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 67 of 185
Found at i:21086326 original size:53 final size:53
Alignment explanation
Indices: 21086258--21086361 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
21086248 GCAAGATCTT
**
21086258 CCGATCTTCCACTAACACAATGAGTCAACAAGAACCACTTACCTTCTGACCTC
1 CCGATCTTCCACTAACACAACAAGTCAACAAGAACCACTTACCTTCTGACCTC
* * * * *
21086311 CCGATCTTCTC-CTAACATAACAAGTTAGCAAGAACTACTTATCTTCTGACC
1 CCGATCTTC-CACTAACACAACAAGTCAACAAGAACCACTTACCTTCTGACC
21086362 AGATAGTCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 42 0.98
54 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.10, T:0.26
Consensus pattern (53 bp):
CCGATCTTCCACTAACACAACAAGTCAACAAGAACCACTTACCTTCTGACCTC
Found at i:21090398 original size:30 final size:30
Alignment explanation
Indices: 21090362--21090423 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
21090352 TAGGGTTTAA
21090362 GAGGTTTTGAAAGATTTGAGAGAATTTGGG
1 GAGGTTTTGAAAGATTTGAGAGAATTTGGG
21090392 GAGGTTTTGAAAGATTTGAGAGAATTTGGG
1 GAGGTTTTGAAAGATTTGAGAGAATTTGGG
21090422 GA
1 GA
21090424 ATTAGGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.37, T:0.32
Consensus pattern (30 bp):
GAGGTTTTGAAAGATTTGAGAGAATTTGGG
Found at i:21096076 original size:18 final size:18
Alignment explanation
Indices: 21096053--21096088 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21096043 CAAGAATAGG
*
21096053 AAGCATCAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
21096071 AAGCATAAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
21096089 GCACACCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:21103140 original size:16 final size:16
Alignment explanation
Indices: 21103119--21103183 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
21103109 TTCGCTGTAT
21103119 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
21103135 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
21103151 TGGAATAGAGACGCAA
1 TGGAATAGAGGCGTAA
21103167 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
21103183 T
1 T
21103184 AGCAATTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.18
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:21103226 original size:45 final size:44
Alignment explanation
Indices: 21103165--21103259 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 44
21103155 ATAGAGACGC
*
21103165 AATGGAATAGAGGCGTAATAGCAATTCAATT-T-TTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAG-AATTC--TTGTGTTTGGTTGAATGG
*
21103210 AATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGAATTCTTGTGTTTGGTTGAATGG
21103254 AATGGA
1 AATGGA
21103260 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 2 0.04
43 1 0.02
44 22 0.48
45 21 0.46
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGAATTCTTGTGTTTGGTTGAATGG
Found at i:21103510 original size:61 final size:61
Alignment explanation
Indices: 21103445--21103632 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
21103435 ATATAAATTA
21103445 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * ** * * * *
21103506 ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAAATATAT-AAATT
1 ATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
21103564 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
21103626 ATAAAAT
1 ATAAAAT
21103633 ATAATTTGAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 3 0.03
59 32 0.34
60 18 0.19
61 39 0.41
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:21103678 original size:18 final size:17
Alignment explanation
Indices: 21103655--21103691 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
21103645 AATTATTATT
21103655 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
21103671 AAATATATGATTTAATA
1 AAATATATGATTTAATA
21103688 AAAT
1 AAAT
21103692 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:21103689 original size:59 final size:60
Alignment explanation
Indices: 21103403--21103691 Score: 198
Period size: 59 Copynumber: 4.8 Consensus size: 60
21103393 ATATTTTAAC
* * * *
21103403 ATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAATCA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-TCATAATAATAA
* * * * ** * * * *
21103464 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAAT-ATAAT-TTAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATCATAATAATAA
* * * *
21103522 CATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAATCA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-TCATAATAATAA
* * * * ** * * * *
21103584 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAAT-ATAAT-TTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATCATAATAAT-AA
21103643 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
21103692 TTAAAATAAT
Statistics
Matches: 164, Mismatches: 51, Indels: 28
0.67 0.21 0.12
Matches are distributed among these distances:
58 5 0.03
59 66 0.40
60 31 0.19
61 58 0.35
62 4 0.02
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (60 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATCATAATAATAA
Found at i:21103701 original size:120 final size:120
Alignment explanation
Indices: 21103397--21103692 Score: 558
Period size: 120 Copynumber: 2.5 Consensus size: 120
21103387 TTAATCATAT
21103397 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
21103462 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
21103517 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
21103582 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
21103637 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATT
21103693 TAAAATAATT
Statistics
Matches: 173, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
120 171 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:21107350 original size:15 final size:16
Alignment explanation
Indices: 21107321--21107376 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
21107311 CATCTCATAA
21107321 TCATTT-ATCATATTTT
1 TCATTTCAT-ATATTTT
21107337 TCATTTCA-ATATTTT
1 TCATTTCATATATTTT
*
21107352 CTCATCTCATATTCATTTT
1 -TCATTTCATA-T-ATTTT
21107371 TCATTT
1 TCATTT
21107377 TTTCCATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 7 0.21
16 13 0.39
17 2 0.06
18 6 0.18
19 5 0.15
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (16 bp):
TCATTTCATATATTTT
Found at i:21107358 original size:43 final size:43
Alignment explanation
Indices: 21107308--21107391 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
21107298 ATATCTCATA
21107308 TCTCATCTCATAATCATTTATCATATTTTT-CATTTCAATATTT
1 TCTCATCTCATAATCATTTATCAT-TTTTTCCATTTCAATATTT
* *
21107351 TCTCATCTCATATTCATTTTTCATTTTTTCCATTTCAATAT
1 TCTCATCTCATAATCATTTATCATTTTTTCCATTTCAATAT
21107392 AAATCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 5 0.13
43 33 0.87
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (43 bp):
TCTCATCTCATAATCATTTATCATTTTTTCCATTTCAATATTT
Found at i:21116660 original size:51 final size:51
Alignment explanation
Indices: 21116510--21116700 Score: 194
Period size: 51 Copynumber: 3.8 Consensus size: 51
21116500 TGATGGTCAA
* * * * *
21116510 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGGTCGC
1 GTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATATTAAAGATCAC
* * * * * *
21116560 ATGTGTAGTACTATGTGTAGGCTACTATGCGTA-CCAGATAGCTT--CGATCAT
1 GTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGA-ATA--TTAAAGATCAC
* *
21116611 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATATTAATGATCAC
1 GTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATATTAAAGATCAC
21116662 GTGTGTAGTACTATGT-TAAGGCTACTACGTGTATCGAAT
1 GTGTGTAGTACTATGTGT-AGGCTACTACGTGTATCGAAT
21116701 GATAATAGTT
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
49 3 0.03
50 31 0.27
51 78 0.68
52 2 0.02
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
GTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATATTAAAGATCAC
Found at i:21116724 original size:51 final size:51
Alignment explanation
Indices: 21116615--21116725 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
21116605 GATCATGTGT
* ** *
21116615 GTAGTACTATGTGCAGGCTACTACGTGTATCGAATATTAATGATCACGTGT
1 GTAGTACTATGTGAAGGCTACTACGTGTATCGAATATTAATGATCAAATGA
* *
21116666 GTAGTACTATGTTAAGGCTACTACGTGTATCGAATGA-TAAT-AGTTAAATGA
1 GTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-ATTAATGA-TCAAATGA
*
21116717 GTGGTACTA
1 GTAGTACTA
21116726 AATGCAAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 49 0.96
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (51 bp):
GTAGTACTATGTGAAGGCTACTACGTGTATCGAATATTAATGATCAAATGA
Found at i:21119358 original size:30 final size:30
Alignment explanation
Indices: 21119322--21119394 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
21119312 TTGACATATT
* *
21119322 CCTTTTCGTAATTCGATAACCGAAGTTATC
1 CCTTTTCATAATTCGATAACCGAAGCTATC
* * *
21119352 CCTTTTCATAGTTCGATAGCTGAAGCTATC
1 CCTTTTCATAATTCGATAACCGAAGCTATC
*
21119382 CATTTTCATAATT
1 CCTTTTCATAATT
21119395 TGATGGTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (30 bp):
CCTTTTCATAATTCGATAACCGAAGCTATC
Found at i:21119457 original size:30 final size:30
Alignment explanation
Indices: 21119379--21119544 Score: 117
Period size: 30 Copynumber: 5.5 Consensus size: 30
21119369 AGCTGAAGCT
* *
21119379 ATCCATTTTCATAATTTGATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
* **
21119409 ATTCC-TTTCTATTTTTTGATGGTCATCACC
1 ATCCCTTTTC-ATAATTTGATGGTCATCACC
* * * *
21119439 ATTCCTTTTCATAATTTGATAGCCA-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCATCA-CC
* ** * *
21119469 ATCCCTTTTCA-GATATCAATAGCCGA--AGCC
1 ATCCCTTTTCATAAT-TTGATGGTC-ATCA-CC
*
21119499 ATCCCTTTTCATAAGTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
21119529 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
21119545 GATAGTTGAA
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
29 8 0.07
30 92 0.86
31 7 0.07
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:21119460 original size:90 final size:91
Alignment explanation
Indices: 21119349--21119569 Score: 218
Period size: 90 Copynumber: 2.5 Consensus size: 91
21119339 AACCGAAGTT
* * ** * *** *
21119349 ATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCATTTTCATAAT-TTGATGGTCTTCA-CCATT
1 ATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCATAATATCAATAG-CCGAAGCCATC
***
21119412 CC-TTTCTATTTTTTGATGGTCATCACC
65 CCTTTTC-ATAAGTTGATGGTCATCACC
* ** * * *
21119439 ATTCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCA-GATATCAATAGCCGAAGCCATCC
1 ATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCATAATATCAATAGCCGAAGCCATCC
21119503 CTTTTCATAAGTTGATGGTCATCACC
66 CTTTTCATAAGTTGATGGTCATCACC
*
21119529 ATCCCTTTTCATAA-TTGATAGTTGAAGCTATCCATTTTCAT
1 ATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCAT
21119570 TCGTTGATGA
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
89 25 0.24
90 74 0.72
91 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (91 bp):
ATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCATAATATCAATAGCCGAAGCCATCC
CTTTTCATAAGTTGATGGTCATCACC
Found at i:21119536 original size:120 final size:120
Alignment explanation
Indices: 21119319--21119536 Score: 294
Period size: 120 Copynumber: 1.8 Consensus size: 120
21119309 TGGTTGACAT
* * ** * * * *
21119319 ATTCCTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCA
1 ATTCCTTTTCATAATTCGATAACCAAAGCCATCCCTTTTCAGAGTTCAATAGCCGAAGCCATCCA
* * *
21119384 TTTTCATAATTTGATGGTCTTCACCATTCCTTTCTATTTTTTGATGGTCATCACC
