Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 94 of 135
Found at i:29277163 original size:7 final size:7
Alignment explanation
Indices: 29277147--29277183 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
29277137 AAGAGATCCC
29277147 AAAAAT-
1 AAAAATA
29277153 AAAAATA
1 AAAAATA
29277160 AAAAATA
1 AAAAATA
29277167 AAAAATA
1 AAAAATA
29277174 AAAAATA
1 AAAAATA
29277181 AAA
1 AAA
29277184 CAAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:29279087 original size:14 final size:14
Alignment explanation
Indices: 29279050--29279091 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
29279040 TTATATTTTA
29279050 AATATTTAAATA-T
1 AATATTTAAATATT
29279063 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
29279077 TATATTTAAATATT
1 AATATTTAAATATT
29279091 A
1 A
29279092 GCATAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:29280859 original size:72 final size:72
Alignment explanation
Indices: 29280750--29280946 Score: 279
Period size: 72 Copynumber: 2.8 Consensus size: 72
29280740 AACAAATTTT
* * * * *
29280750 ATATCC-AAAATCAAATATAAACAACTATTGATAAAACTAAAATACATATAAATAAGTGGAATAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAAAATACACATAAATAAGTAGAACAT
29280814 AAATTCA
66 AAATTCA
* * *
29280821 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTACAGTGCACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAAAATACACATAAATAAGTAGAACAT
29280886 AAATTCA
66 AAATTCA
* * * *
29280893 ATATCCAAGAACCAAACATAAACAACTATTGATAAAATTAGATTACACATAAAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAAAATACACATAAAT
29280947 TTAATATCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 6 0.05
72 106 0.95
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAAAATACACATAAATAAGTAGAACAT
AAATTCA
Found at i:29280943 original size:57 final size:57
Alignment explanation
Indices: 29280882--29281003 Score: 217
Period size: 57 Copynumber: 2.1 Consensus size: 57
29280872 AATAAGTAGA
* *
29280882 ACATAAATTCAATATCCAAGAACCAAACATAAACAACTATTGATAAAATTAGATTAC
1 ACATAAATTCAATATCCAAGAACCAAACATAAACAACTATTAATAAAATTAAATTAC
*
29280939 ACATAAATTTAATATCCAAGAACCAAACATAAACAACTATTAATAAAATTAAATTAC
1 ACATAAATTCAATATCCAAGAACCAAACATAAACAACTATTAATAAAATTAAATTAC
29280996 ACATAAAT
1 ACATAAAT
29281004 AAGTAGAACA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.25
Consensus pattern (57 bp):
ACATAAATTCAATATCCAAGAACCAAACATAAACAACTATTAATAAAATTAAATTAC
Found at i:29280999 original size:129 final size:129
Alignment explanation
Indices: 29280812--29281058 Score: 422
Period size: 129 Copynumber: 1.9 Consensus size: 129
29280802 TAAGTGGAAT
* * *
29280812 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTACAGTGCACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAAAGTACACATAAATAA
*
29280877 GTAGAACATAAATTCAATATCCAAGAACCAAACATAAACAACTATTGATAAAATTAGATTACAC
66 GTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAATTAGATTACAC
* * * *
29280941 ATAAATTTAATATCCAAGAACCAAACATAAACAACTATTAATAAAATTAAATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAAAGTACACATAAATAA
29281006 GTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAA
66 GTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAA
29281059 CTAGTTTAGC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 110 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (129 bp):
ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAAAGTACACATAAATAA
GTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAATTAGATTACAC
Found at i:29285820 original size:42 final size:40
Alignment explanation
Indices: 29285773--29285851 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 40
29285763 AATAAAATAA
*
29285773 ATTTTAAATTTAAATTTACTTTAAATTTTAAATGTCCAATGC
1 ATTTTAAATTTAAATTTA-TTTAAA-TTTAAAAGTCCAATGC
29285815 ATTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAA
1 ATTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAA
29285852 ATTACAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 12 0.33
41 6 0.17
42 18 0.50
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (40 bp):
ATTTTAAATTTAAATTTATTTAAATTTAAAAGTCCAATGC
Found at i:29287514 original size:29 final size:29
Alignment explanation
Indices: 29287463--29287583 Score: 125
Period size: 30 Copynumber: 4.1 Consensus size: 29
29287453 AGAGGTCTCT
* ** *
29287463 AAACTTTCCAAAAATTATGTTTTGACCCC
1 AAACTTTTCAAAAATTACATTTTAACCCC
* **
29287492 AAACTTTTTAAAAATTACATTTTAACCTTT
1 AAACTTTTCAAAAATTACATTTTAACC-CC
29287522 AAACTTTTCAAAAATTACATTTTAACCCTC
1 AAACTTTTCAAAAATTACATTTTAACCC-C
* * * *
29287552 AAATTTTTCCAAGATTACATTTTGACCCC
1 AAACTTTTCAAAAATTACATTTTAACCCC
29287581 AAA
1 AAA
29287584 TTCTTTGAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
29 26 0.34
30 50 0.66
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (29 bp):
AAACTTTTCAAAAATTACATTTTAACCCC
Found at i:29287527 original size:59 final size:60
Alignment explanation
Indices: 29287462--29287574 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 60
29287452 AAGAGGTCTC
** *
29287462 TAAACTTTCCAAAAATTATGTTTTGACCC-CAAACTTTTT-AAAAATTACATTTTAACCTT
1 TAAACTTTCCAAAAATTACATTTTAACCCTCAAA-TTTTTCAAAAATTACATTTTAACCTT
* * *
29287521 TAAACTTTTCAAAAATTACATTTTAACCCTCAAATTTTTCCAAGATTACATTTT
1 TAAACTTTCCAAAAATTACATTTTAACCCTCAAATTTTTCAAAAATTACATTTT
29287575 GACCCCAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 30 0.65
60 16 0.35
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.42
Consensus pattern (60 bp):
TAAACTTTCCAAAAATTACATTTTAACCCTCAAATTTTTCAAAAATTACATTTTAACCTT
Found at i:29292730 original size:21 final size:21
Alignment explanation
Indices: 29292655--29292720 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
29292645 ATAGTGCAAA
*
29292655 CTTCTACCGATACCTA-TAACAG
1 CTTCTACCGATA-CAAGTAA-AG
29292677 -TTCTACCGATACAAGTAAAG
1 CTTCTACCGATACAAGTAAAG
*
29292697 CTTCTACCGATACAGGTAAAG
1 CTTCTACCGATACAAGTAAAG
29292718 CTT
1 CTT
29292721 TTATTGATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.10
21 36 0.90
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (21 bp):
CTTCTACCGATACAAGTAAAG
Found at i:29298448 original size:16 final size:18
Alignment explanation
Indices: 29298416--29298449 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
29298406 ATAATAAAAT
29298416 CTTTAGTAAGCTTCAAAG
1 CTTTAGTAAGCTTCAAAG
29298434 CTTT-GTAAG-TTCAAAG
1 CTTTAGTAAGCTTCAAAG
29298450 AGTTTAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (18 bp):
CTTTAGTAAGCTTCAAAG
Found at i:29310302 original size:37 final size:37
Alignment explanation
Indices: 29310232--29310302 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
29310222 AAGCGACCAT
*
29310232 CTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGC
1 CTTCCTGATAAGATACAAAGAAGTGGAACAAATCTGC
* * *
29310269 CTTCCTGATAAGATATAGAGAAGTGGAATAAATC
1 CTTCCTGATAAGATACAAAGAAGTGGAACAAATC
29310303 AATGAAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (37 bp):
CTTCCTGATAAGATACAAAGAAGTGGAACAAATCTGC
Found at i:29310464 original size:208 final size:208
Alignment explanation
Indices: 29310100--29310576 Score: 699
Period size: 208 Copynumber: 2.3 Consensus size: 208
29310090 CAAAATGATG
*
29310100 AGCAGTCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAG
1 AGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAG
** * *
29310165 ATGAGACTTCAAACCTAATCTTTTTTATTAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGACC
66 ATGAGACTTCAAACCTAATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGACC
* ** *
29310230 ATCTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGCCTTCCTGA-TAAGATATAGAGAAGTG
131 ATCTTCCTAATAAGATACAAAGAAGTGGACCAAATCCACCTTCCT-ATTAAGATACAGAGAAGTG
*
29310294 GAATAAATCAATGA
195 GAATAAACCAATGA
29310308 AGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATAC-G
1 AGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAG
* * * **
29310372 AATGAGACTTCAAATCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGT
66 -ATGAGACTTCAAACCTAATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGAC
* * *
29310437 CATCTTCCTAATAAGATACAGAGAAGTGGATCAAATCCACCTTCCTATTGAGATACAGAGAAGTG
130 CATCTTCCTAATAAGATACAAAGAAGTGGACCAAATCCACCTTCCTATTAAGATACAGAGAAGTG
* *
29310502 GATTGAACCAATGA
195 GAATAAACCAATGA
* * *
29310516 AGC-GATCATCTTCCTGATGAGATACAGAGAAGTAAACCGAATCAATGAAGTGAAGCTCAAT
1 AGCAG-TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
29310577 GAAGTGAACC
Statistics
Matches: 243, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
207 3 0.01
208 240 0.99
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (208 bp):
AGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACAG
ATGAGACTTCAAACCTAATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGACC
ATCTTCCTAATAAGATACAAAGAAGTGGACCAAATCCACCTTCCTATTAAGATACAGAGAAGTGG
AATAAACCAATGA
Found at i:29310539 original size:85 final size:86
Alignment explanation
Indices: 29310381--29310548 Score: 232
Period size: 85 Copynumber: 2.0 Consensus size: 86
29310371 GAATGAGACT
* * * *
29310381 TCAAATCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
1 TCAAATCTCACCTTCCTGATGAGATACAGAGAAGTGGATCAAACCAATAAAGCGATCATCTTCCT
29310446 AATAAGATACAGAGAAGTGGA
66 AATAAGATACAGAGAAGTGGA
** *
29310467 TCAAATC-CACCTTCCT-ATTGAGATACAGAGAAGTGGATTGAACCAATGAAGCGATCATCTTCC
1 TCAAATCTCACCTTCCTGA-TGAGATACAGAGAAGTGGATCAAACCAATAAAGCGATCATCTTCC
* *
29310530 TGATGAGATACAGAGAAGT
65 TAATAAGATACAGAGAAGT
29310549 AAACCGAATC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 64 0.89
86 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (86 bp):
TCAAATCTCACCTTCCTGATGAGATACAGAGAAGTGGATCAAACCAATAAAGCGATCATCTTCCT
AATAAGATACAGAGAAGTGGA
Found at i:29314940 original size:19 final size:19
Alignment explanation
Indices: 29314916--29314966 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
29314906 AAAATTGATC
29314916 TAAATTTTATAAAAATTAA
1 TAAATTTTATAAAAATTAA
* *
29314935 TAAATTTTA-AAATATTTA
1 TAAATTTTATAAAAATTAA
* *
29314953 TAAAATTAATAAAA
1 TAAATTTTATAAAA
29314967 CATGTATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATTTTATAAAAATTAA
Found at i:29315017 original size:21 final size:21
Alignment explanation
Indices: 29314975--29315023 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
29314965 AACATGTATA
*
29314975 ATTAAAAAAACATATTAGAATT
1 ATTAAAAAAACATA-TAAAATT
*
29314997 CTTAAAAAGAACATA-AAAATT
1 ATTAAAAA-AACATATAAAATT
29315018 ATTAAA
1 ATTAAA
29315024 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTAAAAAAACATATAAAATT
Found at i:29319142 original size:21 final size:21
Alignment explanation
Indices: 29319118--29319161 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
29319108 AGTCTTATTG
29319118 CATTATTGTTGTCCAAGCCCA
1 CATTATTGTTGTCCAAGCCCA
29319139 CATTATTGTTGTCCAAGCCCA
1 CATTATTGTTGTCCAAGCCCA
29319160 CA
1 CA
29319162 ATAATACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (21 bp):
CATTATTGTTGTCCAAGCCCA
Found at i:29319692 original size:20 final size:21
Alignment explanation
Indices: 29319669--29319723 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
29319659 TTTTTATGAT
29319669 TTTTATAGA-ATTTT-AATACA
1 TTTTATA-ATATTTTAAATACA
*
29319689 TTTTATAATATTTTAAATATA
1 TTTTATAATATTTTAAATACA
*
29319710 TTTTATTA-ATTTTA
1 TTTTATAATATTTTA
29319724 TGATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.58
21 12 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTATAATATTTTAAATACA
Found at i:29319703 original size:49 final size:48
Alignment explanation
Indices: 29319608--29319704 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
29319598 CAATTAAAGT
* *
29319608 TTTTTTTTATGGTTTTTTATAATCTTTATAAATTTATATAAATTTTAA
1 TTTTTTTTATGATTTTTTAGAATCTTTATAAATTTATATAAATTTTAA
*
29319656 TTTTTTTTATGATTTTTATAGAAT-TTTAATACATTT-TATAATATTTTAA
1 TTTTTTTTATGATTTTT-TAGAATCTTT-ATAAATTTATATAA-ATTTTAA
29319705 ATATATTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 24 0.56
49 19 0.44
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTTTTTTATGATTTTTTAGAATCTTTATAAATTTATATAAATTTTAA
Found at i:29319805 original size:10 final size:9
Alignment explanation
Indices: 29319776--29319810 Score: 54
Period size: 10 Copynumber: 3.9 Consensus size: 9
29319766 ATTCTTATAA
29319776 AATTTTTAT
1 AATTTTTAT
29319785 AA-TTTTAT
1 AATTTTTAT
29319793 AATTTTATAT
1 AATTTT-TAT
29319803 AATTTTTA
1 AATTTTTA
29319811 ATTTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATTTTTAT
Found at i:29319805 original size:18 final size:16
Alignment explanation
Indices: 29319776--29319826 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
29319766 ATTCTTATAA
29319776 AATTTTTATAATTTTAT
1 AATTTTTATAATTTT-T
29319793 AATTTTATATAATTTTT
1 AATTTT-TATAATTTTT
*
29319810 AATTTTTA-ATTTTTT
1 AATTTTTATAATTTTT
29319825 AA
1 AA
29319827 AAATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 8 0.25
16 2 0.06
17 13 0.41
18 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTTATAATTTTT
