Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 66 of 196
Found at i:18789855 original size:3 final size:3
Alignment explanation
Indices: 18789798--18789840 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
18789788 ATATATGAAC
18789798 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18789841 GGTAGTAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18791531 original size:45 final size:44
Alignment explanation
Indices: 18791152--18791533 Score: 192
Period size: 44 Copynumber: 8.7 Consensus size: 44
18791142 GTCTGATGCG
* * * * *
18791152 ATCTACTCCTCTGCAACTTCAGAGAGATAAGATCTATCA-TTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * *
18791196 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATT-TGC-GGTTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-CAGCTTC-A
* * * ** **
18791240 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTGT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCAGCTTCA
* * * * * * *
18791284 GTCTACTCCACTGCAACCTCAGAGAGACAAG---A-CGGGTTGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTT-CA
* * * * * * *
18791325 ATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGT-AGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
** * * * * *
18791369 ATCAT-CTCCTTTGTAACTTCAGGGAGTTAGGATTATCGGCTTGA
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* *
18791413 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * * *
18791457 ATCTGCTCCACTGCAACCTCAGAGAGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCA
* * *
18791502 ATCTGCCCCTCTGCAACTTCAGGGGGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
18791534 CCTGCTTACT
Statistics
Matches: 256, Mismatches: 64, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
40 2 0.01
41 24 0.09
42 1 0.00
43 9 0.04
44 181 0.71
45 38 0.15
46 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
Found at i:18792630 original size:129 final size:129
Alignment explanation
Indices: 18791674--18792623 Score: 1521
Period size: 129 Copynumber: 7.4 Consensus size: 129
18791664 TATCGACTTC
* * *
18791674 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCATCCTT-GATCTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT-CTTCGATCTGCTCCGCTATTGCTTAGG
* * *
18791738 GAGACAAGATCTGTAATTT-CCAACCTATTCCACTACTGACTAGGGATATAGGATTTGTGGCTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * * * *
18791802 AATCTACTTCCTTACACTTGAAGATAAGATTCACTGTCTTCGATCTACTCCACTATT-TTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
** * *
18791866 AGACAAGATCTACAATTTCCCAACCTATTCCACTGCTGATCAGGGATATATGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
18791930 AATCTGCTTCCTTACACTTGAATATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
** *
18791995 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGTAATATAGAACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
18792059 AATCTGCTTCCTTACACTTAAAGATAAGATTCGCCGTCTTCGATCTGCGT-CGCTATTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCGCTATTGCTTAGG
* *
18792123 GAGACAAGATCTGTAATTTCCCAACCTATTCTACTGCTGACCAGAGATATAGGACTTGTGGCTTA
65 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
18792188 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* *
18792253 AGACATGATTTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
18792317 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
18792382 AGACAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
18792446 AATCTGTTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCTGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
*
18792511 AGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * ** *
18792575 AATATGCTTCCTTACTCTAAAAGATAAGATTCGCCGTCTTCGATTTGCT
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCT
18792624 TTGCTATCGA
Statistics
Matches: 759, Mismatches: 58, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
127 25 0.03
128 137 0.18
129 596 0.79
130 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (129 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:18794860 original size:13 final size:13
Alignment explanation
Indices: 18794844--18794922 Score: 54
Period size: 15 Copynumber: 5.8 Consensus size: 13
18794834 TTTTTTTCTC
*
18794844 TTTTTCATTTTGA
1 TTTTTTATTTTGA
*
18794857 TTTTTTACTTTGATCA
1 TTTTTTA-TTT--TGA
18794873 TTTTTTATTTTGA
1 TTTTTTATTTTGA
* *
18794886 TTTTGATTTTTTTTA
1 TTTT--TTATTTTGA
*
18794901 TTTTGT-TTTT-A
1 TTTTTTATTTTGA
18794912 TTTTTTATTTT
1 TTTTTTATTTT
18794923 TTTTGATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
11 6 0.11
12 8 0.15
13 13 0.25
14 3 0.06
15 14 0.26
16 9 0.17
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTTGA
Found at i:18794877 original size:16 final size:16
Alignment explanation
Indices: 18794856--18794886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18794846 TTTCATTTTG
18794856 ATTTTTTACTTTGATC
1 ATTTTTTACTTTGATC
*
18794872 ATTTTTTATTTTGAT
1 ATTTTTTACTTTGAT
18794887 TTTGATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTTTACTTTGATC
Found at i:18794883 original size:22 final size:21
Alignment explanation
Indices: 18794858--18794922 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 21
18794848 TCATTTTGAT
*
18794858 TTTTTACTTTGATCATTTTTTA
1 TTTTGACTTTGAT-ATTTTTTA
* *
18794880 TTTTGATTTTGATTTTTTTTA
1 TTTTGACTTTGATATTTTTTA
*
18794901 TTTTG--TTT-TTATTTTTTA
1 TTTTGACTTTGATATTTTTTA
18794919 TTTT
1 TTTT
18794923 TTTTGATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 12 0.32
19 3 0.08
21 12 0.32
22 11 0.29
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (21 bp):
TTTTGACTTTGATATTTTTTA
Found at i:18799651 original size:16 final size:16
Alignment explanation
Indices: 18799606--18799652 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
18799596 TTAAAATAAT
18799606 ATTATATAATAAAATA
1 ATTATATAATAAAATA
*
18799622 ATGCATATACATAAAA-A
1 AT-TATATA-ATAAAATA
18799639 ATTATATAGATAAA
1 ATTATATA-ATAAA
18799653 TATATGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTATATAATAAAATA
Found at i:18799728 original size:3 final size:3
Alignment explanation
Indices: 18799669--18799713 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
18799659 AACTGATATA
* * *
18799669 AAT AAT AAC ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18799714 GGTAGTAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18800362 original size:12 final size:13
Alignment explanation
Indices: 18800341--18800369 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18800331 TTTATAGCCG
18800341 AAATGAAAAATGA
1 AAATGAAAAATGA
18800354 AAATG-AAAATGA
1 AAATGAAAAATGA
18800366 AAAT
1 AAAT
18800370 ACAATCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (13 bp):
AAATGAAAAATGA
Found at i:18804802 original size:18 final size:19
Alignment explanation
Indices: 18804776--18804815 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18804766 CAATCAGGGC
* *
18804776 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
18804794 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
18804813 ATT
1 ATT
18804816 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:18807534 original size:16 final size:16
Alignment explanation
Indices: 18807510--18807547 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18807500 TTTGGTTCGC
* *
18807510 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
18807526 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18807542 TGTAAT
1 TGTAAT
18807548 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:18807592 original size:45 final size:44
Alignment explanation
Indices: 18807526--18807620 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
18807516 GGATTAGAGG
* *
18807526 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
18807571 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
18807615 TGTAAT
1 TGTAAT
18807621 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:18807803 original size:18 final size:17
Alignment explanation
Indices: 18807782--18807816 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18807772 TTATTATTTA
*
18807782 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18807800 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18807817 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18807810 original size:28 final size:27
Alignment explanation
Indices: 18807740--18807812 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
18807730 TTTATTATCA
*
18807740 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
18807768 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
18807795 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
18807813 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:18807950 original size:18 final size:17
Alignment explanation
Indices: 18807929--18807963 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18807919 TTATTATTAA
*
18807929 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18807947 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18807964 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18807975 original size:147 final size:149
Alignment explanation
Indices: 18807701--18807975 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
18807691 ATGATTATTG
*
18807701 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
18807766 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
18807831 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
18807850 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
18807913 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
18807976 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:18808007 original size:54 final size:54
Alignment explanation
Indices: 18807949--18808127 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
18807939 ATTAAAATAT
*
18807949 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
18808003 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
18808066 TAT
53 -AC
*
18808069 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
18808123 ATAAT
1 ATAAT
18808128 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:18808070 original size:18 final size:17
Alignment explanation
Indices: 18808049--18808083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18808039 TTATTATTAA
18808049 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
