Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 51
Found at i:4957772 original size:16 final size:16
Alignment explanation
Indices: 4957748--4957786 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4957738 TGGGGATAAG
*
4957748 GCGCGTTCCCGGGAGT
1 GCGCTTTCCCGGGAGT
4957764 GCGCTTTCCCGGGAGT
1 GCGCTTTCCCGGGAGT
4957780 GCGCTTT
1 GCGCTTT
4957787 AACGGGATTT
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:0.05, C:0.31, G:0.38, T:0.26
Consensus pattern (16 bp):
GCGCTTTCCCGGGAGT
Found at i:4957792 original size:16 final size:16
Alignment explanation
Indices: 4957757--4957793 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4957747 GGCGCGTTCC
**
4957757 CGGGAGTGCGCTTTCC
1 CGGGAGTGCGCTTTAA
4957773 CGGGAGTGCGCTTTAA
1 CGGGAGTGCGCTTTAA
4957789 CGGGA
1 CGGGA
4957794 TTTTTGCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.41, T:0.22
Consensus pattern (16 bp):
CGGGAGTGCGCTTTAA
Found at i:4960822 original size:21 final size:21
Alignment explanation
Indices: 4960796--4960848 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4960786 ACACTGCAGC
4960796 AACCGATTCCCTATGAGGGGG
1 AACCGATTCCCTATGAGGGGG
4960817 AACCGATTCCCTATGAGGGGG
1 AACCGATTCCCTATGAGGGGG
*
4960838 TACCGATTCCC
1 AACCGATTCCC
4960849 CCCACGCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGGGGG
Found at i:4966242 original size:23 final size:23
Alignment explanation
Indices: 4966201--4966263 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
4966191 TCTGGCAAGA
*
4966201 GGAATCGATACCCCC-TTGAAGG
1 GGAATCGATTCCCCCTTTGAAGG
* *
4966223 GGAACCGATTCCCCCTTTGAATG
1 GGAATCGATTCCCCCTTTGAAGG
*
4966246 GGAATTGATTCCCCCTTT
1 GGAATCGATTCCCCCTTT
4966264 AGGGAATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (23 bp):
GGAATCGATTCCCCCTTTGAAGG
Found at i:4966270 original size:20 final size:22
Alignment explanation
Indices: 4966201--4966280 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 22
4966191 TCTGGCAAGA
* * * *
4966201 GGAATCGATACCCCCTTGAAGG
1 GGAATTGATTCCCCCTTTAATG
**
4966223 GGAACCGATTCCCCCTTTGAATG
1 GGAATTGATTCCCCCTTT-AATG
4966246 GGAATTGATTCCCCCTTT-A-G
1 GGAATTGATTCCCCCTTTAATG
*
4966266 GGAATTGATACCCCC
1 GGAATTGATTCCCCC
4966281 CACGGGGTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.30
21 1 0.02
22 15 0.30
23 19 0.38
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (22 bp):
GGAATTGATTCCCCCTTTAATG
Found at i:4968940 original size:19 final size:20
Alignment explanation
Indices: 4968901--4968942 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4968891 AACAGAATGT
4968901 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
4968921 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4968941 CC
1 CC
4968943 TGTTTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4970564 original size:25 final size:25
Alignment explanation
Indices: 4970535--4970613 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
4970525 ATCGAACTTT
*
4970535 ACCCTAAACCACTTTAACCTACACA
1 ACCCTAAACCACTTTAACCTACAAA
** * * * *
4970560 ACCCTTGATCA-TTCTCACTTTAAAAA
1 ACCCTAAACCACTT-TAAC-CTACAAA
4970586 ACCCTAAACCACTTTAACCTACAAA
1 ACCCTAAACCACTTTAACCTACAAA
4970611 ACC
1 ACC
4970614 TTCACCACTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
26 15 0.39
27 2 0.05
ACGTcount: A:0.39, C:0.35, G:0.01, T:0.24
Consensus pattern (25 bp):
ACCCTAAACCACTTTAACCTACAAA
Found at i:4970611 original size:26 final size:26
Alignment explanation
Indices: 4970535--4970611 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 26
4970525 ATCGAACTTT
*
4970535 ACCCTAAACCACTTTAACCTAC-ACA
1 ACCCTAAACCACTTTAACCTACAAAA
** * * *
4970560 ACCCTTGATCA-TTCTCACTTTA-AAAA
1 ACCCTAAACCACTT-TAAC-CTACAAAA
4970586 ACCCTAAACCACTTTAACCTACAAAA
1 ACCCTAAACCACTTTAACCTACAAAA
4970612 CCTTCACCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 9
0.64 0.20 0.16
Matches are distributed among these distances:
24 2 0.06
25 13 0.36
26 19 0.53
27 2 0.06
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.25
Consensus pattern (26 bp):
ACCCTAAACCACTTTAACCTACAAAA
Found at i:4970782 original size:7 final size:7
Alignment explanation
Indices: 4970747--4970794 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
4970737 AAATTCTAAT
4970747 AACCCTA
1 AACCCTA
4970754 AACCACTA
1 AACC-CTA
* * *
4970762 TCACCTTT
1 -AACCCTA
4970770 AACCCTA
1 AACCCTA
4970777 AACCCTA
1 AACCCTA
4970784 AACCCTA
1 AACCCTA
4970791 AACC
1 AACC
4970795 AATACCCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 26 0.79
8 4 0.12
9 3 0.09
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:4972140 original size:28 final size:28
Alignment explanation
Indices: 4972108--4972164 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4972098 TCATCGTTGC
*
4972108 TTTCAAACATTGAC-TCACCAACATAATG
1 TTTCAAACACTGACTTCA-CAACATAATG
* *
4972136 TTTCAAGCACTGACTTCACGACATAATG
1 TTTCAAACACTGACTTCACAACATAATG
4972164 T
1 T
4972165 AAACGAAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
TTTCAAACACTGACTTCACAACATAATG
Found at i:4973616 original size:2 final size:2
Alignment explanation
Indices: 4973609--4973657 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4973599 TCACCTAACT
4973609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4973651 TA TA TA T
1 TA TA TA T
4973658 GAGGTAGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4982792 original size:97 final size:97
Alignment explanation
Indices: 4982621--4982813 Score: 359
Period size: 97 Copynumber: 2.0 Consensus size: 97
4982611 GAACAGTTTC
*
4982621 CATCGGAGGAAGTCGTATCTGATTACTCATCAAGTCATCGGACTCTGTTTTCTGAGCTGCAATCT
1 CATCGGAGGAAGTCGTATCTGATTACTCATCAAGTCATCGGACTCTGTTTTCTAAGCTGCAATCT
4982686 ATTAATTTCCCTGAAAGTTCGGATTTAGATTT
66 ATTAATTTCCCTGAAAGTTCGGATTTAGATTT
*
4982718 CATCGGGGGAAGTCGTATCTGATTACTCATCAAGTCATCGGACTCTGTTTTCTAAGCTGCAATCT
1 CATCGGAGGAAGTCGTATCTGATTACTCATCAAGTCATCGGACTCTGTTTTCTAAGCTGCAATCT
*
4982783 ATTATTTTCCCTGAAAGTTCGGATTTAGATT
66 ATTAATTTCCCTGAAAGTTCGGATTTAGATT
4982814 ACTCATCAAG
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (97 bp):
CATCGGAGGAAGTCGTATCTGATTACTCATCAAGTCATCGGACTCTGTTTTCTAAGCTGCAATCT
ATTAATTTCCCTGAAAGTTCGGATTTAGATTT
Found at i:4985792 original size:122 final size:123
Alignment explanation
Indices: 4985638--4985889 Score: 402
Period size: 129 Copynumber: 2.0 Consensus size: 123
4985628 ATTGAATTAT
*
4985638 ATACTTTGTGAAACCTCAAGTTTTAGTAGTTTTTTTTTAACTTTTCAATTAAATTTTGAAATAAA
1 ATACTTTGTGAAACCTCAAGTTTTAGTAG--TTTTTTAAACTTTTCAATTAAATTTTGAAATAAA
4985703 GAG-A-TTT-ATTTTTTTTAAAATTAATTCAAACACATACTTATTCATAAATCCTAATAC
64 GAGTATTTTAATTTTTTTTAAAATTAATTCAAACACATACTTATTCATAAATCCTAATAC
4985760 ATACTTTGTGAAACCTCAAGTTTTAGTAGTTTTTTAAACTTTTCAATTAAATTTTGAAATAAAGA
1 ATACTTTGTGAAACCTCAAGTTTTAGTAGTTTTTTAAACTTTTCAATTAAATTTTGAAATAAAGA
4985825 GATTTATTTTTTAAATTTTTTTTAAAATTAATTCAAACACATACTTATTCATAAATCCTAATAC
66 G---TA--TTTT-AATTTTTTTTAAAATTAATTCAAACACATACTTATTCATAAATCCTAATAC
4985889 A
1 A
4985890 AGAAAATCGA
Statistics
Matches: 120, Mismatches: 1, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
120 36 0.30
122 29 0.24
124 1 0.01
127 3 0.03
129 51 0.43
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (123 bp):
ATACTTTGTGAAACCTCAAGTTTTAGTAGTTTTTTAAACTTTTCAATTAAATTTTGAAATAAAGA
GTATTTTAATTTTTTTTAAAATTAATTCAAACACATACTTATTCATAAATCCTAATAC
Found at i:4986581 original size:17 final size:17
Alignment explanation
Indices: 4986559--4986591 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4986549 TAAAAATTTT
4986559 AATAGAAAATATATAAA
1 AATAGAAAATATATAAA
4986576 AATAGAAAATATATAA
1 AATAGAAAATATATAA
4986592 TAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAGAAAATATATAAA
Found at i:4987745 original size:15 final size:15
Alignment explanation
Indices: 4987727--4987804 Score: 72
Period size: 15 Copynumber: 5.4 Consensus size: 15
4987717 AAATATAAAA
4987727 ATTATTATAAAATAT
1 ATTATTATAAAATAT
**
4987742 ATTATT-TAACCT-T
1 ATTATTATAAAATAT
** * *
4987755 -TTAAAATATAATAA
1 ATTATTATAAAATAT
*
4987769 ATAATTATAAAATAT
1 ATTATTATAAAATAT
4987784 ATTATTATAAAATAT
1 ATTATTATAAAATAT
4987799 ATTATT
1 ATTATT
4987805 TTAATTATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
12 3 0.07
13 4 0.09
14 4 0.09
15 35 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATTATAAAATAT
Found at i:4987750 original size:41 final size:41
Alignment explanation
Indices: 4987687--4987789 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
4987677 TTTAATTTTA
* *
4987687 TATTAATAAAATATGTTCTTTAA-TTATTAAAAATATAA-AAAT
1 TATT-ATAAAATATATTATTTAACTT-TT-AAAATATAATAAAT
4987729 TATTATAAAATATATTATTTAACCTTTTAAAATATAATAAAT
1 TATTATAAAATATATTATTTAA-CTTTTAAAATATAATAAAT
*
4987771 AATTATAAAATATATTATT
1 TATTATAAAATATATTATT
4987790 ATAAAATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
41 25 0.45
42 28 0.51
43 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (41 bp):
TATTATAAAATATATTATTTAACTTTTAAAATATAATAAAT
Found at i:4987762 original size:22 final size:20
Alignment explanation
Indices: 4987692--4987812 Score: 74
Period size: 22 Copynumber: 6.1 Consensus size: 20
4987682 TTTTATATTA
* *
4987692 ATAAAATATGTTCTTTAATT
1 ATAAAATATATTATTTAATT
** *
4987712 ATTAAAAATATAAAAATT-ATT
1 A-T-AAAATATATTATTTAATT
4987733 ATAAAATATATTATTTAACCTT
1 ATAAAATATATTATTTAA--TT
* * **
4987755 TTAAAATATAATAAATAATT
1 ATAAAATATATTATTTAATT
4987775 AT-AAA-ATA-TA-TT-ATT
1 ATAAAATATATTATTTAATT
4987790 ATAAAATATATTATTTTAATT
1 ATAAAATATATTA-TTTAATT
4987811 AT
1 AT
4987813 TTTAAAATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
15 5 0.07
16 4 0.05
17 5 0.07
18 5 0.07
19 14 0.18
20 8 0.11
21 10 0.13
22 25 0.33
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (20 bp):
ATAAAATATATTATTTAATT
Found at i:4990959 original size:102 final size:102
Alignment explanation
Indices: 4990783--4990983 Score: 402
Period size: 102 Copynumber: 2.0 Consensus size: 102
4990773 CAAGAAGAGA
4990783 ATCCTACAGAACGTGGAAACTGGGGAGAGAAAAAAAGTGAAACTGATATTATAAGGAATGTTCAG
1 ATCCTACAGAACGTGGAAACTGGGGAGAGAAAAAAAGTGAAACTGATATTATAAGGAATGTTCAG
4990848 TGAAAAAATAAAATAAAAATAGAGTAATTTGTGCAAT
66 TGAAAAAATAAAATAAAAATAGAGTAATTTGTGCAAT
4990885 ATCCTACAGAACGTGGAAACTGGGGAGAGAAAAAAAGTGAAACTGATATTATAAGGAATGTTCAG
1 ATCCTACAGAACGTGGAAACTGGGGAGAGAAAAAAAGTGAAACTGATATTATAAGGAATGTTCAG
4990950 TGAAAAAATAAAATAAAAATAGAGTAATTTGTGC
66 TGAAAAAATAAAATAAAAATAGAGTAATTTGTGC
4990984 CATTTGGTGA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (102 bp):
ATCCTACAGAACGTGGAAACTGGGGAGAGAAAAAAAGTGAAACTGATATTATAAGGAATGTTCAG
TGAAAAAATAAAATAAAAATAGAGTAATTTGTGCAAT
Found at i:4993677 original size:23 final size:23
Alignment explanation
Indices: 4993662--4993714 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4993652 ATTGCATCGA