Found at i:29319808 original size:27 final size:24
Alignment explanation
Indices: 29319770--29319828 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
29319760 ATTAATATTC
29319770 TTATAAAATTTTTATAATTTTATAATT
1 TTATAAAA-TTTT-TAATTTT-TAATT
*
29319797 TTATATAATTTTTAATTTTTAATT
1 TTATAAAATTTTTAATTTTTAATT
*
29319821 TTTTAAAA
1 TTATAAAA
29319829 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.38
25 7 0.24
26 4 0.14
27 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATAAAATTTTTAATTTTTAATT
Found at i:29319823 original size:7 final size:8
Alignment explanation
Indices: 29319779--29319822 Score: 56
Period size: 7 Copynumber: 5.5 Consensus size: 8
29319769 CTTATAAAAT
29319779 TTTTATAA
1 TTTTATAA
29319787 TTTTATAA
1 TTTTATAA
29319795 TTTTATATAA
1 -TTT-TATAA
29319805 TTTT-TAA
1 TTTTATAA
29319812 TTTT-TAA
1 TTTTATAA
29319819 TTTT
1 TTTT
29319823 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.41
8 9 0.26
9 6 0.18
10 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTATAA
Found at i:29319823 original size:8 final size:8
Alignment explanation
Indices: 29319776--29319826 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
29319766 ATTCTTATAA
29319776 AATTTTTAT
1 AATTTTT-T
*
29319785 AATTTTAT
1 AATTTTTT
29319793 AATTTTATAT
1 AATTTT-T-T
29319803 AA-TTTTT
1 AATTTTTT
29319810 AA-TTTTT
1 AATTTTTT
29319817 AATTTTTT
1 AATTTTTT
29319825 AA
1 AA
29319827 AAATAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
7 10 0.27
8 15 0.41
9 9 0.24
10 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
AATTTTTT
Found at i:29319906 original size:20 final size:20
Alignment explanation
Indices: 29319883--29319922 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29319873 ATCTCTCTTT
*
29319883 TTTTTTTTGTAATTTTTATG
1 TTTTTTTTATAATTTTTATG
*
29319903 TTTTTTTTATTATTTTTATG
1 TTTTTTTTATAATTTTTATG
29319923 GGTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATAATTTTTATG
Found at i:29324221 original size:14 final size:15
Alignment explanation
Indices: 29324186--29324223 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
29324176 ATAATTTTTA
29324186 TATTGAATTTTAAAT
1 TATTGAATTTTAAAT
29324201 TGA-TGAATTTT-AAT
1 T-ATTGAATTTTAAAT
29324215 TATTGAATT
1 TATTGAATT
29324224 AAAAGTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 10 0.48
15 9 0.43
16 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
TATTGAATTTTAAAT
Found at i:29326013 original size:39 final size:39
Alignment explanation
Indices: 29325855--29326024 Score: 184
Period size: 38 Copynumber: 4.4 Consensus size: 39
29325845 AAAGTGGAAT
* **
29325855 ACTGATTATACTAAATGCTTGCTCAAGTGAGCGA-ATCC
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCGATATCC
** *
29325893 ACTGATTATACTGAATGCTTTTTGAAACGAGCGAT-TCC
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCGATATCC
* * * * *
29325931 ACTGATTTTACTGAATGTTTGCTCAAACAAGCGATAACT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCGATATCC
* * *
29325970 ACTGATTATATTGAATGCTTGCTCAAATGATC-ATTATCC
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCGA-TATCC
29326009 ACTGATTATACTGAAT
1 ACTGATTATACTGAAT
29326025 AAGATTTTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
38 61 0.58
39 45 0.42
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
ACTGATTATACTGAATGCTTGCTCAAACGAGCGATATCC
Found at i:29337859 original size:10 final size:9
Alignment explanation
Indices: 29337836--29337882 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
29337826 TTGTATACTA
29337836 TAATTAACT
1 TAATTAACT
29337845 TAATTAACTT
1 TAATTAAC-T
29337855 TAATTAA-T
1 TAATTAACT
29337863 TAAACTTAAACT
1 T-AA-TT-AACT
29337875 TAATTAAC
1 TAATTAAC
29337883 AAAGTAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 2 0.06
9 13 0.39
10 12 0.36
11 4 0.12
12 2 0.06
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATTAACT
Found at i:29340894 original size:12 final size:12
Alignment explanation
Indices: 29340877--29340910 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
29340867 AAAGAGCATA
29340877 AAAATAAAAGAG
1 AAAATAAAAGAG
*
29340889 AAAATAAAATAG
1 AAAATAAAAGAG
29340901 AAAATAAAAG
1 AAAATAAAAG
29340911 CAAGAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (12 bp):
AAAATAAAAGAG
Found at i:29355038 original size:17 final size:17
Alignment explanation
Indices: 29355012--29355045 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29355002 ACTTGTTTTT
*
29355012 CCTTTTTCTTCCCTTTG
1 CCTTTCTCTTCCCTTTG
*
29355029 CCTTTCTCTTCCTTTTG
1 CCTTTCTCTTCCCTTTG
29355046 GGGCTCTTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.35, G:0.06, T:0.59
Consensus pattern (17 bp):
CCTTTCTCTTCCCTTTG
Found at i:29372678 original size:125 final size:125
Alignment explanation
Indices: 29372465--29372703 Score: 399
Period size: 125 Copynumber: 1.9 Consensus size: 125
29372455 TATAATTCCA
* *
29372465 TCAATTCCTGGCACCAAGTGCCTAGCGTATAAACCGCAATAGAATTTGTGCCCAGTGCTAATCGG
1 TCAATTCCTGGCACCAAGTGCCTAGCGGATAAACCGCAATAGAATTTGCGCCCAGTGCTAATCGG
* *
29372530 ATAAATCGACAGTAATAATAGTGAGTCCAGCTCTAGTTGGATTAACCAACAATAATTTTG
66 ATAAACCGACAGTAATAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAATTTTG
* *
29372590 TCAATTCCTGGCACCCAA-TGCCTAGCGGATAAACCTCAATAGAATTTGCGCCCAGTGCTAGTCG
1 TCAATTCCTGGCA-CCAAGTGCCTAGCGGATAAACCGCAATAGAATTTGCGCCCAGTGCTAATCG
*
29372654 GATAAACCGACAGTATTAATAGTGAGCCCAGCTCTAGTTGGATTAACCAA
65 GATAAACCGACAGTAATAATAGTGAGCCCAGCTCTAGTTGGATTAACCAA
29372704 TGGTATTACG
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
125 102 0.96
126 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (125 bp):
TCAATTCCTGGCACCAAGTGCCTAGCGGATAAACCGCAATAGAATTTGCGCCCAGTGCTAATCGG
ATAAACCGACAGTAATAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAATTTTG
Found at i:29377345 original size:24 final size:25
Alignment explanation
Indices: 29377314--29377379 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
29377304 CCAGACAACA
*
29377314 TTAGCTCTCACGAGCCCAAG-ATGG
1 TTAGCTCTTACGAGCCCAAGTATGG
*
29377338 TTAGCTCTTACGAG-CCTAGTATGG
1 TTAGCTCTTACGAGCCCAAGTATGG
*
29377362 TTAACTCTTACGAGCCCA
1 TTAGCTCTTACGAGCCCA
29377380 GAATAGTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 4 0.11
24 30 0.83
25 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
TTAGCTCTTACGAGCCCAAGTATGG
Found at i:29377388 original size:24 final size:24
Alignment explanation
Indices: 29377318--29377414 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
29377308 ACAACATTAG
* *
29377318 CTCTCACGAGCCCA-AGATGGTTAG
1 CTCTTACGAGCCCAGA-ATGGTTAA
* *
29377342 CTCTTACGAGCCTAGTATGGTTAA
1 CTCTTACGAGCCCAGAATGGTTAA
* *
29377366 CTCTTACGAGCCCAGAATAGTTAG
1 CTCTTACGAGCCCAGAATGGTTAA
* * * *
29377390 CTATTATGGGCCTAGAATGGTTAA
1 CTCTTACGAGCCCAGAATGGTTAA
29377414 C
1 C
29377415 CAATATATTA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
CTCTTACGAGCCCAGAATGGTTAA
Found at i:29377389 original size:48 final size:48
Alignment explanation
Indices: 29377318--29377414 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
29377308 ACAACATTAG
* * *
29377318 CTCTCACGAGCCCAAGATGGTTAGCTCTTACGAGCCTAGTATGGTTAA
1 CTCTCACGAGCCCAAGATAGTTAGCTATTACGAGCCTAGAATGGTTAA
* * *
29377366 CTCTTACGAGCCC-AGAATAGTTAGCTATTATGGGCCTAGAATGGTTAA
1 CTCTCACGAGCCCAAG-ATAGTTAGCTATTACGAGCCTAGAATGGTTAA
29377414 C
1 C
29377415 CAATATATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
CTCTCACGAGCCCAAGATAGTTAGCTATTACGAGCCTAGAATGGTTAA
Found at i:29383274 original size:125 final size:125
Alignment explanation
Indices: 29383052--29383299 Score: 352
Period size: 125 Copynumber: 2.0 Consensus size: 125
29383042 ACTTTGTTAT
* * * *
29383052 ATAATTCCGTCAATTTCTGGCACCCAGTGCCTAACGGATAAACCACAATAGAATTTACGCCGAAT
1 ATAATTCCATCAATTCCTGGCACCCAGTGCCTAACGGATAAACCACAATAGAATTTACGCCCAAC
* * * *
29383117 GCTAGTCGGATAAACCGACAGTAATAATAGTGAGCTCAGCTCTAGTTGGATTAACCAATA
66 GCTAATCGGATAAACCGACAGTAATAATAGTGAGCCCAACTCTAGTTGGAATAACCAATA
* ** * * *
29383177 ATAATTCCATCAATTCCTGGCACCTAGTGCCTAGTGGATAAACCGCAATAGAATTTGCGCCCAGC
1 ATAATTCCATCAATTCCTGGCACCCAGTGCCTAACGGATAAACCACAATAGAATTTACGCCCAAC
* *
29383242 GCTAATTGGATAAACCGACAGTATTAATAGTGAGCCCAACTCTAGTTGGAATAACCAA
66 GCTAATCGGATAAACCGACAGTAATAATAGTGAGCCCAACTCTAGTTGGAATAACCAA
29383300 CGGTATTGCG
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 107 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (125 bp):
ATAATTCCATCAATTCCTGGCACCCAGTGCCTAACGGATAAACCACAATAGAATTTACGCCCAAC
GCTAATCGGATAAACCGACAGTAATAATAGTGAGCCCAACTCTAGTTGGAATAACCAATA
Found at i:29383747 original size:2 final size:2
Alignment explanation
Indices: 29383740--29383767 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29383730 AAATGCACTT
29383740 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29383768 ACTTACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29386145 original size:92 final size:92
Alignment explanation
Indices: 29385988--29386173 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
29385978 AAGGTACTCT
29385988 ACAAGGTCAAATCTCGAGACTTACCATGGTGGTCTCTAGACTATTGAAAATATAGTCGTTAGAAA
1 ACAAGGTCAAATCTCGAGACTTACCATGGTGGTCTCTAGACTATTGAAAATATAGTCGTTAGAAA
29386053 ATCCTAGGTACTAGTATCATAACATCC
66 ATCCTAGGTACTAGTATCATAACATCC
29386080 ACAAGGTCAAATCTCGAGACTTACCATGGTGGTCTCTAGACTATTGAAAATATAGTCGTTAGAAA
1 ACAAGGTCAAATCTCGAGACTTACCATGGTGGTCTCTAGACTATTGAAAATATAGTCGTTAGAAA
* *
29386145 ATCCTAGGTACTAGTGTTATAACATCC
66 ATCCTAGGTACTAGTATCATAACATCC
29386172 AC
1 AC
29386174 CTGAGGGTAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (92 bp):
ACAAGGTCAAATCTCGAGACTTACCATGGTGGTCTCTAGACTATTGAAAATATAGTCGTTAGAAA
ATCCTAGGTACTAGTATCATAACATCC
Found at i:29387585 original size:23 final size:21
Alignment explanation
Indices: 29387559--29387686 Score: 72
Period size: 23 Copynumber: 5.9 Consensus size: 21
29387549 AAATGAAAAC
29387559 AATAGAAATAAATAAATAATGAA
1 AATA-AAATAAATAAA-AATGAA
*
29387582 AAT--AA-AAATAAAAATGAGG
1 AATAAAATAAATAAAAATGA-A
*
29387601 AATAAATTTAAAT-AAAATGAAAA
1 AATAAA-ATAAATAAAAATG--AA
29387624 TAATATAAATAAATAAATAATGAA
1 -AATA-AAATAAATAAA-AATGAA
*
29387648 AAT--AA-AAATAAAAATGAGG
1 AATAAAATAAATAAAAATGA-A
*
29387667 AATAAATTTAAATAAAAATG
1 AATAAA-ATAAATAAAAATG
29387687 TCGACTTATT
Statistics
Matches: 83, Mismatches: 6, Indels: 32
0.69 0.05 0.26
Matches are distributed among these distances:
18 10 0.12
19 20 0.24
20 4 0.05
21 2 0.02
22 6 0.07
23 21 0.25
24 12 0.14
25 4 0.05
26 4 0.05
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (21 bp):
AATAAAATAAATAAAAATGAA
Found at i:29387585 original size:37 final size:36
Alignment explanation
Indices: 29387544--29387654 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 36
29387534 TAATAAATTT
29387544 AAATAAAATGAAAACAATAGAAATAAATAAATAATGA
1 AAATAAAATGAAAA-AATAGAAATAAATAAATAATGA
*
29387581 AAATAAAA--ATAAAAATGAGGAATAAAT---T--T--
1 AAATAAAATGA-AAAAAT-AGAAATAAATAAATAATGA
*
29387610 AAATAAAATGAAAATAATATAAATAAATAAATAATGA
1 AAATAAAATGAAAA-AATAGAAATAAATAAATAATGA
29387647 AAATAAAA
1 AAATAAAA
29387655 ATAAAAATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
29 8 0.14
30 11 0.19
31 5 0.08
33 2 0.03
35 5 0.08
36 12 0.20
37 16 0.27
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (36 bp):
AAATAAAATGAAAAAATAGAAATAAATAAATAATGA
Found at i:29387586 original size:17 final size:17
Alignment explanation
Indices: 29387564--29387653 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 17
29387554 AAAACAATAG
29387564 AAATAAATAAATAATGA
1 AAATAAATAAATAATGA
29387581 AAATAAAAATAAA-AATGA
1 AAAT--AAATAAATAATGA
* **
29387599 GGAATAAATTTA-AAT-A
1 -AAATAAATAAATAATGA
*
29387615 AAAT-GA-AAATAAT-A
1 AAATAAATAAATAATGA
29387629 TAAATAAATAAATAATGA
1 -AAATAAATAAATAATGA
29387647 AAATAAA
1 AAATAAA
29387654 AATAAAAATG
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
13 1 0.02
14 5 0.09
15 7 0.12
16 2 0.04
17 26 0.46
18 6 0.11
19 10 0.18
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAATAAATAAATAATGA
Found at i:29387615 original size:66 final size:66
Alignment explanation
Indices: 29387535--29387683 Score: 280
Period size: 66 Copynumber: 2.3 Consensus size: 66
29387525 CATCAATAAT
29387535 AATAAATTTAAATAAAATGAAAACAATAGAAATAAATAAATAATGAAAATAAAAATAAAAATGAG
1 AATAAATTTAAATAAAATGAAAACAATAGAAATAAATAAATAATGAAAATAAAAATAAAAATGAG
29387600 G
66 G
* *
29387601 AATAAATTTAAATAAAATGAAAATAATATAAATAAATAAATAATGAAAATAAAAATAAAAATGAG
1 AATAAATTTAAATAAAATGAAAACAATAGAAATAAATAAATAATGAAAATAAAAATAAAAATGAG
29387666 G
66 G
29387667 AATAAATTTAAATAAAA
1 AATAAATTTAAATAAAA
29387684 ATGTCGACTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (66 bp):
AATAAATTTAAATAAAATGAAAACAATAGAAATAAATAAATAATGAAAATAAAAATAAAAATGAG
G
Found at i:29387672 original size:19 final size:19
Alignment explanation
Indices: 29387568--29387664 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 19
29387558 CAATAGAAAT
29387568 AAATAAATAATGAAAATAA
