Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 60 of 79
Found at i:19818440 original size:4 final size:4
Alignment explanation
Indices: 19818431--19818462 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
19818421 CTTCTTCTCC
19818431 TTCT TTCT TTCT TTCTT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTC
19818463 CCTTTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:19818450 original size:13 final size:13
Alignment explanation
Indices: 19818434--19818461 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19818424 CTTCTCCTTC
19818434 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
19818447 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
19818460 TT
1 TT
19818462 CCCTTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:19818451 original size:17 final size:17
Alignment explanation
Indices: 19818434--19818518 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 17
19818424 CTTCTCCTTC
*
19818434 TTTCTTTCTTTCTTTTC
1 TTTCTTTCTTTCTTTTG
19818451 TTTCTTTCTTTCCCTTTGTG
1 TTTCTTTCTTT--CTTT-TG
*
19818471 TTTCGTTT-TTGCTTTTG
1 TTTC-TTTCTTTCTTTTG
19818488 TTTCTTTCTATTTCTTTTTG
1 TTTCTTTC--TTTC-TTTTG
19818508 TTTCTTTCTTT
1 TTTCTTTCTTT
19818519 ATTATAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.05
17 17 0.30
18 7 0.12
19 7 0.12
20 20 0.35
21 3 0.05
ACGTcount: A:0.01, C:0.19, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTTG
Found at i:19818537 original size:7 final size:7
Alignment explanation
Indices: 19818525--19818600 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
19818515 CTTTATTATA
19818525 ATATAAT
1 ATATAAT
19818532 ATATAAT
1 ATATAAT
19818539 ATATAAT
1 ATATAAT
19818546 ATATAAT
1 ATATAAT
19818553 ATAT-AT
1 ATATAAT
*
19818559 ACT-TAAC
1 A-TATAAT
*
19818566 ATTTAAGT
1 ATATAA-T
*
19818574 -TTTAAT
1 ATATAAT
19818580 ATTATAAT
1 A-TATAAT
19818588 ATTATAAT
1 A-TATAAT
19818596 ATATA
1 ATATA
19818601 TATTTTAACT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
6 6 0.10
7 40 0.67
8 14 0.23
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (7 bp):
ATATAAT
Found at i:19818614 original size:43 final size:41
Alignment explanation
Indices: 19818535--19818631 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 41
19818525 ATATAATATA
19818535 TAATATATAATATATAATATATATACTTAACATTTAAGTTT
1 TAATATATAATATATAATATATATACTTAACATTTAAGTTT
* *
19818576 TAATATTATAATATTATAATATATATATTTTAAC-TTTAAAATTT
1 TAATA-TATAATA-TATAATATATATA-CTTAACATTT-AAGTTT
19818620 T-ATA-ATAATATA
1 TAATATATAATATA
19818632 CTTATGCCGC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
40 2 0.04
41 11 0.22
42 7 0.14
43 19 0.38
44 11 0.22
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (41 bp):
TAATATATAATATATAATATATATACTTAACATTTAAGTTT
Found at i:19819864 original size:15 final size:15
Alignment explanation
Indices: 19819841--19819870 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19819831 AATGGATTAT
19819841 CAAAAAATTAAAAAC
1 CAAAAAATTAAAAAC
*
19819856 CAAATAATTAAAAAC
1 CAAAAAATTAAAAAC
19819871 ATTAAGTTTT
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:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAAAAATTAAAAAC
Found at i:19828163 original size:3 final size:3
Alignment explanation
Indices: 19828155--19828182 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19828145 ATATACCAAA
19828155 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
19828183 TAGATTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19836117 original size:17 final size:17
Alignment explanation
Indices: 19836020--19836106 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 17
19836010 TAAATGATAG
19836020 ATTAAATTAAATATTAA
1 ATTAAATTAAATATTAA
* *
19836037 GATAATCAATTTAATATTAA
1 -AT--TAAATTAAATATTAA
* *
19836057 ATT-AATAAAATACT--
1 ATTAAATTAAATATTAA
*
19836071 ATTAAGA-TAAGTATTAA
1 ATTAA-ATTAAATATTAA
19836088 ATTAAATTAAATATTAA
1 ATTAAATTAAATATTAA
19836105 AT
1 AT
19836107 ATATTAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
14 3 0.06
15 6 0.11
16 10 0.19
17 17 0.32
18 2 0.04
19 2 0.04
20 13 0.25
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTAAATTAAATATTAA
Found at i:19836120 original size:68 final size:69
Alignment explanation
Indices: 19835978--19836124 Score: 183
Period size: 68 Copynumber: 2.1 Consensus size: 69
19835968 TTTAATTACT
* *
19835978 ATAATATTAAATTAATATAACACTTATCAAGATAAATGATAGATTAAATTAAATATTAAGATAAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAAATGATAAATTAAATTAAATATTAAGATAAT
*
19836043 CAAT
66 CAAA
* * * *
19836047 TTAATATTAAATTAATAAAATAC-TATTAAGATAAGT-ATTAAATTAAATTAAATATTAA-ATAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAAATGA-TAAATTAAATTAAATATTAAGATA-
*
19836109 ATTAAA
64 ATCAAA
19836115 ATAATATTAA
1 ATAATATTAA
19836125 TTTTAAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
67 4 0.06
68 43 0.64
69 20 0.30
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (69 bp):
ATAATATTAAATTAATAAAACACTTATCAAGATAAATGATAAATTAAATTAAATATTAAGATAAT
CAAA
Found at i:19839102 original size:20 final size:21
Alignment explanation
Indices: 19839064--19839103 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19839054 GGTCTGAACG
19839064 AAACCTCCATTACCCAAAATT
1 AAACCTCCATTACCCAAAATT
*
19839085 AAACCTCCATT-TCCAAAAT
1 AAACCTCCATTACCCAAAAT
19839104 AGTTGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCTCCATTACCCAAAATT
Found at i:19843497 original size:102 final size:102
Alignment explanation
Indices: 19843321--19843514 Score: 284
Period size: 102 Copynumber: 1.9 Consensus size: 102
19843311 TTAAATAAAA
* * * *
19843321 AATAAATTAAGAGTGTGTTGGGCTGGCTAACCAGGGTGGGGTGCTTGGGTTGTCATTCCACTTTG
1 AATAAATTAAGAGTGTGTTGGGCTAGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTTCG
19843386 CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
66 CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
* *
19843423 AATAAATT-AGGGATGTGTTGGGCTAAG-TAACTAGGGTGGGGTGCTTGGATAGTCATTCCACTT
1 AATAAATTAAGAG-TGTGTTGGGCT-AGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTT
**
19843486 CGGGTCAAAAAGGCCAATACATTCTTAAA
64 CGCATCAAAAAGGCCAATACATTCTTAAA
19843515 TAATATATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 3 0.04
102 78 0.95
103 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (102 bp):
AATAAATTAAGAGTGTGTTGGGCTAGCTAACCAGGGTGGGGTGCTTGGATAGTCATTCCACTTCG
CATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
Found at i:19844627 original size:27 final size:27
Alignment explanation
Indices: 19844578--19844659 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
19844568 ACAATCATAC
* *
19844578 ATAACATA-AAGCAT-ACAAACATTTT
1 ATAACATAGGAGCATAACAATCATTTT
* *
19844603 ATAACATAGGGGTATAACAATCATTTT
1 ATAACATAGGAGCATAACAATCATTTT
19844630 -TAAACATAGGAGCATAACAATCATTTT
1 AT-AACATAGGAGCATAACAATCATTTT
19844657 ATA
1 ATA
19844660 TCAGTTTAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.17
26 4 0.09
27 34 0.72
28 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (27 bp):
ATAACATAGGAGCATAACAATCATTTT
Found at i:19844802 original size:18 final size:18
Alignment explanation
Indices: 19844776--19844816 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19844766 CAAAATGCGG
19844776 GCCCATGTGGGCCCACAT-
1 GCCCATGT-GGCCCACATA
*
19844794 GCCCGTGTGGCCCACATA
1 GCCCATGTGGCCCACATA
19844812 GCCCA
1 GCCCA
19844817 AAATTGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.41, G:0.27, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGCCCACATA
Found at i:19851807 original size:34 final size:32
Alignment explanation
Indices: 19851754--19851828 Score: 132
Period size: 34 Copynumber: 2.3 Consensus size: 32
19851744 CAATAATAGT
19851754 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
1 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
19851786 TCAGTATCAGTGTGGGCCTTAGCCCATTACAGTA
1 TCAGT-TCAGT-TGGGCCTTAGCCCATTACAGTA
19851820 TCAGTTCAG
1 TCAGTTCAG
19851829 ACATGCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 5 0.12
33 9 0.22
34 27 0.66
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (32 bp):
TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
Found at i:19852124 original size:27 final size:27
Alignment explanation
Indices: 19852092--19852159 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
19852082 ACAAAAATAT
*
19852092 ACAGTCATTTTATAACATAGAGGCATA
1 ACAGTCATTTTATAACATAGAGGCACA
*
19852119 ACAGTCATTTTATAACATAGGGGCACA
1 ACAGTCATTTTATAACATAGAGGCACA
19852146 ACAGTCATTTTATA
1 ACAGTCATTTTATA
19852160 TCAGTTTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGAGGCACA
Found at i:19854423 original size:27 final size:27
Alignment explanation
Indices: 19854387--19854453 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
19854377 ATAGAGTATG
19854387 CAGTCATTTTATAACATAAGGGCATAA
1 CAGTCATTTTATAACATAAGGGCATAA
* ** * **
19854414 CTGTCATTTTACCACGTGGGGGCATAA
1 CAGTCATTTTATAACATAAGGGCATAA
19854441 CAGTCATTTTATA
1 CAGTCATTTTATA
19854454 TCAGTTTGGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
CAGTCATTTTATAACATAAGGGCATAA
Found at i:19860718 original size:16 final size:16
Alignment explanation
Indices: 19860697--19860731 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19860687 GTGTAAAAAA
19860697 AAACAT-AAATATAAAT
1 AAACATGAAA-ATAAAT
19860713 AAACATGAAAATAAAT
1 AAACATGAAAATAAAT
19860729 AAA
1 AAA
19860732 GACGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (16 bp):
AAACATGAAAATAAAT
Found at i:19860738 original size:16 final size:17
Alignment explanation
Indices: 19860703--19860748 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
19860693 AAAAAAACAT
*
19860703 AAATATAAATAAACATG
1 AAATATAAATAAACACG
*
19860720 AAA-ATAAATAAAGACG
1 AAATATAAATAAACACG
*
19860736 AAATAAAAATAAA
1 AAATATAAATAAA
19860749 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATATAAATAAACACG
Found at i:19861567 original size:157 final size:153
Alignment explanation
Indices: 19861295--19861596 Score: 348
Period size: 157 Copynumber: 1.9 Consensus size: 153
19861285 AGTTTTTTTT
* * * *
19861295 AAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTAAAAAAGATCAAAACTTTA
1 AAATCACAACTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTAAAAAAAATC-AAACTTTA
* * *
19861360 TTTTAAAATTTTAAACTTTTCCTTTTAACTGACTTCAAAAAACAGATTTTTATTTTTAA-AAATC
65 TTTTAAAATTTTAAACATTTCCTTTTAAATGACTTCAAAAAACAGATTTTTA----AAAGAAATC
19861424 TAAAATTTCTCTTTTTTTTTCTTTTAAA
126 TAAAATTTCTCTTTTTTTTTCTTTTAAA
*
19861452 AAATCACAACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAAAAAAATC-AA-TT
1 AAATCACAACTTTTCTTAAAAATCAAAGC-TTTATTTCGAAATAGTT--AAAAAAAATCAAACTT
* *
19861515 TTTTTTAAAATTTTAAA-ATTT-CTTTTAAAATGGC-T-AAAAAACAGATTTTTTTTAAAAGAAA
63 TATTTTAAAATTTTAAACATTTCCTTTT-AAATGACTTCAAAAAACAGA---TTTTTAAAAGAAA
*
19861576 TCTAAACTTTCTCTTTTTTTT
124 TCTAAAATTTCTCTTTTTTTT
19861597 CATCTAAACT
Statistics
Matches: 126, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
153 2 0.02
154 33 0.26
155 6 0.05
156 8 0.06
157 50 0.40
158 18 0.14
160 9 0.07
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (153 bp):
AAATCACAACTTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTAAAAAAAATCAAACTTTAT
TTTAAAATTTTAAACATTTCCTTTTAAATGACTTCAAAAAACAGATTTTTAAAAGAAATCTAAAA
TTTCTCTTTTTTTTTCTTTTAAA
Found at i:19861720 original size:17 final size:17
Alignment explanation
Indices: 19861700--19861733 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19861690 TTAAAATTTA
19861700 AAATTTTCCTTTAAAAT
1 AAATTTTCCTTTAAAAT
19861717 AAATTTTCCTTTAAAAT
1 AAATTTTCCTTTAAAAT
19861734 GGCTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTCCTTTAAAAT
Found at i:19861826 original size:169 final size:169
Alignment explanation
Indices: 19861618--19862016 Score: 712
Period size: 169 Copynumber: 2.4 Consensus size: 169
19861608 TCTCTTTTAA
* * *
19861618 AAAAAAAATCACAACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAAAAAATC-A
1 AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTGAAAAAAAATCAA
* **
19861682 ATTTTTTTTTAAAATTTAAAATTTTCCTTTAAAATAAATTTTCCTTTAAAATGGCTAAAAAACAG
66 ATTTTGTTTTAAAA-AAAAAATTTTCCTTTAAAATAAATTTTCCTTTAAAATGGCTAAAAAACAG
19861747 ATTTTTTTTAAAAGAAATCTAAATTTTCTTTTTTTTTTTT
130 ATTTTTTTTAAAAGAAATCTAAATTTTCTTTTTTTTTTTT
19861787 AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTG-AAAAAAATCAA
1 AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTGAAAAAAAATC-A
