Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007798.1 Hibiscus syriacus cultivar Beakdansim tig00110108_pilon, whole genome shotgun sequence
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: 471074
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2634 original size:20 final size:21
Alignment explanation
Indices: 2580--2642 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
2570 GATTCCCCTG
2580 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
2604 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
2624 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
2643 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:6479 original size:22 final size:21
Alignment explanation
Indices: 6437--6476 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6427 AAGTTTGTTT
*
6437 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6458 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6477 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:10655 original size:15 final size:15
Alignment explanation
Indices: 10637--10666 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10627 AATTCTTTCC
10637 ATTTCCTTTCTTATT
1 ATTTCCTTTCTTATT
*
10652 ATTTCTTTTCTTATT
1 ATTTCCTTTCTTATT
10667 CCATTTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTCCTTTCTTATT
Found at i:10691 original size:12 final size:12
Alignment explanation
Indices: 10650--10694 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
10640 TCCTTTCTTA
*
10650 TTATTTCTTTTC
1 TTATTTCATTTC
*
10662 TTATTCCATTTC
1 TTATTTCATTTC
10674 TTATTTCATTTC
1 TTATTTCATTTC
10686 TTATTTCAT
1 TTATTTCAT
10695 ATTTCCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTCATTTC
Found at i:10701 original size:32 final size:28
Alignment explanation
Indices: 10637--10717 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 28
10627 AATTCTTTCC
*
10637 ATTTCC-TTTCTTATTATTTCTTTTCTT
1 ATTTCCATTTCTTATTATTTCTTTTCAT
10664 A-TTCCATTTCTTATTTCATTTCTTATTTCAT
1 ATTTCCATTTCTTA-TT-ATTTC-T-TTTCAT
* *
10695 ATTTCCATTT-TAATCATTTCTTT
1 ATTTCCATTTCTTATTATTTCTTT
10718 CTTGTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
26 4 0.09
27 10 0.22
28 3 0.07
29 10 0.22
30 2 0.04
31 8 0.18
32 8 0.18
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTCCATTTCTTATTATTTCTTTTCAT
Found at i:28657 original size:29 final size:29
Alignment explanation
Indices: 28615--28698 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
28605 AACCCAACCA
28615 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
28644 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
* *
28673 TAGGTCGCCATGCACGCCCGGCGACC
1 TAGGTCGCCATGCACTCCCAGCGACC
28699 AAGGAGGTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCTCC
Found at i:28706 original size:29 final size:29
Alignment explanation
Indices: 28616--28718 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
28606 ACCCAACCAT
** *
28616 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCAGCGACCAACG
** *
28645 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCAGCGACCAACG
* * *
28674 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACTCCCAGCGACCAACG
*
28703 AGGTCGCCATGTACTC
1 AGGTCGCCATGCACTC
28719 GGGGCGACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.18, C:0.41, G:0.25, T:0.16
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCAACG
Found at i:28724 original size:29 final size:29
Alignment explanation
Indices: 28616--28732 Score: 90
Period size: 29 Copynumber: 4.0 Consensus size: 29
28606 ACCCAACCAT
* * ****
28616 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
* * ****
28645 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
28674 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
* * **
28703 AGGTCGCCATGTACTCGGGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
28732 A
1 A
28733 TTCATGCATG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.14
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAAGG
Found at i:28963 original size:10 final size:10
Alignment explanation
Indices: 28950--29007 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
28940 CAGGGCATGG
28950 ATGGGCGTGC
1 ATGGGCGTGC
28960 ATGGGCGTGCTCC
1 ATGGGCGTG---C
* * *
28973 TTTGGCGAG-
1 ATGGGCGTGC
28982 ATGGGCGTGC
1 ATGGGCGTGC
28992 ATGGGCGTGC
1 ATGGGCGTGC
29002 ATGGGC
1 ATGGGC
29008 ATGGAGGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.16
10 25 0.66
13 7 0.18
ACGTcount: A:0.10, C:0.21, G:0.47, T:0.22
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:36771 original size:16 final size:16
Alignment explanation
Indices: 36750--36788 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
36740 ATTATTTTAT
36750 TATGTTTCTTAATGGA
1 TATGTTTCTTAATGGA
36766 TATGTTTCTTAATGGA
1 TATGTTTCTTAATGGA
*
36782 AATGTTT
1 TATGTTT
36789 TTTATGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (16 bp):
TATGTTTCTTAATGGA
Found at i:41929 original size:14 final size:14
Alignment explanation
Indices: 41907--41951 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
41897 AATGAGTTTA
*
41907 TTAATGAATAATCT
1 TTAAGGAATAATCT
*
41921 TTAAGGAATAATCC
1 TTAAGGAATAATCT
*
41935 TTAAGAAATAA-CT
1 TTAAGGAATAATCT
41948 TTAA
1 TTAA
41952 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (14 bp):
TTAAGGAATAATCT
Found at i:44846 original size:25 final size:26
Alignment explanation
Indices: 44796--44846 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
44786 TAAATACTTG
44796 AAATAATTTATATATTTTAATTATTT
1 AAATAATTTATATATTTTAATTATTT
44822 AAATAATTT-TAT-TTTATAATTATTT
1 AAATAATTTATATATTT-TAATTATTT
44847 TTAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 3 0.12
25 12 0.50
26 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
AAATAATTTATATATTTTAATTATTT
Found at i:44855 original size:25 final size:25
Alignment explanation
Indices: 44796--44860 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
44786 TAAATACTTG
44796 AAATAATTTATATATTT-TAATTATTT
1 AAATAATTTA-AT-TTTATAATTATTT
*
44822 AAATAATTTTATTTTATAATTATTTT
1 AAATAATTTAATTTTATAATTA-TTT
*
44848 TAAT-ATTTAATTT
1 AAATAATTTAATTT
44861 ATTCTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 16 0.47
26 15 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
AAATAATTTAATTTTATAATTATTT
Found at i:44858 original size:17 final size:17
Alignment explanation
Indices: 44809--44859 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
44799 TAATTTATAT
*
44809 ATTTTAATTATTTAAATA
1 ATTTTAA-TATTTAATTA
*
44827 ATTTT-ATTTTATAATTA
1 ATTTTAATATT-TAATTA
*
44844 TTTTTAATATTTAATT
1 ATTTTAATATTTAATT
44860 TATTCTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 15 0.56
18 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTAATATTTAATTA
Found at i:45019 original size:27 final size:27
Alignment explanation
Indices: 44967--45019 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
44957 ACCTCTTATT
** *
44967 TAAATTATTAATCTCTTTTTTTATTAA
1 TAAATTATTAATCTCTTAATTAATTAA
44994 TAAATTATTAATCTCTTAATTAATTA
1 TAAATTATTAATCTCTTAATTAATTA
45020 TTTTGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (27 bp):
TAAATTATTAATCTCTTAATTAATTAA
Found at i:51760 original size:15 final size:15
Alignment explanation
Indices: 51723--51761 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
51713 AGAACTTCAA
*
51723 ACAAAACCCAGTTTT
1 ACAAAACTCAGTTTT
51738 ACAAAACTCAGTTTT
1 ACAAAACTCAGTTTT
51753 ACAAAACTC
1 ACAAAACTC
51762 TTTAGACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (15 bp):
ACAAAACTCAGTTTT
Found at i:52377 original size:14 final size:13
Alignment explanation
Indices: 52358--52395 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
52348 GAATAAGATT
52358 TTATATTTATATAA
1 TTATATTTATAT-A
*
52372 TTATATTTGTATA
1 TTATATTTATATA
52385 TT-TATTTATAT
1 TTATATTTATAT
52396 TTGTGAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TTATATTTATATA
Found at i:56913 original size:64 final size:63
Alignment explanation
Indices: 56820--56956 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 63
56810 ATGCACATTG
* *
56820 ATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-AGTGC
1 ATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTAGTGC
* * * * * *
56883 ATCGATGCATCCCTTTAAA-ATGAAATCATCGAAGGTAATTTGTGTATCGATGCATGGGTAGTGC
1 ATCGATGCA-CCCTTTAAAGAAGAAA-CATCGAAGGCAAATGGTGCATCGATGCATAGGTAGTGC
56947 ATCGATGCAC
1 ATCGATGCAC
56957 ATGTTAAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 17 0.27
64 46 0.73
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
ATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTAGTGC
Found at i:58283 original size:30 final size:29
Alignment explanation
Indices: 58249--58309 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
58239 ATCTATAGAC
* * *
58249 AGTTGCCGAGGTTCTTTATGACCTCTGGAT
1 AGTTGCCG-GGGTATTTATGACATCTGGAT
* *
58279 AGTTGTCGGGGTATTTGTGACATCTGGAT
1 AGTTGCCGGGGTATTTATGACATCTGGAT
58308 AG
1 AG
58310 GTCCTTCGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (29 bp):
AGTTGCCGGGGTATTTATGACATCTGGAT
Found at i:67145 original size:32 final size:33
Alignment explanation
Indices: 67078--67149 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
67068 AACTAATAGT
* * *
67078 AAATAATATATATATATGAAATGATGATATAAA
1 AAATGATATATATAAATGAAATGATGACATAAA
67111 AAAGTGATATATATAAAT-AAAT-ATGTACAT-AA
1 AAA-TGATATATATAAATGAAATGATG-ACATAAA
67143 AAATGAT
1 AAATGAT
67150 GAAGCATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.12
32 8 0.24
33 10 0.29
34 12 0.35
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (33 bp):
AAATGATATATATAAATGAAATGATGACATAAA
Found at i:69007 original size:105 final size:105
Alignment explanation
Indices: 68811--69344 Score: 764
Period size: 105 Copynumber: 5.1 Consensus size: 105
68801 TTATTGTTCC
** ** * * * *
68811 GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT-GAAATTGGAAAATGTTTGTTGACAA