18808067 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
18808084 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:18808198 original size:18 final size:17
Alignment explanation
Indices: 18808159--18808190 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18808149 TTTTAAATAA
18808159 TTAATATTAAATATATT
1 TTAATATTAAATATATT
18808176 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
18808191 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:18808215 original size:120 final size:120
Alignment explanation
Indices: 18807912--18808204 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
18807902 ATCATATTTA
18807912 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
18807977 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
18808032 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
18808097 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
18808153 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
18808205 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:18808304 original size:27 final size:26
Alignment explanation
Indices: 18808248--18808304 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
18808238 GAATTTGTAT
* *
18808248 AATTTAAAATAATAATTATTACATAT
1 AATTTAAAATAATAATAATTACATAA
*
18808274 AATTTAATAATAAT-ATAAATTTCATAA
1 AATTTAA-AATAATAAT-AATTACATAA
18808301 AATT
1 AATT
18808305 CTTGATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTTAAAATAATAATAATTACATAA
Found at i:18808316 original size:90 final size:91
Alignment explanation
Indices: 18808220--18808426 Score: 258
Period size: 90 Copynumber: 2.3 Consensus size: 91
18808210 TAATTATAAC
* * * *
18808220 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
18808284 TAATATA-AATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
18808310 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
18808375 GATATATAATTTCATGAAATTGTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
18808401 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
18808427 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 59 0.58
91 23 0.23
92 19 0.19
93 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:18812371 original size:12 final size:12
Alignment explanation
Indices: 18812356--18812385 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18812346 AATACAAACA
18812356 ACAGAAGCTGCT
1 ACAGAAGCTGCT
18812368 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
18812380 AAAGAA
1 ACAGAA
18812386 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:18812667 original size:14 final size:14
Alignment explanation
Indices: 18812648--18812675 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18812638 AAAATATTAA
18812648 CAACAAATAGTTCC
1 CAACAAATAGTTCC
18812662 CAACAAATAGTTCC
1 CAACAAATAGTTCC
18812676 AATTGCCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
CAACAAATAGTTCC
Found at i:18822917 original size:64 final size:64
Alignment explanation
Indices: 18822834--18823017 Score: 217
Period size: 64 Copynumber: 2.9 Consensus size: 64
18822824 ACATCTATAG
* * *
18822834 AGAAATTCCGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGATAGTAAACACAGAATAA
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAGAATAA
* * * * **
18822898 AGAAAGTCTGCTGGGACAGTAAACACATAATAGATAACCCGTTGGGACAATAAACACAGAATGG
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAGAATAA
* * * * * *
18822962 AGAAAGT-TCGCTAGGACAATAACCATAGAATAGATAGTTCGCTGGGACAGTAAACA
1 AGAAAGTCT-GCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACA
18823018 AAATACAGAG
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
63 1 0.01
64 99 0.99
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (64 bp):
AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAGAATAA
Found at i:18823080 original size:31 final size:31
Alignment explanation
Indices: 18822840--18823086 Score: 183
Period size: 31 Copynumber: 7.8 Consensus size: 31
18822830 ATAGAGAAAT
*
18822840 TCCGCTGGGACAGTAAACACAGAATAGATAA
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* *
18822871 TCCGCTGGGATAGTAAACACAGAATAAAGAAAG
1 TCCGCTGGGACAGTAAACACAGAAT--AGATAG
* * *
18822904 TCTGCTGGGACAGTAAACACATAATAGATAA
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* * * *
18822935 CCCGTTGGGACAATAAACACAGAATGGAGAAAG
1 TCCGCTGGGACAGTAAACACAGAAT--AGATAG
* * * * *
18822968 TTCGCTAGGACAATAACCATAGAATAGATAG
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* * * *
18822999 TTCGCTGGGACAGTAAACAAAATACAGAGATAG
1 TCCGCTGGGACAGTAAAC-ACAGA-ATAGATAG
* *
18823032 -CC-CATGGCTACAGTAAACACATAATAGATAG
1 TCCGC-TGG-GACAGTAAACACAGAATAGATAG
** * *
18823063 TTTGCTGGGACAATAAACATAGAA
1 TCCGCTGGGACAGTAAACACAGAA
18823087 CAAATAAAGT
Statistics
Matches: 168, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
31 88 0.52
32 14 0.08
33 66 0.39
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.19
Consensus pattern (31 bp):
TCCGCTGGGACAGTAAACACAGAATAGATAG
Found at i:18823160 original size:28 final size:28
Alignment explanation
Indices: 18823104--18823161 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
18823094 AGTCCACCGA
* *
18823104 GACAGTAAACACGAGGTAAGTCTGTTGG
1 GACAGTAAACACGAGGTAAGTCCGATGG
* *
18823132 GACAGTAAGCACGGGGTAAGTCCGATGG
1 GACAGTAAACACGAGGTAAGTCCGATGG
18823160 GA
1 GA
18823162 TGCAAAGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.17
Consensus pattern (28 bp):
GACAGTAAACACGAGGTAAGTCCGATGG
Found at i:18836870 original size:29 final size:29
Alignment explanation
Indices: 18836803--18836984 Score: 142
Period size: 29 Copynumber: 6.4 Consensus size: 29
18836793 AGTTTGCCCT
* * *
18836803 AAGGCGTTCCTT-TATCGGAGATAGCCACA
1 AAGGC-TTCCTTATAACAGAGATCGCCACA
* * * * *
18836832 TAGACATCCTTTTAACAAAGATCGCCACA
1 AAGGCTTCCTTATAACAGAGATCGCCACA
*
18836861 AAGGCTTCCTTATAACAGAGATCACCA-A
1 AAGGCTTCCTTATAACAGAGATCGCCACA
* *
18836889 AATGGCTTCCTTATAACAGGGATCACCACA
1 AA-GGCTTCCTTATAACAGAGATCGCCACA
* * *
18836919 AATGCTTCCTTAT-ACTAAAGATTGCCACA
1 AAGGCTTCCTTATAAC-AGAGATCGCCACA
** *
18836948 AAGGCTT-CTT-T-TTAGAGATAGCCACA
1 AAGGCTTCCTTATAACAGAGATCGCCACA
18836974 AAGGCTTCCTT
1 AAGGCTTCCTT
18836985 TTAGAAATAG
Statistics
Matches: 124, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
26 18 0.15
27 4 0.03
28 13 0.10
29 86 0.69
30 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (29 bp):
AAGGCTTCCTTATAACAGAGATCGCCACA
Found at i:18836973 original size:26 final size:25
Alignment explanation
Indices: 18836937--18837036 Score: 114
Period size: 26 Copynumber: 4.0 Consensus size: 25
18836927 CTTATACTAA
*
18836937 AGATTGCCACAAAGGCTTCTTTTTAG
1 AGATAGCCACAAAGGCTTC-TTTTAG
18836963 AGATAGCCACAAAGGCTTCCTTTTAG
1 AGATAGCCACAAAGGCTT-CTTTTAG
* * *
18836989 AAATAGCCACAAAGGCGTTCATTCAG
1 AGATAGCCACAAAGGC-TTCTTTTAG
*
18837015 AGATAGGCACAAAGG--TCTTTTA
1 AGATAGCCACAAAGGCTTCTTTTA
18837037 TACGAAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
23 5 0.08
26 56 0.88
27 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
AGATAGCCACAAAGGCTTCTTTTAG
Found at i:18838243 original size:16 final size:17
Alignment explanation
Indices: 18838222--18838253 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18838212 GCCTCATACC
18838222 TCATAACCATC-CTTTT
1 TCATAACCATCACTTTT
18838238 TCATAACCATCACTTT
1 TCATAACCATCACTTT
18838254 CACTTCGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATAACCATCACTTTT
Found at i:18839131 original size:15 final size:15
Alignment explanation
Indices: 18839111--18839153 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
18839101 CATCAGTGTA
18839111 TGATATGTGATGATG
1 TGATATGTGATGATG
*
18839126 TGATATATGATGATG
1 TGATATGTGATGATG
*
18839141 TTATATGTGATGA
1 TGATATGTGATGA
18839154 AGAAGAAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (15 bp):
TGATATGTGATGATG
Found at i:18839148 original size:22 final size:22
Alignment explanation
Indices: 18839109--18839151 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18839099 ACCATCAGTG
18839109 TATGATATGTGATGATGTGATA
1 TATGATATGTGATGATGTGATA
*
18839131 TATGATGATGTTAT-ATGTGAT
1 TATGAT-ATGTGATGATGTGAT
18839152 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (22 bp):
TATGATATGTGATGATGTGATA
Found at i:18849563 original size:17 final size:18
Alignment explanation
Indices: 18849541--18849574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18849531 AAACAGATGC
*
18849541 CAAAAA-AAATATGTACT
1 CAAAAATAAAGATGTACT
18849558 CAAAAATAAAGATGTAC
1 CAAAAATAAAGATGTAC
18849575 AAAGAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (18 bp):
CAAAAATAAAGATGTACT
Found at i:18865858 original size:50 final size:49
Alignment explanation
Indices: 18865670--18865860 Score: 161
Period size: 50 Copynumber: 3.9 Consensus size: 49
18865660 GATAATAACA
* * ** * * * *
18865670 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* * * **
18865719 TGCCAATGCCATATCCCAGATATGGTCTT-CTATAGGAGTTCTCATATTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATA-TAG
* ** * *
18865769 TGCCCATGCCATGTCTTAGACATGGTCTTAC-GGGAGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATAT-AG
*
18865819 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18865861 TTACCCAAAT
Statistics
Matches: 110, Mismatches: 26, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.33
50 70 0.64
51 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
Found at i:18871262 original size:24 final size:24
Alignment explanation
Indices: 18871230--18871297 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
18871220 ATAGTTAGGG
*
18871230 TATTCTGTAAGTTCCTTTGTGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
18871254 TATTCTGTAAGTACCTTTGTGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
* *
18871278 TATTCTATAAGTGCCTTTGT
1 TATTCTGTAAGTACCTTTGT
18871298 ATTAAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (24 bp):
TATTCTGTAAGTACCTTTGTGGCA
Found at i:18879700 original size:17 final size:18
Alignment explanation
Indices: 18879680--18879713 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18879670 AAGCAATCAT
18879680 TTTATAA-AAAAATTTAA
1 TTTATAATAAAAATTTAA
*
18879697 TTTATAATAAGAATTTA
1 TTTATAATAAAAATTTA
18879714 GCATTCGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTATAATAAAAATTTAA
Found at i:18880846 original size:10 final size:9
Alignment explanation
Indices: 18880821--18880846 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18880811 GGGGAGTGGG