19861851 AATTTTGTTTTAAAAAAAAAATTTTCCTTTAAAATAAATTTTCCTTTAAAATGGCTAAAAAACAG
65 AATTTTGTTTTAAAAAAAAAATTTTCCTTTAAAATAAATTTTCCTTTAAAATGGCTAAAAAACAG
19861916 ATTTTTTTTAAAAGAAATCTAAATTTTCTTTTTTTTTTTT
130 ATTTTTTTTAAAAGAAATCTAAATTTTCTTTTTTTTTTTT
19861956 AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTGAAAAAAAA
1 AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTGAAAAAAAA
19862017 NNNNNNNNNN
Statistics
Matches: 221, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
168 9 0.04
169 191 0.86
170 21 0.10
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (169 bp):
AAAAAAAATCACTACTTTTCTTAAAGATTAAAACTTTTATTTCGAAATAGTTGAAAAAAAATCAA
ATTTTGTTTTAAAAAAAAAATTTTCCTTTAAAATAAATTTTCCTTTAAAATGGCTAAAAAACAGA
TTTTTTTTAAAAGAAATCTAAATTTTCTTTTTTTTTTTT
Found at i:19861865 original size:19 final size:18
Alignment explanation
Indices: 19861843--19861902 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
19861833 ATAGTTGAAA
**
19861843 AAAATCAAAATTTTGTTTT
1 AAAAT-AAAATTTTCCTTT
*
19861862 AAAAAAAAAATTTTCCTTT
1 -AAAATAAAATTTTCCTTT
19861881 AAAAT-AAATTTTCCTTT
1 AAAATAAAATTTTCCTTT
19861898 AAAAT
1 AAAAT
19861903 GGCTAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 11 0.31
20 4 0.11
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATAAAATTTTCCTTT
Found at i:19861902 original size:17 final size:17
Alignment explanation
Indices: 19861864--19861902 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
19861854 TTTGTTTTAA
*
19861864 AAAAAAAATTTTCCTTT
1 AAAATAAATTTTCCTTT
19861881 AAAATAAATTTTCCTTT
1 AAAATAAATTTTCCTTT
19861898 AAAAT
1 AAAAT
19861903 GGCTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAAATTTTCCTTT
Found at i:19864198 original size:12 final size:13
Alignment explanation
Indices: 19864167--19864201 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
19864157 GCTCTCTCTC
19864167 TATTTTTTTGGTT
1 TATTTTTTTGGTT
*
19864180 TATTTTTTTGTTT
1 TATTTTTTTGGTT
*
19864193 TGTTTTTTT
1 TATTTTTTT
19864202 TCTTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (13 bp):
TATTTTTTTGGTT
Found at i:19864208 original size:10 final size:10
Alignment explanation
Indices: 19864195--19864225 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19864185 TTTTGTTTTG
19864195 TTTTTTTTCT
1 TTTTTTTTCT
*
19864205 TTTTTCTTCT
1 TTTTTTTTCT
19864215 TTTTTTTTCT
1 TTTTTTTTCT
19864225 T
1 T
19864226 GATTTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19866471 original size:19 final size:20
Alignment explanation
Indices: 19866447--19866504 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 20
19866437 TCAAATTTTG
19866447 AAAATAATTTTTAAAATT-C
1 AAAATAATTTTTAAAATTCC
*
19866466 AAAAT-ATTTATAGAAATTCC
1 AAAATAATTTTTA-AAATTCC
19866486 AAAATTTATATTTTTAAAA
1 AAAA--TA-ATTTTTAAAA
19866505 AAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 5 0.16
22 1 0.03
23 3 0.10
24 6 0.19
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTTAAAATTCC
Found at i:19866524 original size:19 final size:19
Alignment explanation
Indices: 19866496--19866532 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19866486 AAAATTTATA
*
19866496 TTTTTAAAAAAATTATAAT
1 TTTTTAAAAAAAATATAAT
*
19866515 TTTTTTAAAAAAATATAA
1 TTTTTAAAAAAAATATAA
19866533 AAGATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAAAATATAAT
Found at i:19866543 original size:11 final size:11
Alignment explanation
Indices: 19866520--19866560 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
19866510 ATAATTTTTT
19866520 TAAAAAA-ATA
1 TAAAAAATATA
*
19866530 TAAAAGATATA
1 TAAAAAATATA
19866541 TAAAAAATA-A
1 TAAAAAATATA
19866551 TAAAATAATA
1 TAAAA-AATA
19866561 ATTTTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:19867506 original size:26 final size:25
Alignment explanation
Indices: 19867455--19867509 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
19867445 AATTTAGCTC
* *
19867455 TTAATATTTATATTTTTTTATCAAT
1 TTAATATTTATATTTTTTAATAAAT
* *
19867480 TTAATTTTTATCTTTTTTAATTAAAT
1 TTAATATTTATATTTTTTAA-TAAAT
19867506 TTAA
1 TTAA
19867510 CCCTTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTAATATTTATATTTTTTAATAAAT
Found at i:19870034 original size:108 final size:108
Alignment explanation
Indices: 19869895--19870164 Score: 531
Period size: 108 Copynumber: 2.5 Consensus size: 108
19869885 AAATTTTTTT
*
19869895 TTCTTTTTTTTCATGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAAAATTTGGTGCT
1 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAAAATTTGGTGCT
19869960 GGCTTGCCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAA
66 GGCTTGCCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAA
19870003 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAAAATTTGGTGCT
1 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAAAATTTGGTGCT
19870068 GGCTTGCCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAA
66 GGCTTGCCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAA
19870111 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAA
1 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAA
19870165 NNNNNNNNNN
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 161 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (108 bp):
TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAAAATTTGGTGCT
GGCTTGCCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAA
Found at i:19881821 original size:19 final size:20
Alignment explanation
Indices: 19881797--19881854 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 20
19881787 TCAAATTTTG
19881797 AAAATAATTTTTAAAATT-C
1 AAAATAATTTTTAAAATTCC
*
19881816 AAAAT-ATTTATAGAAATTCC
1 AAAATAATTTTTA-AAATTCC
19881836 AAAATTTATATTTTTAAAA
1 AAAA--TA-ATTTTTAAAA
19881855 AAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 5 0.16
22 1 0.03
23 3 0.10
24 6 0.19
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTTAAAATTCC
Found at i:19881874 original size:19 final size:19
Alignment explanation
Indices: 19881846--19881882 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19881836 AAAATTTATA
*
19881846 TTTTTAAAAAAATTATAAT
1 TTTTTAAAAAAAATATAAT
*
19881865 TTTTTTAAAAAAATATAA
1 TTTTTAAAAAAAATATAA
19881883 AAGATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAAAATATAAT
Found at i:19881893 original size:11 final size:11
Alignment explanation
Indices: 19881870--19881910 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
19881860 ATAATTTTTT
19881870 TAAAAAA-ATA
1 TAAAAAATATA
*
19881880 TAAAAGATATA
1 TAAAAAATATA
19881891 TAAAAAATA-A
1 TAAAAAATATA
19881901 TAAAATAATA
1 TAAAA-AATA
19881911 ATTTTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 12 0.44
11 15 0.56
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:19891689 original size:25 final size:23
Alignment explanation
Indices: 19891611--19891714 Score: 106
Period size: 22 Copynumber: 4.4 Consensus size: 23
19891601 TGCACTAATG
*
19891611 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
* *
19891634 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAACGTGCTAT
*
19891655 AACGGAGAGCACTAACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
19891679 AATCAGAGAGCA-TCAACGTGCTAAT
1 AA-CAGAGAGCACT-AACGTGCT-AT
19891704 AATCAGAGAGC
1 AA-CAGAGAGC
19891715 GCGCTAAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
22 37 0.54
24 3 0.04
25 28 0.41
26 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:19894483 original size:27 final size:26
Alignment explanation
Indices: 19894413--19894500 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 26
19894403 TAGGTTAATT
* *
19894413 TTAAAATAAGTAA-TATGTAAAATAAC
1 TTAAAATAA-TAATTATATAAAGTAAC
19894439 TTAAAATAA-AATGATATATAAAGTAAC
1 TTAAAATAATAAT--TATATAAAGTAAC
* * *
19894466 TTAAAATAATAA-TCTATAAAGCAAG
1 TTAAAATAATAATTATATAAAGTAAC
19894491 TTAAAATAAT
1 TTAAAATAAT
19894501 CATATACGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
24 2 0.04
25 20 0.38
26 9 0.17
27 20 0.38
28 2 0.04
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.31
Consensus pattern (26 bp):
TTAAAATAATAATTATATAAAGTAAC
Found at i:19896500 original size:46 final size:46
Alignment explanation
Indices: 19896446--19897143 Score: 213
Period size: 46 Copynumber: 15.6 Consensus size: 46
19896436 TCTGCTCCGA
19896446 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * * * ** * ** *
19896492 TATAATCTCAGGGAGATAGGAT-T--ACTAGCTTTAATATGCTCCGC
1 TGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTATTCCAC
* *
19896536 TGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * * * * *
19896582 TGTAATCTCAGGGAGATAAGAGCTG--ATGC---GATATACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * ** * ** ***
19896623 TGTAA-CTTCAGAGAGGTAAGATCCT-TTATTGTTTTAATCCGCTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAAATT-CTTTGGTCTATTCCAC
* * * *** * *
19896670 TGTAATTTCAGGGAGAT-AGAAT-T--ACTAGCTTCAATCTGCTT-CGC
1 TGTAATCTCAGGGAGATAAG-ATCTGAAAT-TCTTTGGTCT-ATTCCAC
* * * *
19896714 TGTAATCTCAGGGGGACAAGATCTGAAATTCTTCGATCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * * * *** * **
19896760 TGTAATCTCAGTGAGATAGGAT-T--ACTAGCTTCAATCTACTCCGT
1 TGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTATTCCAC
*
19896804 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * * * * *
19896850 TGTAATCTCAGGGAGATAAGACCTG--ATGC---GATCAACTCTAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * * ** * ** * *
19896891 TGTAA-CTTTAGAGAGATAAAATCCT-TTATTGTTTTAATCCACTCCAC
1 TGTAATC-TCAGGGAGATAAGAT-CTGAAATT-CTTTGGTCTATTCCAC
* * *** ** *
19896938 TGTAATCTCAGGGAGAT-AGAAT-T--ACTAGCTTCAATCTGCTCCGC
1 TGTAATCTCAGGGAGATAAG-ATCTGAAAT-TCTTTGGTCTATTCCAC
* *
19896982 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
* * *** * ** **
19897028 TGTAATCTCAGTGAGATAGGAT-T---ATTAGCTTCAATATGCTCGGC
1 TGTAATCTCAGGGAGATAAGATCTGAAATT--CTTTGGTCTATTCCAC
19897072 TGTAATCTCAGGGAGATAAGATCTGAAATT-TTTCGGTCTATTCCAC
1 TGTAATCTCAGGGAGATAAGATCTGAAATTCTTT-GGTCTATTCCAC
* *
19897118 TATAATCTCAGGGAGATAAGACCTGA
1 TGTAATCTCAGGGAGATAAGATCTGA
19897144 TGTGATCTAT
Statistics
Matches: 475, Mismatches: 130, Indels: 94
0.68 0.19 0.13
Matches are distributed among these distances:
40 2 0.00
41 49 0.10
42 7 0.01
43 8 0.02
44 153 0.32
45 19 0.04
46 179 0.38
47 54 0.11
48 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (46 bp):
TGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCAC
Found at i:19896515 original size:90 final size:90
Alignment explanation
Indices: 19896403--19897135 Score: 759
Period size: 90 Copynumber: 8.2 Consensus size: 90
19896393 CCACTCCATC
*
19896403 GTAATCTC-GAGGAGATAGGATTACTAGCTTCAATCTGCTCCGATGTAATCTCAGGGAGATAAGA
1 GTAATCTCAG-GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
19896467 TCTGAAATTCTTTGGTCTATTCCACT
65 TCTGAAATTCTTCGATCTATTCCACT
* * * *
19896493 ATAATCTCAGGGAGATAGGATTACTAGCTTTAATATGCTCCGCTGTAATCTCAGAGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
19896558 CTGAAATTCTTCGGTCTATTCCACT
66 CTGAAATTCTTCGATCTATTCCACT
* * * * * * * ** * *
19896583 GTAATCTCAGGGAGATAAGA--GCT-GATGCGATATACTCTACTGTAA-CTTCAGAGAGGTAAGA
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGA
** * ** ***
19896644 TCCT-TTATTGTTTTAATCCGCTCCACT
65 T-CTGAAATT-CTTCGATCTATTCCACT
* * * * *
19896671 GTAATTTCAGGGAGATAGAATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGGGACAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
19896736 CTGAAATTCTTCGATCTATTCCACT
66 CTGAAATTCTTCGATCTATTCCACT
* * *
19896761 GTAATCTCAGTGAGATAGGATTACTAGCTTCAATCTACTCCGTTGTAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
19896826 CTGAAATTCTTCGGTCTATTCCACT
66 CTGAAATTCTTCGATCTATTCCACT
* * * * * ** ** * * *
19896851 GTAATCTCAGGGAGATAAGA--CCT-GATGCGATCAACTCTACTGTAA-CTTTAGAGAGATAAAA
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGA
** * ** * *
19896912 TCCT-TTATTGTTTTAATCCACTCCACT
65 T-CTGAAATT-CTTCGATCTATTCCACT
*
19896939 GTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
19897004 CTGAAATTCTTCGATCTATTCCACT
66 CTGAAATTCTTCGATCTATTCCACT
* * * *
19897029 GTAATCTCAGTGAGATAGGATTATTAGCTTCAATATGCTCGGCTGTAATCTCAGGGAGATAAGAT
1 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* *
19897094 CTGAAATTTTTCGGTCTATTCCACT
66 CTGAAATTCTTCGATCTATTCCACT
*
19897119 ATAATCTCAGGGAGATA
1 GTAATCTCAGGGAGATA
19897136 AGACCTGATG
Statistics
Matches: 517, Mismatches: 109, Indels: 34
0.78 0.17 0.05
Matches are distributed among these distances:
86 2 0.00
87 62 0.12
88 64 0.12
90 328 0.63
91 59 0.11