1 AAATAAATAATGAAAATAA
*
29387587 AAATAAA-AATGAGGAAT--
1 AAATAAATAATGA-AAATAA
** *
29387604 AAATTTA-AAT-AAAATGA
1 AAATAAATAATGAAAATAA
29387621 AAAT-AAT-AT--AAAT--
1 AAATAAATAATGAAAATAA
29387634 AAATAAATAATGAAAATAA
1 AAATAAATAATGAAAATAA
29387653 AAATAAA-AATGA
1 AAATAAATAATGA
29387665 GGAATAAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
13 4 0.06
14 3 0.05
15 9 0.14
16 4 0.06
17 16 0.25
18 10 0.16
19 17 0.27
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAAATAATGAAAATAA
Found at i:29387679 original size:38 final size:38
Alignment explanation
Indices: 29387571--29387681 Score: 134
Period size: 32 Copynumber: 3.2 Consensus size: 38
29387561 TAGAAATAAA
29387571 TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
1 TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
* *
29387609 T--A-AAT-AAAATGAAAAT-AATAT-A--AATAAA--
1 TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
29387637 TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
1 TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
29387675 TAAATAA
1 TAAATAA
29387682 AAATGTCGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
28 1 0.02
30 7 0.12
31 3 0.05
32 11 0.19
33 8 0.14
34 11 0.19
35 3 0.05
36 7 0.12
38 8 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (38 bp):
TAAATAATGAAAATAAAAATAAAAATGAGGAATAAATT
Found at i:29389123 original size:16 final size:16
Alignment explanation
Indices: 29389102--29389136 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29389092 TGCATAATAT
29389102 AATAAACATATT-TAAA
1 AATAAACAT-TTATAAA
29389118 AATAAACATTTATAAA
1 AATAAACATTTATAAA
29389134 AAT
1 AAT
29389137 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAACATTTATAAA
Found at i:29392502 original size:162 final size:163
Alignment explanation
Indices: 29392235--29392554 Score: 570
Period size: 162 Copynumber: 2.0 Consensus size: 163
29392225 TGTTTTTGAG
*
29392235 TCCGTATTAGCTTAATATAGCTAGCCTTATTACTAACTTGTGAATCTGTCAAATGTTATAAATTT
1 TCCGTATTAGCTTAATATAGCTAGCCCTATTACTAACTTGTGAATCTGTCAAATGTTATAAATTT
* * *
29392300 TGCCAGTGATGAATGAGCTAGTTCTTCAAAATTTATGGAAGTATTATGAGCTTGGTTGCTGGACT
66 TACCACTGATGAATAAGCTAGTTCTTCAAAATTTATGGAAGTATTATGAGCTTGGTTGCTGGACT
29392365 TGATGA-TTTTGTAAAGTGATTTTTGATTCACA
131 TGATGATTTTTGTAAAGTGATTTTTGATTCACA
* *
29392397 TCCGTATTAGCTTAATCTAGCTAGCCCTATTACTAATTTGTGAATCTGTCAAATGTTATAAATTT
1 TCCGTATTAGCTTAATATAGCTAGCCCTATTACTAACTTGTGAATCTGTCAAATGTTATAAATTT
*
29392462 TACCACTGATGAATAAGCTAGTTCTTCAAAATTTATGGAAGTATTATGAGCTTGGTTGCTGGATT
66 TACCACTGATGAATAAGCTAGTTCTTCAAAATTTATGGAAGTATTATGAGCTTGGTTGCTGGACT
29392527 TGATGATTTTTGTAAAGTGATTTTTGAT
131 TGATGATTTTTGTAAAGTGATTTTTGAT
29392555 GATTTTAGGG
Statistics
Matches: 150, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
162 129 0.86
163 21 0.14
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (163 bp):
TCCGTATTAGCTTAATATAGCTAGCCCTATTACTAACTTGTGAATCTGTCAAATGTTATAAATTT
TACCACTGATGAATAAGCTAGTTCTTCAAAATTTATGGAAGTATTATGAGCTTGGTTGCTGGACT
TGATGATTTTTGTAAAGTGATTTTTGATTCACA
Found at i:29399221 original size:27 final size:27
Alignment explanation
Indices: 29399191--29399274 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
29399181 GGAGTAATTT
29399191 TGTATTCTGGCTTGTAAGAGCGTATTC
1 TGTATTCTGGCTTGTAAGAGCGTATTC
* * *
29399218 TGTATTTTGGCTCGT-AGAGCGTAATTT
1 TGTATTCTGGCTTGTAAGAGCGT-ATTC
* * *
29399245 TGTACTCTAGCTTGCAAGAGCGATATTC
1 TGTATTCTGGCTTGTAAGAGCG-TATTC
29399273 TG
1 TG
29399275 GACTTTGGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
26 7 0.16
27 26 0.58
28 11 0.24
29 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (27 bp):
TGTATTCTGGCTTGTAAGAGCGTATTC
Found at i:29401144 original size:18 final size:18
Alignment explanation
Indices: 29401123--29401160 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
29401113 ATCATCATTA
*
29401123 TTATTCTTATTCTT-ATTT
1 TTATTATTATT-TTAATTT
29401141 TTATTATTATTTTAATTT
1 TTATTATTATTTTAATTT
29401159 TT
1 TT
29401161 TAGGGTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTATTATTTTAATTT
Found at i:29401152 original size:12 final size:12
Alignment explanation
Indices: 29401119--29401153 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
29401109 TATCATCATC
*
29401119 ATTATTATTCTT
1 ATTATTATTTTT
*
29401131 ATTCTTATTTTT
1 ATTATTATTTTT
29401143 ATTATTATTTT
1 ATTATTATTTT
29401154 AATTTTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTATTATTTTT
Found at i:29401712 original size:19 final size:19
Alignment explanation
Indices: 29401690--29401734 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29401680 TTATATTAGG
29401690 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
29401709 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
29401728 ATTTAAT
1 ATTTAAT
29401735 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:29402659 original size:10 final size:9
Alignment explanation
Indices: 29402641--29402666 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
29402631 GGCAACCCAA
29402641 TTATTTTTT
1 TTATTTTTT
29402650 TTATTTTTT
1 TTATTTTTT
29402659 TTATTTTT
1 TTATTTTT
29402667 CTATCTTATT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTATTTTTT
Found at i:29402700 original size:22 final size:21
Alignment explanation
Indices: 29402640--29402700 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
29402630 AGGCAACCCA
* *
29402640 ATTATTTTTTTTATTTTTTTT
1 ATTATTCTATTTATTTTTTTT
* *
29402661 ATTTTTCTATCTTATTTTATTT
1 ATTATTCTAT-TTATTTTTTTT
29402683 ATTCATTC-ATTTATTTTT
1 ATT-ATTCTATTTATTTTT
29402701 GTCCAGGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 14 0.44
22 15 0.47
23 3 0.09
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTATTCTATTTATTTTTTTT
Found at i:29403933 original size:106 final size:105
Alignment explanation
Indices: 29403802--29404007 Score: 290
Period size: 106 Copynumber: 2.0 Consensus size: 105
29403792 ATTTGAAATG
* * * *
29403802 TGTTAGACTGAGTAACTGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAAT
1 TGTTAGACTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAAT
*
29403867 GCATTC-TACAA-AAAAAAAAGAGAAGAAAATAATTGAGAGCA
66 GCATTCTTA-AAGAAAAAAAA-AGAA-AAAAAAATTGAGAGCA
* * *
29403908 TGTTAGGCTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCATTTCGCGTCAAAAGGTCCAAT
1 TGTTAGACTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAAT
*
29403973 GTATTCTTAAAGAAAAAAAAAGAAAAAAAAATTGA
66 GCATTCTTAAAGAAAAAAAAAGAAAAAAAAATTGA
29404008 CAAAATAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
105 10 0.11
106 69 0.78
107 10 0.11
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (105 bp):
TGTTAGACTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAAT
GCATTCTTAAAGAAAAAAAAAGAAAAAAAAATTGAGAGCA
Found at i:29404585 original size:19 final size:19
Alignment explanation
Indices: 29404563--29404607 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29404553 TTATATTAGG
29404563 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
29404582 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
29404601 ATTTAAT
1 ATTTAAT
29404608 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:29405433 original size:22 final size:21
Alignment explanation
Indices: 29405405--29405451 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
29405395 CTTCAACTTC
*
29405405 TTTTAATTATACTTTCTTTTAT
1 TTTTAATTAT-CTTTCTTCTAT
* *
29405427 TTTTAATTCTGTTTCTTCTAT
1 TTTTAATTATCTTTCTTCTAT
29405448 TTTT
1 TTTT
29405452 CCTCAGATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATTATCTTTCTTCTAT
Found at i:29406459 original size:151 final size:148
Alignment explanation
Indices: 29406128--29406552 Score: 609
Period size: 151 Copynumber: 2.8 Consensus size: 148
29406118 AAAGTTTATA
* *
29406128 TTTATAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAATTTTTTAACAAATTT
1 TTTA-AAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATT
* * * * *
29406193 TTTA-TTTTTTTAACTATTTCGAAATAAAATTTTGGATTTTTAAGCAAAATAGTAATTTTCTTTA
65 TTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTA
* *
29406257 AAAAAGAGAAAGTTTATAT
130 AAAAAGAGAAAATTTAGAT
* * *
29406276 TTTTAAAAATAAAAATCTGTTTTTCAGTTATTTTAAATAAAAAGTTTAAATTTTTAACAAAATTT
1 TTTAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATTT
* *
29406341 TGATTTTTTTCTAACTGTTTTGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTA
66 TGATTTTTTT-TAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTT-
29406406 AAAAAAGAGAAAATTTAGAT
129 AAAAAAGAGAAAATTTAGAT
*
29406426 TTTAAGAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAGTT
1 TTTAA-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATT
* * * * *
29406491 TTGATTTTTTTTTTAATTATTCCGAAATGAAAGTTTAGATTTTTAAGTAAAGTAATGATTTT
65 TTGA--TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTT
29406553 TGTTTAATCA
Statistics
Matches: 246, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
147 59 0.24
148 9 0.04
149 47 0.19
150 22 0.09
151 60 0.24
152 42 0.17
153 7 0.03
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (148 bp):
TTTAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATTT
TGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAA
AAAAGAGAAAATTTAGAT
Found at i:29406592 original size:151 final size:149
Alignment explanation
Indices: 29405764--29406552 Score: 951
Period size: 138 Copynumber: 5.4 Consensus size: 149
29405754 AATATTTTGG
* * * * *
29405764 TTTTTTTAAACAATTTCGAAATAAAA-TCTTTGATTTTTTTAAGCAAAATAGTAATTTTCTTTAA
1 TTTTTTTTAACTATTTCGAAATAAAAGT-TTAGA--TTTTTAAGTAAAATAGTGATTTTCTTTAA
* * *
29405828 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTTTAGTTATTTTAAA-AAAAAGTTT
63 AAAAGAGAAAATTTTGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTT
29405892 AAATTTTTAACAAAGTTTTGA-T
128 AAATTTTTAACAAA-TTTTGATT
* * *
29405914 TTTTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAGGTAAAATAGTGATTTTCTTT-AAAA
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAA
* *
29405978 A-A-AAAGTTTAT-ATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTCAA
66 AGAGAAAATTT-TGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
*
29406040 ATTTTTAATAAAGTTTTGA--
130 ATTTTTAACAAA-TTTTGATT
* * * * *
29406059 -TTTTTTTAACTATTACGAAATAAAAATTTGGATTTTTAGGTAAAATAGTTATTTTCTTT----A
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAA
*
29406119 A-AG----TTTAT-ATTTATAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
66 AGAGAAAATTT-TGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
*
29406178 TTTTTTAACAAATTTT--TT
130 ATTTTTAACAAATTTTGATT
* * * * *
29406196 ATTTTTTTAACTATTTCGAAATAAAATTTTGGATTTTTAAGCAAAATAGTAATTTTCTTTAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAA
* * *
29406261 AGAGAAAGTTTAT-ATTTTTAAAAATAAAAATCTGTTTTTCAGTTATTTTAAATAAAAAGTTTAA
66 AGAGAAAATTT-TGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
29406325 ATTTTTAACAAAATTTTGA-T
130 ATTTTTAAC-AAATTTTGATT
* * *
29406345 TTTTTTCTAACTGTTTTGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTT-AAAA
* *
29406410 AAGAGAAAATTTAGATTTTAAGAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTA
65 AAGAGAAAATTTTGATTTTTA-AAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTA
29406475 AATTTTTAACAAAGTTTTGATT
129 AATTTTTAACAAA-TTTTGATT
* * * * *
29406497 TTTTTTTTAATTATTCCGAAATGAAAGTTTAGATTTTTAAGTAAAGTAATGATTTT
1 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTT
29406553 TGTTTAATCA
Statistics
Matches: 569, Mismatches: 46, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
137 4 0.01
138 118 0.21
141 3 0.01
142 2 0.00
143 2 0.00
144 57 0.10
145 45 0.08
146 29 0.05
147 66 0.12
148 31 0.05
149 53 0.09
150 52 0.09
151 58 0.10
152 49 0.09
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (149 bp):
TTTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAA
AGAGAAAATTTTGATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAA
TTTTTAACAAATTTTGATT
Found at i:29412580 original size:25 final size:25
Alignment explanation
Indices: 29412543--29412683 Score: 174
Period size: 25 Copynumber: 5.6 Consensus size: 25
29412533 TACTGGTTAA
29412543 ACTCTGTCTGGCTCGTAAGAGCGAT
1 ACTCTGTCTGGCTCGTAAGAGCGAT
* * * *
29412568 ATTCTATTTGGCTCGTAAGAGCAAT
1 ACTCTGTCTGGCTCGTAAGAGCGAT
29412593 ACTCTGTCTGGCTCGTAAGAGCGAT
1 ACTCTGTCTGGCTCGTAAGAGCGAT
* *
29412618 ACTCTGTCTGGCTTGTAAAAGCGAT
1 ACTCTGTCTGGCTCGTAAGAGCGAT
* * * *
29412643 ATTTTGTCTGGGCTCGTAAGAGCTAA
1 ACTCTGTCT-GGCTCGTAAGAGCGAT
29412669 ACTCTGTCTGAGCTC
1 ACTCTGTCTG-GCTC
29412684 ATATGAGCTA
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
25 73 0.76
26 23 0.24
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (25 bp):
ACTCTGTCTGGCTCGTAAGAGCGAT
Found at i:29417522 original size:19 final size:19
Alignment explanation
Indices: 29417498--29417535 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29417488 AATAACTAAG
29417498 ATTGCAACTTCATTAATGC
1 ATTGCAACTTCATTAATGC
29417517 ATTGCAACTTCATTAATGC