*
4993662 AGTGCCACGTAGAATTTCACCAG
1 AGTGCCACGTAGAATTGCACCAG
* *
4993685 AGTGCCGCGTAGAATTGTACC-G
1 AGTGCCACGTAGAATTGCACCAG
4993707 TAGTGCCA
1 -AGTGCCA
4993715 TATAATAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCAG
Found at i:4994234 original size:29 final size:30
Alignment explanation
Indices: 4994164--4994223 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
4994154 AAATTTAAGG
4994164 CAAAATGATTTTTGGACTTGAATTGAATTTA
1 CAAAATG-TTTTTGGACTTGAATTGAATTTA
4994195 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4994224 TTAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4994461 original size:41 final size:41
Alignment explanation
Indices: 4994414--4994495 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
4994404 AATGCAATTA
* *
4994414 GTGCATCGATGCATCCTTCTATGCATCGATGCATC-AAGGCT
1 GTGCATCGATGCATCCTGCTATGCATCCATGCA-CGAAGGCT
* *
4994455 GTGCATCGATGCATGCTGCTGTGCATCCATGCACGAAGGCT
1 GTGCATCGATGCATCCTGCTATGCATCCATGCACGAAGGCT
4994496 ACAACGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.27
Consensus pattern (41 bp):
GTGCATCGATGCATCCTGCTATGCATCCATGCACGAAGGCT
Found at i:4994477 original size:20 final size:19
Alignment explanation
Indices: 4994414--4994487 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
4994404 AATGCAATTA
*
4994414 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCAT-CTGCT
* *
4994434 ATGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC--TGCT
4994455 GTGCATCGATGCATGCTGCT
1 GTGCATCGATGCAT-CTGCT
*
4994475 GTGCATCCATGCA
1 GTGCATCGATGCA
4994488 CGAAGGCTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 28 0.62
21 15 0.33
22 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.28
Consensus pattern (19 bp):
GTGCATCGATGCATCTGCT
Found at i:4997771 original size:31 final size:31
Alignment explanation
Indices: 4997704--4997763 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
4997694 AAATTTAAGG
4997704 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
4997735 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
4997764 TTCAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:4997966 original size:20 final size:20
Alignment explanation
Indices: 4997941--4998014 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
4997931 AATACAATTA
* *
4997941 GTGCATAGATGCATCCTTCT
1 GTGCATCGATGCATCCTACT
*
4997961 GTGCATCGATGCAT-CAAGGCT
1 GTGCATCGATGCATCCTA--CT
4997982 GTGCATCGATGCATCCTACT
1 GTGCATCGATGCATCCTACT
*
4998002 GTGCATCCATGCA
1 GTGCATCGATGCA
4998015 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.59
21 16 0.35
22 2 0.04
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:4997993 original size:41 final size:41
Alignment explanation
Indices: 4997941--4998023 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
4997931 AATACAATTA
* *
4997941 GTGCATAGATGCATCCTTCTGTGCATCGATGCATC-AAGGCT
1 GTGCATAGATGCATCCTACTGTGCATCCATGCA-CGAAGGCT
*
4997982 GTGCATCGATGCATCCTACTGTGCATCCATGCACGAAGGCT
1 GTGCATAGATGCATCCTACTGTGCATCCATGCACGAAGGCT
4998023 G
1 G
4998024 CAACGGCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (41 bp):
GTGCATAGATGCATCCTACTGTGCATCCATGCACGAAGGCT
Found at i:5005057 original size:23 final size:23
Alignment explanation
Indices: 5005026--5005094 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
5005016 CACCACAGCT
* *
5005026 CGTATAATTGCACTGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
5005049 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
5005072 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
5005095 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:5007914 original size:20 final size:20
Alignment explanation
Indices: 5007857--5007914 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
5007847 CTTTAGAGTT
*
5007857 CTCTAGAATGTTCTAGAAAA
1 CTCTAGAATTTTCTAGAAAA
* * * * * *
5007877 TTCTACACTTCTCCAGAAAG
1 CTCTAGAATTTTCTAGAAAA
5007897 CTCTAGAATTTTCTAGAA
1 CTCTAGAATTTTCTAGAA
5007915 CCTCTCCAAT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
CTCTAGAATTTTCTAGAAAA
Found at i:5033890 original size:8 final size:8
Alignment explanation
Indices: 5033877--5033902 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5033867 ATCCTTGTAA
5033877 TAGTTTGG
1 TAGTTTGG
5033885 TAGTTTGG
1 TAGTTTGG
5033893 TAGTTTGG
1 TAGTTTGG
5033901 TA
1 TA
5033903 AACAGGACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (8 bp):
TAGTTTGG
Found at i:5042931 original size:23 final size:22
Alignment explanation
Indices: 5042875--5042921 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
5042865 GAGAGGTTTA
5042875 CTAAAGTCATCCTAAAAAACGG
1 CTAAAGTCATCCTAAAAAACGG
5042897 CTAAAGTCATCCTAAAAAACGG
1 CTAAAGTCATCCTAAAAAACGG
5042919 CTA
1 CTA
5042922 CAAGCAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (22 bp):
CTAAAGTCATCCTAAAAAACGG
Found at i:5052045 original size:29 final size:29
Alignment explanation
Indices: 5052012--5052075 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
5052002 TGTATCACTG
5052012 AACTTTTAATTTCA-CTAATTATAACATTA
1 AACTTTTAATTTCATC-AATTATAACATTA
*
5052041 AACTTTTAATTTCATCAATTATAGCATTA
1 AACTTTTAATTTCATCAATTATAACATTA
*
5052070 TACTTT
1 AACTTT
5052076 GATTTTAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.47
Consensus pattern (29 bp):
AACTTTTAATTTCATCAATTATAACATTA
Found at i:5055541 original size:21 final size:21
Alignment explanation
Indices: 5055509--5055548 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5055499 AACTGCCCAG
5055509 TAAAGAGGGTATCAGTACTCC
1 TAAAGAGGGTATCAGTACTCC
5055530 TAAAG-GGAGTATCAGTACT
1 TAAAGAGG-GTATCAGTACT
5055549 ACTTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (21 bp):
TAAAGAGGGTATCAGTACTCC
Found at i:5057492 original size:23 final size:23
Alignment explanation
Indices: 5057448--5057529 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
5057438 ATCCAGAATG
* *
5057448 ACCACATAAGTTTTGCACCGAAGT
1 ACCACAT-AGATTTGCATCGAAGT
5057472 ACCACATAGATTTGCATCGAAGT
1 ACCACATAGATTTGCATCGAAGT
* * * * *
5057495 GCCATATAGGTTTG-TTCTGAAGG
1 ACCACATAGATTTGCATC-GAAGT
5057518 ACCACATAGATT
1 ACCACATAGATT
5057530 GTCCCGAAGG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
22 2 0.04
23 38 0.81
24 7 0.15
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
ACCACATAGATTTGCATCGAAGT
Found at i:5060345 original size:16 final size:17
Alignment explanation
Indices: 5060326--5060360 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5060316 TATTTTATTT
5060326 TTATAATA-TTTAAATA
1 TTATAATATTTTAAATA
*
5060342 TTATATTATTTTAAATA
1 TTATAATATTTTAAATA
5060359 TT
1 TT
5060361 TTATTGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATAATATTTTAAATA
Found at i:5075841 original size:17 final size:17
Alignment explanation
Indices: 5075819--5075860 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
5075809 TGCCTTGAAG
5075819 ATATGGTGTTATTATCT
1 ATATGGTGTTATTATCT
5075836 ATATGGTGTTATTATCT
1 ATATGGTGTTATTATCT
5075853 ATATGGTG
1 ATATGGTG
5075861 AGAGATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (17 bp):
ATATGGTGTTATTATCT
Found at i:5077640 original size:29 final size:29
Alignment explanation
Indices: 5077606--5077691 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
5077596 TTTGTCTAGT
5077606 GACCAAAATATAAATTTTAAAAGTTTAGTA
1 GACCAAAATATAAATTTTAAAAGTTTAG-A
* * *
5077636 G-CCAAAGTATAAACTTTAGAAAAGTTTAGG
1 GACCAAAATATAAA-TTT-TAAAAGTTTAGA
* *
5077666 GACCAAAATGT-AATTTTAAAAATTTA
1 GACCAAAATATAAATTTTAAAAGTTTA
5077692 TGTAATTCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
28 8 0.17
29 14 0.30
30 7 0.15
31 17 0.37
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (29 bp):
GACCAAAATATAAATTTTAAAAGTTTAGA
Found at i:5082108 original size:21 final size:21
Alignment explanation
Indices: 5082066--5082116 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
5082056 ATCCCGACAA
* *
5082066 TATTAATATTATTATTTGCTT
1 TATTATTATTATTATATGCTT
5082087 TATTATTATTATTAATAT-CTT
1 TATTATTATTATT-ATATGCTT
*
5082108 T-TTTTTATT
1 TATTATTATT
5082117 TCTGTATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 16 0.62
22 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTATTATTATTATATGCTT
Found at i:5085449 original size:54 final size:54
Alignment explanation
Indices: 5085367--5085819 Score: 649
Period size: 54 Copynumber: 8.4 Consensus size: 54
5085357 CTATGTGTGT
*
5085367 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACAG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
*
5085421 AATTCATCATATGTTGATGAACAACCGTTTCGGCACTATGTGTGCAATTCACGG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
*
5085475 AATTCATAATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
* * * * * * *
5085529 AATTCATCATATTTTGGTGAACAACCGTTTCAAAACTATGTATGCAACTCACAG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
* * * *
5085583 AATTCATCATATGTTGATGAACAACCGTTTCGGCACTATGCGTGTAACTCACGG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
* *
5085637 AATTCATCATATGTTGATGAACAACCGTTTCGATACTATGCGTGCAATTCACGG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
* *
5085691 AATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTGCAATTCAAGG
1 AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
* * * *
5085745 AATTCATCATATGTT-AGTGAACAACCGTTTAGGCACTATATGTGCAA-CCTACGG
1 AATTCATCATATGTTGA-TGAACAACCGTTTCGACACTATGTGTGCAATTC-ACGG
* * *
5085799 AATTCATAATAAGTTTATGAA
1 AATTCATCATATGTTGATGAA
5085820 TTTTCGTATG
Statistics
Matches: 359, Mismatches: 37, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 356 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTGCAATTCACGG
Found at i:5085514 original size:27 final size:27
Alignment explanation
Indices: 5085376--5085515 Score: 73
Period size: 27 Copynumber: 5.2 Consensus size: 27
5085366 TAATTCATCA
5085376 TATGTTGATGAACAACCGTTTCGACAC
1 TATGTTGATGAACAACCGTTTCGACAC
* *
5085403 TATG-TG-TGCAATTC-ACAGAATTC-ATCA-
1 TATGTTGATG-AA--CAACCG-TTTCGA-CAC
*
5085430 TATGTTGATGAACAACCGTTTCGGCAC
1 TATGTTGATGAACAACCGTTTCGACAC
* * * *
5085457 TATG-TG-TGCAATTC-ACGGAATTC-ATAA
1 TATGTTGATG-AA--CAACCG-TTTCGACAC
5085484 TATGTTGATGAACAACCGTTTCGACAC
1 TATGTTGATGAACAACCGTTTCGACAC
5085511 TATGT
1 TATGT
5085516 GTGCAATTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 36
0.62 0.11 0.27
Matches are distributed among these distances:
25 4 0.05
26 18 0.22
27 37 0.46
28 18 0.22
29 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
TATGTTGATGAACAACCGTTTCGACAC
Found at i:5086035 original size:45 final size:45
Alignment explanation
Indices: 5085986--5086213 Score: 339
Period size: 45 Copynumber: 5.1 Consensus size: 45
5085976 ATAAAAGACT
* * *
5085986 AAATGCATAACGGTGTATTAAAGGCAGGAAATGATGTCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
