Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009076.1 Hibiscus syriacus cultivar Beakdansim tig00112509_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: 109738
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Found at i:1646 original size:13 final size:14
Alignment explanation
Indices: 1630--1690 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
1620 AGTACTTTTA
1630 TATATTTTAAT-TT
1 TATATTTTAATATT
1643 TATATTTTAATATT
1 TATATTTTAATATT
*
1657 TA-ATTATTATTATT
1 TATATT-TTAATATT
*
1671 TAT-TTTTATTAATT
1 TATATTTTAAT-ATT
1685 TATATT
1 TATATT
1691 ATTTGATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
13 19 0.45
14 21 0.50
15 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTTTAATATT
Found at i:1672 original size:21 final size:22
Alignment explanation
Indices: 1625--1671 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
1615 TATTTAGTAC
1625 TTTTATATATTTTAATTTTATA
1 TTTTATATATTTTAATTTTATA
1647 TTTTA-ATA-TTTAATTATTATTA
1 TTTTATATATTTTAATT-TTA-TA
1669 TTT
1 TTT
1672 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTATATATTTTAATTTTATA
Found at i:1704 original size:27 final size:27
Alignment explanation
Indices: 1681--1741 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
1671 TATTTTTATT
* *
1681 AATTTATATTATTTGATTAATTTTAAA
1 AATTAATAATATTTGATTAATTTTAAA
* *
1708 AATTAATAATATTTGTTTATTTTTAAA
1 AATTAATAATATTTGATTAATTTTAAA
1735 ATATTAA
1 A-ATTAA
1742 GAAAATGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
AATTAATAATATTTGATTAATTTTAAA
Found at i:2068 original size:135 final size:134
Alignment explanation
Indices: 1849--2109 Score: 320
Period size: 135 Copynumber: 1.9 Consensus size: 134
1839 TATTTTAATC
* * *
1849 ATGTTTTAATATTTATTTATTTTTTCAATATTAAGAAAGAGTAGTCTTAACATAACTGGATGTCC
1 ATGTTTTAATATTTATTTATTTTTTCAATATTAAGAAAGAGCAGTCTTAACACAACTAGA-GTCC
* * * * *
1914 TTTTATGATATTTTTAAATAAATAAATATCTTATTTTTATAATTATATATATTAATCTATTTTTT
65 TTTTATGATATTTTAAAATAAATAAATATCTTATTTATA-AAATATA-AAATTAATATATTTTTT
1979 TAGAAAA
128 TAGAAAA
1986 ATGTTTTAATATTTATTTA-TTTTT-AATATTAAGAAA-ATGACAGTCTTAA-AGCAACTAGA-T
1 ATGTTTTAATATTTATTTATTTTTTCAATATTAAGAAAGA-G-CAGTCTTAACA-CAACTAGAGT
2046 CCTATTCTA-G-TATTTTAAAAATAAATAAATATCTTATTTATAAAATATAAAATTAATATATTT
63 CCT-TT-TATGATATTTT-AAAATAAATAAATATCTTATTTATAAAATATAAAATTAATATATTT
2109 T
125 T
2110 CTTAAAATTA
Statistics
Matches: 110, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
133 13 0.12
134 17 0.15
135 40 0.36
136 21 0.19
137 19 0.17
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (134 bp):
ATGTTTTAATATTTATTTATTTTTTCAATATTAAGAAAGAGCAGTCTTAACACAACTAGAGTCCT
TTTATGATATTTTAAAATAAATAAATATCTTATTTATAAAATATAAAATTAATATATTTTTTTAG
AAAA
Found at i:2631 original size:24 final size:24
Alignment explanation
Indices: 2604--2667 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
2594 ATTTTTTATA
2604 TATACTTATTATTTTCA-TAATATT
1 TATA-TTATTATTTTCATTAATATT
* *
2628 TATATATATTATTTTTATTAATGTT
1 TATAT-TATTATTTTCATTAATATT
*
2653 TTTATT-TTATTTTCA
1 TATATTATTATTTTCA
2668 AGTATTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.26
24 15 0.44
25 10 0.29
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (24 bp):
TATATTATTATTTTCATTAATATT
Found at i:2646 original size:30 final size:30
Alignment explanation
Indices: 2559--2646 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 30
2549 AAATTAAAAA
* * *
2559 TTCAT-ATATTTA-ATTTATAATTCTTTCTT
1 TTCATAATATTTATATATATTATT-TTTATT
* * *
2588 TTCAAAAT-TTTTTATATA-TACTTATTATT
1 TTCATAATATTTATATATATTA-TTTTTATT
2617 TTCATAATATTTATATATATTATTTTTATT
1 TTCATAATATTTATATATATTATTTTTATT
2647 AATGTTTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
29 19 0.42
30 24 0.53
31 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (30 bp):
TTCATAATATTTATATATATTATTTTTATT
Found at i:3140 original size:17 final size:17
Alignment explanation
Indices: 3115--3148 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3105 AAGTTCTAAC
*
3115 TTTTGTTTTTTTATTTA
1 TTTTATTTTTTTATTTA
3132 TTTTATTTTTTTATTTA
1 TTTTATTTTTTTATTTA
3149 AATAAATGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTTTATTTA
Found at i:10738 original size:75 final size:75
Alignment explanation
Indices: 10615--10774 Score: 221
Period size: 75 Copynumber: 2.1 Consensus size: 75
10605 AAATGATAGA
* *
10615 GCATGCTGAAAGCCCTTTTCAATCAAAATCAAGAATATTGATGTATTTTGAACATATGTATTAGC
1 GCATGCTGAAAGCCCCTTTCAATCAAAATCAAGAATATTGATGTATTTTAAACATATGTATTAGC
10680 CAATGCTGGG
66 CAATGCTGGG
* * * * * *
10690 GCATGCTGAAAGCCCCTTTCAATTAGAATCAGGAATGTTGATGTATTTTAAACGTTTGTATTAGC
1 GCATGCTGAAAGCCCCTTTCAATCAAAATCAAGAATATTGATGTATTTTAAACATATGTATTAGC
*
10755 CAATGTTGGG
66 CAATGCTGGG
* *
10765 GTATGTTGAA
1 GCATGCTGAA
10775 GATCCAAATC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (75 bp):
GCATGCTGAAAGCCCCTTTCAATCAAAATCAAGAATATTGATGTATTTTAAACATATGTATTAGC
CAATGCTGGG
Found at i:12126 original size:22 final size:22
Alignment explanation
Indices: 12098--12150 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
12088 CTACATTATT
12098 CAAAGATGATAGATTCACTCTC
1 CAAAGATGATAGATTCACTCTC
* * *
12120 CAAAGATGATAGATTCTCTTTT
1 CAAAGATGATAGATTCACTCTC
12142 CAAAGATGA
1 CAAAGATGA
12151 ATGCTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (22 bp):
CAAAGATGATAGATTCACTCTC
Found at i:12769 original size:112 final size:112
Alignment explanation
Indices: 12510--12962 Score: 605
Period size: 112 Copynumber: 4.0 Consensus size: 112
12500 GATTCAAATC
* * *
12510 CATCACTCAATGGATCAACA-TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTTCCA-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
12574 AGAAGAAGTTCATAATGAGAAGAAC---TTCAACCTTTTGCTCGAATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
**
12619 CATCATTCGATGGATCAGTATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 CATCATTCGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
12684 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
12731 CATCATTCGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 CATCATTCGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
12796 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTAG-ATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * * * *
12842 CTGTTACAGAAATAGATAGATCAACATCAACTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTT
1 C--AT-C---ATTCGATGGATC-A-A-C-A--TTTCCAGTAG--AGTTCATAATGAGAAGAACTC
*
12906 TTCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGA
52 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGA
12963 CGCTACCACA
Statistics
Matches: 308, Mismatches: 17, Indels: 23
0.89 0.05 0.07
Matches are distributed among these distances:
109 79 0.26
110 4 0.01
111 4 0.01
112 124 0.40
113 1 0.00
114 1 0.00
117 9 0.03
118 1 0.00
119 1 0.00
120 1 0.00
121 1 0.00
122 2 0.01
123 53 0.17
124 27 0.09
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (112 bp):
CATCATTCGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
Found at i:12928 original size:123 final size:123
Alignment explanation
Indices: 12744--13043 Score: 410
Period size: 123 Copynumber: 2.4 Consensus size: 123
12734 CATTCGATGG
12744 ATCAACATTTCCAGTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
** *** *
12808 AATGAGAAGAACTTGTTCAACCTTTTACTAGATTCTGTTACAGAAATAGATAGATCAAC
65 AATGAGAAGAACTTGTTCAACCTTTTACTAGACGCTACCACAGAAAGAGATAGATCAAC
* **
12867 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTTTCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
12931 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACGCTACCACAGAAGGAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTACTAGACGCTACCACAGAAAGAGATAGATCAAC
* *
12990 ATCAACATATCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAA
1 ATCAACATTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
13044 TTTGTTCAAC
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
121 1 0.01
122 35 0.23
123 92 0.59
124 27 0.17
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (123 bp):
ATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTACTAGACGCTACCACAGAAAGAGATAGATCAAC
Found at i:12948 original size:20 final size:20
Alignment explanation
Indices: 12886--12949 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
12876 TCCAGAGAAA
12886 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
***
12906 -TTC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
12925 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
12945 GTTCA
1 GTTCA
12950 ACCTTTTGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 16 0.48
21 3 0.09
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:13277 original size:3 final size:3
Alignment explanation
