Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004137.1 Hibiscus syriacus cultivar Beakdansim tig00009046_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: 87953
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:524 original size:23 final size:23
Alignment explanation
Indices: 493--574 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
483 CGATACACCA
493 TGAAGGTGCACCGATGAATTCCT
1 TGAAGGTGCACCGATGAATTCCT
* * *
516 TGAATGTGCATCGAT-ACA--CCA
1 TGAAGGTGCACCGATGA-ATTCCT
*
537 TG-AGGTGCACCGATGCATTCCT
1 TGAAGGTGCACCGATGAATTCCT
* *
559 TGAATGTGCATCGATG
1 TGAAGGTGCACCGATG
575 TACTATGATG
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
20 11 0.24
21 4 0.09
22 5 0.11
23 25 0.56
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (23 bp):
TGAAGGTGCACCGATGAATTCCT
Found at i:557 original size:43 final size:44
Alignment explanation
Indices: 433--573 Score: 191
Period size: 43 Copynumber: 3.2 Consensus size: 44
423 TTTTGTGCTT
* * * *
433 TGTGCATTGATACACTA-GACA-GTGTACCGA-GCATCCCTTGAA
1 TGTGCATCGATACACCATGA-AGGTGCACCGATGCATTCCTTGAA
*
475 TGTTGCATCGATACACCATGAAGGTGCACCGATGAATTCCTTGAA
1 TG-TGCATCGATACACCATGAAGGTGCACCGATGCATTCCTTGAA
520 TGTGCATCGATACACCATG-AGGTGCACCGATGCATTCCTTGAA
1 TGTGCATCGATACACCATGAAGGTGCACCGATGCATTCCTTGAA
563 TGTGCATCGAT
1 TGTGCATCGAT
574 GTACTATGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
42 2 0.02
43 48 0.54
44 27 0.30
45 12 0.13
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
TGTGCATCGATACACCATGAAGGTGCACCGATGCATTCCTTGAA
Found at i:4526 original size:6 final size:6
Alignment explanation
Indices: 4515--4539 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4505 TTTATCATCT
4515 CTATCC CTATCC CTATCC CTATCC C
1 CTATCC CTATCC CTATCC CTATCC C
4540 GAACTCTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CTATCC
Found at i:8356 original size:44 final size:46
Alignment explanation
Indices: 8303--8394 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
8293 TAATAATGAA
*
8303 AAGTGTATTGGTAAAATAAGCTTACGAGCTTATGG-A-TAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
*
8347 AAGTATATTGGTAAAGTAAGCTTACGAGCTTATGGTATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
8393 AA
1 AA
8395 AATATTACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 33 0.75
45 1 0.02
46 10 0.23
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.33
Consensus pattern (46 bp):
AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGT
Found at i:10660 original size:14 final size:14
Alignment explanation
Indices: 10643--10726 Score: 67
Period size: 14 Copynumber: 6.5 Consensus size: 14
10633 ATCTATAATA
10643 TAATATTAAAAAAT
1 TAATATTAAAAAAT
*
10657 TAATATT---TAAT
1 TAATATTAAAAAAT
*
10668 TTAT-TTAAAAAA-
1 TAATATTAAAAAAT
10680 TAATATT--AAAAT
1 TAATATTAAAAAAT
* *
10692 TAATATCTATAATA-
1 TAATAT-TAAAAAAT
10706 TAATATTAAAAAAT
1 TAATATTAAAAAAT
10720 TAATATT
1 TAATATT
10727 TAATTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
10 2 0.04
11 10 0.19
12 9 0.17
13 10 0.19
14 20 0.37
15 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATATTAAAAAAT
Found at i:10684 original size:37 final size:39
Alignment explanation
Indices: 10642--10726 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 39
10632 TATCTATAAT
*
10642 ATAATATTAAAAAATTAATAT-T-TAAT-TTAT-TTAAAAA
1 ATAATATT--AAAATTAATATCTATAATATAATATTAAAAA
10679 ATAATATTAAAATTAATATCTATAATATAATATTAAAAA
1 ATAATATTAAAATTAATATCTATAATATAATATTAAAAA
10718 ATTAATATT
1 A-TAATATT
10727 TAATTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
35 11 0.26
36 1 0.02
37 12 0.29
38 3 0.07
39 8 0.19
40 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (39 bp):
ATAATATTAAAATTAATATCTATAATATAATATTAAAAA
Found at i:10692 original size:24 final size:25
Alignment explanation
Indices: 10648--10716 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
10638 TAATATAATA
*
10648 TTAAAAAATTAATATT-TAATT-TAT
1 TTAAAAAA-TAATATTAAAATTATAT
10672 TTAAAAAATAATATTAAAATTAATAT
1 TTAAAAAATAATATTAAAATT-ATAT
* * *
10698 CTATAATATAATATTAAAA
1 TTAAAAAATAATATTAAAA
10717 AATTAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.18
24 12 0.32
26 19 0.50
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
TTAAAAAATAATATTAAAATTATAT
Found at i:10707 original size:63 final size:65
Alignment explanation
Indices: 10622--10778 Score: 261
Period size: 63 Copynumber: 2.5 Consensus size: 65
10612 TTATATGATA
10622 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-AAAA-AATAATA
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATAATAATA
10685 T
65 T
10686 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATAATAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATAATAATAT
*
10751 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
10779 TTAAATATAA
Statistics
Matches: 90, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
62 5 0.06
63 53 0.59
64 12 0.13
65 20 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (65 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATAATAATAT
Found at i:10730 original size:26 final size:27
Alignment explanation