* * * *
68876 CCAGCCGTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
68917 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTCAAAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGAAAATGTTTGTTGACAAC
68982 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
69022 TAGTCCAATATCCTTCATTGTGAAGTTGAAATTGATTCTGAAATT-GAGAGATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGA-AAATGTTTGTTGACAA
69086 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
69127 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGAAAATGTTTGTTGACAAC
69192 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
69232 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATT-GGAAAATGTTTGTTGACAA
* *
69297 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCTTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
69338 GAGTCCA
1 GAGTCCA
69345 TTATTCTGTT
Statistics
Matches: 388, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
104 1 0.00
105 290 0.75
106 97 0.25
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGAAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:72054 original size:75 final size:72
Alignment explanation
Indices: 71961--72117 Score: 205
Period size: 75 Copynumber: 2.2 Consensus size: 72
71951 GATATTTTTG
*
71961 ATTTTAAAAAATATATATGAAAAATGAGAAGATTACAAA-TTATCAATACATTTTCACA-A-ATA
1 ATTTAAAAAAATATATATGAAAAATGAGAAGA-T-CAAAGTT-TCAATA-ATTTTC-CATACATA
72023 TCAATACTTTCAA
61 T-AATACTTTCAA
*
72036 ATTTAAAAAAATATATATGAAAAATGAGAAGATCAAAGTTTCAATATTTTTCCATACATATAATA
1 ATTTAAAAAAATATATATGAAAAATGAGAAGATCAAAGTTTCAATAATTTTCCATACATATAATA
*
72101 CTTTCGA
66 CTTTCAA
72108 A-TTAAAAAAA
1 ATTTAAAAAAA
72118 CATAAAAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
71 11 0.14
72 17 0.22
73 14 0.18
74 3 0.04
75 31 0.41
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (72 bp):
ATTTAAAAAAATATATATGAAAAATGAGAAGATCAAAGTTTCAATAATTTTCCATACATATAATA
CTTTCAA
Found at i:72516 original size:100 final size:100
Alignment explanation
Indices: 72404--72587 Score: 255
Period size: 100 Copynumber: 1.8 Consensus size: 100
72394 ACTTAACTGA
* * *
72404 TTAAAATAAAATAGACGCAACATATTACGTTAAACCAGCTA-CTGGTTTATTTAAAGGTATAATA
1 TTAAAATAAAATAAACGCAACATATCACGTTAAACCAGCTATC-GGTTTATTTAAAGATATAATA
72468 ATAATATAAAC-AGTAAAATATTTACAACTTAGTCGG
65 ATAATATAAACGA-TAAAATATTTACAACTTAGTCGG
* * ** *
72504 TTAAAATAAAATAAACGCAACTTATCACTTTAAACTTGCTATCGGTTTGTTTAAAGATATAATAA
1 TTAAAATAAAATAAACGCAACATATCACGTTAAACCAGCTATCGGTTTATTTAAAGATATAATAA
*
72569 TAATGTAAACGATAAAATA
66 TAATATAAACGATAAAATA
72588 AAATAGGCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
100 71 0.97
101 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (100 bp):
TTAAAATAAAATAAACGCAACATATCACGTTAAACCAGCTATCGGTTTATTTAAAGATATAATAA
TAATATAAACGATAAAATATTTACAACTTAGTCGG
Found at i:72591 original size:76 final size:75
Alignment explanation
Indices: 72505--72740 Score: 260
Period size: 76 Copynumber: 3.1 Consensus size: 75
72495 CTTAGTCGGT
** * *
72505 TAAAATAAAATAAACGCAACTTATCACTTTAAACTTGCTATCGGTTTGTTTAAAGATATAATAAT
1 TAAAATAAAATAGGCGCAACTTATTACGTTAAACTTGCTA-CGGTTTGTTTAAAGATATAATAAT
*
72570 AATGTAAACGA
65 AATGTAAACGG
* * * * * *
72581 TAAAATAAAATAGGCTCAACCTATTACGTTAAACTAGCTACATGTTTGTTTAAAGGTATAATAAC
1 TAAAATAAAATAGGCGCAACTTATTACGTTAAACTTGCTAC-GGTTTGTTTAAAGATATAATAAT
72646 AATGTAAACGG
65 AATGTAAACGG
* ** * *
72657 TAAAAATAAAATAGGTGTTA-TCTATTACGTTAAA-TTAGCTACCGGTTTGTTTCAAGATATAAG
1 T-AAAATAAAATAGGCGCAACT-TATTACGTTAAACTT-GCTA-CGGTTTGTTTAAAGATATAAT
72720 AATAATGTAAACGG
62 AATAATGTAAACGG
72734 TAAAATA
1 TAAAATA
72741 TTTACAACTT
Statistics
Matches: 133, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
75 1 0.01
76 71 0.53
77 60 0.45
78 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCAACTTATTACGTTAAACTTGCTACGGTTTGTTTAAAGATATAATAATA
ATGTAAACGG
Found at i:72705 original size:77 final size:77
Alignment explanation
Indices: 72501--72738 Score: 266
Period size: 77 Copynumber: 3.1 Consensus size: 77
72491 ACAACTTAGT
* ** * * * * *
72501 CGGTTAAAATAAAATAAACGCAACTTATCACTTTAAACTT-GCTATCGGTTTGTTTAAAGATATA
1 CGGTAAAAATAAAATAGGCTCAACCTATTACGTTAAA-TTAGCTACCGGTTTGTTTAAAGATATA
72565 ATAATAATGTAAA
65 ATAATAATGTAAA
* * ** *
72578 CGAT-AAAATAAAATAGGCTCAACCTATTACGTTAAACTAGCTACATGTTTGTTTAAAGGTATAA
1 CGGTAAAAATAAAATAGGCTCAACCTATTACGTTAAATTAGCTACCGGTTTGTTTAAAGATATAA
*
72642 TAACAATGTAAA
66 TAATAATGTAAA
** * *
72654 CGGTAAAAATAAAATAGG-TGTTATCTATTACGTTAAATTAGCTACCGGTTTGTTTCAAGATATA
1 CGGTAAAAATAAAATAGGCT-CAACCTATTACGTTAAATTAGCTACCGGTTTGTTTAAAGATATA
*
72718 AGAATAATGTAAA
65 ATAATAATGTAAA
72731 CGGTAAAA
1 CGGTAAAA
72739 TATTTACAAC
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
75 1 0.01
76 62 0.46
77 71 0.53
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (77 bp):
CGGTAAAAATAAAATAGGCTCAACCTATTACGTTAAATTAGCTACCGGTTTGTTTAAAGATATAA
TAATAATGTAAA
Found at i:72832 original size:100 final size:100
Alignment explanation
Indices: 72654--72840 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 100
72644 ACAATGTAAA
** * * * * *
72654 CGGTAAAAATAAAATAGGTGTTATCTATTACGTTAAATTAGCTACCGGTTTGTTTCAAGATATAA
1 CGGTAAAAATAAAATAGGTGCAACCTATTACGTTAAACTAACTACCGGTTCGTTTAAAGATATAA
72719 GAATAATGTAAACGGTAAAATATTTACAACTTAAT
66 GAATAATGTAAACGGTAAAATATTTACAACTTAAT
* * **
72754 CGGTTAAAATAAAATATGTGCAACCTATTACGTTAAACTAACTACTTGTTCGTTTAAAGATATAA
1 CGGTAAAAATAAAATAGGTGCAACCTATTACGTTAAACTAACTACCGGTTCGTTTAAAGATATAA
*
72819 TAATAATGTAAACGGTAAAATA
66 GAATAATGTAAACGGTAAAATA
72841 AAATAAGTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (100 bp):
CGGTAAAAATAAAATAGGTGCAACCTATTACGTTAAACTAACTACCGGTTCGTTTAAAGATATAA
GAATAATGTAAACGGTAAAATATTTACAACTTAAT
Found at i:72857 original size:253 final size:253
Alignment explanation
Indices: 72426--73415 Score: 987
Period size: 253 Copynumber: 3.9 Consensus size: 253
72416 AGACGCAACA
* * * *
72426 TATTACGTTAAACCAGCTACTGGTTTATTTAAAGGTATAATAATAATATAAACAGTAAAATATTT
1 TATTACGTTAAACCAGCTACCGGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAATATTT
* * * * **
72491 ACAACTTAGTCGGTTAAAATAAAATAAACGCAACTTATCACTTTAAACTTGCTA-TCGGTTTGTT
66 ACAACTTAATCGGTTAAAATAAAATAAACGCAACCTATTACGTTAAACTACCTACT-GGTTTGTT
*
72555 TAAAGATATAATAATAATGTAAACGATAAAATAAAAT-AG-GCTCAACCTATTACGTTAAACTAG
130 TAAAGATATAATAATAATGTAAACGGTAAAATAAAATAAGTG-T-AACCTATTACGTTAAACTAG
* * *
72618 CTACATGTTTGTTTAAAGGTATAATAACAATGTAAACGGTAAAAATAAAATAGGTGTTATC
193 CTACATGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAAATAAAATAGGTGATACC
** * * *
72679 TATTACGTTAAATTAGCTACCGGTTTGTTTCAAGATATAAGAATAATGTAAACGGTAAAATATTT
1 TATTACGTTAAACCAGCTACCGGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAATATTT
*** * * *
72744 ACAACTTAATCGGTTAAAATAAAATATGTGCAACCTATTACGTTAAACTAACTACTTGTTCGTTT
66 ACAACTTAATCGGTTAAAATAAAATAAACGCAACCTATTACGTTAAACTACCTACTGGTTTGTTT
* *
72809 AAAGATATAATAATAATGTAAACGGTAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTA
131 AAAGATATAATAATAATGTAAACGGTAAAATAAAATAAGTGTAACCTATTACGTTAAACTAGCTA
* * * * *
72874 TCA-GTTTGTTTAAATGTATAATAATAATGT-AACTTGTTAAAATAAAATAAGCT-CTACC
196 -CATGTTTGTTTAAAGGTATAATAATAATGTAAAC-GGTAAAAATAAAAT-AGGTGATACC
* * * * * * *
72932 TATTACGTTAAACTATCTATCGGTTTGTTTAAATGTATAATATTAATGTAAAAC--TAAATTTTT
1 TATTACGTTAAACCAGCTACCGGTTTGTTTAAAGGTATAATAATAATGT-AAACGGTAAAATATT
* *
72995 TACAAC-----CGGTTAAAATAAAATAAGTC-CTACCTATTACGTTAAACTACCTACTGGTTTGT
65 TACAACTTAATCGGTTAAAATAAAATAA-ACGCAACCTATTACGTTAAACTACCTACTGGTTTGT
* * * *
73054 TTAAAGGTATAATAAAAATGTAAACTGTAAAATAAAATAGACGCTG---CCTATTACTTTAAACT
129 TTAAAGATATAATAATAATGTAAACGGTAAAATAAAATA-A-G-TGTAACCTATTACGTTAAACT
* ** ** * * * * *
73116 AACTACCGGTTCATTTAAATGTACAATAATAATGTAACCGGTTAAAATAAAATAGGCGATACC
191 AGCTACATGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAAATAAAATAGGTGATACC
** * * *
73179 TATTATATTAAACCA-CATGCCGATTTGTTTAAAGGTATAATATTAATGTAAACGGTAAAATATT
1 TATTACGTTAAACCAGC-TACCGGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAATATT
* * * * * * * * * *
73243 CATAACTTAACCGGTTAAAATAAAACATACGCTACATATTATGTTAAACTACCAACCGGTTTGTT
65 TACAACTTAATCGGTTAAAATAAAATAAACGCAACCTATTACGTTAAACTACCTACTGGTTTGTT
* * * * * *
73308 TAAATG-TATAATAATAATGTAACCAGTTAAAATAAAATAGGTATTACGTATTACGTTAAACTA-
130 TAAA-GATATAATAATAATGTAAAC-GGTAAAATAAAATAAGTGTAACCTATTACGTTAAACTAG
* *
73371 CTTAC-TAGTTTGTTTAAAGGTATAATAATGATGTAAATGGTAAAA
193 C-TACAT-GTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAA
73416 TATTTACAAC
Statistics
Matches: 610, Mismatches: 97, Indels: 59
0.80 0.13 0.08
Matches are distributed among these distances:
246 8 0.01
247 180 0.30
248 14 0.02
249 1 0.00
250 2 0.00
251 1 0.00
252 18 0.03
253 311 0.51
254 74 0.12
255 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (253 bp):
TATTACGTTAAACCAGCTACCGGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAATATTT
ACAACTTAATCGGTTAAAATAAAATAAACGCAACCTATTACGTTAAACTACCTACTGGTTTGTTT
AAAGATATAATAATAATGTAAACGGTAAAATAAAATAAGTGTAACCTATTACGTTAAACTAGCTA
CATGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAAATAAAATAGGTGATACC
Found at i:72885 original size:76 final size:77
Alignment explanation
Indices: 72758--72983 Score: 273
Period size: 77 Copynumber: 2.9 Consensus size: 77
72748 CTTAATCGGT
* * * *
72758 TAAAATAAAATATGTGCAACCTATTACGTTAAACTAACTA-CTTGTTCGTTTAAA-GATATAATA
1 TAAAATAAAATAAGTGTAACCTATTACGTTAAACTAACTATC-AGTTTGTTTAAATG-TATAATA
72821 ATAATGTAAAC-GG
64 ATAATGTAAACTGG
* * *
72834 TAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTATCAGTTTGTTTAAATGTATAATAAT
1 TAAAATAAAATAAGTGTAACCTATTACGTTAAACTAACTATCAGTTTGTTTAAATGTATAATAAT
*
72899 AATGT-AACTTGT
66 AATGTAAAC-TGG
* * * *
72911 TAAAATAAAATAAGCTCT-ACCTATTACGTTAAACTATCTATCGGTTTGTTTAAATGTATAATAT
1 TAAAATAAAATAAG-TGTAACCTATTACGTTAAACTAACTATCAGTTTGTTTAAATGTATAATAA
72975 TAATGTAAA
65 TAATGTAAA