1 ATTGCAACTTCATTAATGC
29417536 CAACATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
ATTGCAACTTCATTAATGC
Found at i:29418263 original size:17 final size:17
Alignment explanation
Indices: 29418195--29418274 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
29418185 TACTAAATTC
29418195 TAATGACAAATGGAAATG
1 TAATGAC-AATGGAAATG
* *
29418213 CAATGACAATGCAAATG
1 TAATGACAATGGAAATG
* * **
29418230 CAATGAAAATTAAAATG
1 TAATGACAATGGAAATG
*
29418247 TAATGACAATGGGAATG
1 TAATGACAATGGAAATG
*
29418264 TGATGACAATG
1 TAATGACAATG
29418275 CTTACTAACA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
17 45 0.88
18 6 0.12
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (17 bp):
TAATGACAATGGAAATG
Found at i:29433135 original size:27 final size:26
Alignment explanation
Indices: 29433075--29433142 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
29433065 TTATTCTGTT
*
29433075 TTTGGGTTCAAATGAGCTAAACTCTA
1 TTTGGGCTCAAATGAGCTAAACTCTA
*
29433101 TTTGGGGCTCAAATGAGCTAAACTCTG
1 TTT-GGGCTCAAATGAGCTAAACTCTA
29433128 TTATGGGCTCGAAAT
1 TT-TGGGCTC-AAAT
29433143 AGTTATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 3 0.08
27 29 0.78
28 5 0.14
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (26 bp):
TTTGGGCTCAAATGAGCTAAACTCTA
Found at i:29446415 original size:35 final size:35
Alignment explanation
Indices: 29446368--29446440 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
29446358 AGAAATCATA
29446368 TTTTTTTATAGGTAAAATGAGATGAAATTAATAGT
1 TTTTTTTATAGGTAAAATGAGATGAAATTAATAGT
*
29446403 TTTTTTTTTAGGTAAAATGAGATGAAATTAATAGT
1 TTTTTTTATAGGTAAAATGAGATGAAATTAATAGT
29446438 TTT
1 TTT
29446441 AGTACTGCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (35 bp):
TTTTTTTATAGGTAAAATGAGATGAAATTAATAGT
Found at i:29451406 original size:23 final size:23
Alignment explanation
Indices: 29451358--29451407 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
29451348 AAGCAAATTG
* *
29451358 ATTTTTATGTTAAAAATTTTATTC
1 ATTTTTATATTAAAAA-TTTAGTC
29451382 ATTTTTATTATTAAAAA-TTAGTC
1 ATTTTTA-TATTAAAAATTTAGTC
29451405 ATT
1 ATT
29451408 ATAAGTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
25 8 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTTTATATTAAAAATTTAGTC
Found at i:29459858 original size:217 final size:217
Alignment explanation
Indices: 29459483--29459914 Score: 783
Period size: 217 Copynumber: 2.0 Consensus size: 217
29459473 AGGTCACGGG
29459483 GTCAATTTGTAAGGTTCGCAATCCAAGTTAATCTATCCAAGCCACTTGTTTCAAAGATTCGGGTA
1 GTCAATTTGTAAGGTTCGCAATCCAAGTTAATCTATCCAAGCCACTTGTTTCAAAGATTCGGGTA
* *
29459548 TCGAACAAACTCCACAGAATTGAATATGAGTCATTACCATCAATCTGTTTCTAATGTGGTAGGTT
66 TCGAACAAACTCCACAGAATTGAATATGAGTCATTACCATCAATCTGTTTCTAATATGGTAGGCT
29459613 TAGCCATATGAAACATGGGTGTCCCTTAAAGATTATCGATGGGAATAAGGATAATAAGGAGAGTA
131 TAGCCATATGAAACATGGGTGTCCCTTAAAGATTATCGATGGGAATAAGGATAATAAGGAGAGTA
29459678 GTCATTCTAGTGGCAATGCAGA
196 GTCATTCTAGTGGCAATGCAGA
* * *
29459700 GTCAATTTGTAAGGTTCGTAATCTAAGTTAATCTGTCCAAGCCACTTGTTTCAAAGATTCGGGTA
1 GTCAATTTGTAAGGTTCGCAATCCAAGTTAATCTATCCAAGCCACTTGTTTCAAAGATTCGGGTA
*
29459765 TCGAACAAACTCTACAGAATTGAATATGAGTCATTACCATCAATCTGTTTCTAATATGGTAGGCT
66 TCGAACAAACTCCACAGAATTGAATATGAGTCATTACCATCAATCTGTTTCTAATATGGTAGGCT
* * *
29459830 TAGCCATATGAAAGATGGGTGTCCCTTAAAGATTATCGATGGGAATAAGGATAATAATGAGGGTA
131 TAGCCATATGAAACATGGGTGTCCCTTAAAGATTATCGATGGGAATAAGGATAATAAGGAGAGTA
29459895 GTCATTCTAGTGGCAATGCA
196 GTCATTCTAGTGGCAATGCA
29459915 CCTACCTCAC
Statistics
Matches: 206, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 206 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (217 bp):
GTCAATTTGTAAGGTTCGCAATCCAAGTTAATCTATCCAAGCCACTTGTTTCAAAGATTCGGGTA
TCGAACAAACTCCACAGAATTGAATATGAGTCATTACCATCAATCTGTTTCTAATATGGTAGGCT
TAGCCATATGAAACATGGGTGTCCCTTAAAGATTATCGATGGGAATAAGGATAATAAGGAGAGTA
GTCATTCTAGTGGCAATGCAGA
Found at i:29461781 original size:31 final size:30
Alignment explanation
Indices: 29461743--29461806 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
29461733 TACATAATAA
*
29461743 AAAATAATATATACATAAAATACAATAAAAT
1 AAAATAATATATACATAAAATAAAAT-AAAT
* *
29461774 AAAATAATATATATATAGAATAAAATAAAT
1 AAAATAATATATACATAAAATAAAATAAAT
29461804 AAA
1 AAA
29461807 GAAAAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAATAATATATACATAAAATAAAATAAAT
Found at i:29461904 original size:29 final size:29
Alignment explanation
Indices: 29461827--29461909 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 29
29461817 CATTAAAACT
* *
29461827 AGGTTAAATTTGAATTTTTTGCAACTTAGG
1 AGGTTAAATTGGAA-TTTTTGAAACTTAGG
* * *
29461857 -GGTCAAATCGAAATATTTTGAAAGCTT-GG
1 AGGTTAAATTGGAAT-TTTTGAAA-CTTAGG
29461886 AGGTTAAATTGGAATTTTTAGAAA
1 AGGTTAAATTGGAATTTTT-GAAA
29461910 ATTCATGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.02
29 22 0.54
30 18 0.44
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (29 bp):
AGGTTAAATTGGAATTTTTGAAACTTAGG
Found at i:29463723 original size:39 final size:38
Alignment explanation
Indices: 29463677--29464102 Score: 218
Period size: 39 Copynumber: 10.8 Consensus size: 38
29463667 TCTGACGATT
* *
29463677 TTCAATCTGCTCTCTAGTTAGGGTAAAAGATTATATTGC
1 TTCAATCTGC-CTCTGGTTAGGGTAAAAGATTAGATTGC
* * *
29463716 TTCAATCTGCCTTATGGTT-GGCGTAAAAAATCAGA-TGATC
1 TTCAATCTGCC-TCTGGTTAGG-GTAAAAGATTAGATTG--C
* *
29463756 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGT
1 TTCAATCTG-CCTCTGGTTAGGGTAAAAGATTAGATTGC
* * *
29463795 TTCAATCTGCCCCATGGTTGGGGTAAGAGATCT-GA-TGATC
1 TTCAATCTGCCTC-TGGTTAGGGTAAAAGAT-TAGATTG--C
* * *
29463835 TTTAACCTACCCTCTGGTTAGGGTAAAAGATT-GAATTGC
1 TTCAATCT-GCCTCTGGTTAGGGTAAAAGATTAG-ATTGC
* * * * ** **
29463874 TTCAATCTACCCTATGGTTGGGGTAAGAGATCGGACGGTC
1 TTCAATCT-GCCTCTGGTTAGGGTAAAAGATTAGATTG-C
* * * * * *
29463914 TTTAATCTATCGTTTGGTTAGGGTAAAAGATTGGATTTC
1 TTCAATCT-GCCTCTGGTTAGGGTAAAAGATTAGATTGC
** * * * * *
29463953 TTCAATCTATCTCATGG-TCGGGATAAGATATTGGATGGTC
1 TTCAATCTGCCTC-TGGTTAGGG-TAAAAGATTAGATTG-C
* *
29463993 TTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGC
1 TTCAATCTG-CCTCTGGTTAGGGTAAAAGATTAGATTGC
* ** * *
29464032 TTCAATCTGCCCTATGGTCGGGGTAAGAGATCT-GATGGTC
1 TTCAATCTG-CCTCTGGTTAGGGTAAAAGAT-TAGATTG-C
*
29464072 TTCAATCTGCCCTCTGGTTAGGGTAAGAGAT
1 TTCAATCTG-CCTCTGGTTAGGGTAAAAGAT
29464103 CGGATGGTCT
Statistics
Matches: 300, Mismatches: 64, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
38 15 0.05
39 135 0.45
40 132 0.44
41 18 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (38 bp):
TTCAATCTGCCTCTGGTTAGGGTAAAAGATTAGATTGC
Found at i:29463764 original size:40 final size:39
Alignment explanation
Indices: 29463660--29464182 Score: 206
Period size: 40 Copynumber: 13.2 Consensus size: 39
29463650 ACTTTGGGGA
* * * * * *
29463660 TAAAAGATCTGACGATTTTCAATCTGCTCTCTAGTTAGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
* * *
29463700 TAAAAGATTATAT--TGCTTCAATCTGCCTTATGGTTGGCG
1 TAAAAGATCAGATGAT-CTTCAATCTGCCCTATGGTTGG-G
* *
29463739 TAAAAAATCAGATGATCTTCAATCTGCCCTCTGGTTAGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
** *
29463779 TAAAAGATTGGATTG-T-TTCAATCTGCCCCATGGTTGGGG
1 TAAAAGATCAGA-TGATCTTCAATCTGCCCTATGGTT-GGG
* * * * * *
29463818 TAAGAGATCTGATGATCTTTAACCTACCCTCTGGTTAGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
* *
29463858 TAAAAGAT-TGA--ATTGCTTCAATCTACCCTATGGTTGGGG
1 TAAAAGATCAGATGA-T-CTTCAATCTGCCCTATGGTT-GGG
* * * * * ** * *
29463897 TAAGAGATCGGACGGTCTTTAATCTATCGTTTGGTTAGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
** * ** *
29463937 TAAAAGATTGGAT-TTCTTCAATCT-ATCTCATGGTCGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCT-ATGGTTGGG
* * ** * * *
29463975 ATAAGATATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGG
1 -TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
** *
29464016 TAAAAGATTGGAT--TGCTTCAATCTGCCCTATGGTCGGGG
1 TAAAAGATCAGATGAT-CTTCAATCTGCCCTATGGT-TGGG
* * * *
29464055 TAAGAGATCTGATGGTCTTCAATCTGCCCTCTGGTTAGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
* * * * * * *
29464095 TAAGAGATCGGATGGTCTTCAATTTGCCCCAAGGTCGGGG
1 TAAAAGATCAGATGATCTTCAATCTGCCCTATGGT-TGGG
* * * * * *
29464135 TAAGAA-ATCGGATGGTTTTCAATCTGCCCTCTAGTTAAGG
1 TAA-AAGATCAGATGATCTTCAATCTGCCCTATGGTT-GGG
29464175 TAAAAGAT
1 TAAAAGAT
29464183 TGGATTAGGG
Statistics
Matches: 371, Mismatches: 85, Indels: 54
0.73 0.17 0.11
Matches are distributed among these distances:
37 1 0.00
38 11 0.03
39 142 0.38
40 204 0.55
41 13 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
TAAAAGATCAGATGATCTTCAATCTGCCCTATGGTTGGG
Found at i:29463799 original size:79 final size:79
Alignment explanation
Indices: 29463677--29464188 Score: 583
Period size: 79 Copynumber: 6.5 Consensus size: 79
29463667 TCTGACGATT
* * ** ** * *
29463677 TTCAATCTGCTCTCTAGTTAGGGTAAAAGATTATATTGCTTCAATCTGCCTTATGGTTGGCGTAA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
* * * *
29463742 AAAATCAGATGATC
66 GAGATCGGATGGTC
* *
29463756 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGTTTCAATCTGCCCCATGGTTGGGGTAA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
* *
29463821 GAGATCTGATGATC
66 GAGATCGGATGGTC
* * * * * * *
29463835 TTTAACCTACCCTCTGGTTAGGGTAAAAGATTGAATTGCTTCAATCTACCCTATGGTTGGGGTAA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
*
29463900 GAGATCGGACGGTC
66 GAGATCGGATGGTC
* ** * * * ** * *
29463914 TTTAATCTATCGTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTATCTCATGGTCGGGATAA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
* *
29463979 GATATTGGATGGTC
66 GAGATCGGATGGTC
* *
29463993 TTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCTATGGTCGGGGTAA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
*
29464058 GAGATCTGATGGTC
66 GAGATCGGATGGTC
* * * * *
29464072 TTCAATCTGCCCTCTGGTTAGGGTAAGAGATCGGATGGTCTTCAATTTGCCCCAAGGTCGGGGTA
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCGGGGTA
* *
29464137 AGAAATCGGATGGTT
65 AGAGATCGGATGGTC
* *
29464152 TTCAATCTGCCCTCTAGTTAAGGTAAAAGATTGGATT
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATT
29464189 AGGGTAAAAG
Statistics
Matches: 367, Mismatches: 65, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
79 300 0.82
80 67 0.18
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (79 bp):
TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
GAGATCGGATGGTC
Found at i:29464257 original size:40 final size:40
Alignment explanation
Indices: 29464186--29464285 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
29464176 AAAAGATTGG
* ** *
29464186 ATTAGGGTAAAAGATTTGATGGTCTTTAATCTGCCCTTTA
1 ATTAGGGTAAAAGATTGGATAATCTTCAATCTGCCCTTTA
* *
29464226 ATTAAGGTAAAAGATTGGATAATCTTCAATCTGCCCTTTG
1 ATTAGGGTAAAAGATTGGATAATCTTCAATCTGCCCTTTA
29464266 ATTAGGGTAAAAGATTGGAT
1 ATTAGGGTAAAAGATTGGAT
29464286 GGTTGTAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (40 bp):
ATTAGGGTAAAAGATTGGATAATCTTCAATCTGCCCTTTA
Found at i:29464631 original size:49 final size:49
Alignment explanation
Indices: 29464578--29464761 Score: 183
Period size: 49 Copynumber: 3.8 Consensus size: 49
29464568 AAATTCATCA
* * *
29464578 TTGCGACCTCAATCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGTCG
1 TTGCGACTTCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGCCG
* * * * *
29464627 TTGCGGCTTCAACCTTTCCC-TCTATAACTCTAGGGTACAAGATTCACCG
1 TTGCGACTTCAACCTTTCCCTTC-ACATCTCTAGGGTACAAGGTTCGCCG
* * * * * * *
29464676 TTGTGGCTTCAATCTTTCCCATCACGTCCCTAAGGTACAAGGTTCGCCG
1 TTGCGACTTCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGCCG
* *
29464725 TTGC-AGCTTCAACCTTTCTCTTCATATCTCTAGGGTA
1 TTGCGA-CTTCAACCTTTCCCTTCACATCTCTAGGGTA
29464762 TCAGATTTGC
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 2 0.02
49 102 0.96
50 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (49 bp):
TTGCGACTTCAACCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGCCG
Found at i:29464688 original size:98 final size:98
Alignment explanation
Indices: 29464586--29464787 Score: 264
Period size: 98 Copynumber: 2.1 Consensus size: 98
29464576 CATTGCGACC
* * * * *
29464586 TCAATCTTTCCCTTCACATCTCTAGGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCC-TCT
1 TCAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTTTCCCTTC-
*
29464650 ATAACTCTAGGGTA-CAAGATTCACCGTTGTGGCT
65 ATAACTCTAGGGTATC-AGATTCACCGTTGCGGCT
* *
29464684 TCAATCTTTCCCATCACGTCCCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTTTCTCTTCA
1 TCAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTTTCCCTTCA
* ** *
29464749 TATCTCTAGGGTATCAGATTTGCTGTTGCGGCT
66 TAACTCTAGGGTATCAGATTCACCGTTGCGGCT
29464782 TCAATC
1 TCAATC
29464788 CCTTCAAACC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 87 0.97
99 3 0.03
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (98 bp):
TCAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCGTTGCAGCTTCAACCTTTCCCTTCA
TAACTCTAGGGTATCAGATTCACCGTTGCGGCT
Found at i:29465700 original size:21 final size:22