* * *
5086031 AAATGCATAATGATGCATTAAAGGCATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
* *
5086076 AAATACATAACAGTGCATTAAAGGCATGAAAGGATGTCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
* *
5086121 AAATGCATAACGGAGCATTAAAGGCATGAAAAGATGTCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
* * *
5086166 AAATGCATAATGGTGCATTAAAGGCATGAAAGGATGCCTTAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
5086211 AAA
1 AAA
5086214 ATAATGAATA
Statistics
Matches: 163, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 163 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (45 bp):
AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATG
Found at i:5087178 original size:23 final size:23
Alignment explanation
Indices: 5087152--5087220 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
5087142 CACCATAGCT
*
5087152 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
5087175 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
5087198 CATAGAATTACACC-ATAGTGCCA
1 CGTAGAATTGCACCGA-AGTGCCA
5087221 TATAATAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:5087421 original size:103 final size:103
Alignment explanation
Indices: 5087236--5087448 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
5087226 TAATGTTCAT
* *
5087236 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTACTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
*
5087301 GACTTCATACATATTCCAAAGAATACATATATATCCCG
66 GACTTCACACATATTCCAAAGAATACATATATATCCCG
* *
5087339 AAGGACCACATATCATTACTTAAGAATCATATACATATGCTAAGGATCAAGTATGTGTCTCGCCA
1 AAGGACCACATATCATTACTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
*
5087404 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATATTCCAAAGAATACATATATATCCCG
5087442 AAGGACC
1 AAGGACC
5087449 GCGTAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTACTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATATCCCG
Found at i:5092356 original size:103 final size:103
Alignment explanation
Indices: 5092177--5092386 Score: 357
Period size: 103 Copynumber: 2.0 Consensus size: 103
5092167 TGTTCATAAG
* * *
5092177 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGCGTCTCACCAGAC
* *
5092242 TTCACACATGTTCCAAAGAATACATATATATCCCGAAT
66 TTCACACATGTTCCAAAAAATACATATATATCCCGAAA
*
5092280 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGCGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGCGTCTCACCAGAC
*
5092345 TTCACACATGTTCTAAAAAATACATATATATCCCGAAA
66 TTCACACATGTTCCAAAAAATACATATATATCCCGAAA
5092383 GACC
1 GACC
5092387 GCGTAGACCC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGCGTCTCACCAGAC
TTCACACATGTTCCAAAAAATACATATATATCCCGAAA
Found at i:5095690 original size:40 final size:41
Alignment explanation
Indices: 5095585--5095780 Score: 184
Period size: 42 Copynumber: 4.7 Consensus size: 41
5095575 TTTTATTCTC
* * * *
5095585 AAACGCCGCTAATTCTCTTTTCTTTAGTGGCTTTTTTTACCAC
1 AAACG-CGCTAATTCTCTTGTCTTTAGTGGC-ATTTTTGCCAA
*
5095628 AAACGCTGCTAATTCTCTTGTCTTTAGTGTCATTTTTGCCAA
1 AAACGC-GCTAATTCTCTTGTCTTTAGTGGCATTTTTGCCAA
* *
5095670 AAAC-CGTTAATTCTCTTGTCTTTAGTGGC-TTTTTCGCCAC
1 AAACGCGCTAATTCTCTTGTCTTTAGTGGCATTTTT-GCCAA
* * *
5095710 AAACGTCGTTAATTCTC--GTCTTTGGTGGCATTTTTCTGCCAC
1 AAACG-CGCTAATTCTCTTGTCTTTAGTGGCA-TTTT-TGCCAA
* *
5095752 AAACGCCGCTAATTCTATTGTTTTTAGTG
1 AAACG-CGCTAATTCTCTTGTCTTTAGTG
5095781 ACGTTATATA
Statistics
Matches: 130, Mismatches: 14, Indels: 17
0.81 0.09 0.11
Matches are distributed among these distances:
39 5 0.04
40 41 0.32
41 1 0.01
42 47 0.36
43 28 0.22
44 8 0.06
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (41 bp):
AAACGCGCTAATTCTCTTGTCTTTAGTGGCATTTTTGCCAA
Found at i:5095751 original size:42 final size:41
Alignment explanation
Indices: 5095584--5095767 Score: 187
Period size: 40 Copynumber: 4.4 Consensus size: 41
5095574 TTTTTATTCT
* * *
5095584 CAAACGCCGCTAATTCTCTTTTCTTTAGTGGCTTTTTTTACCA
1 CAAACG-CGCTAATTCTC-TGTCTTTAGTGGCTTTTTCTGCCA
* *
5095627 CAAACGCTGCTAATTCTCTTGTCTTTAGTGTCATTTT-TGCCA
1 CAAACGC-GCTAATTCTC-TGTCTTTAGTGGCTTTTTCTGCCA
* *
5095669 AAAAC-CGTTAATTCTCTTGTCTTTAGTGGCTTTTTC-GCCA
1 CAAACGCGCTAATTCTC-TGTCTTTAGTGGCTTTTTCTGCCA
* *
5095709 CAAACGTCGTTAATTCTC-GTCTTTGGTGGCATTTTTCTGCCA
1 CAAACG-CGCTAATTCTCTGTCTTTAGTGGC-TTTTTCTGCCA
5095751 CAAACGCCGCTAATTCT
1 CAAACG-CGCTAATTCT
5095768 ATTGTTTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
40 45 0.37
41 7 0.06
42 39 0.32
43 32 0.26
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (41 bp):
CAAACGCGCTAATTCTCTGTCTTTAGTGGCTTTTTCTGCCA
Found at i:5101794 original size:52 final size:51
Alignment explanation
Indices: 5101585--5102199 Score: 620
Period size: 51 Copynumber: 11.7 Consensus size: 51
5101575 ACCTTCTGTC
* * * *
5101585 AACGGGTTCGTTCCCTCTTCCTTCAGGGAGTATAGAACTTGAACAATCATTTGCA
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC-ATC--TT-CA
* * * * *
5101640 AACGAGTTTGCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACA---TCTTCA
* * * *
5101694 TACGGGTTCGTTCCCTCTTTATCTAGGGAGTATAGAACTCGAACATCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
*
5101745 AACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAACATCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACATCTTCA
* *
5101797 AAAGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAACATCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACATCTTCA
* * *
5101849 AACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGGACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAA-CATC-T-T-CA
* * * *
5101905 AACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCG-A-A-CATCTTCA
* * * * *
5101959 TACGGGTTCGTTCCCTCTTTATCTAGGGAGTATGGAACTCGAACATCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* * * * * *
5102010 AACGGGTTTGCTCCCTCTTTCTTCAGGGAGAATATAACTCAAATATCTTCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC-GA-A-CATCTTCA
* * * * * *
5102064 AACGGGTTCGTTCCCTCTTTATCTAGGGAGTATGGAACTCAAACATCTTCT
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* *
5102115 AACAGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCA
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* * * *
5102166 AACGTG-TCTGCTCCCTATTTCTTCAGAGAGTATA
1 AACGGGTTC-GCTCCCTCTTTCTTTAGGGAGTATA
5102200 AGACCCACAA
Statistics
Matches: 473, Mismatches: 73, Indels: 32
0.82 0.13 0.06
Matches are distributed among these distances:
50 2 0.00
51 137 0.29
52 122 0.26
53 7 0.01
54 118 0.25
55 55 0.12
56 26 0.05
57 6 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (51 bp):
AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
Found at i:5102038 original size:105 final size:104
Alignment explanation
Indices: 5101585--5102164 Score: 600
Period size: 105 Copynumber: 5.5 Consensus size: 104
5101575 ACCTTCTGTC
* * * * * *
5101585 AACGGGTTCGTTCCCTCTTCCTTCAGGGAGTATAGAACTTGAACAATCATT-TGCAAACGAGTTT
1 AACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG-A-AATC-TTCTTCAAACGGGTTC
* * *
5101649 GCTCCCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCT
63 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACA---TCTTCA
* * * *
5101694 TACGGGTTCGTTCCCTCTTT-ATCTAGGGAGTATAGAACTCG-AA-CATCTTCAAACGGGTTCGC
1 AACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCGC
* * *
5101756 TCCCTCTTTCTTTCAGGAAGTATAGAACTCGAACATCTTCA
65 TCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACATCTTCA
* * *
5101797 AAAGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCG-AA-CATCTTCAAACGGGTTCGC
1 AACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCGC
* * *
5101860 TCCCTCTTTCTTTCAGGAAGTATAGG-ACTCGAATAATCTTCTGCA
65 TCCCTCTTTCTCT-AGGGAGTAT-GGAACTCGAA-CATC-T-T-CA
* **
5101905 AACAGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGAATATCTTCTTCTTACGGGTTCG
1 AACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAA-ATCTTCTTCAAACGGGTTCG
* *
5101969 TTCCCTCTTTATCTAGGGAGTATGGAACTCGAACATCTTCA
64 CTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCA
* * * * *
5102010 AACGGGTTTGCTCCCTCTTTCTTCAGGGAGAATATAACTCAAATATCTTCTTCAAACGGGTTCGT
1 AACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-ATCTTCTTCAAACGGGTTCGC
* * *
5102075 TCCCTCTTTATCTAGGGAGTATGGAACTCAAACATCTTCT
65 TCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCA
* *
5102115 AACAGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTC
1 AACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCG-AAATCTTC
5102165 AAACGTGTCT
Statistics
Matches: 409, Mismatches: 45, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
103 22 0.05
104 68 0.17
105 167 0.41
106 29 0.07
107 18 0.04
108 29 0.07
109 50 0.12
110 26 0.06
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (104 bp):
AACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCGCT
CCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCA
Found at i:5102149 original size:265 final size:263
Alignment explanation
Indices: 5101589--5102164 Score: 827
Period size: 265 Copynumber: 2.2 Consensus size: 263
5101579 TCTGTCAACG
* * * * *
5101589 GGTTCGTTCCCTCTTCCTTCAGGGAGTATAGAACTTGAACAATCATT-TGCAAACGAGTTTGCTC
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAA-AATC-TTCTGCAAACGAGTTCGCTC
5101653 CCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTATCT
64 CCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTATCT
*
5101718 AGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAA
129 AGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGAATAGAA
* * * *
5101783 CTCGAACATCTTCAAAAGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAACATCTTC
194 CTCAAACATCTTCAAAAGGGTTCGCTCCCTCTTTATCTCAGGAAGTATAGAACTCAAACATCTTC
*
5101848 AAACG
259 AAACA
* *
5101853 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGGACTCGAATAATCTTCTGCAAAC-AGGTTCGCT
1 GGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAA-AATCTTCTGCAAACGA-GTTCGCT
* *
5101917 CCCTCTTTCTCTAGGGAGTATAGAACTCGAATATCTTCTTCTTACGGGTTCGTTCCCTCTTTATC
63 CCCTCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTATC
* * * *
5101982 TAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTTGCTCCCTCTTTC-TTCAGGGAGAATATA
128 TAGGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGAATAGA
* * * * *
5102046 ACTCAAATATCTTCTTCAAACGGGTTCGTTCCCTCTTTATCT-AGGGAGTATGGAACTCAAACAT
193 ACTC-AA-A-CATCTTCAAAAGGGTTCGCTCCCTCTTTATCTCAGGAAGTATAGAACTCAAACAT
*
5102110 CTTCTAACA
255 CTTCAAACA
5102119 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTC
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTC
5102165 AAACGTGTCT
Statistics
Matches: 278, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
264 43 0.15
265 161 0.58
266 47 0.17
267 27 0.10
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (263 bp):
GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCTGCAAACGAGTTCGCTCCC
TCTTTCTCTAGGGAGTATAGAACTCAAACATCTTCTTCTTACGGGTTCGTTCCCTCTTTATCTAG
GGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGAATAGAACT
CAAACATCTTCAAAAGGGTTCGCTCCCTCTTTATCTCAGGAAGTATAGAACTCAAACATCTTCAA
ACA
Found at i:5102343 original size:55 final size:55
Alignment explanation
Indices: 5102171--5102550 Score: 543
Period size: 55 Copynumber: 7.0 Consensus size: 55
5102161 CTTCAAACGT
* * *
5102171 GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCATCAATCAC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
* *
5102224 GTCTTCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCATCAATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
*
5102277 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
* * *
5102332 GTCCGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
* *
5102387 GTCTGCCCTCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
* * ** *
5102442 GTCCGCCCCCTATTTCCTCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
* * ** *
5102497 GTCCGCCCCCTATTTCTTCAGAGAGTATGAGACTTGAACAATCTTCAACGATCG
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCG
5102551 TAGGGAACCT
Statistics
Matches: 301, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
53 84 0.28
55 217 0.72
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (55 bp):
GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGC
Found at i:5102415 original size:110 final size:110
Alignment explanation
Indices: 5102127--5102551 Score: 589
Period size: 110 Copynumber: 3.9 Consensus size: 110
5102117 CAGGTTCGCT
* * * * *
5102127 CCCTCTTTCTTTAGGGAGTAT-AGAACTCGAA-AATCTTCAA--A-CGTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTC
* ** **
5102187 TTCAGAGAGTATAAGACCC--ACAATCTTCATCAATCACGTCTTCC
65 TTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
* * *
5102231 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
5102294 TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
66 TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
*
5102339 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCTCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
5102404 TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
66 TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
* * *
5102449 CCCTATTTCCTCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGCGTCCGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
* ** *
5102514 TCAGAGAGTATGAGACTTGAACAATCTTCAACGATCGT
66 TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGT
5102552 AGGGAACCTG
Statistics
Matches: 288, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
102 1 0.00
103 9 0.03
104 20 0.07
105 3 0.01
106 36 0.12
108 46 0.16
109 1 0.00
110 172 0.60
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (110 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCCGCC
Found at i:5118163 original size:28 final size:28
Alignment explanation
Indices: 5118123--5118206 Score: 150
Period size: 28 Copynumber: 3.0 Consensus size: 28
5118113 CTCAACTTTG
5118123 TATGTAGGGTTGCATCAACACTCAGCCT
1 TATGTAGGGTTGCATCAACACTCAGCCT
5118151 TATGTAGGGTTGCATCAACACTCAGCCT
1 TATGTAGGGTTGCATCAACACTCAGCCT
* *
5118179 TATGTAGGGTTGCACCAACATTCAGCCT
1 TATGTAGGGTTGCATCAACACTCAGCCT
5118207 CGGATGACAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (28 bp):
TATGTAGGGTTGCATCAACACTCAGCCT
Found at i:5120162 original size:21 final size:21
Alignment explanation
Indices: 5120138--5120183 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
5120128 TTTCAAAGAG
5120138 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
5120159 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
5120180 GGGA
1 GGGA
5120184 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:5125276 original size:2 final size:2
Alignment explanation
Indices: 5125269--5125297 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5125259 ATACCCAAAA
5125269 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5125298 GTGTATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5126712 original size:125 final size:125
Alignment explanation
Indices: 5126488--5126930 Score: 631
Period size: 125 Copynumber: 3.5 Consensus size: 125
5126478 ATACCCACAC
* * * * * *
5126488 TGGGGCATGACTGAACCCCCATCATTTTGAGATGACATGATTCGGACGAAGTAGGCATTGAGAAT
1 TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
* * * *
5126553 GAGTCTTATAATTTGAGGT-ATTGGGGCATGTTGAAGGCCCGTACCAGGAAAAGATAATGT
66 GAGCCTTACAATTTGAGGTGA-TGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATAATGT
* *
5126613 CGGGGCATGACTGAACCCACATCATGTTGAGATGACAATATTCAGACCCAAG-AGGCA-TGAAGA
1 TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCAGA-CCAAGAAGGCATTG-AGA
* * *
5126676 ATGAGCCTTACAAATTGAGGTGATAGGGCATTTTGAAGGCTCGTACCAGTAAAAGATAATGT
64 ATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATAATGT
* * *
5126738 TGGGGCATGACTGAACCCATACCATGTTGAGATGACAAGATTCAGACAAAGAAGGCATTGAGAAT
1 TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
*
5126803 GAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATAATGT
66 GAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATAATGT
* ** *
5126863 TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCATACCAAGAAGATATTTAGAAT
1 TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
5126928 GAG
66 GAG
5126931 TCTCGCAACT
Statistics
Matches: 283, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
124 6 0.02
125 270 0.95
126 7 0.02
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (125 bp):
TGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATTGAGAAT
GAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTAAAAGATAATGT
Found at i:5128049 original size:205 final size:205
Alignment explanation
Indices: 5127687--5129992 Score: 3893
Period size: 205 Copynumber: 11.2 Consensus size: 205
5127677 GTGAAGCAAA
* * *
5127687 CCATCCATAAAACCTTCAGGTAGGATGTTTTCA-TTGAATTTGAAAAT-AAGAAAATGATGTTTG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAA-AAAATGATG--T-
5127750 AAGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTC
62 ----TG--G-AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTC
*
5127815 GGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
120 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
*
5127880 CAAGATGATAAGTCCTCCGGG
185 CAAGATGATAAGTCCTTCGGG
* *
5127901 ACATCCATAAAACCTTCAGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
*
5127966 ATTTTTGAAAATGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
*
5128031 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
5128096 GTCCTTCGGG
196 GTCCTTCGGG
5128106 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGATGTTGG
*
5128171 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCATAATTTATAAGTCCTTCGGGCCATCAG
65 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
5128236 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
130 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
5128301 AGTCCTTCGGG
195 AGTCCTTCGGG
* *
5128312 CCATCCATAAAACCTTCGGGTATGATGTTTTCACATGAATTTTAGAATG-AAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
* * *
5128376 ATTTTTGAAAACGAAGAATGCGAGTTCCAGAATTTCACAATTTATAATTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
5128441 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
*
5128506 GTCTTTCGGG
196 GTCCTTCGGG
*
5128516 CCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
*
5128581 ATTTTTTGAAAACGAAGAATGCGAGTTTCAGAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
66 A-TTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
5128646 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
130 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
*
5128711 AGTCCTCCGGG
195 AGTCCTTCGGG
*
5128722 ACATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
* * *
5128787 ATTTTTTATAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTTGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
5128852 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
5128917 GTCCTTCGGG
196 GTCCTTCGGG
5128927 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
*
5128992 ATTTTTGAAAACGAAGAATGCGAATTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
5129057 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
5129122 GTCCTTCGGG
196 GTCCTTCGGG
5129132 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
* *
5129197 ATTTTTTATAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
5129262 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
5129327 GTCCTTCGGG
196 GTCCTTCGGG
5129337 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGATGTTGG
*
5129402 AATTTTTGAAAACGAAGAATACGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
65 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
*
5129467 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTAAGTCTTTAGAGCAAGATGATA
130 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
5129532 AGTCCTTCGGG
195 AGTCCTTCGGG
*
5129543 CCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAATGATGTTGGA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
5129607 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
66 ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
* *
5129672 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATTTGTAAGCCTTTAGAGCAAGATGATAA
131 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
5129737 GTCCTTCGGG
196 GTCCTTCGGG
** * * * *
5129747 CCATCTGTAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGA-AATGAAGAAATGGTGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATG--TT-
* * * *
5129811 AGAAGATGAAATTTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCTTTCG
63 ----G--G-AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * *
5129876 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCAGTAAGTCTTTTGATC
121 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
* * *
5129941 ATGATGCTTAAATCCTTCGGG
186 AAGATG-ATAAGTCCTTCGGG
* ** *
5129962 TCATCCATAAGGCCTTCGGGCAGGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTT
5129993 TCACCAAGAT
Statistics
Matches: 2002, Mismatches: 72, Indels: 35
0.95 0.03 0.02
Matches are distributed among these distances:
203 4 0.00
204 396 0.20
205 785 0.39
206 602 0.30
208 2 0.00
211 1 0.00
213 2 0.00
214 149 0.07
215 59 0.03
216 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (205 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTGGA
ATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATAA
GTCCTTCGGG
Found at i:5128281 original size:42 final size:41
Alignment explanation
Indices: 5128215--5128316 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
5128205 TTCATAATTT
* * *
5128215 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