18880821 AGCAAAAAT
1 AGCAAAAAT
18880830 AGCAAAAAT
1 AGCAAAAAT
18880839 AGCAAAAA
1 AGCAAAAA
18880847 CTGAGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.12, T:0.08
Consensus pattern (9 bp):
AGCAAAAAT
Found at i:18881642 original size:29 final size:29
Alignment explanation
Indices: 18881555--18881642 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 29
18881545 ATTCTACGCT
*
18881555 GGTGATTATAGTTCCAGGTACTATGTATC
1 GGTGATTATAGTTCCAGGTACTATGTACC
* * * * * * * *
18881584 GATGTTTCTA-TTCCAGGCATTTTCTGCC
1 GGTGATTATAGTTCCAGGTACTATGTACC
18881612 GGTGATTATAGTTCCAGGTACTATGTACC
1 GGTGATTATAGTTCCAGGTACTATGTACC
18881641 GG
1 GG
18881643 CTAAAATCTA
Statistics
Matches: 41, Mismatches: 17, Indels: 2
0.68 0.28 0.03
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (29 bp):
GGTGATTATAGTTCCAGGTACTATGTACC
Found at i:18889176 original size:9 final size:10
Alignment explanation
Indices: 18889156--18889192 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
18889146 TTATCAGCTT
18889156 TTTCCTAAATG
1 TTTCC-AAATG
18889167 -TTCCAAATG
1 TTTCCAAATG
18889176 TTTCCAAATG
1 TTTCCAAATG
18889186 TTTCCAA
1 TTTCCAA
18889193 TTTAGTCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (10 bp):
TTTCCAAATG
Found at i:18890309 original size:12 final size:13
Alignment explanation
Indices: 18890286--18890314 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18890276 CGGCCCGCCC
18890286 ATATTAATTTTTT
1 ATATTAATTTTTT
18890299 ATATT-ATTTTTT
1 ATATTAATTTTTT
18890311 ATAT
1 ATAT
18890315 ACTTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:18892878 original size:27 final size:27
Alignment explanation
Indices: 18892845--18893093 Score: 241
Period size: 27 Copynumber: 9.2 Consensus size: 27
18892835 GTGAACTTTG
18892845 AAGGAATGGTATTCATGGAGAACTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * * *
18892872 AAAGAATGGTACTCATGGTGAAATCTG
1 AAGGAATGGTATTCATGGAGAACTCTA
*
18892899 AAGGAATGGTATTCATGGCA-AACTCAA
1 AAGGAATGGTATTCATGG-AGAACTCTA
* * *
18892926 AAGGAATGGTATTCATGGCGAACTGTT
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * *
18892953 AAGGAATGGTATTCATTGAAAACTTTG
1 AAGGAATGGTATTCATGGAGAACTCTA
* * * *
18892980 AAGGAATGGTTTTCGTGGTGACCTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
* * *
18893007 AAGGAATGGTATTCGTGGTGACCTCTA
1 AAGGAATGGTATTCATGGAGAACTCTA
* *
18893034 AAGGAATGGTACTCATGGCA-AACTCTG
1 AAGGAATGGTATTCATGG-AGAACTCTA
* * *
18893061 AAGGAATGGTATTCATAGTGAACTTTA
1 AAGGAATGGTATTCATGGAGAACTCTA
18893088 AAGGAA
1 AAGGAA
18893094 AGACATGCAG
Statistics
Matches: 179, Mismatches: 39, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
27 179 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
AAGGAATGGTATTCATGGAGAACTCTA
Found at i:18893090 original size:81 final size:81
Alignment explanation
Indices: 18892835--18893093 Score: 304
Period size: 81 Copynumber: 3.2 Consensus size: 81
18892825 ACCCCATGTT
* * * *
18892835 GTGAACTTTGAAGGAATGGTATTCATGGAGAACTCTAAAAGAATGGTACTCATGGTGAAA-TCTG
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGG-AAAACTCTG
18892899 AAGGAATGGTATTCATG
65 AAGGAATGGTATTCATG
** * * * * * * *
18892916 GCAAACTCAAAAGGAATGGTATTCATGGCGAACTGTTAAGGAATGGTATTCATTGAAAACTTTGA
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
* *
18892981 AGGAATGGTTTTCGTG
66 AGGAATGGTATTCATG
* * * * *
18892997 GTGACCTCTAAAGGAATGGTATTCGTGGTGACCTCTAAAGGAATGGTACTCATGGCAAACTCTGA
1 GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
*
18893062 AGGAATGGTATTCATA
66 AGGAATGGTATTCATG
*
18893078 GTGAACTTTAAAGGAA
1 GTGAACTCTAAAGGAA
18893094 AGACATGCAG
Statistics
Matches: 144, Mismatches: 33, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
80 3 0.02
81 141 0.98
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (81 bp):
GTGAACTCTAAAGGAATGGTATTCATGGAGAACTCTAAAGGAATGGTACTCATGGAAAACTCTGA
AGGAATGGTATTCATG
Found at i:18895351 original size:18 final size:18
Alignment explanation
Indices: 18895328--18895362 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18895318 CAAGAATAGT
*
18895328 AAGCATCAAAATGGTTTC
1 AAGCATCAAAATAGTTTC
*
18895346 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
18895363 GGTACATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:18908530 original size:38 final size:39
Alignment explanation
Indices: 18908479--18908560 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
18908469 CATGGCAGGA
* * *
18908479 AAGTGCTATCAAGGGTACCGAAGTACAATAGGGGC-CGT
1 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACAT
18908517 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACAT
1 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACAT
18908556 AAGTG
1 AAGTG
18908561 TGACTAGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 33 0.82
39 7 0.17
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (39 bp):
AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACAT
Found at i:18908540 original size:20 final size:20
Alignment explanation
Indices: 18908479--18908540 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
18908469 CATGGCAGGA
*
18908479 AAGTGCTATCAAGGGTACCG
1 AAGTGCAATCAAGGGTACCG
* *
18908499 AAGTACAAT--AGGG-GCCG
1 AAGTGCAATCAAGGGTACCG
*
18908516 TAAGTGCGATCAAGGGTACCG
1 -AAGTGCAATCAAGGGTACCG
18908537 AAGT
1 AAGT
18908541 ACAACAGGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 11 0.34
20 15 0.47
21 3 0.09
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (20 bp):
AAGTGCAATCAAGGGTACCG
Found at i:18910424 original size:12 final size:12
Alignment explanation
Indices: 18910409--18910434 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18910399 TGTGTATAAG
18910409 TATATAAAAATA
1 TATATAAAAATA
18910421 TATATAAAAATA
1 TATATAAAAATA
18910433 TA
1 TA
18910435 CGTATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:18911980 original size:100 final size:100
Alignment explanation
Indices: 18911808--18913643 Score: 2539
Period size: 100 Copynumber: 18.4 Consensus size: 100
18911798 CGTCGAGGAA
** * * * ** ** *
18911808 ATAAGATTTTCCGTTGCGGCTTCAATCTTTT-AGTTGTAATGTCGGAAAAGCAAGATTCGCCATC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
* * *
18911872 GTAGCTTCAATCTGTTCCACTGCATTG-CTAGGGAG
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGCAG
**** * * * *
18911907 ATAAGATTCGTTATTCTAGCTTCAATCTATTTGACTT-TAATGTCGGGGAAG-GAAGATTCGCCG
1 ATAAGATTCACCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCG
* * * **
18911970 TTGTAGCTTCAATCTATTCCACTGCATCG-CTATCGAG
64 TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
* * * * * * * *
18912007 GTGAGATTCGCTGTTGTAGCTTCAATCTATTTG-ACTACAATGTCGGGGAAG-GAAGATTCACCG
1 ATAAGATTCACCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCG
* * * *
18912070 CCGTAGCTTCCATCTGTTCCGCTGCATTGCCTTGGAAG
64 TCGTAGCTTCAATCTGTTCCGCTGCATCGCC-TGGCAG
* *
18912108 -TAAGTTTCACCGTTGTGGTTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
*
18912172 GTAGCTTCAATCTGTTCCGCTGCATCGCCTCGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
18912206 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18912271 CGTAGCTTCAATCTGTTCCGCTGCATTGCCTGGCAAG
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
* * * *
18912308 A-AAGATTCACCGTTGTGGCTTTAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCATC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
18912372 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * *
18912406 AGTAAGATTCATCGTTGTGGCTTTAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
18912471 CGTAGCTTCAATATGTTCCGCTGCATCGCCTAGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * * *
18912506 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTGAATTGTAATGTCGGGGAAGTGAGATCCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
18912571 AGTAGCTTCAATCTGTTCCGCTGCATCACCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * *
18912606 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCAT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
18912671 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * * *
18912706 AGTAAGATTCATCGTTGTGGCTTTAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
18912771 CGTAGCTTCAATATGTTCTGCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * *
18912806 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTGAATTGTAATGTCGGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
18912871 AGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGCAAG
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
18912908 A-AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
18912972 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
18913006 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18913071 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTCGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
18913106 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18913171 CGTAGCTTCAGTCTGTTCCGCTGCATCGCCTGGCAAG
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
* *
18913208 A-AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGTAATGTCGGGGAAGTGAGATTCGACGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
*
18913272 GTAGCTTCAATCTGTTCCGCTGCATCACCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* *
18913306 AGTAAGATTCACCATTGTGGCTTCAATCTTTTGAATTACAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18913371 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
*
18913406 AGTAAGATTCACCGTTGTGGCTTCAATATTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18913471 CGTAGCTTCAATCTGTTCCACTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
** *
18913506 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTTTGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
18913571 CGTAGCTTCAATCTGTTCCACTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
*
18913606 AGTAAGATTCACTGTTGTGGCTTCAATCTTTTGAATTG
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTG
18913644 TAATATATGG
Statistics
Matches: 1585, Mismatches: 129, Indels: 45
0.90 0.07 0.03
Matches are distributed among these distances:
98 3 0.00
99 31 0.02
100 1537 0.97
101 10 0.01
102 4 0.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (100 bp):
ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
Found at i:18912076 original size:50 final size:50
Alignment explanation