92 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (90 bp):
GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
CTGAAATTCTTCGATCTATTCCACT
Found at i:19896724 original size:268 final size:266
Alignment explanation
Indices: 19896333--19897220 Score: 1331
Period size: 268 Copynumber: 3.3 Consensus size: 266
19896323 GCCAGAGAAG
** * *
19896333 TAAGACCTGATGCGACCTACTCTA-T-TACTACCTCAGAGAGATAAGATC-TATTTTTTTAATCC
1 TAAGACCTGATGCGATATACTCTACTGTA--ACTTCAGAGAGATAAGATCTTATTGTTTTAATCC
* *
19896395 ACTCCA-TCGTAATCTC-GAGGAGATAGGATTACTAGCTTCAATCTGCTCCGATGTAATCTCAGG
64 ACTCCACT-GTAATCTCAG-GGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG
* * * *
19896458 GAGATAAGATCTGAAATTCTTTGGTCTATTCCACTATAATCTCAGGGAGATAGGATTACTAGCTT
127 GAGATAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTT
* *
19896523 TAATATGCTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAAT
192 CAATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAAT
19896588 CTCAGGGAGA
257 CTCAGGGAGA
* *
19896598 TAAGAGCTGATGCGATATACTCTACTGTAACTTCAGAGAGGTAAGATCCTTTATTGTTTTAATCC
1 TAAGACCTGATGCGATATACTCTACTGTAACTTCAGAGAGATAAGAT-C-TTATTGTTTTAATCC
* * * *
19896663 GCTCCACTGTAATTTCAGGGAGATAGAATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGG
64 ACTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
19896728 GACAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTCA
129 GATAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTCA
* * *
19896793 ATCTACTCCGTTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCT
194 ATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCT
19896858 CAGGGAGA
259 CAGGGAGA
* *
19896866 TAAGACCTGATGCGATCA-ACTCTACTGTAACTTTAGAGAGATAAAATCCTTTATTGTTTTAATC
1 TAAGACCTGATGCGAT-ATACTCTACTGTAACTTCAGAGAGATAAGAT-C-TTATTGTTTTAATC
19896930 CACTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGG
63 CACTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGG
*
19896995 AGATAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTATTAGCTTC
128 AGATAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTC
* * *
19897060 AATATGCTCGGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTATAATC
193 AATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
19897125 TCAGGGAGA
258 TCAGGGAGA
* * * * *
19897134 TAAGACCTGATGTGATCTATTCTACTGTAACTTCAGAGAGATAAGATCTT-TTATTTTAATCCGC
1 TAAGACCTGATGCGATATACTCTACTGTAACTTCAGAGAGATAAGATCTTATTGTTTTAATCCAC
* *
19897198 TCTACTGTAATCTCAAGGAGATA
66 TCCACTGTAATCTCAGGGAGATA
19897221 AGGCTGGTAT
Statistics
Matches: 567, Mismatches: 47, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
265 70 0.12
266 4 0.01
267 3 0.01
268 487 0.86
269 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (266 bp):
TAAGACCTGATGCGATATACTCTACTGTAACTTCAGAGAGATAAGATCTTATTGTTTTAATCCAC
TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
TAAGATCTGAAATTCTTCGATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTCAAT
ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCA
GGGAGA
Found at i:19896989 original size:44 final size:43
Alignment explanation
Indices: 19896658--19897089 Score: 189
Period size: 44 Copynumber: 9.7 Consensus size: 43
19896648 TTATTGTTTT
* *
19896658 AATCCGCTCCACTGTAATTTCAGGGAGATAGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTA-TAGCTTC
* * * * * *
19896702 AATCTGCTTCGCTGTAATCTCAGGGGGACA-AGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGA-AT-T-ATA-GCTTC
* ** * *
19896748 GATCTATTCCACTGTAATCTCAGTGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTA-TAGCTTC
* ** * *
19896792 AATCTACTCCGTTGTAATCTCAGGGAGATA-AGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGA-AT-T-ATA-GCTTC
** ** * * *
19896838 GGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT-GCGATC
1 AATCTGCTCCACTGTAATCTCAGGGAGAT-AGA-ATTATAGC-TTC
* * * * * *
19896883 AA-CT-CT--ACTGTAA-CTTTAGAGAGATAAAATCCTTTATTGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAGAA----TTATAGCTTC
**
19896926 AATCCACTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTA-TAGCTTC
* * *
19896970 AATCTGCTCCGCTGTAATCTCAGGGAGATA-AGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGA-AT-T-ATA-GCTTC
* ** * *
19897016 GATCTATTCCACTGTAATCTCAGTGAGATAGGATTATTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTA-TAGCTTC
* **
19897060 AATATGCTCGGCTGTAATCTCAGGGAGATA
1 AATCTGCTCCACTGTAATCTCAGGGAGATA
19897090 AGATCTGAAA
Statistics
Matches: 281, Mismatches: 76, Indels: 62
0.67 0.18 0.15
Matches are distributed among these distances:
40 3 0.01
41 15 0.05
43 12 0.04
44 124 0.44
45 14 0.05
46 91 0.32
47 19 0.07
48 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGAATTATAGCTTC
Found at i:19897547 original size:87 final size:87
Alignment explanation
Indices: 19897232--19897802 Score: 804
Period size: 87 Copynumber: 6.5 Consensus size: 87
19897222 GGCTGGTATC
* ** * *
19897232 TTCGATCTGCTTCGCTGCCAGCGCAGGAAGGTAAGATCTGCTATCTTTAACCTA-CTCCACTACA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACC-AGCTCCACTGCA
* * *
19897296 ACCGAGGGAGGAAAGGCTTGTGTC
65 ACCGATGGAGGCAAGGCTT-TGTT
* * *
19897320 TTCGATCTGCTTCGCCGTCGATGTAGGAAGGCAAGATCTGCTATCTTTAACCTA-CTCCACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACC-AGCTCCACTGCA
* ** *
19897384 ACCGAGGGAGGCAAGGCTGGGGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* * * * *
19897408 TTCGATCTACTTCGCTATCTATGTAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
19897473 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
19897495 TTCGATCTGCTTCGTTGTCAATGCAGGAAGGCAAGATTTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
19897560 CCGATGGAGGCGAGCCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* *
19897582 TTCGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATTTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
19897647 CTGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
19897669 TTCGATCTGCTTCGCTGTCAAAGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
19897734 CCGATGGAGGCAAGGCTTTGCT
66 CCGATGGAGGCAAGGCTTTGTT
*
19897756 TTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
19897803 CACTGATCTG
Statistics
Matches: 437, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
87 287 0.66
88 150 0.34
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:19898939 original size:41 final size:42
Alignment explanation
Indices: 19898882--19898982 Score: 177
Period size: 41 Copynumber: 2.4 Consensus size: 42
19898872 AAGATTACCA
* *
19898882 CATGCCTCAATCTGATCATGATACGAGTTGCTCT-ATCACTT
1 CATGCCCCATTCTGATCATGATACGAGTTGCTCTGATCACTT
19898923 CATGCCCCATTCTGATCATGATACGAGTTGCTCTGATCACTT
1 CATGCCCCATTCTGATCATGATACGAGTTGCTCTGATCACTT
19898965 CATGCCCCATTCTGATCA
1 CATGCCCCATTCTGATCA
19898983 ATATTTGAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 32 0.56
42 25 0.44
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (42 bp):
CATGCCCCATTCTGATCATGATACGAGTTGCTCTGATCACTT
Found at i:19899100 original size:14 final size:13
Alignment explanation
Indices: 19899078--19899114 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19899068 ATTTTTACTT
19899078 TTTTCAATTTTCA
1 TTTTCAATTTTCA
19899091 TTTCTCAA-TTTCA
1 TTT-TCAATTTTCA
19899104 TTTTC-ATTTTC
1 TTTTCAATTTTC
19899115 TTGACTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 6 0.27
13 11 0.50
14 4 0.18
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTCAATTTTCA
Found at i:19904934 original size:27 final size:26
Alignment explanation
Indices: 19904866--19904934 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
19904856 GGTTAATTTT
*
19904866 AAAATAAGTAATATGTAAAATAACTTA
1 AAAATAA-TAATATATAAAATAACTTA
* * *
19904893 AAATAAAATGATATATAAAGTAACTTA
1 AAA-ATAATAATATATAAAATAACTTA
19904920 AAAATAATAACTATA
1 AAAATAATAA-TATA
19904935 AAGCAAGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.15
27 26 0.76
28 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAATAATAATATATAAAATAACTTA
Found at i:19907912 original size:23 final size:23
Alignment explanation
Indices: 19907886--19907932 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19907876 TTTTTGTTGT
19907886 AAAATCA-AAGTTTTCTTTAAAAA
1 AAAATCACAA-TTTTCTTTAAAAA
*
19907909 AAAATCACTAATTTTTTTTAAAAA
1 AAAATCAC-AATTTTCTTTAAAAA
19907933 TCAAAGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 12 0.57
25 2 0.10
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATCACAATTTTCTTTAAAAA
Found at i:19908231 original size:143 final size:145
Alignment explanation
Indices: 19907897--19908309 Score: 404
Period size: 144 Copynumber: 2.8 Consensus size: 145
19907887 AAATCAAAGT
* * * * * *
19907897 TTTCTTTAAAAAAAAATCACTAATTTTTTTTAAAAATCAAAGCTTTATTTCCAAATAGTTGAAAA
1 TTTCTTT--AAAAAAATCACT-ACTTTTCTTAAAGATCAAAAC-TTATTTCGAAATAGTGGAAAA
* * * * * ****
19907962 AGATCAAAACTTTATTTT-AAATTTTAAACTTTTCCTTTAAAGTGACTACAAAAAACAGATTTTT
62 AAACCAAAACTCTGTTTTAAAATTTTAAAC-TTTCCTTTAAAATGACT------AATTTTTTTTT
* *
19908026 ATTTTTAAAAATCTAAAATTTCCCCTTTT
120 ATTTTTAAAAATCTAAAACTT---CTTTC
* *
19908055 TTTCTTTTAAAAAATCACTACTTTTCTTAAAGATCAAAGC-TATTTCGAAATAGTGGAAAAAAAA
1 TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTATTTCGAAATAGTGG--AAAAAA
*
19908119 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGGCTAATTTTTTTTTATTTTTAAA
64 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAATTTTTTTTTATTTTTAAA
19908184 AATCT-AAACTT-TTTC
129 AATCTAAAACTTCTTTC
*
19908199 TTT-TTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTATTATTTCGAAATAGTTGAAAAAA
1 TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAAC--TTATTTCGAAATAGTGGAAAAAA
* * * *
19908263 ATCAAAATTTTGTTTTAAAATTTTAAATTTTCCTTTAAAATGACTAA
64 ACCAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAA
19908310 AAACCATATT
Statistics
Matches: 223, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
143 34 0.15
144 54 0.24
146 15 0.07
148 5 0.02
149 21 0.09
153 14 0.06
155 51 0.23
156 22 0.10
158 7 0.03
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (145 bp):
TTTCTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTATTTCGAAATAGTGGAAAAAAAC
CAAAACTCTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAATTTTTTTTTATTTTTAAAAA
TCTAAAACTTCTTTC
Found at i:19908410 original size:148 final size:144
Alignment explanation
Indices: 19908074--19908382 Score: 311
Period size: 148 Copynumber: 2.1 Consensus size: 144
19908064 AAAAATCACT
* * * *
19908074 ACTTTTCTTAAAGATCAAAGC---TATTTCGAAATAGTGGAAAAAAAAACCAAAACTCTGTTTTA
1 ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAG-GG-GAAAAAAACCAAAACTCTGTTTTA
* ** * * * * *
19908136 AAATTTTAAACTTTCCTTTAAAATGGCTAATTTTTTTTTATTTTTAAAAATCTAAACTTTTTCTT
64 AAATTTTAAACTTTCCTTTAAAATGACTAACATATTTTTATTTTTAAAAATATAAAATTTCTCCT
* * **
19908201 TTTTAAAAAAATCACT
129 TTTAAAAAAAACCAAA
* * ** * * *
19908217 ACTTTTCTTAAAGATCAAAACTATTATTTCGAAATAGTTGAAAAAAATCAAAATTTTGTTTTAAA
1 ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAGGGGAAAAAAACCAAAACTCTGTTTTAAA
*
19908282 ATTTTAAATTTTCCTTTAAAATGACTAAAAACCATATTTTTATTTTTAAAAATATAAAATTTCTC
66 ATTTTAAACTTTCCTTTAAAATGACT---AA-CATATTTTTATTTTTAAAAATATAAAATTTCTC
19908347 CTTTTAAAAAAAACCAAA
127 CTTTTAAAAAAAACCAAA
*
19908365 ACTTTTC-CCAAGATCAAA
1 ACTTTTCTCAAAGATCAAA
19908383 CCCTTTATTT
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
143 20 0.15
144 46 0.34
146 13 0.09
147 11 0.08
148 47 0.34
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (144 bp):
ACTTTTCTCAAAGATCAAAACTATTATTTAGAAATAGGGGAAAAAAACCAAAACTCTGTTTTAAA
ATTTTAAACTTTCCTTTAAAATGACTAACATATTTTTATTTTTAAAAATATAAAATTTCTCCTTT
TAAAAAAAACCAAA
Found at i:19910624 original size:17 final size:18
Alignment explanation
Indices: 19910602--19910635 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19910592 TTTGGGCTAA
19910602 GTGGGCC-ACACGGGCAT
1 GTGGGCCTACACGGGCAT
19910619 GTGGGCCTACACGGGCA
1 GTGGGCCTACACGGGCA
19910636 GACCACATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (18 bp):
GTGGGCCTACACGGGCAT
Found at i:19911359 original size:24 final size:24
Alignment explanation
Indices: 19911332--19911379 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19911322 CGGTGACCAC
19911332 GGTTTTGGACTTTCATGGTTTTTA
1 GGTTTTGGACTTTCATGGTTTTTA
19911356 GGTTTTGGACTTTCATGGTTTTTA
1 GGTTTTGGACTTTCATGGTTTTTA
19911380 ACTCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.08, G:0.25, T:0.54
Consensus pattern (24 bp):
GGTTTTGGACTTTCATGGTTTTTA
Found at i:19915269 original size:24 final size:24
Alignment explanation