5128256 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
5128298 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
5128317 CATAAAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:5128897 original size:42 final size:41
Alignment explanation
Indices: 5128830--5128931 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
5128820 TTCACAATTT
* * * *
5128830 ATAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
5128871 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
5128913 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
5128932 CATAAAACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:5129101 original size:42 final size:41
Alignment explanation
Indices: 5129035--5129136 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
5129025 TTCACAATTT
* * *
5129035 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
5129076 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
5129118 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
5129137 CATAAAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:5129306 original size:42 final size:41
Alignment explanation
Indices: 5129240--5129341 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
5129230 TTCACAATTT
* * *
5129240 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
5129281 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
5129323 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
5129342 CATAAAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:5129512 original size:42 final size:41
Alignment explanation
Indices: 5129446--5129547 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
5129436 TTCACAATTT
* * *
5129446 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * **
5129487 CTTAAATCCTTCGGGTCATTTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
5129529 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
5129548 CATAAAACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 15 0.31
42 34 0.69
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:5129756 original size:41 final size:42
Alignment explanation
Indices: 5129650--5129762 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
5129640 TTCACAATTT
* * * *
5129650 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
* * * *
5129692 TTAAATCCTTCGGGTCATTTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
5129733 ATAAGTCCTTCGGGCCATCTGTAAGACCTT
1 ATAAGTCCTTCGGGCCATCTGTAAG-CCTT
5129763 CGGGTAGGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
41 21 0.36
42 37 0.64
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
Found at i:5129890 original size:20 final size:19
Alignment explanation
Indices: 5129865--5129935 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
5129855 TCACAATTTA
5129865 TAAGTCTTTCGGGCCATCAG
1 TAAGTCTTTCGGG-CATCAG
* *
5129885 TAAGTCTTTCGAGCATGATG
1 TAAGTCTTTCGGGCATCA-G
* *
5129905 CTTAAATCCTTCGGGTCATCAG
1 --TAAGTCTTTCGGG-CATCAG
5129927 TAAGTCTTT
1 TAAGTCTTT
5129936 TGATCATGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
22 11 0.28
23 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (19 bp):
TAAGTCTTTCGGGCATCAG
Found at i:5129931 original size:42 final size:42
Alignment explanation
Indices: 5129872--5129966 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
5129862 TTATAAGTCT
*
5129872 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
* *
5129914 TTCGGGTCATCAGTAAGTCTTTTGATCATGATGCTTAAATCC
1 TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
5129956 TTCGGGTCATC
1 TTCGGGTCATC
5129967 CATAAGGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (42 bp):
TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
Found at i:5131544 original size:21 final size:21
Alignment explanation
Indices: 5131520--5131565 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
5131510 TTTCAAAGAG
5131520 GGGACGACCAGCCCTTGCTCT
1 GGGACGACCAGCCCTTGCTCT
*
5131541 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTCT
5131562 GGGA
1 GGGA
5131566 AGAATCTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTCT
Found at i:5139213 original size:15 final size:14
Alignment explanation
Indices: 5139176--5139204 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5139166 TTTAGGGAAC
5139176 TAAA-ATTAATTTT
1 TAAATATTAATTTT
5139189 TAAATATTAATTTT
1 TAAATATTAATTTT
5139203 TA
1 TA
5139205 TTTTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATATTAATTTT
Found at i:5141068 original size:16 final size:16
Alignment explanation
Indices: 5141047--5141085 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5141037 GGTATTACCC
*
5141047 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
5141063 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
*
5141079 AACCTGT
1 GACCTGT
5141086 AATTGACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:5141291 original size:37 final size:39
Alignment explanation
Indices: 5141235--5141310 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 39
5141225 TTACTTTTTG
5141235 AAATTTAGTTTTTATATTAATTAT-AATT-TGTATATTAT
1 AAATTTAGTTTTTATATTAATT-TCAATTCTGTATATTAT
* *
5141273 AAATTTCG-TTTTATATTAATTTCAATTCTTTATATTAT
1 AAATTTAGTTTTTATATTAATTTCAATTCTGTATATTAT
5141311 TTATAACTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 1 0.03
37 17 0.50
38 16 0.47
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (39 bp):
AAATTTAGTTTTTATATTAATTTCAATTCTGTATATTAT
Found at i:5141953 original size:23 final size:23
Alignment explanation
Indices: 5141923--5141982 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
5141913 CAGCAACCAG
*
5141923 CAAGCATCACTGTATCAATTCAA
1 CAAGCATCACTGCATCAATTCAA
* *
5141946 CAAGCATCATTGCATCAATTCAG
1 CAAGCATCACTGCATCAATTCAA
*
5141969 TAAGCATC-CTGCAT
1 CAAGCATCACTGCAT
5141983 TAAAAAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (23 bp):
CAAGCATCACTGCATCAATTCAA
Found at i:5142093 original size:20 final size:20
Alignment explanation
Indices: 5142068--5142128 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
5142058 AACCGTTACA
**
5142068 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
*
5142088 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAAGCAAGC
* * * *
5142108 ATTATAAAACAAAATCAAGC
1 AATATCAAACAGAAGCAAGC
5142128 A
1 A
5142129 CCAACTATTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.15
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAGC
Found at i:5144469 original size:2 final size:2
Alignment explanation
Indices: 5144464--5144496 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5144454 AAAAAAATTA
5144464 AT AT 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 AT AT A
5144497 AAGAATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5144724 original size:12 final size:12
Alignment explanation
Indices: 5144707--5144750 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
5144697 TTTCGAATAG
5144707 TTTGGGTTTGGA
1 TTTGGGTTTGGA
*
5144719 TTTGGGTTTGGG
1 TTTGGGTTTGGA
** *
5144731 TTCAGATTTGGA
1 TTTGGGTTTGGA
5144743 TTTGGGTT
1 TTTGGGTT
5144751 CGAGTTCGGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.09, C:0.02, G:0.39, T:0.50
Consensus pattern (12 bp):
TTTGGGTTTGGA
Found at i:5144729 original size:18 final size:18
Alignment explanation
Indices: 5144706--5144751 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
5144696 GTTTCGAATA
**
5144706 GTTTGGGTTTGGATTTGG
1 GTTTGGGTTCAGATTTGG
5144724 GTTTGGGTTCAGATTTGG
1 GTTTGGGTTCAGATTTGG
*
5144742 ATTTGGGTTC
1 GTTTGGGTTC
5144752 GAGTTCGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.04, G:0.39, T:0.48
Consensus pattern (18 bp):
GTTTGGGTTCAGATTTGG
Found at i:5144757 original size:24 final size:24
Alignment explanation
Indices: 5144713--5144762 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
5144703 ATAGTTTGGG
* *
5144713 TTTGGATTTGGGTTTGGGTTCAGA
1 TTTGGATTTGGGTTCGAGTTCAGA
*
5144737 TTTGGATTTGGGTTCGAGTTCGGA
1 TTTGGATTTGGGTTCGAGTTCAGA
5144761 TT
1 TT
5144763 CAGACTCGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.36, T:0.46
Consensus pattern (24 bp):
TTTGGATTTGGGTTCGAGTTCAGA
Found at i:5144761 original size:18 final size:18
Alignment explanation
Indices: 5144725--5144762 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5144715 TGGATTTGGG
*
5144725 TTTGGGTTCAGATTTGGA
1 TTTGGGTTCAGATTCGGA
5144743 TTTGGGTTC-GAGTTCGGA
1 TTTGGGTTCAGA-TTCGGA
5144761 TT
1 TT
5144763 CAGACTCGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.13, C:0.08, G:0.34, T:0.45
Consensus pattern (18 bp):
TTTGGGTTCAGATTCGGA
Found at i:5144833 original size:6 final size:6
Alignment explanation
Indices: 5144805--5144886 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
5144795 ATTTGGATTT
* * * ** * *
5144805 GGGTTC GAGTTC GGGTTT TGGTTC GGGTTC ATGTTC GGGTTC TGGTTT
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC
* * * * *
5144853 GGGTTC GAGTTT GGTTTC AGGTTC GGGTTT GGGT
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGT
5144887 AAAAGGTTAG
Statistics
Matches: 53, Mismatches: 23, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.05, C:0.11, G:0.41, T:0.43
Consensus pattern (6 bp):
GGGTTC
Found at i:5144858 original size:18 final size:18
Alignment explanation
Indices: 5144832--5144884 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
5144822 TTGGTTCGGG
*
5144832 TTCATGTTCGGGTTCTGGT
1 TTCAGGTTCGGGTT-TGGT
* *
5144851 TT-GGGTTCGAGTTTGGT
1 TTCAGGTTCGGGTTTGGT
5144868 TTCAGGTTCGGGTTTGG
1 TTCAGGTTCGGGTTTGG
5144885 GTAAAAGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 6 0.21
18 20 0.71
19 2 0.07
ACGTcount: A:0.06, C:0.11, G:0.38, T:0.45
Consensus pattern (18 bp):
TTCAGGTTCGGGTTTGGT
Found at i:5144875 original size:24 final size:23
Alignment explanation
Indices: 5144773--5144869 Score: 88
Period size: 24 Copynumber: 4.1 Consensus size: 23
5144763 CAGACTCGGG
* * *
5144773 TTTGGATTGGGCTCGAGTTTGGA
1 TTTGGTTTGGGTTCGAGTTTGGT
*
5144796 TTTGGATTTGGGTTCGAGTTCGGGT
1 TTTGG-TTTGGGTTCGAGTT-TGGT
* *
5144821 TTTGGTTCGGGTTC-ATGTTCGGGT
1 TTTGGTTTGGGTTCGA-GTT-TGGT
*
5144845 TCTGGTTTGGGTTCGAGTTTGGT
1 TTTGGTTTGGGTTCGAGTTTGGT
5144868 TT
1 TT
5144870 CAGGTTCGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
23 10 0.16
24 43 0.70
25 8 0.13
ACGTcount: A:0.07, C:0.09, G:0.38, T:0.45
Consensus pattern (23 bp):
TTTGGTTTGGGTTCGAGTTTGGT
Found at i:5144880 original size:24 final size:24
Alignment explanation
Indices: 5144805--5144881 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
5144795 ATTTGGATTT
5144805 GGGTTCGAGTTCGGGTTT-TGGTTC
1 GGGTTCGAGTTC-GGTTTCTGGTTC
* *
5144829 GGGTTC-ATGTTCGGGTTCTGGTTT
1 GGGTTCGA-GTTCGGTTTCTGGTTC
* *
5144853 GGGTTCGAGTTTGGTTTCAGGTTC
1 GGGTTCGAGTTCGGTTTCTGGTTC
5144877 GGGTT
1 GGGTT