Indices: 13271--13310 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13261 TTTCATTTGG
13271 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13311 AATTAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:15839 original size:116 final size:114
Alignment explanation
Indices: 15692--15909 Score: 339
Period size: 116 Copynumber: 1.9 Consensus size: 114
15682 ACTTCCTTAT
*
15692 GTGATGGAATCACCAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGA
1 GTGATGGAATCACCAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGA
15757 GTTATTCTCATTATGAACTC-CCTACTGGAAATATTGATCGATTTATTCG
66 GTTATTCTCATTATGAACTCTCC-ACTGGAAATATTGATCGATTTATTCG
* * * *
15806 GTGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGAT
1 GTGATGGAATC-A-CCAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGAT
* *
15871 GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGA
64 GAGTTATTCTCATTATGAACTCTCCACTGGAAATATTGA
15910 GCCAAGGTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
114 11 0.12
115 1 0.01
116 80 0.85
117 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (114 bp):
GTGATGGAATCACCAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGA
GTTATTCTCATTATGAACTCTCCACTGGAAATATTGATCGATTTATTCG
Found at i:15977 original size:91 final size:91
Alignment explanation
Indices: 15822--16274 Score: 714
Period size: 91 Copynumber: 5.0 Consensus size: 91
15812 GAATCGAGCT
* *
15822 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
15887 GAACTCTCCACTGGAAATGTTGA-GCC
66 GAACTCTCCACTGGAAATGTTGATG-C
*
15913 AAGGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
* * *
15978 GAACTCTCAACTGGAATTGCTGATGC
66 GAACTCTCCACTGGAAATGTTGATGC
* *
16004 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
*
16069 GAACTCTCCACTGGAAATGTTTATGC
66 GAACTCTCCACTGGAAATGTTGATGC
*
16095 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-TTCGGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATT-GGATGAGTTCTTCTCATTA
*
16159 TGAACTC-CTCGCTGGAAATGTTGATGC
65 TGAACTCTC-CACTGGAAATGTTGATGC
* * *
16186 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCACGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
* *
16251 GAACTCCCCGCTGGAAATGTTGAT
66 GAACTCTCCACTGGAAATGTTGAT
16275 TGGTTTATCT
Statistics
Matches: 337, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
90 3 0.01
91 331 0.98
92 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGATGC
Found at i:16621 original size:36 final size:36
Alignment explanation
Indices: 16532--16857 Score: 288
Period size: 36 Copynumber: 9.4 Consensus size: 36
16522 TGAAGTAAAT
* * * *
16532 TTTGTTTCGAGGGACACTGTCTCAAGAGCGAGAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
16568 TTTTGTTTCAAGAGAAACTGTCTCAGGGGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
16605 TTTGTTTCAAGGGAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
*
16634 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** *
16670 CTCATTTTAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
16706 CTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
16742 TTTGTTTCAAGGGAAACATAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
16771 TTTGTTTCAAGGGAAACTCTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
16807 CTTTGTTTCAAGAGAAACTATCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
16844 TTTATTTCAAGGGA
1 TTTGTTTCAAGGGA
16858 GACAAAATTT
Statistics
Matches: 234, Mismatches: 36, Indels: 39
0.76 0.12 0.13
Matches are distributed among these distances:
28 3 0.01
29 40 0.17
30 2 0.01
31 2 0.01
32 4 0.02
33 4 0.02
34 1 0.00
35 1 0.00
36 113 0.48
37 64 0.27
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:16682 original size:65 final size:65
Alignment explanation
Indices: 16567--16824 Score: 284
Period size: 65 Copynumber: 3.8 Consensus size: 65
16557 GAGCGAGAAA
* * *
16567 ATTTTGTTTCAAGAGAAACTGTCTCAGGGGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAG
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAG
* * ** * *
16632 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTTAAGGGAAACTG-TCTCAAG
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGAT-TC-A-
16696 AGAG
63 A-AG
** * *
16700 ACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTC
1 ----ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTC
16765 AAAG
62 AAAG
* * *
16769 ATTTTGTTTCAAGGGAAACTCTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGGGAAAC
16825 TATCTCAAGG
Statistics
Matches: 158, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
64 1 0.01
65 84 0.53
66 16 0.10
67 1 0.01
68 2 0.01
69 2 0.01
70 1 0.01
71 1 0.01
72 49 0.31
73 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (65 bp):
ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAG
Found at i:16711 original size:101 final size:102
Alignment explanation
Indices: 16530--16722 Score: 255
Period size: 101 Copynumber: 1.9 Consensus size: 102
16520 AGTGAAGTAA
* * * * * ** *
16530 ATTTTGTTTCGAGGGACACTGTCTCAAGAGCGAGAAAATTTTGTTTCAAGAGAAACTGTCTCAGG
1 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCATGTTTCAAGAGAAACTGTCTCAAG
* * *
16595 GGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAG
66 AGAGACAAAACTTGTTTCAAGAGAAACAGATTCAAAG
*
16632 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCAT-TTT-AAGGGAAACTGTCTCAA
1 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TCATGTTTCAAGAGAAACTGTCTCAA
16695 GAGAGACAAAACTTGTTTCAAGAGAAAC
65 GAGAGACAAAACTTGTTTCAAGAGAAAC
16723 TGTCTCAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 40 0.51
102 36 0.46
103 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (102 bp):
ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCATGTTTCAAGAGAAACTGTCTCAAG
AGAGACAAAACTTGTTTCAAGAGAAACAGATTCAAAG
Found at i:16716 original size:21 final size:20
Alignment explanation
Indices: 16683--16741 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
16673 ATTTTAAGGG
16683 AAACTGTCTCAAGAGAGACA
1 AAACTGTCTCAAGAGAGACA
*
16703 AAACTTGTTTC-A-AGAG---
1 AAAC-TGTCTCAAGAGAGACA
16719 AAACTGTCTCAAGAGAGACA
1 AAACTGTCTCAAGAGAGACA
16739 AAA
1 AAA
16742 TTTGTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 4 0.13
19 4 0.13
20 8 0.26
21 5 0.16
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACTGTCTCAAGAGAGACA
Found at i:16744 original size:137 final size:138
Alignment explanation
Indices: 16534--16854 Score: 475
Period size: 137 Copynumber: 2.3 Consensus size: 138
16524 AAGTAAATTT
* * * * * *
16534 TGTTTCGAGGGACACTGTCTCAAGAGCGAGAAAATTTTGTTTCAAGAGAAACTGTCTCAGGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAG
16599 ACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
65 ACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
16664 ACAAAACTCA
130 ACAAAACT-A
*
16674 T-TTT-AAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* *
16737 CAAAATTTGTTTCAAGGGAAACATATTCAAAGATTTTGTTTCAAGGGAAACTCTCTCAAGAGAGA
66 CAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
16802 CAAAACTT
131 CAAAACTA
* * * * *
16810 TGTTTCAAGAGAAACTATCTCAAGGGAGACGAAATTTATTTCAAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG
16855 GGAGACAAAA
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
136 1 0.01
137 101 0.62
138 57 0.35
139 3 0.02
140 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (138 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAACTA
Found at i:16754 original size:72 final size:71
Alignment explanation
Indices: 16532--16857 Score: 277
Period size: 65 Copynumber: 4.7 Consensus size: 71
16522 TGAAGTAAAT
* * * * * * *
16532 TTTGTTTCGAGGGACACTGTCTCAAGAGCGAGA-AAATTTTGTTTCAAGAGAAACTGTCTCAGGG
1 TTTGTTTCAAGGGAAACTATCTCAAGA--GAGACAAA-TTTGTTTCAAGGGAAACTATCTCAAGA
16596 GAGACAAAA
63 GAGACAAAA
* *
16605 TTTGTTTCAAGGGAAACAGAT-TC-A-A-AG---ATTTTGTTTCAAGGGAAACTATCTCAAGAGA
1 TTTGTTTCAAGGGAAAC-TATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTATCTCAAGAGA
16663 GACAAAA
65 GACAAAA
* ** * * * * *
16670 CTCATTTTAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAACTATCTCAAGAGA
16735 GACAAAA
65 GACAAAA
* *
16742 TTTGTTTCAAGGGAAACATAT-TC-A-A-AG---ATTTTGTTTCAAGGGAAACTCTCTCAAGAGA
1 TTTGTTTCAAGGGAAAC-TATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTATCTCAAGAGA
16800 GACAAAA
65 GACAAAA
* * *
16807 CTTTGTTTCAAGAGAAACTATCTCAAGGGAGACGAAATTTATTTCAAGGGA
1 -TTTGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTTGTTTCAAGGGA
16858 GACAAAATTT
Statistics
Matches: 202, Mismatches: 32, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
64 1 0.00
65 84 0.42
66 20 0.10
67 2 0.01
68 4 0.02
69 4 0.02
70 1 0.00
71 2 0.01
72 50 0.25
73 33 0.16
74 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (71 bp):
TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAA
Found at i:16853 original size:21 final size:21