Indices: 10679--10752 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
10669 TATTTAAAAA
10679 ATAATATT--AAAATTAATATCTATAAT
1 ATAATATTAAAAAATTAATAT-TATAAT
10705 ATAATATTAAAAAATTAATATT-TAAT
1 ATAATATTAAAAAATTAATATTATAAT
* *
10731 -TTAT-TTAAAAATAATAATATTA
1 ATAATATTAAAAA-ATTAATATTA
10753 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 7 0.17
25 11 0.26
26 12 0.29
27 1 0.02
28 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
ATAATATTAAAAAATTAATATTATAAT
Found at i:19139 original size:30 final size:31
Alignment explanation
Indices: 19079--19139 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
19069 TACCCTTAAG
* * *
19079 CTTTAGATGAAGTATCACTTTGTCCCCTAAA
1 CTTTAGATAAAATATCAATTTGTCCCCTAAA
*
19110 CTTTAGATAAAATATCAATTTG-GCCCTAAA
1 CTTTAGATAAAATATCAATTTGTCCCCTAAA
19140 TTTTGACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (31 bp):
CTTTAGATAAAATATCAATTTGTCCCCTAAA
Found at i:22717 original size:3 final size:3
Alignment explanation
Indices: 22709--22759 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
22699 ATTAATTATT
22709 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22757 TAA
1 TAA
22760 ATAGATAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22769 original size:8 final size:7
Alignment explanation
Indices: 22710--22771 Score: 66
Period size: 6 Copynumber: 9.7 Consensus size: 7
22700 TTAATTATTT
22710 AATAAT-
1 AATAATA
22716 AATAAT-
1 AATAATA
22722 AATAAT-
1 AATAATA
22728 AATAAT-
1 AATAATA
22734 AATAAT-
1 AATAATA
22740 AATAAT-
1 AATAATA
22746 AATAAT-
1 AATAATA
22752 AATAATA
1 AATAATA
22759 AATAGATA
1 AATA-ATA
22767 AATAA
1 AATAA
22772 AACTCCGGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
6 42 0.78
7 5 0.09
8 7 0.13
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:34261 original size:74 final size:75
Alignment explanation
Indices: 34090--34261 Score: 170
Period size: 74 Copynumber: 2.3 Consensus size: 75
34080 ATCAACAAGA
* * * *
34090 AGCAAATGTTGGGGTATGCTGAAAGCCCATTTCAATCATACTCAAGAATATTGACTCATTTTGAA
1 AGCAAATGTCGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACTCATTTTGAA
*
34155 CATTTGCATC
66 CATCTGCATC
* * * * * *
34165 AGCAAATG-CTGGGACATCCTGAAAGCCC-TTTTAATCAGAATCAGGAATGTTG-GTACATTTTG
1 AGCAAATGTC-GGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACT-CATTTTG
* * *
34227 AACGTCTGTATT
64 AACATCTGCATC
*
34239 AGCCAATGTCGGGGCATGCTGAA
1 AGCAAATGTCGGGGCATGCTGAA
34262 GACCCATAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
73 1 0.01
74 52 0.68
75 24 0.31
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (75 bp):
AGCAAATGTCGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACTCATTTTGAA
CATCTGCATC
Found at i:35636 original size:22 final size:22
Alignment explanation
Indices: 35610--35667 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
35600 TTCATCTACA
*
35610 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAAATTCT
35632 CTCTTCAAAGATGATAAATTCT
1 CTCTTCAAAGATGATAAATTCT
*
35654 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
35668 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAAATTCT
Found at i:36672 original size:113 final size:113
Alignment explanation
Indices: 36456--36740 Score: 462
Period size: 113 Copynumber: 2.5 Consensus size: 113
36446 TTCCAGAAGT
*
36456 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
** * * * *
36521 ACCTTTTACTTTAATTCGTCCCTCGATGGATTAGCATTGCCAGGTAGA
66 ACCTTTTACTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
36569 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
36634 ACCTTTTGCTCGAATTCATCACTTGATTGATCAACATTGCTAGGTAGA
66 ACCTTTTACTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
*
36682 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
36741 CATCTAAAGA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 160 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTACTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAGA
Found at i:36736 original size:20 final size:20
Alignment explanation
Indices: 36713--36777 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
36703 TCTGAAGAAG
36713 GAAGAAGAAATTCATAATGA
1 GAAGAAGAAATTCATAATGA
*** *
36733 GAAGAACTCA-TC-TAAAGAA
1 GAAGAAGAAATTCATAATG-A
*
36752 GAAGAAGAAGTTCATAATGA
1 GAAGAAGAAATTCATAATGA
36772 GAAGAA
1 GAAGAA
36778 CTTGTTCAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 4 0.12
19 9 0.27
20 16 0.48
21 4 0.12
ACGTcount: A:0.54, C:0.08, G:0.22, T:0.17
Consensus pattern (20 bp):
GAAGAAGAAATTCATAATGA
Found at i:36767 original size:39 final size:40
Alignment explanation
Indices: 36681--36779 Score: 173
Period size: 40 Copynumber: 2.5 Consensus size: 40
36671 TGCTAGGTAG
*
36681 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGA
*
36721 AATTCATAATGAGAAGAACTCATCTAAAGAA-GAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGA
36760 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
36780 TGTTCAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 27 0.48
40 29 0.52
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.19
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGA
Found at i:36966 original size:123 final size:123
Alignment explanation
Indices: 36723--37039 Score: 449
Period size: 123 Copynumber: 2.6 Consensus size: 123
36713 GAAGAAGAAA
* * *
36723 TTCATAATGAGAAGAACTCATCTAAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAT
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-
** * * * *
36788 TTTTTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCACCAACATTTCCAG-ATGAAG
65 --CCTTTTGCATGACGCTATCACAGAAAGAGATAGATCAACACCAACATTTCCAGAAAG-AG
* * *
36849 TTCATAATGAGAAGAGCTCATCTGAAGAGGAAGAAAAATTTCATAATGAGAAGAATTTGTTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
*
36914 CTTTTGC-TCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAAGAG
66 CTTTTGCAT-GACGCTATCACAGAAAGAGATAGATCAACACCAACATTTCCAGAAAGAG
*
36972 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
37037 CTT
66 CTT
37040 ACCTTAATTT
Statistics
Matches: 172, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
122 1 0.01
123 111 0.65
124 2 0.01
126 58 0.34
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (123 bp):
TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
CTTTTGCATGACGCTATCACAGAAAGAGATAGATCAACACCAACATTTCCAGAAAGAG
Found at i:45434 original size:21 final size:21
Alignment explanation
Indices: 45405--45457 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45395 ATTCTGACTA
45405 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
45426 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
45447 TCGCAATGCGA
1 TCGCATTGCGA
45458 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:45472 original size:20 final size:20
Alignment explanation
Indices: 45447--45519 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
45437 TTTTCCTAAT
45447 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
45467 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
45487 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
45507 TCGCAACGCGAAT
1 TCGCAATGCGAAT
45520 CTGACTATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:45743 original size:22 final size:22
Alignment explanation
Indices: 45718--45783 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
45708 GGCGACATCC
45718 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
45740 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
45762 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
45784 TTCACGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:46155 original size:33 final size:33
Alignment explanation
Indices: 46107--46220 Score: 95
Period size: 40 Copynumber: 3.2 Consensus size: 33
46097 ACTATCGCAA
46107 TGCGATTC-TGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTTG-CGTTGCGATTTTCATTTCGCGT
** *
46140 TGCGATTCTTGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTTGCGTTGCGATTTTC-ATTTCGCGT
* *
46174 TGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGT
1 TGCGAT--TC---TT-GCGTTGCGATTTTCA-TTTCGCGT
46214 TGCGATT
1 TGCGATT
46221 TTAAGTTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
33 19 0.30
34 16 0.25
36 2 0.03
38 1 0.02
39 3 0.05
40 23 0.36
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTCTTGCGTTGCGATTTTCATTTCGCGT
Found at i:46175 original size:20 final size:20
Alignment explanation
Indices: 46150--46199 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
46140 TGCGATTCTT
46150 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
46170 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
46190 GTGTTGCGAT
1 GCGTTGCGAT
46200 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:46176 original size:34 final size:33
Alignment explanation
Indices: 46107--46179 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
46097 ACTATCGCAA
** *
46107 TGCGATTCTGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
46140 TGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGTTGCGATAGTC-AATTCGCGT
46174 TGCGAT
1 TGCGAT
46180 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.57
34 14 0.40
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (33 bp):
TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
Found at i:46205 original size:20 final size:20
Alignment explanation
Indices: 46167--46222 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
46157 GATAGTCAAA
* **
46167 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
46187 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
46207 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
46223 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:46229 original size:20 final size:20
Alignment explanation
Indices: 46186--46229 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
46176 CGATAGTCAT
* *
46186 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
46206 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
46226 TTTC
1 TTTC
46230 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:48128 original size:20 final size:20
Alignment explanation
Indices: 48103--48219 Score: 91
Period size: 20 Copynumber: 6.5 Consensus size: 20
48093 AGAATAGTTT
48103 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