72984 ACTAAATTTT
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
75 3 0.02
76 59 0.45
77 64 0.49
78 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (77 bp):
TAAAATAAAATAAGTGTAACCTATTACGTTAAACTAACTATCAGTTTGTTTAAATGTATAATAAT
AATGTAAACTGG
Found at i:72917 original size:177 final size:177
Alignment explanation
Indices: 72581--72905 Score: 485
Period size: 177 Copynumber: 1.8 Consensus size: 177
72571 ATGTAAACGA
* * *
72581 TAAAATAAAATAGGCTCAACCTATTACGTTAAACTAGCTACATGTTTGTTTAAAGGTATAATAAC
1 TAAAATAAAATAGGCTCAACCTATTACGTTAAACTAACTACATGTTCGTTTAAAGATATAATAAC
* * * * * *
72646 AATGTAAACGGTAAAAATAAAATAGGTGTTATCTATTACGTTAAATTAGCTACCGGTTTGTTTCA
66 AATGTAAACGGTAAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTACCAGTTTGTTTAA
72711 AGATATAAGAATAATGTAAACGGTAAAATATTTACAACTTAATCGGT
131 AGATATAAGAATAATGTAAACGGTAAAATATTTACAACTTAATCGGT
* *
72758 TAAAATAAAATATG-TGCAACCTATTACGTTAAACTAACTACTTGTTCGTTTAAAGATATAATAA
1 TAAAATAAAATAGGCT-CAACCTATTACGTTAAACTAACTACATGTTCGTTTAAAGATATAATAA
* *
72822 TAATGTAAACGGT-AAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTATCAGTTTGTTTA
65 CAATGTAAACGGTAAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTACCAGTTTGTTTA
*
72886 AATG-TATAATAATAATGTAA
130 AA-GATATAAGAATAATGTAA
72906 CTTGTTAAAA
Statistics
Matches: 132, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
176 62 0.47
177 70 0.53
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (177 bp):
TAAAATAAAATAGGCTCAACCTATTACGTTAAACTAACTACATGTTCGTTTAAAGATATAATAAC
AATGTAAACGGTAAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTACCAGTTTGTTTAA
AGATATAAGAATAATGTAAACGGTAAAATATTTACAACTTAATCGGT
Found at i:73054 original size:171 final size:170
Alignment explanation
Indices: 72834--73152 Score: 421
Period size: 170 Copynumber: 1.9 Consensus size: 170
72824 ATGTAAACGG
* * * * *
72834 TAAAATAAAATAAGTGTAACCTATTACATTAAATTAGCTATCAGTTTGTTTAAATGTATAATAAT
1 TAAAATAAAATAAGTCTAACCTATTACATTAAACTACCTATCAGTTTGTTTAAAGGTATAATAAA
* * * **
72899 AATGT-AACTTGTTAAAATAAAATA-AGCTCTACCTATTACGTTAAACTATCTATCGGTTTGTTT
66 AATGTAAAC-TG-TAAAATAAAATAGA-CGCTACCTATTACGTTAAACTAACTACCGGTTCATTT
* *
72962 AAATGTATAATATTAATGTAAAACTAAATTTTTTACAACCGGT
128 AAATGTACAATAATAATGTAAAACTAAATTTTTTACAACCGGT
* *
73005 TAAAATAAAATAAGTCCT-ACCTATTACGTTAAACTACCTA-CTGGTTTGTTTAAAGGTATAATA
1 TAAAATAAAATAAGT-CTAACCTATTACATTAAACTACCTATC-AGTTTGTTTAAAGGTATAATA
* *
73068 AAAATGTAAACTGTAAAATAAAATAGACGCTGCCTATTACTTTAAACTAACTACCGGTTCATTTA
64 AAAATGTAAACTGTAAAATAAAATAGACGCTACCTATTACGTTAAACTAACTACCGGTTCATTTA
73133 AATGTACAATAATAATGTAA
129 AATGTACAATAATAATGTAA
73153 CCGGTTAAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
170 62 0.48
171 62 0.48
172 4 0.03
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (170 bp):
TAAAATAAAATAAGTCTAACCTATTACATTAAACTACCTATCAGTTTGTTTAAAGGTATAATAAA
AATGTAAACTGTAAAATAAAATAGACGCTACCTATTACGTTAAACTAACTACCGGTTCATTTAAA
TGTACAATAATAATGTAAAACTAAATTTTTTACAACCGGT
Found at i:73104 original size:76 final size:76
Alignment explanation
Indices: 73005--73240 Score: 258
Period size: 76 Copynumber: 3.1 Consensus size: 76
72995 TACAACCGGT
* * *
73005 TAAAATAAAATAAGTC-CTACCTATTACGTTAAACTACCTACTGGTTTGTTTAAAGGTATAATAA
1 TAAAATAAAAT-AGACGCTACCTATTACATTAAACTACCTACCGGTTTGTTTAAAGGTATAATAA
* *
73069 AAATGTAAACTG
65 TAATGTAAACGG
* * * ** * *
73081 TAAAATAAAATAGACGCTGCCTATTACTTTAAACTAACTACCGGTTCATTTAAATGTACAATAAT
1 TAAAATAAAATAGACGCTACCTATTACATTAAACTACCTACCGGTTTGTTTAAAGGTATAATAAT
*
73146 AATGTAACCGG
66 AATGTAAACGG
* * * * * * * *
73157 TTAAAATAAAATAGGCGATACCTATTATATTAAACCACATGCCGATTTGTTTAAAGGTATAATAT
1 -TAAAATAAAATAGACGCTACCTATTACATTAAACTACCTACCGGTTTGTTTAAAGGTATAATAA
73222 TAATGTAAACGG
65 TAATGTAAACGG
73234 TAAAATA
1 TAAAATA
73241 TTCATAACTT
Statistics
Matches: 130, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
75 3 0.02
76 67 0.52
77 60 0.46
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (76 bp):
TAAAATAAAATAGACGCTACCTATTACATTAAACTACCTACCGGTTTGTTTAAAGGTATAATAAT
AATGTAAACGG
Found at i:73303 original size:177 final size:177
Alignment explanation
Indices: 73081--73429 Score: 443
Period size: 177 Copynumber: 2.0 Consensus size: 177
73071 ATGTAAACTG
* * * *
73081 TAAAATAAAATAGACGCTGCCTATTACTTTAAACTAACTACCGGTTCATTTAAATGTACAATAAT
1 TAAAATAAAACAGACGCTACATATTACTTTAAACTAACAACCGGTTCATTTAAATGTACAATAAT
* * *
73146 AATGTAACCGGTTAAAATAAAATAGGCGA-TACCTATTATATTAAACCACATGCCGA-TTTGTTT
66 AATGTAACCAGTTAAAATAAAATAGG-GATTACCTATTACATTAAACCAC-TGACGAGTTTGTTT
* *
73209 AAAGGTATAATATTAATGTAAACGGTAAAATATTCATAACTTAACCGGT
129 AAAGGTATAATAATAATGTAAACGGTAAAATATTCACAACTTAACCGGT
* * ** *
73258 TAAAATAAAACATACGCTACATATTA-TGTTAAACTACCAACCGGTTTGTTTAAATGTATAATAA
1 TAAAATAAAACAGACGCTACATATTACT-TTAAACTAACAACCGGTTCATTTAAATGTACAATAA
* * * * * *
73322 TAATGTAACCAGTTAAAATAAAATAGGTATTACGTATTACGTTAAACTACTTACTAGTTTGTTTA
65 TAATGTAACCAGTTAAAATAAAATAGGGATTACCTATTACATTAAACCACTGACGAGTTTGTTTA
* * *
73387 AAGGTATAATAATGATGTAAATGGTAAAATATTTACAACTTAA
130 AAGGTATAATAATAATGTAAACGGTAAAATATTCACAACTTAA
73430 TTATTATAAA
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
176 5 0.03
177 141 0.97
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (177 bp):
TAAAATAAAACAGACGCTACATATTACTTTAAACTAACAACCGGTTCATTTAAATGTACAATAAT
AATGTAACCAGTTAAAATAAAATAGGGATTACCTATTACATTAAACCACTGACGAGTTTGTTTAA
AGGTATAATAATAATGTAAACGGTAAAATATTCACAACTTAACCGGT
Found at i:73326 original size:100 final size:100
Alignment explanation
Indices: 73150--73329 Score: 245
Period size: 100 Copynumber: 1.8 Consensus size: 100
73140 AATAATAATG
* * * *
73150 TAACCGGTTAAAATAAAATAGGCGATACCTATTATATTAAACCACATGCCGATTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAACAGACGATACATATTATATTAAACCACATACCGATTTGTTTAAAGGT
*
73215 ATAATATTAATGTAAACGGTAAAATATTCATAACT
66 ATAATAATAATGTAAACGGTAAAATATTCATAACT
* * * * * *
73250 TAACCGGTTAAAATAAAACATACGCTACATATTATGTTAAACTACCA-ACCGGTTTGTTTAAATG
1 TAACCGGTTAAAATAAAACAGACGATACATATTATATTAAACCA-CATACCGATTTGTTTAAAGG
73314 TATAATAATAATGTAA
65 TATAATAATAATGTAA
73330 CCAGTTAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 66 0.97
101 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (100 bp):
TAACCGGTTAAAATAAAACAGACGATACATATTATATTAAACCACATACCGATTTGTTTAAAGGT
ATAATAATAATGTAAACGGTAAAATATTCATAACT
Found at i:74189 original size:108 final size:108
Alignment explanation
Indices: 74046--74318 Score: 293
Period size: 108 Copynumber: 2.5 Consensus size: 108
74036 ATTGGGTGCA
* * * * * *
74046 ACCTAGTATGTTAATATTTATTTATAACAAAATAAATATTTAACTTATTTTGTTGTCGTGGAATT
1 ACCTAATATGTTGATA-ATATTTATAACAAAATAAATAATTAAATTATTTTGTTATCGTGGAATT
* * *
74111 TCGAATGTCCCAT-CAGCTTAAACTTTGGCAACATATT-AGTTGCA-
65 TCGAAGGTCACATCCA-CTTAAACTTTGGCAACATATTAAG-T-AAT
*
74155 ACCTAATATGTTGTTAATATTTATAACAAAATAAATAATTAAATTATTTTGTTATCGTGGAATTT
1 ACCTAATATGTTGATAATATTTATAACAAAATAAATAATTAAATTATTTTGTTATCGTGGAATTT
* * * * *
74220 CTAAGGTCATATCCACTTAAACTTTGGTAATATTTTAAGTAAT
66 CGAAGGTCACATCCACTTAAACTTTGGCAACATATTAAGTAAT
* * ** *
74263 ACCTAATATGTTGATAATATTAATAATAAAATAAGCAATCAACA-TATTTTGTTATC
1 ACCTAATATGTTGATAATATTTATAACAAAATAAATAATTAA-ATTATTTTGTTATC
74319 ATCGGATTTC
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
107 1 0.01
108 120 0.86
109 18 0.13
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (108 bp):
ACCTAATATGTTGATAATATTTATAACAAAATAAATAATTAAATTATTTTGTTATCGTGGAATTT
CGAAGGTCACATCCACTTAAACTTTGGCAACATATTAAGTAAT
Found at i:75427 original size:6 final size:6
Alignment explanation
Indices: 75405--75443 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
75395 TTGATCGTGC
*
75405 ATTATA ATGTTTA ATTATA ATTATA ATTATA ATTA-A ATT
1 ATTATA AT-TATA ATTATA ATTATA ATTATA ATTATA ATT
75444 CATCGAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 4 0.13
6 21 0.70
7 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:76594 original size:15 final size:15
Alignment explanation
Indices: 76568--76610 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
76558 TAATTTATAA
76568 TTATACATTTAATATT
1 TTATA-ATTTAATATT
*
76584 TTATAATTTAACATT
1 TTATAATTTAATATT
* *
76599 TTCTAAATTAAT
1 TTATAATTTAAT
76611 TTAATGATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTTAATATT
Found at i:91134 original size:2 final size:2
Alignment explanation
Indices: 91127--91155 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91117 CTGACTGTGC
91127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91156 CACTTTCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91809 original size:24 final size:23
Alignment explanation
Indices: 91755--91827 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
91745 GTTCGTATTC
91755 GTTTGTTTAACGTTTGTGAACAT
1 GTTTGTTTAACGTTTGTGAACAT
* * *
91778 GCTCGTTTAATTGTTTGAT-AACAT
1 GTTTGTTTAA-CGTTTG-TGAACAT
* *
91802 GTTTGTTTAGCGTTCGTGAACAT
1 GTTTGTTTAACGTTTGTGAACAT
91825 GTT
1 GTT
91828 CATTTGACGT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 20 0.51
24 17 0.44
25 1 0.03
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.47
Consensus pattern (23 bp):
GTTTGTTTAACGTTTGTGAACAT
Found at i:91838 original size:23 final size:24
Alignment explanation
Indices: 91807--91865 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
91797 AACATGTTTG
*
91807 TTTAGCGTTCGTGAA-CATGTTCA
1 TTTAGCGTTCGTGAAGCATATTCA
91830 TTT-GACGTTCGT-AAGCATATTCA
1 TTTAG-CGTTCGTGAAGCATATTCA
91853 TTTAGCGTTCGTG
1 TTTAGCGTTCGTG
91866 TTCGTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.10
23 27 0.87
24 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (24 bp):
TTTAGCGTTCGTGAAGCATATTCA
Found at i:102465 original size:11 final size:11
Alignment explanation
Indices: 102449--102477 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
102439 AAGACTGCAC
102449 TTGCTGCAACT
1 TTGCTGCAACT
102460 TTGCTGCAACT
1 TTGCTGCAACT
102471 TTGCTGC
1 TTGCTGC
