGCTTTAGAGGTTAGGGGA
1 TTTAGGG-TTAGGGGTTATGCTTTAGAGGTTAGGAGA
18998692 TTTAGGGGTTAGGG
1 TTTA-GGGTTAGGG
18998706 TTTCAACGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 3 0.07
37 40 0.87
38 3 0.07
ACGTcount: A:0.19, C:0.02, G:0.41, T:0.38
Consensus pattern (36 bp):
TTTAGGGTTAGGGGTTATGCTTTAGAGGTTAGGAGA
Found at i:18998705 original size:16 final size:16
Alignment explanation
Indices: 18998639--18998705 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
18998629 GGTGTTATGC
*
18998639 TTTAGGGGTTAGGAGA
1 TTTAGGGGTTAGGGGA
*
18998655 TTTAGGGATTAGGGGTTA
1 TTTAGGGGTTAGGGG--A
*
18998673 TGCTTTAGAGGTTAGGGGA
1 ---TTTAGGGGTTAGGGGA
18998692 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
18998706 TTTCAACGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 26 0.63
18 1 0.02
19 1 0.02
21 13 0.32
ACGTcount: A:0.21, C:0.01, G:0.43, T:0.34
Consensus pattern (16 bp):
TTTAGGGGTTAGGGGA
Found at i:18998797 original size:7 final size:7
Alignment explanation
Indices: 18998787--18998820 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
18998777 TAATGTCTAT
18998787 GGTTTAG
1 GGTTTAG
*
18998794 GGTTTAA
1 GGTTTAG
18998801 GGTTTAG
1 GGTTTAG
18998808 GGTTTAG
1 GGTTTAG
18998815 GGTTTA
1 GGTTTA
18998821 TGGTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:18998799 original size:21 final size:21
Alignment explanation
Indices: 18998775--18998820 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
18998765 AAATTTAAGA
* *
18998775 TTTAATGTCTATGGTTTAGGG
1 TTTAAGGTCTAGGGTTTAGGG
*
18998796 TTTAAGGTTTAGGGTTTAGGG
1 TTTAAGGTCTAGGGTTTAGGG
18998817 TTTA
1 TTTA
18998821 TGGTATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAAGGTCTAGGGTTTAGGG
Found at i:18998889 original size:20 final size:20
Alignment explanation
Indices: 18998866--18998916 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18998856 TCTGTTAGAT
18998866 TTTGAGTTTGGGGTTTAAGG
1 TTTGAGTTTGGGGTTTAAGG
* * *
18998886 TTTGAGTTAAGGGTTTTAGGG
1 TTTGAGTT-TGGGGTTTAAGG
18998907 TTT-AGTTTGG
1 TTTGAGTTTGG
18998917 AAATTGAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 12 0.46
21 12 0.46
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (20 bp):
TTTGAGTTTGGGGTTTAAGG
Found at i:18999184 original size:15 final size:15
Alignment explanation
Indices: 18999166--18999199 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18999156 GTTGGTTGTT
*
18999166 GGTTTTAGGGTTTAG
1 GGTTTAAGGGTTTAG
18999181 GGTTTAAGGGTTTAG
1 GGTTTAAGGGTTTAG
18999196 GGTT
1 GGTT
18999200 AGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (15 bp):
GGTTTAAGGGTTTAG
Found at i:18999190 original size:8 final size:7
Alignment explanation
Indices: 18999169--18999199 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
18999159 GGTTGTTGGT
18999169 TTTAGGG
1 TTTAGGG
18999176 TTTAGGG
1 TTTAGGG
18999183 TTTAAGGG
1 TTT-AGGG
18999191 TTTAGGG
1 TTTAGGG
18999198 TT
1 TT
18999200 AGATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:18999255 original size:15 final size:16
Alignment explanation
Indices: 18999237--18999269 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18999227 AGATAAATAT
*
18999237 AAAATAT-TATTTCAA
1 AAAATATATATATCAA
18999252 AAAATATATATATCAA
1 AAAATATATATATCAA
18999268 AA
1 AA
18999270 TGGGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATATATATCAA
Found at i:19000086 original size:115 final size:114
Alignment explanation
Indices: 18999595--19000177 Score: 923
Period size: 114 Copynumber: 5.1 Consensus size: 114
18999585 GCGCTTCAGC
* * *
18999595 AAAAACGCCGCTAAAGGTGATGTATTACCAGCATTTTATGAAGAAACGCTGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
* * *
18999660 GCGTAATAGAGACGGTGCCTTTTTTTGTTTTCTTTTAGTGGCGCATTTT
66 GTGTAACAGAGACGGTGCCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
* *
18999709 AAAAACGCCACTAAAGGTGATGTATTATCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
* * *
18999774 GTGTAACAGAGATGGTGTCGTTTTTTGTTTTCTTTTAGTGGCGCCTTTT
66 GTGTAACAGAGACGGTGCCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
* *
18999823 AAAAATGCCGCTAAAGGTGATGTATTACCGGCGTTTAATGAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
* *
18999888 GTGTAATAGAGACAGTGCCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
66 GTGTAACAGAGACGGTGCCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
* *
18999937 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAATGCCACAAATTTCCTTTAA
1 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
19000002 GTGTAACAGAGACGGTGCCGTTTTTATGTTTTCTTTTAGTGGCGCATTTT
66 GTGTAACAGAGACGGTGCCGTTTTT-TGTTTTCTTTTAGTGGCGCATTTT
* * * *
19000052 AAAAATGCTGCTAAAGGTGATGTATTACCGGCGTTTTACGAAGAAGCGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
* ** *
19000117 GTGTAACAAAGACGGTGACATTTTTTTGTTTTCTTTTAGTGGCGCATTTA
66 GTGTAACAGAGACGGTG-CCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
19000167 AAAAACGCCGC
1 AAAAACGCCGC
19000178 AAATATTTAT
Statistics
Matches: 429, Mismatches: 38, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
114 292 0.68
115 131 0.31
116 6 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (114 bp):
AAAAACGCCGCTAAAGGTGATGTATTACCGGCGTTTTATGAAGAAACGCCGCAAATTTCCTTTAA
GTGTAACAGAGACGGTGCCGTTTTTTGTTTTCTTTTAGTGGCGCATTTT
Found at i:19000656 original size:173 final size:175
Alignment explanation
Indices: 19000381--19000713 Score: 553
Period size: 173 Copynumber: 1.9 Consensus size: 175
19000371 CATTATATCG
* * * *
19000381 AAACTTAAACGCCAACTTAAACGTGACTTATCCCTCAAAATTCCATCCTCCCCCAAATCCCTAAA
1 AAACTTAAACCCCAACTTAAACGTGACTTATCCCCCAAAATCCCATCCTCCCCCAAATCCCCAAA
*
19000446 ATTTCCTCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCCTCTGGCGCAT
66 ATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCCTCTGGCGCAT
*
19000511 CACCGTCTCCGTCCGTTGGTCTCCTCTGCCCCATACATTTTTCCA
131 CACCGTCTCCGTCCGTCGGTCTCCTCTGCCCCATACATTTTTCCA
* * *
19000556 AAACTTAAACCCCAAC-T-ATCGTGACTTATCCCCCAAAATCCCATTCTCCCCCAAGTCCCCAAA
1 AAACTTAAACCCCAACTTAAACGTGACTTATCCCCCAAAATCCCATCCTCCCCCAAATCCCCAAA
* *
19000619 ATTTCCCCTAATCCATATTTCCCCAAACCCGACCTCTTGCGACGTTGCCGTTTCCTCTGGCGCAT
66 ATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCCTCTGGCGCAT
19000684 CACCGTCTCCGTCCGTCGGTCTCCTCTGCC
131 CACCGTCTCCGTCCGTCGGTCTCCTCTGCC
19000714 GTAACAATCG
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 131 0.89
174 1 0.01
175 15 0.10
ACGTcount: A:0.22, C:0.40, G:0.11, T:0.27
Consensus pattern (175 bp):
AAACTTAAACCCCAACTTAAACGTGACTTATCCCCCAAAATCCCATCCTCCCCCAAATCCCCAAA
ATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCCTCTGGCGCAT
CACCGTCTCCGTCCGTCGGTCTCCTCTGCCCCATACATTTTTCCA
Found at i:19001771 original size:9 final size:9