48123 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
48139 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
48156 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
48172 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
48190 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
48210 ACTATCGCAA
1 ACTATCGCAA
48220 CGAAAGAATC
Statistics
Matches: 80, Mismatches: 3, Indels: 28
0.72 0.03 0.25
Matches are distributed among these distances:
14 14 0.17
16 10 0.12
17 8 0.10
18 5 0.06
19 7 0.09
20 36 0.45
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:48149 original size:34 final size:34
Alignment explanation
Indices: 48106--48199 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
48096 ATAGTTTACT
* * *
48106 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACAACAAA
**
48140 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACAACAAA
*
48173 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAATGCGAAAATGACTATCGCAA
48200 TGCGAAAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.53
34 24 0.47
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACAACAAA
Found at i:48208 original size:34 final size:34
Alignment explanation
Indices: 48106--48208 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 34
48096 ATAGTTTACT
* * *
48106 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
** *
48140 ATCGCAATGCG-AAATGAAAATCGCAACAAC-AAA
1 ATCGCAATGCGAAAATGACTATCGCAA-AGCGAAA
* *
48173 ATCGCAACGCGAAAATGACTATCGCAATGCGAAA
1 ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
48207 AT
1 AT
48209 GACTATCGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
33 26 0.47
34 29 0.53
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
Found at i:48242 original size:53 final size:54
Alignment explanation
Indices: 48139--48257 Score: 136
Period size: 53 Copynumber: 2.2 Consensus size: 54
48129 GCAACGAGAG
*
48139 AATCGCAATGCG-AAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGAC
1 AATCGCAATGCGAAAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGAA
* ** * **
48192 TATCGCAATGCGAAAATGACTATCGCAACGAA-AGAATCGCAATTCG-AAATGAA
1 AATCGCAATGCGAAAATGAAAATCGCAAC-AACAAAATCGCAACGCGAAAATGAA
*
48245 AATCGCATTGCGA
1 AATCGCAATGCGA
48258 TTCTCTCGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 28 0.51
54 25 0.45
55 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (54 bp):
AATCGCAATGCGAAAATGAAAATCGCAACAACAAAATCGCAACGCGAAAATGAA
Found at i:48295 original size:20 final size:20
Alignment explanation
Indices: 48266--48351 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
48256 GATTCTCTCG
**
48266 TTGC-ATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
48285 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
48305 TTGCGATAATCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
48325 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
48345 TTGCGAT
1 TTGCGAT
48352 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
19 4 0.07
20 57 0.93
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:48361 original size:20 final size:20
Alignment explanation
Indices: 48279--48361 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 20
48269 CATAGTCAAA
* * *
48279 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
* * * *
48299 TTCGCATTGCGATAATCATT
1 TTCGCGTTGCGATAGTAAGT
* *
48319 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
**
48339 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATAGTAAGT
48359 TTC
1 TTC
48362 AGATTCTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.42
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTAAGT
Found at i:48900 original size:41 final size:42
Alignment explanation
Indices: 48838--48919 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
48828 CACCTGTCAT
*
48838 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
* ** *
48879 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
48920 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 25 0.71
42 10 0.29
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:50319 original size:14 final size:14
Alignment explanation
Indices: 50300--50335 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
50290 ATTGTTTAAT
50300 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
50314 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
50328 TGATTTGT
1 TGATTTGT
50336 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:50556 original size:19 final size:20
Alignment explanation
Indices: 50513--50565 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
50503 CGAAACTAAA
*
50513 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
50533 TTCGCATTGCGATTTTCA-T
1 TTCGCATTGCGATTTTCATT
50552 TTCGCATTGCGATT
1 TTCGCATTGCGATT
50566 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:50600 original size:20 final size:20
Alignment explanation
Indices: 50570--50658 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
50560 GCGATTCTCT
*
50570 CGTTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
50590 TGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