66 TTTTCATAAGTTGATGGTCATCACCATCCCTTTCTATTTTTTGATGGTCATCACC
* *
21119439 ATTCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCAGA-TATCAATAGCCGAAGCCATCC
1 ATTCCTTTTCATAATTCGATAACCAAAGCCATCCCTTTTCAGAGT-TCAATAGCCGAAGCCATCC
*
21119503 CTTTTCATAAGTTGATGGTCATCACCATCCCTTT
65 ATTTTCATAAGTTGATGGTCATCACCATCCCTTT
21119537 TCATAATTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 1 0.01
120 82 0.99
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (120 bp):
ATTCCTTTTCATAATTCGATAACCAAAGCCATCCCTTTTCAGAGTTCAATAGCCGAAGCCATCCA
TTTTCATAAGTTGATGGTCATCACCATCCCTTTCTATTTTTTGATGGTCATCACC
Found at i:21126320 original size:42 final size:42
Alignment explanation
Indices: 21126261--21126406 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
21126251 TTCCTTGAGG
* * * *
21126261 GGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
* *
21126303 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGGT
* * * *
21126346 GGTTGCTATGTGCTGATTTCCCGTATCACTGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
*
21126387 GGTTGTTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
21126407 ACAGAGTAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 4 0.05
41 17 0.20
42 31 0.36
43 30 0.34
44 5 0.06
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
Found at i:21130368 original size:21 final size:21
Alignment explanation
Indices: 21130330--21130369 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21130320 TTTGTAATTG
*
21130330 AACAAAATTGAAGGAAAAAGA
1 AACAAAATTGAAGAAAAAAGA
21130351 AACACAAATTG-AGAAAAAA
1 AACA-AAATTGAAGAAAAAA
21130370 AAAGAGGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (21 bp):
AACAAAATTGAAGAAAAAAGA
Found at i:21132696 original size:21 final size:21
Alignment explanation
Indices: 21132637--21132703 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
21132627 TTTTTTATAT
* *
21132637 TTTTTTATTTATATGCTTTTAAA
1 TTTTTTATTTAAAT--TTTAAAA
* *
21132660 TTATTTT-TTCTGAATTTTGAAA
1 TT-TTTTATT-TAAATTTTAAAA
21132682 TTTTTTATTTAAATTTTAAAA
1 TTTTTTATTTAAATTTTAAAA
21132703 T
1 T
21132704 ATATATATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 10 0.28
23 4 0.11
24 7 0.19
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTTATTTAAATTTTAAAA
Found at i:21132758 original size:27 final size:27
Alignment explanation
Indices: 21132693--21132770 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
21132683 TTTTTATTTA
* * *
21132693 AATTTTAAAATATATATATACTTCTTTG
1 AATTTTAAAAAATTTAT-TAATTCTTTG
*
21132721 AATTTCTAAAAAATTTATGTAATT-TTTT
1 AATTT-TAAAAAATTTAT-TAATTCTTTG
*
21132749 AATTTTAAAAAATTAATTAATT
1 AATTTTAAAAAATTTATTAATT
21132771 GCTAACATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.12
27 11 0.26
28 13 0.30
29 14 0.33
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (27 bp):
AATTTTAAAAAATTTATTAATTCTTTG
Found at i:21133221 original size:15 final size:16
Alignment explanation
Indices: 21133203--21133234 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21133193 GTTAAATATC
21133203 AAATTTTAAC-TGATT
1 AAATTTTAACTTGATT
21133218 AAATTTTAACTTGATT
1 AAATTTTAACTTGATT
21133234 A
1 A
21133235 TATAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
AAATTTTAACTTGATT
Found at i:21133772 original size:17 final size:18
Alignment explanation
Indices: 21133741--21133775 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21133731 TAAATATTTT
*
21133741 TTTTATATATTTTTTTAA
1 TTTTATATATATTTTTAA
21133759 TTTTA-ATATATTTTTAA
1 TTTTATATATATTTTTAA
21133776 AGTACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATATATATTTTTAA
Found at i:21136996 original size:44 final size:44
Alignment explanation
Indices: 21136948--21137247 Score: 141
Period size: 44 Copynumber: 6.8 Consensus size: 44
21136938 AAGATTCGCC
* *
21136948 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACA
* * * * *
21136992 ATCTTTGACCTACTCCACTGCTCCTCAGGGAGATAAG-GCT--A
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACA
* * * * * * *
21137033 GTGCTTTCGATCTGCTTCACTGCCAG-TACAGGAAGACAAGATCTACA
1 AT-C-TTCGATCTACTCCACT-ACTGCT-CAGGGAGATAAGATCTACA
* * * * * ***
21137080 ATCTTTGACCTACTCCACTGCTACTCAGGGAGATAGGA-CTGGT
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACA
** ** * * * *
21137123 GGCTTAAATCTACTTCCTACTA-T-CT-TGGAAAGATAAGAT-TCGCC
1 ATCTTCGATCTAC-TCC-ACTACTGCTCAGG-GAGATAAGATCT-ACA
* *
21137167 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACA
* * * *
21137211 ATCTTCAACCTACTCCACTGCTCCTCAGGGAGATAAG
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAG
21137248 GCTGGTGCTT
Statistics
Matches: 181, Mismatches: 58, Indels: 34
0.66 0.21 0.12
Matches are distributed among these distances:
41 2 0.01
42 7 0.04
43 39 0.22
44 109 0.60
45 21 0.12
46 1 0.01
47 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACA
Found at i:21137047 original size:219 final size:219
Alignment explanation
Indices: 21136580--21137552 Score: 1519
Period size: 219 Copynumber: 4.5 Consensus size: 219
21136570 CTGCAAATTT
* *
21136580 AGGG-GATAAGGCTGGTGCTTTCAATCTGCTTCACTGCCAATACAGGAAGACAAGATCTACAATC
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
* * ** *
21136644 ATCGACCTACTCCACTGCTGCTTAGGGAGATAAGG-CTAATGGCTTAAATCTACTTCCCTACTAC
66 TTCGACCTACTCCACTGCTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTACTT-CCTACTAT
* ** * *
21136708 CTTGGGAAGATAAGATTCGCCATCTTTAATCTGCTCCACTACTGCCTCGGGAGATAAGATCTACA
129 CTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * *
21136773 ATCTTCAATCTACCCCACTACTCCTC
194 ATCTTCAACCTACTCCACTGCTCCTC
*
21136799 AGGGAGATAAGGCTGGTGCTTTTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
* *
21136864 TTCGACCTACTTCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
66 TTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
21136929 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
131 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
**
21136994 CTTTGACCTACTCCACTGCTCCTC
196 CTTCAACCTACTCCACTGCTCCTC
*
21137018 AGGGAGATAAGGCTAGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
* *
21137083 TTTGACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
66 TTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
21137148 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
131 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
21137213 CTTCAACCTACTCCACTGCTCCTC
196 CTTCAACCTACTCCACTGCTCCTC
* * *
21137237 AGGGAGATAAGGCTGGTGCTTTTGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTATAAGC
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
* *
21137302 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCT
66 TTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
* * * * *
21137367 TGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTTCTTA-GG-G---AGATCTGCAAT
131 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
*
21137427 CTTCAACCTACTCCACTGCTGCTC
196 CTTCAACCTACTCCACTGCTCCTC
* * * *
21137451 AGGGAGATAAGGGTGGTGCTTTCAATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCAATC
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
* *
21137516 TTCGACCTACTCCATTGCTGCTCAGGGAGATAAGACT
66 TTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACT
21137553 TGATATGATG
Statistics
Matches: 700, Mismatches: 52, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
214 125 0.18
217 1 0.00
218 2 0.00
219 470 0.67
220 102 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (219 bp):
AGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATC
TTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCTACTATCT
TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
CTTCAACCTACTCCACTGCTCCTC
Found at i:21137913 original size:24 final size:24
Alignment explanation
Indices: 21137878--21137935 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
21137868 CGGATTGCCC
21137878 CCACTGTAATCTTCAAAGTTCAA-T
1 CCACTGTAATCTTCAAAGTT-AAGT
* *
21137902 CCGCTGTAATCTTCAAGGTTAAGT
1 CCACTGTAATCTTCAAAGTTAAGT
21137926 CCACTGTAAT
1 CCACTGTAAT
21137936 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTAAGT
Found at i:21138592 original size:108 final size:108
Alignment explanation
Indices: 21138403--21138604 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 108
21138393 GAAATATGCT
* *
21138403 TGAAAAAGATTATCAAAATGGACAAGATGGAATTTTATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGGAATTTTATTGAGAACAAAGCTCAAAATGAATAAAT
* *
21138468 TAATTAATATAGCAAATTTTGCTAAGATACGAACTGAATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATACGAACTGAATAAGA
* * * ** *
21138511 TGAAAAATATTATCATAATGGATAAGATGGAATTTTATTGAGTGCAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGGAATTTTATTGAGAACAAAGCTCAAAATGAATAAAT
21138576 TAATCAAGATAGCAAATTTTGCTAAGATA
66 TAATCAAGATAGCAAATTTTGCTAAGATA
21138605 ATAAGATGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAGATGGAATTTTATTGAGAACAAAGCTCAAAATGAATAAAT
TAATCAAGATAGCAAATTTTGCTAAGATACGAACTGAATAAGA
Found at i:21138890 original size:5 final size:5
Alignment explanation
Indices: 21138880--21138920 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
21138870 GGCCTCTCCT
*
21138880 TTTTC TTTTC TTTTC TTTT- TATT- TTTTC TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
21138921 TGAACATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 10 0.30
5 23 0.70
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:21138906 original size:23 final size:22
Alignment explanation
Indices: 21138879--21138921 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
21138869 TGGCCTCTCC
21138879 TTTTTCTTTTCTTTTCTTTTTAT
1 TTTTTCTTTTCTTTT-TTTTTAT
21138902 TTTTTCTTTTCTTTTTTTTT
1 TTTTTCTTTTCTTTTTTTTT
21138922 GAACATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTTTTTTAT
Found at i:21138908 original size:18 final size:17
Alignment explanation
Indices: 21138879--21138921 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
21138869 TGGCCTCTCC
*
21138879 TTTTTCTTTTCTTTTCT
1 TTTTTTTTTTCTTTTCT
21138896 TTTTATTTTTTCTTTTCT
1 TTTT-TTTTTTCTTTTCT
21138914 TTTTTTTT
1 TTTTTTTT
21138922 GAACATTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTCT
Found at i:21141192 original size:12 final size:12
Alignment explanation
Indices: 21141161--21141194 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
21141151 TTTTTCTAGT
21141161 TGTTCTTGCATC
1 TGTTCTTGCATC
**
21141173 TGGGCTTGCATC
1 TGTTCTTGCATC
21141185 TGTTCTTGCA
1 TGTTCTTGCA
21141195 ATTGCTCTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTCTTGCATC
Found at i:21141372 original size:19 final size:19
Alignment explanation
Indices: 21141335--21141372 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21141325 TGTGAAAATC
*
21141335 TAATGCATATAATGCAATG
1 TAATGCAAATAATGCAATG
21141354 TAATGCAAATGAATG-AATG
1 TAATGCAAAT-AATGCAATG
21141373 CAAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (19 bp):
TAATGCAAATAATGCAATG
Found at i:21149503 original size:27 final size:28
Alignment explanation
Indices: 21149458--21149530 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
21149448 ACATGATAGT
*
21149458 AAAGAATAGCCTTTGTGGCGAACTCTGA
1 AAAGAATAGCCTTTGTGGCAAACTCTGA
*
21149486 AAAGAATA-CCTTTTTGGCAAACTCTGA
1 AAAGAATAGCCTTTGTGGCAAACTCTGA
* * *
21149513 ATAG-ATCGCCTTAGTGGC
1 AAAGAATAGCCTTTGTGGC
21149531 GTACCCTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (28 bp):
AAAGAATAGCCTTTGTGGCAAACTCTGA
Found at i:21151982 original size:20 final size:20
Alignment explanation
Indices: 21151957--21151995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21151947 TACTTTCTTC