5144882 TGGGTAAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.11
24 38 0.86
25 1 0.02
ACGTcount: A:0.05, C:0.12, G:0.40, T:0.43
Consensus pattern (24 bp):
GGGTTCGAGTTCGGTTTCTGGTTC
Found at i:5145180 original size:103 final size:103
Alignment explanation
Indices: 5145065--5145267 Score: 268
Period size: 103 Copynumber: 2.0 Consensus size: 103
5145055 TGTTTGTGAG
* * *
5145065 GGTTTGGGGAAGAACAT-TGATGAACAATG-TATGAACTTTTGGGTGTTTGATCGAAAAAAATA-
1 GGTTTGAGGAAGAAC-TGGGATGAAC-ATGAGATGAACTTTTGGGTGTTTGATCGAAAAAAATAC
* * *
5145127 GGAATGGGTTTAGGATTTGGTGTTTGTGAATATCAAATAAT
64 GAAAT-GGTTTAGGATTTGGTGTTTCTGAAGATCAAATAAT
* *
5145168 GGTTTGAGGAAGAACTGGGATGAACATGAGATGAATTTTTGGGTGTTTGATTGAAAAAAATACGA
1 GGTTTGAGGAAGAACTGGGATGAACATGAGATGAACTTTTGGGTGTTTGATCGAAAAAAATACGA
* *
5145233 AATGGTTTGGGTTTTGGTGTTTCTGAAGATCAAAT
66 AATGGTTTAGGATTTGGTGTTTCTGAAGATCAAAT
5145268 GAGGGGTTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
102 4 0.05
103 79 0.91
104 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (103 bp):
GGTTTGAGGAAGAACTGGGATGAACATGAGATGAACTTTTGGGTGTTTGATCGAAAAAAATACGA
AATGGTTTAGGATTTGGTGTTTCTGAAGATCAAATAAT
Found at i:5145315 original size:89 final size:89
Alignment explanation
Indices: 5145210--5145375 Score: 260
Period size: 89 Copynumber: 1.9 Consensus size: 89
5145200 GAATTTTTGG
* * *
5145210 GTGTTTGATTGAAAAAAATACGAAATGGTTTGGGTTTTGGTGTTTCTGAAGATCAAATGAGGGGT
1 GTGTTTGATCGAAAAAAACACGAAATGGTTTGGGTTTTGGTATTTCTGAAGATCAAATGAGGGGT
*
5145275 TTTGGGATGAACATGGGTTGAAAT
66 TTTCGGATGAACATGGGTTGAAAT
* * * *
5145299 GTGTTTGATCGGAAAAAACACTAAATGGTTTGGGTTTTGGTATTTGTGAAGATCAAATGAGGGTT
1 GTGTTTGATCGAAAAAAACACGAAATGGTTTGGGTTTTGGTATTTCTGAAGATCAAATGAGGGGT
5145364 TTTCGGATGAAC
66 TTTCGGATGAAC
5145376 GCGGATGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.29, C:0.06, G:0.30, T:0.35
Consensus pattern (89 bp):
GTGTTTGATCGAAAAAAACACGAAATGGTTTGGGTTTTGGTATTTCTGAAGATCAAATGAGGGGT
TTTCGGATGAACATGGGTTGAAAT
Found at i:5145686 original size:61 final size:61
Alignment explanation
Indices: 5145614--5145747 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
5145604 TCCTAGTTTT
* * * * *
5145614 AAATTTGTTCAATTTAGTCCAAATTTAAT-TATGCAATATATTGATTTCAGCTTCGTATTTA
1 AAATTTGTTCAATTTAATCCAAATTTAATGT-TACAATATATTAATTTAAGCTTCATATTTA
* *
5145675 AAATTTCTTCAATTTAATCCAAATTTAATGTTACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAATCCAAATTTAATGTTACAATATATTAATTTAAGCTTCATATTTA
5145736 AAATTTGTTCAA
1 AAATTTGTTCAA
5145748 ATTGAACCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 63 0.98
62 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (61 bp):
AAATTTGTTCAATTTAATCCAAATTTAATGTTACAATATATTAATTTAAGCTTCATATTTA
Found at i:5145810 original size:26 final size:27
Alignment explanation
Indices: 5145778--5145857 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 27
5145768 CAATTCTTTC
5145778 AATTAATATATATGTTTATAT-TAAT-A
1 AATTAATATATA-GTTTATATATAATGA
5145804 AATTAATATATAGGTTATATATACTAATGA
1 AATTAATATATA-GTT-TATATA-TAATGA
5145834 ACTATATAATATATAGTTTATATA
1 A--AT-TAATATATAGTTTATATA
5145858 AAATATATAC
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 15 0.33
27 5 0.11
29 4 0.09
30 2 0.04
31 6 0.13
32 5 0.11
33 9 0.20
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (27 bp):
AATTAATATATAGTTTATATATAATGA
Found at i:5145863 original size:51 final size:50
Alignment explanation
Indices: 5145807--5146024 Score: 212
Period size: 51 Copynumber: 4.3 Consensus size: 50
5145797 ATTAATAAAT
*
5145807 TAATATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATA
1 TAATATATAGTTTATATATACTAAT-AACTATATAATATATAGTTTATATA
* *
5145858 AAATATATACTTTATATATACTAATGAACTATATAA-AGTATAGTTTATATA
1 TAATATATAGTTTATATATACTAAT-AACTATATAATA-TATAGTTTATATA
** * * **
5145909 TACCATATAGTTTATATATACT-AT-A-TAGT-TTATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATAACTA-TATAATATA-TAGTTTA-TATA
* * *
5145958 TAATGTATAGTTTATATATACTAATAATTATATAATATATAGTTTGTATA
1 TAATATATAGTTTATATATACTAATAACTATATAATATATAGTTTATATA
** *
5146008 TACCATATACTTTATAT
1 TAATATATAGTTTATAT
5146025 GAATAGTTTT
Statistics
Matches: 135, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
47 6 0.04
48 7 0.05
49 23 0.17
50 22 0.16
51 69 0.51
52 8 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (50 bp):
TAATATATAGTTTATATATACTAATAACTATATAATATATAGTTTATATA
Found at i:5145955 original size:67 final size:65
Alignment explanation
Indices: 5145844--5146007 Score: 215
Period size: 67 Copynumber: 2.5 Consensus size: 65
5145834 ACTATATAAT
*
5145844 ATATAGTTTATATAAAATATATACTTTATATATACTAATGAACTATATAAAGTATAGTTTATATA
1 ATATAGTTTATAT--AATATATA-GTT-TATATACTAATGAACTATATAAAGTATAGTTTATATA
5145909 TACC
62 TACC
*
5145913 ATATAGTTTATATATACTATATAGTTTATATACTAATGAACTATATAATGTATAGTTTATATATA
1 ATATAGTTTATATA-A-TATATAGTTTATATACTAATGAACTATATAAAGTATAGTTTATATATA
*
5145978 CT
64 CC
* *
5145980 A-ATA-ATTATATAATATATAGTTTGTATA
1 ATATAGTTTATATAATATATAGTTTATATA
5146008 TACCATATAC
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
63 14 0.16
64 1 0.01
65 7 0.08
66 3 0.03
67 41 0.47
68 3 0.03
69 19 0.22
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (65 bp):
ATATAGTTTATATAATATATAGTTTATATACTAATGAACTATATAAAGTATAGTTTATATATACC
Found at i:5145991 original size:18 final size:17
Alignment explanation
Indices: 5145818--5145991 Score: 64
Period size: 16 Copynumber: 10.4 Consensus size: 17
5145808 AATATATAGG
5145818 TTATATATACTAATGAA-
1 TTATATATACTAAT-AAT
* *
5145835 CTATATA-A-TATATAGT
1 TTATATATACTA-ATAAT
* * *
5145851 TTATATAAAATATATACT
1 TTATATATACTA-ATAAT
5145869 TTATATATACTAATGAA-
1 TTATATATACTAAT-AAT
* * * *
5145886 CTATATAAAGT-ATAGT
1 TTATATATACTAATAAT
* *
5145902 TTATATATACCATATAGT
1 TTATATATACTA-ATAAT
*
5145920 TTATATATACT-ATATAG
1 TTATATATACTAATA-AT
5145937 TT-TATATACTAATGAA-
1 TTATATATACTAAT-AAT
* * *
5145953 CTATATA-A-TGTATAGT
1 TTATATATACT-AATAAT
5145969 TTATATATACTAATAA-
1 TTATATATACTAATAAT
5145985 TTATATA
1 TTATATA
5145992 ATATATAGTT
Statistics
Matches: 117, Mismatches: 24, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
15 6 0.05
16 46 0.39
17 30 0.26
18 35 0.30
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TTATATATACTAATAAT
Found at i:5146009 original size:18 final size:18
Alignment explanation
Indices: 5145836--5145949 Score: 103
Period size: 18 Copynumber: 6.4 Consensus size: 18
5145826 ACTAATGAAC
5145836 TATATAATATATAGTTTA
1 TATATAATATATAGTTTA
* *
5145854 TATAAAATATATACTTTA
1 TATATAATATATAGTTTA
* *
5145872 TATATACTA-AT-G--AA
1 TATATAATATATAGTTTA
5145886 CTATATAA-AGTATAGTTTA
1 -TATATAATA-TATAGTTTA
**
5145905 TATATACCATATAGTTTA
1 TATATAATATATAGTTTA
*
5145923 TATATACTATATAGTTTA
1 TATATAATATATAGTTTA
5145941 TATACTAAT
1 TATA-TAAT
5145950 GAACTATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
14 2 0.03
15 6 0.08
16 2 0.03
17 3 0.04
18 59 0.77
19 5 0.06
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATAATATATAGTTTA
Found at i:5146031 original size:63 final size:66
Alignment explanation
Indices: 5145844--5146040 Score: 172
Period size: 67 Copynumber: 3.0 Consensus size: 66
5145834 ACTATATAAT
* * * * * * *
5145844 ATATAGTTTATATAAAATATATACTTTATATATACTAATGAACTATATAAAGTATAGTTTATATA
1 ATATAGATTATATATACTATATA-GTT-TATATACCAAT-AACTATATAATGAATAGTTTATATA
5145909 TACC
63 TACC
* * *
5145913 ATATAGTTTATATATACTATATAGTTTATATACTAATGAACTATATAATGTATAGTTTATATATA
1 ATATAGATTATATATACTATATAGTTTATATACCAAT-AACTATATAATGAATAGTTTATATATA
*
5145978 CT
65 CC
* *
5145980 A-ATA-ATTATATA-A-TATATAGTTTGTATATACC-ATATACTTTAT-ATGAATAGTTTTTATA
1 ATATAGATTATATATACTATATAG-TT-TATATACCAATA-ACTATATAATGAATAGTTTATATA
5146039 TA
63 TA
5146041 TAGTTCATAT
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
63 24 0.21
64 11 0.10
65 14 0.12
66 3 0.03
67 40 0.35
68 2 0.02
69 21 0.18
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (66 bp):
ATATAGATTATATATACTATATAGTTTATATACCAATAACTATATAATGAATAGTTTATATATAC
C
Found at i:5146089 original size:18 final size:18
Alignment explanation
Indices: 5146037--5146091 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
5146027 ATAGTTTTTA
*
5146037 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
5146057 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
5146075 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
5146092 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:5146104 original size:18 final size:18
Alignment explanation
Indices: 5146052--5146104 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
5146042 AGTTCATATG
5146052 TAAACTATATAGTATA-TA
1 TAAACTATATA-TATAGTA
*
5146070 TAAACTATATATGTAGTA
1 TAAACTATATATATAGTA
* *
5146088 TATACTATATAAATAGT
1 TAAACTATATATATAGT
5146105 TTATTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (18 bp):
TAAACTATATATATAGTA
Found at i:5146168 original size:2 final size:2
Alignment explanation
Indices: 5146163--5146409 Score: 80
Period size: 2 Copynumber: 117.0 Consensus size: 2
5146153 ACTTTGAATT
* *
5146163 TA TA TA CTA TA AA T- TA TA T- TA TA TA GTA TA TA AA TA TCA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA
* *
5146203 CTA TA GTA TA TA CTA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA
1 -TA TA -TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA
* * * *
5146247 TA TA T- TT TT TA TA TA TA GT- TCA TA TG TA AA T- TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA -TA TA
* *
5146287 TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA TA TA AA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * * * *
5146329 TA AA CTA TA GTA TG TA GTG TA TA AA TA AA TA TA AA CTA TA GTT TA
1 TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA -TA TA
5146374 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
5146410 AATAGTTTAT
Statistics
Matches: 183, Mismatches: 31, Indels: 62
0.66 0.11 0.22
Matches are distributed among these distances:
1 9 0.05
2 142 0.78
3 32 0.17
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:5146212 original size:27 final size:27
Alignment explanation
Indices: 5146177--5146248 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
5146167 TACTATAAAT
*
5146177 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATCAAC
*
5146204 TATAGTATATACTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATCAAC
*
5146231 TATAGTATATAGTTTATA
1 TATAGTATATAGTATATA
5146249 TATTTTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATCAAC
Found at i:5146260 original size:47 final size:49
Alignment explanation
Indices: 5146209--5146368 Score: 116
Period size: 56 Copynumber: 3.2 Consensus size: 49
5146199 TCAACTATAG
* *
5146209 TATATACTATATAAATATCAACTATAGTATATAGTTTATATATTTTTTATA
1 TATATACTATATAAATATCAACTATAGTATATAGTTTATATA--TTATAAA
* * *