50610 CGTTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
50630 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
50650 CGTTGCGAT
1 CGTTGCGAT
50659 TTCCATGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:50625 original size:40 final size:40
Alignment explanation
Indices: 50577--50654 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 40
50567 TCTCGTTGCA
50577 ATAGTCATTTCCGTGTTGCGATAGTCAT-TTCCGCGTTGTG
1 ATAGTCATTTCCGTGTTGCGATAGTCATATT-CGCGTTGTG
50617 ATAGTCATTTCCGTGTTGCGATAGTCATATTCGCGTTG
1 ATAGTCATTTCCGTGTTGCGATAGTCATATTCGCGTTG
50655 CGATTTCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (40 bp):
ATAGTCATTTCCGTGTTGCGATAGTCATATTCGCGTTGTG
Found at i:53202 original size:24 final size:24
Alignment explanation
Indices: 53168--53221 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
53158 CTGAAAAATC
*
53168 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
53192 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
53216 ATCAAA
1 ATCAAA
53222 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:54085 original size:20 final size:20
Alignment explanation
Indices: 54060--54146 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
54050 AAATTCAGTA
54060 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
54080 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
54100 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* * *
54120 TTACGATAGTCAGATTTGCG
1 TTGCGATAGTCAGAATCGCG
54140 TTGCGAT
1 TTGCGAT
54147 TTACGTATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:54163 original size:20 final size:20
Alignment explanation
Indices: 54140--54205 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
54130 CAGATTTGCG
54140 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
54160 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
54180 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
54200 TTGCGA
1 TTGCGA
54206 ATTAGGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:54226 original size:21 final size:21
Alignment explanation
Indices: 54202--54247 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
54192 TATTCGCATT
*
54202 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* *
54223 GCGAATTTGAAAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
54244 GCGA
1 GCGA
54248 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:56133 original size:15 final size:15
Alignment explanation
Indices: 56116--56171 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
56106 TAACCGGTTT
*
56116 CGGTTTTAAAAAAAT
1 CGGTTTTAAAAAAAC
*
56131 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
56148 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
56163 CGATTTTAA
1 CGGTTTTAA
56172 TATTATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.61
17 13 0.39
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:56144 original size:17 final size:17
Alignment explanation
Indices: 56119--56169 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
56109 CCGGTTTCGG
*
56119 TTTTAAAAAAATCGGTT
1 TTTTAAAAAAACCGGTT
*
56136 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
56151 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
56168 TT
1 TT
56170 AATATTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 12 0.44
17 15 0.56
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:58044 original size:9 final size:9
Alignment explanation
Indices: 58032--58059 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58022 AAAATAGAAA
58032 AAAAAATAT
1 AAAAAATAT
58041 AAAAAATAT
1 AAAAAATAT
58050 AAAAAATAT
1 AAAAAATAT
58059 A
1 A
58060 TAACATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:58044 original size:11 final size:11
Alignment explanation
Indices: 58021--58062 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
58011 ATTTTCCATG
*
58021 AAAAATAGAAA
1 AAAAATATAAA
*
58032 AAAAA-ATATA
1 AAAAATATAAA
58042 AAAAATATAAA
1 AAAAATATAAA
*
58053 AAATATATAA
1 AAAAATATAA
58063 CATTTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:58246 original size:31 final size:31
Alignment explanation
Indices: 58205--58278 Score: 95
Period size: 26 Copynumber: 2.5 Consensus size: 31
58195 TCCACCCGAG
58205 ACCCGACCCGACCCGACCAAAATAAGTTTTT
1 ACCCGACCCGACCCGACCAAAATAAGTTTTT
*
58236 -----ACTCGACCCGACCAAAATAAGTTTTT
1 ACCCGACCCGACCCGACCAAAATAAGTTTTT
58262 ACCCGACCCGAACCCGA
1 ACCCGACCCG-ACCCGA
58279 TCCGATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
26 25 0.71
31 4 0.11
32 6 0.17
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (31 bp):
ACCCGACCCGACCCGACCAAAATAAGTTTTT
Found at i:58249 original size:26 final size:26
Alignment explanation
Indices: 58210--58272 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
58200 CCGAGACCCG
58210 ACCCGACCCGACCAAAATAAGTTTTT
1 ACCCGACCCGACCAAAATAAGTTTTT
*
58236 ACTCGACCCGACCAAAATAAGTTTTT
1 ACCCGACCCGACCAAAATAAGTTTTT
58262 ACCCGACCCGA
1 ACCCGACCCGA
58273 ACCCGATCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.21
Consensus pattern (26 bp):
ACCCGACCCGACCAAAATAAGTTTTT
Found at i:58377 original size:54 final size:54