21151957 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
21151977 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
21151996 TAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:21152315 original size:50 final size:51
Alignment explanation
Indices: 21152251--21152436 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 51
21152241 CTGTACTGCA
* * ** *
21152251 AATGCCATATCCCAGATATGGTCTTACATGA-GAGTTCTCATAC-CGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCAT-CTCGGTACC
* * *
21152301 CATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTGGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATCTCGGTACC
* * **
21152351 AACGCCATGTCCCAGACATGGTCTTACATG-GAACCTCTCATAACCTCAATAATACC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCAT---CTC---GGTACC
*
21152407 AATGTCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
21152437 GGGTCCCATG
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
49 3 0.03
50 72 0.65
51 1 0.01
53 2 0.02
56 32 0.29
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (51 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATCTCGGTACC
Found at i:21155344 original size:17 final size:18
Alignment explanation
Indices: 21155324--21155361 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21155314 TTAGAATTGG
*
21155324 ATTGAGA-AAATAATTTA
1 ATTGAGAGAAATAATTAA
*
21155341 ATTGAGAGAATTAATTAA
1 ATTGAGAGAAATAATTAA
21155359 ATT
1 ATT
21155362 TATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (18 bp):
ATTGAGAGAAATAATTAA
Found at i:21158685 original size:26 final size:26
Alignment explanation
Indices: 21158644--21158699 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
21158634 GTTGGTGATA
* *
21158644 TTTTTATTTAATTATTTAGATAAATTT
1 TTTTTAATTAATTATTT-GATAAAGTT
*
21158671 TTTTTAATTAA-TATTTTATAAAGTT
1 TTTTTAATTAATTATTTGATAAAGTT
21158696 TTTT
1 TTTT
21158700 AGTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 5 0.19
27 10 0.38
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTTAATTAATTATTTGATAAAGTT
Found at i:21161689 original size:48 final size:48
Alignment explanation
Indices: 21161618--21161766 Score: 167
Period size: 48 Copynumber: 3.1 Consensus size: 48
21161608 TACTATGCGT
* *
21161618 ACCGATATTCTTTTATGACACAAGGGTGGCACGAACTGTGTGCAGGCC
1 ACCGATATTCTGTTATGACACAAGGGTGACACGAACTGTGTGCAGGCC
* *
21161666 ACCGATATTCTGTTATGATACAAGGGTGACACGGACTGTGTGCAGGCC
1 ACCGATATTCTGTTATGACACAAGGGTGACACGAACTGTGTGCAGGCC
* * * * * * *
21161714 ACCGAGAATCTATTATTACACAAAGGTGGTACA-G-ACTGTGTACAAGCC
1 ACCGATATTCTGTTATGACACAAGGGT-G-ACACGAACTGTGTGCAGGCC
21161762 ACCGA
1 ACCGA
21161767 GAAATTTGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 82 0.94
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
ACCGATATTCTGTTATGACACAAGGGTGACACGAACTGTGTGCAGGCC
Found at i:21162119 original size:20 final size:20
Alignment explanation
Indices: 21162072--21162120 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21162062 AATAAGCGTG
* *
21162072 GAAAGTAAAGAAATGGAAAT
1 GAAAATAAAGAAATCGAAAT
21162092 GAAAATAAAGAAATTCGAAA-
1 GAAAATAAAGAAA-TCGAAAT
*
21162112 GAATATAAA
1 GAAAATAAA
21162121 ATTGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATAAAGAAATCGAAAT
Found at i:21165565 original size:27 final size:27
Alignment explanation
Indices: 21165513--21165575 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
21165503 AAACACTAGC
21165513 TCGCCAGACCTACTGGCGTACACCATA
1 TCGCCAGACCTACTGGCGTACACCATA
* * *
21165540 TCGCCAGAGCTACTGGCTTACACCATC
1 TCGCCAGACCTACTGGCGTACACCATA
*
21165567 TCCCCAGAC
1 TCGCCAGAC
21165576 TTGCTAGCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.40, G:0.17, T:0.19
Consensus pattern (27 bp):
TCGCCAGACCTACTGGCGTACACCATA
Found at i:21165586 original size:54 final size:54
Alignment explanation
Indices: 21165528--21165648 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
21165518 AGACCTACTG
* * * *
21165528 GCGTACACCATATCGCCAGAGCTACTGGCTTACACCATCTCCCCAGACTTGCTA
1 GCGTACACCATATCGCCAAACCTACTGGCATACACCATCTCACCAGACTTGCTA
* * * * * *
21165582 GCGTACATCATCTTGCCAAACCTTCTGGCATATAGCATCTCACCAGACTTGCTA
1 GCGTACACCATATCGCCAAACCTACTGGCATACACCATCTCACCAGACTTGCTA
*
21165636 GCGCACACCATAT
1 GCGTACACCATAT
21165649 TGTCAGACTT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.24
Consensus pattern (54 bp):
GCGTACACCATATCGCCAAACCTACTGGCATACACCATCTCACCAGACTTGCTA
Found at i:21165588 original size:27 final size:27
Alignment explanation
Indices: 21165558--21165646 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
21165548 GCTACTGGCT
*
21165558 TACACCATCTCCCCAGACTTGCTAGCG
1 TACACCATCTCACCAGACTTGCTAGCG
* ** * * *
21165585 TACATCATCTTGCCAAACCTT-CTGGCA
1 TACACCATCTCACCAGA-CTTGCTAGCG
* *
21165612 TATAGCATCTCACCAGACTTGCTAGCG
1 TACACCATCTCACCAGACTTGCTAGCG
*
21165639 CACACCAT
1 TACACCAT
21165647 ATTGTCAGAC
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
26 3 0.07
27 38 0.86
28 3 0.07
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.25
Consensus pattern (27 bp):
TACACCATCTCACCAGACTTGCTAGCG
Found at i:21167828 original size:13 final size:13
Alignment explanation
Indices: 21167812--21167944 Score: 65
Period size: 13 Copynumber: 9.9 Consensus size: 13
21167802 GAAAAATGAA
21167812 TATATGGAATGGT
1 TATATGGAATGGT
* *
21167825 TATAT-AAATCGAT
1 TATATGGAAT-GGT
*
21167838 TATATGGAAAATGGA
1 TATATGG--AATGGT
*
21167853 TATATGAAATGGT
1 TATATGGAATGGT
*
21167866 TACAT-GAATCGGT
1 TATATGGAAT-GGT
* * *
21167879 TATATGAAAATAGA
1 TATATG-GAATGGT
*
21167893 TATATGAAATGGT
1 TATATGGAATGGT
* *
21167906 TATA-AGAACCGGT
1 TATATGGAA-TGGT
* *
21167919 TATATGGAAATAGA
1 TATATGG-AATGGT
21167933 TATATGGAATGG
1 TATATGGAATGG
21167945 AACATTGGAT
Statistics
Matches: 87, Mismatches: 23, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
12 8 0.09
13 48 0.55
14 16 0.18
15 12 0.14
16 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (13 bp):
TATATGGAATGGT
Found at i:21167899 original size:40 final size:40
Alignment explanation
Indices: 21167811--21167944 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
21167801 TGAAAAATGA
* * * *
21167811 ATATATGGAATGGTTATATAAATCGATTATATGGAAAATGG
1 ATATATGAAATGGTTATATGAATCGGTTATAT-GAAAATAG
*
21167852 ATATATGAAATGGTTACATGAATCGGTTATATGAAAATAG
1 ATATATGAAATGGTTATATGAATCGGTTATATGAAAATAG
* * *
21167892 ATATATGAAATGGTTATAAGAACCGGTTATATGGAAATAG
1 ATATATGAAATGGTTATATGAATCGGTTATATGAAAATAG
*
21167932 ATATATGGAATGG
1 ATATATGAAATGG
21167945 AACATTGGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 55 0.66
41 28 0.34
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (40 bp):
ATATATGAAATGGTTATATGAATCGGTTATATGAAAATAG
Found at i:21173604 original size:39 final size:39
Alignment explanation
Indices: 21173551--21173693 Score: 207
Period size: 39 Copynumber: 3.7 Consensus size: 39
21173541 ATATCCATAA
* *
21173551 ATATGA-TATTGTGATCTATGCTTAAATTTTATGTGATT
1 ATATGAGTATTGTGATATATGCTTAAATGTTATGTGATT
* *
21173589 ATATGAGTATTGTGATATATGCTTAAATGTTATGCGGTT
1 ATATGAGTATTGTGATATATGCTTAAATGTTATGTGATT
*
21173628 ATATGAGTATTGTGATATATACTTAAATGTTATGTGATT
1 ATATGAGTATTGTGATATATGCTTAAATGTTATGTGATT
* **
21173667 ATATGTGTAAGGTGATATATGCTTAAA
1 ATATGAGTATTGTGATATATGCTTAAA
21173694 AGTGAATATG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 6 0.06
39 87 0.94
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (39 bp):
ATATGAGTATTGTGATATATGCTTAAATGTTATGTGATT
Found at i:21180580 original size:9 final size:9
Alignment explanation
Indices: 21180546--21180594 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
21180536 TCGATTTAAA
21180546 AAATTAA-T
1 AAATTAATT
21180554 AAATT--TT
1 AAATTAATT
21180561 AAATT--TT
1 AAATTAATT
21180568 AAATTAATT
1 AAATTAATT
21180577 AAATTAATT
1 AAATTAATT
*
21180586 ATATTAATT
1 AAATTAATT
21180595 TTTTGAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
7 13 0.35
8 5 0.14
9 19 0.51
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AAATTAATT
Found at i:21180819 original size:22 final size:21
Alignment explanation
Indices: 21180778--21180844 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
21180768 ATCTTCAAAA
21180778 ATTCAAAATATTTATAAAATATT
1 ATTCAAAAT-TTTAT-AAATATT
*
21180801 TTTCTAAAATTTTATAAATATAT
1 ATTC-AAAATTTTATAAATAT-T
*
21180824 ATTCAAAAATTTA-AAATATT
1 ATTCAAAATTTTATAAATATT
21180844 A
1 A
21180845 AAAATTACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.05
21 6 0.15
22 14 0.36
23 12 0.31
24 5 0.13
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTCAAAATTTTATAAATATT
Found at i:21180832 original size:23 final size:23
Alignment explanation
Indices: 21180778--21180842 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
21180768 ATCTTCAAAA
21180778 ATTCAAAATATTTATAAA-ATATT
1 ATTCAAAAT-TTTATAAATATATT
*
21180801 TTTCTAAAATTTTATAAATATA-T
1 ATTC-AAAATTTTATAAATATATT
*
21180824 ATTCAAAAATTTA-AAATAT
1 ATTCAAAATTTTATAAATAT
21180843 TAAAAATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.16
22 8 0.22
23 15 0.41
24 8 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTCAAAATTTTATAAATATATT
Found at i:21182687 original size:70 final size:70
Alignment explanation
Indices: 21182606--21182745 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
21182596 AAATTTAATT
21182606 TAATAATATAAATAGTAGACATAAATTCGAAAAAAAAAATTTGGAGTTTTGGGGGAAAGCACAAT
1 TAATAATATAAATAGTAGACATAAATTCGAAAAAAAAAATTTGGAGTTTTGGGGGAAAGCACAAT
21182671 GAAAA
66 GAAAA
21182676 TAATAATATAAATAGTAGACATAAATTCGAAAAAAAAAATTTGGAGTTTTGGGGGAAAGCACAAT
1 TAATAATATAAATAGTAGACATAAATTCGAAAAAAAAAATTTGGAGTTTTGGGGGAAAGCACAAT
21182741 GAAAA
66 GAAAA
21182746 AAATTGGGGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.24
Consensus pattern (70 bp):
TAATAATATAAATAGTAGACATAAATTCGAAAAAAAAAATTTGGAGTTTTGGGGGAAAGCACAAT
GAAAA
Found at i:21185988 original size:41 final size:41
Alignment explanation
Indices: 21185942--21186132 Score: 265
Period size: 41 Copynumber: 4.7 Consensus size: 41
21185932 TAATTATTCA
21185942 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * **
21185983 TTGAATTGCACATACATGCCATTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
21186024 CTGAATTGCACATATGTGCCCCTGTTTGTACTTTGATACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
21186065 CTAAATTGCACATACATGCCACTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
21186106 TTGAATTGCACCTATGTGCCCCTGTTT
1 CTGAATTGCACATACGTGCCCCTGTTT
21186133 ACACTCCGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:21186079 original size:82 final size:82
Alignment explanation
Indices: 21185942--21186132 Score: 310
Period size: 82 Copynumber: 2.3 Consensus size: 82
21185932 TAATTATTCA
* * * * *
21185942 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACATGCCATTG
1 CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
21186007 TTTGTACTTCGGTACCC
66 TTTGTACTTCGGTACCC
*
21186024 CTGAATTGCACATATGTGCCCCTGTTTGTACTTTGATACCCCTAAATTGCACATACATGCCACTG
1 CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
21186089 TTTGTACTTCGGTACCC
66 TTTGTACTTCGGTACCC
* *
21186106 TTGAATTGCACCTATGTGCCCCTGTTT
1 CTGAATTGCACATATGTGCCCCTGTTT
21186133 ACACTCCGGT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 101 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (82 bp):
CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
TTTGTACTTCGGTACCC
Found at i:21193746 original size:50 final size:49
Alignment explanation
Indices: 21193590--21193763 Score: 172
Period size: 51 Copynumber: 3.4 Consensus size: 49