Alignment explanation
Indices: 19001757--19001815 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
19001747 CTTAATTTAA
*
19001757 TACATAATT
1 TACATAACT
19001766 TACATAACT
1 TACATAACT
*
19001775 CACATAACT
1 TACATAACT
* *
19001784 TACAAAAGT
1 TACATAACT
* *
19001793 CACAT-ACA
1 TACATAACT
19001801 TACATAACT
1 TACATAACT
19001810 TA-ATAA
1 TACATAA
19001816 ATGGTACATA
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
8 9 0.24
9 29 0.76
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (9 bp):
TACATAACT
Found at i:19001942 original size:9 final size:9
Alignment explanation
Indices: 19001928--19002258 Score: 206
Period size: 9 Copynumber: 36.7 Consensus size: 9
19001918 TATTGACACA
19001928 TTACATAAC
1 TTACATAAC
19001937 TTACATAA-
1 TTACATAAC
19001945 -TACATAAC
1 TTACATAAC
*
19001953 TTAAATAA-
1 TTACATAAC
*
19001961 ATACATAAC
1 TTACATAAC
19001970 TTACATAA-
1 TTACATAAC
19001978 -TACATAAC
1 TTACATAAC
19001986 TTACATAATAAC
1 TTAC---ATAAC
*
19001998 TTACATAGC
1 TTACATAAC
*
19002007 TTATATAAC
1 TTACATAAC
19002016 TTACATAAC
1 TTACATAAC
*
19002025 TTACATATC
1 TTACATAAC
**
19002034 TTTTATAA-
1 TTACATAAC
19002042 TATATGCATAAC
1 T-TA--CATAAC
* *
19002054 TTATATAAT
1 TTACATAAC
*
19002063 TTACTTAA-
1 TTACATAAC
19002071 -TACATAAC
1 TTACATAAC
*
19002079 TTACATAATAAT
1 TTAC---ATAAC
*
19002091 TTACATAGC
1 TTACATAAC
*
19002100 TTATATAAC
1 TTACATAAC
19002109 TTACATAAC
1 TTACATAAC
*
19002118 TTATATAAC
1 TTACATAAC
*
19002127 TTACATAAT
1 TTACATAAC
19002136 TTAC-TAA-
1 TTACATAAC
*
19002143 ATACATAA-
1 TTACATAAC
* *
19002151 TCAACATATAT
1 T-TACATA-AC
*
19002162 TATATCTTAAC
1 T-TA-CATAAC
19002173 TTACATAATAAC
1 TTAC---ATAAC
*
19002185 TTACATAGC
1 TTACATAAC
*
19002194 TTATATAAC
1 TTACATAAC
19002203 TTACATAA-
1 TTACATAAC
19002211 -TACATAAC
1 TTACATAAC
*
19002219 CTACATAAC
1 TTACATAAC
*
19002228 TTATATAAC
1 TTACATAAC
19002237 TTACATAA-
1 TTACATAAC
19002245 -TACATAAC
1 TTACATAAC
19002253 TTACAT
1 TTACAT
19002259 TGAGAAAAAT
Statistics
Matches: 250, Mismatches: 43, Indels: 58
0.71 0.12 0.17
Matches are distributed among these distances:
7 37 0.15
8 13 0.05
9 158 0.63
10 3 0.01
11 10 0.04
12 29 0.12
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:19001971 original size:33 final size:33
Alignment explanation
Indices: 19001929--19001993 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
19001919 ATTGACACAT
19001929 TACATAACTTACATAATACATAACTTAAATAAA
1 TACATAACTTACATAATACATAACTTAAATAAA
*
19001962 TACATAACTTACATAATACATAACTTACATAA
1 TACATAACTTACATAATACATAACTTAAATAA
19001994 TAACTTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (33 bp):
TACATAACTTACATAATACATAACTTAAATAAA
Found at i:19002086 original size:93 final size:89
Alignment explanation
Indices: 19001928--19002226 Score: 336
Period size: 93 Copynumber: 3.3 Consensus size: 89
19001918 TATTGACACA
* * * *
19001928 TTACATAACTTACATAA--TACATAACTTAAATAAATACATAACTTACATAATACATAACTTACA
1 TTACATAACTTACATAACTTACATAA-TTTACTAAATACATAATTTACTTAATACATAACTTACA
19001991 TAATAACTTACATAGCTTATATAAC
65 TAATAACTTACATAGCTTATATAAC
* ** * * *
19002016 TTACATAACTTACATATCTTTTATAATATATGCATAACTTATATAATTTACTTAATACATAACTT
1 TTACATAACTTACATAACTTACATAAT-T-TAC-TAA-ATACATAATTTACTTAATACATAACTT
*
19002081 ACATAATAATTTACATAGCTTATATAAC