Indices: 18911923--18913584 Score: 523
Period size: 50 Copynumber: 33.2 Consensus size: 50
18911913 TTCGTTATTC
**
18911923 TAGCTTCAATCTATTTGACTTTAATGTCGGGGAAGGAAGATTCGCCGTTG
1 TAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGGAAGATTCGCCGTTG
** * * *
18911973 TAGCTTCAATCTATTCCACTGC-ATCGCTATCGAGG--TG-AGATTCGCTGTTG
1 TAGCTTCAATCTATTTGACTGCAAT-G---TCGGGGAAGGAAGATTCGCCGTTG
* * **
18912023 TAGCTTCAATCTATTTGACTACAATGTCGGGGAAGGAAGATTCACCGCCG
1 TAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGGAAGATTCGCCGTTG
* * * * * ** * * *
18912073 TAGCTTCCATCTGTTCCG-CTGCATTGCCTTGGAAGTAAGTTTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAATGTCGGGGAAGGAAGATTCGCCGTTG
* * * *
18912123 TGGTTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * ** * * *
18912173 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTCGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * *
18912223 TGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * * *
18912273 TAGCTTCAATCTGTTCCG-CTGCATTGCCTGGCAAGAAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAATGTCGGGGAAGGAAGATTCGCCGTTG
* * * * * * *
18912323 TGGCTTTAATCT-TTTGAATTGCAATGTCGAGGAAGTG-AGATTTGCCATCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * **
18912373 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGCAAGTAAGATTCATCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * * * *
18912423 TGGCTTTAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCACCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * ** * * *
18912473 TAGCTTCAATATGTTCCG-CTGC-ATCGCCTAGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
** * * * * *
18912523 CGGCTTCAATCT-TTTGAATTGTAATGTCGGGGAAGTG-AGATCCACCGTAG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * ** * * * *
18912573 TAGCTTCAATCTGTTCCG-CTGC-ATCACCTGGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * * * * *
18912623 TGGCTTCAATCT-TTTGAATTGCAATGTCGAGGAAGTG-AGATTTGCCATCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * **
18912673 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGCAAGTAAGATTCATCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * * * * *
18912723 TGGCTTTAATCT-TTTGAATTGCAATGTCGAGGAAGTG-AGATTCACCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * *
18912773 TAGCTTCAATATGTTCTG-CTGC-ATCGCCTGGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
** * * * *
18912823 CGGCTTCAATCT-TTTGAATTGTAATGTCGGGGAAGTG-AGATTCACCGTAG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * *
18912873 TAGCTTCAATCTGTTCCG-CTGC-ATCG-CTTGGCAAGAAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTC-GGGGAAGGAAGATTCGCCGTTG
* * *
18912923 TGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * *
18912973 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * *
18913023 TGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * ** * * *
18913073 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTCGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * *
18913123 TGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * * *
18913173 TAGCTTCAGTCTGTTCCG-CTGC-ATCGCCTGGCAAGAAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * * * *
18913223 TGGCTTCAATCT-TTTGAATTGTAATGTCGGGGAAGTG-AGATTCGACGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * ** * * * * *
18913273 TAGCTTCAATCTGTTCCG-CTGC-ATCACCTGGCAAGTAAGATTCACCATTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * *
18913323 TGGCTTCAATCT-TTTGAATTACAATGTCGGGGAAGTG-AGATTCGCCGTTG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* * * * * * *
18913373 TAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * * *
18913423 TGGCTTCAATAT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
* ** * * * * *
18913473 TAGCTTCAATCTGTTCCACTGC-ATCGCCTGGCAAGTAAGATTCACCGTTG
1 TAGCTTCAATCTATTTGACTGCAAT-GTCGGGGAAGGAAGATTCGCCGTTG
* * ** * *
18913523 TGGCTTCAATCT-TTTGAATTGCAATGTTTGGGAAGTG-AGATTCACCGTCG
1 TAGCTTCAATCTATTTG-ACTGCAATGTCGGGGAAG-GAAGATTCGCCGTTG
18913573 TAGCTTCAATCT
1 TAGCTTCAATCT
18913585 GTTCCACTGC
Statistics
Matches: 1146, Mismatches: 344, Indels: 244
0.66 0.20 0.14
Matches are distributed among these distances:
47 5 0.00
48 15 0.01
49 60 0.05
50 988 0.86
51 59 0.05
52 14 0.01
53 5 0.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (50 bp):
TAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGGAAGATTCGCCGTTG
Found at i:18915015 original size:12 final size:12
Alignment explanation
Indices: 18914995--18915039 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
18914985 TTTTTTCCTT
18914995 TTCTT-TTTCTC
1 TTCTTCTTTCTC
18915006 TTCTTCTTTCTC
1 TTCTTCTTTCTC
18915018 TTCTTC-TTCTTC
1 TTCTTCTTTC-TC
18915030 TTC-TCTTTCT
1 TTCTTCTTTCT
18915040 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:18915083 original size:16 final size:15
Alignment explanation
Indices: 18915039--18915093 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
18915029 CTTCTCTTTC
*
18915039 TTTTTTATTTTTTATT
1 TTTTTTGTTTTTT-TT
*
18915055 TTTTGTTGCTTTTGTTT
1 TTTT-TTG-TTTTTTTT
18915072 TTTTTTGTTTTTTTAT
1 TTTTTTGTTTTTTT-T
18915088 TTTTTT
1 TTTTTT
18915094 TTGAAACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.18
16 14 0.42
17 8 0.24
18 5 0.15
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.85
Consensus pattern (15 bp):
TTTTTTGTTTTTTTT
Found at i:18915095 original size:18 final size:19
Alignment explanation
Indices: 18915053--18915096 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
18915043 TTATTTTTTA
*
18915053 TTTTTTGTTGCTTTTGTTT
1 TTTTTTGTTGCTTTTATTT
*
18915072 TTTTTTGTT-TTTTTATTT
1 TTTTTTGTTGCTTTTATTT
18915090 TTTTTTG
1 TTTTTTG
18915097 AAACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.84
Consensus pattern (19 bp):
TTTTTTGTTGCTTTTATTT
Found at i:18920107 original size:25 final size:23
Alignment explanation
Indices: 18920050--18920112 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
18920040 TATTCATGAA
*
18920050 AATAAAAAAATATGTAAATAAGT
1 AATAAAAAAATATGAAAATAAGT
*
18920073 ATATATAAAAATTATGAAAATAAAAGT
1 A-ATA-AAAAAATATGAAAAT--AAGT
*
18920100 AATAAAAATATAT
1 AATAAAAAAATAT
18920113 ATACATGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 1 0.03
24 3 0.09
25 20 0.62
26 3 0.09
27 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (23 bp):
AATAAAAAAATATGAAAATAAGT
Found at i:18928479 original size:16 final size:16
Alignment explanation
Indices: 18928453--18928506 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
18928443 TTTGGTTCGC
*
18928453 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
18928469 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18928485 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18928501 TGTAAT
1 TGTAAT
18928507 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:18928757 original size:16 final size:16
Alignment explanation
Indices: 18928720--18928761 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18928710 TTAATCATAT
*
18928720 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18928736 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18928751 TTAAAATATAT
1 TTAAAATATAT
18928762 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18928768 original size:14 final size:15
Alignment explanation
Indices: 18928729--18928770 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18928719 TTTAAACATA
*
18928729 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18928744 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18928758 A-TATAATTTAATA
1 ATTATAATTAAATA
18928771 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18928888 original size:14 final size:15
Alignment explanation
Indices: 18928839--18928890 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18928829 ATAAAATATA
18928839 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
18928854 TATTAAATATATTAT
1 AATTAAATATATTAT
18928869 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
18928882 AATTTAATA
1 AATTAAATA
18928891 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:18929001 original size:18 final size:17
Alignment explanation
Indices: 18928980--18929014 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18928970 TTATTATTAA
*
18928980 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18928998 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18929015 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18929121 original size:18 final size:17
Alignment explanation
Indices: 18929100--18929134 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18929090 TTATTATTAA
*
18929100 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18929118 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18929135 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18929248 original size:14 final size:15
Alignment explanation
Indices: 18929199--18929250 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18929189 ATAAAATATA
18929199 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
18929214 TATTAAATATATTAT
1 AATTAAATATATTAT
18929229 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
18929242 AATTTAATA
1 AATTAAATA
18929251 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:18929386 original size:120 final size:120
Alignment explanation
Indices: 18928723--18929375 Score: 1200
Period size: 120 Copynumber: 5.4 Consensus size: 120
18928713 ATCATATTTA
*
18928723 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18928788 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
18928843 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18928908 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
18928963 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18929028 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
18929083 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18929148 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
18929203 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
18929268 TATTCTTATATGGATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
18929323 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
18929376 TAAAATAATT
Statistics
Matches: 523, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
120 521 1.00
121 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:18929488 original size:91 final size:90
Alignment explanation
Indices: 18929391--18929598 Score: 299