Alignment explanation
Indices: 16829--16878 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16819 AGAAACTATC
*
16829 TCAAGGGAGACGAAATTTATT
1 TCAAGGGAGACAAAATTTATT
*
16850 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTATT
*
16871 TTAAGGGA
1 TCAAGGGA
16879 AACTGTCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTATT
Found at i:16854 original size:159 final size:159
Alignment explanation
Indices: 16691--17014 Score: 468
Period size: 159 Copynumber: 2.0 Consensus size: 159
16681 GGAAACTGTC
* *
16691 TCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGA
1 TCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTAAAGGGA
** * *
16756 AACATATTCAAAGATTTTGTTTCAAGGGAAACTCTCTCAAGAGAGACAAAACTTTGTTTCAAGAG
66 AACATATTCAAAGATTTTGTTTCAAGAAAAACTCTCTCAAGAAAGACAAAACTTTGTTTAAAGAG
* *
16821 AAACTATCTCAAGGGAGACGAAATTTATT
131 AAACTATATCAAGGGAGACAAAATTTATT
* * * * *
16850 TCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTTAAGAGAGACAAAATTCGTTTAAAGGGA
1 TCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTAAAGGGA
* * * *
16915 AACGTTTTCAAAGATTTTGTTTCAAGAAAAACTGTCTCAAGAAAGACAAAACTTTGTTTAAATAG
66 AACATATTCAAAGATTTTGTTTCAAGAAAAACTCTCTCAAGAAAGACAAAACTTTGTTTAAAGAG
* * *
16980 AAATTGTATCAAGGGAGACAAAATTTGTT
131 AAACTATATCAAGGGAGACAAAATTTATT
17009 TCAAGA
1 TCAAGA
17015 AACAATCTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
159 144 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (159 bp):
TCAAGAGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTAAAGGGA
AACATATTCAAAGATTTTGTTTCAAGAAAAACTCTCTCAAGAAAGACAAAACTTTGTTTAAAGAG
AAACTATATCAAGGGAGACAAAATTTATT
Found at i:16896 original size:57 final size:58
Alignment explanation
Indices: 16792--16902 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
16782 GGAAACTCTC
* *
16792 TCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGGGAGACGAAATTTATT
1 TCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTATT
* * * * *
16850 TCAAGGGAGACAAAA-TTTGTTTTAAGGGAAACTGTCTTAAGAGAGACAAAATT
1 TCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
16903 CGTTTAAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 32 0.70
58 14 0.30
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (58 bp):
TCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTATT
Found at i:16913 original size:57 final size:58
Alignment explanation
Indices: 16798--16914 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 58
16788 TCTCTCAAGA
* * * *
16798 GAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGGGAGACGAAATTTATTTCAAGG
1 GAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGG
* * * * *
16856 GAGACAAAA-TTTGTTTTAAGGGAAACTGTCTTAAGAGAGACAAAATTCGTTTAAAGG
1 GAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGG
16913 GA
1 GA
16915 AACGTTTTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 41 0.82
58 9 0.18
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (58 bp):
GAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGG
Found at i:17072 original size:34 final size:34
Alignment explanation
Indices: 17003--17073 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
16993 GGAGACAAAA
* *
17003 TTTGTTTCAAGAAACAATCTCAAAGTTTATTTAT
1 TTTGTTTCAAGAAACAATCTCAAAGATTATGTAT
*
17037 TTTGTTTCCAATGAAACAATTTCAAA-ATT-TGTAT
1 TTTGTTT-CAA-GAAACAATCTCAAAGATTATGTAT
17071 TTT
1 TTT
17074 AAAGAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.44
35 5 0.16
36 13 0.41
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (34 bp):
TTTGTTTCAAGAAACAATCTCAAAGATTATGTAT
Found at i:17142 original size:101 final size:102
Alignment explanation
Indices: 17037--17219 Score: 237
Period size: 101 Copynumber: 1.8 Consensus size: 102
17027 GTTTATTTAT
** * * * * *
17037 TTTGTTTCCAA-TGAAACAATTTCAAAATTTGTATTTTAAA-GAAAAACTGTCTCCAGTGAGA-T
1 TTTGTTT-CAAGTGAAACAAACTCAAAATTTGCATCTCAAAGGAAAAA-TGTCTCAAGTGAGACC
*
17099 GAAACTGTTTTGAAAGAAACAATCTCAAGTAAGATCAAC
64 AAAACTGTTTTGAAAGAAACAATCTCAAGTAAGATCAAC
*
17138 TTTGTTTCAAGTGAAACAAACTCGAAATTTGCATCTCAAAGGAAAAATGTCTCAAGTGAGACCAA
1 TTTGTTTCAAGTGAAACAAACTCAAAATTTGCATCTCAAAGGAAAAATGTCTCAAGTGAGACCAA
*
17203 AATTGTTTTGAAAGAAA
66 AACTGTTTTGAAAGAAA
17220 GTGTCTTAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
100 3 0.04
101 43 0.62
102 23 0.33
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (102 bp):
TTTGTTTCAAGTGAAACAAACTCAAAATTTGCATCTCAAAGGAAAAATGTCTCAAGTGAGACCAA
AACTGTTTTGAAAGAAACAATCTCAAGTAAGATCAAC
Found at i:17471 original size:20 final size:20
Alignment explanation
Indices: 17446--17485 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17436 CCTTGTGTCT
*
17446 GAGAGCCGTATGTCAACTAC
1 GAGAGCCGCATGTCAACTAC
17466 GAGAGCCGCATGTCAACTAC
1 GAGAGCCGCATGTCAACTAC
17486 CAAGATCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGAGCCGCATGTCAACTAC
Found at i:18492 original size:14 final size:14
Alignment explanation
Indices: 18473--18564 Score: 73
Period size: 13 Copynumber: 6.3 Consensus size: 14
18463 GCTTCTTGTC
18473 TTTTTTTCTTTGC-
1 TTTTTTTCTTTGCT
*
18486 TTTTTTTCTTTTCT
1 TTTTTTTCTTTGCT
* *
18500 TTTGTTT-TTTGTTT
1 TTTTTTTCTTTG-CT
18514 TTACATTTTTCTTT-CT
1 TT---TTTTTCTTTGCT
18530 TTTTCTTTCTTTGCTT
1 TTTT-TTTCTTTGC-T
18546 TTTTTTCTCTTTGCT
1 TTTTTT-TCTTTGCT
18561 TTTT
1 TTTT
18565 CTTTTTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
13 17 0.27
14 16 0.25
15 8 0.13
16 15 0.24
17 4 0.06
18 3 0.05
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.78
Consensus pattern (14 bp):
TTTTTTTCTTTGCT
Found at i:18500 original size:26 final size:28
Alignment explanation
Indices: 18466--18568 Score: 86
Period size: 31 Copynumber: 3.5 Consensus size: 28
18456 TGCATGTGCT
18466 TCTTGTCTTTT-TTTCTTTGCTTTTTTTC
1 TCTT-TCTTTTCTTTCTTTGCTTTTTTTC
* * *
18494 T-TTTCTTTTGTTT-TTTGTTTTTACATTTT
1 TCTTTCTTTTCTTTCTTTGCTTTT---TTTC
18523 TCTTTCTTTTTCTTTCTTTGCTTTTTTTTC
1 TCTTTC-TTTTCTTTCTTTGC-TTTTTTTC
18553 TCTTTGCTTTTTCTTT
1 TCTTT-C-TTTTCTTT
18569 TTTTTTCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
26 14 0.23
27 5 0.08
28 1 0.02
29 4 0.07
30 12 0.20
31 17 0.28
32 4 0.07
33 4 0.07
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.77
Consensus pattern (28 bp):
TCTTTCTTTTCTTTCTTTGCTTTTTTTC
Found at i:18549 original size:41 final size:40
Alignment explanation
Indices: 18488--18578 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 40
18478 TTCTTTGCTT
18488 TTTTTCTTTTCTTTTGTTTTTTGT-T-TTTACATTTTTCTTTC
1 TTTTTC-TTTCTTTTGTTTTTT-TCTCTTTAC-TTTTTCTTTC
* *
18529 TTTTTCTTTC-TTTGCTTTTTTTTCTCTTTGCTTTTTCTTTT
1 TTTTTCTTTCTTTTG--TTTTTTTCTCTTTACTTTTTCTTTC
18570 TTTTTCTTT
1 TTTTTCTTT
18579 GCTTCGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
39 4 0.09
40 5 0.11
41 31 0.70
42 4 0.09
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.79
Consensus pattern (40 bp):
TTTTTCTTTCTTTTGTTTTTTTCTCTTTACTTTTTCTTTC
Found at i:18779 original size:25 final size:25
Alignment explanation
Indices: 18741--18789 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18731 TTCAGGATTA
* *
18741 ATTTTCTCCTTTTGTAAAGGGATAT
1 ATTTTCTCCATTTGCAAAGGGATAT
* *
18766 ATTTTCTTCATTTGCCAAGGGATA
1 ATTTTCTCCATTTGCAAAGGGATA
18790 ATGAAAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTTTCTCCATTTGCAAAGGGATAT
Found at i:20381 original size:30 final size:30
Alignment explanation
Indices: 20336--20526 Score: 176
Period size: 30 Copynumber: 6.4 Consensus size: 30
20326 TTATTTACTA
* *
20336 TTTAGTCCTTTAAGTTTATGTTTTTACTAT
1 TTTAGTCCCTTAAGTTTATGTTTTTGCTAT
*
20366 TTTAATCCCTTAAGTTT-TAGTTTTTGCTAT
1 TTTAGTCCCTTAAGTTTAT-GTTTTTGCTAT
*
20396 TTTAGTCCTTTTAA-TTTATGTTTTTGCTAT
1 TTTAGTCC-CTTAAGTTTATGTTTTTGCTAT
*
20426 TTTA-ACCCTTTAAGTTTCA-GTTTTTGCTAT
1 TTTAGTCCC-TTAAGTTT-ATGTTTTTGCTAT
** * *
20456 TTTAGTCATTTAAGTTTCTGTTTTTGTTAT
1 TTTAGTCCCTTAAGTTTATGTTTTTGCTAT
** * * *
20486 TTTAGTCCAGTAAATTTATGTTATTACTA-
1 TTTAGTCCCTTAAGTTTATGTTTTTGCTAT
*
20515 TTTAATCCCTTA
1 TTTAGTCCCTTA
20527 TTTTATTAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
29 16 0.12
30 107 0.82
31 7 0.05
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (30 bp):
TTTAGTCCCTTAAGTTTATGTTTTTGCTAT
Found at i:20398 original size:15 final size:15
Alignment explanation
Indices: 20380--20429 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
20370 ATCCCTTAAG
20380 TTTTAGTTTTTGCTA
1 TTTTAGTTTTTGCTA
*
20395 TTTTAGTCCTTT--TA
1 TTTTAGT-TTTTGCTA
*
20409 ATTTATGTTTTTGCTA
1 TTTTA-GTTTTTGCTA
20425 TTTTA
1 TTTTA
20430 ACCCTTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
14 9 0.33
15 9 0.33
16 9 0.33
ACGTcount: A:0.16, C:0.08, G:0.10, T:0.66
Consensus pattern (15 bp):
TTTTAGTTTTTGCTA
Found at i:20401 original size:60 final size:60
Alignment explanation