62 ACATAATAACTTACATAGCTTATATAAC
* ** *
19002109 TTACATAACTTATATAACTTACATAATTTACTAAATACATAATCAACATATATTATATCTTAACT
1 TTACATAACTTACATAACTTACATAATTTACTAAATACATAATTTAC-T-TA--ATA-CATAACT
19002174 TACATAATAACTTACATAGCTTATATAAC
61 TACATAATAACTTACATAGCTTATATAAC
*
19002203 TTACATAA--TACATAACCTACATAA
1 TTACATAACTTACATAACTTACATAA
19002227 CTTATATAAC
Statistics
Matches: 176, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
88 16 0.09
89 10 0.06
90 10 0.06
91 4 0.02
92 18 0.10
93 76 0.43
94 42 0.24
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (89 bp):
TTACATAACTTACATAACTTACATAATTTACTAAATACATAATTTACTTAATACATAACTTACAT
AATAACTTACATAGCTTATATAAC
Found at i:19004576 original size:43 final size:43
Alignment explanation
Indices: 19004529--19004610 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
19004519 AATGGTGTTT
19004529 GTGAAGAAAGCGCCACTAAAGAACAT-TTCTTTTAGCGGCATTC
1 GTGAAGAAAGCGCCACTAAAGAACATGTTC-TTTAGCGGCATTC
* * *
19004572 GTGAAGAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGC
1 GTGAAGAAAGCGCCACTAAAGAACATGTTCTTTAGCGGC
19004611 GTTTTTCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
GTGAAGAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCATTC
Found at i:19004651 original size:85 final size:85
Alignment explanation
Indices: 19004579--19004824 Score: 390
Period size: 85 Copynumber: 2.9 Consensus size: 85
19004569 TTCGTGAAGA
* * * *
19004579 AAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCTTCTAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCTAGCGCCACTAAAGAACATGATC
19004644 TTTAGCGGCGTCTTTATTTT
66 TTTAGCGGCGTCTTTATTTT
* *
19004664 AAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCTAGTGCCACTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCTAGCGCCACTAAAGAACATGATC
19004729 TTTAGCGGCGTCTTTATTTT
66 TTTAGCGGCGTCTTTATTTT
* *
19004749 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTT-TT-TAAGCGCCGCTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCT-AGCGCCACTAAAGAACATGAT
19004811 CTTTAGCGGCGTCT
65 CTTTAGCGGCGTCT
19004825 ATTTTCGTAA
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
82 1 0.01
83 34 0.23
84 5 0.03
85 110 0.73
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCTAGCGCCACTAAAGAACATGATC
TTTAGCGGCGTCTTTATTTT
Found at i:19004678 original size:43 final size:43
Alignment explanation
Indices: 19004579--19004824 Score: 340
Period size: 42 Copynumber: 5.8 Consensus size: 43
19004569 TTCGTGAAGA
* * * * * *
19004579 AAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
19004622 -AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
* * * *
19004664 AAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTCTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
* *
19004707 -AGTGCCACTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
19004749 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-T-TTT-TTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
*
19004789 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCT
19004825 ATTTTCGTAA
Statistics
Matches: 182, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
40 35 0.19
41 4 0.02
42 76 0.42
43 67 0.37
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTATTTT
Found at i:19005825 original size:17 final size:16
Alignment explanation