Period size: 91 Copynumber: 2.3 Consensus size: 90
18929381 TAATTATAAC
* ** * * *
18929391 TAATAAATTATCTTATATGAATTTGTATGATTTAAAAGAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAAT
*
18929456 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
*
18929482 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAAT
*
18929547 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
18929573 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
18929599 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 84 0.80
92 21 0.20
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:18929573 original size:47 final size:47
Alignment explanation
Indices: 18929435--18929579 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 47
18929425 AAAGAATTAT
* * *
18929435 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTT--
1 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * ** * * **
18929480 GA-T-AATAAATTTTCTTATATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATAAAATTTAATA-ATG-ATATATA-ATTTCATAAAATTCTTAA
18929526 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
*
18929573 TAATAAA
1 TATTAAA
18929580 ATGTTCTTAT
Statistics
Matches: 71, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
43 9 0.13
44 11 0.15
45 10 0.14
46 10 0.14
47 20 0.28
48 11 0.15
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (47 bp):
TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:18932898 original size:6 final size:6
Alignment explanation
Indices: 18932884--18932915 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
18932874 TAGTTTGAAC
*
18932884 ATTTTA ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
18932916 ATAGTTTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:18933316 original size:20 final size:20
Alignment explanation
Indices: 18933293--18933358 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
18933283 TAATTAAAGG
18933293 TTGAACATAATTATTATTAT
1 TTGAACATAATTATTATTAT
* *
18933313 TTG-A-ATAATATCAATTA-AAGG
1 TTGAACATAAT-T--ATTATTA-T
18933334 TTGAACATAATTATTATTAT
1 TTGAACATAATTATTATTAT
18933354 TTGAA
1 TTGAA
18933359 TAATATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 13 0.37
21 8 0.23
22 2 0.06
23 5 0.14
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (20 bp):
TTGAACATAATTATTATTAT
Found at i:18933330 original size:41 final size:41
Alignment explanation
Indices: 18933284--18933394 Score: 213
Period size: 41 Copynumber: 2.7 Consensus size: 41
18933274 GATTGAACAT
18933284 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
1 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
18933325 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
1 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
18933366 AATTAAAGGTTGAACATAATTATATATTA
1 AATTAAAGGTTGAACATAATTAT-TATTA
18933395 GTATCAAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
41 64 0.93
42 5 0.07
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (41 bp):
AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
Found at i:18933337 original size:21 final size:21
Alignment explanation
Indices: 18933313--18933379 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
18933303 TTATTATTAT
18933313 TTGAATAATATCAATTAAAGG
1 TTGAATAATATCAATTAAAGG
* *
18933334 TTGAACATAAT-T--ATTATTA-T
1 TTG-A-ATAATATCAATTA-AAGG
18933354 TTGAATAATATCAATTAAAGG
1 TTGAATAATATCAATTAAAGG
18933375 TTGAA
1 TTGAA
18933380 CATAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 8 0.23
21 13 0.37
22 2 0.06
23 5 0.14
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (21 bp):
TTGAATAATATCAATTAAAGG
Found at i:18933425 original size:13 final size:13
Alignment explanation
Indices: 18933407--18933431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18933397 ATCAAATTTG
18933407 TATGTACTCTTTA
1 TATGTACTCTTTA
18933420 TATGTACTCTTT
1 TATGTACTCTTT
18933432 CACTAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:18936495 original size:39 final size:39
Alignment explanation
Indices: 18936447--18936523 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
18936437 CGAAAGTGTT
*
18936447 ATCAAGGGTATCGAAGTACAACAGGGGCACATAAGTGCG
1 ATCAAGGGTACCGAAGTACAACAGGGGCACATAAGTGCG
* **
18936486 ATCAGGGGTACCGAAGTACAACAGGGGCATGTAAGTGC
1 ATCAAGGGTACCGAAGTACAACAGGGGCACATAAGTGC
18936524 TACTAGGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (39 bp):
ATCAAGGGTACCGAAGTACAACAGGGGCACATAAGTGCG
Found at i:18936512 original size:19 final size:19
Alignment explanation
Indices: 18936452--18936512 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
18936442 GTGTTATCAA
*
18936452 GGGTATCGAAGTACAACAG
1 GGGTACCGAAGTACAACAG
* ** * *
18936471 GGGCACATAAGTGCGATCAG
1 GGGTACCGAAGTAC-AACAG
18936491 GGGTACCGAAGTACAACAG
1 GGGTACCGAAGTACAACAG
18936510 GGG
1 GGG
18936513 CATGTAAGTG
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.33, C:0.18, G:0.36, T:0.13
Consensus pattern (19 bp):
GGGTACCGAAGTACAACAG
Found at i:18942946 original size:12 final size:12
Alignment explanation
Indices: 18942915--18942947 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18942905 AAAATCCTAA
18942915 AAATTTTAT-TG
1 AAATTTTATATG
18942926 AAA-TTTATATG
1 AAATTTTATATG
18942937 AAATTTTATAT
1 AAATTTTATAT
18942948 ATTAACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 8 0.40
12 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
AAATTTTATATG
Found at i:18950365 original size:12 final size:12
Alignment explanation
Indices: 18950358--18950389 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
18950348 AAAATAAAAT
18950358 TAATAATAATAG
1 TAATAATAATAG
18950370 TAATAATAATAG
1 TAATAATAATAG
18950382 TAATAATA
1 TAATAATA
18950390 TGAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:18950779 original size:36 final size:36
Alignment explanation
Indices: 18950732--18950822 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 36
18950722 CGGGTCAGGT
18950732 CAAAACGGCGCCGTTTTGGTGCCTGAGAAGGCTGCC
1 CAAAACGGCGCCGTTTTGGTGCCTGAGAAGGCTGCC
18950768 CAAAACGGCGCCGTTTTGGTGCCTGAGAAGGCTGCC
1 CAAAACGGCGCCGTTTTGGTGCCTGAGAAGGCTGCC
* *
18950804 CAAAACGACGTCGTTTTGG
1 CAAAACGGCGCCGTTTTGG
18950823 AAGCCTATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (36 bp):
CAAAACGGCGCCGTTTTGGTGCCTGAGAAGGCTGCC
Found at i:18951118 original size:19 final size:19
Alignment explanation
Indices: 18951096--18951136 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18951086 GTTAGAAAGA
18951096 AAAAAAAGAGAAAA-AAAAT
1 AAAAAAAGA-AAAAGAAAAT
*
18951115 AAAAATAGAAAAAGAAAAT
1 AAAAAAAGAAAAAGAAAAT
18951134 AAA
1 AAA
18951137 TATACCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAT
Found at i:18951137 original size:17 final size:17
Alignment explanation
Indices: 18951091--18951138 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
18951081 AAATAGTTAG
*
18951091 AAAGAAAAAAAAGAGAA
1 AAAGAAAAAAAATAGAA
18951108 AAA-AAATAAAAATAGAA
1 AAAGAAA-AAAAATAGAA
*
18951125 AAAGAAAATAAATA
1 AAAGAAAAAAAATA
18951139 TACCGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAGAAAAAAAATAGAA
Found at i:18956493 original size:3 final size:3
Alignment explanation
Indices: 18956485--18956512 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18956475 ATAAAAATTA
18956485 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18956513 TGAAACTTTA
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:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18961355 original size:104 final size:103
Alignment explanation
Indices: 18961176--18961382 Score: 396
Period size: 104 Copynumber: 2.0 Consensus size: 103
18961166 ATTTGCTACG
18961176 ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
1 ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
*
18961241 GCAACTTCCAAGGTTAAGGGGAAAAGTACTGTGATTTT
66 GCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
18961279 ACAATGACTCCTTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGC
1 ACAATGACTCC-TTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGC
18961344 TGCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
65 TGCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
18961383 GAAGTTCACT
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
103 11 0.11
104 91 0.89
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (103 bp):
ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
GCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
Found at i:18966871 original size:385 final size:385
Alignment explanation
Indices: 18966157--18966930 Score: 1435
Period size: 385 Copynumber: 2.0 Consensus size: 385
18966147 CATAAAGTAG
18966157 ATTGTATGATGGCAATTTTTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
1 ATTGTATGATGGCAATTTTTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
*
18966222 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTGCTGGAACTAAATTCTCCCTCAAAAGAGTA
66 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGTA
18966287 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
131 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
18966352 AAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
196 AAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
* *
18966417 GGTAACATTTGTAATCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAGGA
261 GGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAAGA
*
18966482 TCCAGTTTGCTCTCTTGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
326 TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
18966542 ATTGTATGATGGC-ATTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAA
1 ATTGTATGATGGCAATTTT-TTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAA
*
18966606 CAATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGT
65 CAATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGT
*
18966671 AACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATGGTTGTGATGAAG
130 AACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAG
18966736 AAAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATACTT-TCTAGATGGTGG
195 AAAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATA-TTGTCTAGATGGTGG
* * *
18966800 GTGGTAACATTTGTAACCGTTCTGTGTGGGAGAGTATCCAATGAAAACACATTTGACTGCATGAA
259 GTGGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAA
18966865 GATCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