102478 TACCGCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.38
Consensus pattern (11 bp):
TTGCTGCAACT
Found at i:105093 original size:31 final size:31
Alignment explanation
Indices: 105058--105118 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
105048 TTAAGGATCA
105058 TTTTGTAATACTTCAATAAAATTGAATAACT
1 TTTTGTAATACTTCAATAAAATTGAATAACT
* ** *
105089 TTTTGTAATATTTTGATAAATTTGAATAAC
1 TTTTGTAATACTTCAATAAAATTGAATAAC
105119 CATCTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (31 bp):
TTTTGTAATACTTCAATAAAATTGAATAACT
Found at i:111139 original size:24 final size:22
Alignment explanation
Indices: 111107--111225 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 22
111097 CATTTAAATG
* *
111107 ATAAACGAACATAGATGAACGAAC
1 ATAAACGAACAT-G-TAAAAGAAC
111131 ATAAACGAACGGATGTAAAAGAAC
1 ATAAACGAAC--ATGTAAAAGAAC
**
111155 ATAAACGAACAAAATAAAAG-AC
1 ATAAACGAAC-ATGTAAAAGAAC
* *
111177 GTAAAACGAACACAGTAAATA-AAC
1 AT-AAACGAACA-TGTAAA-AGAAC
* *
111201 ATAAAC-AA-ACGTAAATGAAC
1 ATAAACGAACATGTAAAAGAAC
111221 ATAAA
1 ATAAA
111226 TGAAAATATA
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
20 13 0.17
21 1 0.01
22 6 0.08
23 24 0.31
24 31 0.40
25 1 0.01
26 2 0.03
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.13
Consensus pattern (22 bp):
ATAAACGAACATGTAAAAGAAC
Found at i:111206 original size:23 final size:22
Alignment explanation
Indices: 111128--111206 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
111118 TAGATGAACG
**
111128 AACATAAACGAACGGATGTAAAA
1 AACATAAACGAACACA-GTAAAA
* *
111151 GAACATAAACGAACAAAATAAAA
1 -AACATAAACGAACACAGTAAAA
* *
111174 GACGTAAAACGAACACAGTAAATA
1 AACAT-AAACGAACACAGTAAA-A
111198 AACATAAAC
1 AACATAAAC
111207 AAACGTAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
22 3 0.07
23 23 0.52
24 18 0.41
ACGTcount: A:0.61, C:0.15, G:0.13, T:0.11
Consensus pattern (22 bp):
AACATAAACGAACACAGTAAAA
Found at i:122813 original size:18 final size:17
Alignment explanation
Indices: 122777--122809 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
122767 TGGACCCAAA
122777 AAAATATACAATTTTAC
1 AAAATATACAATTTTAC
*
122794 AAAATATATAATTTTA
1 AAAATATACAATTTTA
122810 ACAATCCGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATACAATTTTAC
Found at i:123202 original size:22 final size:22
Alignment explanation
Indices: 123177--123242 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
123167 TAGTATGGTT
123177 GGCAATGCATACAATTGAGGAC
1 GGCAATGCATACAATTGAGGAC
*
123199 GGCAATGCATTCAATTGAGGAC
1 GGCAATGCATACAATTGAGGAC
123221 GGCAATGCATACAATTGAGGAC
1 GGCAATGCATACAATTGAGGAC
123243 TTTGAGAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (22 bp):
GGCAATGCATACAATTGAGGAC
Found at i:128679 original size:15 final size:15
Alignment explanation
Indices: 128659--128710 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
128649 TGAGACATTA
128659 CCCGCCCCGCATCTG
1 CCCGCCCCGCATCTG
128674 CCCGCCCCGCATCCT-
1 CCCGCCCCGCAT-CTG
* * *
128689 CCTGCCCCACATCCG
1 CCCGCCCCGCATCTG
128704 CCCGCCC
1 CCCGCCC
128711 AGCTAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.90
16 2 0.06
ACGTcount: A:0.08, C:0.65, G:0.15, T:0.12
Consensus pattern (15 bp):
CCCGCCCCGCATCTG
Found at i:132474 original size:31 final size:31
Alignment explanation
Indices: 132436--132505 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
132426 CTTTTAAAAC
132436 TTGCAATACAATCCCCCAACATTTA-TTCTAT
1 TTGCAATACAATCCCCCAACATTTAGTT-TAT
** * *
132467 TTGCAATATGATTCCCCAACATTTAGTTTGT
1 TTGCAATACAATCCCCCAACATTTAGTTTAT
132498 TTGCAATA
1 TTGCAATA
132506 TGATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (31 bp):
TTGCAATACAATCCCCCAACATTTAGTTTAT
Found at i:132506 original size:31 final size:31
Alignment explanation
Indices: 132449--132509 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
132439 CAATACAATC
132449 CCCCAACATTTATTCTATTTGCAATATGATT
1 CCCCAACATTTATTCTATTTGCAATATGATT
*
132480 CCCCAACATTTAGTT-TGTTTGCAATATGAT
1 CCCCAACATTTA-TTCTATTTGCAATATGAT
132510 ATTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (31 bp):
CCCCAACATTTATTCTATTTGCAATATGATT
Found at i:132741 original size:30 final size:31
Alignment explanation
Indices: 132686--132743 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
132676 ACAATCTCCT
*
132686 AACATTTAGTCTATTTGTAATATGATCCCCC
1 AACATTTAATCTATTTGTAATATGATCCCCC
132717 AACATTTAATCTATTTGT-ATATGATCC
1 AACATTTAATCTATTTGTAATATGATCC
132744 ACGAAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (31 bp):
AACATTTAATCTATTTGTAATATGATCCCCC
Found at i:132788 original size:30 final size:31
Alignment explanation
Indices: 132744--132804 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
132734 TATATGATCC
*
132744 ACGAAATAACTGTTAA-AGACCATATTGCAA
1 ACGAAATAAATGTTAAGAGACCATATTGCAA
* **
132774 ACGAACTAAATGTTAAGAGACTTTATTGCAA
1 ACGAAATAAATGTTAAGAGACCATATTGCAA
132805 GTTTTAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (31 bp):
ACGAAATAAATGTTAAGAGACCATATTGCAA
Found at i:137845 original size:7 final size:7
Alignment explanation
Indices: 137818--137860 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
137808 ATAATTGTGG
137818 TTATAATT
1 TTAT-ATT
*
137826 TTATAAGT
1 TTAT-ATT
137834 TTATATT
1 TTATATT
137841 TTATATT
1 TTATATT
137848 TTATATT
1 TTATATT
137855 TTATAT
1 TTATAT
137861 GTTGAGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 22 0.67
8 11 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (7 bp):
TTATATT
Found at i:141328 original size:21 final size:21
Alignment explanation
Indices: 141302--141341 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
141292 AGAACCCCAG
*
141302 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
141323 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
141342 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:144353 original size:20 final size:20
Alignment explanation
Indices: 144311--144353 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
144301 TTATTTTCAT
* *
144311 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
144331 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
144351 TTT
1 TTT
144354 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:147370 original size:47 final size:47
Alignment explanation
Indices: 147301--147448 Score: 242
Period size: 47 Copynumber: 3.1 Consensus size: 47
147291 TTTCTAATTG
147301 GTTTGTCGGTAGTTACGCATTGTCAGATCCCTCTTTGGTAAAATGTT
1 GTTTGTCGGTAGTTACGCATTGTCAGATCCCTCTTTGGTAAAATGTT
* * * *
147348 GTTTGTCGGTAATTACGCATTGTCAGAGCTCTCTTTGGTAAAATATT
1 GTTTGTCGGTAGTTACGCATTGTCAGATCCCTCTTTGGTAAAATGTT
* *
147395 GTTTGTCAGTAGTTACGCATTGTCATATCCCTCTTTGGTAAAATGTT
1 GTTTGTCGGTAGTTACGCATTGTCAGATCCCTCTTTGGTAAAATGTT
147442 GTTTGTC
1 GTTTGTC
147449 AATATAATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (47 bp):
GTTTGTCGGTAGTTACGCATTGTCAGATCCCTCTTTGGTAAAATGTT
Found at i:150549 original size:3 final size:3
Alignment explanation
Indices: 150541--150615 Score: 96
Period size: 3 Copynumber: 25.0 Consensus size: 3
150531 TTTGATTTAT
* * * *
150541 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA GTA TTA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
150589 TTA CAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
150616 AATATATATA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:151974 original size:21 final size:23
Alignment explanation
Indices: 151940--151993 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
151930 TGCTTTTAAA
* *
151940 TATATAGTTCTAATTGTA-TTTTT
1 TATATA-TTTTAATTGTACTTGTT
*
151963 TAT-TATTTTAATTTTACTTGTT
1 TATATATTTTAATTGTACTTGTT
151985 TATATATTT
1 TATATATTT
151994 AAATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.35
22 9 0.35
23 8 0.31
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.65
Consensus pattern (23 bp):
TATATATTTTAATTGTACTTGTT
Found at i:163436 original size:11 final size:10
Alignment explanation
Indices: 163413--163458 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
163403 ATTATGCTTG
163413 AAGAAAAAAA
1 AAGAAAAAAA
163423 AAGAAAACAAA
1 AAGAAAA-AAA
*
163434 AAG---AAGA
1 AAGAAAAAAA
163441 AAGAAAAAAA
1 AAGAAAAAAA
163451 AAGAAAAA
1 AAGAAAAA
163459 GGGGGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 5 0.17
8 1 0.03
10 18 0.60
11 6 0.20
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:163440 original size:14 final size:13
Alignment explanation
Indices: 163416--163458 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
163406 ATGCTTGAAG
163416 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
163429 ACAAAAAGAAGAAA
1 A-AAAAAAAAGAAA
163443 GAAAAAAAAAGAAA
1 -AAAAAAAAAGAAA
163457 AA
1 AA
163459 GGGGGGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 3 0.12
14 22 0.85
15 1 0.04
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:163441 original size:24 final size:23
Alignment explanation
Indices: 163412--163459 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
163402 TATTATGCTT
163412 GAAGAAAAAAAAAGAAAACAAAAA
1 GAAGAAAAAAAAA-AAAACAAAAA
* *
163436 GAAGAAAGAAAAAAAAAGAAAAA
1 GAAGAAAAAAAAAAAAACAAAAA
163459 G
1 G
163460 GGGGGTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAAAAAAAAACAAAAA
Found at i:164960 original size:83 final size:83
Alignment explanation
Indices: 164821--165122 Score: 516
Period size: 83 Copynumber: 3.6 Consensus size: 83
164811 AACAAATGCC
* *
164821 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
164886 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
* *
164904 ATGTGCTCATAGCATCTTCTAGAAGTGGTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
**
164969 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAATA
164987 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
165052 ATTGAATTTGAAAG-ATAA
66 ATTGAATTTGGAAGAAT-A
*
165070 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