Indices: 19915237--19915325 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
19915227 GGTAAAAAGT
*
19915237 AAAGGATGAATTGACGATATATGG
1 AAAGGATGAATTGACGATATATGC
* *
19915261 AAAGGATGAATTGAAG-TAAAATGC
1 AAAGGATGAATTGACGAT-ATATGC
*
19915285 AAATGATGAATTGAC-AGTATATGC
1 AAAGGATGAATTGACGA-TATATGC
19915309 AAAGGATGAATTGACGA
1 AAAGGATGAATTGACGA
19915326 CAAATGTACC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.26, T:0.24
Consensus pattern (24 bp):
AAAGGATGAATTGACGATATATGC
Found at i:19915331 original size:48 final size:48
Alignment explanation
Indices: 19915215--19915324 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
19915205 TGTGAAAAAG
* * *
19915215 GGATGAATTGACGGTAAAAAGTAAAGGATGAATTGACGATATATGGAAA
1 GGATGAATTGAC-GTAAAATGCAAAGGATGAATTGACGATATATGCAAA
* *
19915264 GGATGAATTGAAGTAAAATGCAAATGATGAATTGAC-AGTATATGCAAA
1 GGATGAATTGACGTAAAATGCAAAGGATGAATTGACGA-TATATGCAAA
19915312 GGATGAATTGACG
1 GGATGAATTGACG
19915325 ACAAATGTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
47 1 0.02
48 42 0.78
49 11 0.20
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (48 bp):
GGATGAATTGACGTAAAATGCAAAGGATGAATTGACGATATATGCAAA
Found at i:19915531 original size:21 final size:21
Alignment explanation
Indices: 19915469--19915536 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
19915459 TTGAGCTTCA
* *
19915469 GTTTAACCCTTATAGGTTTCC
1 GTTTAACCTTTATGGGTTTCC
* * * *
19915490 GTTCAA-CTCTTACGAGCTTCC
1 GTTTAACCT-TTATGGGTTTCC
19915511 GTTTAACCTTTATGGGTTTCC
1 GTTTAACCTTTATGGGTTTCC
19915532 GTTTA
1 GTTTA
19915537 GCTTTCATGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
GTTTAACCTTTATGGGTTTCC
Found at i:19915533 original size:42 final size:42
Alignment explanation
Indices: 19915438--19915534 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
19915428 TTAAACCATA
* * * **
19915438 ATGGGTTTCTGATCAGCTCTTTTGAGCTTCAGTTTAACCCTT
1 ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
* * *
19915480 ATAGGTTTCCGTTCAACTCTTACGAGCTTCCGTTTAACCTTT
1 ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
19915522 ATGGGTTTCCGTT
1 ATGGGTTTCCGTT
19915535 TAGCTTTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (42 bp):
ATGGGTTTCCGTTCAACTCTTACGAGCTTCAGTTTAACCCTT
Found at i:19915549 original size:42 final size:42
Alignment explanation
Indices: 19915454--19915562 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
19915444 TTCTGATCAG
* *
19915454 CTCTTTTGAGCTTCAGTTTAACCCTTATAGGTTTCCGTTCAA
1 CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
* * * * *
19915496 CTCTTACGAGCTTCCGTTTAACCTTTATGGGTTTCCGTTTAG
1 CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
* *
19915538 CT-TTCATGAGCTTCTGTTCAACCTT
1 CTCTT-ATGAGCTTCAGTTTAACCTT
19915563 CGGGCTTCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
CTCTTATGAGCTTCAGTTTAACCTTTATAGGTTTCCGTTCAA
Found at i:19922427 original size:30 final size:30
Alignment explanation
Indices: 19922384--19922780 Score: 519
Period size: 30 Copynumber: 13.2 Consensus size: 30
19922374 GGCAATATAT
* *
19922384 ATGTATA--CATATACACATCAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
19922412 ATGTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
19922442 ATGTATATCCGTATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
19922472 ATGTTTATCCATATAAAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
19922502 ATTTATATCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* ** *
19922532 ATATATAAAACATATACAAATCAATTCGACA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
*
19922563 AAGTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
19922593 ATGTATGTCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
19922623 ATTTATATCCATATACAAATCAATTCGGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* * * *
19922653 ATATATGTCCATATACAAATTAATTCAGCA
1 ATGTATATCCATATACAAATCAATTCGGCA
* **
19922683 ATATATAAAACATATACAAATCAATTCGGCA
1 ATGTAT-ATCCATATACAAATCAATTCGGCA
* *
19922714 ATGTATACCCATATACAAATCAATTCGACA
1 ATGTATATCCATATACAAATCAATTCGGCA
* *
19922744 ATGTTTATCCATATACAAATCAATTCGGAA
1 ATGTATATCCATATACAAATCAATTCGGCA
*
19922774 ATATATA
1 ATGTATA
19922781 AAACATATAC
Statistics
Matches: 322, Mismatches: 43, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
28 7 0.02
30 265 0.82
31 50 0.16
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (30 bp):
ATGTATATCCATATACAAATCAATTCGGCA
Found at i:19922561 original size:121 final size:121
Alignment explanation
Indices: 19922363--19922791 Score: 537
Period size: 121 Copynumber: 3.5 Consensus size: 121
19922353 ATCTAATGAT
* * * * **
19922363 CAAATCAATTTGGCAATATATATGTATACATATACACATCAATTC-AGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATAT-TA--TATCCATATACAAATCAATTCGA-CAATATATAAACATATA
* *
19922427 CAAATCAATTCGACAATGTATATCCGTATACAAATCAATTCGGCAATGTTTATCCATATA
62 CAAATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
*
19922487 AAAATCAATTCGGCAAT-TTATATCCATATACAAATCAATTCGACAATATATAAAACATATACAA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATAT-AAACATATACAA
* *
19922551 ATCAATTCGACAAAGTATATCCATATACAAATCAATTCGGCAATGTATGTCCATATA
65 ATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
* ***
19922608 CAAATCAATTCGGCAAT-TTATATCCATATACAAATCAATTCGGCAATATATGTCCATATACAAA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATATAAACATATACAAA
* * ** *
19922672 TTAATTC-AGCAATATATAAAACATATACAAATCAATTCGGCAATGTATACCCATATA
66 TCAATTCGA-CAATGTAT-ATCCATATACAAATCAATTCGGCAATGTATATCCATATA
* *
19922729 CAAATCAATTCGACAATGTT-TATCCATATACAAATCAATTCGGA-AATATATAAAACATATACA
1 CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTC-GACAATATAT-AAACATATACA
19922792 TTTGAATTCA
Statistics
Matches: 270, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
119 1 0.00
120 48 0.18
121 192 0.71
122 13 0.05
123 1 0.00
124 15 0.06
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (121 bp):
CAAATCAATTCGGCAATATTATATCCATATACAAATCAATTCGACAATATATAAACATATACAAA
TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATATA
Found at i:19922569 original size:151 final size:151
Alignment explanation
Indices: 19922363--19922780 Score: 608
Period size: 151 Copynumber: 2.7 Consensus size: 151
19922353 ATCTAATGAT
* * * *
19922363 CAAATCAATTTGGCAATATATATGTATACATATACACATCAATTC-AGCAATGTATATCCATATA
1 CAAATCAATTCGACAATATATA---AAACATATACAAATCAATTCGA-CAATGTATATCCATATA
*
19922427 CAAATCAATTCGACAATGTATATCCGTATACAAATCAATTCGGCAATGTT-TATCCATATAAAAA
62 CAAATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAAT-TTATATCCATATAAAAA
*
19922491 TCAATTCGGCAATTTATATCCATATA
126 TCAATTCGGCAATATATATCCATATA
*
19922517 CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAAAGTATATCCATATACAAA
1 CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAAA
* * *
19922582 TCAATTCGGCAATGTATGTCCATATACAAATCAATTCGGCAATTTATATCCATATACAAATCAAT
66 TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATATCCATATAAAAATCAAT
*
19922647 TCGGCAATATATGTCCATATA
131 TCGGCAATATATATCCATATA
* * *
19922668 CAAATTAATTC-AGCAATATATAAAACATATACAAATCAATTCGGCAATGTATACCCATATACAA
1 CAAATCAATTCGA-CAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAA
* * *
19922732 ATCAATTCGACAATGTTTATCCATATACAAATCAATTCGGAAATATATA
65 ATCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATA
19922781 AAACATATAC
Statistics
Matches: 241, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
150 3 0.01
151 217 0.90
152 1 0.00
154 20 0.08
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (151 bp):
CAAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAATGTATATCCATATACAAA
TCAATTCGACAATGTATATCCATATACAAATCAATTCGGCAATTTATATCCATATAAAAATCAAT
TCGGCAATATATATCCATATA
Found at i:19929881 original size:30 final size:30
Alignment explanation
Indices: 19929840--19930679 Score: 1088
Period size: 30 Copynumber: 27.9 Consensus size: 30
19929830 NNNNNNNNCG
19929840 TATACAAATCAATTCGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19929870 TATAAAAATCAATTCGGCAATTTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* * **
19929900 TATACAAATCAATTCGACAATATATAAAACA
1 TATACAAATCAATTCGGCAATGTAT-ATCCA
* *
19929931 TATACAAATCAATTCGACAAAGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
*
19929961 TATACAAATCAATTCGGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19929991 TATACAAATCAATTCGACAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
*
19930021 TATACAAATCAATTCGGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
** *
19930051 TATACAAATCAATTCCACAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930081 TATACAAATCAATTCTGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930111 TATACAAATCAATTCCGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* * **
19930141 TATACAAATCAATTCAGCAATATATAAAACA
1 TATACAAATCAATTCGGCAATGTAT-ATCCA
* *
19930172 GATACAAATCAATTTGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
*
19930202 TATAGAAATCAATTCGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* * ** *
19930232 TATATAAATCAATTCGACAAAATATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930262 TATACAAATCAATTCTGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930292 TATACAAATCAATTCCGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930322 TATACAAATCAATTCTGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930352 TATACAAATCAATTCCGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930382 TATACAAATCAATTCTGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930412 TATACAAATCAATTCCGCAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* * **
19930442 TATACAAATCAATTCAGCAATATATAAAACA
1 TATACAAATCAATTCGGCAATGTAT-ATCCA
* *
19930473 GATACAAATCAATTTGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
*
19930503 TATAGAAATCAATTCGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* * *
19930533 TATATAAATCAATTCGACAATGTATGTCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* **
19930563 TATACAAATCAATTCGGCAATATATAAAACA
1 TATACAAATCAATTCGGCAATGTAT-ATCCA
19930594 TATACAAATCAATTCGGCAATGTATATCCA
1 TATACAAATCAATTCGGCAATGTATATCCA
* *
19930624 TATAAAAATCAATTCGGCAATTTATATTCCA
1 TATACAAATCAATTCGGCAATGTATA-TCCA
* *
19930655 TATAC-AATCAATTCGACAATATATA
1 TATACAAATCAATTCGGCAATGTATA
19930680 AAAATATACA
Statistics
Matches: 724, Mismatches: 81, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
30 618 0.85
31 106 0.15
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (30 bp):
TATACAAATCAATTCGGCAATGTATATCCA
Found at i:19930263 original size:241 final size:240
Alignment explanation
Indices: 19929840--19930679 Score: 1171
Period size: 241 Copynumber: 3.5 Consensus size: 240
19929830 NNNNNNNNCG
* * *
19929840 TATACAAATCAATTCGGCAATGTATATCCATATAAAAATCAATTCGGCAATTTATATCCATATAC
1 TATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCCGCAATGTATATCCATATAC
* *
19929905 AAATCAATTCGACAATATATAAAACATATACAAATCAATTCGACAAAGTATATCCATATACAAAT
66 AAATCAATTCG-CAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAAT
*
19929970 CAATTCGGCAATGTATGTCCATATACAAATCAATTCGACAATGTATGTCCATATACAAATCAATT
130 CAATTCGGCAATGTATATCCATATACAAATCAATTCGACAATGTATGTCCATATACAAATCAATT
19930035 CGGCAATGTATGTCCATATACAAATCAATTCCACAATGTATGTCCA
195 CGGCAATGTATGTCCATATACAAATCAATTCCACAATGTATGTCCA
* * *
19930081 TATACAAATCAATTCTGCAATGTATGTCCATATACAAATCAATTCCGCAATGTATGTCCATATAC
1 TATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCCGCAATGTATATCCATATAC
* * *
19930146 AAATCAATTCAGCAATATATAAAACAGATACAAATCAATTTGGCAATGTATATCCATATAGAAAT
66 AAATCAATTC-GCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAAT
* **
19930211 CAATTCGGCAATGTATATCCATATATAAATCAATTCGACAAAATATGTCCATATACAAATCAATT
130 CAATTCGGCAATGTATATCCATATACAAATCAATTCGACAATGTATGTCCATATACAAATCAATT
* *
19930276 CTGCAATGTATGTCCATATACAAATCAATTCCGCAATGTATGTCCA
195 CGGCAATGTATGTCCATATACAAATCAATTCCACAATGTATGTCCA
* * *
19930322 TATACAAATCAATTCTGCAATGTATGTCCATATACAAATCAATTCCGCAATGTATGTCCATATAC
1 TATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCCGCAATGTATATCCATATAC
* *** * *
19930387 AAATCAATTCTGCAATGTAT-GTCCATATACAAATCAATTCCGCAATGTATGTCCATATACAAAT
66 AAATCAATTC-GCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAAT
* * ** * * * * *
19930451 CAATTCAGCAATATATAAAACAGATACAAATCAATTTGGCAATGTATATCCATATAGAAATCAAT
130 CAATTCGGCAATGTAT-ATCCATATACAAATCAATTCGACAATGTATGTCCATATACAAATCAAT
* * *
19930516 TCGGCAATGTATATCCATATATAAATCAATTCGACAATGTATGTCCA
194 TCGGCAATGTATGTCCATATACAAATCAATTCCACAATGTATGTCCA
* ** *
19930563 TATACAAATCAATTCGGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATA
1 TATACAAATCAATTCGGCAATGTAT-ATCCATATACAAATCAATTCCGCAATGTATATCCATATA
* * *** * *
19930628 AAAATCAATTCGGCAATTTATATTCCATATAC-AATCAATTCGACAATATATA
65 CAAATCAATTC-GCAATATATAAAACATATACAAATCAATTCGGCAATGTATA
19930680 AAAATATACA
Statistics
Matches: 536, Mismatches: 59, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
240 50 0.09
241 408 0.76
242 69 0.13
243 9 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (240 bp):
TATACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCCGCAATGTATATCCATATAC
AAATCAATTCGCAATATATAAAACATATACAAATCAATTCGGCAATGTATATCCATATACAAATC
AATTCGGCAATGTATATCCATATACAAATCAATTCGACAATGTATGTCCATATACAAATCAATTC
GGCAATGTATGTCCATATACAAATCAATTCCACAATGTATGTCCA
Found at i:19936923 original size:30 final size:29
Alignment explanation
Indices: 19936870--19936942 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
19936860 CGGAGTTTTT
*
19936870 CCATAAAGG-TTTTCTTGCCCAGAGTTAT-G
1 CCATAAAGGCTTTTCTTGCACAGAG--ATCG
19936899 CCATAAAGGCTTTTCTTTG-ACAGAGATCG
1 CCATAAAGGCTTTTC-TTGCACAGAGATCG
*
19936928 CCACAAAGGCTTTTC
1 CCATAAAGGCTTTTC
19936943 CTTTCCTGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 2 0.05
29 24 0.62
30 10 0.26
31 3 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (29 bp):
CCATAAAGGCTTTTCTTGCACAGAGATCG
Found at i:19937138 original size:53 final size:54
Alignment explanation
Indices: 19937061--19937210 Score: 225
Period size: 53 Copynumber: 2.8 Consensus size: 54
19937051 TTAAATTTTT
* * *
19937061 CCATATGATGCAATAA-CTCACCAATTACGGTCTTACATGATATGGTT-TTCTTC
1 CCATATGATGCCATAACCT-ACCAATTACGGTCTTACACGATATGGTTCTTCTTA
*
19937114 CCATATGATGCCATAACCTGCCAATTACGGTCTTACACGATAT-GTTCTTCTTA
1 CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATGGTTCTTCTTA
*
19937167 CCATATGATGCCATAACCCACCAATTACGGTCTTACACGATATG
1 CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATG
19937211 ATCTTTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 3 0.03
53 83 0.94
54 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (54 bp):
CCATATGATGCCATAACCTACCAATTACGGTCTTACACGATATGGTTCTTCTTA
Found at i:19939858 original size:22 final size:21
Alignment explanation
Indices: 19939832--19940254 Score: 468
Period size: 22 Copynumber: 19.2 Consensus size: 21
19939822 AGCAATTATC
*
19939832 CAACATTCAGACAGCATTTAAT
1 CAACATT-GGACAGCATTTAAT
* *
19939854 TAACATTTAGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
19939876 CAACAATTGGACAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
19939898 CAACATTTGAACAACATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
19939920 AAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
19939942 CAACAATTGGACAACATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
19939964 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
19939986 CAACATTTGGACAGCATTCAAT
1 CAACA-TTGGACAGCATTTAAT
*
19940008 CAATATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* * *
19940030 CAATAATTTGACAGCATTAAAT
1 CAA-CATTGGACAGCATTTAAT
19940052 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
19940074 CAACAATTGGACAACATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
19940096 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
* *
19940118 CAACAATTAGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
* *
19940140 CAATAATTGGACAGCATTTAGT
1 CAA-CATTGGACAGCATTTAAT
*
19940162 CAACAATTGGACAGCATTAAAT
1 CAAC-ATTGGACAGCATTTAAT
19940184 CAACATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
*
19940206 CAACAATTGGACAGCATTCAAT
1 CAAC-ATTGGACAGCATTTAAT
*
19940228 CAATATTTGGACAGCATTTAAT
1 CAACA-TTGGACAGCATTTAAT
19940250 CAACA
1 CAACA
19940255 ATTTTTTACT
Statistics
Matches: 344, Mismatches: 42, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.02
22 330 0.96
23 8 0.02
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (21 bp):
CAACATTGGACAGCATTTAAT
Found at i:19939889 original size:44 final size:44
Alignment explanation
Indices: 19939832--19940257 Score: 609
Period size: 44 Copynumber: 9.7 Consensus size: 44
19939822 AGCAATTATC
** * * * *
19939832 CAACATTCAGACAGCATTTAATTAACATTTAGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * * * * *
19939876 CAACAATTGGACAGCATTAAATCAACATTTGAACAACATTTAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
19939920 AAACATTTGGACAGCATTTAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
19939964 CAACATTTGGACAGCATTTAATCAACATTTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * *
19940008 CAATATTTGGACAGCATTTAATCAATAATTTGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
19940052 CAACATTTGGACAGCATTTAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
19940096 CAACATTTGGACAGCATTTAATCAACAATTAGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* * *
19940140 CAATAATTGGACAGCATTTAGTCAACAATTGGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
19940184 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
19940228 CAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTTGGACAGCATTTAATCAACAATT
19940258 TTTTACTTCA
Statistics
Matches: 342, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 342 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (44 bp):
CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
Found at i:19939912 original size:11 final size:12
Alignment explanation
Indices: 19939895--19940122 Score: 84
Period size: 11 Copynumber: 20.7 Consensus size: 12
19939885 GACAGCATTA
19939895 AATCAACATTTG
1 AATCAACATTTG
19939907 AA-CAACATTT-
1 AATCAACATTTG
*
19939917 AATAAACATTTG
1 AATCAACATTTG
* *
19939929 GA-CAGCATTT-
1 AATCAACATTTG
*
19939939 AATCAACAATTG
1 AATCAACATTTG
* *
19939951 GA-CAACA-TTA
1 AATCAACATTTG
19939961 AATCAACATTTG
1 AATCAACATTTG
* *
19939973 GA-CAGCATTT-
1 AATCAACATTTG
19939983 AATCAACATTTG
1 AATCAACATTTG
* * *
19939995 GA-CAGCA-TTC
1 AATCAACATTTG
*
19940005 AATCAATATTTG
1 AATCAACATTTG
* *
19940017 GA-CAGCATTT-
1 AATCAACATTTG
*
19940027 AATCAATAATTTG
1 AATCAA-CATTTG
* *
19940040 -A-CAGCA-TTA
1 AATCAACATTTG
19940049 AATCAACATTTG
1 AATCAACATTTG
* *
19940061 GA-CAGCATTT-
1 AATCAACATTTG
*
19940071 AATCAACAATTG
1 AATCAACATTTG
* *
19940083 GA-CAACA-TTA
1 AATCAACATTTG
19940093 AATCAACATTTG
1 AATCAACATTTG
* *
19940105 GA-CAGCATTT-
1 AATCAACATTTG
19940115 AATCAACA
1 AATCAACA
19940123 ATTAGACAGC
Statistics
Matches: 149, Mismatches: 46, Indels: 43
0.63 0.19 0.18
Matches are distributed among these distances:
9 2 0.01
10 18 0.12
11 106 0.71
12 23 0.15
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (12 bp):
AATCAACATTTG
Found at i:19941965 original size:27 final size:27
Alignment explanation
Indices: 19941929--19941983 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
19941919 AAGTGCCGAA
19941929 TACCTAAAAGCTCAAAAGCTTATTTTC
1 TACCTAAAAGCTCAAAAGCTTATTTTC
*
19941956 TACCTTAAAGCTCAAAAGCTTATTTTC
1 TACCTAAAAGCTCAAAAGCTTATTTTC
19941983 T
1 T
19941984 TTCTCAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCTAAAAGCTCAAAAGCTTATTTTC
Found at i:19945685 original size:26 final size:26
Alignment explanation
Indices: 19945656--19945718 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
19945646 CTACCTACAA
19945656 CAGTTTTAGAATATCATAACATATAT
1 CAGTTTTAGAATATCATAACATATAT
* *
19945682 CAGTTTTAGAATATCATAGCATGTAT
1 CAGTTTTAGAATATCATAACATATAT
* *
19945708 GAGTTTCAGAA
1 CAGTTTTAGAA
19945719 CACTTATAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (26 bp):
CAGTTTTAGAATATCATAACATATAT
Found at i:19950837 original size:13 final size:14
Alignment explanation
Indices: 19950816--19950859 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
19950806 AGGGTAGGAT
*
19950816 TCTGTATATCT-TA
1 TCTGCATATCTATA
19950829 TCTGCATATCTATA
1 TCTGCATATCTATA
*
19950843 TCTGC-TATCTGTA
1 TCTGCATATCTATA
19950856 TCTG
1 TCTG
19950860 AAATGGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (14 bp):
TCTGCATATCTATA
Found at i:19961735 original size:110 final size:107
Alignment explanation
Indices: 19961545--19961866 Score: 393
Period size: 108 Copynumber: 3.0 Consensus size: 107
19961535 AAAATTCAAG
* * *
19961545 AGGATATT-TGTCAATTTGGTT-AGACGAGAAATCGAAACCCAGCACCTTAGAGCACGTTCCTCG
1 AGGATATTAAGTC-ATTTGGTTGA-ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCG
19961608 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
64 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
* *
19961652 AGGATACTT-AG-CTATTTGGTTGAACGAGAAAAATCGAACACCCAGTA-CTTAGGGCATGTTTT
1 AGGATA-TTAAGTC-ATTTGGTTGAACGAG--AAATCGAA-ACCCAGTACCTTAGGGCACG-TTC
* *
19961714 CTCGAATTTCCAAACGCAAAACATTGCTTTATTATGAAAATTTTTGAAA
60 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG-AAATTTTTGAAA
* **
19961763 AGGATATTAAGTCATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGATACGTTCCTCGAA
1 AGGATATTAAGTCATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* * * *
19961828 TTTCTAAACACAAAATATTACCTTATTTTGAAATATTTT
66 TTTCCAAACGCAAAACATTGCCTTATTTTGAAAT-TTTT
19961867 CTTTTTTTGA
Statistics
Matches: 185, Mismatches: 19, Indels: 21
0.82 0.08 0.09
Matches are distributed among these distances:
107 24 0.13
108 48 0.26
109 33 0.18
110 45 0.24
111 34 0.18
112 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (107 bp):
AGGATATTAAGTCATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
Found at i:19961863 original size:18 final size:18
Alignment explanation
Indices: 19961840--19961881 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19961830 TCTAAACACA
19961840 AAATATTACCTTATTTTG
1 AAATATTACCTTATTTTG
** *
19961858 AAATATTTTCTTTTTTTG
1 AAATATTACCTTATTTTG
19961876 AAATAT
1 AAATAT
19961882 GAAGTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (18 bp):
AAATATTACCTTATTTTG
Found at i:19962037 original size:24 final size:27
Alignment explanation
Indices: 19961990--19962041 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
19961980 AAATAAATAA
19961990 ATAAACTAAAAACATAAGAATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
*
19962017 ATAAAC-AAATACAT-A-AATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
19962041 A
1 A
19962042 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 7 0.29
27 6 0.25
ACGTcount: A:0.63, C:0.12, G:0.06, T:0.19
Consensus pattern (27 bp):
ATAAACTAAAAACATAAGAATGAACAT
Found at i:19963870 original size:27 final size:27
Alignment explanation
Indices: 19963832--19963886 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19963822 TAGAATAATA
19963832 TATATAACACTCTAAGATTGTACCATG
1 TATATAACACTCTAAGATTGTACCATG
19963859 TATATAACACTCTAAGATTGTACCATG
1 TATATAACACTCTAAGATTGTACCATG
19963886 T
1 T
19963887 CATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (27 bp):
TATATAACACTCTAAGATTGTACCATG
Found at i:19964228 original size:16 final size:15
Alignment explanation
Indices: 19964209--19964261 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
19964199 TAATAAAAGA
19964209 AAAAAATAATGCTAAT
1 AAAAAATAATG-TAAT
*
19964225 AAAAGATACATGTATAT
1 AAAAAATA-ATGTA-AT
*
19964242 AATAAATAATG-AAT
1 AAAAAATAATGTAAT
19964256 AAAAAA
1 AAAAAA
19964262 ATGAGCGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 12 0.39
17 11 0.35
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (15 bp):
AAAAAATAATGTAAT
Found at i:19967467 original size:25 final size:25
Alignment explanation
Indices: 19967437--19967549 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
19967427 TGAGCGTCCT
19967437 GATATTTGGCTCTCACAAGCTTCCC
1 GATATTTGGCTCTCACAAGCTTCCC
* *
19967462 GTTATTTGGCTCTCA-AGAGCTTCCT
1 GATATTTGGCTCTCACA-AGCTTCCC
* * *
19967487 GATAATTGGCTCTCACGAGCTTCCT
1 GATATTTGGCTCTCACAAGCTTCCC
* * ** *
19967512 GATAATTGGCTCGCATGAGCTTCGC
1 GATATTTGGCTCTCACAAGCTTCCC
19967537 GATATTTGGCTCT
1 GATATTTGGCTCT
19967550 TTTGAGCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.01
25 74 0.99
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
GATATTTGGCTCTCACAAGCTTCCC
Found at i:19967508 original size:50 final size:50
Alignment explanation
Indices: 19967428--19967572 Score: 159
Period size: 50 Copynumber: 2.9 Consensus size: 50
19967418 CAACTCTTAT
* * *
19967428 GAGCGTCCTGATATTTGGCTCTCACAAGCTTCCCGTTATTTGGCTCTCAA
1 GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
* * * * *
19967478 GAGCTTCCTGATAATTGGCTCTCACGAGCTTCCTGATAATTGGCTCGCAT
1 GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
*** *
19967528 GAGCTTCGC-GATATTTGGCTCTTTTGAGCTTCCCGTT-TATGGCTC