324 GATCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
18966927 ATTG
1 ATTG
18966931 GGTAATCCGT
Statistics
Matches: 378, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
384 5 0.01
385 371 0.98
386 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (385 bp):
ATTGTATGATGGCAATTTTTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGTA
ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
AAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
GGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAAGA
TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
Found at i:18968990 original size:21 final size:22
Alignment explanation
Indices: 18968957--18968998 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18968947 ACAATTAGAA
18968957 CAAAAATACCCCCCA-AAAAAC
1 CAAAAATACCCCCCACAAAAAC
* *
18968978 CAAATATATCCCCCACAAAAA
1 CAAAAATACCCCCCACAAAAA
18968999 ACTTAGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.10
Consensus pattern (22 bp):
CAAAAATACCCCCCACAAAAAC
Found at i:18975237 original size:28 final size:27
Alignment explanation
Indices: 18975168--18975246 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
18975158 GAACATGCCA
*
18975168 GAAAAAGAAAGTATTTGTGGTGATCTAT
1 GAAAAAGAAACT-TTTGTGGTGATCTAT
*
18975196 -AAAAAGGAAGCTTTTGTGGTGATCTAT
1 GAAAAA-GAAACTTTTGTGGTGATCTAT
* *
18975223 GAAAAAGAAACCTTTATGGTGATC
1 GAAAAAGAAACTTTTGTGGTGATC
18975247 CATGGAGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 35 0.80
28 9 0.20
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GAAAAAGAAACTTTTGTGGTGATCTAT
Found at i:18981929 original size:15 final size:16
Alignment explanation
Indices: 18981909--18981942 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18981899 GTACGAAACT
18981909 TTTTAC-TTTAGTTAC
1 TTTTACTTTTAGTTAC
18981924 TTTTACTTTTAGTTAC
1 TTTTACTTTTAGTTAC
18981940 TTT
1 TTT
18981943 AGTAAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTACTTTTAGTTAC
Found at i:18993452 original size:15 final size:15
Alignment explanation
Indices: 18993432--18993461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18993422 GACACATCCC
*
18993432 AAAAATTGGGTTAGT
1 AAAAATTGGATTAGT
18993447 AAAAATTGGATTAGT
1 AAAAATTGGATTAGT
18993462 GAACTAAGAG
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:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTGGATTAGT
Found at i:19006653 original size:14 final size:14
Alignment explanation
Indices: 19006634--19006662 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19006624 TAATTATTTG
19006634 TTTAAATGTAATTA
1 TTTAAATGTAATTA
19006648 TTTAAATGTAATTA
1 TTTAAATGTAATTA
19006662 T
1 T
19006663 AACATAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTAAATGTAATTA
Found at i:19010511 original size:97 final size:96
Alignment explanation
Indices: 19010337--19010809 Score: 547
Period size: 97 Copynumber: 4.9 Consensus size: 96
19010327 CGTAACTTGT
* * * * * *
19010337 AGCTTTAATCTGCTGCAACGCCAGAGAAAAAAAATTCGCTTCCTTCAGCTTTAATATGTTCTACT
1 AGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * *
19010402 ACAATGCCAAGGAAATAAGATTTGTTGCCTTC
66 GCAACGCCAAGGAAA-AAGATTCGCTGCCTTC
* * * * * *
19010434 AGTTTTAATCTATTGCAACGCTAGGGAAATAAGATTCACTGCCTTTAGCTTTAA-CTTGTTCCAC
1 AGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC-TGTTCCAC
* *
19010498 TGCAACGCTAAGGAAAAAGATTCGCTACCTTC
65 TGCAACGCCAAGGAAAAAGATTCGCTGCCTTC
* *
19010530 AGCTTTAATCTGTCCTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTG-T
1 AGCTTTAA----T-CTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTT
*
19010594 CCTACTGCAACGCCAAGGAAAAAAGATTAGCTGCCTTC
61 CC-ACTGCAACGCCAAGG-AAAAAGATTCGCTGCCTTC
* * *
19010632 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCAATT
1 AGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* *
19010697 GCAACGCCATGGAAATAAGATTCGTTGCCTTC
66 GCAACGCCAAGGAAA-AAGATTCGCTGCCTTC
* * * * * *
19010729 AACTTTAATCTACTGCAATGCCAGGG-AAAAAGATCCGCTGCCTTTAGCTTTAATCTATTCCATT
1 AGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
19010793 GCAACGCCAAGGAAAAA
66 GCAACGCCAAGGAAAAA
19010810 AATTTGCCAT
Statistics
Matches: 320, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
95 2 0.01
96 70 0.22
97 161 0.50
98 3 0.01
100 4 0.01
101 54 0.17
102 26 0.08
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (96 bp):
AGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
GCAACGCCAAGGAAAAAGATTCGCTGCCTTC
Found at i:19010587 original size:51 final size:51
Alignment explanation
Indices: 19010349--19010810 Score: 426
Period size: 51 Copynumber: 9.4 Consensus size: 51
19010339 CTTTAATCTG
* * * *
19010349 CTGCAACGCC-AGAGAAAAAAAATTCGCTTCCTTCAGCTTTAATATGTTCTA
1 CTGCAACGCCAAG-GAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * * *
19010400 CTACAATGCCAAGGAAATAAGATTTGTTGCCTTCAGTTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * * *
19010446 TTGCAACGCTAGGGAAATAAGATTCACTGCCTTTAGCTTTAA-CTTGTTCC-A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC-TG-TCCTA
* *
19010497 CTGCAACGCTAAGG-AAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
*
19010547 CTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
*
19010598 CTGCAACGCCAAGGAAAAAAGATTAGCTGCCTTCAGCTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * *
19010644 CTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCAA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * *
19010695 TTGCAACGCCATGGAAATAAGATTCGTTGCCTTCAACTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * *
19010741 CTGCAATGCC-AGGGAAAAAGATCCGCTGCCTTTAGCTTTAATCTATTCC-A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT-GTCCTA
*
19010791 TTGCAACGCCAAGGAAAAAA
1 CTGCAACGCCAAGGAAAAAA
19010811 ATTTGCCATG
Statistics
Matches: 341, Mismatches: 48, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
45 24 0.07
46 87 0.26
47 3 0.01
49 3 0.01
50 50 0.15
51 171 0.50
52 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (51 bp):
CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
Found at i:19010702 original size:198 final size:193
Alignment explanation
Indices: 19010339--19010810 Score: 581
Period size: 198 Copynumber: 2.4 Consensus size: 193
19010329 TAACTTGTAG
* * * * * *
19010339 CTTTAATCTGCTGCAACGCCAGAGAAAAAAAATTCGCTTCCTTCAGCTTTAATATGTTCTACTAC
1 CTTTAATCTACTGCAACGCCAG-GAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTACTGC
* * * * * * *
19010404 AATGCCAAGGAAATAAGATTTGTTGCCTTCAGTTTTAATCTATTGCAACGCTAGGGAAATAAGAT
65 AACGCCAAGGAAAAAAGATTAGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGAT
* * * *
19010469 TCACTGCCTTTAGCTTTAACTTGTTCCACTGCAACGCTAAGGAAA-AAGATTCGCTACCTTCAG
130 TCACTGCCTTCAGCTTTAACTTGTTCAACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAA
19010532 CTTTAATCTGTCCTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCT
1 CTTTAA----T-CTACTGCAACGCC-AGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCT
19010597 ACTGCAACGCCAAGGAAAAAAGATTAGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAT
60 ACTGCAACGCCAAGGAAAAAAGATTAGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAT
* * * * *
19010662 AAGATTCGCTGCCTTCAGCTTTAA-TCTGTTCAATTGCAACGCCATGGAAATAAGATTCGTTGCC
125 AAGATTCACTGCCTTCAGCTTTAACT-TGTTCAACTGCAACGCCAAGGAAATAAGATTCGCTACC
19010726 TTCAA
189 TTCAA
* * * * * * *
19010731 CTTTAATCTACTGCAATGCCAGGGAAAAAGATCCGCTGCCTTTAGCTTTAATCTATTCC-ATTGC
1 CTTTAATCTACTGCAACGCCAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCT-GTCCTACTGC
19010795 AACGCCAAGGAAAAAA
65 AACGCCAAGGAAAAAA
19010811 ATTTGCCATG
Statistics
Matches: 241, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
193 56 0.23
194 15 0.06
195 1 0.00
197 2 0.01
198 144 0.60
199 23 0.10
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (193 bp):
CTTTAATCTACTGCAACGCCAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTACTGCA
ACGCCAAGGAAAAAAGATTAGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATT
CACTGCCTTCAGCTTTAACTTGTTCAACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAA
Found at i:19024959 original size:10 final size:10
Alignment explanation
Indices: 19024946--19025001 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
19024936 ATATATACAC
19024946 ATATTTATAT
1 ATATTTATAT
19024956 ATATTTATAT
1 ATATTTATAT
19024966 -TATTT-T-T
1 ATATTTATAT
19024973 AT-TTTCATA-
1 ATATTT-ATAT
19024982 AT-TTTATAT
1 ATATTTATAT
*
19024991 ATATATATAT
1 ATATTTATAT
19025001 A
1 A
19025002 CATACGTGCG
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 4 0.10
8 5 0.13
9 13 0.33
10 17 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTATAT
Found at i:19025413 original size:41 final size:41
Alignment explanation
Indices: 19025368--19025486 Score: 100
Period size: 41 Copynumber: 3.1 Consensus size: 41
19025358 ATTTTATTTG
19025368 CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
1 CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
* * *
19025409 C-T-TAT-C--TA--ATTTAT-T-T-TCATTGCTAT-TAC-T
1 CTTATATGCATTATTATTT-TGTATGTCATTGATTTGTCCTT
19025439 CGTATATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
1 C-T-TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
19025482 CTTAT
1 CTTAT
19025487 CTAATTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 30
0.61 0.06 0.32
Matches are distributed among these distances:
30 2 0.04
31 2 0.04
32 8 0.14
33 2 0.04
34 8 0.14
35 2 0.04
36 2 0.04
37 2 0.04
38 2 0.04
39 8 0.14
40 2 0.04
41 12 0.21
42 3 0.05
43 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.55
Consensus pattern (41 bp):
CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
Found at i:19025429 original size:32 final size:32
Alignment explanation
Indices: 19025393--19025503 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
19025383 ATTTTGTATG
19025393 TCATTGATTTGTCCTTCTTATCTAATTTATTT
1 TCATTGATTTGTCCTTCTTATCTAATTTATTT
** * * *
19025425 TCATTGCTATTACTCGTATATATGCATTAT-TATTTTGTATG
1 TCATTG--ATT--T-GT-CCT-T-C-TTATCTAATTTAT-TT
19025466 TCATTGATTTGTCCTTCTTATCTAATTTATTT
1 TCATTGATTTGTCCTTCTTATCTAATTTATTT
19025498 TCATTG
1 TCATTG
19025504 CTATTACTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 22
0.64 0.11 0.24
Matches are distributed among these distances:
32 17 0.29
33 7 0.12
34 4 0.07
35 1 0.02
36 3 0.05
37 3 0.05
38 1 0.02
39 4 0.07
40 7 0.12
41 11 0.19
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (32 bp):