Alignment explanation
Indices: 29465675--29465726 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
29465665 GACCTCTCAT
29465675 TTTCCTTTTTC-TTTTCT-TCTA
1 TTTCCTTTTTCTTTTTCTCT-TA
*
29465696 TTTCC-TTTTCTTTTTCTCTTT
1 TTTCCTTTTTCTTTTTCTCTTA
29465717 TTTCCTTTTT
1 TTTCCTTTTT
29465727 TCCTTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCCTTTTTCTTTTTCTCTTA
Found at i:29473110 original size:53 final size:53
Alignment explanation
Indices: 29473030--29473131 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
29473020 CGAGGAGAGA
*
29473030 AAGAAATTTTAGAGACGTTTCGAAAGGTAGAAATCAATATTCCCTTACTCGAT
1 AAGAAATTTTAGAGACGTTTCGAAAGGTAAAAATCAATATTCCCTTACTCGAT
*
29473083 AAGAAATTTTAGAGATGTTTCGAAAGGTAAAAATCAATATTCCCTTACT
1 AAGAAATTTTAGAGACGTTTCGAAAGGTAAAAATCAATATTCCCTTACT
29473132 TGATGCAATC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (53 bp):
AAGAAATTTTAGAGACGTTTCGAAAGGTAAAAATCAATATTCCCTTACTCGAT
Found at i:29475718 original size:11 final size:11
Alignment explanation
Indices: 29475702--29475729 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
29475692 CATTCCTCAT
29475702 AATCACAAACA
1 AATCACAAACA
29475713 AATCACAAACA
1 AATCACAAACA
29475724 AATCAC
1 AATCAC
29475730 CACCTTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.29, G:0.00, T:0.11
Consensus pattern (11 bp):
AATCACAAACA
Found at i:29476703 original size:31 final size:28
Alignment explanation
Indices: 29476639--29476708 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
29476629 AAATATACAT
* *
29476639 AATAAAAAAACAATATATACATAAAATAC
1 AATAAAATAA-AATATATACATAAAATAA
*
29476668 AATAAAATAAAATAATATACATATAGGATAA
1 AATAAAATAAAAT-ATATACATA-A-AATAA
29476699 AAT-AAATAAA
1 AATAAAATAAA
29476709 GAAAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 18 0.51
30 8 0.23
31 6 0.17
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (28 bp):
AATAAAATAAAATATATACATAAAATAA
Found at i:29476769 original size:30 final size:30
Alignment explanation
Indices: 29476730--29476827 Score: 133
Period size: 30 Copynumber: 3.3 Consensus size: 30
29476720 CATTAAAATC
* *
29476730 GGGTTAAATTTGAATTTTTGGAAACTTTAA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* * *
29476760 GGGTCAAATTTGAATATTTGGAAAGTTTGA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* *
29476790 CGGTCAAATTTGAATTTTTAGAAAATTTAA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
29476820 GGGTCAAA
1 GGGTCAAA
29476828 AAACAATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAA
Found at i:29490328 original size:15 final size:15
Alignment explanation
Indices: 29490308--29490344 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
29490298 CTTCTGCAAG
*
29490308 AAGAAAGGGCATATT
1 AAGAAAGGGCACATT
29490323 AAGAAAGGGCACATT
1 AAGAAAGGGCACATT
29490338 AAGAAAG
1 AAGAAAG
29490345 AGTGCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.08, G:0.27, T:0.14
Consensus pattern (15 bp):
AAGAAAGGGCACATT
Found at i:29494462 original size:14 final size:14
Alignment explanation
Indices: 29494439--29494476 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
29494429 AGAATGATAG
29494439 TGTGTTAGTTGTAA
1 TGTGTTAGTTGTAA
*
29494453 TGTGTCAGTTGTAA
1 TGTGTTAGTTGTAA
29494467 TGTGTTAGTT
1 TGTGTTAGTT
29494477 ATAGTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.50
Consensus pattern (14 bp):
TGTGTTAGTTGTAA
Found at i:29504476 original size:16 final size:16
Alignment explanation
Indices: 29504451--29504482 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29504441 TCAACATTTT
*
29504451 TTTATGGAATTGCCAA
1 TTTATAGAATTGCCAA
29504467 TTTATAGAATTGCCAA
1 TTTATAGAATTGCCAA
29504483 GGTACTGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (16 bp):
TTTATAGAATTGCCAA
Found at i:29506872 original size:23 final size:25
Alignment explanation
Indices: 29506846--29506891 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29506836 CCAATTAAGG
29506846 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
29506869 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
29506892 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:29509460 original size:25 final size:23
Alignment explanation
Indices: 29509432--29509477 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
29509422 GTTGGATCCA
29509432 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
29509457 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
29509478 CCTTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:29516309 original size:21 final size:21
Alignment explanation
Indices: 29516283--29516328 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
29516273 TTGCAAAAAA
* * *
29516283 AAAACATTAAAAAGTTGAGAT
1 AAAACATAAAAAAATTAAGAT
29516304 AAAACATAAAAAAATTAAGAT
1 AAAACATAAAAAAATTAAGAT
29516325 AAAA
1 AAAA
29516329 AAAAATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAACATAAAAAAATTAAGAT
Found at i:29536799 original size:19 final size:18
Alignment explanation
Indices: 29536777--29536821 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
29536767 ACATATGCTC
**
29536777 TTTTTTCTTTTTCTCTTT
1 TTTTTTCTTTTTCAATTT
29536795 TTTTTTCTTTTTCAATTT
1 TTTTTTCTTTTTCAATTT
29536813 TGTTTTTCT
1 T-TTTTTCT
29536822 GAGCATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTTTTCAATTT
Found at i:29539813 original size:29 final size:29
Alignment explanation
Indices: 29539758--29539816 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
29539748 TTGTTTTAAA
* *
29539758 AATATTTATAAAAATAAACAGCTAATTTT
1 AATATTTATAAAAATAAACACCAAATTTT
*
29539787 AATATTTATAAAATTAATA-ACCAAATTTT
1 AATATTTATAAAAATAA-ACACCAAATTTT
29539816 A
1 A
29539817 CAAAGAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (29 bp):
AATATTTATAAAAATAAACACCAAATTTT
Found at i:29558404 original size:114 final size:112
Alignment explanation
Indices: 29558190--29558504 Score: 303
Period size: 114 Copynumber: 2.8 Consensus size: 112
29558180 CCCAGATTAA
* * * * * * * *
29558190 AAAATATTTTTTTGAATTTTTTCAACTGATGGTCGACACCTAAAAAAATACGAATAAAAAAATA-
1 AAAA-ATTTTTTTCAA-TTTTTCAACTAATGGCCAACA-CTCATAAAACACGAATAAAAAATTAT
* * * * *
29558254 TTTTTGGGTGTTTGACAACCAAT-GACTTACATCACCTTTCTCAACATCCG
63 TTTTTTGGTGTTTGACAACCAATGGACTGACACCACCTTTCCCAACA-CCC
**
29558304 AGAATTTTTTTTTTCAATTTTTCAACTAATGGCCAACACTCATAAAACACGAATAAAAAATTATT
1 A-AA-AATTTTTTTCAATTTTTCAACTAATGGCCAACACTCATAAAACACGAATAAAAAATTATT
* *
29558369 TTTTTGGTGTTTGGCAACCAATGGTC-GACACCACCTTTCCCAACACCC
64 TTTTTGGTGTTTGACAACCAATGGACTGACACCACCTTTCCCAACACCC
*** * * * * * *
29558417 AAAAAAAATTCTCACTATTTCAAGTAATGGCCAGCACCCATAAAACACGAATAAAAAATTTATTT
1 AAAAATTTTTTTCAATTTTTCAACTAATGGCCAACACTCATAAAACACGAATAAAAAA-TTATTT
*
29558482 TTTTGATGTTTGACAACCAATGG
65 TTTTGGTGTTTGACAACCAATGG
29558505 CCAACATCAC
Statistics
Matches: 166, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
111 44 0.27
112 29 0.17
113 24 0.14
114 56 0.34
115 13 0.08
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (112 bp):
AAAAATTTTTTTCAATTTTTCAACTAATGGCCAACACTCATAAAACACGAATAAAAAATTATTTT
TTTGGTGTTTGACAACCAATGGACTGACACCACCTTTCCCAACACCC
Found at i:29561841 original size:21 final size:21
Alignment explanation
Indices: 29561810--29561881 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
29561800 AACTATTATT
29561810 TAAAT-TT-TTTTTAAAATTA
1 TAAATATTATTTTTAAAATTA
* *
29561829 GAAATATTA-TTTT-ATATTA
1 TAAATATTATTTTTAAAATTA
* *
29561848 TTTAA-ATCATTTTTAAAATTA
1 -TAAATATTATTTTTAAAATTA
29561869 TAAATATTATTTT
1 TAAATATTATTTT
29561882 ATATTATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
19 12 0.31
20 15 0.38
21 12 0.31
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (21 bp):
TAAATATTATTTTTAAAATTA
Found at i:29561847 original size:10 final size:10
Alignment explanation
Indices: 29561831--29561892 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
29561821 TAAAATTAGA
29561831 AATATTATTT
1 AATATTATTT
*
29561841 TATATTATTT
1 AATATTATTT
29561851 AAATCATT-TTT
1 -AAT-ATTATTT
* *
29561862 AAAATTA-TA
1 AATATTATTT
29561871 AATATTATTT
1 AATATTATTT
*
29561881 TATATTATTT
1 AATATTATTT
29561891 AA
1 AA
29561893 ATTGTTTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 10 0.25
10 22 0.55
11 5 0.12
12 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
AATATTATTT
Found at i:29561847 original size:19 final size:19
Alignment explanation
Indices: 29561825--29561888 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
29561815 TTTTTTTAAA
*
29561825 ATTAGAAATATTATTTTAT
1 ATTATAAATATTATTTTAT
* *
29561844 ATTATTTAAATCATT-TTTAAA
1 ATTA--TAAAT-ATTATTTTAT
29561865 ATTATAAATATTATTTTAT
1 ATTATAAATATTATTTTAT
29561884 ATTAT
1 ATTAT
29561889 TTAAATTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 3 0.08
19 18 0.50
21 12 0.33
22 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTATAAATATTATTTTAT
Found at i:29561861 original size:40 final size:40
Alignment explanation
Indices: 29561803--29561917 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
29561793 ATTTGAAAAC
* *
29561803 TATTATTTAAATTTTTTTTAAAATTAGAAATATTATTTTA
1 TATTATTTAAATTATTTTTAAAATTAAAAATATTATTTTA
* *
29561843 TATTATTTAAATCATTTTTAAAATTATAAATATTATTTTA
1 TATTATTTAAATTATTTTTAAAATTAAAAATATTATTTTA
* *
29561883 TATTATTTAAATTGTTTATAAAATTAAAAATATTA
1 TATTATTTAAATTATTTTTAAAATTAAAAATATTA
29561918 ATAAATTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TATTATTTAAATTATTTTTAAAATTAAAAATATTATTTTA
Found at i:29561893 original size:21 final size:21
Alignment explanation
Indices: 29561830--29561894 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
29561820 TTAAAATTAG
29561830 AAATATTATTTTATATTATTT
1 AAATATTATTTTATATTATTT
* *
29561851 AAATCATT-TTTAAAATTA--T
1 AAAT-ATTATTTTATATTATTT
29561870 AAATATTATTTTATATTATTT
1 AAATATTATTTTATATTATTT
29561891 AAAT
1 AAAT
29561895 TGTTTATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.08
19 13 0.36
21 17 0.47
22 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATTATTTTATATTATTT
Found at i:29562200 original size:6 final size:6
Alignment explanation
Indices: 29562189--29562701 Score: 122
Period size: 6 Copynumber: 92.2 Consensus size: 6
29562179 GGCCGAGACC
* * *
29562189 CAATTT CAATTTT CAAATT -AAGTT C-ATTT CATTTT C-ATTT -AATTT
1 CAATTT CAA-TTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* *
29562234 -AAGTT CAAATTT AAATTT C-ATTT C-ATTT -AATTTT CAA-TT CTAATTT
1 CAATTT C-AATTT CAATTT CAATTT CAATTT CAA-TTT CAATTT C-AATTT
* * * *
29562280 TAATTT C-ATTT -AAATT -AATTT CAA-TT -AATTT -AAATT -AAGTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * * * *
29562321 CAAATT -ATATTT TAA-TT CAAATTT AAATTT -TATTT C-ATTT CAAATT
1 CAATTT CA-ATTT CAATTT C-AATTT CAATTT CAATTT CAATTT CAATTT
* * * * * *
29562367 -AAATT -AAATT -AAATT AAATTT CAATTT -AATTC CAATTC CAATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * *
29562411 CAATTT C-ATTT -AAATT CAATTT C-ATTT -AAGTT CAAATT -ATATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CA-ATTT
* * * *
29562455 TAA-TT CAAATTT AAATTT C-ATTT C-ATTT CAATTT -AATTC CAATTC
1 CAATTT C-AATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * * * *
29562500 CAATTC CAATTC CAATTT C-ATTT -AAATT -AAATT AAATTT CAATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * * * *
29562545 C-CTTT -AAATT -AAGTT CAAATT -ATATTT AAATTT CAATTT C-ATTT
1 CAATTT CAATTT CAATTT CAATTT CA-ATTT CAATTT CAATTT CAATTT
* * * *
29562589 -AAATT -AAGTTT -AAATT -ATATTT TAA-TT CAAATTT AAATTT C-ATTT
1 CAATTT CAA-TTT CAATTT CA-ATTT CAATTT C-AATTT CAATTT CAATTT
* * * *
29562634 C-ATTT CAATTT -AATTC CAATTC CAATTC CAATTC CAATTT C-ATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * *
29562679 -AAATT -AAATT AAATTT CAATTT C
1 CAATTT CAATTT CAATTT CAATTT C
29562702 CTTTAAATTA
Statistics
Matches: 401, Mismatches: 57, Indels: 98
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.00
5 179 0.45
6 196 0.49
7 24 0.06
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (6 bp):
CAATTT
Found at i:29562255 original size:34 final size:35
Alignment explanation
Indices: 29562214--29562421 Score: 124
Period size: 34 Copynumber: 6.3 Consensus size: 35
29562204 AATTAAGTTC
29562214 ATTTCATTTTCATTTAA-TTT-AAGTTCAAATTTAA
1 ATTTCATTTTCATTTAATTTTCAA-TTCAAATTTAA
* *
29562248 ATTTCA-TTTCATTTAATTTTCAATTCTAATTTTA
1 ATTTCATTTTCATTTAATTTTCAATTCAAATTTAA
* *
29562282 ATTTCA-TTTAAATTAA-TTTCAATT--AATTTAA
1 ATTTCATTTTCATTTAATTTTCAATTCAAATTTAA
** *
29562313 A-TT-AAGTTCAAATTATATTTT-AATTCAAATTTAA
1 ATTTCATTTTC-ATTTA-ATTTTCAATTCAAATTTAA
* * *
29562347 ATTTTA-TTTCATTTCAA-ATTAAATT-AAA-TTAA
1 ATTTCATTTTCATTT-AATTTTCAATTCAAATTTAA
* * * * *
29562379 A-TTAAATTTCAATTTAA-TTCCAATTCCAATTTCA
1 ATTTCATTTTC-ATTTAATTTTCAATTCAAATTTAA
29562413 ATTTCATTT
1 ATTTCATTT
29562422 AAATTCAATT
Statistics
Matches: 139, Mismatches: 18, Indels: 33
0.73 0.09 0.17
Matches are distributed among these distances:
29 1 0.01
30 4 0.03