1 GAGCTTC-CTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTC
19967573 ATATGAGCTT
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
49 6 0.08
50 71 0.91
51 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (50 bp):
GAGCTTCCTGATATTTGGCTCTCACGAGCTTCCCGTTATTTGGCTCGCAA
Found at i:19967579 original size:24 final size:24
Alignment explanation
Indices: 19967526--19967611 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
19967516 ATTGGCTCGC
* *
19967526 ATGAGCTTCGCGATATT-TGGCTCTT
1 ATGAGCTTCCCG-T-TTATGGCTCAT
*
19967551 TTGAGCTTCCCGTTTATGGCTCAT
1 ATGAGCTTCCCGTTTATGGCTCAT
*
19967575 ATGAGCTTCCCGTTACATGGCTCGA-
1 ATGAGCTTCCCGTT-TATGGCTC-AT
*
19967600 AAGAGCTTCCCG
1 ATGAGCTTCCCG
19967612 ATTACATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.04
24 21 0.40
25 28 0.54
26 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCCGTTTATGGCTCAT
Found at i:19967605 original size:25 final size:26
Alignment explanation
Indices: 19967553--19967623 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
19967543 TGGCTCTTTT
* *
19967553 GAGCTTCCCGTT-TATGGCTC-ATAT
1 GAGCTTCCCGTTACATGGCTCGATAA
19967577 GAGCTTCCCGTTACATGGCTCGA-AA
1 GAGCTTCCCGTTACATGGCTCGATAA
19967602 GAGCTTCCCGATTACAT-GCTCG
1 GAGCTTCCCG-TTACATGGCTCG
19967624 TGTGAGCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 12 0.29
25 23 0.55
26 7 0.17
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (26 bp):
GAGCTTCCCGTTACATGGCTCGATAA
Found at i:19968609 original size:41 final size:41
Alignment explanation
Indices: 19968562--19968646 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
19968552 CACGGACGCA
* *
19968562 TGTCTCAACCGTGTGTGACACACGGCCATGTGACATGGTCG
1 TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
* *
19968603 TGTCTCAATCGTGTGTGACACAAGGCCATGTGGCACGGTCG
1 TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
19968644 TGT
1 TGT
19968647 GTCCCTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.26
Consensus pattern (41 bp):
TGTCTCAACCGTGTGTGACACAAGGCCATGTGACACGGTCG
Found at i:19971482 original size:3 final size:3
Alignment explanation
Indices: 19971474--19971527 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
19971464 ATTATTTTGC
19971474 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
19971522 AAT AAT
1 AAT AAT
19971528 TCTATTTCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19972390 original size:13 final size:13
Alignment explanation
Indices: 19972353--19972398 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
19972343 TTAAAAAATG
19972353 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
19972366 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
* *
19972379 CTTTTGATAAGTG
1 CTTTTGAAAAGTA
19972392 CTTTTGA
1 CTTTTGA
19972399 GAATTTTGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:19974947 original size:343 final size:343
Alignment explanation
Indices: 19974321--19974996 Score: 1280
Period size: 343 Copynumber: 2.0 Consensus size: 343
19974311 TTCATTCGGC
*
19974321 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTATAGT
1 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
*
19974386 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACGATCTTAATCTTTTTATTA
66 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
* * *
19974451 AGTTAGTTTTCAACTTCTTGCTTATATAGAATAAATTTCTCTATAGCTTCATCTTTGCTCTTAAG
131 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
19974516 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
196 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
*
19974581 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTGTGCTTCTT
261 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
19974646 TCAACAGTATAGTGGTGT
326 TCAACAGTATAGTGGTGT
19974664 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
1 TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
19974729 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
66 ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
19974794 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
131 AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
* *
19974859 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGATAATAAATTATTTATTCCCTCCTC
196 CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
19974924 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
261 TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
19974989 TCAACAGT
326 TCAACAGT
19974997 TTGAAATGAA
Statistics
Matches: 325, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 325 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (343 bp):
TACTCCATTTGATTGATGAGAGTATAGTGGTGTTACTTCATGAATAATGTCATGTTGTGTACAGT
ATTCATCAAATGGTTCAACATATTTACCACCACGATTACTTCTCACAATCTTAATCTTTTTATTA
AGTTAGTTTTCAACTTCCTACTTATATAGAATAAATTTCTCTATAGCTTCATCTTTACTCTTAAG
CAAATATACGTAGAAATATTTTGTGATATCATCAATGAAGACAATAAATTATTTATTACCTCCTC
TCATTTGAACAAACTTTAAGTCACAAACATCGCTATGTATTAGATCAAGTGGTTCTATGCTTCTT
TCAACAGTATAGTGGTGT
Found at i:19976269 original size:162 final size:162
Alignment explanation
Indices: 19976017--19976412 Score: 500
Period size: 162 Copynumber: 2.5 Consensus size: 162
19976007 CAGAATTAAA
* * * * * *
19976017 ATTTTGAAACAAAATCAAAATC-AAT----TCTATTGAACGACAGGATTGAATCTCGAAACAAAA
1 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATT-AA-GACGGGAATAAATCCCGAAACAGAA
* * * * **
19976077 TTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATCAAATAAAATATGTTAAATGGCGGGAA
64 TTATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAA
*
19976142 T-AATCCCGGAACAGAATTATTCAATTAATTCTC
129 TAAATCCCGAAACAGAATTATTCAATTAATTCTC
19976175 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAATGACGGGAATAAATCCCGAAACAGAAT
1 ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAA-GACGGGAATAAATCCCGAAACAGAAT
* *
19976240 TATTCAATTAATTATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAAT
65 TATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAAT
* *
19976305 AAATCCTGAAATAGAATTATTCAATTAATTCTC
130 AAATCCCGAAACAGAATTATTCAATTAATTCTC
* * * *
19976338 GTTTGGAAACAAAATCAAAAT-GAAACAAAATCTGTTAAGCAGCGGGAATAAACCCCGAAACAGA
1 ATTTGGAAACAAAATCAAAATCG-AATAAAATCTATTAAG-A-CGGGAATAAATCCCGAAACAGA
19976402 ATTATTTAATT
63 ATTATTTAATT
19976413 TTAACTTTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
158 21 0.10
159 3 0.01
162 82 0.40
163 69 0.33
164 31 0.15
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (162 bp):
ATTTGGAAACAAAATCAAAATCGAATAAAATCTATTAAGACGGGAATAAATCCCGAAACAGAATT
ATTTAATTAAATATCATCTGGAAACAAAATAAAAATCAAATAAAATATGTTAAATGGCAAGAATA
AATCCCGAAACAGAATTATTCAATTAATTCTC
Found at i:19976333 original size:82 final size:82
Alignment explanation
Indices: 19976062--19976412 Score: 454
Period size: 81 Copynumber: 4.3 Consensus size: 82
19976052 GACAGGATTG
* * * * *
19976062 AATCTCGAAACAAAATTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATCAAATAAAATAT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
19976127 GTTAAATGGCGGGAAT-
66 GTTAAATGGCGGGAATA
* * *
19976143 AATCCCGGAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAATCT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
* *
19976208 ATT-AATGACGGGAATA
66 GTTAAATGGCGGGAATA
* * *
19976224 AATCCCGAAACAGAATTATTCAATTAATTATCATCTGGAAACAAAATAAAAATCAAATAAAATAT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
**
19976289 GTTAAATGGCAAGAATA
66 GTTAAATGGCGGGAATA
* * * * * *
19976306 AATCCTGAAATAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATGAAACAAAATCT
1 AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
***
19976371 GTTAAGCAGCGGGAATA
66 GTTAAATGGCGGGAATA
* *
19976388 AACCCCGAAACAGAATTATTTAATT
1 AATCCCGAAACAGAATTATTCAATT
19976413 TTAACTTTTT
Statistics
Matches: 230, Mismatches: 38, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
80 11 0.05
81 120 0.52
82 99 0.43
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (82 bp):
AATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCAAATAAAATAT
GTTAAATGGCGGGAATA
Found at i:19976664 original size:51 final size:48
Alignment explanation
Indices: 19976541--19976664 Score: 151
Period size: 51 Copynumber: 2.5 Consensus size: 48
19976531 GCGAACAAAT
* * *
19976541 ATAAATATTTATATTTATATTAAATACAATATCTGAACAAATAATATAA
1 ATAAATATTTATATTTAT-TTAAAAACAATATCTAAACAAAAAATATAA
* *
19976590 ACAAATATTTATATTTATGTAAAAACACCATATCTAAACAAAACAA-ATTAA
1 ATAAATATTTATATTTATTTAAAAACA--ATATCTAAACAAAA-AATA-TAA
19976641 ATAAATATTTATATTTATTTAAAA
1 ATAAATATTTATATTTATTTAAAA
19976665 TATCATATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 7 0.11
49 17 0.27
50 13 0.20
51 27 0.42
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (48 bp):
ATAAATATTTATATTTATTTAAAAACAATATCTAAACAAAAAATATAA
Found at i:19976672 original size:50 final size:49
Alignment explanation
Indices: 19976541--19976672 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 49
19976531 GCGAACAAAT
* *
19976541 ATAAATATTTATATTTATATT-AAATACAATATCTGAACAAATAATATAA
1 ATAAATATTTATATTTATATTAAAATAC-ATATCTAAACAAAAAATATAA
* * * *
19976590 ACAAATATTTATATTTATGTAAAAACACCATATCTAAACAAAACAA-ATTAA
1 ATAAATATTTATATTTATATTAAAATA-CATATCTAAACAAAA-AATA-TAA
19976641 ATAAATATTTATATTTAT-TTAAAATATCATAT
1 ATAAATATTTATATTTATATTAAAATA-CATAT
19976673 TTGAAAACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 18 0.26
50 28 0.41
51 23 0.33
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (49 bp):
ATAAATATTTATATTTATATTAAAATACATATCTAAACAAAAAATATAA
Found at i:19989981 original size:40 final size:41
Alignment explanation
Indices: 19989880--19989988 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
19989870 TGTTTCTGAA
* *
19989880 TAGCAGGCCTTGAGCTGGTGTTATCTATCAAGCTTTATGCC
1 TAGCAGGCTTTGTGCTGGTGTTATCTATCAAGCTTTATGCC
* * *
19989921 TAGTAGGCTTTGTGAC-GGTGTGT-T-TATCAGGCTTTGTGCC
1 TAGCAGGCTTTGTG-CTGGTGT-TATCTATCAAGCTTTATGCC
19989961 TAGCAGGCTTTGTGCTGGTGTTATCTAT
1 TAGCAGGCTTTGTGCTGGTGTTATCTAT
19989989 TTGGCGTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
39 2 0.04
40 33 0.58
41 20 0.35
42 2 0.04
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCTGGTGTTATCTATCAAGCTTTATGCC
Found at i:19992004 original size:18 final size:18
Alignment explanation
Indices: 19991961--19991996 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19991951 AGACTTTGTT
19991961 ATTTTTCTGGTGAGTTCC
1 ATTTTTCTGGTGAGTTCC
19991979 ATTTTTCTGGTGAGTTCC
1 ATTTTTCTGGTGAGTTCC
19991997 TTCTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
ATTTTTCTGGTGAGTTCC
Found at i:19996794 original size:32 final size:31
Alignment explanation
Indices: 19996749--19996844 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19996739 CTTAGATAAT
19996749 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19996780 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
19996812 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19996843 TT
1 TT
19996845 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:20003264 original size:31 final size:32
Alignment explanation
Indices: 20003219--20003281 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
20003209 AGATAATTTT
20003219 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
20003251 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
20003282 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:20005119 original size:18 final size:18
Alignment explanation
Indices: 20005096--20005138 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
20005086 ACCATAACAA
*
20005096 TAGAAATAAGATATTGAG
1 TAGAAATAAGAAATTGAG
20005114 TAGAAATAAGAAATTGAG
1 TAGAAATAAGAAATTGAG
20005132 -AGAAATA
1 TAGAAATA
20005139 TCCAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (18 bp):
TAGAAATAAGAAATTGAG
Found at i:20006300 original size:289 final size:281
Alignment explanation
Indices: 20005669--20006365 Score: 1047
Period size: 289 Copynumber: 2.4 Consensus size: 281
20005659 TAAAGGTATA
* *
20005669 ATAAAAGGTCTCAGACATCCAAGGAAGGATAAAAGCAGCACAAGCTCTCAAGCCCGGCGAAAAGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGA-AGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
*
20005734 GAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
**
20005799 CCATACACATGAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGA
130 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGA
* * *
20005864 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAATTGGATTTTCACGCGCAAATAAT
195 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAAT
20005929 GAAAAACAACTATATACAAGTC
260 GAAAAACAACTATATACAAGTC
*
20005951 ATACAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
* ***
20006016 GAAAGCTCTTAGGCAGCCACTGCGAATGTTTTGAGAAACAAGCCTTTGGA-TTATCATCATAAAC
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
* * * * *
20006080 CCATACACAACAAATATATTTTCCTTTGACTGAATTTTAAGAATATCGTTTATCAATTGAACTGA
130 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTG-
* * * * *
20006145 ATAAAAAAAAGGGGGGAAAAATGTACAACCAGATTTCTGAGGAAGTGACTGGGTTTTCAAGCACA
194 --AAAAAAAA---GGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACA
*
20006210 AATAATG-AAAACAACAATCATATAGAAGTC
254 AATAATGAAAAACAAC--T-ATATACAAGTC
20006240 ATAAAAGGTCTCAGACATCCAAGGAAGGAAGGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
*
20006305 GAAAGCTCTTAGACGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
20006366 CGACTTTATA
Statistics
Matches: 373, Mismatches: 31, Indels: 14
0.89 0.07 0.03
Matches are distributed among these distances:
281 72 0.19
282 105 0.28
284 8 0.02
286 8 0.02
287 51 0.14
288 1 0.00
289 118 0.32
290 10 0.03
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (281 bp):
ATAAAAGGTCTCAGACATCCAAGGAAGGAAGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGCG
AAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAACC
CATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGAA
AAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAATG
AAAAACAACTATATACAAGTC
Found at i:20008946 original size:3 final size:3
Alignment explanation
Indices: 20008938--20008963 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20008928 ACGATGAAAA
20008938 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
20008964 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:20015802 original size:152 final size:152
Alignment explanation
Indices: 20015526--20015830 Score: 583
Period size: 152 Copynumber: 2.0 Consensus size: 152
20015516 TCATCAAATA
*
20015526 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAGAGGATG
1 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
20015591 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
66 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
20015656 AATAAAATCTATTGAATGCTTT
131 AATAAAATCTATTGAATGCTTT
*
20015678 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTTTGTTGAAAAGGATG
1 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
*
20015743 GCAACAAGAAAGATGATGAAACCACAACCAAAGATGATATTTTTATACTTTTGAAAGCTAACAAG
66 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
20015808 AATAAAATCTATTGAATGCTTT
131 AATAAAATCTATTGAATGCTTT
20015830 A
1 A
20015831 AAGAGAACTT
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (152 bp):
ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
AATAAAATCTATTGAATGCTTT
Found at i:20021772 original size:29 final size:30
Alignment explanation
Indices: 20021738--20021815 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
20021728 AAGTTACAAA
* *
20021738 TTTAGTCCTTATACTTTT-ATTTGATCAAT
1 TTTAGTCCATATACTTTTAAATTGATCAAT
* * *
20021767 TTTAGTCCATGTACTTTTCAAATTGCTCACT
1 TTTAGTCCATATACTTTT-AAATTGATCAAT
*
20021798 TTTAGTCCCTATACTTTT
1 TTTAGTCCATATACTTTT
20021816 GTAATTATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.40
31 24 0.60
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTAGTCCATATACTTTTAAATTGATCAAT
Found at i:20024786 original size:22 final size:21
Alignment explanation
Indices: 20024751--20024808 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
20024741 AAAGGGTGTC
* * *
20024751 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
20024772 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
20024795 TTCATATCATATCT
1 TACAAATCATATCT
20024809 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:20024799 original size:17 final size:19
Alignment explanation
Indices: 20024779--20024821 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
20024769 GATTACAAAA
20024779 TCATATC-T-TCTAAAATT
1 TCATATCATATCTAAAATT
*
20024796 TCATATCATATCTAAGATT
1 TCATATCATATCTAAAATT
*
20024815 GCATATC
1 TCATATC
20024822 CTTGAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (19 bp):
TCATATCATATCTAAAATT
Found at i:20025193 original size:21 final size:20
Alignment explanation
Indices: 20025158--20025207 Score: 84
Period size: 21 Copynumber: 2.5 Consensus size: 20
20025148 TCACATCTTG
20025158 TAAGATTGC-ATATCATATC
1 TAAGATTGCAATATCATATC
20025177 TAAGATTGCATATATCATATC
1 TAAGATTGCA-ATATCATATC
20025198 TAAGATTGCA
1 TAAGATTGCA
20025208 CATCCTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.31
21 20 0.69
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
TAAGATTGCAATATCATATC
Found at i:20025438 original size:43 final size:43
Alignment explanation
Indices: 20025379--20025717 Score: 324
Period size: 43 Copynumber: 7.9 Consensus size: 43
20025369 GTTTTAAGAA
* * * *
20025379 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCA
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * * * * *
20025422 AAAAACACCGCTAAAGGTCATGGCCTTTAGCGGCGCTTATGCT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * *
20025465 ACAAACGCCGCTAAAGGCCATGGCTTTTAGCGGCGCTTGT-AT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * *
20025507 ATCAAACGCCGCTACAGACCATAACTTTTAGCGGCGCTTTTGCT
1 A-CAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * * * *
20025551 ACAAATGCCGCTATAGGTCATG-GTCTTTAGCGGTGCTTTTTCT
1 ACAAACGCCGCTAAAGGCCATGACT-TTTAGCGGCGCTTTTCCT
* *
20025594 ACAAACGCCGCTACAGACCATGACTTTTAGCGGCGCTTTTGCC-
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTT-CCT
* * * *
20025637 ACAAACGCCACTAAAGACCATGACTTTTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
** * *
20025680 ACAAACGCCGCTAAAGTTCATGACTTTTGGCAGCGCTT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTT
20025718 CTATGCCACT
Statistics
Matches: 249, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
42 5 0.02
43 240 0.96
44 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
Found at i:20025539 original size:129 final size:129
Alignment explanation
Indices: 20025379--20025701 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 129
20025369 GTTTTAAGAA
** * * * *
20025379 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCAAAAAACACCGCTAAAGGTCATG
1 ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
* * *
20025444 GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGGCCATGGCTTTTAGCGGCGCTTGT-AT
66 GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
* * * * * *
20025507 ATCAAACGCCGCTACAGACCATAACTTTTAGCGGCGCTTTTGCTACAAATGCCGCTATAGGTCAT
1 A-CAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCAT
* * * * * * *
20025572 GGTCTTTAGCGGTGCTTTTTCTACAAACGCCGCTACAGACCATGACTTTTAGCGGCGCTTTTGCC
65 GGCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
* * * *
20025637 ACAAACGCCACTAAAGACCATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGTTCATG
1 ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
20025702 ACTTTTGGCA
Statistics
Matches: 162, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
128 1 0.01
129 160 0.99
130 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (129 bp):
ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
Found at i:20025930 original size:19 final size:19
Alignment explanation
Indices: 20025906--20025943 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20025896 TACAAAAATG
*
20025906 TTAAAAGTTAAAATGATAA
1 TTAAAAGTGAAAATGATAA
20025925 TTAAAAGTGAAAATGATAA
1 TTAAAAGTGAAAATGATAA
20025944 AAATATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (19 bp):
TTAAAAGTGAAAATGATAA
Found at i:20026097 original size:21 final size:21
Alignment explanation
Indices: 20026047--20026099 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
20026037 TCTACGCTGG
*
20026047 TCTGCTTCCCTCGCTGCAACC
1 TCTGCTTCTCTCGCTGCAACC
* **
20026068 TCTGCTTCTCTCGTTGCCGCC
1 TCTGCTTCTCTCGCTGCAACC
20026089 TCTGCTTCTCT
1 TCTGCTTCTCT
20026100 TACTGCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.04, C:0.43, G:0.15, T:0.38
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCAACC
Found at i:20026110 original size:21 final size:21
Alignment explanation
Indices: 20026047--20026116 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
20026037 TCTACGCTGG
* * **
20026047 TCTGCTTCCCTCGCTGCAACC
1 TCTGCTTCTCTCACTGCCGCC
**
20026068 TCTGCTTCTCTCGTTGCCGCC
1 TCTGCTTCTCTCACTGCCGCC
* *
20026089 TCTGCTTCTCTTACTGCTGCC
1 TCTGCTTCTCTCACTGCCGCC
20026110 TCTGCTT
1 TCTGCTT
20026117 TAAGCTGCAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.04, C:0.41, G:0.16, T:0.39
Consensus pattern (21 bp):
TCTGCTTCTCTCACTGCCGCC
Found at i:20026183 original size:66 final size:66
Alignment explanation
Indices: 20026110--20026233 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
20026100 TACTGCTGCC
20026110 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATA-CTTCCGTTGAACCTCAGCTTCTCTCGCTGTCG
1 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTT-CGTTGAACCTCAGCTTCTCTCGCTGTCG
20026174 CA
65 CA
* * **
20026176 TCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCG
1 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTCGTTGAACCTCAGCTTCTCTCG
20026234 ATGCTGCGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 50 0.94
67 3 0.06
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTCGTTGAACCTCAGCTTCTCTCGCTGTCGC
A
Found at i:20026252 original size:66 final size:66
Alignment explanation
Indices: 20026116--20026256 Score: 178
Period size: 66 Copynumber: 2.1 Consensus size: 66
20026106 TGCCTCTGCT
* * * *
20026116 TTAAGCTGCAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGCTGTCGCATCTGC
1 TTAAGTTGTAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGATGTCGCATCCGC
*
20026181 T
66 C
** *
20026182 TTAAGTTGTAGCTGGAGTTCTTCATATCTT-TTTTGAACCTCAGCTTCTCTCGATG-CTGCGTCC
1 TTAAGTTGTAGCTGGAGTTCTTCATA-CTTCCGTTGAACCTCAGCTTCTCTCGATGTC-GCATCC
20026245 GCC
64 GCC
20026248 TTAAGTTGT
1 TTAAGTTGT
20026257 GTAATTTGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 61 0.94
67 3 0.05
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (66 bp):
TTAAGTTGTAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGATGTCGCATCCGC
C
Found at i:20031806 original size:25 final size:25
Alignment explanation
Indices: 20031770--20031818 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
20031760 TATATATTTA
*
20031770 TGTATTAAGTAAGCTATGTAAGTTG
1 TGTATTAAGTAAGCTAAGTAAGTTG
* *
20031795 TGTATTATGTAAGTTAAGTAAGTT
1 TGTATTAAGTAAGCTAAGTAAGTT
20031819 ATCAAAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (25 bp):
TGTATTAAGTAAGCTAAGTAAGTTG
Found at i:20031814 original size:34 final size:34
Alignment explanation
Indices: 20031778--20031982 Score: 159
Period size: 34 Copynumber: 5.9 Consensus size: 34
20031768 TATGTATTAA
* * *
20031778 GTAAGCTATGTAAGTTGTGTATTATGTAAGTTAA
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
** *
20031812 GTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTATGTA--TTATGTAAGTTAT
*
20031846 GTAAGTTAT-TATGTATTATGTACGTTATGTAAGTTAT
1 GTAAGTTATGTAAG--TTATGTA--TTATGTAAGTTAT
* * *
20031883 GT-A-TTATGTAGGTTATGTAAGTTGTGTAAGATAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
* * *
20031917 TTAAGTTACGTAAGTTTTGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* * *
20031951 GTAAGTTATGTATGCTATGTATGATGTAAGTT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTT
20031983 GTTATGCTAT
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
33 2 0.01
34 81 0.60
35 24 0.18
36 26 0.19
37 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (34 bp):
GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:20031840 original size:9 final size:9
Alignment explanation
Indices: 20031778--20031962 Score: 154
Period size: 9 Copynumber: 21.3 Consensus size: 9
20031768 TATGTATTAA
*
20031778 GTAAGCTAT
1 GTAAGTTAT
*
20031787 GTAAGTTGT
1 GTAAGTTAT
20031796 GT-A-TTAT
1 GTAAGTTAT
*
20031803 GTAAGTTAA
1 GTAAGTTAT
20031812 GTAAGTTAT
1 GTAAGTTAT
** *
20031821 CAAAGTAAT
1 GTAAGTTAT
*
20031830 GTATGTTAT
1 GTAAGTTAT
20031839 GTAAG-T-T
1 GTAAGTTAT
20031846 GTAAGTTAT
1 GTAAGTTAT
*
20031855 -TATGTATTAT
1 GTAAG--TTAT
*
20031865 GTACGTTAT
1 GTAAGTTAT
20031874 GTAAGTTAT
1 GTAAGTTAT
20031883 GT-A-TTAT
1 GTAAGTTAT
*
20031890 GTAGGTTAT
1 GTAAGTTAT
*
20031899 GTAAGTTGT
1 GTAAGTTAT
*
20031908 GTAAGATAT
1 GTAAGTTAT
* *
20031917 TTAAGTTAC
1 GTAAGTTAT
*