165123 ATATGAAACC
Statistics
Matches: 206, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 206 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGGAAGAATA
Found at i:165279 original size:115 final size:115
Alignment explanation
Indices: 165077--165392 Score: 544
Period size: 115 Copynumber: 2.8 Consensus size: 115
165067 TAAATGTGCT
*
165077 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
***
165142 ATCATCAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
66 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
*
165192 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAATCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
165257 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
66 ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
* *
165307 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
* *
165371 ATCATTGGAATTAAAAGATGAA
66 ATCATTGGATTTGAAAGATGAA
165393 CTGCATGATC
Statistics
Matches: 191, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 32 0.17
115 159 0.83
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
ATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
Found at i:166285 original size:113 final size:113
Alignment explanation
Indices: 166086--166504 Score: 628
Period size: 113 Copynumber: 3.7 Consensus size: 113
166076 ATCCATAACA
166086 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
166151 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTG
* * *
166199 GTGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
166264 TCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCATCAATTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTG
* * *
166312 ATGGATCAGCCTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
** *
166377 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTG
* * * * * * **
166425 ATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAGAACTCGTCAT-CTGAA-GAAGAAG-AG
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAG
*
166487 TTCATAATTAGAAGAATT
65 TTCATAATGAGAAGAATT
166505 CGTCATCTGA
Statistics
Matches: 282, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
111 19 0.07
112 7 0.02
113 255 0.90
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTG
Found at i:166487 original size:38 final size:39
Alignment explanation
Indices: 166445--166524 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
166435 ATTGCCAGAT
166445 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAA-GA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAATGA
* *
166483 AGAGTTCATAATTAGAAGAATTCGTCATCTGAAGAATGA
1 AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAATGA
166522 AGA
1 AGA
166525 ATAAGTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 34 0.87
39 5 0.13
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (39 bp):
AGAGTTCATAATCAGAAGAACTCGTCATCTGAAGAATGA
Found at i:166536 original size:154 final size:147
Alignment explanation
Indices: 166333--166706 Score: 547
Period size: 154 Copynumber: 2.5 Consensus size: 147
166323 TTTCCAGAAA
166333 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAA-AAGTTCATAATGAGAAGAATTTGTT
166398 CAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAG
64 CAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAA-
* *
166463 AACTCGTCATCTGAAGAAGAAG
128 AA-AC-TCATCTGAAGAAAAAG
*
166485 -AGTTCATAATTAGAAGAATTCGTCATCTGAAGAATGAAGAATAAGTTCATAATGAGAAGAATTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA-GAAGAA-AAGTTCATAATGAGAAGAATTT
* * * *
166549 GTTCAACCTTTTGTTTAAATTCATCATTTGATGTATTAACATTGCCAGGTAGAGTTCATAATGAG
61 GTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAG
166614 AAAAACTCATCTGAAGAAAAAG
126 AAAAACTCATCTGAAGAAAAAG
* **
166636 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG--AAGTTCACAATGAGAAGAGCTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAGTTCATAATGAGAAGAATTTGTTCA
166699 ACCTTTTG
66 ACCTTTTG
166707 CATAATTCTA
Statistics
Matches: 205, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
145 32 0.16
148 4 0.02
149 12 0.06
150 1 0.00
151 32 0.16
152 18 0.09
153 3 0.01
154 103 0.50
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (147 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATCAGAAAAA
CTCATCTGAAGAAAAAG
Found at i:166688 original size:36 final size:36
Alignment explanation
Indices: 166601--166689 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
166591 TGCCAGGTAG
*
166601 AGTTCATAATGAGAAAAACTCATCTGAAGAAAAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
166637 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
*
166673 AGTTCACAATGAGAAGA
1 AGTTCATAATGAGAAGA
166690 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.19
Consensus pattern (36 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGA
Found at i:166866 original size:124 final size:122
Alignment explanation
Indices: 166640--166918 Score: 316
Period size: 124 Copynumber: 2.3 Consensus size: 122
166630 AAAAAGAAGT
* * *
166640 TCATAATGAGAAGAACTCATCTG---AAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGCTCACAATGAGAAGAGCTTATTCAAC
* * * * * *
166701 CTTTTGCATAATTCTATCACAGAAGTAGATAGATTAGCATCAACCTTTCCAG-AGAAAGC
66 CTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAACC---CCAGCAGAAAGC
* * * *
166760 TCATAATGAGAAAAACTCATCTGAAAAAGAAAGAAAAAGCTCATAATGAGAAGAGCTTATTTAAT
1 TCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGCTCACAATGAGAAGAGCTTATTCAAC
* * * *
166825 CTTTTGAATGACTCTATCACAGAAGAAAATAGGTCAACATCATCCCCAGCAGAAAGT
66 CTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAACCCCAGCAGAAAGC
*
166882 TCATAATGAGAAGAATTCATCTGAAGAAAGAGAAGAA
1 TCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
166919 TTTATTCAAC
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
120 22 0.17
121 4 0.03
122 29 0.22
123 8 0.06
124 70 0.53
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (122 bp):
TCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGCTCACAATGAGAAGAGCTTATTCAAC
CTTTTGAATAACTCTATCACAGAAGAAAATAGATCAACATCAACCCCAGCAGAAAGC
Found at i:176611 original size:18 final size:19
Alignment explanation
Indices: 176565--176620 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
176555 CAGCCTTCAC
*
176565 AAATCATTGAATGAG-AAGT
1 AAATCATCGAA-GAGTAAGT
176584 AAATTCATCGAAGAGTAAG-
1 AAA-TCATCGAAGAGTAAGT
176603 AAATCATCGAAGAGTAAG
1 AAATCATCGAAGAGTAAG
176621 GGCTGATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 15 0.44
19 9 0.26
20 10 0.29
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (19 bp):
AAATCATCGAAGAGTAAGT
Found at i:181057 original size:15 final size:15
Alignment explanation
Indices: 181037--181067 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
181027 TGAGTTGCTC
181037 TTTGATTGTTTTCTG
1 TTTGATTGTTTTCTG
181052 TTTGATTGTTTTCTG
1 TTTGATTGTTTTCTG
181067 T
1 T
181068 GCTAGTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.68
Consensus pattern (15 bp):
TTTGATTGTTTTCTG
Found at i:182101 original size:20 final size:20
Alignment explanation
Indices: 182076--182123 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
182066 AACCGTTCAT
182076 CATTCAGCGTTGAATGGCTC
1 CATTCAGCGTTGAATGGCTC
*
182096 CATTCAGCGTTGAATGGTTC
1 CATTCAGCGTTGAATGGCTC
182116 CATTCAGC
1 CATTCAGC
182124 AGTAAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (20 bp):
CATTCAGCGTTGAATGGCTC
Found at i:183300 original size:40 final size:40
Alignment explanation
Indices: 183256--183443 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 40
183246 CCCAGTTTCT
*
183256 AAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTC
1 AAATTCGCAACACGAA-TTGTCAAATTCGCAACAC-GAAGTC
* ** *
183296 AAATTCACAACAC-AAAAGTCAAATTCGCAACGCGAA-TC
1 AAATTCGCAACACGAATTGTCAAATTCGCAACACGAAGTC
*
183334 TGTAAA-TCGCAACACAGAA--GTCAAATTCGCAACGCGATAGTC
1 ---AAATTCGCAACAC-GAATTGTCAAATTCGCAACACGA-AGTC
*
183376 AAATTCGCAACACTGAATT-TCAAATTCGCAACACAAAAGTC
1 AAATTCGCAACAC-GAATTGTCAAATTCGCAACAC-GAAGTC
* *
183417 AAATTCGCAACGCGAA-AGTCAAATTCG
1 AAATTCGCAACACGAATTGTCAAATTCG
183444 TAAAGCGCGT
Statistics
Matches: 123, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
38 4 0.03
39 11 0.09
40 69 0.56
41 34 0.28
42 5 0.04
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (40 bp):
AAATTCGCAACACGAATTGTCAAATTCGCAACACGAAGTC
Found at i:183308 original size:20 final size:20
Alignment explanation
Indices: 183280--183443 Score: 167
Period size: 20 Copynumber: 8.2 Consensus size: 20
183270 AATTTGTAAA
183280 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
183300 TCACAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
183320 TCGCAACGC-GAA-TCTGTAAA-
1 TCGCAACACAGAAGTC---AAAT
183340 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
183360 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
183380 TCGCAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
*
183401 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
183421 TCGCAACGC-GAAAGTCAAAT
1 TCGCAACACAG-AAGTCAAAT
183441 TCG
1 TCG
183444 TAAAGCGCGT
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.02
19 7 0.06
20 84 0.70
21 25 0.21
22 2 0.02
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:183327 original size:60 final size:60
Alignment explanation
Indices: 183256--183443 Score: 279
Period size: 60 Copynumber: 3.1 Consensus size: 60
183246 CCCAGTTTCT
* * *
183256 AAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCACAACACAAAAGTC
1 AAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
* *
183316 AAATTCGCAACGCGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGATAGTC
1 AAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
* * *
183376 AAATTCGCAACACTGAATTT-CAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGC-GAATTTGTAAA-TCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
183437 AAATTCG
1 AAATTCG
183444 TAAAGCGCGT