31 15 0.11
32 21 0.15
33 32 0.23
34 52 0.37
35 13 0.09
36 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (35 bp):
ATTTCATTTTCATTTAATTTTCAATTCAAATTTAA
Found at i:29562297 original size:5 final size:5
Alignment explanation
Indices: 29562289--29562386 Score: 52
Period size: 5 Copynumber: 18.4 Consensus size: 5
29562279 TTAATTTCAT
* * * * * *
29562289 TTAAA TTAAT TTCAA TTAAT TTAAA TTAAG TTCAAA TTATAT TTTAA TTCAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT-AAA TTA-AA TTAAA TT-AAA
* * * *
29562342 TTTAAA TTTTAT TTCAT TTCAAA TTAAA TTAAA TTAAA TTAAA TT
1 -TTAAA -TTAAA TTAAA TT-AAA TTAAA TTAAA TTAAA TTAAA TT
29562387 TCAATTTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
5 50 0.70
6 19 0.27
7 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (5 bp):
TTAAA
Found at i:29562299 original size:15 final size:15
Alignment explanation
Indices: 29562221--29562312 Score: 82
Period size: 15 Copynumber: 6.0 Consensus size: 15
29562211 TTCATTTCAT
29562221 TTTCATTTAATTTAA
1 TTTCATTTAATTTAA
*
29562236 GTTCA---AATTTAAA
1 TTTCATTTAATTT-AA
*
29562249 TTTCATTTCATTTAA
1 TTTCATTTAATTTAA
29562264 TTTTCAATTCTAATTTTAA
1 -TTTC-ATT-TAA-TTTAA
*
29562283 TTTCATTTAAATTAA
1 TTTCATTTAATTTAA
*
29562298 TTTCAATTAATTTAA
1 TTTCATTTAATTTAA
29562313 ATTAAGTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
12 5 0.08
13 6 0.10
15 23 0.37
16 11 0.18
17 6 0.10
18 6 0.10
19 5 0.08
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (15 bp):
TTTCATTTAATTTAA
Found at i:29562348 original size:23 final size:23
Alignment explanation
Indices: 29562269--29562429 Score: 90
Period size: 23 Copynumber: 7.3 Consensus size: 23
29562259 TTTAATTTTC
* *
29562269 AATTCTAATTTTAATT-TCATTTA
1 AATTCAAATTTAAATTAT-ATTTA
*
29562292 AATT--AATTTCAATTA-ATTTA
1 AATTCAAATTTAAATTATATTTA
* * *
29562312 AATT-AAGTTCAAATTATATTTT
1 AATTCAAATTTAAATTATATTTA
* *
29562334 AATTCAAATTTAAATTTTATTTC
1 AATTCAAATTTAAATTATATTTA
* *
29562357 ATTTCAAA-TTAAATTA-AATTA
1 AATTCAAATTTAAATTATATTTA
* **
29562378 AATT-AAATTTCAATT-TAATTCC
1 AATTCAAATTTAAATTAT-ATTTA
* *
29562400 AATTCCAATTTCAATT-TCATTTA
1 AATTCAAATTTAAATTAT-ATTTA
29562423 AATTCAA
1 AATTCAA
29562430 TTTCATTTAA
Statistics
Matches: 107, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
20 12 0.11
21 29 0.27
22 21 0.20
23 45 0.42
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (23 bp):
AATTCAAATTTAAATTATATTTA
Found at i:29562465 original size:39 final size:38
Alignment explanation
Indices: 29562334--29562826 Score: 187
Period size: 39 Copynumber: 12.6 Consensus size: 38
29562324 ATTATATTTT
* * * * *
29562334 AATTCAAATTTAAATTTTATTTCATTTCAAATTAAATTA
1 AATTCAAA-TTCAATTTCATTTAAGTTCAAATTAATTTA
* *
29562373 AATT-AAATTAAATTTCAATTTAA-TTCCAATTCCAATTTCA
1 AATTCAAATTCAATTTC-ATTTAAGTTCAAATT--AATTT-A
* *
29562413 ATTTCATTTAAATTCAATTTCATTTAAGTTCAAATTATATTTT
1 A----ATTCAAATTCAATTTCATTTAAGTTCAAATTA-ATTTA
* * * * **
29562456 AATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
1 AATTCAAA-TTCAATTTCATTTAAGTTCAAATTAATTTA
* * * * *
29562495 AATTCCAATTCCAATTCCAATTTCA-TTTAAATTAAATTA
1 AATTCAAATT-CAATTTC-ATTTAAGTTCAAATTAATTTA
* * * *
29562534 AATTTCAATTTC-CTTTAAATTAAGTTCAAATTATATTTA
1 AA-TTCAAATTCAATTTCATTTAAGTTCAAATTA-ATTTA
* * * * *
29562573 AATTTCAATTTC-ATTTAAATTAAGTTTAAATTATATTTT
1 AA-TTCAAATTCAATTTCATTTAAGTTCAAATTA-ATTTA
* * * * **
29562612 AATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
1 AATTCAAA-TTCAATTTCATTTAAGTTCAAATTAATTTA
* * * * *
29562651 AATTCCAATTCCAATTCCAATTTCA-TTTAAATTAAATTA
1 AATTCAAATT-CAATTTC-ATTTAAGTTCAAATTAATTTA
* * * *
29562690 AATTTCAATTTC-CTTTAAATTAAGTTCAAATTATATTTA
1 AA-TTCAAATTCAATTTCATTTAAGTTCAAATTA-ATTTA
* * * * *
29562729 AATTTCAATTTC-ATTTAAATTAAGTTTAAATTATATTTT
1 AA-TTCAAATTCAATTTCATTTAAGTTCAAATTA-ATTTA
* * * * *
29562768 AATTCAAATTTAATTTTCATTTTATTTCAATTTAATTCA
1 AATTCAAATTCAA-TTTCATTTAAGTTCAAATTAATTTA
*
29562807 ATTTC--ATTCTAATTTCATTT
1 AATTCAAATTC-AATTTCATTT
29562827 TCAAATTAAA
Statistics
Matches: 351, Mismatches: 76, Indels: 56
0.73 0.16 0.12
Matches are distributed among these distances:
37 34 0.10
38 46 0.13
39 162 0.46
40 76 0.22
43 2 0.01
44 13 0.04
45 18 0.05
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (38 bp):
AATTCAAATTCAATTTCATTTAAGTTCAAATTAATTTA
Found at i:29562505 original size:45 final size:45
Alignment explanation
Indices: 29562384--29562522 Score: 115
Period size: 45 Copynumber: 3.0 Consensus size: 45
29562374 ATTAAATTAA
29562384 ATTTCAATTTAATTCCAATTCCAATTTCAATTTCATTTAAA-TTCAATTTC
1 ATTTCAATTTAATTCCAATTCCAA-TTCAA----ATTTAAATTTC-ATTTC
* **
29562434 ATTT-AAGTTCAAATT--ATATTTTAATTCAAATTTAAATTTCATTTC
1 ATTTCAA-TT-TAATTCCA-ATTCCAATTCAAATTTAAATTTCATTTC
* **
29562479 ATTTCAATTTAATTCCAATTCCAATTCCAATTCCAATTTCATTT
1 ATTTCAATTTAATTCCAATTCCAATTCAAATTTAAATTTCATTT
29562523 AAATTAAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
44 4 0.05
45 40 0.55
46 6 0.08
49 8 0.11
50 11 0.15
51 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.01, T:0.48
Consensus pattern (45 bp):
ATTTCAATTTAATTCCAATTCCAATTCAAATTTAAATTTCATTTC
Found at i:29562571 original size:27 final size:26
Alignment explanation
Indices: 29562290--29562477 Score: 67
Period size: 27 Copynumber: 6.8 Consensus size: 26
29562280 TAATTTCATT
*
29562290 TAAATT-AATTTCAA-TTAATTTAAAT
1 TAAATTAAATTT-AATTTCATTTAAAT
* * * *
29562315 TAAGTTCAAATTATATTTTAATTCAAATT
1 TAAATT-AAATT-TAATTTCATTTAAA-T
** * *
29562344 TAAATTTTATTTCATTTCAAATTAAAT
1 TAAATTAAATTTAATTTC-ATTTAAAT
*
29562371 TAAATTAAATTAAATTTCAATTT-AAT
1 TAAATTAAATTTAATTTC-ATTTAAAT
* *
29562397 TCCAATTCCAATTTCAATTTCATTTAAAT
1 T-AAATT-AAATTT-AATTTCATTTAAAT
* ** * * *
29562426 TCAATTTCATTTAAGTTCAAATTATATT
1 TAAATTAAATTTAATTTC-ATTTA-AAT
*
29562454 TTAATTCAAATTTAAATTTCATTT
1 TAAATT-AAATTT-AATTTCATTT
29562478 CATTTCAATT
Statistics
Matches: 120, Mismatches: 29, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
25 5 0.04
26 9 0.08
27 40 0.33
28 38 0.32
29 23 0.19
30 5 0.04
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (26 bp):
TAAATTAAATTTAATTTCATTTAAAT
Found at i:29562699 original size:45 final size:45
Alignment explanation
Indices: 29562456--29562543 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
29562446 ATTATATTTT
* * * * * *
29562456 AATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCCAATTCC
1 AATTCAAATTTCAATTTCATTTAAATTAAATTAAATTTCAATTCC
* *
29562501 AATTCCAATTCCAATTTCATTTAAATTAAATTAAATTTCAATT
1 AATTCAAATTTCAATTTCATTTAAATTAAATTAAATTTCAATT
29562544 TCCTTTAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (45 bp):
AATTCAAATTTCAATTTCATTTAAATTAAATTAAATTTCAATTCC
Found at i:29562727 original size:27 final size:26
Alignment explanation
Indices: 29562669--29562721 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
29562659 TTCCAATTCC
29562669 AATTTCATTTAAATTAAATTAAATTT
1 AATTTCATTTAAATTAAATTAAATTT
* *
29562695 CAATTTCCTTTAAATTAAGTTCAAATT
1 -AATTTCATTTAAATTAAATT-AAATT
29562722 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTCATTTAAATTAAATTAAATTT
Found at i:29562782 original size:22 final size:22
Alignment explanation
Indices: 29562729--29562804 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
29562719 ATTATATTTA
*
29562729 AATTTCAATT-TCATTTAAATT-
1 AATTT-AATTATCATTTTAATTC
29562750 AAGTTTAAATTAT-ATTTTAATTC
1 AA-TTT-AATTATCATTTTAATTC
* *
29562773 AAATTTAATTTTCATTTTATTTC
1 -AATTTAATTATCATTTTAATTC
29562796 AATTTAATT
1 AATTTAATT
29562805 CAATTTCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.04
22 29 0.63
23 13 0.28
24 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (22 bp):
AATTTAATTATCATTTTAATTC
Found at i:29562810 original size:16 final size:17
Alignment explanation
Indices: 29562214--29562812 Score: 147
Period size: 16 Copynumber: 36.4 Consensus size: 17
29562204 AATTAAGTTC
*
29562214 ATTTCATTTTC-ATTTA
1 ATTTCAATTTCAATTTA
*
29562230 ATTT-AAGTTCAAATTTAA
1 ATTTCAATTTC-AATTT-A
29562248 ATTTC-ATTTC-ATTTA
1 ATTTCAATTTCAATTTA
29562263 ATTTTCAA-TTCTAATTTTA
1 A-TTTCAATTTC-AA-TTTA
*
29562282 ATTTC-ATTT-AAATTA
1 ATTTCAATTTCAATTTA
29562297 ATTTCAA-TT-AATTTA
1 ATTTCAATTTCAATTTA
* * *
29562312 AATT-AAGTTCAAATTA
1 ATTTCAATTTCAATTTA
*
29562328 TATTTTAA-TTCAAATTTAA
1 -ATTTCAATTTC-AATTT-A
*
29562347 ATTT-TATTTC-ATTTCA
1 ATTTCAATTTCAATTT-A
* * *
29562363 AATT-AAATT-AAATTA
1 ATTTCAATTTCAATTTA
* *
29562378 AATTAAATTTCAATTTA
1 ATTTCAATTTCAATTTA
* *
29562395 ATTCCAA-TTC----CA
1 ATTTCAATTTCAATTTA
29562407 ATTTCAATTTC-ATTTA
1 ATTTCAATTTCAATTTA
*
29562423 AATTCAATTTC-ATTTA
1 ATTTCAATTTCAATTTA
* *
29562439 AGTTCAAATTAT-ATTTTA
1 ATTTC-AATT-TCAATTTA
* *
29562457 A-TTCAAATTTAAATTTC
1 ATTTC-AATTTCAATTTA
29562474 ATTTC-ATTTCAATTTA
1 ATTTCAATTTCAATTTA
* * *
29562490 ATTCCAATTCCAATTCCA
1 ATTTCAATTTCAATT-TA
*
29562508 ATTCCAATTTC-ATTTA
1 ATTTCAATTTCAATTTA
* * *
29562524 AATT-AAATTAAATTTCA
1 ATTTCAATTTCAATTT-A
* *
29562541 ATTTC-CTTT-AAATTA
1 ATTTCAATTTCAATTTA
* *
29562556 AGTTCAAATT-ATATTTAA
1 ATTTCAATTTCA-ATTT-A
29562574 ATTTCAATTTC-ATTTA
1 ATTTCAATTTCAATTTA
* *
29562590 AATT-AAGTTT-AAATTA
1 ATTTCAA-TTTCAATTTA
*
29562606 TATTTTAA-TTCAAATTTAA
1 -ATTTCAATTTC-AATTT-A
29562625 ATTTC-ATTTC-ATTTCA
1 ATTTCAATTTCAATTT-A
* *
29562641 ATTT-AATTCCAATTCCA
1 ATTTCAATTTCAATT-TA
* * *
29562658 ATTCCAATTCCAATTTC
1 ATTTCAATTTCAATTTA
* * *
29562675 ATTT-AAATTAAATTAA
1 ATTTCAATTTCAATTTA
*
29562691 ATTTCAATTTC-CTTTA
1 ATTTCAATTTCAATTTA
* * *
29562707 AATT-AAGTTCAAATTA
1 ATTTCAATTTCAATTTA
* *
29562723 TATTTAAATTTCAATTTC
1 -ATTTCAATTTCAATTTA
*
29562741 ATTT-AAATT-AAGTTTA
1 ATTTCAATTTCAA-TTTA
* * *
29562757 AATT-ATATTTTAATTCAA
1 ATTTCA-ATTTCAATT-TA
*
29562775 ATTT-AATTTTC-ATTTT
1 ATTTCAA-TTTCAATTTA
*
29562791 ATTTCAATTT-AATTCA
1 ATTTCAATTTCAATTTA
29562807 ATTTCA
1 ATTTCA
29562813 TTCTAATTTC
Statistics
Matches: 432, Mismatches: 89, Indels: 124
0.67 0.14 0.19
Matches are distributed among these distances:
12 7 0.02
13 3 0.01
14 2 0.00
15 49 0.11
16 165 0.38
17 99 0.23
18 100 0.23
19 7 0.02
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (17 bp):
ATTTCAATTTCAATTTA
Found at i:29562829 original size:33 final size:33
Alignment explanation
Indices: 29562765--29562835 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
29562755 TAAATTATAT
* * *
29562765 TTTAATTCAAATTTAATTTTCATTTTATTTCAA
1 TTTAATTCAAATTTAATTCTAATTTCATTTCAA
*
29562798 TTTAATTC-AATTTCATTCTAATTTCATTTTCAA
1 TTTAATTCAAATTTAATTCTAATTTCA-TTTCAA
*
29562831 ATTAA
1 TTTAA
29562836 AATTTAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTAATTCAAATTTAATTCTAATTTCATTTCAA
Found at i:29562839 original size:156 final size:156
Alignment explanation
Indices: 29562370--29562809 Score: 718
Period size: 156 Copynumber: 2.9 Consensus size: 156
29562360 TCAAATTAAA
** ** *
29562370 TTAAATTAAATTAAATTTCAATTTAATTCCAATTCCAATTTC-AATT-TCATTTAAA-TTCAATT
1 TTAAATTAAATTAAATTTCAATTTCCTTTAAATT--AAGTTCAAATTAT-ATTTAAATTTCAATT
*
29562432 TCA--T---TTAAGTTCAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAAT
63 TCATTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAAT
29562492 TCCAATTCCAATTCCAATTCCAATTTCAT
128 TCCAATTCCAATTCCAATTCCAATTTCAT
29562521 TTAAATTAAATTAAATTTCAATTTCCTTTAAATTAAGTTCAAATTATATTTAAATTTCAATTTCA
1 TTAAATTAAATTAAATTTCAATTTCCTTTAAATTAAGTTCAAATTATATTTAAATTTCAATTTCA
29562586 TTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
66 TTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
29562651 AATTCCAATTCCAATTCCAATTTCAT
131 AATTCCAATTCCAATTCCAATTTCAT
29562677 TTAAATTAAATTAAATTTCAATTTCCTTTAAATTAAGTTCAAATTATATTTAAATTTCAATTTCA
1 TTAAATTAAATTAAATTTCAATTTCCTTTAAATTAAGTTCAAATTATATTTAAATTTCAATTTCA
* *
29562742 TTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAATTTTCATTTTATTTCAATTTAATT-C
66 TTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
29562806 AATT
131 AATT
29562810 TCATTCTAAT
Statistics
Matches: 273, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
149 5 0.02
150 11 0.04
151 41 0.15
153 1 0.00
155 5 0.02
156 210 0.77
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (156 bp):
TTAAATTAAATTAAATTTCAATTTCCTTTAAATTAAGTTCAAATTATATTTAAATTTCAATTTCA
TTTAAATTAAGTTTAAATTATATTTTAATTCAAATTTAAATTTCATTTCATTTCAATTTAATTCC
AATTCCAATTCCAATTCCAATTTCAT
Found at i:29569760 original size:4 final size:4
Alignment explanation
Indices: 29569751--29569776 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
29569741 CTTACATCAA
29569751 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
29569777 TGAGGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:29570009 original size:31 final size:32
Alignment explanation
Indices: 29569961--29570052 Score: 116
Period size: 31 Copynumber: 2.8 Consensus size: 32
29569951 GTTTCTAATT
**
29569961 TTTTTTATCCAATTTGGTACTCAAACTTGACAC
1 TTTTTTATTAAATTTGGTACT-AAACTTGACAC
29569994 TTTTTT-TT-AATTTGGTAGCTAAACTTGACAC
1 TTTTTTATTAAATTTGGTA-CTAAACTTGACAC
*