Alignment explanation
Indices: 58318--58421 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
58308 ACCTGACCTG
*
58318 AAATAATAAAAAAATATTTTTATTCAATAAAAATAGTGACTTAATTGAAACCCA
1 AAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAACCCA
58372 AAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
1 AAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
58422 AAAATAATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (54 bp):
AAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAACCCA
Found at i:61940 original size:36 final size:36
Alignment explanation
Indices: 61890--61997 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
61880 AGAAATTAGA
*
61890 TTCATATTAAATTTAAGCTTTTACCTAAAGCTAAAG
1 TTCATATTACATTTAAGCTTTTACCTAAAGCTAAAG
*
61926 TTCATATTACATTTAAACTTTTACCTAAAGCTAAAG
1 TTCATATTACATTTAAGCTTTTACCTAAAGCTAAAG
*
61962 TTCATATTACGTTTAAGCTTTTACCT-AAGCTAAAG
1 TTCATATTACATTTAAGCTTTTACCTAAAGCTAAAG
61997 T
1 T
61998 GGATGTAATT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
35 10 0.15
36 58 0.85
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (36 bp):
TTCATATTACATTTAAGCTTTTACCTAAAGCTAAAG
Found at i:66712 original size:29 final size:29
Alignment explanation
Indices: 66680--66738 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
66670 AAATTCGGAT
66680 TTGCAAAATTTACTTTCAAAAGTCAGTGA
1 TTGCAAAATTTACTTTCAAAAGTCAGTGA
66709 TTGCAAAATTTACTTTCAAAAGTCAGTGA
1 TTGCAAAATTTACTTTCAAAAGTCAGTGA
66738 T
1 T
66739 GATCATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (29 bp):
TTGCAAAATTTACTTTCAAAAGTCAGTGA
Found at i:70505 original size:23 final size:23
Alignment explanation
Indices: 70436--70516 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
70426 ACACCTAACA
* *
70436 GTGCATCGATGCA-TCTTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
70458 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
70479 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
70502 GTGCATCGATGCACA
1 GTGCATCGATGCACA
70517 AGACCATGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 14 0.30
22 10 0.22
23 21 0.46
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:70509 original size:44 final size:42
Alignment explanation
Indices: 70417--70511 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 42
70407 TTGTGCTTCA
* * *
70417 TGCATCGATACACCTAACAGTGCATCGATGCATCTTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
*
70459 TGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCA-GCCTTGAATG
70503 TGCATCGAT
1 TGCATCGAT
70512 GCACAAGACC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 19 0.41
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
Found at i:70532 original size:43 final size:43
Alignment explanation
Indices: 70417--70539 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
70407 TTGTGCTTCA
* * *
70417 TGCATCGATACACC--TAACAGTGCATCGATGCATCTTTGAATG
1 TGCATCGATACACCAAGAACA-TGCATCGATGCAGCCTTGAATG
* ** *
70459 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCAAGAACATGCATCGATGCA-GCCTTGAATG
* * *
70503 TGCATCGATGCA-CAAGACCATGCATCGATGCATCCTT
1 TGCATCGATACACCAAGAACATGCATCGATGCAGCCTT
70540 CGGGTTTTGG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
42 18 0.28
43 26 0.40
44 21 0.32
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (43 bp):
TGCATCGATACACCAAGAACATGCATCGATGCAGCCTTGAATG
Found at i:72099 original size:21 final size:21
Alignment explanation
Indices: 72057--72100 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
72047 ACTCTGGGAG
*
72057 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
72078 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
72099 CT
1 CT
72101 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:73076 original size:64 final size:62
Alignment explanation
Indices: 73006--73194 Score: 186
Period size: 64 Copynumber: 3.0 Consensus size: 62
72996 TGCACCGATG
* * *
73006 CATGCATCGAAGCACCATGAATTACATTGAACATCGAATGCATTTCATGCATCGATGCACA-T
1 CATGCATCGATGCACC-TGAATTATATTGAACATCGAATGCATTTGATGCATCGATGCACAGT
* **
73068 ACCATGCATCGATGCA-CTGAGGATTTTATAAAAACATCGAATGCATTTGATGCATCGATGCACC
1 --CATGCATCGATGCACCTGA--ATTATAT-TGAACATCGAATGCATTTGATGCATCGATGCA-C
73132 AGT
60 AGT
** * *
73135 CATGCATCGATGCACTCTG-GCTATTTTGAAACATCGAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCAC-CTGAATTATATTG-AACATCGAATGCATTTGATGCATCGATGCAC
73195 TCTTAGTGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
62 3 0.03
63 2 0.02
64 50 0.48
65 43 0.41
66 2 0.02
67 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (62 bp):
CATGCATCGATGCACCTGAATTATATTGAACATCGAATGCATTTGATGCATCGATGCACAGT
Found at i:73104 original size:65 final size:63
Alignment explanation
Indices: 73035--73194 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 63
73025 AATTACATTG
* *
73035 AACATCGAATGCATTTCATGCATCGATGCACA-TACCATGCATCGATGCACTGAGGAT-TTTATA
1 AACATCGAATGCATTTGATGCATCGATGCACAGT--CATGCATCGATGCACTCAGGATATTT-T-
73098 AA
62 AA
* * *
73100 AACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGTCATGCATCGATGCACTCAGGATATTTTAA
*
73164 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