21193580 CATAGTCTGT
*
21193590 ACATAGTACTACACATGTGACCATTACCA-TCCGATACACGTAGTAGCCTGC
1 ACATAGTACTACACATGTGACC--TA-CATTCCGGTACACGTAGTAGCCTGC
* * * * * * * *
21193641 ACATAGTACTACAGACGTGA-TTGAAATTATCCAGTACGCATAGTAGCCTGT
1 ACATAGTACTACACATGTGACCT-ACA-T-TCCGGTACACGTAGTAGCCTGC
*
21193692 ACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGC
1 ACATAGTACTACACATGTGACCTA-CATTCCGGTACACGTAGTAGCCTGC
*
21193742 ACATAGTACTACACACGTGACC
1 ACATAGTACTACACATGTGACC
21193764 ATCACTTTCA
Statistics
Matches: 97, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
48 2 0.02
49 1 0.01
50 38 0.39
51 54 0.56
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
ACATAGTACTACACATGTGACCTACATTCCGGTACACGTAGTAGCCTGC
Found at i:21198122 original size:14 final size:15
Alignment explanation
Indices: 21198089--21198122 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
21198079 ATTGATATTA
21198089 TTATTATTTCCTTTC
1 TTATTATTTCCTTTC
*
21198104 CTATTATTT-CTTTC
1 TTATTATTTCCTTTC
21198118 TTATT
1 TTATT
21198123 TCTTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTTCCTTTC
Found at i:21206040 original size:67 final size:67
Alignment explanation
Indices: 21205959--21206094 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
21205949 AAAGAGGTGC
* *
21205959 TAATCATCCTAGGAAGGCCTTTCCTAGAAATAGGAAGGACTTTAGTTGATGTGCAGAAAGACGAG
1 TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
21206024 CT
66 CT
* * *
21206026 TAATCATCCTAGGAAGGCCTTTCTTGGAAACAGGATGGACTTTAATTGATGTGCAGAAAGACGAG
1 TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
21206091 CT
66 CT
21206093 TA
1 TA
21206095 CCATACGTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (67 bp):
TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
CT
Found at i:21208056 original size:21 final size:21
Alignment explanation
Indices: 21208019--21208058 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21208009 ATAAGATTGG
21208019 AAATACTACGAGAATGGCTAT
1 AAATACTACGAGAATGGCTAT
*
21208040 AAATAGCTAGGAG-ATGGCT
1 AAATA-CTACGAGAATGGCT
21208059 CCCAGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (21 bp):
AAATACTACGAGAATGGCTAT
Found at i:21209853 original size:45 final size:45
Alignment explanation
Indices: 21209804--21209898 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
21209794 AACACCACCC
*
21209804 TTATAGTCAATAGTACTC-GCTGAAATCAGCACATAGCAACCACTT
1 TTATACTCAATAGTAC-CGGCTGAAATCAGCACATAGCAACCACTT
* * * *
21209849 TTATACTCAATGGTACCGGGTGAATTCAGCACATAGCAATCACTT
1 TTATACTCAATAGTACCGGCTGAAATCAGCACATAGCAACCACTT
*
21209894 ATATA
1 TTATA
21209899 ACAATTGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
TTATACTCAATAGTACCGGCTGAAATCAGCACATAGCAACCACTT
Found at i:21212237 original size:25 final size:26
Alignment explanation
Indices: 21212205--21212261 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
21212195 ACCCCCAAAC
*
21212205 AAATTTTGACAGTTTTACCC-TGTTA
1 AAATTTTGACAATTTTACCCTTGTTA
*
21212230 AAATTTTGACAATTTTTCCCTTGTTA
1 AAATTTTGACAATTTTACCCTTGTTA
21212256 AAATTT
1 AAATTT
21212262 CAAGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (26 bp):
AAATTTTGACAATTTTACCCTTGTTA
Found at i:21212246 original size:26 final size:25
Alignment explanation
Indices: 21212205--21212261 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
21212195 ACCCCCAAAC
21212205 AAATTTTGACAGTTTTACCC-TGTTA
1 AAATTTTGACAGTTTT-CCCTTGTTA
*
21212230 AAATTTTGACAATTTTTCCCTTGTTA
1 AAATTTTGAC-AGTTTTCCCTTGTTA
21212256 AAATTT
1 AAATTT
21212262 CAAGAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (25 bp):
AAATTTTGACAGTTTTCCCTTGTTA
Found at i:21221946 original size:25 final size:24
Alignment explanation
Indices: 21221918--21221987 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
21221908 ATTTCATTTA
21221918 GAAAATGTTCTCCTTATTAAAGTAG
1 GAAAATGTTCTCCTT-TTAAAGTAG
* **
21221943 GAAAGTAATCTCCTTTTGAAAGTAG
1 GAAAATGTTCTCCTTTT-AAAGTAG
* *
21221968 GAAAAAGTTATCCTTCTTAA
1 GAAAATGTTCTCCTT-TTAA
21221988 TTTAGGAGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 2 0.06
25 31 0.89
26 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (24 bp):
GAAAATGTTCTCCTTTTAAAGTAG
Found at i:21223118 original size:41 final size:41
Alignment explanation
Indices: 21223048--21223141 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
21223038 TTTTACATGG
* *
21223048 TAATCACAT-TCACTTTTAAGCATATATCACATTACAAATA
1 TAATCACATATCACTTTTAAGCATAGATCACAATACAAATA
* *
21223088 TAATCACATATCACATTTT-CGCATAGATCACAATACACATA
1 TAATCACATATCAC-TTTTAAGCATAGATCACAATACAAATA
21223129 TAATCACATATCA
1 TAATCACATATCA
21223142 TTCATATGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
40 9 0.19
41 35 0.73
42 4 0.08
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (41 bp):
TAATCACATATCACTTTTAAGCATAGATCACAATACAAATA
Found at i:21223156 original size:35 final size:35
Alignment explanation
Indices: 21223109--21223219 Score: 123
Period size: 35 Copynumber: 3.1 Consensus size: 35
21223099 CACATTTTCG
* *
21223109 CATAGATCACAATACACATATAATCACATATCATT
1 CATATATCACAATACTCATATAATCACATATCATT
* *
21223144 CATATGTCACAATACTCATATAATCACATAATATTCATG
1 CATATATCACAATACTCATATAATCAC---ATA-TCATT
** *
21223183 CATATATCACAATACTTTTATAATCACATAACATT
1 CATATATCACAATACTCATATAATCACATATCATT
21223218 CA
1 CA
21223220 AAGATATATC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
35 29 0.46
36 3 0.05
38 3 0.05
39 28 0.44
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (35 bp):
CATATATCACAATACTCATATAATCACATATCATT
Found at i:21223164 original size:16 final size:17
Alignment explanation
Indices: 21223114--21223210 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
21223104 TTTCGCATAG
*
21223114 ATCACAATACACATATA
1 ATCACAATACTCATATA
*
21223131 ATCACATATCATTCATAT-
1 ATCACA-AT-ACTCATATA
*
21223149 GTCACAATACTCATATA
1 ATCACAATACTCATATA
*
21223166 ATCACATAATATTCATGCATA
1 ATCAC--AATACTCAT--ATA
**
21223187 TATCACAATACTTTTATA
1 -ATCACAATACTCATATA
21223205 ATCACA
1 ATCACA
21223211 TAACATTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
16 7 0.11
17 18 0.29
18 10 0.16
19 14 0.22
20 6 0.10
21 3 0.05
22 5 0.08
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (17 bp):
ATCACAATACTCATATA
Found at i:21223198 original size:39 final size:39
Alignment explanation
Indices: 21223067--21223233 Score: 148
Period size: 39 Copynumber: 4.3 Consensus size: 39
21223057 TCACTTTTAA
* * *
21223067 GCATATATCACATTACAAATATAATCACATATCACATT-TT
1 GCATATATCACAATACACATATAATCACATA--ACATTCAT
*
21223107 CGCATAGATCACAATACACATATAATCACAT---A-TCAT
1 -GCATATATCACAATACACATATAATCACATAACATTCAT
* * * *
21223143 TCATATGTCACAATACTCATATAATCACATAATATTCAT
1 GCATATATCACAATACACATATAATCACATAACATTCAT
*** *
21223182 GCATATATCACAATACTTTTATAATCACATAACATTCAAA
1 GCATATATCACAATACACATATAATCACATAACATTC-AT
21223222 G-ATATATCACAA
1 GCATATATCACAA
21223234 CACTAAAAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
35 27 0.25
36 2 0.02
38 1 0.01
39 47 0.44
40 2 0.02
41 27 0.25
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.32
Consensus pattern (39 bp):
GCATATATCACAATACACATATAATCACATAACATTCAT
Found at i:21225405 original size:17 final size:17
Alignment explanation
Indices: 21225371--21225408 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
21225361 CCCAGTGCAC
* *
21225371 TGAC-ATGAATATGTAA
1 TGACAATGAAAATGAAA
21225387 TGACAATGAAAATGAAA
1 TGACAATGAAAATGAAA
21225404 TGACA
1 TGACA
21225409 GTTTATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (17 bp):
TGACAATGAAAATGAAA
Found at i:21235613 original size:28 final size:28
Alignment explanation
Indices: 21235572--21235703 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
21235562 GTTCAAGGTC
* *
21235572 TGCCACAAAAGCTTCCTTTAATAGTGAT
1 TGCCACAAAGGCTTCCTTTAATAGAGAT
* * *
21235600 AGCCACAAAGGCTTCC-TTAACAAAGAT
1 TGCCACAAAGGCTTCCTTTAATAGAGAT
* *
21235627 CGCCACAAAGTCTTCCTTTAATAGAGAT
1 TGCCACAAAGGCTTCCTTTAATAGAGAT
* *
21235655 TGCCTCAAAGGCTTCCTTTAATAGACAT
1 TGCCACAAAGGCTTCCTTTAATAGAGAT
*
21235683 TGCCACAAAGACTTCCTTTAA
1 TGCCACAAAGGCTTCCTTTAA
21235704 CAGTGATTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.25
28 66 0.75
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (28 bp):
TGCCACAAAGGCTTCCTTTAATAGAGAT
Found at i:21235642 original size:55 final size:55
Alignment explanation
Indices: 21235573--21235710 Score: 170
Period size: 55 Copynumber: 2.5 Consensus size: 55
21235563 TTCAAGGTCT
*
21235573 GCCACAAAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCC-TTAACAAAGATC
1 GCCAC-AAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATC
* * * * * *
21235628 GCCACAAAGTCTTCCTTTAATAGAGATTGCCTCAAAGGCTTCCTTTAATAGACATT
1 GCCACAAAG-CTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATC
*
21235684 GCCACAAAGACTTCCTTTAACAGTGAT
1 GCCACAAAG-CTTCCTTTAATAGTGAT
21235711 TTAGGCGATA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
54 4 0.06
55 35 0.49
56 32 0.45
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (55 bp):
GCCACAAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATC
Found at i:21235920 original size:52 final size:53
Alignment explanation
Indices: 21235828--21235927 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 53
21235818 TATATGATGT
** *
21235828 CATAACCCACTAGTTATGGTCATACACGATATGATTTTTTTC-CATATAATAC
1 CATAACCCACTAGTTACAGTCATACACGATATGATCTTTTTCGCATATAATAC
* * *
21235880 CATAACCCATTAGTTACAGTCTTACATGATAT-AGTCTTTTTCGCATAT
1 CATAACCCACTAGTTACAGTCATACACGATATGA-TCTTTTTCGCATAT
21235928 GATGCAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.03
52 34 0.85
53 5 0.12
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (53 bp):
CATAACCCACTAGTTACAGTCATACACGATATGATCTTTTTCGCATATAATAC
Found at i:21236010 original size:53 final size:51
Alignment explanation
Indices: 21235814--21236018 Score: 160
Period size: 53 Copynumber: 3.9 Consensus size: 51
21235804 TCCTTAAATA
* * * * * *
21235814 TTTCTATATGATGTCATAACCCA-CTAGTTATGGTCATACACGATATGATTTT
1 TTTCCATATGATGCCATAACCCATC-AGTTACGGTCTTACAAGATATG-TCTT
* * * * *
21235866 TTTCCATATAATACCATAACCCATTAGTTACAGTCTTACATGATATAGTCTT
1 TTTCCATATGATGCCATAACCCATCAGTTACGGTCTTACAAGATAT-GTCTT
* * * ** *
21235918 TTTCGCATATGATGCAATAACGCACCAGTTACGACCTTACAAGATGTGCTCTT
1 TTTC-CATATGATGCCATAACCCATCAGTTACGGTCTTACAAGATATG-TCTT
* * * *
21235971 CTTCCTATATGATGCCATAACCCATCAATTATGGTCTTACACGATATG
1 TTTCC-ATATGATGCCATAACCCATCAGTTACGGTCTTACAAGATATG
21236019 GTCCTTCAGT
Statistics
Matches: 117, Mismatches: 31, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
52 45 0.38
53 72 0.62
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (51 bp):
TTTCCATATGATGCCATAACCCATCAGTTACGGTCTTACAAGATATGTCTT
Found at i:21241118 original size:51 final size:50
Alignment explanation
Indices: 21240999--21241183 Score: 155
Period size: 50 Copynumber: 3.7 Consensus size: 50
21240989 GAAGTGATGG
* * * * * * *
21240999 TCACGTGTGTAGTGCTATGTCCAGGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTA-TACTATGTGCAGGCTACTATGTGTACCAGATAGTAAT-GA
* *
21241049 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCT-TACCAGATAGT-TTCGA
1 TCACATGTGTA-TACTATGTGCAGGCTACTATG-TGTACCAGATAGTAAT-GA
* * * *
21241100 TCACATGTGTAATACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGG
1 TCACATGTGT-ATACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
21241151 TCACATGTGT-TGACTATGTGCAGGCTACTATGT
1 TCACATGTGTAT-ACTATGTGCAGGCTACTATGT
21241184 TAACCGAACA
Statistics