29570025 TTTTTTATTAAAATTGGTACTTAAACTT
1 TTTTTTATTAAATTTGGTAC-TAAACTT
29570053 TTTAGAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
31 26 0.49
32 6 0.11
33 21 0.40
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (32 bp):
TTTTTTATTAAATTTGGTACTAAACTTGACAC
Found at i:29570354 original size:59 final size:59
Alignment explanation
Indices: 29570258--29570421 Score: 193
Period size: 59 Copynumber: 2.8 Consensus size: 59
29570248 ATAAATTTAT
* ** * * *
29570258 GTACCAAATTGAATCTAAAAAAAACTTAGGTGCCAAATTAGGAAAAAATGCCAAGTTCAA
1 GTACCAAATTGGATC-AAAAAAAGTTTAGATACCAAATTAGGAAAAAATGCCAAGTCCAA
* * * * * * *
29570318 GTACCAAATTGGGTCCAAAAAAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTCCAG
1 GTACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAGGAAAAAATGCCAAGTCCAA
*
29570377 GTACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAAGAAAA
1 GTACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAGGAAAA
29570422 GTTATCAAAT
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 75 0.85
60 13 0.15
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (59 bp):
GTACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAGGAAAAAATGCCAAGTCCAA
Found at i:29570441 original size:59 final size:59
Alignment explanation
Indices: 29570319--29570444 Score: 155
Period size: 59 Copynumber: 2.1 Consensus size: 59
29570309 CAAGTTCAAG
* * * * * * * *
29570319 TACCAAATTGGGTCCAAAAAAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTCCAGG
1 TACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAATCCAGA
*
29570378 TACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAAG-AAAAGTTATCAAATTCAGA
1 TACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAAGAAAAAG-TATCAAATCCAGA
29570437 TACCAAAT
1 TACCAAAT
29570445 GTTATATTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 5 0.09
59 52 0.91
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (59 bp):
TACCAAATTGGATCAAAAAAAGTTTAGATACCAAATTAAGAAAAAGTATCAAATCCAGA
Found at i:29589598 original size:3 final size:3
Alignment explanation
Indices: 29589583--29589643 Score: 104
Period size: 3 Copynumber: 20.0 Consensus size: 3
29589573 TTATTAAGTG
*
29589583 ATA ATA ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
29589631 ATA ATA ATTA ATA
1 ATA ATA A-TA ATA
29589644 TGATATATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:29591042 original size:23 final size:22
Alignment explanation
Indices: 29590996--29591042 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
29590986 TTGATTGGGC
* *
29590996 TTGAGTTTGATTGGTATTAAAT
1 TTGAGTTTAAATGGTATTAAAT
*
29591018 TTGAGTTTAAATGTGTATTATAT
1 TTGAGTTTAAATG-GTATTAAAT
29591041 TT
1 TT
29591043 AATATGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGAGTTTAAATGGTATTAAAT
Found at i:29591064 original size:20 final size:19
Alignment explanation
Indices: 29591013--29591065 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
29591003 TGATTGGTAT
29591013 TAAATTTGAGTTTAAATGTG
1 TAAATTTGA-TTTAAATGTG
29591033 T--ATTAT-ATTTAATATGTG
1 TAAATT-TGATTTAA-ATGTG
29591051 TAAATTTGATTTAAA
1 TAAATTTGATTTAAA
29591066 CAATTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 3 0.11
20 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (19 bp):
TAAATTTGATTTAAATGTG
Found at i:29594520 original size:46 final size:46
Alignment explanation
Indices: 29594452--29594544 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
29594442 TCGGGTTAAG
* * * * * * *
29594452 AGATTGGATGGTGTCTTCAATCTGCCCTTCTTGACTTAGGGGTAAA
1 AGATTAGATGATGGCTTCAATCTACCCCTCTTAACTTAGAGGTAAA
*
29594498 AGATTAGATGATGGCTTTAATCTACCCCTCTTAACTTAGAGGTAAA
1 AGATTAGATGATGGCTTCAATCTACCCCTCTTAACTTAGAGGTAAA
29594544 A
1 A
29594545 AACTAAATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (46 bp):
AGATTAGATGATGGCTTCAATCTACCCCTCTTAACTTAGAGGTAAA
Found at i:29594746 original size:76 final size:75
Alignment explanation
Indices: 29594618--29594786 Score: 214
Period size: 76 Copynumber: 2.2 Consensus size: 75
29594608 CTTATTTAGC
* * * *
29594618 CCACTTCTCTATATCTCATCAGAAAGATAGGGTTTAAAGTTTTACTCGCATTGAGCT-TCGCTTT
1 CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTCT-GCTTC
**
29594682 ATTTGTTTTGGT
65 A-TTAATTTGGT
** * * *
29594694 TTACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCTGCTTCA
1 CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTCTGCTTCA
29594759 TTAATTTGGT
66 TTAATTTGGT
29594769 CCACTTCTCTGTATCTCA
1 CCACTTCTCTGTATCTCA
29594787 CTAAGAGGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
75 24 0.30
76 54 0.68
77 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (75 bp):
CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTCTGCTTCA
TTAATTTGGT
Found at i:29594903 original size:123 final size:123
Alignment explanation
Indices: 29594696--29596914 Score: 2774
Period size: 123 Copynumber: 18.0 Consensus size: 123
29594686 GTTTTGGTTT
*
29594696 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC-TCTGCTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-GCTTCGT
* *
29594760 TAATTTGGTCCACTTCTCTGTATCTCA-CTAAGAGGATGACCGCTTCATTGTTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATC-AAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
29594819 ACTTCTTTGTATCTTATCAAGAAGATGGAGTTTGAAGTTTCACTCACATTGAG-TTCCGCTTCGT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTT-CGCTTCGT
*
29594883 TGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * **
29594942 ACTTCACTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCATTTCGTT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * *
29595007 AATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGACCGCTTCATTGTTTCGACCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
29595065 ACTTCTCTATATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCGCATTGAGCTTCGCTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* ** * * *
29595130 GTTTTAATCTACTTCTCTGTATCTCATC-AGAAAGATGACCACTTCATT-TTTTGACCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAG-AAGATGACCGCTTCATTGTTTTGATCC
* * * *
29595187 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTTAAAGTTTCACTCATATTGAGCTTTGCTTTGT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGG-TTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * *
29595252 TGATTTGGTCCAATTCTTTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * * * *
29595311 ATTTTTTTGTATCTCATCAGGAAGATGGAGGCTTGAAGTTTCACTCATATTGAGCTTCGTTTCGT
1 ACTTCTCTGTATCTCATCAGGAAGATGG-GGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595376 TGATTTGGTCCACTTC-CTTGTATCACATCAGGAAGATGACCGTTTCATTATTTTGATTC
65 TGATTTGGTCCACTTCTC-TGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * ** * *
29595435 AC-TCTTCTGTATCTTATCAAGAAGATGGGGTTTGAAGTTTTACTCGTATTGAGCTTCACTTCAT
1 ACTTC-TCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595499 T-ATTTTGGTCTACTTCTCTATATCTCAT-AAGGAAGATGATCACTTCATTATTTTGA-CC
65 TGA-TTTGGTCCACTTCTCTGTATCTCATCAA-GAAGATGACCGCTTCATTGTTTTGATCC
* * * * * *
29595557 AACTTATCTGTATCTCATCAAGAAGATAGGGTTTTAAAGTTTCACTCATATTGAGTTTCGCTTCG
1 -ACTTCTCTGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCG
* * * *
29595622 TTAATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGACCGCTTCATTGTTTTAATCC
64 TTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * * * * * * *
29595682 ACTTCTCTGTACCTCAGCAAGAAGATGGGGGTTTGAAGTTTTACTCAAATTAAACTTTGCTTTGT
1 ACTTCTCTGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
*
29595747 TGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * * * *
29595806 ACTTATCTGTATCTCATCAGGAATATGGGATTTGAAGTTTCACTCTCATTGAGCTTCGTTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * * **
29595871 GTTTTGGTCTACTTCTTTGTATCTCATTAAGAAGATGACAACTTCATTGTTTTGA-CTC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATC-C
* * * * *
29595929 ATTTCTCTATATCTCATTAGGAAGATAAGGGTTTGAAGTTTTACTCACATTGAGCTTCGCTTCGT
1 ACTTCTCTGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595994 TGATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATAATCGCTTCTTTGTTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
29596053 ACTTCTCTGTATCTCATCAGGAAGATGGGGTCTGAAGTTTCACTCACGTTGAACTTTGCTTCGTT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * *
29596118 GATTTGGTCCACTTCTCCGTATCTCATTAGGAAGATGA-CGACTTCATTGTTTTGACCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCG-CTTCATTGTTTTGATCC
* * * * * *
29596176 ACTTCTCTATATCTCATCAAGAAGACAGGGTTTTAAATTTTCACTCACATTGAGCTTCGCTTCGT
1 ACTTCTCTGTATCTCATCAGGAAGA-TGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * *
29596241 TGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGATTCATTGTTTTGATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
29596300 ACTTCTCAGTATCTCATCAGGTAGATAAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* *
29596365 TGATTTGGTCCACTTCTCTGTATCTCAT-AAGGAAGATGATCGCTTCATTGTTTTTATCC
65 TGATTTGGTCCACTTCTCTGTATCTCATCAA-GAAGATGACCGCTTCATTGTTTTGATCC
* ** *
29596424 ACTTCTCTGTATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCGTATTGAGCTTCGCTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * * * * ** * *
29596489 GTTTTGGTCTACTTCTTTGTATCTAATCAGGAAGATGATCATTTTATTTTTTTGATCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* *
29596547 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * *
29596612 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTGATCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
29596670 ACTTCTATGTATCTCAGCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCGTT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* *
29596735 AATTTGGTCCACTTCTCTGTATCTCATCAAGAGGATGACCGCTTCATTGTTTTGATCC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * *
29596793 ACTTCCCTGTATCTCATCAGGAAGATGGAGTTTGAAG-TTCACTCACATTGAGCTTCGTTTCGTT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * *
29596857 GATTTGATCCATTTCTCTGTATCTCATCAAGAAGATGACCACTTCTTTTGTTTTGATC
66 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTC-ATTGTTTTGATC
29596915 TGACCCACTA
Statistics
Matches: 1812, Mismatches: 254, Indels: 60
0.85 0.12 0.03
Matches are distributed among these distances:
122 108 0.06
123 1030 0.57
124 664 0.37
125 10 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (123 bp):
ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
Found at i:29594945 original size:48 final size:48
Alignment explanation
Indices: 29594874--29594968 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
29594864 ACATTGAGTT
* * * *
29594874 CCGCTTCGTTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
1 CCGCTTCATTGATTTGATCCACTTCACTGTATCTCATCAAGAAGATGA
*
29594922 CCGCTTCATTGTTTTGATCCACTTCACTGTATCTCATCAAGAAGATG
1 CCGCTTCATTGATTTGATCCACTTCACTGTATCTCATCAAGAAGATG
29594969 GGGTTTGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (48 bp):
CCGCTTCATTGATTTGATCCACTTCACTGTATCTCATCAAGAAGATGA
Found at i:29595525 original size:247 final size:246
Alignment explanation
Indices: 29594696--29596914 Score: 2748
Period size: 247 Copynumber: 9.0 Consensus size: 246
29594686 GTTTTGGTTT
* *
29594696 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC-TCTGCTTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-GCTTCGT
*
29594760 TAATTTGGTCCACTTCTCTGTATCTCA-CTAAGAGGATGACCGCTTCATTGTTTTGATCCACTTC
65 T-ATTTGGTCCACTTCTCTGTATCTCATC-AAGAAGATGACCGCTTCATTGTTTTGATCCACTTC
* * *
29594824 TTTGTATCTTATCAAGAAGATGGA-GTTTGAAGTTTCACTCACATTGAG-TTCCGCTTCGTTGAT
128 TCTGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTT-CGCTTCGTTGAT
29594887 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
192 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* **
29594942 ACTTCACTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCATTTCGTT
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * *
29595007 AATTTGGTCCACTTCTCTGTATCTCATCAAAAAGATGACCGCTTCATTGTTTCGACCCACTTCTC
66 -ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
* * * * *
29595072 TATATCTCATCAGGAAGAT-GAGGTTTGAAGTTTCACTCGCATTGAGCTTCGCTTCATTGTTTTA
130 TGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTG
* * * * *
29595136 ATCTACTTCTCTGTATCTCATCAGAAAGATGACCACTTCATT-TTTTGACCC
195 GTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * * * *
29595187 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTTAAAGTTTCACTCATATTGAGCTTTGCTTTGT
1 ACTTCTCTGTATCTCATCAAGAAGATGGGG-TTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595252 TGATTTGGTCCAATTCTTTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTGATCCATTTTT
65 T-ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* * * *
29595317 TTGTATCTCATCAGGAAGATGGAGGCTTGAAGTTTCACTCATATTGAGCTTCGTTTCGTTGATTT
129 CTGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTT
* * * *
29595382 GGTCCACTTC-CTTGTATCACATCAGGAAGATGACCGTTTCATTATTTTGATTC
194 GGTCCACTTCTC-TGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * ** * *
29595435 AC-TCTTCTGTATCTTATCAAGAAGATGGGGTTTGAAGTTTTACTCGTATTGAGCTTCACTTCAT