73195 TCTTAGTGAA
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.57
66 5 0.06
67 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGTCATGCATCGATGCACTCAGGATATTTTAA
Found at i:77669 original size:236 final size:232
Alignment explanation
Indices: 77263--77737 Score: 781
Period size: 236 Copynumber: 2.0 Consensus size: 232
77253 ATTCATATAT
* * *
77263 TCGGGTCGGGTGAAACTTTATTTTGGTCAGGTTGGGTCAGTTTTTTTAAGTGTGATATTCGGGTC
1 TCGGGTCGGGTGAAACTTTAATTTGGTCAGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTC
* * *
77328 GGGTCAAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCGAAAATATATATAATTTTACCT
66 GGGTCAAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGACCCCAAAAAATATATAATTTTACCT
*
77393 TATATATTTAGGAATAATTACAATAATACCTCTCTATATATAATTTTTTTCAATTAAGTCACTGT
131 TATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTGT
77458 TTTTATTGAATAAAAAT-ATTTTTTTATTATTTCGGG
196 TTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
* * *
77494 TCGGGTCGGGTGAAACTTTAATTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTTGAGT
1 TCGGGTCGGGTGAAACTTTAATTTGGTCAGGTCGGGTCAG-TTTTTTTAAGTGTGATATTCGAGT
** *
77559 CGGGTCGGGTTCAGGTTTAGGGTGAAAAATACTCGACCCGACCAGACCCAAAAAATATATAATTT
65 CGGGTCAAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGA-C---CCCAAAAAATATATAATTT
77624 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTC
126 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTC
77689 ACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
191 ACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
77731 TCGGGTC
1 TCGGGTC
77738 TGGTCGGGTT
Statistics
Matches: 225, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
231 36 0.16
232 59 0.26
233 1 0.00
236 103 0.46
237 26 0.12
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (232 bp):
TCGGGTCGGGTGAAACTTTAATTTGGTCAGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTC
GGGTCAAGTTCAGGTTTAGGGTGAAAAATACCCGACCCGACCCCAAAAAATATATAATTTTACCT
TATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTGT
TTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
Found at i:78007 original size:286 final size:266
Alignment explanation
Indices: 77488--78071 Score: 748
Period size: 286 Copynumber: 2.1 Consensus size: 266
77478 TTTTTATTAT
* * * *
77488 TTCGGGT-CGGGTCGGGTGAAACTTTAATTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATA
1 TTCGGGTAAGGGTCGGGTGAAACTTTATTTTGGTCGAGTCGGGTCGGTTTTTTTTAAGTATGA-A
* * *
77552 TTTGAGTCGGGTCGGGTTCAGGTTTAGGGTGAAAAATACTCGACCCGACCAGACCCAAAAAATAT
65 -TTGAGTCGGGTCGGGTTCAGGTTTAGAGTGAAAAATACCCGACCCGACCAAACCCAAAAAATAT
*
77617 ATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAA
129 ATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAA
77682 TTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCTGGTCGGGT
194 TTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTC--G---GGTCGGG-
*
77747 TTCTATTTCATATA
253 TTCTAATTCATATA
*
77761 TTCGGGTCGGGAAGGGTCGGGTGAAACTTTATTTTGGTCGAGTCGGGTTGGTTTTTTTTTAAGTA
1 TTCGGGT----AAGGGTCGGGTGAAACTTTATTTTGGTCGAGTCGGGTCGG-TTTTTTTTAAGTA
* * *
77826 TG-A-T-AGTCGGGTCGGGTTCGGGTTTAGAGTGAAAAATACCCGATCCGTCCCAAACCAAACAA
61 TGAATTGAGTCGGGTCGGGTTCAGGTTTAGAGTGAAAAATACCCGACCCG-ACCAAACC---C-A
*
77888 AAAAATATATAATTTTACCTTATATATTTATATATTTAGAAATAATTACAATAATATCCCTCTAT
121 AAAAATATATAATTTTACC--------TTATATATTTAGAAATAATTACAATAATACCCCTCTAT
*
77953 ATAT-ATTTTTTTCAATTAAGTCATTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
178 ATATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGG
78017 TCGGGTCGGGTTCTAATTCATATA
243 TCGGGTCGGGTTCTAATTCATATA
*
78041 TTCGGGTTA-GGTCGGGTGAAACTTTATTTTG
1 TTCGGGTAAGGGTCGGGTGAAACTTTATTTTG
78072 ATCAGATCGT
Statistics
Matches: 276, Mismatches: 16, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
273 7 0.03
274 39 0.14
275 29 0.11
276 1 0.00
277 1 0.00
278 36 0.13
279 34 0.12
280 20 0.07
281 7 0.03
284 1 0.00
286 61 0.22
287 40 0.14
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (266 bp):
TTCGGGTAAGGGTCGGGTGAAACTTTATTTTGGTCGAGTCGGGTCGGTTTTTTTTAAGTATGAAT
TGAGTCGGGTCGGGTTCAGGTTTAGAGTGAAAAATACCCGACCCGACCAAACCCAAAAAATATAT
AATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATT
AAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTCTAATT
CATATA
Found at i:79394 original size:16 final size:15
Alignment explanation
Indices: 79368--79397 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
79358 GGTAAATTAT
79368 ACTATTTATCACTCA
1 ACTATTTATCACTCA
79383 ACTATCTTATCACTC
1 ACTAT-TTATCACTC
79398 TTATTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTATTTATCACTCA
Found at i:79525 original size:21 final size:21
Alignment explanation
Indices: 79499--79548 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
79489 ACATGGAATC
79499 TATTAATAACTCAAATTTATT
1 TATTAATAACTCAAATTTATT
*
79520 TATTAATAACTCAAGTTTATT
1 TATTAATAACTCAAATTTATT
79541 TATTAATA
1 TATTAATA
79549 TTTTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTAATAACTCAAATTTATT
Found at i:79538 original size:17 final size:17
Alignment explanation