5146260 TATAGTTCATATGTAAATTATACTA-TATAGTATATATAGTTTATATA-TAT-AA
1 TATA-TAC-TATATAAA-TAT-CAACTATAG--TATATAGTTTATATATTATAAA
* * * *
5146312 TATATAGTATATAAATATAAACTATAGTATGTAGTGTATA-A--ATAAA
1 TATATACTATATAAATATCAACTATAGTATATAGTTTATATATTATAAA
*
5146358 TATAAACTATA
1 TATATACTATA
5146369 GTTTATATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 21
0.71 0.11 0.17
Matches are distributed among these distances:
45 2 0.02
46 12 0.14
47 11 0.13
48 1 0.01
49 8 0.09
50 7 0.08
51 5 0.06
52 7 0.08
53 9 0.10
54 8 0.09
55 2 0.02
56 15 0.17
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (49 bp):
TATATACTATATAAATATCAACTATAGTATATAGTTTATATATTATAAA
Found at i:5146271 original size:11 final size:11
Alignment explanation
Indices: 5146236--5146308 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
5146226 TCAACTATAG
5146236 TATATAGTTTA
1 TATATAGTTTA
**
5146247 TATATTTTTTA
1 TATATAGTTTA
*
5146258 TATATAGTTCA
1 TATATAGTTTA
* *
5146269 TATGTAAATTATA
1 TATAT-AGTT-TA
5146282 CTATATAG--TA
1 -TATATAGTTTA
5146292 TATATAGTTTA
1 TATATAGTTTA
5146303 TATATA
1 TATATA
5146309 TAATATATAG
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
9 7 0.15
10 2 0.04
11 29 0.62
12 3 0.06
13 2 0.04
14 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:5146295 original size:34 final size:36
Alignment explanation
Indices: 5146256--5146324 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
5146246 ATATATTTTT
*
5146256 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
5146290 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
5146325 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:5146297 original size:9 final size:9
Alignment explanation
Indices: 5146283--5146324 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
5146273 TAAATTATAC
5146283 TATATAGTA
1 TATATAGTA
5146292 TATATAGTTTA
1 TATATAG--TA
5146303 TATATA-TAA
1 TATATAGT-A
5146312 TATATAGTA
1 TATATAGTA
5146321 TATA
1 TATA
5146325 AATATAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 1 0.03
11 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:5146390 original size:103 final size:102
Alignment explanation
Indices: 5146204--5146402 Score: 229
Period size: 103 Copynumber: 1.9 Consensus size: 102
5146194 AAATATCAAC
* * * * ** * *
5146204 TATAGTATATACTATATAAATATCAACTATAGTATATAGTTTATATATTTTTTATATATAGTTCA
1 TATAATATATACTATATAAATATAAACTATAGTATATAGTGTATAAATAATATAAATATAGTTCA
*
5146269 TATGTAAATTATACTATATAGTATATATAGTTTATATA
66 TATATAAATTATACTATATA-TATATATAGTTTATATA
* *
5146307 TATAATATATAGTATATAAATATAAACTATAGTATGTAGTGTATAAATAAATATAAACTATAGTT
1 TATAATATATACTATATAAATATAAACTATAGTATATAGTGTATAAAT-AATATAAA-TATAGTT
* *
5146372 TATATATATATATATA-TATATATATTATATA
64 CATATATAAAT-TATACTATATATA-TATATA
5146403 CTATATAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
103 42 0.53
104 6 0.08
105 27 0.34
106 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (102 bp):
TATAATATATACTATATAAATATAAACTATAGTATATAGTGTATAAATAATATAAATATAGTTCA
TATATAAATTATACTATATATATATATAGTTTATATA
Found at i:5146419 original size:20 final size:19
Alignment explanation
Indices: 5146276--5146436 Score: 78
Period size: 20 Copynumber: 8.1 Consensus size: 19
5146266 TCATATGTAA
*
5146276 ATTATACTATATAGTATATAT
1 ATTATA-TATATA-TAAATAT
5146297 AGTT-TATATATATAATATAT
1 A-TTATATATATATAA-ATAT
* *
5146317 AGTATATAAATATAAACTAT
1 ATTATATATATATAAA-TAT
* * *
5146337 AGTATGTAGTGTATAAATA-
1 ATTATATA-TATATAAATAT
* * **
5146356 AATATAAACTATAGTTTATAT
1 ATTATATA-TATA-TAAATAT
*
5146377 A-TATATATATATATATAT
1 ATTATATATATATAAATAT
5146395 ATTATATACTATATAAATAGT
1 ATTATATA-TATATAAATA-T
* *
5146416 -TTATATCGTTTATAAATAT
1 ATTATAT-ATATATAAATAT
5146435 AT
1 AT
5146437 ATTTCATATG
Statistics
Matches: 110, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
18 7 0.06
19 23 0.21
20 67 0.61
21 11 0.10
22 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (19 bp):
ATTATATATATATAAATAT
Found at i:5146460 original size:18 final size:19
Alignment explanation
Indices: 5146428--5146471 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
5146418 ATATCGTTTA
*
5146428 TAAATATATATTTCATATG
1 TAAATATATAATTCATATG
5146447 TAAAT-TATAATTCATATG
1 TAAATATATAATTCATATG
5146465 TAAATAT
1 TAAATAT
5146472 CAACTATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TAAATATATAATTCATATG
Found at i:5146574 original size:29 final size:29
Alignment explanation
Indices: 5146484--5146567 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
5146474 ACTATAGTTT
*
5146484 ATATGTAAAATATAGTTTATATATAATTC
1 ATATGTAAACTATAGTTTATATATAATTC
* * *
5146513 ATAAGTAAACTATATTTTATATATAGTTC
1 ATATGTAAACTATAGTTTATATATAATTC
*
5146542 ATATGTAAACTATAGTTCATATATAA
1 ATATGTAAACTATAGTTTATATATAA
5146568 ACTATATAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (29 bp):
ATATGTAAACTATAGTTTATATATAATTC
Found at i:5146575 original size:20 final size:20
Alignment explanation
Indices: 5146532--5146584 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
5146522 CTATATTTTA
*
5146532 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATATAAAC
5146552 --TATAGTTCATATATAAAC
1 TATATAGTTCATATATAAAC
*
5146570 TATATAGTTTATATA
1 TATATAGTTCATATA
5146585 GTTTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (20 bp):
TATATAGTTCATATATAAAC
Found at i:5146582 original size:9 final size:9
Alignment explanation
Indices: 5146570--5146660 Score: 54
Period size: 9 Copynumber: 10.7 Consensus size: 9
5146560 ATATATAAAC
5146570 TATATAGTT
1 TATATAGTT
5146579 TATATAGTTT
1 TATATAG-TT
5146589 ATATATAGTT
1 -TATATAGTT
*
5146599 TTTATAGTT
1 TATATAGTT
5146608 T-T-TA---
1 TATATAGTT
5146612 TATATAGTT
1 TATATAGTT
* *
5146621 CATAT-GTA
1 TATATAGTT
*
5146629 AAT-TA-TT
1 TATATAGTT
*
5146636 CTATATAGTA
1 -TATATAGTT
5146646 TATATAGTT
1 TATATAGTT
5146655 TATATA
1 TATATA
5146661 TATAATATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
4 1 0.02
5 1 0.02
6 2 0.03
7 4 0.06
8 7 0.11
9 36 0.57
10 5 0.08
11 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (9 bp):
TATATAGTT
Found at i:5146584 original size:11 final size:11
Alignment explanation
Indices: 5146570--5146662 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
5146560 ATATATAAAC
5146570 TATATAG-TT-
1 TATATAGTTTA
5146579 TATATAGTTTA
1 TATATAGTTTA
5146590 TATATAGTTT-
1 TATATAGTTTA
5146600 T-TATAGTTTTTA
1 TATATAG--TTTA
5146612 TATATAGTTCATA
1 TATATAGTT--TA
* * * *
5146625 TGTAAATTATTC
1 TATATAGT-TTA
5146637 TATATAG--TA
1 TATATAGTTTA
5146646 TATATAGTTTA
1 TATATAGTTTA
5146657 TATATA
1 TATATA
5146663 TAATATATAG
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
9 20 0.31
10 3 0.05
11 23 0.35
12 6 0.09
13 12 0.18
14 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:5146590 original size:58 final size:58
Alignment explanation
Indices: 5146476--5146598 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
5146466 AAATATCAAC
* * * *
5146476 TATAGTTTATATGTAAAATATAGTTTATATATAATTCATAAGTAAACTATATTTTATA
1 TATAGTTCATATGTAAAATATAGTTCATATATAACTCATAAGTAAACTATAGTTTATA
* **
5146534 TATAGTTCATATGTAAACTATAGTTCATATATAAACT-ATATAGTTTA-TATAGTTTATA
1 TATAGTTCATATGTAAAATATAGTTCATATAT-AACTCATA-AGTAAACTATAGTTTATA
5146592 TATAGTT
1 TATAGTT
5146599 TTTATAGTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 49 0.88
59 7 0.12
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (58 bp):
TATAGTTCATATGTAAAATATAGTTCATATATAACTCATAAGTAAACTATAGTTTATA
Found at i:5146593 original size:20 final size:20
Alignment explanation
Indices: 5146570--5146678 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
5146560 ATATATAAAC
5146570 TATATAGTTTATATAGTTTA
1 TATATAGTTTATATAGTTTA
*
5146590 TATATAGTTTTTATAGTTTTTA
1 TATATAGTTTATATAG--TTTA
*
5146612 TATATAGTTCATAT-G--TA
1 TATATAGTTTATATAGTTTA
*
5146629 AAT-TA-TTCTATATAG--TA
1 TATATAGTT-TATATAGTTTA
*
5146646 TATATAGTTTATATA-TATAA
1 TATATAGTTTATATAGT-TTA
*
5146666 TATATAGTATATA
1 TATATAGTTTATA
5146679 AATATCAACT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
15 2 0.03
16 6 0.08
17 9 0.12
18 8 0.11
19 2 0.03
20 28 0.39
21 1 0.01
22 16 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (20 bp):
TATATAGTTTATATAGTTTA
Found at i:5146683 original size:20 final size:20
Alignment explanation
Indices: 5146645--5146751 Score: 78
Period size: 20 Copynumber: 5.3 Consensus size: 20
5146635 TCTATATAGT
*
5146645 ATATATAGTTTATATATATA
1 ATATATAGTATATATATATA
*
5146665 ATATATAGTATATAAATATCA
1 ATATATAGTATATATATAT-A
* *
5146686 A-CTATAGTATGTAGTATATA
1 ATATATAGTATATA-TATATA
* *
5146706 A-ATATA-AATATAAACTATA
1 ATATATAGTATATATA-TATA
*
5146725 ATTTATA-TATATAGTATATA
1 ATATATAGTATATA-TATATA
*
5146745 CTATATA
1 ATATATA
5146752 AATAGTTTAT
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
18 1 0.01
19 9 0.13
20 51 0.75
21 7 0.10
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (20 bp):
ATATATAGTATATATATATA
Found at i:5146691 original size:27 final size:26
Alignment explanation
Indices: 5146637--5146718 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
5146627 TAAATTATTC
* *
5146637 TATATAGTATATATAGTTTATATATATAA
1 TATATAGTATATA-A--ATATAAATATAA
* *
5146666 TATATAGTATATAAATATCAACTATAG
1 TATATAGTATATAAATAT-AAATATAA
*
5146693 TATGTAGTATATAAATATAAATATAA
1 TATATAGTATATAAATATAAATATAA
5146719 ACTATAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.20
27 22 0.49
28 1 0.02
29 13 0.29
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (26 bp):
TATATAGTATATAAATATAAATATAA
Found at i:5146742 original size:7 final size:6
Alignment explanation
Indices: 5146637--5146751 Score: 56
Period size: 7 Copynumber: 18.0 Consensus size: 6
5146627 TAAATTATTC
* *
5146637 TATATA GTATATA TAGTTTA TATATA TA-ATA TATAGTA TATAAA TATCA-A
1 TATATA -TATATA TA-TATA TATATA TATATA TATA-TA TATATA TAT-ATA
* * * * *
5146687 CTATAGTA TGTAGTA TATAAA TATAAA TATAAA CTATA-A TTTATA TATATA
1 -TATA-TA TATA-TA TATATA TATATA TATATA -TATATA TATATA TATATA
5146738 GTATATA CTATATA
1 -TATATA -TATATA
5146752 AATAGTTTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
5 8 0.09
6 34 0.38
7 46 0.52
8 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:5146749 original size:18 final size:18
Alignment explanation
Indices: 5146728--5146762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5146718 AACTATAATT
*
5146728 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
5146746 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
5146763 TAGTTCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:5146764 original size:2 final size:2
Alignment explanation
Indices: 5146637--5146751 Score: 56
Period size: 2 Copynumber: 54.0 Consensus size: 2
5146627 TAAATTATTC
*
5146637 TA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