TCATTGATTTGTCCTTCTTATCTAATTTATTT
Found at i:19025454 original size:73 final size:73
Alignment explanation
Indices: 19025370--19025516 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
19025360 TTTATTTGCT
19025370 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
1 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
19025435 TACTCGTA
66 TACTCGTA
19025443 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
1 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
19025508 TACTCGTA
66 TACTCGTA
19025516 T
1 T
19025517 TATTTATGCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (73 bp):
TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
TACTCGTA
Found at i:19029733 original size:17 final size:20
Alignment explanation
Indices: 19029708--19029744 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
19029698 CTTTTTCTGA
19029708 AAAATATTAT-TTT-TATTT
1 AAAATATTATATTTCTATTT
19029726 AAAA-ATTATATTTCTATTT
1 AAAATATTATATTTCTATTT
19029745 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAATATTATATTTCTATTT
Found at i:19030273 original size:19 final size:19
Alignment explanation
Indices: 19030249--19030292 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19030239 TAAAAGCAAC
19030249 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
19030268 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
19030287 ACAACA
1 ACAACA
19030293 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:19033186 original size:95 final size:90
Alignment explanation
Indices: 19032927--19033324 Score: 602
Period size: 90 Copynumber: 4.4 Consensus size: 90
19032917 ATTAAAAATT
* * * * *
19032927 AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAAC-AAAAAAAAGTCTGTTAAACCACAGTTTAAA
*
19032992 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CATTAAAGTTAGTTAATTGAAGCCTA
* * *
19033018 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTTTGTTAAGCTATC-GTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCA-CAGTTTAAA
*
19033082 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CATTAAAGTTAGTTAATTGAAGCCTA
19033108 AATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAGT
1 AATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGT
*
19033172 TTAAACATTAAAGTTAGTTAATTGAAGCGTA
60 TTAAACATTAAAGTTAGTTAATTGAAGCCTA
19033203 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
*
19033268 ATTAAAGTTAGTTAATTGAATCCTA
66 ATTAAAGTTAGTTAATTGAAGCCTA
19033293 AATTAATATAATAGTACAATAGCATAAATTAA
1 AATTAATATAATAGTACAATAGCATAAATTAA
19033325 TTAATTGAAG
Statistics
Matches: 286, Mismatches: 12, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
89 14 0.05
90 155 0.54
91 34 0.12
94 2 0.01
95 67 0.23
96 14 0.05
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
ATTAAAGTTAGTTAATTGAAGCCTA
Found at i:19033234 original size:185 final size:186
Alignment explanation
Indices: 19032922--19033311 Score: 619
Period size: 185 Copynumber: 2.1 Consensus size: 186
19032912 ATTAAATTAA
*
19032922 AAATTAAT-TAATA-TA-ATAGTACAACAACATAAATTAAACAAAAAAAAAGTATGTTAAACTAC
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAAC-AAAAAAAAGTATGTTAAACCAC
* *
19032984 ATTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTA
64 AGTTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTA
* * * *
19033049 AACAAAAAAAAGTTTGTTAAGCTATC-GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
129 AACAAAAAAAAGTCTGTTAAACCA-CAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
* *
19033107 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
*
19033171 TTTAAACATTAAAGTTAGTTAATTGAAGCGTAAATTAATATAATAGTACAATAGCATAAATTAAA
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
*
19033236 CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAATCCT
131 CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
19033292 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
19033312 TAGCATAAAT
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
184 1 0.01
185 160 0.84
186 5 0.03
187 23 0.12
188 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (186 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
Found at i:19033506 original size:14 final size:13
Alignment explanation
Indices: 19033488--19033540 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
19033478 GGTATTTAAT
19033488 ATTTAATATTTTA
1 ATTTAATATTTTA
*
19033501 ATTTTAAT-TTATA
1 A-TTTAATATTTTA
*
19033514 ATTTAATTATTATA
1 ATTTAA-TATTTTA
*
19033528 ATCTAATATTTTA
1 ATTTAATATTTTA
19033541 TTCATCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.15
13 13 0.38
14 16 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTAATATTTTA
Found at i:19033508 original size:21 final size:20
Alignment explanation
Indices: 19033481--19033540 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
19033471 AAGGTCTGGT
*
19033481 ATTTAATATTTAATATTTTA
1 ATTTTATATTTAATATTTTA
*
19033501 ATTTTA-ATTT-ATAATTTA
1 ATTTTATATTTAATATTTTA
*
19033519 ATTATTATAATCTAATATTTTA
1 ATT-TTAT-ATTTAATATTTTA
19033541 TTCATCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 7 0.22
20 5 0.16
21 3 0.09
22 7 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTATATTTAATATTTTA
Found at i:19033651 original size:17 final size:17
Alignment explanation
Indices: 19033629--19033663 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19033619 TTTTCTCTAT
*
19033629 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
19033646 TAATATTACATTATTAC
1 TAATATTACATTATTAC
19033663 T
1 T
19033664 TTGGGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:19034076 original size:19 final size:19
Alignment explanation
Indices: 19034052--19034111 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
19034042 GGAGAAGGAA
19034052 AATAGAGCGAAAATCATTC
1 AATAGAGCGAAAATCATTC
* *
19034071 AATAGAGCGAAACA-GATGC
1 AATAGAGCGAAA-ATCATTC
*
19034090 AAATAGAGCTAAAATCATTC
1 -AATAGAGCGAAAATCATTC
19034110 AA
1 AA
19034112 GAATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (19 bp):
AATAGAGCGAAAATCATTC
Found at i:19035199 original size:19 final size:17
Alignment explanation
Indices: 19035177--19035222 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
19035167 ATAAAAATTA
19035177 AAAAAAAATTTAAATTCTT
1 AAAAAAAATTT-AATT-TT
* *
19035196 AAAAAATATATAATTTT
1 AAAAAAAATTTAATTTT
19035213 AAAAAAAATT
1 AAAAAAAATT
19035223 CCAAAATCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAAAATTTAATTTT
Found at i:19037275 original size:4 final size:4
Alignment explanation
Indices: 19037266--19037296 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
19037256 TTATTATAAT
19037266 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
19037297 TAGATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:19037845 original size:46 final size:46
Alignment explanation
Indices: 19037756--19037847 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
19037746 CAATTAATAA
* * *
19037756 TATTATCCAAGTACATAATTAGTAGTACATCACATGATAACTACAG
1 TATTATCCAAGTACATAACTAGTAGTACACCACATAATAACTACAG
* * *
19037802 TATTGTCCAAGTGCATAACTAGTATTACACCACATAAGT-ACTACAG
1 TATTATCCAAGTACATAACTAGTAGTACACCACATAA-TAACTACAG
19037848 CACATTAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 38 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (46 bp):
TATTATCCAAGTACATAACTAGTAGTACACCACATAATAACTACAG
Found at i:19044054 original size:25 final size:25
Alignment explanation
Indices: 19044026--19044078 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
19044016 TTCAATTGAG
19044026 TCTAGTTTCAAAAACAACAAGTGGA
1 TCTAGTTTCAAAAACAACAAGTGGA
19044051 TCTAGTTTCAAAAACAACAAGTGGA
1 TCTAGTTTCAAAAACAACAAGTGGA
19044076 TCT
1 TCT
19044079 TAATTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (25 bp):
TCTAGTTTCAAAAACAACAAGTGGA
Found at i:19048547 original size:20 final size:20
Alignment explanation
Indices: 19048510--19048548 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19048500 AAAACAAATA
*
19048510 CCAAAATCAAATTTAAAGTC
1 CCAAAATCAAATTAAAAGTC
19048530 CCAAAA-CAAACTTAAAAGT
1 CCAAAATCAAA-TTAAAAGT
19048549 TACTAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (20 bp):
CCAAAATCAAATTAAAAGTC
Found at i:19048872 original size:31 final size:31
Alignment explanation
Indices: 19048765--19048916 Score: 153
Period size: 31 Copynumber: 4.7 Consensus size: 31
19048755 ACATATACAA
*
19048765 ATATCATATCAGAATGTCCTATTACCAGAAAC
1 ATATCATATCAGAATGTCATATT-CCAGAAAC
* ** *
19048797 ATATATCAAATCAGAATGTTGTATTTCCAGAATTAT
1 --ATATCATATCAGAATGTCATA-TTCCAGAA--AC
* * *
19048833 ATACCATATCAAAATGTCATATTCTAGAAAC
1 ATATCATATCAGAATGTCATATTCCAGAAAC
*
19048864 ATATCATATCA-AGATGTCATATTTCAGAAAC
1 ATATCATATCAGA-ATGTCATATTCCAGAAAC
19048895 ATATCATATCAGAATGTCATAT
1 ATATCATATCAGAATGTCATAT
19048917 AAGATCGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
30 1 0.01
31 47 0.47
32 1 0.01
33 7 0.07
34 40 0.40
35 2 0.02
36 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (31 bp):
ATATCATATCAGAATGTCATATTCCAGAAAC
Found at i:19051077 original size:38 final size:38
Alignment explanation
Indices: 19051005--19051077 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
19050995 AAACTATGTT
* *
19051005 AAAAAAGATATATTAGTGTCAATTAGACTATTTCATTA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
*
19051043 AAAAAAGATATATTAGTGTCAACTAAACTCTTTCA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCA
19051078 GTCCTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (38 bp):
AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
Found at i:19058334 original size:22 final size:22
Alignment explanation
Indices: 19058292--19058335 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19058282 ATAAACGAAA
* *
19058292 AAAGGAAAATAACAAGGAAAAT
1 AAAGGAAAAAAACAAGCAAAAT
19058314 AAAGGAAAAAAACCAA-CAAAAT
1 AAAGGAAAAAAA-CAAGCAAAAT
19058336 TCACAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.70, C:0.09, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAGGAAAAAAACAAGCAAAAT
Found at i:19071792 original size:354 final size:354
Alignment explanation
Indices: 19071155--19072203 Score: 1956
Period size: 354 Copynumber: 3.0 Consensus size: 354
19071145 ATTTAACTGA
* * * *
19071155 GCCTGTTTTTGGGCCTATTGACATTAATTCAGCTGGGTTTGCTTTTGG-TTTTTTTGCTCTTGAG
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTT-CTCTTGAG
*