Indices: 20336--20489 Score: 231
Period size: 60 Copynumber: 2.6 Consensus size: 60
20326 TTATTTACTA
* *
20336 TTTAGTCCTTTAAGTTTATGTTTTTACTATTTTAATCCC-TTAAGTTTTAGTTTTTGCTAT
1 TTTAGTCCTTTAAGTTTATGTTTTTGCTATTTTAA-CCCTTTAAGTTTCAGTTTTTGCTAT
20396 TTTAGTCCTTTTAA-TTTATGTTTTTGCTATTTTAACCCTTTAAGTTTCAGTTTTTGCTAT
1 TTTAGTCC-TTTAAGTTTATGTTTTTGCTATTTTAACCCTTTAAGTTTCAGTTTTTGCTAT
* * *
20456 TTTAGTCATTTAAGTTTCTGTTTTTGTTATTTTA
1 TTTAGTCCTTTAAGTTTATGTTTTTGCTATTTTA
20490 GTCCAGTAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
59 8 0.09
60 73 0.85
61 5 0.06
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (60 bp):
TTTAGTCCTTTAAGTTTATGTTTTTGCTATTTTAACCCTTTAAGTTTCAGTTTTTGCTAT
Found at i:20439 original size:90 final size:90
Alignment explanation
Indices: 20330--20525 Score: 238
Period size: 90 Copynumber: 2.2 Consensus size: 90
20320 TTTTCTTTAT
* *
20330 TTACTATTTAGT-CCTTTAAGTTT-ATGTTTTTACTATTTTAATCCCTTAAGTTT-TAGTTTTTG
1 TTACTATTTAATCCCTTTAAGTTTCA-GTTTTTACTATTTTAATCACTTAAGTTTCT-GTTTTTG
** * *
20392 CTATTTTAGTCCTTTTAATTTATGTTT
64 CTATTTTAGTCCAGTAAATTTATGTTA
* * * * *
20419 TTGCTATTTTAA-CCCTTTAAGTTTCAGTTTTTGCTATTTTAGTCATTTAAGTTTCTGTTTTTGT
1 TTACTA-TTTAATCCCTTTAAGTTTCAGTTTTTACTATTTTAATCACTTAAGTTTCTGTTTTTGC
20483 TATTTTAGTCCAGTAAATTTATGTTA
65 TATTTTAGTCCAGTAAATTTATGTTA
20509 TTACTATTTAATCCCTT
1 TTACTATTTAATCCCTT
20526 ATTTTATTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
89 10 0.11
90 78 0.87
91 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (90 bp):
TTACTATTTAATCCCTTTAAGTTTCAGTTTTTACTATTTTAATCACTTAAGTTTCTGTTTTTGCT
ATTTTAGTCCAGTAAATTTATGTTA
Found at i:20516 original size:60 final size:60
Alignment explanation
Indices: 20329--20517 Score: 197
Period size: 60 Copynumber: 3.2 Consensus size: 60
20319 TTTTTCTTTA
* * *
20329 TTTACTA-TTTAGTCCTTTAAGTTTATGTTTTTACTATTTTAATCCCTTAAGTTT-TAGTT
1 TTTACTATTTTAGTCATTTAAGTTTATGTTTTTGCTATTTTAATCCATTAAGTTTAT-GTT
* * * *
20388 TTTGCTATTTTAGTCCTTTTAA-TTTATGTTTTTGCTATTTTAACCCTTTAAGTTTCA-GTT
1 TTTACTATTTTAGT-CATTTAAGTTTATGTTTTTGCTATTTTAATCCATTAAGTTT-ATGTT
* * * * * *
20448 TTTGCTATTTTAGTCATTTAAGTTTCTGTTTTTGTTATTTTAGTCCAGTAAATTTATGTT
1 TTTACTATTTTAGTCATTTAAGTTTATGTTTTTGCTATTTTAATCCATTAAGTTTATGTT
*
20508 ATTACTATTT
1 TTTACTATTT
20518 AATCCCTTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
59 13 0.12
60 90 0.83
61 6 0.06
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (60 bp):
TTTACTATTTTAGTCATTTAAGTTTATGTTTTTGCTATTTTAATCCATTAAGTTTATGTT
Found at i:20813 original size:5 final size:5
Alignment explanation
Indices: 20799--20829 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
20789 CTCTTTTCAC
*
20799 TTTTA ATTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
20830 ATTTGCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:23187 original size:21 final size:20
Alignment explanation
Indices: 23146--23260 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
23136 AATTGGGAAA
23146 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
23166 ATCGCAATGCGATACTTGACT
1 ATCGCAATGCGATAC-TGACT
* *
23187 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
23208 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
23228 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
23248 TTCGCAACGCGAT
1 ATCGCAATGCGAT
23261 TTACATAGCG
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.02
20 46 0.56
21 32 0.39
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:23222 original size:62 final size:61
Alignment explanation
Indices: 23143--23260 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
23133 GCGAATTGGG
* * * *
23143 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAC-TGACTATCGCAACGCGATAATAC
* * *
23205 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
23261 TTACATAGCG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 16 0.33
62 33 0.67
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:23823 original size:19 final size:19
Alignment explanation
Indices: 23778--23825 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
23768 TTCGAGAATG
*
23778 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
23797 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
23817 AAAATCGCA
1 AAAATCGCA
23826 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:23843 original size:19 final size:19
Alignment explanation
Indices: 23821--23999 Score: 136
Period size: 19 Copynumber: 10.1 Consensus size: 19
23811 GAAACCAAAA
*
23821 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23840 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
23854 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
23873 TCGCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
23892 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
23906 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
23925 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
23939 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
23958 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
23978 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
23998 TC
1 TC
24000 AACCAAAAGA
Statistics
Matches: 127, Mismatches: 16, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
14 30 0.24
16 7 0.06
17 8 0.06
19 50 0.39
20 31 0.24
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:23909 original size:52 final size:52
Alignment explanation
Indices: 23821--23933 Score: 190
Period size: 52 Copynumber: 2.2 Consensus size: 52
23811 GAAACCAAAA
* * **
23821 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCAATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
23873 TCGCGTTGCAATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCAATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
23925 TCGCGTTGC
1 TCGCGTTGC
23934 GATTCTCTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (52 bp):
TCGCGTTGCAATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:23913 original size:33 final size:33
Alignment explanation
Indices: 23887--23974 Score: 167
Period size: 33 Copynumber: 2.6 Consensus size: 33
23877 GTTGCAATTT
23887 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
23920 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
23953 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
23975 ATTATCTCGT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 39 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
Found at i:23914 original size:14 final size:14
Alignment explanation
Indices: 23895--23950 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
23885 TTTCATTTCG
23895 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
23909 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
23928 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
23942 CGTTGCGAT
1 CGTTGCGAT
23951 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:24117 original size:25 final size:26
Alignment explanation
Indices: 24063--24117 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
24053 TTATGTTTAT
*
24063 TGTTTTTGGTATATCTTGACAGTGTA
1 TGTTTTTGGTATATCTTAACAGTGTA
**
24089 -GTTTTTGGTATATC-TAACTTTGTA
1 TGTTTTTGGTATATCTTAACAGTGTA
24113 TGTTT
1 TGTTT
24118 ATTGTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.18, C:0.07, G:0.20, T:0.55
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACAGTGTA
Found at i:26168 original size:42 final size:42
Alignment explanation
Indices: 26097--26294 Score: 184
Period size: 42 Copynumber: 4.7 Consensus size: 42
26087 GCCTGTTATC
* * * * * *
26097 CCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTATCATT
* * * *
26139 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTAATC
1 CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTATCATT
* * * * * * *
26181 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTATCATT
*
26223 CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTGTCA-T
1 CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTATCATT
* *
26264 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCATTCAAGAG
26295 CCCGATTCAC
Statistics
Matches: 125, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 4 0.03
42 119 0.95
43 2 0.02
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (42 bp):
CCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTATCATT
Found at i:26252 original size:21 final size:21
Alignment explanation
Indices: 26228--26294 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
26218 TCATTCCTCG
26228 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
26249 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
26270 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
26291 AGAG
1 AGAG
26295 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:26273 original size:84 final size:84