20031926 GTAAGTTTT
1 GTAAGTTAT
20031935 GT-A-TTAT
1 GTAAGTTAT
20031942 GTAAGTTAT
1 GTAAGTTAT
20031951 GTAAGTTAT
1 GTAAGTTAT
20031960 GTA
1 GTA
20031963 TGCTATGTAT
Statistics
Matches: 137, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
7 22 0.16
8 10 0.07
9 98 0.72
10 4 0.03
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:20031888 original size:25 final size:25
Alignment explanation
Indices: 20031784--20032011 Score: 153
Period size: 25 Copynumber: 8.8 Consensus size: 25
20031774 TTAAGTAAGC
*
20031784 TATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* ** *
20031809 TAAGTAAGTTATCAAAGTAATGTATGT
1 TATGTAAGTTATGTAAGTTATGTA--T
20031836 TATGTAAG-T-TGTAAGTTATTATGTAT
1 TATGTAAGTTATGTAAG---TTATGTAT
*
20031862 TATGTACGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
20031887 TATGTAGGTTATGTAAGTTGTGTAAGA
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
20031914 TATTTAAGTTACGTAAGTTTTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
20031939 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
20031964 GCTATGT-A-TGATGTAAGTTGTTATGCTAT
1 --TATGTAAGTTATGTAA---GTTATG-TAT
*
20031993 TATGTAAGTTATGCAAGTT
1 TATGTAAGTTATGTAAGTT
20032012 TATATATAAG
Statistics
Matches: 161, Mismatches: 24, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
25 72 0.45
26 17 0.11
27 44 0.27
28 19 0.12
29 9 0.06
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:20031911 original size:62 final size:62
Alignment explanation
Indices: 20031795--20031917 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
20031785 ATGTAAGTTG
* *
20031795 TGTATTATGTAAGTTAAGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTAAGTAAGTTATCAAAGTAATGTAGGTTATGTAAGTTGTAAGATATTA
* * ** *
20031857 TGTATTATGTACGTTATGTAAGTTAT-GTA-TTATGTAGGTTATGTAAGTTGTGTAAGATATT
1 TGTATTATGTAAGTTAAGTAAGTTATCAAAGTAATGTAGGTTATGTAAG-T-TGTAAGATATT
20031918 TAAGTTACGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 16 0.31
61 2 0.04
62 34 0.65
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (62 bp):
TGTATTATGTAAGTTAAGTAAGTTATCAAAGTAATGTAGGTTATGTAAGTTGTAAGATATTA
Found at i:20033602 original size:16 final size:16
Alignment explanation
Indices: 20033581--20033634 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
20033571 TTTCTTCGAC
*
20033581 GGTAGAGGAGTGCGAT
1 GGTAGAGGAATGCGAT
* *
20033597 GGTAGAGGACTGCGAC
1 GGTAGAGGAATGCGAT
* *
20033613 GGTCGACGAATGCGAT
1 GGTAGAGGAATGCGAT
20033629 GGTAGA
1 GGTAGA
20033635 CGATCGACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.17
Consensus pattern (16 bp):
GGTAGAGGAATGCGAT
Found at i:20033952 original size:76 final size:80
Alignment explanation
Indices: 20033852--20034130 Score: 253
Period size: 84 Copynumber: 3.4 Consensus size: 80
20033842 AACCAAAATG
* * * * * *
20033852 AAACGTTGCGACGTTTTCAACATAGCGCCACTAATACCG-T-TG-AAGCAAAACGGCACTGTTTT
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCGATGTGCAAGCAAAACGACACCGTTTC
20033914 GTTT-AAAAACCCCA
66 GTTTAAAAAACCCCA
** *
20033928 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATGTCGTTAATGTGCCAGGCAAAACGACACCG
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCG---ATGTG-CAAGCAAAACGACACCG
*
20033993 TTTCGTTTAAAAAACCCGA
62 TTTCGTTTAAAAAACCCCA
* * * *
20034012 AAACTTTGCGGCGCTTTT-ACTATAGCGCCACTAATGCCATTAATGTGCCAGGCAAAACGACACC
1 AAACTTTGCGGCG-TTTTCACCATAGCGCCACTAATACC---GATGTG-CAAGCAAAACGACACC
* * *
20034076 GTTTCATTAAAAAAACCCCG
61 GTTTCGTTTAAAAAACCCCA
** * *
20034096 AAACTTTGCGGCGTTTTTGCCGTAGTGCCACTAAT
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAAT
20034131 GTTGTTAATA
Statistics
Matches: 169, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
76 34 0.20
80 1 0.01
81 2 0.01
83 24 0.14
84 104 0.62
85 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (80 bp):
AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCGATGTGCAAGCAAAACGACACCGTTTC
GTTTAAAAAACCCCA
Found at i:20034037 original size:84 final size:83
Alignment explanation
Indices: 20033896--20034175 Score: 348
Period size: 84 Copynumber: 3.3 Consensus size: 83
20033886 TACCGTTGAA
* * * *
20033896 GCAAAACGGCACTGTTTTGTTT-AAAAACCCCAAAACTTTGCGGCGTTTTCACCATAGCGCCACT
1 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGTTTT-ACCATAGCGCCACT
20033960 AATGTCGTTAATGTGCCAG
65 AATGTCGTTAATGTGCCAG
*
20033979 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGCTTTTACTATAGCGCCACT
1 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCG-TTTTACCATAGCGCCACT
* *
20034044 AATGCCATTAATGTGCCAG
65 AATGTCGTTAATGTGCCAG
* * * * *
20034063 GCAAAACGACACCGTTTCATTAAAAAAACCCCG-AAACTTTGCGGCGTTTTTGCCGTAGTGCCAC
1 GCAAAACGACACCGTTTCGTTTAAAAAA-CCCGAAAACTTTGCGGCG-TTTTACCATAGCGCCAC
* *
20034127 TAATGTTGTTAATATGCCAG
64 TAATGTCGTTAATGTGCCAG
* * *
20034147 GAAAAACAACATCGTTTCGTTTACAAAAA
1 GCAAAACGACACCGTTTCGTTTA-AAAAA
20034176 TGATAAAAAC
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
83 19 0.11
84 138 0.81
85 13 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (83 bp):
GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGTTTTACCATAGCGCCACTA
ATGTCGTTAATGTGCCAG
Found at i:20034455 original size:46 final size:46
Alignment explanation
Indices: 20034389--20034479 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
20034379 AATACATAGT
* * *
20034389 TTTTTTAAGTTATATTTAT-AAAATTAGATAAAATTAAAAAATTTTG
1 TTTTTTAAGTAATATCTATAAAAAATAGATAAAATT-AAAAATTTTG
20034435 TTTTTTAAGTAATATCTATAAAAAATAGATAAAATTAAAAATTTT
1 TTTTTTAAGTAATATCTATAAAAAATAGATAAAATTAAAAATTTT
20034480 AGAGTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 26 0.63
47 15 0.37
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (46 bp):
TTTTTTAAGTAATATCTATAAAAAATAGATAAAATTAAAAATTTTG
Found at i:20035311 original size:25 final size:25
Alignment explanation
Indices: 20035261--20035311 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
20035251 CCCCTAACCC
* *
20035261 TTAAACCTTAAATCCCAACCCTTAA
1 TTAAACCATAAATCCCAACCCATAA
*
20035286 TTAAACCAT-AATCCCTAATCCATAA
1 TTAAACCATAAATCCC-AACCCATAA
20035311 T
1 T
20035312 CCCTAAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (25 bp):
TTAAACCATAAATCCCAACCCATAA
Found at i:20035322 original size:15 final size:15
Alignment explanation
Indices: 20035287--20035324 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
20035277 AACCCTTAAT
20035287 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
20035301 T-AATCCATAATCCC
1 TAAATCCATAATCCC
20035315 TAAATCCATA
1 TAAATCCATA
20035325 TATATTCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:20035748 original size:42 final size:41
Alignment explanation
Indices: 20035701--20036007 Score: 178
Period size: 41 Copynumber: 7.4 Consensus size: 41
20035691 CGGCGCCTTA
20035701 AAAAAACGCCACTAAAACCCGTAGCATTAGCGGCGCTTTATC
1 AAAAAACGCCACTAAAACCCG-AGCATTAGCGGCGCTTTATC
* *
20035743 AAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCA-C
1 AAAAAACGCCACTAAAACCC-GAGCATTAGCGGCGCTTTATC
* *** * *
20035784 ACTAAAACGCCACTAAAAGAGAAGAGCTTTGGCGGCGC-TTACTC
1 A-AAAAACGCCACT-AAA-ACCCGAGCATTAGCGGCGCTTTA-TC
* ** * * * *
20035828 -TAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAAC
1 AAAAAACGCCACTAAAACCC-GAGCATTAGCGGCGCTTTATC
* * ** * *
20035869 AAAAACGACGCTA-AAAAACAAGAACATTAGCGGCGCTTCAT-
1 AAAAA--ACGCCACTAAAACCCGAGCATTAGCGGCGCTTTATC
* * * * *
20035910 AAAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATC
1 AAAAAACGCCAC-TAAAACCCGAGCATTAGCGGCGCTTTATC
* ** * *
20035952 -AAAAACGCCGCTAAAACTCATATCATTAACGGCGCTTT-TC
1 AAAAAACGCCACTAAAAC-CCGAGCATTAGCGGCGCTTTATC
*
20035992 GAAAAACGCCACTAAA
1 AAAAAACGCCACTAAA
20036008 GCCACCGAAA
Statistics
Matches: 208, Mismatches: 41, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
39 4 0.02
40 8 0.04
41 88 0.42
42 79 0.38
43 22 0.11
44 7 0.03
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (41 bp):
AAAAAACGCCACTAAAACCCGAGCATTAGCGGCGCTTTATC
Found at i:20035918 original size:83 final size:82
Alignment explanation
Indices: 20035725--20035967 Score: 252
Period size: 83 Copynumber: 2.9 Consensus size: 82
20035715 AAACCCGTAG
* * * *
20035725 CATTAGCGGCGCTTTATCAAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCACACTAAA
1 CATTAGCGGCGC-TTAT-AAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCA-ACAAAA
* * * *
20035790 ACGCCACTAAAAGAGAAGAG
63 ACGCCGCTAAAAAACAAGAA
* * ** * * *
20035810 CTTTGGCGGCGCTTACTCTAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAACAAAAAC
1 CATTAGCGGCGCTTA-TAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAAC
*
20035875 GACGCTAAAAAACAAGAA
65 GCCGCTAAAAAACAAGAA
* * * * *
20035893 CATTAGCGGCGCTTCATAAAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATCAAAAAC
1 CATTAGCGGCGCTT-ATAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAAC
20035958 GCCGCTAAAA
65 GCCGCTAAAA
20035968 CTCATATCAT
Statistics
Matches: 129, Mismatches: 27, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
83 81 0.63
84 37 0.29
85 11 0.09
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTATAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAACG
CCGCTAAAAAACAAGAA
Found at i:20035979 original size:41 final size:41
Alignment explanation
Indices: 20035702--20036007 Score: 242
Period size: 42 Copynumber: 7.4 Consensus size: 41
20035692 GGCGCCTTAA
*
20035702 AAAAACGCCACTAAAACCC-GTAGCATTAGCGGCGCTTTATC
1 AAAAACGCCGCTAAAACCCAG-AGCATTAGCGGCGCTTTATC
* *
20035743 AAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCA-C
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* *** * *
20035784 ACTAAAACGCCACTAAAAGAGAAGAGCTTTGGCGGCGC-TTACTC
1 A--AAAACGCCGCTAAAA-CCCAGAGCATTAGCGGCGCTTTA-TC
* * * * * *
20035828 TAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAAC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* * * * * *
20035869 AAAAACGACGCTAAAAAACAAGAACATTAGCGGCGCTTCATA
1 AAAAACGCCGCT-AAAACCCAGAGCATTAGCGGCGCTTTATC
* * * *
20035911 AAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* * * *
20035952 AAAAACGCCGCTAAAACTCATATCATTAACGGCGCTTT-TC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
*
20035992 GAAAAACGCCACTAAA
1 -AAAAACGCCGCTAAA
20036008 GCCACCGAAA
Statistics
Matches: 209, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.01
41 93 0.44
42 98 0.47
43 14 0.07
44 1 0.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
Found at i:20035997 original size:83 final size:82
Alignment explanation
Indices: 20035829--20036001 Score: 179
Period size: 83 Copynumber: 2.1 Consensus size: 82
20035819 CGCTTACTCT
* * * *
20035829 AAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
1 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
* *
20035894 ATTAGCGGCGCTTCATAA
66 ATTAACGGCGCTTCA-GA
* * * * ** * *
20035912 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATCAAAAACGCCGCTAAAACTC-ATATC
1 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
20035976 ATTAACGGCGCTTTTC-GA
66 ATTAACGGCGC--TTCAGA
20035994 AAAACGCC
1 AAAACGCC
20036002 ACTAAAGCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
82 22 0.30
83 49 0.66
84 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.17
Consensus pattern (82 bp):
AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
ATTAACGGCGCTTCAGA
Found at i:20039072 original size:21 final size:21
Alignment explanation
Indices: 20039041--20039090 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
20039031 TCGTTGTTTC
*
20039041 TAATGTCACCATTACAGT-AT
1 TAATCTCACCATTACAGTAAT
*
20039061 TCAATCTCACCATTATAGTAAT
1 T-AATCTCACCATTACAGTAAT
20039083 TAATCTCA
1 TAATCTCA
20039091 TTGCCACCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (21 bp):
TAATCTCACCATTACAGTAAT
Found at i:20039720 original size:19 final size:19
Alignment explanation
Indices: 20039696--20039736 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
20039686 CATCATTATC
20039696 ATCACCATTTATTCAATCA
1 ATCACCATTTATTCAATCA
20039715 ATCACCATTTATTCAATCA
1 ATCACCATTTATTCAATCA
20039734 ATC
1 ATC
20039737 TTATTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCACCATTTATTCAATCA
Found at i:20040132 original size:21 final size:21
Alignment explanation
Indices: 20040108--20040158 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
20040098 CATTGTTTCT
* *
20040108 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
20040129 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
20040150 AATCTCACC
1 AATCTCACC
20040159 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Done.