Matches: 112, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
49 1 0.01
50 55 0.49
51 53 0.47
52 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACATGTGTATACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
Found at i:21241167 original size:101 final size:101
Alignment explanation
Indices: 21240999--21241182 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
21240989 GAAGTGATGG
* * * * *
21240999 TCACGTGTGTAGTGCTATGTCCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAATACTATGTCCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
21241064 TATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
66 TATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
* * * *
21241100 TCACATGTGTAATACTATGTGCAGGCTACTACGTGTATCAG-ATGGTAATGGTCACATGTGTTG-
1 TCACATGTGTAATACTATGTCCAGGCTACTACGTGTACCAGAATGAT-A-GGTCACATGTGTAGT
21241163 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
21241183 TTAACCGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
100 4 0.06
101 56 0.78
102 12 0.17
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAATACTATGTCCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
Found at i:21244103 original size:49 final size:51
Alignment explanation
Indices: 21244048--21244151 Score: 135
Period size: 49 Copynumber: 2.1 Consensus size: 51
21244038 TTACAATCAT
* *
21244048 TTTTGAGAAATCCTTATTCATTTAT-AAATGAATT-CA-TTTCT-CATTTTCA
1 TTTTGAGAAAACCATATTCATTT-TCAAATG-ATTCCATTTTCTCCATTTTCA
*
21244097 TTTTGAGAAAACCATATTCATTTTCATATGATTCCATTTTCTCCATTTTCA
1 TTTTGAGAAAACCATATTCATTTTCAAATGATTCCATTTTCTCCATTTTCA
21244148 TTTT
1 TTTT
21244152 CATTTTCATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 4 0.08
49 27 0.56
50 5 0.10
51 12 0.25
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (51 bp):
TTTTGAGAAAACCATATTCATTTTCAAATGATTCCATTTTCTCCATTTTCA
Found at i:21258644 original size:27 final size:26
Alignment explanation
Indices: 21258475--21258645 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 26
21258465 AGAGGTCGTT
* *
21258475 AAATGACCGAAATACTCCCATAGGGTA
1 AAATGACTGAAATAC-CCTATAGGGTA
*
21258502 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCT-ATAGGGTA
*
21258529 AAACGACTGAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCT-ATAGGGTA
* * * *
21258556 AAATGACTAAAATACCCCCATAAGTTA
1 AAATGACTGAAATA-CCCTATAGGGTA
**
21258583 AAATGACCAAAATATCCCTATAGGGTA
1 AAATGACTGAAATA-CCCTATAGGGTA
*
21258610 AAATGACTGAAATACCTCTAGAGGGTA
1 AAATGACTGAAATACC-CTATAGGGTA
21258637 AAATGACTG
1 AAATGACTG
21258646 TTATACCCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.03
27 118 0.94
28 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATGACTGAAATACCCTATAGGGTA
Found at i:21258654 original size:81 final size:81
Alignment explanation
Indices: 21258475--21258644 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
21258465 AGAGGTCGTT
** * * *
21258475 AAATGACCGAAATACTCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAACGACTGAA
1 AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAACGACTGAA
*
21258540 ATACCCTCATAGGGTA
66 ATACCCTCAGAGGGTA
* *
21258556 AAATGACTAAAATACCCCCATAAGTTAAAATGACCAAAATATCCCT-ATAGGGTAAAATGACTGA
1 AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATA-CCCTCATAGGGTAAAACGACTGA
21258620 AATA-CCTCTAGAGGGTA
65 AATACCCTC-AGAGGGTA
21258637 AAATGACT
1 AAATGACT
21258645 GTTATACCCC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 4 0.05
81 71 0.90
82 4 0.05
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (81 bp):
AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAACGACTGAA
ATACCCTCAGAGGGTA
Found at i:21258883 original size:26 final size:26
Alignment explanation
Indices: 21258806--21258886 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
21258796 TGGAGGAAGT
*
21258806 ATACTATTACTAGTAGCTTTGTTGCA
1 ATACTATTACTAGTAGCTTTGTTGCG
* * *
21258832 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTATTACTAGTAGCTTTGTTGCG
*
21258858 ATACTATTACTGGTAGCTTTGTTGCG
1 ATACTATTACTAGTAGCTTTGTTGCG
21258884 ATA
1 ATA
21258887 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (26 bp):
ATACTATTACTAGTAGCTTTGTTGCG
Found at i:21269356 original size:6 final size:6
Alignment explanation
Indices: 21269345--21269389 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
21269335 CTATATATAC
* *
21269345 AATTTT AATTTTTT ATTTTT TATTTT AATTTT AATTTT AATTTT A
1 AATTTT AA--TTTT AATTTT AATTTT AATTTT AATTTT AATTTT A
21269390 GGTTGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 28 0.85
8 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
AATTTT
Found at i:21281969 original size:45 final size:45
Alignment explanation
Indices: 21281919--21282035 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
21281909 AGACGACCTA
* * * * *
21281919 CTAGTACAGTGTGGATAAACCACTCATCGATGCAGATAAAAGTTG
1 CTAGTACGGTGTGAATAAACCACTCAACGATACAGACAAAAGTTG
* * * * *
21281964 CTAGTATGGTGTGAATAAATCACTCAACGGTATAGACAAAATTTG
1 CTAGTACGGTGTGAATAAACCACTCAACGATACAGACAAAAGTTG
* * *
21282009 CAAGTACGGTGTGCATAAACCATTCAA
1 CTAGTACGGTGTGAATAAACCACTCAA
21282036 TGATGCAAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
CTAGTACGGTGTGAATAAACCACTCAACGATACAGACAAAAGTTG
Found at i:21287773 original size:25 final size:25
Alignment explanation
Indices: 21287739--21287812 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
21287729 AGGGTGACAG
*
21287739 ATTTGTAGCTCGTGAGAGCATACCA
1 ATTTATAGCTCGTGAGAGCATACCA
* * **
21287764 ATTTATAGCTCGTAAGAGCTTACTG
1 ATTTATAGCTCGTGAGAGCATACCA
* * *
21287789 ATTCATATCTCGTGAGAGCCTACC
1 ATTTATAGCTCGTGAGAGCATACC
21287813 GATCTTCAGC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
ATTTATAGCTCGTGAGAGCATACCA
Found at i:21289457 original size:50 final size:50
Alignment explanation
Indices: 21289399--21289676 Score: 320
Period size: 50 Copynumber: 5.5 Consensus size: 50
21289389 GACGGCCACG
21289399 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
* ** * *
21289449 TGTGTAGTACTATGTGCAGGCTACTATGCATACC-G---GATAGCTTCAATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT---GCA
21289498 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
1 --TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
* ** * *
21289550 TGTGTAGTACTATGTGCAGGCTACTATGCATACC-G---GATAGCTTCAATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT---GCA
21289599 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
1 --TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
21289651 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
21289677 TGCATACCGG
Statistics
Matches: 190, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
46 14 0.07
49 6 0.03
50 88 0.46
51 62 0.33
52 6 0.03
55 14 0.07
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
Found at i:21289524 original size:51 final size:51
Alignment explanation
Indices: 21289449--21289726 Score: 324
Period size: 51 Copynumber: 5.5 Consensus size: 51
21289439 ATAGGTTGCA
21289449 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
* ** * *
21289500 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT---GCA--
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACC-G---GATAGCTTCAATCACG
21289550 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
* ** * *
21289601 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT---GCA--
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACC-G---GATAGCTTCAATCACG
21289651 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
21289702 TGTGTAGTACTATGTGCAGGCTACT
1 TGTGTAGTACTATGTGCAGGCTACT
21289727 GCGTGTATCA
Statistics
Matches: 189, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
46 14 0.07
49 6 0.03
50 62 0.33
51 87 0.46
52 6 0.03
55 14 0.07
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTCAATCACG
Found at i:21289535 original size:101 final size:101
Alignment explanation
Indices: 21289395--21289779 Score: 682
Period size: 101 Copynumber: 3.8 Consensus size: 101
21289385 AACTGACGGC
21289395 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
21289460 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
66 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
21289496 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
21289561 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
66 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
21289597 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
21289662 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
66 ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
* * ** * *
21289698 CACGTGTGTAGTACTATGTGCAGGCTACTGCGTGTATCAGAAAGTGAT-GGTCACTTGTCTAGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AA-TGATAGGTTGCATGTGTAGTA
*
21289762 CTATGCGCAGGCTACTAT
64 CTATGTGCAGGCTACTAT
21289780 ATGAACCTGT
Statistics
Matches: 275, Mismatches: 7, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
101 240 0.87
102 31 0.11
103 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACT
ATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
Found at i:21290026 original size:16 final size:16
Alignment explanation
Indices: 21290005--21290036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21289995 TGATTGAAAG
*
21290005 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
21290021 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
21290037 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:21292062 original size:15 final size:15
Alignment explanation
Indices: 21292042--21292071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21292032 AATATGGTTT
21292042 AATGATAGAAGATTA
1 AATGATAGAAGATTA
*
21292057 AATGATAGATGATTA
1 AATGATAGAAGATTA
21292072 TGCATAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (15 bp):
AATGATAGAAGATTA
Found at i:21307694 original size:53 final size:53
Alignment explanation
Indices: 21307614--21307733 Score: 231
Period size: 53 Copynumber: 2.3 Consensus size: 53
21307604 AACAAAGGGA
21307614 CACACGGCCGTGTCCAGCTCGTATCTCTAGCTGTATAACTCATTAAGTTGGGT
1 CACACGGCCGTGTCCAGCTCGTATCTCTAGCTGTATAACTCATTAAGTTGGGT
21307667 CACACGGCCGTGTCCAGCTCGTATCTCTAGCTGTATAACTCATTAAGTTGGGT
1 CACACGGCCGTGTCCAGCTCGTATCTCTAGCTGTATAACTCATTAAGTTGGGT
*
21307720 CACACGGCCATGTC
1 CACACGGCCGTGTC
21307734 GCAGGCCGTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (53 bp):
CACACGGCCGTGTCCAGCTCGTATCTCTAGCTGTATAACTCATTAAGTTGGGT
Found at i:21307759 original size:53 final size:53
Alignment explanation
Indices: 21307640--21307817 Score: 175
Period size: 53 Copynumber: 3.3 Consensus size: 53
21307630 GCTCGTATCT
* * *
21307640 CTAGCTGTATAACTCATTAAGTTGGGTCACACGGCCGTGTC-CA-GCTCGTATCT
1 CTAGCTGTATAACTCATTAAGTTGGGTCACACGGCCATGTCGCAGGC-CGTGT-G
21307693 CTAGCTGTATAACTCATTAAGTTGGGTCACACGGCCATGTCGCAGGCCGTGTG
1 CTAGCTGTATAACTCATTAAGTTGGGTCACACGGCCATGTCGCAGGCCGTGTG
* * **** *
21307746 C-AGACTGTGTAACTC-TCTAACTTACAACACATGGCCATGTCGCAGGCCGTGTG
1 CTAG-CTGTATAACTCAT-TAAGTTGGGTCACACGGCCATGTCGCAGGCCGTGTG
* *
21307799 CTAGGCCGTGTAACTCATT
1 CTA-GCTGTATAACTCATT
21307818 GACTTAGTAC
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
52 3 0.03
53 82 0.77
54 18 0.17
55 4 0.04
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (53 bp):
CTAGCTGTATAACTCATTAAGTTGGGTCACACGGCCATGTCGCAGGCCGTGTG
Found at i:21309987 original size:10 final size:10
Alignment explanation
Indices: 21309944--21309998 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
21309934 AATATGAACA
21309944 TGATTAATTT
1 TGATTAATTT
*
21309954 TAATTAATTT
1 TGATTAATTT
*
21309964 TATAGTTAATTT