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
60 70 0.60
61 46 0.40
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (60 bp):
AAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAAAGTC
Found at i:183474 original size:13 final size:13
Alignment explanation
Indices: 183456--183480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183446 AAGCGCGTTT
183456 ATTTTCGCAACAA
1 ATTTTCGCAACAA
183469 ATTTTCGCAACA
1 ATTTTCGCAACA
183481 CTGTTTACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ATTTTCGCAACAA
Found at i:183534 original size:20 final size:20
Alignment explanation
Indices: 183509--183549 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
183499 AATTAGCGTA
183509 GCGAATTTGAAAATCACGTT
1 GCGAATTTGAAAATCACGTT
* *
183529 GCGAATTTGTAAATCGCGTT
1 GCGAATTTGAAAATCACGTT
183549 G
1 G
183550 TGATAGTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (20 bp):
GCGAATTTGAAAATCACGTT
Found at i:183607 original size:20 final size:20
Alignment explanation
Indices: 183581--183626 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
183571 TCGGTAATTA
*
183581 GCGTTGCGAATTTGAAAATC
1 GCGTTGCAAATTTGAAAATC
* *
183601 TCGTTGCAAATTTGTAAATC
1 GCGTTGCAAATTTGAAAATC
183621 GCGTTG
1 GCGTTG
183627 TGATAGTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (20 bp):
GCGTTGCAAATTTGAAAATC
Found at i:183613 original size:77 final size:77
Alignment explanation
Indices: 183484--183684 Score: 339
Period size: 77 Copynumber: 2.6 Consensus size: 77
183474 CGCAACACTG
* *
183484 TTTACCTATATCGGTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCGTT
1 TTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCACGTTGCAAATTTGTAAATCGCGTT
183549 GTGATAGTACTA
66 GTGATAGTACTA
*
183561 TTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTT
1 TTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCACGTTGCAAATTTGTAAATCGCGTT
* *
183626 GTGATAGTATTG
66 GTGATAGTACTA
* *
183638 TTTACCTATATCGGTAATTAGCGTTGCGAATTTGTAAATCGCGTTGC
1 TTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCACGTTGC
183685 GATATAAGTA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 117 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (77 bp):
TTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCACGTTGCAAATTTGTAAATCGCGTT
GTGATAGTACTA
Found at i:183681 original size:20 final size:20
Alignment explanation
Indices: 183658--183747 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
183648 TCGGTAATTA
183658 GCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTGTAAATC
** * *
183678 GCGTTGCGATATAAGTAATTA
1 GCGTTGCGA-ATTTGTAAATC
* *
183699 GCGTAGCGAATTTGAAAATC
1 GCGTTGCGAATTTGTAAATC
183719 GCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTGTAAATC
183739 GCGTTGCGA
1 GCGTTGCGA
183748 TAATACTGTT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 42 0.74
21 15 0.26
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTGTAAATC
Found at i:183702 original size:21 final size:20
Alignment explanation
Indices: 183651--183709 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
183641 ACCTATATCG
**
183651 GTAATTAGCGTTGCGAATTT
1 GTAATTAGCGTTGCGAATAA
* *
183671 GTAAATCGCGTTGCGATATAA
1 GTAATTAGCGTTGCGA-ATAA
*
183692 GTAATTAGCGTAGCGAAT
1 GTAATTAGCGTTGCGAAT
183710 TTGAAAATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (20 bp):
GTAATTAGCGTTGCGAATAA
Found at i:183782 original size:118 final size:118
Alignment explanation
Indices: 183574--183804 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
183564 ACCTATATCG
* * * * *
183574 GTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTGTGATAGTATTGT
1 GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCAAATTTGTAAATCGCGTTGCGATAATACTGT
* *
183639 TTACCTATATCGGTAATTAGCGTTGCGAATTTGTAAATCGCGTTGCGATATAA
66 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCGCGTTGCGATATAA
*
183692 GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCGAATTTGTAAATCGCGTTGCGATAATACTGT
1 GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCAAATTTGTAAATCGCGTTGCGATAATACTGT
*
183757 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCGA
66 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCGCGTTGCGA
183805 ATTTGTAAAT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (118 bp):
GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCAAATTTGTAAATCGCGTTGCGATAATACTGT
TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCGCGTTGCGATATAA
Found at i:183789 original size:77 final size:77
Alignment explanation
Indices: 183692--183975 Score: 365
Period size: 77 Copynumber: 3.7 Consensus size: 77
183682 TGCGATATAA
* * * *
183692 GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCGAATTTGTAAATCGCGTTGCGATAATACTGT
1 GTAAATAGCGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGT
183757 TTACCTATATCG
66 TTACCTATATCG
* * *
183769 GTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGT
1 GTAAATAGCGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGT
*
183834 TTACCTATATCA
66 TTACCTATATCG
* * * * *
183846 GTAAATAGCGTTACGAATTTGAAAATCTCGTTGTGAATTTGAAAATCGCGTTGAGATAGTACTGG
1 GTAAATAGCGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGT
*
183911 TTACCTACATCG
66 TTACCTATATCG
* * * *
183923 GTAAACAGCATTGCG-ATTT-ACATATTCGCGTTACGAATTTGGAAAATCGCGTT
1 GTAAATAGCGTTGCGAATTTGA-A-AATCGCGTTGCGAATTT-GAAAATCGCGTT
183976 ACGAATTTGA
Statistics
Matches: 184, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
75 1 0.01
76 5 0.03
77 166 0.90
78 12 0.07
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (77 bp):
GTAAATAGCGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGT
TTACCTATATCG
Found at i:183802 original size:20 final size:20
Alignment explanation
Indices: 183776--183824 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
183766 TCGGTAAGTA
183776 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* *
183796 TCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTGAAAATC
183816 GCGTTGCGA
1 GCGTTGCGA
183825 TAGTACTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:183829 original size:195 final size:195
Alignment explanation
Indices: 183497--183878 Score: 647
Period size: 195 Copynumber: 2.0 Consensus size: 195
183487 ACCTATATCG
* *
183497 GTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCGTTGTGATAGTACTAT
1 GTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCGTTGCGATAATACTAT
*
183562 TTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTG
66 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTG
* * * * * *
183627 TGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGTAAATCGCGTTGCGATATAA
131 CGATAGTACTGTTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCGCGTTGCGATATAA
* *
183692 GTAATTAGCGTAGCGAATTTGAAAATCGCGTTGCGAATTTGTAAATCGCGTTGCGATAATACTGT
1 GTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCGTTGCGATAATACTAT
*
183757 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTG
66 TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTG
*
183822 CGATAGTACTGTTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCTCGTTG
131 CGATAGTACTGTTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCGCGTTG
183879 TGAATTTGAA
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
195 174 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (195 bp):
GTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCGTTGCGATAATACTAT
TTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTG
CGATAGTACTGTTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCGCGTTGCGATATAA
Found at i:183877 original size:20 final size:20
Alignment explanation
Indices: 183848--183897 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
183838 CTATATCAGT
*
183848 AAATAGCGTTACGAATTTGA
1 AAATCGCGTTACGAATTTGA
* **
183868 AAATCTCGTTGTGAATTTGA
1 AAATCGCGTTACGAATTTGA
183888 AAATCGCGTT
1 AAATCGCGTT
183898 GAGATAGTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
AAATCGCGTTACGAATTTGA
Found at i:183898 original size:20 final size:20
Alignment explanation
Indices: 183860--183898 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
183850 ATAGCGTTAC
*
183860 GAATTTGAAAATCTCGTTGT
1 GAATTTGAAAATCGCGTTGT
183880 GAATTTGAAAATCGCGTTG
1 GAATTTGAAAATCGCGTTG
183899 AGATAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (20 bp):
GAATTTGAAAATCGCGTTGT
Found at i:183972 original size:21 final size:21
Alignment explanation
Indices: 183948--184009 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
183938 ATTTACATAT
183948 TCGCGTTACGAATTTGGAAAA
1 TCGCGTTACGAATTTGGAAAA
*
183969 TCGCGTTACGAATTTGAAAAA
1 TCGCGTTACGAATTTGGAAAA
* * *
183990 TGGCGTTGCGATTTTGGAAA
1 TCGCGTTACGAATTTGGAAA
184010 CCCGCGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCGTTACGAATTTGGAAAA
Found at i:183983 original size:272 final size:274
Alignment explanation
Indices: 183480--184022 Score: 745
Period size: 272 Copynumber: 2.0 Consensus size: 274
183470 TTTTCGCAAC
*
183480 ACTGTTTACCTATATCGGTAATTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCG
1 ACTGTTTACCTATATCGGTAAGTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCG
* * * *
183545 CGTTGTGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCAA
66 CGTTGCGATAGTACTATTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCTCGTTGCAA
* * * * * ** * **
183610 ATTTGTAAATCGCGTTGTGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGTAA
131 ATTTGAAAATCGCGTTGAGATAGTACTGGTTACCTACATCGGTAAACAGCATTGCGAATTTACAA
* * * * *
183675 ATCGCGTTGCGATATAAGTAATTAGCGTAGCGAATTTG-AAAATCGCGTTGCGAATTTGTAAA-T
196 ATCGCGTTACGATATAAGAAAATAGCGTAGCGAATTTGAAAAATCGCGTTGCGAATTTGGAAACC
183738 CGCGTTGCGATAAT
261 CGCGTTGCGATAAT
* *
183752 ACTGTTTACCTATATCGGTAAGTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCG
1 ACTGTTTACCTATATCGGTAAGTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCG
* **
183817 CGTTGCGATAGTACTGTTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCTCGTTGTGA
66 CGTTGCGATAGTACTATTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCTCGTTGCAA
183882 ATTTGAAAATCGCGTTGAGATAGTACTGGTTACCTACATCGGTAAACAGCATTGCG-ATTTACAT
131 ATTTGAAAATCGCGTTGAGATAGTACTGGTTACCTACATCGGTAAACAGCATTGCGAATTTACA-
* ** * * *
183946 ATTCGCGTTACGA-ATTTGGAAAATCGCGTTA-CGAATTTGAAAAATGGCGTTGCGATTTTGGAA
195 AATCGCGTTACGATA-TAAGAAAATAGCG-TAGCGAATTTGAAAAATCGCGTTGCGAATTTGGAA
184009 ACCCGCGTTGCGAT
258 ACCCGCGTTGCGAT
184023 TTACATATTT
Statistics
Matches: 235, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
271 6 0.03
272 195 0.83
273 23 0.10
274 11 0.05
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (274 bp):
ACTGTTTACCTATATCGGTAAGTAGCGTAGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCG
CGTTGCGATAGTACTATTTACCTATATCAGTAAATAGCGTTACGAATTTGAAAATCTCGTTGCAA
ATTTGAAAATCGCGTTGAGATAGTACTGGTTACCTACATCGGTAAACAGCATTGCGAATTTACAA
ATCGCGTTACGATATAAGAAAATAGCGTAGCGAATTTGAAAAATCGCGTTGCGAATTTGGAAACC
CGCGTTGCGATAAT
Found at i:184264 original size:36 final size:30
Alignment explanation
Indices: 184227--184287 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
184217 AAAAAATTAA
184227 ATATAAATAGTGATTATTATGTTTTAGGAG
1 ATATAAATAGTGATTATTATGTTTTAGGAG
184257 ATATAAATAGTGATTATTATGTTTTAGGAG
1 ATATAAATAGTGATTATTATGTTTTAGGAG
184287 A
1 A
184288 CATGTCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.43
Consensus pattern (30 bp):
ATATAAATAGTGATTATTATGTTTTAGGAG
Found at i:185538 original size:12 final size:12
Alignment explanation
Indices: 185521--185545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
185511 ATACAACATG
185521 ATATATGCATAC
1 ATATATGCATAC
185533 ATATATGCATAC
1 ATATATGCATAC
185545 A
1 A
185546 CCATACAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATATATGCATAC
Found at i:185692 original size:34 final size:33
Alignment explanation
Indices: 185650--185807 Score: 119
Period size: 34 Copynumber: 5.1 Consensus size: 33
185640 AAATGCATGC
* *
185650 ATACTACATATATGATACATGCATTAATAAATT
1 ATACTACATACATGATACATGCATTAATAAAGT
*
185683 ATACATACATGCATGATACATGCATTAATAAAGT
1 ATAC-TACATACATGATACATGCATTAATAAAGT
*
185717 ATACTTACATAC---ATACAT--A-T-A-ACA-T
1 ATAC-TACATACATGATACATGCATTAATAAAGT
* * *
185742 AT-CGCACATGCATCATACATGCATTAATAAA-T
1 ATAC-TACATACATGATACATGCATTAATAAAGT
*
185774 -TA-TACATACAT-ATACATGCATTAATAAATT
1 ATACTACATACATGATACATGCATTAATAAAGT
185804 ATAC
1 ATAC
185808 ATGCATAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
24 6 0.06
25 3 0.03
26 2 0.02
27 7 0.07
28 1 0.01
29 19 0.19
30 9 0.09
31 10 0.10
32 3 0.03
33 4 0.04
34 36 0.36
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (33 bp):
ATACTACATACATGATACATGCATTAATAAAGT
Found at i:185875 original size:4 final size:4
Alignment explanation
Indices: 185852--186041 Score: 72
Period size: 4 Copynumber: 46.8 Consensus size: 4
185842 TTAATACATT
* * *
185852 ATAC AAAC ATAC ATAG ATAC ATAC -TGCAC AGTGC ATAC ATAC ATAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC AT--AC A-TAC ATAC ATAC ATAC ATAC
* * * * *
185901 GTAC ATATC ATAC ATTAG AT-C -TAAC ATAC GTAC ATTAG AT-C GA-AA
1 ATAC ATA-C ATAC A-TAC ATAC AT-AC ATAC ATAC A-TAC ATAC -ATAC
* * * * * *
185946 ATAC ATAC ATACC ATAC ATAC ATGC ATGC ATGC ATGC ATTA- ATAA AT-T
1 ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC
* * *
185994 ATAC ATAC ATAT ATATC ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
186042 TATTACATAA
Statistics
Matches: 143, Mismatches: 24, Indels: 38
0.70 0.12 0.19
Matches are distributed among these distances:
2 1 0.01
3 8 0.06
4 110 0.77
5 23 0.16
7 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:186966 original size:15 final size:16
Alignment explanation
Indices: 186946--186983 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
186936 ATTTGAATAT
*
186946 ATTTATAGA-ATAAAA
1 ATTTATAAATATAAAA
186961 ATTTATAAATATAAAA
1 ATTTATAAATATAAAA
*
186977 ATATATA
1 ATTTATA
186984 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTTATAAATATAAAA
Found at i:188438 original size:19 final size:18
Alignment explanation
Indices: 188396--188438 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
188386 CAGTAATCTT
**
188396 ATTCCCTGATAATCTTTT
1 ATTCCCTGATAATCTTAC
188414 ATTTCCACTGATAATCTTAC
1 A-TTCC-CTGATAATCTTAC
188434 ATTCC
1 ATTCC
188439 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 8 0.38
20 12 0.57
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (18 bp):
ATTCCCTGATAATCTTAC
Found at i:188700 original size:2 final size:2
Alignment explanation
Indices: 188695--188724 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
188685 TATAATTTAG
188695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188725 TATTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:190735 original size:34 final size:34
Alignment explanation
Indices: 190692--190816 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
190682 TTCGTCCTAC
190692 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
190726 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
190761 GCTAGGATTC--A-----AAAAATAGGATATAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
190790 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
190817 CCACAAGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 12 0.16
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:191349 original size:27 final size:28
Alignment explanation
Indices: 191319--191393 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
191309 ATATATAGCT
191319 TTTACT-TTTTTATATTTTACTCATT-TA
1 TTTACTATTTTTATATTTTACTC-TTATA
191346 TTTATCTATTTTTATA-TTTA-TCTTATA
1 TTTA-CTATTTTTATATTTTACTCTTATA
* *
191373 TTTA-TGTTTTTATCTTTTACT
1 TTTACTATTTTTATATTTTACT
191394 TGTTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 8 0.20
26 6 0.15
27 13 0.32
28 6 0.15
29 8 0.20
ACGTcount: A:0.21, C:0.09, G:0.01, T:0.68
Consensus pattern (28 bp):
TTTACTATTTTTATATTTTACTCTTATA
Found at i:195736 original size:22 final size:22
Alignment explanation
Indices: 195708--195804 Score: 65
Period size: 22 Copynumber: 4.3 Consensus size: 22
195698 AATCAAGAAC
*
195708 AAAAAAAAA-GAAGCAAAAA-AG
1 AAAAAAAAACAAAG-AAAAAGAG
195729 AAAAAAAAACAAAGAAAAAGAG
1 AAAAAAAAACAAAGAAAAAGAG
* *
195751 AAACAAGAACTAAAGGAAAAAAGAG
1 AAAAAAAAAC-AAA-G-AAAAAGAG
** *
195776 CAAAAATCAA-AAAGAAAAAGGG
1 -AAAAAAAAACAAAGAAAAAGAG
*
195798 ACAAAAA
1 AAAAAAA
195805 GCACATGCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
21 18 0.30
22 20 0.33
23 4 0.07
24 4 0.07
25 8 0.13
26 6 0.10
ACGTcount: A:0.75, C:0.07, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAAAGAAAAAGAG
Found at i:196426 original size:22 final size:22
Alignment explanation
Indices: 196398--196441 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
196388 AGCTACCCCA
196398 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
196420 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
196442 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:197409 original size:37 final size:37
Alignment explanation
Indices: 197324--197433 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
197314 GTGCTCACTA
197324 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
197360 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
197397 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
197434 ATTGAAAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 31 0.46
37 34 0.50
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:197518 original size:102 final size:102
Alignment explanation
Indices: 197342--197796 Score: 784
Period size: 102 Copynumber: 4.5 Consensus size: 102
197332 CTTGAGACAG
** * *
197342 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
197407 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
197444 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
197509 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
197546 TTTCCCTTGAAATGAATTTTGTCTCTCTTAAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
197611 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
197648 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
197713 TGAGACAGTTTCTCTTGAAACATAAATATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
197750 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAA
197797 GCATAAACAT
Statistics
Matches: 332, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 332 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:197621 original size:37 final size:37
Alignment explanation
Indices: 197546--197632 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
197536 ATTGGAAACA
** * *
197546 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTAAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
*
197582 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
*
197619 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
197633 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
Found at i:197705 original size:37 final size:38
Alignment explanation
Indices: 197662--197739 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
197652 CCTTGAAATG
* *
197662 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACA-A
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
* *
197699 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
197737 AAT
1 AAT
197740 ATTGAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (38 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
Found at i:197789 original size:65 final size:65
Alignment explanation
Indices: 197699--197868 Score: 288
Period size: 65 Copynumber: 2.6 Consensus size: 65
197689 CTCGAAACAA
* *
197699 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
* * *
197764 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAGCATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