Alignment explanation
Indices: 26089--26260 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
26079 CCCGACTCGC
*
26089 CTGTTATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTAATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
26154 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
*
26173 CTGTAATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTAATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
26238 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
26257 CTGT
1 CTGT
26261 CATCGTTGAA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTAATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:26294 original size:84 final size:84
Alignment explanation
Indices: 26089--26294 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
26079 CCCGACTCGC
* * *
26089 CTGTTATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTAATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
26154 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* * *
26173 CTGTAATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTAATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
26238 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* ** * *
26257 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTAATCCCTCAAGA-GTCCACTCCCACCATTGAAGAG
26295 CCCGATTCAC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 106 0.96
85 4 0.04
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTAATCCCTCAAGAGTCCACTCCCACCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:27670 original size:14 final size:14
Alignment explanation
Indices: 27651--27686 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
27641 ATTGTTTAAT
27651 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
27665 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
27679 TGATTTGT
1 TGATTTGT
27687 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:27817 original size:19 final size:19
Alignment explanation
Indices: 27793--27839 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
27783 AAAACGTACT
*
27793 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
27812 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
27831 ATCGCAACG
1 ATCGCAACG
27840 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:27910 original size:33 final size:32
Alignment explanation
Indices: 27868--27994 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
27858 ATAAAATTCG
27868 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
27901 CGTTGCGATTTTCATTTCGCATTGCAAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
*
27934 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
* *
27967 CGTTGCAATTTTCATTTCGCATTACGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
27995 AGTAATTTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.04
33 74 0.93
35 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:27944 original size:66 final size:66
Alignment explanation
Indices: 27860--27989 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
27850 AACGCGAAAT
* *
27860 AAAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
1 AAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTG
27925 C
66 C
* *
27926 AAAATTAGCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCGCATT
1 AAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATT
27990 ACGATAGTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (66 bp):
AAAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTG
C
Found at i:30304 original size:12 final size:12
Alignment explanation
Indices: 30287--30311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30277 TCTTCGGGGA
30287 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30299 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30311 C
1 C
30312 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:30520 original size:24 final size:24
Alignment explanation
Indices: 30486--30539 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30476 CTGAAACATC
*
30486 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
30510 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
30534 ATCAAA
1 ATCAAA
30540 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:31350 original size:20 final size:21
Alignment explanation
Indices: 31325--31376 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
31315 TTTTCCTAAT
*
31325 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
31345 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
31366 TCGCAATGCGA
1 TCGCAATGCGA
31377 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:31450 original size:20 final size:20
Alignment explanation
Indices: 31361--31452 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
31351 TGCGAATTTG
* *
31361 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
31381 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
31401 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
31422 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
31442 GAAAATCGCAA
1 GAAAATCGCAA
31453 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:31741 original size:20 final size:20
Alignment explanation
Indices: 31666--31733 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
31656 CAACGGGGAA
31666 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
31686 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
31706 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
31726 ATCGCAAC
1 ATCGCAAC
31734 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:31803 original size:19 final size:19
Alignment explanation
Indices: 31760--31827 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
31750 GAAATGAAAA
31760 TCGCATTGCGA-TTT--TT
1 TCGCATTGCGATTTTCATT
31776 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
31793 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
31812 TCGCATTGTGATTTTC
1 TCGCATTGCGATTTTC
31828 TAGTTGCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.13
15 3 0.07
16 3 0.07
17 5 0.11
19 29 0.63
ACGTcount: A:0.13, C:0.19, G:0.18, T:0.50
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:31847 original size:20 final size:20
Alignment explanation
Indices: 31822--31859 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31812 TCGCATTGTG
*
31822 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
31842 ATTTTCGCGTTGCGATAG
1 ATTTTCGAGTTGCGATAG
31860 TCTGTTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:31983 original size:14 final size:14
Alignment explanation
Indices: 31964--32000 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
31954 CATCAATTAA
31964 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
31978 ACAAATCATCTTTT
1 ACAAATCAACATTT
31992 ACAAATCAA
1 ACAAATCAA
32001 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:33487 original size:21 final size:20
Alignment explanation
Indices: 33399--33496 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
33389 TGGAATAGTG
* *
33399 GGAGGGACCTCTTCAACGAT
1 GGAGGGGCCTCTTGAACGAT
* *
33419 GGCAGTGGCCTCTTGAACGGT
1 GG-AGGGGCCTCTTGAACGAT
* * **
33440 GGGGGGGACTCTTGAGGGA-
1 GGAGGGGCCTCTTGAACGAT
33459 GGATAGGGGCCTCTTGAACGATT
1 GG--AGGGGCCTCTTGAACGA-T
*
33482 GGAGGGGACTCTTGA
1 GGAGGGGCCTCTTGA
33497 GGGATGACAG
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.03
20 13 0.22
21 41 0.71
23 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.41, T:0.21
Consensus pattern (20 bp):
GGAGGGGCCTCTTGAACGAT
Found at i:33892 original size:20 final size:20
Alignment explanation
Indices: 33869--33936 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
33859 GAAACTTAAA
33869 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
33889 ATCGCAATGC-AGAAATGGCT
1 ATCGCAACGCGA-AAATGACT
* **
33909 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
33928 ATCGCAACG
1 ATCGCAACG
33937 ACAAAATCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:33944 original size:14 final size:14
Alignment explanation
Indices: 33925--34014 Score: 63
Period size: 14 Copynumber: 5.9 Consensus size: 14
33915 ATGCGAAATG
33925 AAAATCGCAACGAC
1 AAAATCGCAACGAC
** *
33939 AAAATCAAAATGCGAA
1 AAAATCGCAA--CGAC
*
33955 ATGAAATCGCAACGGC
1 A--AAATCGCAACGAC
*
33971 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
33987 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
34003 AAAATCGCAACG
1 AAAATCGCAACG
34015 CGGAACACAA
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
14 28 0.48
16 14 0.24
18 16 0.28
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:34009 original size:32 final size:32
Alignment explanation
Indices: 33909--34012 Score: 172
Period size: 32 Copynumber: 3.2 Consensus size: 32