Indices: 19005781--19005826 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
19005771 ATTAAACCAC
19005781 AATCAAAATTT-TATA
1 AATCAAAATTTATATA
*
19005796 AAT-ATAA-TTATATA
1 AATCAAAATTTATATA
19005810 ATATCAAAATTTATATA
1 A-ATCAAAATTTATATA
19005827 TCAAATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 8 0.32
15 5 0.20
16 3 0.12
17 7 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
AATCAAAATTTATATA
Found at i:19005833 original size:29 final size:30
Alignment explanation
Indices: 19005781--19005862 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
19005771 ATTAAACCAC
* *
19005781 AATCAAAATTTTATAAATATAATTATATAAT
1 AATCAAAA-TTTATATATATAATTACATAAT
*
19005812 -ATCAAAATTTATATATCA-AATTACATATT
1 AATCAAAATTTATATAT-ATAATTACATAAT
19005841 GAATCAAAA-TTA-ATATATAATT
1 -AATCAAAATTTATATATATAATT
19005863 TTAATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
28 1 0.02
29 25 0.57
30 11 0.25
31 7 0.16
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (30 bp):
AATCAAAATTTATATATATAATTACATAAT
Found at i:19007697 original size:10 final size:10
Alignment explanation
Indices: 19007684--19007843 Score: 68
Period size: 10 Copynumber: 16.2 Consensus size: 10
19007674 AATTTAGTAC
19007684 AATTATAAAA
1 AATTATAAAA
19007694 AATTAT-AAA
1 AATTATAAAA
19007703 AA-TATATAAA
1 AATTATA-AAA
*
19007713 AATGAATAAATA
1 AAT-TATAAA-A
19007725 AAGCTTATAAAA
1 AA--TTATAAAA
**
19007737 AATCCT-AAA
1 AATTATAAAA
**
19007746 AATCCTAAAA
1 AATTATAAAA
*
19007756 TATT-T-AAA
1 AATTATAAAA
*
19007764 AATTATATAA
1 AATTATAAAA
*
19007774 ACTTATAAAA
1 AATTATAAAA
*
19007784 AA-TA-GAAA
1 AATTATAAAA
*
19007792 AATTAGGAAAA
1 AATTA-TAAAA
*
19007803 AATCATAAAA
1 AATTATAAAA
19007813 AA-TAT-AAA
1 AATTATAAAA
* *
19007821 TATTATCAAA
1 AATTATAAAA
*
19007831 ACTTATAACAA
1 AATTATAA-AA
19007842 AA
1 AA
19007844 AATAAAAATA
Statistics
Matches: 113, Mismatches: 21, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
8 18 0.16
9 25 0.22
10 43 0.38
11 12 0.11
12 9 0.08
13 5 0.04
14 1 0.01
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (10 bp):
AATTATAAAA
Found at i:19007705 original size:9 final size:9
Alignment explanation
Indices: 19007684--19007852 Score: 70
Period size: 9 Copynumber: 17.3 Consensus size: 9
19007674 AATTTAGTAC
19007684 AATTATAAAA
1 AATTAT-AAA
19007694 AATTATAAA
1 AATTATAAA
19007703 AATATATAAA
1 AAT-TATAAA
*
19007713 AATGAATAAATA
1 AAT-TAT-AA-A
19007725 AAGCTTATAAAA
1 AA--TTAT-AAA
**
19007737 AATCCTAAA
1 AATTATAAA
**
19007746 AATCCTAAA
1 AATTATAAA
19007755 ATATT-TAAA
1 A-ATTATAAA
19007764 AATTATATAA
1 AATTATA-AA
*
19007774 ACTTATAAA
1 AATTATAAA
* *
19007783 AAATAGAAA
1 AATTATAAA
*
19007792 AATTAGGAAAA
1 AATTA--TAAA
*
19007803 AATCATAAA
1 AATTATAAA
*
19007812 AAATATAAA
1 AATTATAAA
*
19007821 TATTATCAAA
1 AATTAT-AAA
*
19007831 ACTTATAACA
1 AATTATAA-A
**
19007841 AAAAATAAA
1 AATTATAAA
19007850 AAT
1 AAT
19007853 ATTTAAATTA
Statistics
Matches: 123, Mismatches: 24, Indels: 25
0.72 0.14 0.15
Matches are distributed among these distances:
8 3 0.02
9 57 0.46
10 42 0.34
11 9 0.07
12 6 0.05
13 5 0.04
14 1 0.01
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (9 bp):
AATTATAAA
Found at i:19007713 original size:19 final size:19
Alignment explanation
Indices: 19007687--19007852 Score: 53
Period size: 19 Copynumber: 8.6 Consensus size: 19