19071219 TTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCATGGTTTATCAAGTGGTGTTTCTACTCAGCT
65 TTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCT
* *
19071284 GTCTATGTCATTGCCTTCTACATCTACTAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCGCCA
130 GTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCA
19071349 ACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTA
195 ACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTA
19071414 CTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCG
260 CTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCG
19071479 TAAATTGTTGCATTTAACTAATTTAGATGG
325 TAAATTGTTGCATTTAACTAATTTAGATGG
*
19071509 GCCTATTTTTGGGTCTATTGACATTAATTCGGTTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
*
19071574 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTAGTTTATCAAGTGGTGTTTCTACTCAGCTG
66 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
19071639 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCAA
131 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCAA
19071704 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
196 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
19071769 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
261 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
19071834 AAATTGTTGCATTTAACTAATTTAGATGG
326 AAATTGTTGCATTTAACTAATTTAGATGG
19071863 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
19071928 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
66 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
*
19071993 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTTGACTCTGGTGCCACCAA
131 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCAA
19072058 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
196 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
* * *
19072123 TTATGGGTGATGGTACTTGTGTTCATATTGTGCATTTGGGTCATAGCACTATTTCTATTTCTTGT
261 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
*
19072188 AAATTATTGCATTTAA
326 AAATTGTTGCATTTAA
19072204 AAAATGTGTT
Statistics
Matches: 678, Mismatches: 16, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
354 671 0.99
355 7 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (354 bp):
GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCAA
CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
AAATTGTTGCATTTAACTAATTTAGATGG
Found at i:19075097 original size:71 final size:71
Alignment explanation
Indices: 19074981--19075125 Score: 245
Period size: 71 Copynumber: 2.0 Consensus size: 71
19074971 TCACTAAACC
* * * *
19074981 ATTATCCTCATCGCCTTTTTGCTGGTTCAAGGAGAAACTTCAGGTCACAATATAGGAGTAGATGG
1 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
19075046 GTGAAT
66 GTGAAT
*
19075052 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
1 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
19075117 GTGAAT
66 GTGAAT
19075123 ATT
1 ATT
19075126 TGAGTTAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (71 bp):
ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
GTGAAT
Found at i:19078998 original size:15 final size:16
Alignment explanation
Indices: 19078970--19079002 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19078960 AATAGATGTT
*
19078970 ATAATATAATTTTAAA
1 ATAATATAAATTTAAA
19078986 ATAA-ATAAATTTAAA
1 ATAATATAAATTTAAA
19079001 AT
1 AT
19079003 TGAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATAAATTTAAA
Found at i:19079615 original size:41 final size:41
Alignment explanation
Indices: 19079570--19079651 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
19079560 GTCAACAATT
* **
19079570 AATTATTTTTTAAAATTTAAAAAATATTCAAAA-AAATATAA
1 AATTAATTTTTAAAAGGTAAAAAATATT-AAAACAAATATAA
* *
19079611 AATTAATTTTTAAAAGGTAAAAATTATTAAAACTAATATAA
1 AATTAATTTTTAAAAGGTAAAAAATATTAAAACAAATATAA
19079652 TATATAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (41 bp):
AATTAATTTTTAAAAGGTAAAAAATATTAAAACAAATATAA
Found at i:19088659 original size:23 final size:24
Alignment explanation
Indices: 19088595--19088676 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 24
19088585 AACGTTGTTC
*
19088595 GTGAACATGTTCAATTATATGTTCA
1 GTGAACATGTTCAATTA-ATGTTAA
***
19088620 -TGAACATGTTTGTTTAATGTT-A
1 GTGAACATGTTCAATTAATGTTAA
19088642 GTGAACATGTTCAATTAA-GTTAA
1 GTGAACATGTTCAATTAATGTTAA
*
19088665 ATGAACATGTTC
1 GTGAACATGTTC
19088677 GTGAACATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 4 0.08
23 31 0.65
24 13 0.27
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (24 bp):
GTGAACATGTTCAATTAATGTTAA
Found at i:19089595 original size:13 final size:13
Alignment explanation
Indices: 19089571--19089688 Score: 67
Period size: 13 Copynumber: 9.1 Consensus size: 13
19089561 AGTTTAGCCT
*
19089571 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
*
19089584 TACTTTTAAAAAG
1 TGCTTTTAAAAAG
* **
19089597 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
**
19089610 TGCTTTTAAAATT
1 TGCTTTTAAAAAG
* **
19089623 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
*
19089636 TTCTTTTAAAAAG
1 TGCTTTTAAAAAG
**
19089649 TG-TTGTGGAAAAG
1 TGCTT-TTAAAAAG
* *
19089662 TGCTTTTGACAAG
1 TGCTTTTAAAAAG
* *
19089675 TACTTTTGAAAAG
1 TGCTTTTAAAAAG
19089688 T
1 T
19089689 TTGGTTTAAG
Statistics
Matches: 76, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
12 2 0.03
13 72 0.95
14 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:19089600 original size:26 final size:26
Alignment explanation
Indices: 19089571--19089688 Score: 121
Period size: 26 Copynumber: 4.5 Consensus size: 26
19089561 AGTTTAGCCT
* *
19089571 TGCTTTTGAAAAGTACTTTTAAAAAG
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* **
19089597 TGCTGTGGAAAAGTGCTTTTAAAATT
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* *
19089623 TGCTGTGGAAAAGTTCTTTTAAAAAG
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* *
19089649 TG-TTGTGGAAAAGTGCTTTTGACAAG
1 TGCTT-TGGAAAAGTGCTTTTAAAAAG
* *
19089675 TACTTTTGAAAAGT
1 TGCTTTGGAAAAGT
19089689 TTGGTTTAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.01
26 73 0.96
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TGCTTTGGAAAAGTGCTTTTAAAAAG
Found at i:19089686 original size:52 final size:52
Alignment explanation
Indices: 19089573--19089689 Score: 155
Period size: 52 Copynumber: 2.2 Consensus size: 52
19089563 TTTAGCCTTG
* * *
19089573 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATTTG
1 CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATGTA
* * * *
19089625 CTGTGGAAAAGTTCTTTTAAAAAGTGTTGTGGAAAAGTGCTTTTGACAA-GTA
1 CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTT-AAAATGTA
19089677 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
19089690 TGGTTTAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 52 0.95
53 3 0.05
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (52 bp):
CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATGTA
Found at i:19092227 original size:20 final size:20
Alignment explanation
Indices: 19092204--19092244 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19092194 TAGTGAGCAT
* *
19092204 CAAAATGCTAACAGATGCAC
1 CAAAATGCAAACAGAGGCAC
*
19092224 CAAAGTGCAAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
19092244 C
1 C
19092245 GAAGAGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.27, G:0.20, T:0.10
Consensus pattern (20 bp):
CAAAATGCAAACAGAGGCAC
Found at i:19092253 original size:20 final size:20
Alignment explanation
Indices: 19092213--19092255 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19092203 TCAAAATGCT
* *
19092213 AACAGATGCACCAAAGTGCA
1 AACAGAGGCACCAAAGAGCA
*
19092233 AACAGAGGCACCGAAGAGCA
1 AACAGAGGCACCAAAGAGCA
19092253 AAC
1 AAC
19092256 CCGTACAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.23, T:0.05
Consensus pattern (20 bp):
AACAGAGGCACCAAAGAGCA
Found at i:19096935 original size:17 final size:16
Alignment explanation
Indices: 19096892--19096932 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19096882 TATATTTTTG
*
19096892 AATTTTAATTTTGATT
1 AATTTTAATTTTGATA
*
19096908 AATTTTGAATTTTTATA
1 AATTTT-AATTTTGATA
19096925 AATTTTAA
1 AATTTTAA
19096933 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTTTAATTTTGATA
Found at i:19097947 original size:21 final size:21
Alignment explanation
Indices: 19097923--19097965 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19097913 TCCCACTACA
**
19097923 TAGTGCGAGCTTAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19097944 TAGTGCGAGCAGAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19097965 T
1 T
19097966 GTATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (21 bp):
TAGTGCGAGCAGAATTCTAGT
Found at i:19102043 original size:54 final size:54
Alignment explanation
Indices: 19101956--19102113 Score: 219
Period size: 54 Copynumber: 2.9 Consensus size: 54
19101946 GTTAAGGAGT
* * *
19101956 CAAATGTCTAATGATTTCTTGAGAAGAGTTCCATATCGTTATTCTTATTCGAGC
1 CAAATGTCTAATGATTTCTTAAGAAGAGATCCATATCGTGATTCTTATTCGAGC
* * *
19102010 CAAACGTCTAATGATTTCTTAAGAAGAGATCCATATCATGATTCCTATTCGAGC
1 CAAATGTCTAATGATTTCTTAAGAAGAGATCCATATCGTGATTCTTATTCGAGC
* * *
19102064 CAAATGTCCAATGATTTCTTGAA-AAGATATCCATATCGAGATTCTTATTC
1 CAAATGTCTAATGATTTCTT-AAGAAGAGATCCATATCGTGATTCTTATTC
19102114 ATCAAGGAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 89 0.98
55 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (54 bp):
CAAATGTCTAATGATTTCTTAAGAAGAGATCCATATCGTGATTCTTATTCGAGC
Found at i:19102641 original size:18 final size:18
Alignment explanation
Indices: 19102620--19102655 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19102610 AAGAGAGCGT
*
19102620 GAAAAATGAAAAAGAAAA
1 GAAAAAGGAAAAAGAAAA
*
19102638 GAAAAAGGAAAAATAAAA
1 GAAAAAGGAAAAAGAAAA
19102656 AGGAAAGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
GAAAAAGGAAAAAGAAAA
Found at i:19102658 original size:13 final size:13
Alignment explanation
Indices: 19102620--19102661 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
19102610 AAGAGAGCGT
19102620 GAAAAATGAAAAA-
1 GAAAAAT-AAAAAG
*
19102633 G-AAAAGAAAAAG
1 GAAAAATAAAAAG
19102645 GAAAAATAAAAAG
1 GAAAAATAAAAAG
19102658 GAAA
1 GAAA
19102662 GAGTGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 5 0.20
12 5 0.20
13 15 0.60
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (13 bp):
GAAAAATAAAAAG
Done.