33899 AGAAATGGCT
33909 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
** *
33942 ATCAAAATGCGAAATGAAATCGCAACGGCAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
33974 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
34006 ATCGCAA
1 ATCGCAA
34013 CGCGGAACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
32 51 0.78
33 14 0.22
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:34027 original size:65 final size:65
Alignment explanation
Indices: 33909--34030 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 65
33899 AGAAATGGCT
* *
33909 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCAAAATGCGAAATGAAATCGCAACGGCAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCAAAACGCGAAATCAAATCGCAACGGCAAA
**
33974 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGGAACA-CAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCAAAACGC-GAA-ATCAAATCGCA
34031 TTGCGATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
64 23 0.45
65 27 0.53
66 1 0.02
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (65 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCAAAACGCGAAATCAAATCGCAACGGCAAA
Found at i:34067 original size:14 final size:14
Alignment explanation
Indices: 34048--34105 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
34038 TTTCATTTCG
34048 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
34062 CGTTGCAATTTCATTT
1 CGTTGCGATTT--TGT
34078 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
34094 CGTTGCGATTTT
1 CGTTGCGATTTT
34106 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:34112 original size:33 final size:33
Alignment explanation
Indices: 34031--34121 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
34021 ACAAATCGCA
*
34031 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
34064 TTGC-AATTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
34096 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
34122 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:34128 original size:19 final size:20
Alignment explanation
Indices: 34106--34149 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34096 TTGCGATTTT
34106 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
34125 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
34145 CATTT
1 CATTT
34150 TTGTGTTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:34353 original size:99 final size:99
Alignment explanation
Indices: 34182--34373 Score: 384
Period size: 99 Copynumber: 1.9 Consensus size: 99
34172 TCTTCTTCTG
34182 CAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAAAGACAAAAACAAAACCAAAAACAAAT
1 CAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAAAGACAAAAACAAAACCAAAAACAAAT
34247 ACTAACAAAAACAGTTTAGCAGTATTGGAAAAAA
66 ACTAACAAAAACAGTTTAGCAGTATTGGAAAAAA
34281 CAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAAAGACAAAAACAAAACCAAAAACAAAT
1 CAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAAAGACAAAAACAAAACCAAAAACAAAT
34346 ACTAACAAAAACAGTTTAGCAGTATTGG
66 ACTAACAAAAACAGTTTAGCAGTATTGG
34374 CAGCAACCGA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (99 bp):
CAAATTGAAACTTGAATGGATTGCATTACTTCAACCAAAAGACAAAAACAAAACCAAAAACAAAT
ACTAACAAAAACAGTTTAGCAGTATTGGAAAAAA
Found at i:34767 original size:18 final size:18
Alignment explanation
Indices: 34741--34785 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
34731 GTCGATCAGA
*
34741 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
34759 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
34777 TGATGGCTC
1 TGATGGCTC
34786 CCAAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:36144 original size:20 final size:20
Alignment explanation
Indices: 36096--36154 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
36086 AATAGTTTCT
** *
36096 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
36116 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
36136 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
36155 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:36713 original size:20 final size:20
Alignment explanation
Indices: 36628--36741 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
36618 CGCTTTGAAA
* * *
36628 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
36648 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
36668 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
36689 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
36709 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
36729 ATCGCATTGCGAT
1 ATCGCATTGCGAT
36742 TTTCCCAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 65 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:36726 original size:61 final size:61
Alignment explanation
Indices: 36628--36744 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
36618 CGCTTTGAAA
* * * *
36628 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
36689 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
36745 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:36760 original size:61 final size:61
Alignment explanation
Indices: 36628--36762 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
36618 CGCTTTGAAA
* * * * ** *
36628 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
36689 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
36751 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
36763 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:47725 original size:17 final size:18
Alignment explanation
Indices: 47686--47732 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
47676 TGTTTCTGAG
47686 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
47704 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
47721 GGAATTGGAATC
1 GGAATTGGAATC
47733 CAATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:53192 original size:4 final size:4
Alignment explanation
Indices: 53183--53209 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53173 ATTGTTCAAC
53183 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
53210 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:54014 original size:17 final size:17
Alignment explanation
Indices: 53992--54049 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
53982 TAATATAGAC
53992 TATTTAACATGGACTAT
1 TATTTAACATGGACTAT
* *
54009 TATTTATA-ATATG-CTAAC
1 TATTTA-ACAT-GGACT-AT
54027 TATTTAACATGGACTAT
1 TATTTAACATGGACTAT
54044 TATTTA
1 TATTTA
54050 TAATATGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (17 bp):
TATTTAACATGGACTAT
Found at i:54030 original size:21 final size:21
Alignment explanation
Indices: 54004--54065 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
53994 TTTAACATGG
54004 ACTATTATTTATAATATGCTA
1 ACTATTATTTATAATATGCTA
* *
54025 AC---TA-TT-TAACATG--G
1 ACTATTATTTATAATATGCTA
54039 ACTATTATTTATAATATGCTA
1 ACTATTATTTATAATATGCTA
54060 ACTATT
1 ACTATT
54066 TAACATGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
14 2 0.07
16 6 0.20
17 4 0.13
18 4 0.13
19 6 0.20
21 8 0.27
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (21 bp):
ACTATTATTTATAATATGCTA
Found at i:54030 original size:35 final size:35
Alignment explanation
Indices: 53990--54078 Score: 178
Period size: 35 Copynumber: 2.5 Consensus size: 35
53980 TCTAATATAG
53990 ACTATTTAACATGGACTATTATTTATAATATGCTA
1 ACTATTTAACATGGACTATTATTTATAATATGCTA
54025 ACTATTTAACATGGACTATTATTTATAATATGCTA
1 ACTATTTAACATGGACTATTATTTATAATATGCTA
54060 ACTATTTAACATGGACTAT
1 ACTATTTAACATGGACTAT
54079 ATGGTATGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (35 bp):
ACTATTTAACATGGACTATTATTTATAATATGCTA
Found at i:54032 original size:18 final size:18
Alignment explanation
Indices: 54009--54067 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
53999 CATGGACTAT
54009 TATTTATAATATGCTAAC
1 TATTTATAATATGCTAAC
* *
54027 TATTTA-ACAT-GGACT-AT
1 TATTTATA-ATATG-CTAAC
54044 TATTTATAATATGCTAAC
1 TATTTATAATATGCTAAC
54062 TATTTA
1 TATTTA
54068 ACATGGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (18 bp):
TATTTATAATATGCTAAC
Found at i:54148 original size:68 final size:68
Alignment explanation
Indices: 54062--54237 Score: 235
Period size: 68 Copynumber: 2.6 Consensus size: 68
54052 ATATGCTAAC
* * * * * *
54062 TATTTAACATGGACTATATGGTATGCAAATGTTTAATATGAATTATATAATACGCAATGACATGC
1 TATTTAATATGAACTATATGATATGCAATTATTTAATATGAACTATATAATACGCAATGACATGC
*
54127 AGT
66 AAT
* * * * **
54130 TATTTAATATGAACTATATGATATGTAATTATTTAGTATAAACTATATAATATGCAATGGTATGC
1 TATTTAATATGAACTATATGATATGCAATTATTTAATATGAACTATATAATACGCAATGACATGC
54195 AAT
66 AAT
54198 TATTTAATATGAACTATATGATATGCAATTATTTAATATG
1 TATTTAATATGAACTATATGATATGCAATTATTTAATATG
54238 TAATACTATA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (68 bp):