1 T-GA-TTAATTT
21309976 TGATTAATTT
1 TGATTAATTT
* *
21309986 TGACTATTTT
1 TGATTAATTT
21309996 TGA
1 TGA
21309999 CAGATTCGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
10 28 0.74
11 2 0.05
12 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (10 bp):
TGATTAATTT
Found at i:21344720 original size:15 final size:15
Alignment explanation
Indices: 21344700--21344732 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21344690 ACAAAAACAG
21344700 TTCGAATCTTCAAGC
1 TTCGAATCTTCAAGC
21344715 TTCGAATCTTCAAGC
1 TTCGAATCTTCAAGC
21344730 TTC
1 TTC
21344733 ACCCCTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (15 bp):
TTCGAATCTTCAAGC
Found at i:21346772 original size:65 final size:65
Alignment explanation
Indices: 21346668--21346798 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
21346658 CAAATAGGGG
* * *
21346668 TCACACGACTGTATGATGGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAATTGA
1 TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
* * * *
21346733 TCACACAAGTGTATGATAGGTTGAGGCCGTTTGGAGCTAAGTGACATGGTCGTGTTGTCAACTGA
1 TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
21346798 T
1 T
21346799 GTCATGTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (65 bp):
TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
Found at i:21350655 original size:45 final size:44
Alignment explanation
Indices: 21350582--21350670 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 44
21350572 AGATTTGCTA
* * * *
21350582 TTCTCAGTCTGCCCCACTGCAACTTCAGGGGGGATAAGACTTGAT
1 TTCTCAGTCTGCCCCACTACAACCTCA-GGGAGATAAGACCTGAT
* **
21350627 TTCTCAGTCTGCTCGGCTACAACCTCAGGGAGATAAGACCTGAT
1 TTCTCAGTCTGCCCCACTACAACCTCAGGGAGATAAGACCTGAT
21350671 GTGATCTACT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (44 bp):
TTCTCAGTCTGCCCCACTACAACCTCAGGGAGATAAGACCTGAT
Found at i:21350875 original size:44 final size:44
Alignment explanation
Indices: 21350564--21351666 Score: 268
Period size: 44 Copynumber: 25.2 Consensus size: 44
21350554 TACACCGCCG
* * * *
21350564 GGGAAATAAGATTTGCTATTC-TCAGTCTGCCCCACTGCAACTTCA
1 GGGAGATAAGATTTG-T-TTCTTCAATCTGCTCCACTGCAACCTCA
* * * ** *
21350609 GGGGGGATAAGACTTGATTTC-TCAGTCTGCTCGGCTACAACCTCA
1 -GGGAGATAAGATTTG-TTTCTTCAATCTGCTCCACTGCAACCTCA
** * * * * * *
21350654 GGGAGATAAGACCTG-AT-GT-GATCTACTCTACTGCAACTTCA
1 GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
* * * * * *
21350695 GAGAGATAAGATCTATTGT-TTTAATCCGCTCCAACTGCAACTTCA
1 GGGAGATAAGATTTGTT-TCTTCAATCTGCTCC-ACTGCAACCTCA
* * * *
21350740 GGGAGATAGGATTATCG--GCTTCAATCTGCTCCACTGTAACCTTA
1 GGGAGATAAGATT-T-GTTTCTTCAATCTGCTCCACTGCAACCTCA
** * * * ** *
21350784 GGGAGATAAGATTTGCCATCTTCGATCTGCTCTACTAC-TGCTTA
1 GGGAGATAAGATTTG-TTTCTTCAATCTGCTCCACTGCAACCTCA
**
21350828 GGGAGATAAGATTTGTTTCTTCGGTCTGCTCCACTGCAACCTCA
1 GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
** * ** * *
21350872 GGGAGATAAGACCTGATGTGATCTAATTTG-T----TGCAACTTCA
1 GGGAGATAAGATTTG-TTTCTTC-AATCTGCTCCACTGCAACCTCA
* * * * * * * ** *
21350913 GAGAGATAAGATCTATTAT-TTGAATCCGCTCTACTCCCGCTTCA
1 GGGAGATAAGATTTGTT-TCTTCAATCTGCTCCACTGCAACCTCA
* * * **
21350957 GGGAGATAGGATTATCG--GCTTCATTCTGCTCCACTGCAAAGTCA
1 GGGAGATAAGATT-T-GTTTCTTCAATCTGCTCCACTGCAACCTCA
* * * * * * *
21351001 GGGAGATAAGATTTG---ATGCGATCTACTCTATTGCAACCTTA
1 GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
* * * *
21351042 GAGG-GATAAGATCTGTTATATT-AATCCGCTCCACTGCAACTTCA
1 G-GGAGATAAGATTTGTT-TCTTCAATCTGCTCCACTGCAACCTCA
* * ** * * * * *
21351086 GGGAGATAGGATTAGTGGCTTCAATGTACTCTACTGTATCCTCA
1 GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
* * * * * ** *
21351130 GGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTAC-TGCTTA
1 GGGAGATAAGATTTGT-TTCTTCAATCTGCTCCACTGCAACCTCA
* * * ** * *
21351174 GGGAGATATGATCTGAGATTCTTCGGTCTGCTCCACTGTAACTTCA
1 GGGAGATAAGAT-T-TGTTTCTTCAATCTGCTCCACTGCAACCTCA
** * * * * *
21351220 GGGAGATAAGACCTGATGCGATCAA-CT-CT--ACTACAACTTCA
1 GGGAGATAAGATTTGTTTC-TTCAATCTGCTCCACTGCAACCTCA
* * ** * *
21351261 GAGAGATAAGATCTGTTAT-TTCAATCCACTCCACTACAACTTCA
1 GGGAGATAAGATTTGTT-TCTTCAATCTGCTCCACTGCAACCTCA
* * *
21351305 GGGCGATAGGATTATCG--GCTTCAATCTGCTCCACTGCAACCTCA
1 GGGAGATAAGATT-T-GTTTCTTCAATCTGCTCCACTGCAACCTCA
* ** * * *
21351349 TGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
1 GGGAGATAAGATTTG-TTTCTTCAATCTGCTCCACTGCAACCTCA
* * * * * *
21351394 GGGGGATAAGACTTGCTTTC-TCAGTCTGTTCCGCTGCCACCTCA
1 GGGAGATAAGATTTG-TTTCTTCAATCTGCTCCACTGCAACCTCA
** * * * * ** *
21351438 GGGAGATAAGACCTG-AT-GT-GATCTACTCTGCTGCAACTTCA
1 GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
** * * * * * * * *
21351479 GATAGATAAGATCTATTAT-TTGAACCCGCTCCACTGCCACTTTA
1 GGGAGATAAGATTTGTT-TCTTCAATCTGCTCCACTGCAACCTCA
* * *
21351523 GGGAGATAGGATTATCG--GCTTCAATCTGCTCCACTACAACCTCA
1 GGGAGATAAGATT-T-GTTTCTTCAATCTGCTCCACTGCAACCTCA
** * *
21351567 GGGAGATAAGATTTGCCATCTTCAGTCTG-TGCCACTGCAACTTCA
1 GGGAGATAAGATTTG-TTTCTTCAATCTGCT-CCACTGCAACCTCA
* * **
21351612 GGGGGATAAGACTTGCTTTC-TCGGTCTGCTCCACTGCAACCTCA
1 GGGAGATAAGATTTG-TTTCTTCAATCTGCTCCACTGCAACCTCA
*
21351656 AGGAGATAAGA
1 GGGAGATAAGA
21351667 CTTGATGTGA
Statistics
Matches: 757, Mismatches: 242, Indels: 118
0.68 0.22 0.11
Matches are distributed among these distances:
39 4 0.01
40 7 0.01
41 127 0.17
42 12 0.02
43 31 0.04
44 357 0.47
45 188 0.25
46 31 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
GGGAGATAAGATTTGTTTCTTCAATCTGCTCCACTGCAACCTCA
Found at i:21350964 original size:129 final size:129
Alignment explanation
Indices: 21350812--21351108 Score: 327
Period size: 129 Copynumber: 2.3 Consensus size: 129
21350802 TCTTCGATCT
* * * * *
21350812 GCTCTACTACTGCTT-AGGGAGATAAGATT-T-GTTTCTTCGGTCTGCTCCACTGCAACCTCAGG
1 GCTCTACTACAGCTTCAGGGAGATAGGATTATCG--GCTTCAGTCTGCTCCACTGCAAACTCAGG
* * *
21350874 GAGATAAGACCTGATGTGATCTAATTTGTTGCAA-CTTCAGAGAGATAAGATCTATTAT-TTGAA
64 GAGATAAGACCTGATGCGATCTAATCTATTGCAACCTT-AGAGAGATAAGATCTATTATATT-AA
21350937 TCC
127 TCC
* * * *
21350940 GCTCTACTCCCGCTTCAGGGAGATAGGATTATCGGCTTCATTCTGCTCCACTGCAAAGTCAGGGA
1 GCTCTACTACAGCTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGCAAACTCAGGGA
** * * *
21351005 GATAAGATTTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATATTAATCC
66 GATAAGACCTGATGCGATCTAATCTATTGCAACCTTAGAGAGATAAGATCTATTATATTAATCC
* * *
21351069 GCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCA
1 GCTCTACTACAGCTTCAGGGAGATAGGATTA-TCGGCTTCA
21351109 ATGTACTCTA
Statistics
Matches: 143, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
128 13 0.09
129 122 0.85
130 7 0.05
131 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
GCTCTACTACAGCTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGCAAACTCAGGGA
GATAAGACCTGATGCGATCTAATCTATTGCAACCTTAGAGAGATAAGATCTATTATATTAATCC
Found at i:21351131 original size:129 final size:129
Alignment explanation
Indices: 21350856--21351134 Score: 330
Period size: 129 Copynumber: 2.2 Consensus size: 129
21350846 CTTCGGTCTG
* * *
21350856 CTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTAATTTGTTGCAACTTCAGAGAGATA
1 CTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTATTGCAACTTCAGAGAGATA
* ** * *
21350921 AGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTATCGGCTTCATTCTG
66 AGATCTATTATTTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTA
** ** * *
21350985 CTCCACTGCAAAGTCAGGGAGATAAGATTTGATGCGATCTACTCTATTGCAACCTT-AGAGGGAT
1 CTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTATTGCAA-CTTCAGAGAGAT
* * *
21351049 AAGATCTGTTATATT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATG
65 AAGATCTATTAT-TTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATC
21351112 TA
128 TA
* * *
21351114 CTCTACTGTATCCTCAGGGAG
1 CTCCACTGCAACCTCAGGGAG
21351135 GTAAAATCTG
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 119 0.95
130 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (129 bp):
CTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTATTGCAACTTCAGAGAGATA
AGATCTATTATTTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTA
Found at i:21351272 original size:348 final size:347
Alignment explanation
Indices: 21350650--21351363 Score: 986
Period size: 348 Copynumber: 2.1 Consensus size: 347
21350640 CGGCTACAAC
** * * *
21350650 CTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTT
1 CTCAGGGAGATAAGATTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATA
*
21350715 TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAAC
66 TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGTAAC
* * * * * * *
21350780 CTTAGGGAGATAAGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGTT
131 CTCAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTAGAT
* * ** *
21350845 TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTAATTTGTTGCAACT
196 TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTACTACAACT
* * * * **
21350910 TCAGAGAGATAAGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTATCGG
261 TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
*
21350975 CTTCATTCTGCTCCACTGCAAA
326 CTTCAATCTGCTCCACTGCAAA
* * * *
21350997 GTCAGGGAGATAAGATTTGATGCGATCTACTCTATTGCAACCTT-AGAGGGATAAGATCTGTTAT
1 CTCAGGGAGATAAGATTTGATGCGATCTACTCTACTGCAA-CTTCAGAGAGATAAGATCTATTAT
* *
21351061 ATTAATCCGCTCC-ACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATGTACTCTACTGTA
65 ATTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTACTCCACTGTA
* * * *
21351124 TCCTCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTG
129 ACCTCAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-
* *
21351189 AGATTCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATC-AACTCTACTA
192 AGATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAA-TCTACTA
* *
21351253 CAACTTCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATT
256 CAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATT
*
21351318 ATCGGCTTCAATCTGCTCCACTGCAAC
321 ATCGGCTTCAATCTGCTCCACTGCAAA
*
21351345 CTCATGGAGATAAGATTTG
1 CTCAGGGAGATAAGATTTG
21351364 CCATCTTCAG
Statistics
Matches: 320, Mismatches: 42, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
346 98 0.31
347 68 0.21
348 154 0.48
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (347 bp):
CTCAGGGAGATAAGATTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATA
TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGTAAC
CTCAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTAGAT
TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTACTACAACT
TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
CTTCAATCTGCTCCACTGCAAA
Found at i:21351512 original size:348 final size:345
Alignment explanation
Indices: 21350650--21351577 Score: 791
Period size: 348 Copynumber: 2.7 Consensus size: 345
21350640 CGGCTACAAC
** * * * * * *
21350650 CTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAA-CTTCAGAGAGATAAGATCTATTGT
1 CTCAGGGAGATAAGATTTGATGCGATCTACCCCACTGCAACCTT-AGAGGGATAAGATCTGTTAT
* * * * * * * *
21350714 TTTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCCACTGTA
65 ATCAATCCGCTCC-ACTGCAACCTCAGGGAGATAAGATGAGT-GGC-TCAATCTACTCTACTGCA
* * * * ** * * * * *
21350778 ACCTTAGGGAGATAAGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTG
127 ACCTCAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGATTAG
* * * ** *
21350843 TTTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTAATTTGTTGCAA
192 ATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTACTACAA
* * * * **
21350908 CTTCAGAGAGATAAGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTATC
257 CTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATC
*
21350973 GGCTTCATTCTGCTCCACTGCAAA
322 GGCTTCAATCTGCTCCACTGCAAA
* * * *
21350997 GTCAGGGAGATAAGATTTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATA
1 CTCAGGGAGATAAGATTTGATGCGATCTACCCCACTGCAACCTTAGAGGGATAAGATCTGTTATA
* * * * * * *
21351062 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCTACTGTATCC
66 TCAATCCGCTCCACTGCAACCTCAGGGAGATAAGATGAGTGGC-TCAATCTACTCTACTGCAACC
* * * * * *
21351127 TCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGAGA
130 TCAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGAT-T-AGA
* *
21351192 TTCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATC-AACTCTACTACAA
193 TTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAA-TCTACTACAA
* *
21351256 CTTCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTATC
257 CTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATC
*
21351321 GGCTTCAATCTGCTCCACTGCAAC
322 GGCTTCAATCTGCTCCACTGCAAA
* * * *
21351345 CTCATGGAGATAAGATTTGCCAT-CTTCAGTCTGCCCCACTGCAA-CTTCAGGGGGATAAGA-CT
1 CTCAGGGAGATAAGATTTG--ATGC--GA-TCTACCCCACTGCAACCTT-AGAGGGATAAGATC-
* * * * * * *
21351407 TGCTT-TCTCAGTCTGTTCCGCTGCCACCTCAGGGAGATAAGACCTGA-T-G-T-GATCTACTCT
59 TG-TTATATCAATCCGCTCCACTGCAACCTCAGGGAGATAAGA--TGAGTGGCTCAATCTACTCT
* * * * * * * **
21351467 GCTGCAACTTCAGATAGATAAGATCTATTAT-TTGAACCCGCTCCACTGCCACTTTAGGGAGATA
121 ACTGCAACCTCAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGC-TTAGGGAGATA
* **** ** *
21351531 GGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGA
185 AGATTAGATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
21351578 TTTGCCATCT
Statistics
Matches: 479, Mismatches: 86, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
346 98 0.20
347 101 0.21
348 170 0.35
349 44 0.09
350 3 0.01
351 5 0.01
352 53 0.11
353 3 0.01
354 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (345 bp):
CTCAGGGAGATAAGATTTGATGCGATCTACCCCACTGCAACCTTAGAGGGATAAGATCTGTTATA
TCAATCCGCTCCACTGCAACCTCAGGGAGATAAGATGAGTGGCTCAATCTACTCTACTGCAACCT
CAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGATTAGATTC
TTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTAATCTACTACAACTTC
AGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCT
TCAATCTGCTCCACTGCAAA
Found at i:21351806 original size:437 final size:437
Alignment explanation
Indices: 21350998--21351821 Score: 1000
Period size: 437 Copynumber: 1.9 Consensus size: 437
21350988 CACTGCAAAG
** * * *
21350998 TCAGGGAGATAAGATTTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATAT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATAT
* * * ** *
21351063 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCTACTGTATCCT
66 TAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATCTACTCCACTACAACCT
* * ** * *
21351128 CAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGAGAT
131 CAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACAACTTAGGGAGATAAGATCTGACAT
* * *
21351193 TCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATCAACTCTACTACAACT
196 TCTTCGGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGCGATCAACTCTACTACAACT
* *
21351258 TCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTATCGG
261 TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
* * * **
21351323 CTTCAATCTGCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTC-AGTCTGCCCCACTGC
326 CTTCAATCTACTCCACTGCAACCTCAAGGAGATAAAATCCGCCATCTTCGA-TCTGCCCCACTGC
21351387 AACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCACC
390 AACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCACC
* * *
21351435 TCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGATAGATAAGATCTATTAT-
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTT-AGAGAGATAAGATCTATTATA
* * *
21351498 TTGAACCCGCTCCACTGCCACTTTAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCCACTACAA
65 TT-AACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATCTACTCCACTACAA
* * * * *
21351562 CCTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-TGCCACTGCAACTTCAGGGGGATAAGA-CT
128 CCTCAGGGAGATAAAATCTGCCATCTTCAATCTGCT-CCACTACAACTT-AGGGAGATAAGATC-
* * * * *
21351625 TG-CTTTC-TCGGTCTGCTCCACTGCAACCTCAAGGAGATAAGACTTGATGTGATCTACTCTGCT
190 TGACATTCTTCGGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGCGATCAACTCTACT
* * * * * **
21351688 GCAACTTCAGAGAGATAAGATCTATTGTTTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGA
255 ACAACTTCAGAGAGATAAGATCTATT-ATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGA
* * * * * *
21351753 TTAGT-GGCTTCAATGTACTCCAGTGTATCCTCAAGGAGGTAAAATCCGCCATCTTCGATCTGCT
319 TTA-TCGGCTTCAATCTACTCCACTGCAACCTCAAGGAGATAAAATCCGCCATCTTCGATCTGCC
21351817 CCACT
383 CCACT
21351822 ACTATTTAGG
Statistics
Matches: 322, Mismatches: 56, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
436 80 0.25
437 228 0.71
438 14 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (437 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATAT
TAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATCTACTCCACTACAACCT
CAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACAACTTAGGGAGATAAGATCTGACAT
TCTTCGGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGCGATCAACTCTACTACAACT
TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
CTTCAATCTACTCCACTGCAACCTCAAGGAGATAAAATCCGCCATCTTCGATCTGCCCCACTGCA
ACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCACC
Found at i:21351840 original size:218 final size:218
Alignment explanation
Indices: 21350981--21351840 Score: 962
Period size: 218 Copynumber: 3.9 Consensus size: 218
21350971 TCGGCTTCAT
** ** *
21350981 TCTGCTCCACTGCAAAGTCAGGGAGATAAGATTTGATGCGATCTACTCTATTGCAACCTT-AGAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAA-CTTCAGAG
* * *
21351045 GGATAAGATCTGTTATATTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCA
65 AGATAAGATCTATTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCA
* * * * * * * **
21351109 ATGTACTCTACTGTATCCTCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTT-
129 ATCTACTCCACTGCAACCTCAGGGAGATAAAATCTGCCATCTTCAGTCTGCTCCACTACAACTTC
* **
21351173 AGGGAGATATGA-TCTGAGATTCTTCGG
194 AGGGAGATAAGACT-TG-CTTTC-TCGG
* * * *
21351200 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATCAACTCTACTACAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGA
* * * * *
21351265 GATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTATCGGCTTCAAT
66 GATAAGATCTATTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
* * * * * *
21351330 CTGCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAG
131 CTACTCCACTGCAACCTCAGGGAGATAAAATCTGCCATCTTCAGTCTGCTCCACTACAACTTCAG
* *
21351395 GGGGATAAGACTTGCTTTCTCAG
196 GGAGATAAGACTTGCTTTCTCGG
* * * * * *
21351418 TCTGTTCCGCTGCCACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGATA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGA
* * * *
21351483 GATAAGATCTATTATTTGAACCCGCTCCACTGCCACTTTAGGGAGATAGGATTATCGGCTTCAAT
66 GATAAGATCTATTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
* * * * *
21351548 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-TGCCACTGCAACTTCA
131 CTACTCCACTGCAACCTCAGGGAGATAAAATCTGCCATCTTCAGTCTGCT-CCACTACAACTTCA
*
21351612 GGGGGATAAGACTTGCTTTCTCGG
195 GGGAGATAAGACTTGCTTTCTCGG
* * * *
21351636 TCTGCTCCACTGCAACCTCAAGGAGATAAGACTTGATGTGATCTACTCTGCTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGA
* * *
21351701 GATAAGATCTATTGTTTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGATTAGT-GGCTTCA
66 GATAAGATCTATT-ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCA
* * * * * * * *
21351765 ATGTACTCCAGTGTATCCTCAAGGAGGTAAAATCCGCCATCTTC-GATCTGCTCCACTACTA-TT
129 ATCTACTCCACTGCAACCTCAGGGAGATAAAATCTGCCATCTTCAG-TCTGCTCCACTACAACTT
*
21351828 TAGGGAGATAAGA
193 CAGGGAGATAAGA
21351841 TCTGTAATTT
Statistics
Matches: 548, Mismatches: 84, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
218 288 0.53
219 245 0.45
220 14 0.03
221 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (218 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGA
GATAAGATCTATTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
CTACTCCACTGCAACCTCAGGGAGATAAAATCTGCCATCTTCAGTCTGCTCCACTACAACTTCAG
GGAGATAAGACTTGCTTTCTCGG
Found at i:21354205 original size:13 final size:12
Alignment explanation
Indices: 21354170--21354204 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21354160 TGGCCTCTCA
21354170 TTTTTCTTTTCC
1 TTTTTCTTTTCC
*
21354182 TTTTTCCTTTTCT
1 TTTTT-CTTTTCC
21354195 TTTTTCTTTT
1 TTTTTCTTTT
21354205 TATCATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTTCC
Found at i:21354251 original size:19 final size:19
Alignment explanation
Indices: 21354229--21354276 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
21354219 TGATTTTGAT
21354229 TTTTCCTTTTC-TTTTTTTA
1 TTTT-CTTTTCATTTTTTTA
*
21354248 TTTTTTTTTTCATTTTTTTA
1 -TTTTCTTTTCATTTTTTTA
21354268 TTTTCTTTT
1 TTTTCTTTT
21354277 TTTGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTTCATTTTTTTA
Found at i:21354256 original size:25 final size:25
Alignment explanation
Indices: 21354210--21354305 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 25
21354200 CTTTTTATCA
* * *
21354210 TTTTGATTTTGATTTTGATTTTTCCTT
1 TTTTTATTTT-ATTTT-TTTTTTCATT
21354237 TTCTTT-TTTTATTTTTTTTTTCATT
1 TT-TTTATTTTATTTTTTTTTTCATT
* * *
21354262 TTTTTATTTTCTTTTTTTGATTGATT
1 TTTTTATTTTATTTTTTT-TTTCATT
21354288 TTTTTATTTTGATTTTTT
1 TTTTTATTTT-ATTTTTT
21354306 ATTGATTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 3 0.05
25 21 0.36
26 20 0.34
27 12 0.21
28 2 0.03
ACGTcount: A:0.10, C:0.05, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTATTTTTTTTTTCATT
Found at i:21354265 original size:33 final size:34
Alignment explanation
Indices: 21354228--21354297 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
21354218 TTGATTTTGA
* *
21354228 TTTTTCCTTTTCTTTTTTT-ATT-TTTTTTTTCAT
1 TTTTTCATTTTCTTTTTTTGATTGATTTTTTT-AT
*
21354261 TTTTTTATTTTCTTTTTTTGATTGATTTTTTTAT
1 TTTTTCATTTTCTTTTTTTGATTGATTTTTTTAT
21354295 TTT
1 TTT
21354298 GATTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 17 0.53
34 8 0.25
35 7 0.22
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (34 bp):
TTTTTCATTTTCTTTTTTTGATTGATTTTTTTAT
Found at i:21354276 original size:20 final size:19
Alignment explanation
Indices: 21354229--21354277 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
21354219 TGATTTTGAT
*
21354229 TTTTCCTTTTCTTTTTTTA
1 TTTTCTTTTTCTTTTTTTA
*
21354248 TTTTTTTTTTCATTTTTTTA
1 TTTTCTTTTTC-TTTTTTTA
21354268 TTTTCTTTTT
1 TTTTCTTTTT
21354278 TTGATTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTCTTTTTCTTTTTTTA
Found at i:21354277 original size:13 final size:13
Alignment explanation
Indices: 21354248--21354308 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
21354238 TCTTTTTTTA
21354248 TTTTTT-TTTTCAT
1 TTTTTTATTTTC-T
21354261 TTTTTTATTTTCT
1 TTTTTTATTTTCT
**
21354274 TTTTTTGA-TTGAT
1 TTTTTT-ATTTTCT
**
21354287 TTTTTTATTTTGA
1 TTTTTTATTTTCT
21354300 TTTTTTATT
1 TTTTTTATT
21354309 GATTGAATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 33 0.82
14 6 0.15
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTTTATTTTCT
Found at i:21354288 original size:18 final size:18
Alignment explanation
Indices: 21354267--21354301 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21354257 TCATTTTTTT