1 ACTTC-TCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595499 TATTTTGGTCTACTTCTCTATATCTCAT-AAGGAAGATGATCACTTCATTATTTTGA-CCAACTT
65 TA-TTTGGTCCACTTCTCTGTATCTCATCAA-GAAGATGACCGCTTCATTGTTTTGATCC-ACTT
* * * * * * *
29595562 ATCTGTATCTCATCAAGAAGATAGG-GTTTTAAAGTTTCACTCATATTGAGTTTCGCTTCGTTAA
127 CTCTGTATCTCATCAGGAAGAT-GGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGA
* * * *
29595626 TTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGACCGCTTCATTGTTTTAATCC
191 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * * * * * * *
29595682 ACTTCTCTGTACCTCAGCAAGAAGATGGGGGTTTGAAGTTTTACTCAAATTAAACTTTGCTTTGT
1 ACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* *
29595747 TGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTAT
65 T-ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* * * * * *
29595812 CTGTATCTCATCAGGAATATGG-GATTTGAAGTTTCACTCTCATTGAGCTTCGTTTCATTGTTTT
129 CTGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTT
* * * * **
29595876 GGTCTACTTCTTTGTATCTCATTAAGAAGATGACAACTTCATTGTTTTGA-CTC
194 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATC-C
* * * * * *
29595929 ATTTCTCTATATCTCATTAGGAAGATAAGGGTTTGAAGTTTTACTCACATTGAGCTTCGCTTCGT
1 ACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * * *
29595994 TGATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATAATCGCTTCTTTGTTTTGATCCACTTCT
65 T-ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* * * *
29596059 CTGTATCTCATCAGGAAGATGG-GGTCTGAAGTTTCACTCACGTTGAACTTTGCTTCGTTGATTT
129 CTGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTT
* * *
29596123 GGTCCACTTCTCCGTATCTCATTAGGAAGATGA-CGACTTCATTGTTTTGACCC
194 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCG-CTTCATTGTTTTGATCC
* * * * *
29596176 ACTTCTCTATATCTCATCAAGAAGACAGGGTTTTAAATTTTCACTCACATTGAGCTTCGCTTCGT
1 ACTTCTCTGTATCTCATCAAGAAGA-TGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
* * * *
29596241 TGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGATTCATTGTTTTGATCCACTTCT
65 T-ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* * * *
29596306 CAGTATCTCATCAGGTAGAT-AAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGATT
129 CTGTATCTCATCAGGAAGATGGA-GGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATT
* * *
29596370 TGGTCCACTTCTCTGTATCTCATAAGGAAGATGATCGCTTCATTGTTTTTATCC
193 TGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * ** *
29596424 ACTTCTCTGTATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCGTATTGAGCTTCGCTTCATT
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* * * * * * ** * *
29596489 GTTTTGGTCTACTTCTTTGTATCTAATCAGGAAGATGATCATTTTATTTTTTTGATCCACTTCTC
66 -ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
* *
29596554 TGTATCTCATCAGGAAGATGG-GGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATTGATTTG
130 TGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTG
* *
29596618 GTCCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTGATCC
195 GTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * *
29596670 ACTTCTATGTATCTCAGCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCGTT
1 ACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
* *
29596735 AATTTGGTCCACTTCTCTGTATCTCATCAAGAGGATGACCGCTTCATTGTTTTGATCCACTTCCC
66 -ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
*
29596800 TGTATCTCATCAGGAAGATGGA-GTTTGAAG-TTCACTCACATTGAGCTTCGTTTCGTTGATTTG
130 TGTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTG
* * * * *
29596863 ATCCATTTCTCTGTATCTCATCAAGAAGATGACCACTTCTTTTGTTTTGATC
195 GTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTC-ATTGTTTTGATC
29596915 TGACCCACTA
Statistics
Matches: 1704, Mismatches: 240, Indels: 58
0.85 0.12 0.03
Matches are distributed among these distances:
245 102 0.06
246 550 0.32
247 802 0.47
248 244 0.14
249 6 0.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (246 bp):
ACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCT
GTATCTCATCAGGAAGATGGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTGG
TCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
Found at i:29595571 original size:48 final size:48
Alignment explanation
Indices: 29595490--29595583 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
29595480 GTATTGAGCT
** * *
29595490 TCACTTCATTATTTTGGTCTACTTCTCTATATCTCAT-AAGGAAGATGA
1 TCACTTCATTATTTTGACCAACTTATCTATATCTCATCAA-GAAGATGA
*
29595538 TCACTTCATTATTTTGACCAACTTATCTGTATCTCATCAAGAAGAT
1 TCACTTCATTATTTTGACCAACTTATCTATATCTCATCAAGAAGAT
29595584 AGGGTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (48 bp):
TCACTTCATTATTTTGACCAACTTATCTATATCTCATCAAGAAGATGA
Found at i:29595751 original size:371 final size:370
Alignment explanation
Indices: 29594696--29596914 Score: 2801
Period size: 371 Copynumber: 6.0 Consensus size: 370
29594686 GTTTTGGTTT
29594696 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC-TCTGCTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-GCTTCAT
* * **
29594760 TAATTTGGTCCACTTCTCTGTATCTCACTAA-GAGGATGACCGCTTCATTGTTTTGATCCACTTC
65 TATTTTGGTCCACTTCTCTGTATCTCA-TAAGGAAGATGACAACTTCATTGTTTTGATCCACTTC
* *
29594824 TTTGTATCTTATCAAGAAGAT-GGAGTTTGAAGTTTCACTCACATTGAG-TTCCGCTTCGTTGAT
129 TCTGTATCTCATCAAGAAGATAGG-GTTTGAAGTTTCACTCACATTGAGCTT-CGCTTCGTTGAT
* *
29594887 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCACTGT
192 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGT
* * *
29594952 ATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-ATTTCGTTAATTTGGTC
257 ATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGTC
** * *
29595016 CACTTCTCTGTATCTCATCAAAAAGATGACCGCTTCATTGTTTCGACCC
322 CACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * *
29595065 ACTTCTCTATATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCGCATTGAGCTTCGCTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* ** * * * * *
29595130 GTTTTAATCTACTTCTCTGTATCTCATCAGAAAGATGACCACTTCATT-TTTTGACCCACTTCTC
66 ATTTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACAACTTCATTGTTTTGATCCACTTCTC
* * * * * *
29595194 TGTATCTCATCAGGAAGATGGGGTTTTAAAGTTTCACTCATATTGAGCTTTGCTTTGTTGATTTG
131 TGTATCTCATCAAGAAGATAGGG-TTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTG
* * * * * *
29595259 GTCCAATTCTTTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTGATCCATTTTTTTGTATC
195 GTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATC
* *
29595324 TCATCAGGAAGATGGAGGCTTGAAGTTTCACTCATATTGAGCTTCG-TTTCGTTGATTTGGTCCA
260 TCATCAGGAAGATGG-GGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGTCCA
* * * *
29595388 CTTC-CTTGTATCACATCAGGAAGATGACCGTTTCATTATTTTGATTC
324 CTTCTC-TGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * * ** *
29595435 AC-TCTTCTGTATCTTATCAAGAAGATGGGGTTTGAAGTTTTACTCGTATTGAGCTTCACTTCAT
1 ACTTC-TCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * *
29595499 TATTTTGGTCTACTTCTCTATATCTCATAAGGAAGATGATC-ACTTCATTATTTTGA-CCAACTT
65 TATTTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGA-CAACTTCATTGTTTTGATCC-ACTT
* * * * *
29595562 ATCTGTATCTCATCAAGAAGATAGGGTTTTAAAGTTTCACTCATATTGAGTTTCGCTTCGTTAAT
128 CTCTGTATCTCATCAAGAAGATAGGG-TTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGAT
* * *
29595627 TTGGTCTACTTCTCTGTATCTCATTAAGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTGT
192 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGT
* * * * * * * *
29595692 ACCTCAGCAAGAAGATGGGGGTTTGAAGTTTTACTCAAATTAAACTTTGCTTT-GTTGATTTGGT
257 ATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGT
29595756 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
321 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
* * * * *
29595806 ACTTATCTGTATCTCATCAGGAATATGGGATTTGAAGTTTCACTCTCATTGAGCTTCGTTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* * * *
29595871 GTTTTGGTCTACTTCTTTGTATCTCATTAA-GAAGATGACAACTTCATTGTTTTGA-CTCATTTC
66 ATTTTGGTCCACTTCTCTGTATCTCA-TAAGGAAGATGACAACTTCATTGTTTTGATC-CACTTC
* * * *
29595934 TCTATATCTCATTAGGAAGATAAGGGTTTGAAGTTTTACTCACATTGAGCTTCGCTTCGTTGATT
129 TCTGTATCTCATCAAGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATT
* * * * *
29595999 TGGTCCACTTCTTTGTATCTCATCAGGAAGATAATCGCTTCTTTGTTTTGATCCACTTCTCTGTA
193 TGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTA
* * * *
29596064 TCTCATCAGGAAGATGGGGTCTGAAGTTTCACTCACGTTGAACTTTGC-TTCGTTGATTTGGTCC
258 TCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGTCC
* * *
29596128 ACTTCTCCGTATCTCATTAGGAAGATGA-CGACTTCATTGTTTTGACCC
323 ACTTCTCTGTATCTCATCAGGAAGATGACCG-CTTCATTGTTTTGATCC
* * * * * * *
29596176 ACTTCTCTATATCTCATCAAGAAGACAGGGTTTTAAATTTTCACTCACATTGAGCTTCGCTTCGT
1 ACTTCTCTGTATCTCATCAGGAAGA-TGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * *
29596241 TGA-TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGA-TTCATTGTTTTGATCCACTT
65 T-ATTTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGA-CAACTTCATTGTTTTGATCCACTT
* * * *
29596304 CTCAGTATCTCATCAGGTAGATAAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAT
128 CTCTGTATCTCATCAAGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGAT
* *
29596369 TTGGTCCACTTCTCTGTATCTCAT-AAGGAAGATGATCGCTTCATTGTTTTTATCCACTTCTCTG
192 TTGGTCCACTTCTCTGTATCTCATCAA-GAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTG
* ** * *
29596433 TATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCGTATTGAGCTTCGC-TTCATTGTTTTGGT
256 TATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGT
* * * * ** * *
29596497 CTACTTCTTTGTATCTAATCAGGAAGATGATCATTTTATTTTTTTGATCC
321 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
*
29596547 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATT
1 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* ** *
29596612 GA-TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTGATCCACTTCT
66 -ATTTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACAACTTCATTGTTTTGATCCACTTCT
* * * * *
29596676 ATGTATCTCAGCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCGTTAATTTG
130 CTGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTG
* *
29596741 GTCCACTTCTCTGTATCTCATCAAGAGGATGACCGCTTCATTGTTTTGATCCACTTCCCTGTATC
195 GTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATC
* * *
29596806 TCATCAGGAAGATGGAGTTTGAAG-TTCACTCACATTGAGCTTCG-TTTCGTTGATTTGATCCAT
260 TCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGTCCAC
* * *
29596869 TTCTCTGTATCTCATCAAGAAGATGACCACTTCTTTTGTTTTGATC
325 TTCTCTGTATCTCATCAGGAAGATGACCGCTTC-ATTGTTTTGATC
29596915 TGACCCACTA
Statistics
Matches: 1604, Mismatches: 213, Indels: 66
0.85 0.11 0.04
Matches are distributed among these distances:
368 92 0.06
369 343 0.21
370 399 0.25
371 751 0.47
372 19 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (370 bp):
ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
ATTTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGACAACTTCATTGTTTTGATCCACTTCTC
TGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTTGATTTGG
TCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCACTTCTCTGTATCT
CATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTTCGTTGATTTGGTCCACT
TCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCC
Found at i:29596056 original size:48 final size:48
Alignment explanation
Indices: 29595985--29596078 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
29595975 ACATTGAGCT
* *
29595985 TCGCTTCGTTGATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATAA
1 TCGCTTCGTTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATAA
* *
29596033 TCGCTTCTTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGAT
1 TCGCTTCGTTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGAT
29596079 GGGGTCTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (48 bp):
TCGCTTCGTTGATTTGATCCACTTCTCTGTATCTCATCAGGAAGATAA
Found at i:29596427 original size:48 final size:48
Alignment explanation
Indices: 29596356--29596450 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
29596346 ACATTGAGCT
*
29596356 TCGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATAAGGAAGATGA
1 TCGCTTCATTGATTTGATCCACTTCTCTGTATCTCATAAGGAAGATGA
* * *
29596404 TCGCTTCATTGTTTTTATCCACTTCTCTGTATCTCATCAGGAAGATG
1 TCGCTTCATTGATTTGATCCACTTCTCTGTATCTCATAAGGAAGATG
29596451 GAGTTTGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (48 bp):
TCGCTTCATTGATTTGATCCACTTCTCTGTATCTCATAAGGAAGATGA
Found at i:29596675 original size:48 final size:48
Alignment explanation
Indices: 29596604--29596696 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
29596594 ATTGAGCTCC
* * * *
29596604 GCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACT
1 GCTTCATTGATTTGATCCACTTCTATGTATCTCAGCAAGAAGATGACT
29596652 GCTTCATT-ATTTTGATCCACTTCTATGTATCTCAGCAAGAAGATG
1 GCTTCATTGA-TTTGATCCACTTCTATGTATCTCAGCAAGAAGATG
29596697 GGGTTTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (48 bp):
GCTTCATTGATTTGATCCACTTCTATGTATCTCAGCAAGAAGATGACT
Done.