TATTTAATATGAACTATATGATATGCAATTATTTAATATGAACTATATAATACGCAATGACATGC
AAT
Found at i:54201 original size:39 final size:39
Alignment explanation
Indices: 54151--54226 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
54141 AACTATATGA
* *
54151 TATGTAATTATTTAGTATAAACTATATAATATGCAATGG
1 TATGCAATTATTTAATATAAACTATATAATATGCAATGG
* *
54190 TATGCAATTATTTAATATGAACTATATGATATGCAAT
1 TATGCAATTATTTAATATAAACTATATAATATGCAAT
54227 TATTTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (39 bp):
TATGCAATTATTTAATATAAACTATATAATATGCAATGG
Found at i:62640 original size:3 final size:3
Alignment explanation
Indices: 62632--62699 Score: 91
Period size: 3 Copynumber: 22.7 Consensus size: 3
62622 TTAATGTATT
* * * * *
62632 TAA TAA TAA TAA TAA TAA TTA TTA TAA TAA TTA TAA TAA TGA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62680 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
62700 TGGGTAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:63126 original size:113 final size:115
Alignment explanation
Indices: 62921--63393 Score: 598
Period size: 116 Copynumber: 4.1 Consensus size: 115
62911 TGATAGAGTT
* * * * *
62921 ATTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAAATGATAAGTTCTTTTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AATGATGAGTTCTTCTCATTA
* * * * * *
62986 TGAACTCTACCTGGCAATGTTGATCCATTAAATGATGAATTCAAGCAAAAA
65 TGAACTCTACCTGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAG
63037 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-A-GATGAGTTCTTCTCATTAT
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTAT
* * ** * *
63100 GAACTTTATCTGGAAAAGATAATCCATTCATTTGATGAATTCAGGTAAAAG
66 GAACTCTACCTGGAAAAGATAATCCA-TCAAATGATGAATTCAAGCAAAAG
*
63151 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-ATGATGAGTTCTTCTCATTA
* * * *
63216 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
65 TGAACTCTACCTGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAG
63267 ATTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTCTTCTTC-A-GATGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTTCTTCAATGATGAGTTCTTCTCATTA
* ** * *
63329 TGAACT-TTCTCTGGAAAAGATAATCCATCCATTTGATGAATTCAGGTAAAAG
65 TGAACTCTAC-CTGGAAAAGATAATCCAT-CAAATGATGAATTCAAGCAAAAG
*
63381 GTTGAACAAGTTC
1 ATTGAACAAGTTC
63394 AACTCTACCT
Statistics
Matches: 311, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
112 2 0.01
113 75 0.24
114 93 0.30
115 2 0.01
116 100 0.32
117 39 0.13
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (115 bp):
ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAG
Found at i:63251 original size:230 final size:230
Alignment explanation
Indices: 62922--63393 Score: 838
Period size: 230 Copynumber: 2.1 Consensus size: 230
62912 GATAGAGTTA
* * * *
62922 TTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAAATGATAAGTTCTTTTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGATAAGTTCTTCTCATTAT
*
62987 GAACTCTACCTGGCAATGTTGATCCATTAAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTT
66 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTT
63052 CTCATTATGAACTTCTTCT-TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAAA
131 CTCATTATGAACTTCTTCTCT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAAA
*
63116 AGATAATCCATTCATTTGATGAATTCAGGTAAAAGG
195 AGATAATCCATCCATTTGATGAATTCAGGTAAAAGG
* *
63152 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGATAAGTTCTTCTCATTAT
*
63217 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTT
66 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTT
*
63282 CTCATTATGAACTTCTTCTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
131 CTCATTATGAACTTCTTCTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAAAA
63347 GATAATCCATCCATTTGATGAATTCAGGTAAAAGG
196 GATAATCCATCCATTTGATGAATTCAGGTAAAAGG
63382 TTGAACAAGTTC
1 TTGAACAAGTTC
63394 AACTCTACCT
Statistics
Matches: 231, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
230 230 1.00
231 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (230 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGATAAGTTCTTCTCATTAT
GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAATTGAACAAGTTCTT
CTCATTATGAACTTCTTCTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTGGAAAA
GATAATCCATCCATTTGATGAATTCAGGTAAAAGG
Found at i:64353 original size:83 final size:83
Alignment explanation
Indices: 64214--64594 Score: 717
Period size: 83 Copynumber: 4.6 Consensus size: 83
64204 GTAGTTCCTA
*
64214 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
*
64279 ATTCAATGATTTGTTCTG
66 ATTCAATGATTGGTTCTG
*
64297 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
64362 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
64380 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
64445 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
64463 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
*
64528 ATTCAATGATTGGTTCTA
66 ATTCAATGATTGGTTCTG
64546 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
64595 TCTCTTTCAG
Statistics
Matches: 294, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 294 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (83 bp):
CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:64990 original size:158 final size:158
Alignment explanation
Indices: 64702--65017 Score: 605
Period size: 158 Copynumber: 2.0 Consensus size: 158
64692 AAAGGGCTAT
64702 ATTCATAATTCTGCCAATTAAGAACAGATTTTCTCTTATTCTGCTTCCTCCATATGCTGATGCTT
1 ATTCATAATTCTGCCAATTAAGAACAGATTTTCTCTTATTCTGCTTCCTCCATATGCTGATGCTT
64767 TTCCATTGACAAAGAAATGATGGCCTTCCTGGGATACAAGAACAAAGTTGAACTATTTATAAACA
66 TTCCATTGACAAAGAAATGATGGCCTTCCTGGGATACAAGAACAAAGTTGAACTATTTATAAACA
*
64832 TGTACAGTAAGTGCCAAATTGACAGAAA
131 TGTACAGGAAGTGCCAAATTGACAGAAA
*
64860 ATTCATAATTCTGCCAATTAAGAACAGATTTTCTCTTATTCTGCTTCCTCCATGTGCTGATGCTT
1 ATTCATAATTCTGCCAATTAAGAACAGATTTTCTCTTATTCTGCTTCCTCCATATGCTGATGCTT
*
64925 TTCCATTGACAAAGAAATGATGGCCTTCCTGGGATCCAAGAACAAAGTTGAACTATTTATAAACA
66 TTCCATTGACAAAGAAATGATGGCCTTCCTGGGATACAAGAACAAAGTTGAACTATTTATAAACA
64990 TGTACAGGAAGTGCCAAATTGACAGAAA
131 TGTACAGGAAGTGCCAAATTGACAGAAA
65018 GGACCTGTAA
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 155 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (158 bp):
ATTCATAATTCTGCCAATTAAGAACAGATTTTCTCTTATTCTGCTTCCTCCATATGCTGATGCTT
TTCCATTGACAAAGAAATGATGGCCTTCCTGGGATACAAGAACAAAGTTGAACTATTTATAAACA
TGTACAGGAAGTGCCAAATTGACAGAAA
Found at i:78579 original size:3 final size:3
Alignment explanation
Indices: 78571--78647 Score: 100
Period size: 3 Copynumber: 25.7 Consensus size: 3
78561 TGAATGTATT
* * *
78571 TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
78619 TGA TAA TTA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
78648 TGGGTAAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:82353 original size:63 final size:63
Alignment explanation
Indices: 82281--82405 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
82271 TAAAGAAATA
*
82281 TGATATTAATGCGAAGAGATGTGAT-GTTAACATGAAGAGATGTGATATTAATATGAAAAGATG
1 TGATATTAATGCGAAGAGATGTGATAG-TAACATAAAGAGATGTGATATTAATATGAAAAGATG
* * * * * * *
82344 TGATGTTAATGTGAAGATATGTGATAGTAACATAAATAGATGTTATGTTAATATGAAGAGAT
1 TGATATTAATGCGAAGAGATGTGATAGTAACATAAAGAGATGTGATATTAATATGAAAAGAT
82406 ATATCTATTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (63 bp):
TGATATTAATGCGAAGAGATGTGATAGTAACATAAAGAGATGTGATATTAATATGAAAAGATG
Found at i:82359 original size:42 final size:42
Alignment explanation
Indices: 82246--82405 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
82236 ATGAGATGTG
* * *
82246 AATATGAAGAA-ATGTGATGTTAACT-TAAAGAAATATGATATT
1 AATATGAA-AAGATGTGATGTTAA-TATGAAGAGATGTGATATT
** * *
82288 AATGCGAAGAGATGTGATGTTAACATGAAGAGATGTGATATT
1 AATATGAAAAGATGTGATGTTAATATGAAGAGATGTGATATT
* * *
82330 AATATGAAAAGATGTGATGTTAATGTGAAGATATGTGATAGT
1 AATATGAAAAGATGTGATGTTAATATGAAGAGATGTGATATT
* *
82372 AACAT-AAATAGATGTTATGTTAATATGAAGAGAT
1 AATATGAAA-AGATGTGATGTTAATATGAAGAGAT
82406 ATATCTATTC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.04
42 93 0.96
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.32
Consensus pattern (42 bp):
AATATGAAAAGATGTGATGTTAATATGAAGAGATGTGATATT
Found at i:82405 original size:21 final size:21
Alignment explanation
Indices: 82240--82405 Score: 147
Period size: 21 Copynumber: 7.9 Consensus size: 21
82230 ATATTAATGA
* *
82240 GATGTGAATATGAAGAAATGT
1 GATGTTAATATGAAGAGATGT
* * *
82261 GATGTTAACT-TAAAGAAATAT
1 GATGTTAA-TATGAAGAGATGT
* **
82282 GATATTAATGCGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
*
82303 GATGTTAACATGAAGAGATGT
1 GATGTTAATATGAAGAGATGT
* *
82324 GATATTAATATGAAAAGATGT