19007677 TTAGTACAAT
19007687 TATA-AAAAATTATAAAAA
1 TATATAAAAATTATAAAAA
*
19007705 TATATAAAAATGAATAAATAA
1 TATATAAAAAT-TATAAA-AA
**
19007726 -AGCTTATAAAAAATCCTAAAAA
1 TA---TAT-AAAAATTATAAAAA
* *
19007748 TCCTA-AAATATT-TAAAAA
1 T-ATATAAAAATTATAAAAA
*
19007766 T-TATATAAACTTATAAAAA
1 TATATA-AAAATTATAAAAA
* *
19007785 -ATAGAAAAATTAGGAAAAA
1 TATATAAAAATTA-TAAAAA
* *
19007804 -ATCATAAAAAATATAAATA
1 TAT-ATAAAAATTATAAAAA
*
19007823 T-TATCAAAACTTATAACAAA
1 TATAT-AAAAATTATAA-AAA
*
19007843 -AAATAAAAAT
1 TATATAAAAAT
19007853 ATTTAAATTA
Statistics
Matches: 109, Mismatches: 20, Indels: 37
0.66 0.12 0.22
Matches are distributed among these distances:
16 2 0.02
17 1 0.01
18 23 0.21
19 46 0.42
20 18 0.17
21 4 0.04
22 2 0.02
23 7 0.06
24 6 0.06
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (19 bp):
TATATAAAAATTATAAAAA
Found at i:19007826 original size:57 final size:58
Alignment explanation
Indices: 19007743--19007852 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
19007733 AAAAAATCCT
* * * *
19007743 AAAAATCCTAAAATATTTAAAAATTAT-ATAAACTTATAA-AAAATAGAAAAATTAGGA
1 AAAAATCATAAAAAATATAAAAATTATCA-AAACTTATAACAAAAAAGAAAAATTAGGA
* *
19007800 AAAAATCATAAAAAATATAAATATTATCAAAACTTATAACAAAAAATAAAAAT
1 AAAAATCATAAAAAATATAAAAATTATCAAAACTTATAACAAAAAAGAAAAAT
19007853 ATTTAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 33 0.73
58 12 0.27
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (58 bp):
AAAAATCATAAAAAATATAAAAATTATCAAAACTTATAACAAAAAAGAAAAATTAGGA
Found at i:19007831 original size:29 final size:28
Alignment explanation
Indices: 19007743--19007852 Score: 85
Period size: 29 Copynumber: 3.9 Consensus size: 28
19007733 AAAAAATCCT
* * *
19007743 AAAAATCCTAAAATATTTAAAAATTATA
1 AAAAATCATAAAAAATATAAAAATTATA
* * * * *
19007771 TAAACTTATAAAAAATAGAAAAATTAGGA
1 AAAAATCATAAAAAATATAAAAATTA-TA
* *
19007800 AAAAATCATAAAAAATATAAATATTATC
1 AAAAATCATAAAAAATATAAAAATTATA
* * *
19007828 AAAACTTATAACAAAAAATAAAAAT
1 AAAAATCATAA-AAAATATAAAAAT
19007853 ATTTAAATTA
Statistics
Matches: 61, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
28 28 0.46
29 33 0.54
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (28 bp):
AAAAATCATAAAAAATATAAAAATTATA
Found at i:19012976 original size:44 final size:44
Alignment explanation
Indices: 19012928--19013017 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
19012918 ATATCTCAAG
*
19012928 GTCCATGTTTATAACATGGCAATGAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATGAAGAAAGAATTGACGGAAAA
* *
19012972 GTCCATGTTTATAACATGGCAATTAAGAAATAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATGAAGAAAGAATTGACGGAAAA
19013016 GT
1 GT
19013018 ACCTTGGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATGAAGAAAGAATTGACGGAAAA
Found at i:19013116 original size:50 final size:50
Alignment explanation
Indices: 19013041--19013287 Score: 316
Period size: 50 Copynumber: 4.9 Consensus size: 50
19013031 CATGTCAACA
*
19013041 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
*
19013091 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGTCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * ** *
19013141 TGAGATGAGAGGTCTCC-TGTAAGACCATGTCTGGCACATGGTGTTGGAAC
1 CGAGATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * * *
19013191 CGAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGACATGGGCAT
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* ** * * * *
19013241 CGATATGAGAACTCCCATGTAAGACCATTTCTAGGATATGACATTGG
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
19013288 GAGTACAGGA
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 2 0.01
50 167 0.98
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:19018903 original size:44 final size:44
Alignment explanation
Indices: 19018854--19018943 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
19018844 ATATCTCAAG
*
19018854 GTCCATGTTTATAACATGGCAATGAAGGAAGAAATGACGGAAAA
1 GTCCATGTTTATAACATGGCAATGAAGAAAGAAATGACGGAAAA
*
19018898 GTCCATGTTTATAACATGGCAATTAAGAAAGAAATGACGGAAAA
1 GTCCATGTTTATAACATGGCAATGAAGAAAGAAATGACGGAAAA
19018942 GT
1 GT
19018944 ACCTTGGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATGAAGAAAGAAATGACGGAAAA
Found at i:19019042 original size:50 final size:50
Alignment explanation
Indices: 19018967--19019213 Score: 291
Period size: 50 Copynumber: 4.9 Consensus size: 50
19018957 CATGTCAACA
* *
19018967 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
*
19019017 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGTCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * ** *
19019067 TGAGATGAGAGGTCTCC-TGTAAGACCATGTCTGGCACATGGTGTTGGAAC
1 CGAGATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * * * *
19019117 CGAGATGAGAGGTCCCCTGTAAGACCAT-TGCTGGGACATGACATGGGTAT
1 CGAGATGAGAGGTCCCATGTAAGACCATGT-CTGGGACATGGCATTGGCAC
* ** * * *
19019167 CGATATGAGAACTCCCATGTAAGACCATTTCTAGGATATGGCATTGG
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
19019214 GAGTATAGGA
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.02
50 162 0.96
51 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:19022834 original size:12 final size:12
Alignment explanation
Indices: 19022798--19022847 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
19022788 ATTTTAATAG
*
19022798 ATTTAATATTAA
1 ATTTAATATTTA
*
19022810 ATTTATTATTTTA
1 ATTTAATA-TTTA
19022823 ATTTTAA-ATTTA
1 A-TTTAATATTTA
19022835 ATTTAATATTTA
1 ATTTAATATTTA
19022847 A
1 A
19022848 CTTGTAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 5 0.16
12 18 0.56
13 5 0.16
14 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:19023056 original size:26 final size:24
Alignment explanation
Indices: 19023027--19023076 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
19023017 AATTGTAGAG
19023027 AGAAAATTCTCT-GAAGAAATTATTTC
1 AGAAAATT-TCTAG-AGAAATT-TTTC
19023053 AGAAAATTTCTAGAGAAATTTTTC
1 AGAAAATTTCTAGAGAAATTTTTC
19023077 TTATTTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.17
25 10 0.43
26 9 0.39
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (24 bp):
AGAAAATTTCTAGAGAAATTTTTC
Found at i:19026918 original size:15 final size:15
Alignment explanation
Indices: 19026898--19026929 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19026888 CATTTCACTA
*
19026898 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
19026913 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
19026928 TT
1 TT
19026930 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:19028846 original size:62 final size:61
Alignment explanation
Indices: 19028762--19028893 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 61