5146679 AA TA TCA -A CTA TA GTA TG TA GTA TA TA AA TA TA AA TA TA AA CTA
1 TA TA T-A TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
*
5146723 TA -A TT TA TA TA TA TA GTA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
5146752 AATAGTTTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
1 3 0.03
2 67 0.78
3 16 0.19
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:5146829 original size:17 final size:17
Alignment explanation
Indices: 5146803--5146838 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5146793 AAATGTAAAC
*
5146803 TATATAGTTTATATATA
1 TATATAGTTTATACATA
*
5146820 TATATTGTTTATACATA
1 TATATAGTTTATACATA
5146837 TA
1 TA
5146839 GTTCATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TATATAGTTTATACATA
Found at i:5147013 original size:22 final size:22
Alignment explanation
Indices: 5146988--5147431 Score: 120
Period size: 22 Copynumber: 21.0 Consensus size: 22
5146978 CCATATATAC
5146988 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
** * *
5147010 TATATATAGTTTA-TAT-TAATA
1 TATATATA-TAAACTATATAGTT
* **
5147031 AACTATATAATTTA-TATATAGTT
1 TA-TATAT-ATAAACTATATAGTT
*
5147054 TATAT-TAATAAACTATATAATT
1 TATATAT-ATAAACTATATAGTT
* *
5147076 TATACATAGTATA-TAT-TA-TT
1 TATATATA-TAAACTATATAGTT
* *
5147096 TATA-AT-TATAC-ATA-A-TA
1 TATATATATAAACTATATAGTT
* *
5147113 TATAAATATAAATTGA-ATAGTT
1 TATATATATAAACT-ATATAGTT
** *
5147135 TATATATA-ATTCATATATA-AT
1 TATATATATAAAC-TATATAGTT
*
5147156 T-TATATATAAACTATATAATT
1 TATATATATAAACTATATAGTT
*
5147177 TATAT-TAATAAACTATGTAGTT
1 TATATAT-ATAAACTATATAGTT
*
5147199 TATATATAGT--TC-A-ATAG-T
1 TATATATA-TAAACTATATAGTT
* *
5147217 T-CATGTATAAACTATATAGTAT
1 TATATATATAAACTATATAGT-T
*
5147239 TATAGTTTATACATGGTA-TATATAGTT
1 TATA-TATATA-A----ACTATATAGTT
*
5147266 TATACATA-ACATA-TATATAGTT
1 TATATATATA-A-ACTATATAGTT
* *
5147288 TATATATAGTATA-TA-ATA--A
1 TATATATA-TAAACTATATAGTT
*
5147307 TATAAATATAAACTATATAG-T
1 TATATATATAAACTATATAGTT
*
5147328 T-TATATATAAAGTATATA--T
1 TATATATATAAACTATATAGTT
* *
5147347 CATATATATAAACTATATACTT
1 TATATATATAAACTATATAGTT
*
5147369 TATATATATATATA-TATATA-TA
1 TATATATATA-A-ACTATATAGTT
* *
5147391 TATATATATATA-TATATA-TA
1 TATATATATAAACTATATAGTT
*
5147411 TATATATATATA-TATATAGTT
1 TATATATATAAACTATATAGTT
5147432 GTTTCAATTT
Statistics
Matches: 325, Mismatches: 50, Indels: 95
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.00
17 16 0.05
18 8 0.02
19 19 0.06
20 85 0.26
21 28 0.09
22 120 0.37
23 21 0.06
24 7 0.02
25 4 0.01
26 2 0.01
27 5 0.02
28 8 0.02
29 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:5147160 original size:20 final size:20
Alignment explanation
Indices: 5147133--5147416 Score: 123
Period size: 20 Copynumber: 13.5 Consensus size: 20
5147123 AATTGAATAG
*
5147133 TTTATATATAATTCATATATAA
1 TTTATATATAA-AC-TATATAA
5147155 TTTATATATAAACTATATAA
1 TTTATATATAAACTATATAA
* *
5147175 TTTATATTAATAAACTATGTAG
1 TTTATA-T-ATAAACTATATAA
** *
5147197 TTTATATAT-AGTTCA-ATAG
1 TTTATATATAAACT-ATATAA
* *
5147216 TTCATGTATAAACTATATAGTA
1 TTTATATATAAACTATATA--A
* **
5147238 TTATAGTTTATACATGGTATATATA
1 TT-TA-TATATA-A-ACTATATA-A
*
5147263 GTTTATACAT-AACATATATATA
1 -TTTATATATAAAC-TATATA-A
*
5147285 GTTTATATATAGTA-TATAATAA
1 -TTTATATATA-AACTAT-ATAA
* * *
5147307 TATAAATATAAACTATATAG
1 TTTATATATAAACTATATAA
*
5147327 TTTATATATAAAGTATAT-A
1 TTTATATATAAACTATATAA
* *
5147346 TCATATATATAAACTATATAC
1 T-TTATATATAAACTATATAA
*
5147367 TTTATATATATA-TATATATA
1 TTTATATATAAACTATATA-A
* *
5147387 TATATATATATA-TATATATA
1 TTTATATATAAACTATATA-A
*
5147407 TATATATATA
1 TTTATATATA
5147417 TATATATATA
Statistics
Matches: 206, Mismatches: 36, Indels: 42
0.73 0.13 0.15
Matches are distributed among these distances:
19 20 0.10
20 93 0.45
21 15 0.07
22 52 0.25
23 4 0.02
24 9 0.04
25 5 0.02
26 8 0.04
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTATATATAAACTATATAA
Found at i:5147163 original size:13 final size:11
Alignment explanation
Indices: 5147001--5147185 Score: 91
Period size: 11 Copynumber: 16.7 Consensus size: 11
5146991 ATATATAAAC
*
5147001 TATATAGTTTA
1 TATATAATTTA
*
5147012 TATATAGTTTA
1 TATATAATTTA
**
5147023 TAT-TAATAAA
1 TATATAATTTA
5147033 CTATATAATTTA
1 -TATATAATTTA
*
5147045 TATATAGTTTA
1 TATATAATTTA
**
5147056 TAT-TAATAAA
1 TATATAATTTA
5147066 CTATATAATTTA
1 -TATATAATTTA
5147078 TACATAGTATATATTA
1 T--ATA-TA-AT-TTA
*
5147094 TTTATAA-TTA
1 TATATAATTTA
*
5147104 TACATAATATATA
1 TATATAAT-T-TA
* *
5147117 AATATAAATT-
1 TATATAATTTA
* *
5147127 GA-ATAGTTTA
1 TATATAATTTA
*
5147137 TATATAATTCA
1 TATATAATTTA
5147148 TATATAATTTA
1 TATATAATTTA
5147159 TATATAA---A
1 TATATAATTTA
5147167 CTATATAATTTA
1 -TATATAATTTA
5147179 TAT-TAAT
1 TATATAAT
5147186 AAACTATGTA
Statistics
Matches: 132, Mismatches: 24, Indels: 37
0.68 0.12 0.19
Matches are distributed among these distances:
8 1 0.01
9 12 0.09
10 22 0.17
11 61 0.46
12 14 0.11
13 12 0.09
14 4 0.03
15 2 0.02
16 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (11 bp):
TATATAATTTA
Found at i:5147269 original size:11 final size:11
Alignment explanation
Indices: 5147255--5147428 Score: 122
Period size: 10 Copynumber: 16.5 Consensus size: 11
5147245 TTATACATGG
*
5147255 TATATATAGTT
1 TATATATAGTA
* **
5147266 TATACATAACA
1 TATATATAGTA
*
5147277 TATATATAGTT
1 TATATATAGTA
5147288 TATATATAGTA
1 TATATATAGTA
5147299 TATA-ATA--A
1 TATATATAGTA
*
5147307 TATAAATA-TA
1 TATATATAGTA
*
5147317 AACTATATAGTTTA
1 TA-TATATAG--TA
*
5147331 TATATAAAGTA
1 TATATATAGTA
5147342 TATATCATA-TA
1 TATAT-ATAGTA
*
5147353 TATA-A-ACTA
1 TATATATAGTA
*
5147362 TATACTTTA-TA
1 TATA-TATAGTA
5147373 TATATATA-TA
1 TATATATAGTA
5147383 TATATATA-TA
1 TATATATAGTA
5147393 TATATATA-TA
1 TATATATAGTA
5147403 TATATATA-TA
1 TATATATAGTA
5147413 TATATATA-TA
1 TATATATAGTA
5147423 TATATA
1 TATATA
5147429 GTTGTTTCAA
Statistics
Matches: 136, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.04
9 10 0.07
10 56 0.41
11 52 0.38
12 3 0.02
13 6 0.04
14 3 0.02
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TATATATAGTA
Found at i:5147281 original size:2 final size:2
Alignment explanation
Indices: 5147276--5147428 Score: 157
Period size: 2 Copynumber: 73.5 Consensus size: 2
5147266 TATACATAAC
* * *
5147276 AT AT AT AT AGT TT AT AT AT AGT AT AT A- AT A- AT AT AA AT AT AA
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
5147318 ACT AT AT AGT TT AT AT AT AA AGT AT AT AT CAT AT AT AT AA ACT AT
1 A-T AT AT A-T AT AT AT AT AT A-T AT AT AT -AT AT AT AT AT A-T AT
*
5147363 AT ACT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5147406 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
5147429 GTTGTTTCAA
Statistics
Matches: 127, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
1 2 0.02
2 115 0.91
3 10 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5156930 original size:38 final size:37
Alignment explanation
Indices: 5156876--5156971 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 37
5156866 TATTTTATTT
** *
5156876 TAAATTTTTTATTCTTAATTCTCAAAACATTTCACCT
1 TAAATTTTAAATTCTTAATTCTCAAAACATTTCACCA
* **
5156913 TAACATTTTAAATTCTTAATTTCTTAAATTATTTCACCA
1 TAA-ATTTTAAATTCTTAA-TTCTCAAAACATTTCACCA
* *
5156952 TAATTTTTAAATTATTAATT
1 TAAATTTTAAATTCTTAATT
5156972 TCTTAAATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 5 0.10
38 26 0.53
39 18 0.37
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (37 bp):
TAAATTTTAAATTCTTAATTCTCAAAACATTTCACCA
Found at i:5156972 original size:38 final size:39
Alignment explanation
Indices: 5156904--5156987 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 39
5156894 TTCTCAAAAC
* *
5156904 ATTTCACCTTAACATTTTAAATTCTTAATTTCTTAAATT
1 ATTTCACCATAACATTTTAAATTATTAATTTCTTAAATT
*
5156943 ATTTCACCATAA-TTTTTAAATTATTAATTTCTTAAATT
1 ATTTCACCATAACATTTTAAATTATTAATTTCTTAAATT
*
5156981 GTTTCAC
1 ATTTCAC
5156988 TCTAATGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 30 0.73
39 11 0.27
ACGTcount: A:0.33, C:0.14, G:0.01, T:0.51
Consensus pattern (39 bp):
ATTTCACCATAACATTTTAAATTATTAATTTCTTAAATT
Found at i:5159039 original size:20 final size:21
Alignment explanation
Indices: 5159010--5159055 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
5159000 AATAAAAACA
5159010 AAATAGGTTATAA-AA-TAAAT
1 AAATAGGTTA-AAGAATTAAAT
*
5159030 AAATATGTTAAAGAATTAAAT
1 AAATAGGTTAAAGAATTAAAT
5159051 AAATA
1 AAATA
5159056 AAAAAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATAGGTTAAAGAATTAAAT
Found at i:5166271 original size:2 final size:2
Alignment explanation
Indices: 5166264--5166315 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5166254 CCAGTTATTA
5166264 AT 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 AT
5166306 AT AT AT AT AT
1 AT AT AT AT AT
5166316 TAACGGTAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5179602 original size:17 final size:17
Alignment explanation
Indices: 5179577--5179611 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5179567 ATAGCATGAC
5179577 TAAAATAAAATAATAAT
1 TAAAATAAAATAATAAT
* *
5179594 TAAAGTAAAATACTAAT
1 TAAAATAAAATAATAAT
5179611 T
1 T
5179612 TAAACATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAAATAAAATAATAAT
Found at i:5181263 original size:116 final size:116
Alignment explanation
Indices: 5181036--5181467 Score: 591
Period size: 116 Copynumber: 3.7 Consensus size: 116
5181026 GATGGAAATG
* * * * * * * * * * *
5181036 TTGAAAACATTCTGCCCAG-AGGTCTTATGAATGGACCGGATGACTTATCATCTTGCTCGGAAGG
1 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* **
5181100 -CTTACAGATGACCCAAAGGCTTTAAATATCAAAAAAGCTCCTTAAGGCTTT
66 TCTTACAGATGACCCAGAGGCTTTAAATATC-AAAAAGCTCCCGAAGGCTTT
* *
5181151 TTTAAAACATCCTGCACTGTAGGTCTTATGGATGGCCATGAGGTCTTATCATCTTGCACTGTAGG
1 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
5181216 TCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
66 TCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* *
5181267 TTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGG
1 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
**
5181332 TCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
66 TCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* * * * *
5181383 TTGAAAACATCCTGCACTGGAGGTCTTATGGATGACCCGGAGGAT-TTAACATCTTGCACTGGAG
1 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGG-TCTTATCATCTTGCACTGTAG
*
5181447 GTCTTACAGATGACCCGGAGG
65 GTCTTACAGATGACCCAGAGG
5181468 ATTTTAAACA
Statistics
Matches: 284, Mismatches: 30, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
115 15 0.05
116 239 0.84
117 30 0.11
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (116 bp):
TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
TCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
Done.