197829 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAT
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAAT
197869 TTTGTCTCCC
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
64 3 0.03
65 94 0.97
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
Found at i:197804 original size:167 final size:169
Alignment explanation
Indices: 197582--197899 Score: 532
Period size: 167 Copynumber: 1.9 Consensus size: 169
197572 CTTAAGATAG
*
197582 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
197647 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
197712 TTGAGACAG-TTTCTCTTGAAACATAAATATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
** * * *
197750 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAGCATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
197814 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
197879 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
197900 GCATCATCTT
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 116 0.83
168 23 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
Found at i:197926 original size:103 final size:104
Alignment explanation
Indices: 197764--197999 Score: 257
Period size: 104 Copynumber: 2.3 Consensus size: 104
197754 CCTTGAAATG
* *
197764 AATTTCGTCTCTCTTGAGATAG-TTTCTCTTGAAGCATAAACATTGAAAACATTTCCCTT-GAAA
1 AATTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAGCATAAACATTGAAAACATTTCCCTTGGAAA
* * * *
197827 TGAATTTCGTCT-CTCTTGAGACAGTTTCTCTT-GAAACAA
66 T-AATTTCATCTCCCCGTGAGACAATTTCT-TTCGAAACAA
* * * * * ** * *
197866 AATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAGCATCATCTTTGAATATGTTTTCCTTGGAAC
1 AATTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAGCATAAACATTGAAAACATTTCCCTTGGAAA
* *
197931 TAATTTCATCTCCCCGTGAGACAATTTCTTTCGGAACTA
66 TAATTTCATCTCCCCGTGAGACAATTTCTTTCGAAACAA
*
197970 AGTTTTGTCTCTCTTGAGACAGTTTT-TCTT
1 AATTTTGTCTCTCTTGAGACAGTTTTCTCTT
198000 AAAACAAAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
102 19 0.17
103 45 0.41
104 47 0.42
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (104 bp):
AATTTTGTCTCTCTTGAGACAGTTTTCTCTTGAAGCATAAACATTGAAAACATTTCCCTTGGAAA
TAATTTCATCTCCCCGTGAGACAATTTCTTTCGAAACAA
Found at i:198042 original size:37 final size:37
Alignment explanation
Indices: 197972--198043 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
197962 CGGAACTAAG
* * **
197972 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
198009 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
198044 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:198882 original size:105 final size:104
Alignment explanation
Indices: 198647--199202 Score: 778
Period size: 105 Copynumber: 5.3 Consensus size: 104
198637 GCCATCCGCG
* * * * * * *
198647 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAATGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
198712 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCCA
198756 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
198821 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
198861 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
198926 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
198966 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
199031 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* ** *
199066 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAATACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * **
199131 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
199172 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
199203 TGGAACAATG
Statistics
Matches: 413, Mismatches: 27, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
100 82 0.20
101 4 0.01
102 3 0.01
103 4 0.01
104 4 0.01
105 209 0.51
106 82 0.20
107 3 0.01
109 22 0.05
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:199794 original size:34 final size:34
Alignment explanation
Indices: 199751--199875 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
199741 TTCGTCCTAC
199751 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
199785 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
199820 GCTAGGATTC--A-----AAAAATAGGATATAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
199849 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
199876 CCACAAGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 12 0.16
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:200429 original size:16 final size:18
Alignment explanation
Indices: 200408--200442 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
200398 TTTACTAATT
200408 TATTTATC-TAT-TTTTA
1 TATTTATCTTATATTTTA
200424 TATTTATCTTATATTTTA
1 TATTTATCTTATATTTTA
200442 T
1 T
200443 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATCTTATATTTTA
Found at i:218020 original size:40 final size:41
Alignment explanation
Indices: 217941--218022 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
217931 CATAAATGAT
* * * *
217941 TGTATAAGCTTTGGGTTGTTCATCAGCAAAGAAATCAAAAC
1 TGTATAAGCTTTAGATTGTTCAACAGCAAAGAAACCAAAAC
*
217982 TGTATAGGCTTTAGATTGTT-AACAGCAAAGAAACCAAAAC
1 TGTATAAGCTTTAGATTGTTCAACAGCAAAGAAACCAAAAC
218022 T
1 T
218023 ATCTATCACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 19 0.53
41 17 0.47
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (41 bp):
TGTATAAGCTTTAGATTGTTCAACAGCAAAGAAACCAAAAC
Found at i:230326 original size:10 final size:10
Alignment explanation
Indices: 230311--230336 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
230301 CAAAGAAGGG
230311 CAAGAACCTC
1 CAAGAACCTC
230321 CAAGAACCTC
1 CAAGAACCTC
230331 CAAGAA
1 CAAGAA
230337 AAGAGGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.35, G:0.12, T:0.08
Consensus pattern (10 bp):
CAAGAACCTC
Found at i:233042 original size:25 final size:25
Alignment explanation
Indices: 233014--233072 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
233004 AATATTATAA
*
233014 AAATAAATTATAAAAGGGCTCTCTT
1 AAATAAATTATAAAAGGACTCTCTT
233039 AAATAAATTATAAAAGGACTCTCTT
1 AAATAAATTATAAAAGGACTCTCTT
233064 AAATAAATT
1 AAATAAATT
233073 TGATTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (25 bp):
AAATAAATTATAAAAGGACTCTCTT
Found at i:234734 original size:26 final size:26
Alignment explanation
Indices: 234700--234752 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
234690 AGGTCTCTGT
234700 TAATAATACTTCATTGTTCAAATCAA
1 TAATAATACTTCATTGTTCAAATCAA
234726 TAATAATACTTCATTGTTCAAATCAA
1 TAATAATACTTCATTGTTCAAATCAA
234752 T
1 T
234753 CTTAGATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (26 bp):
TAATAATACTTCATTGTTCAAATCAA
Found at i:236819 original size:30 final size:30
Alignment explanation
Indices: 236783--236863 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
236773 ATTAATTTTT
** *
236783 TAATATTTTCGATCATTTTTTAGTGCCTAG
1 TAATATTTTCGATCATTTTTTAACGCCTAA
* * *
236813 TAATATTTTTGGTCATTTTTTAACGTCTAA
1 TAATATTTTCGATCATTTTTTAACGCCTAA
236843 TAATA-TTTCTGATCATTTTTT
1 TAATATTTTC-GATCATTTTTT
236864 TGAAAATCCG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 3 0.07
30 39 0.93
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (30 bp):
TAATATTTTCGATCATTTTTTAACGCCTAA
Found at i:254119 original size:32 final size:31
Alignment explanation
Indices: 254058--254119 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
254048 CCAAAATAAT
*
254058 AATGATATTTTTTATTAAAAATAACGAAAAC
1 AATGATATTTTTTATTAAAAAGAACGAAAAC
*
254089 AATGATTTTTTATTATT-AAAAGAACTGAAAA
1 AATGATATTTT-TTATTAAAAAGAAC-GAAAA
254120 TTTCCCGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (31 bp):
AATGATATTTTTTATTAAAAAGAACGAAAAC
Found at i:255470 original size:23 final size:23
Alignment explanation
Indices: 255443--255512 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
255433 TTCAAACGAG
255443 CATGTTCGTGAATATTAAACAAA
1 CATGTTCGTGAATATTAAACAAA
* ** *
255466 TATGTTCGTGAACGTTAAACGAA
1 CATGTTCGTGAATATTAAACAAA
* * *
255489 CATGTTCGCGAATAATAAATAAA
1 CATGTTCGTGAATATTAAACAAA
255512 C
1 C
255513 GAATAAGTAC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (23 bp):
CATGTTCGTGAATATTAAACAAA
Found at i:257519 original size:2 final size:2
Alignment explanation
Indices: 257512--257551 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
257502 TTAAAATTTA
257512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
257552 CAGGTCGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:261589 original size:2 final size:2
Alignment explanation
Indices: 261582--261609 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
261572 GGGTTTTAGG
261582 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
261610 AGCTGCTAGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:270487 original size:13 final size:14
Alignment explanation
Indices: 270469--270499 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
270459 TAGAATGATA
270469 ATTAAATTTA-TAT
1 ATTAAATTTATTAT
270482 ATTAAATTTATTAT
1 ATTAAATTTATTAT
270496 ATTA
1 ATTA
270500 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTAAATTTATTAT
Found at i:270528 original size:22 final size:22
Alignment explanation
Indices: 270503--270544 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
270493 TATATTATAA
**
270503 AAAATTAATCATTAAAATTATT
1 AAAATTAATCAAAAAAATTATT
*
270525 AAAATTTATCAAAAAAATTA
1 AAAATTAATCAAAAAAATTA
270545 ATACGACCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAATCAAAAAAATTATT
Found at i:272854 original size:17 final size:18
Alignment explanation
Indices: 272834--272871 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
272824 ATTCGATATT
272834 TAAAAAATATATTTAA-A
1 TAAAAAATATATTTAAGA
*
272851 TAAAAAATGTATTTAAGA
1 TAAAAAATATATTTAAGA
272869 TAA
1 TAA
272872 TTTAAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAAAATATATTTAAGA
Done.