Indices: 79517--79572 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
79507 ACTCAAATTT
79517 ATTTATTAATAACTCAA
1 ATTTATTAATAACTCAA
* *
79534 GTTTATTTATTAA-T--A
1 ATTTA-TTAATAACTCAA
*
79549 TTTTATTAATAACTCAA
1 ATTTATTAATAACTCAA
79566 ATTTATT
1 ATTTATT
79573 TTATTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
17 12 0.40
18 6 0.20
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTATTAATAACTCAA
Found at i:79554 original size:32 final size:33
Alignment explanation
Indices: 79518--79585 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
79508 CTCAAATTTA
*
79518 TTTATTAATAACTCAAGTTTA-TTTATTAATAT
1 TTTATTAATAACTCAAATTTATTTTATTAATAT
*
79550 TTTATTAATAACTCAAATTTATTTTATTATTAT
1 TTTATTAATAACTCAAATTTATTTTATTAATAT
79583 TTT
1 TTT
79586 GATAACTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (33 bp):
TTTATTAATAACTCAAATTTATTTTATTAATAT
Found at i:79593 original size:30 final size:32
Alignment explanation
Indices: 79519--79598 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
79509 TCAAATTTAT
* *
79519 TTATTAATAACTCAAGTTTATTTATTAATATT
1 TTATTAATAACTCAAATTTATTTATTAATATA
79551 TTATTAATAACTCAAATTTATTTTATT-AT-TA
1 TTATTAATAACTCAAATTTA-TTTATTAATATA
*
79582 TT-TTGATAACTCAAATT
1 TTATTAATAACTCAAATT
79599 CGTTTATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 14 0.32
31 3 0.07
32 21 0.48
33 6 0.14
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (32 bp):
TTATTAATAACTCAAATTTATTTATTAATATA
Found at i:81872 original size:34 final size:34
Alignment explanation
Indices: 81824--81930 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
81814 AAAGTTTTTT
* *
81824 TTAAAATATCCTTTGTTATTTTAGTTTTTATATA
1 TTAAAATATGCTTTGTTATTTTAATTTTTATATA
* *
81858 TTGAAATATGCTTTGTTATTTTAATTATTATATA
1 TTAAAATATGCTTTGTTATTTTAATTTTTATATA
*
81892 TTAAAATATGATTTGTTATTTTAATTTTTTATTATA
1 TTAAAATATGCTTTGTTATTTTAA-TTTTTA-TATA
81928 TTA
1 TTA
81931 GTAGCAGTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
34 52 0.81
35 5 0.08
36 7 0.11
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.59
Consensus pattern (34 bp):
TTAAAATATGCTTTGTTATTTTAATTTTTATATA
Found at i:81986 original size:30 final size:29
Alignment explanation
Indices: 81952--82029 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 29
81942 ATTAATAGTT
*
81952 GTATTAACTACTATTTAATTAGCT-TTATTA
1 GTATTAATTA-TATTTAATT-GCTCTTATTA
*
81982 GTATTAATTATCATGTAATTGCTCTTATTA
1 GTATTAATTAT-ATTTAATTGCTCTTATTA
82012 GTATTAATTATTATTTAA
1 GTATTAATTA-TATTTAA
82030 GTAATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.10
30 37 0.88
31 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (29 bp):
GTATTAATTATATTTAATTGCTCTTATTA
Found at i:82048 original size:15 final size:15
Alignment explanation
Indices: 82016--82049 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
82006 TTATTAGTAT
*
82016 TAATTATTATTTAAG
1 TAATTATTATATAAG
*
82031 TAATTATTATATAGG
1 TAATTATTATATAAG
82046 TAAT
1 TAAT
82050 AATATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (15 bp):
TAATTATTATATAAG
Found at i:84544 original size:214 final size:214
Alignment explanation
Indices: 84162--84565 Score: 679
Period size: 214 Copynumber: 1.9 Consensus size: 214
84152 CAATAAACAA
* *
84162 TAGATTCGATGATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
1 TAGATTCCATAATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
*
84227 CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAGTAAATCCAAAATTTTGAAA
66 CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGAAA
*
84292 AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACATTAGAGGATCCAAAC
131 AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACACTAGAGGATCCAAAC
84357 ATTCTTTGGAGGTACTCAG
196 ATTCTTTGGAGGTACTCAG
* *
84376 TAGATTCCATAATCTATAAATCATGAACGATTATAGTTTTTAGTGAAAACAGGTAACCAGAGAAC
1 TAGATTCCATAATCCATAAATCATGAACGATTATA-TTTTCAGTGAAAACAGGTAACCAGAGAAC
*
84441 ACATATCATG-TAGCCATAGTTCA-TTAACATTGAATCAAAACATCAATAAATCCAAAATTTT-A
65 ACATACCATGCT-GCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGA
* *
84503 GAAAATCACGTTTTAAAATAGGTAAAACATTTACTTGTCACATAAGGAACACACTAGAGGATC
129 AAAAATCACGTTTTAAAATAGGTAAAA-ATTTACATGTCACATAAGGAACACACTAGAGGATC
84566 GATCATTCAA
Statistics
Matches: 178, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
213 27 0.15
214 103 0.58
215 48 0.27
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (214 bp):
TAGATTCCATAATCCATAAATCATGAACGATTATATTTTCAGTGAAAACAGGTAACCAGAGAACA
CATACCATGCTGCCATAGTTCATTTAACATTGAATCAAAACATCAATAAATCCAAAATTTTGAAA
AAATCACGTTTTAAAATAGGTAAAAATTTACATGTCACATAAGGAACACACTAGAGGATCCAAAC
ATTCTTTGGAGGTACTCAG
Found at i:84842 original size:22 final size:23
Alignment explanation
Indices: 84817--84875 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
84807 CAAAGTTAAC
*
84817 AGTCAACGGTCAGACCGGTC-AA
1 AGTCAACGGTCAGACCGATCAAA
* *
84839 AGTCAACAGTTAGACCGATCAAA
1 AGTCAACGGTCAGACCGATCAAA
84862 AGTCAACGGGTCAG
1 AGTCAAC-GGTCAG
84876 GTCAAAGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.57
23 9 0.30
24 4 0.13
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (23 bp):
AGTCAACGGTCAGACCGATCAAA
Done.