19028752 TTAATTTAAT
* * * *
19028762 ATTAAAGTAAGTATCTTAATATTAAATTTAATTTCATGTTTATCTTGAAGATAAATATTCTATTA
1 ATTAAA-TAAGTATCTTAATATTAAATTTAATCTAATATTTATCTT---GATAAATATTATATTA
*
19028827 ATTAAATAAG-AT-TTAATATTAAATTTAATCTAATATTTTTCTTGATAAATATTATATTA
1 ATTAAATAAGTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTA
*
19028886 ATTTAATA
1 ATTAAATA
19028894 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 22 0.36
62 27 0.44
63 2 0.03
64 4 0.07
65 6 0.10
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (61 bp):
ATTAAATAAGTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTA
Found at i:19029846 original size:12 final size:12
Alignment explanation
Indices: 19029829--19029853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19029819 AGAAAGAAAG
19029829 AAAAAGAATTAA
1 AAAAAGAATTAA
19029841 AAAAAGAATTAA
1 AAAAAGAATTAA
19029853 A
1 A
19029854 GTAAAATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAGAATTAA
Found at i:19030775 original size:30 final size:27
Alignment explanation
Indices: 19030704--19030783 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 27
19030694 ATCCATATTT
19030704 ATGGAAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
19030731 AT--AAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
19030756 CTATTGGAAAG-CTAAAGATATGGGTATC
1 --A-TGGAAAGTC-AAAGATATGGGTATC
19030784 GAGATATTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
25 23 0.49
27 3 0.06
28 1 0.02
29 1 0.02
30 19 0.40
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:19035401 original size:30 final size:30
Alignment explanation
Indices: 19035365--19035509 Score: 245
Period size: 30 Copynumber: 4.8 Consensus size: 30
19035355 ATCCATATTT
*
19035365 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
19035395 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
19035425 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* * *
19035455 TTGGAAAGTCAAAGGTATGGGTATCAATTA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
19035485 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
19035510 GAGATATTGA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 110 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:19036026 original size:83 final size:83
Alignment explanation
Indices: 19035887--19036052 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
19035877 ACTTAAGCGA
*
19035887 TCCTTGTGATCCACCTCTCTTTCCTGGGAATTGAACTTAGTGTGATTTTTTAGTACAATAATTTT
1 TCCTTGTGATCCACCTCTCTTTCCTGGGAATTGAACTTAATGTGATTTTTTAGTACAATAATTTT
19035952 ACTCTTTTACACGCTTCC
66 ACTCTTTTACACGCTTCC
* *
19035970 TCCTTGTGATCCACCTCTCTTTTCTTGGAATTGAACTTAATGTGATTTTTTAGTACAATAATTTT
1 TCCTTGTGATCCACCTCTCTTTCCTGGGAATTGAACTTAATGTGATTTTTTAGTACAATAATTTT
19036035 ACTCTTTTACACGCTTCC
66 ACTCTTTTACACGCTTCC
19036053 GCACAACAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (83 bp):
TCCTTGTGATCCACCTCTCTTTCCTGGGAATTGAACTTAATGTGATTTTTTAGTACAATAATTTT
ACTCTTTTACACGCTTCC
Found at i:19038327 original size:15 final size:15
Alignment explanation
Indices: 19038307--19038335 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19038297 GTTACCCCTA
19038307 CTATTGTACCTGTAC
1 CTATTGTACCTGTAC
19038322 CTATTGTACCTGTA
1 CTATTGTACCTGTA
19038336 TCGAGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (15 bp):
CTATTGTACCTGTAC
Done.