21354267 ATTTTCTTT-TTTTGATTG
1 ATTTT-TTTATTTTGATTG
21354285 ATTTTTTTATTTTGATT
1 ATTTTTTTATTTTGATT
21354302 TTTTATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (18 bp):
ATTTTTTTATTTTGATTG
Found at i:21354288 original size:26 final size:25
Alignment explanation
Indices: 21354249--21354312 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
21354239 CTTTTTTTAT
* * *
21354249 TTTTTTTTTCATTTTTTTATTTTCT
1 TTTTTTATTGATTTTTTTATTTTCA
*
21354274 TTTTTTGATTGATTTTTTTATTTTGA
1 TTTTTT-ATTGATTTTTTTATTTTCA
21354300 TTTTTTATTGATT
1 TTTTTTATTGATT
21354313 GAATCTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTTTTATTGATTTTTTTATTTTCA
Found at i:21362726 original size:3 final size:3
Alignment explanation
Indices: 21362718--21362766 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
21362708 ATAAAGAAGG
21362718 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21362766 A
1 A
21362767 GGATTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21367455 original size:29 final size:29
Alignment explanation
Indices: 21367423--21367481 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
21367413 TCTTTCCTTC
*
21367423 GGGATATGCTAAAGATCGATCCACTAGTT
1 GGGATATGCTAAAGATCAATCCACTAGTT
* *
21367452 GGGATATGCTAACGATCAATCCGCTAGTT
1 GGGATATGCTAAAGATCAATCCACTAGTT
21367481 G
1 G
21367482 AAGTGTCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (29 bp):
GGGATATGCTAAAGATCAATCCACTAGTT
Found at i:21373276 original size:17 final size:15
Alignment explanation
Indices: 21373238--21373280 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
21373228 ATTTGATGGG
21373238 ATAATA-TTTATTTT
1 ATAATATTTTATTTT
21373252 ATTAATATTTTAGTGTTT
1 A-TAATATTTTA-T-TTT
21373270 ATAATATTTTA
1 ATAATATTTTA
21373281 CCAAGGTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.04
15 5 0.20
16 4 0.16
17 11 0.44
18 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
ATAATATTTTATTTT
Found at i:21377819 original size:39 final size:39
Alignment explanation
Indices: 21377604--21377826 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 39
21377594 TTGAATGCTG
* * * * *
21377604 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
21377644 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
21377683 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
21377724 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* *
21377764 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGCTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
21377803 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21377827 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.24
40 104 0.67
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21377846 original size:79 final size:80
Alignment explanation
Indices: 21377684--21377861 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
21377674 AGATACAAAT
* * * *
21377684 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
21377749 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
21377764 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGCTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
21377828 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
21377843 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21377862 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:21385599 original size:40 final size:39
Alignment explanation
Indices: 21385568--21385777 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
21385558 GGACTAAGAT
* *
21385568 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
21385608 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
21385648 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
21385688 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
21385728 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
21385767 CCGAAGGCATT
1 CCGAAGGCATT
21385778 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:21385731 original size:120 final size:120
Alignment explanation
Indices: 21385515--21385777 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
21385505 TTGAATGCTG
* *
21385515 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
21385579 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
21385635 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
21385698 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
21385754 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21385778 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21385797 original size:79 final size:80
Alignment explanation
Indices: 21385516--21385812 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
21385506 TGAATGCTGT
* ** * * * **
21385516 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
21385579 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
21385596 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
21385660 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
21385676 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
21385740 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
21385755 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
21385813 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:21387937 original size:27 final size:26
Alignment explanation
Indices: 21387907--21387973 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
21387897 ATATATAATT
21387907 ATTATAAAATAATTAAATTTTACTTAA
1 ATTATAAAATAATTAAATTTTACTT-A
* * *
21387934 ATTATTAACAT-TTTTAATTTTACTTA
1 ATTA-TAAAATAATTAAATTTTACTTA
* *
21387960 ATTTTATAATAATT
1 ATTATAAAATAATT
21387974 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.13
26 6 0.19
27 16 0.52
28 5 0.16
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTATAAAATAATTAAATTTTACTTA
Found at i:21387975 original size:27 final size:27
Alignment explanation
Indices: 21387914--21387975 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
21387904 ATTATTATAA
*
21387914 AATAA-TTAAATTTTACTTAAATTATT
1 AATAATTTTAATTTTACTTAAATTATT
* * *
21387940 AACATTTTTAATTTTACTT-AATTTTAT
1 AATAATTTTAATTTTACTTAAATTAT-T
21387967 AATAATTTT
1 AATAATTTT
21387976 TTATTAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
AATAATTTTAATTTTACTTAAATTATT
Found at i:21395698 original size:16 final size:15
Alignment explanation
Indices: 21395671--21395704 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
21395661 CTAACTACTA
21395671 TATAATTATATTAAT
1 TATAATTATATTAAT
21395686 TATAATATATATTAAT
1 TATAAT-TATATTAAT
21395702 TAT
1 TAT
21395705 TATCAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:21401140 original size:383 final size:378
Alignment explanation
Indices: 21400433--21401182 Score: 995
Period size: 383 Copynumber: 2.0 Consensus size: 378
21400423 CTAACTAAAC
* * *
21400433 TCACTTTACAAAGTAGTCCTATTTCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
1 TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
* *
21400498 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTATGACATAGTCCTTCGGTTAGC
66 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACA-A---CTTAGGTTAGC
* *
21400563 TAGATTATGCTACAACGATATCAAAAACATCAAATTTACTAAAAATGGACATCAAATTCACTTAC
127 TAGATTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTAC
* * *
21400628 ATGCAAGACAAATACTTGGCCAAATTTCTCAAGGTCTACTAATGGTGATTTTCGGTCAAAGAGGG
192 ATGCAAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGG
* * *
21400693 TGAAATAAAGGTGGGTGTTTTGTTTCTTTTGTTTATCTTATTTATTTATTTACTAATTTTCCCTT
257 TGAAATAAAGATGGGTATTTTGTTTCTTTTGTTTATCTTATTTATTTAATTACTAATTTTCCCTT
21400758 CAAAATTATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
322 CAAAA-TATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
* * * * * * *
21400816 TCACTTTACAAAATAATCCTATTCCAAGATCATGCTTCAAACTTCACCATTAACATCTAAAATGC
1 TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
* * *
21400881 TTTAAAAAGAACAATGGTAACTTTCAACATCTTTGATAGTTTTACGAC-A-TTAGGTTAGCTAGA
66 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACAACTTAGGTTAGCTAGA
* *
21400944 TTAAGCTACAATGATATCAAAAACAT-AAATTTACCAAAAATGGACATCAAATTCGCTTACATGC
131 TTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTACATGC
** * * * * * * * **
21401008 TTGATACATGCTTGGCCGAATTTCTCAGGGTCTTCCAATGGTGATTCTCTATCAAAGATTGTGAA
196 AAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGGTGAA
*
21401073 ATGAAGAAGATGGGTATTTT-TCTTCTTTTGTTTATGTTTTTTATTTATTTAATTACTAATTTTC
261 AT--A-AAGATGGGTATTTTGT-TTCTTTTGTTTA----TCTTATTTATTTAATTACTAATTTTC
* * *
21401137 CCTTTAAAATATTTCATAATTTCCAATTAGAACATGTGTAAACCAT
318 CCTTCAAAATATTTCATAATTTCCAATCAAAACATGTGTAAACCAT
21401183 CCACCAACAT
Statistics
Matches: 319, Mismatches: 40, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
376 89 0.28
377 37 0.12
378 2 0.01
379 24 0.08
381 1 0.00
382 35 0.11
383 131 0.41
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (378 bp):
TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACAACTTAGGTTAGCTAGA
TTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTACATGC
AAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGGTGAA
ATAAAGATGGGTATTTTGTTTCTTTTGTTTATCTTATTTATTTAATTACTAATTTTCCCTTCAAA
ATATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
Found at i:21407335 original size:27 final size:27
Alignment explanation
Indices: 21407276--21407336 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21407266 AGATTTGGCG
**
21407276 AGTTGGTGTACACTAGAAGGTCTGGCA
1 AGTTGGTGTACACTAGAAGGTCTAACA
* ** *
21407303 AATTGGTGTATGCTAGCAGGTCTAACA
1 AGTTGGTGTACACTAGAAGGTCTAACA
21407330 AGTTGGT
1 AGTTGGT
21407337 ATTCACTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (27 bp):
AGTTGGTGTACACTAGAAGGTCTAACA
Found at i:21408578 original size:27 final size:27
Alignment explanation
Indices: 21408519--21408579 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21408509 AGATTTGGCG
**
21408519 AGTTGGTGTACACTAGAAGGTCTGGCA
1 AGTTGGTGTACACTAGAAGGTCTAACA
* ** *
21408546 AATTGGTGTATGCTAGCAGGTCTAACA
1 AGTTGGTGTACACTAGAAGGTCTAACA
21408573 AGTTGGT
1 AGTTGGT
21408580 ATTCACTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (27 bp):
AGTTGGTGTACACTAGAAGGTCTAACA
Found at i:21415051 original size:17 final size:17
Alignment explanation
Indices: 21415029--21415081 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
21415019 TTCACAGTCC
21415029 AGTTTTTCACAATCTAT
1 AGTTTTTCACAATCTAT
*
21415046 AG-TTTTCTA-AGTCTAT
1 AGTTTTTC-ACAATCTAT
21415062 AGTTTTTCACAATCTAT
1 AGTTTTTCACAATCTAT
21415079 AGT
1 AGT
21415082 ATCAAATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (17 bp):
AGTTTTTCACAATCTAT
Found at i:21427811 original size:21 final size:20
Alignment explanation
Indices: 21427776--21427824 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
21427766 TTCTAACTTG
* *
21427776 TTTGAAAATGGTTAATACATA
1 TTTGAAACTGGTTAACACA-A
*
21427797 TTTGAAACTGTTTAACACAA
1 TTTGAAACTGGTTAACACAA
21427817 -TTGAAACT
1 TTTGAAACT
21427825 TTTTCAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (20 bp):
TTTGAAACTGGTTAACACAA
Found at i:21433389 original size:20 final size:20
Alignment explanation
Indices: 21433364--21433426 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21433354 CACATACGTG
21433364 CCCCTGTTTCTACTTTGGTA
1 CCCCTGTTTCTACTTTGGTA
* ** *
21433384 CCCCTGATTGC-ACTTACGTG
1 CCCCTG-TTTCTACTTTGGTA
*
21433404 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTCTACTTTGGTA
21433424 CCC
1 CCC
21433427 TTGAATACAC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTCTACTTTGGTA
Done.