1 GATGTTAATATGAAGAGATGT
* *
82345 GATGTTAATGTGAAGATATGT
1 GATGTTAATATGAAGAGATGT
* * *
82366 GATAG-TAACATAAATAGATGT
1 GAT-GTTAATATGAAGAGATGT
*
82387 TATGTTAATATGAAGAGAT
1 GATGTTAATATGAAGAGAT
82406 ATATCTATTC
Statistics
Matches: 113, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
20 2 0.02
21 109 0.96
22 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.32
Consensus pattern (21 bp):
GATGTTAATATGAAGAGATGT
Found at i:84053 original size:18 final size:18
Alignment explanation
Indices: 84017--84068 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
84007 TTCCTGTTAA
**
84017 TATCACATCTCTTCGCAT
1 TATCACATCTCTTAACAT
*
84035 TATCATATCTCTTAACATT
1 TATCACATCTCTTAACA-T
84054 AATATCACATCTCTT
1 --TATCACATCTCTT
84069 CATATTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 14 0.52
19 1 0.04
21 12 0.44
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (18 bp):
TATCACATCTCTTAACAT
Found at i:84065 original size:21 final size:21
Alignment explanation
Indices: 83993--84133 Score: 137
Period size: 21 Copynumber: 6.9 Consensus size: 21
83983 TCTATTTATG
* *
83993 TAATATTACATCTCTTC-CTGT
1 TAATATCACATCTCTTCAC-AT
*
84014 TAATATCACATCTCTTCGCA-
1 TAATATCACATCTCTTCACAT
* *
84034 T--TATCATATCTCTTAACAT
1 TAATATCACATCTCTTCACAT
*
84053 TAATATCACATCTCTTCATAT
1 TAATATCACATCTCTTCACAT
*
84074 TAATATCACATCTCTTCATAT
1 TAATATCACATCTCTTCACAT
* * *
84095 TAACATCATATCTCTTCGCAT
1 TAATATCACATCTCTTCACAT
* *
84116 TAACATCACATTTCTTCA
1 TAATATCACATCTCTTCA
84134 TATTCACATC
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.14
19 1 0.01
20 1 0.01
21 84 0.83
22 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (21 bp):
TAATATCACATCTCTTCACAT
Found at i:84097 original size:42 final size:42
Alignment explanation
Indices: 83993--84137 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
83983 TCTATTTATG
* * *
83993 TAATATTACATCTCTTCCTGTTAATATCACATCTCTTCGCA-
1 TAATATCACATCTCTTCATATTAATATCACATCTCTTCGCAT
* * * **
84034 T--TATCATATCTCTTAACATTAATATCACATCTCTTCATAT
1 TAATATCACATCTCTTCATATTAATATCACATCTCTTCGCAT
* *
84074 TAATATCACATCTCTTCATATTAACATCATATCTCTTCGCAT
1 TAATATCACATCTCTTCATATTAATATCACATCTCTTCGCAT
* *
84116 TAACATCACATTTCTTCATATT
1 TAATATCACATCTCTTCATATT
84138 CACATCTCAT
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 30 0.36
40 1 0.01
41 1 0.01
42 52 0.62
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (42 bp):
TAATATCACATCTCTTCATATTAATATCACATCTCTTCGCAT
Found at i:84132 original size:63 final size:60
Alignment explanation
Indices: 84000--84137 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 60
83990 ATGTAATATT
* * * *
84000 ACATCTCTTCCTGTTAATATCACATCTCTTCGCATTATCATATCTCTTAACATTAATATC
1 ACATCTCTTCATATTAATATCACATCTCTTCACATTATCATATCTCTTAACATTAACATC
* **
84060 ACATCTCTTCATATTAATATCACATCTCTTCATATTAACATCATATCTCTTCGCATTAACATC
1 ACATCTCTTCATATTAATATCACATCTCTTCACATT---ATCATATCTCTTAACATTAACATC
*
84123 ACATTTCTTCATATT
1 ACATCTCTTCATATT
84138 CACATCTCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 32 0.48
63 35 0.52
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (60 bp):
ACATCTCTTCATATTAATATCACATCTCTTCACATTATCATATCTCTTAACATTAACATC
Found at i:87024 original size:3 final size:3
Alignment explanation
Indices: 87009--87051 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
86999 TAAATACACT
* *
87009 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
87052 TTTTTTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:87364 original size:105 final size:105
Alignment explanation
Indices: 87188--87481 Score: 340
Period size: 105 Copynumber: 2.8 Consensus size: 105
87178 TCGTTAGATT
** * *
87188 GAACAAGTTCTTCTCATTATGAAC-TTCTTTTTTCTCGTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTTC-TCCTT-T--AGGACGAGTTCTTCTCATTATGAACTC
* * * *
87252 TTTTGGAAATGTTGATCCAAATCCTTTTGCGGTGGACTTAGAAA-
62 TTCTGGAAATGTTGATCCAAATCCATCTGCGGT-GAATTAGAAAG
* *
87296 GAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
* * ** * *
87361 GGAAATGTTGGTTCACCTCCATCTGTGGTGAATTTGAAAG
66 GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
* *
87401 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC-
*
87466 TTGGAAATGTCGATCC
65 -TGGAAATGTTGATCC
87482 CTCAAGCGAG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
104 8 0.05
105 110 0.69
107 13 0.08
108 25 0.16
109 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
Found at i:87463 original size:16 final size:16
Alignment explanation
Indices: 87409--87464 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
87399 AGGAACAAGT
87409 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
87425 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
87444 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
87460 TCTTC
1 TCTTC
87465 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:87790 original size:225 final size:222
Alignment explanation
Indices: 87401--87837 Score: 628
Period size: 225 Copynumber: 2.0 Consensus size: 222
87391 AATTTGAAAG
*
87401 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
* * * * * * * *
87466 TTGGAAATGTCGATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCAAGTGATAGGT
66 CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
* * *
87531 CAAAAAAGATCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATTATGAAC
131 CAAAAAAGATCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAAC
87596 TCTCCATTGAAAATGTTGATGCGAATTT
196 TCTCCATTG-AAATGTTGATGCGAATTT
87624 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACT
* * *
87688 C-TC-CTGAAAATATCAATCCCTCAAGCGTGGTGTCACTGATTCAAAATGTCATAAATCGAGTGA
61 CTTCACTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGA
* * * *
87751 TAAGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGAATGAGTTCTTCTCATTA
126 TAAGTCAAAAAAGATCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTA
87816 TGAACTCTCCATTGAAATGTTG
191 TGAACTCTCCATTGAAATGTTG
87838 GTTCACCTCC
Statistics
Matches: 190, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
223 24 0.13
224 9 0.05
225 124 0.65
226 6 0.03
227 25 0.13
228 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (222 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
CAAAAAAGATCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAAC
TCTCCATTGAAATGTTGATGCGAATTT
Found at i:88731 original size:19 final size:19
Alignment explanation
Indices: 88699--88739 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
88689 AACCCTCCTT
88699 TTTCTCTTTTATTTTTTCA
1 TTTCTCTTTTATTTTTTCA
88718 TTTCT-TTTTCATTTTTTCA
1 TTTCTCTTTT-ATTTTTTCA
88737 TTT
1 TTT
88740 TTCATCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTCTTTTATTTTTTCA
Found at i:88742 original size:15 final size:16
Alignment explanation
Indices: 88718--88754 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
88708 TATTTTTTCA
88718 TTTC-TTTTTCAT-TT
1 TTTCATTTTTCATCTT
88732 TTTCATTTTTCATCTT
1 TTTCATTTTTCATCTT
88748 TTT-ATTT
1 TTTCATTT
88755 GTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCATTTTTCATCTT
Found at i:96037 original size:105 final size:105
Alignment explanation
Indices: 95861--96154 Score: 340
Period size: 105 Copynumber: 2.8 Consensus size: 105
95851 TCGTTAGATT
** * *
95861 GAACAAGTTCTTCTCATTATGAAC-TTCTTTTTTCTCGTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTTC-TCCTT-T--AGGACGAGTTCTTCTCATTATGAACTC
* * * *
95925 TTTTGGAAATGTTGATCCAAATCCTTTTGCGGTGGACTTAGAAA-
62 TTCTGGAAATGTTGATCCAAATCCATCTGCGGT-GAATTAGAAAG
* *
95969 GAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
* * ** * *
96034 GGAAATGTTGGTTCACCTCCATCTGTGGTGAATTTGAAAG
66 GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
* *
96074 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC-
*
96139 TTGGAAATGTCGATCC
65 -TGGAAATGTTGATCC
96155 CTCAAGCGAG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
104 8 0.05
105 110 0.69
107 13 0.08
108 25 0.16
109 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
Found at i:96136 original size:16 final size:16
Alignment explanation
Indices: 96082--96137 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
96072 AGGAACAAGT
96082 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
96098 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
96117 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
96133 TCTTC
1 TCTTC
96138 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:96463 original size:225 final size:222
Alignment explanation
Indices: 96074--96510 Score: 637
Period size: 225 Copynumber: 2.0 Consensus size: 222
96064 AATTTGAAAG
*
96074 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
* * * * * * * *
96139 TTGGAAATGTCGATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCAAGTGATAGGT
66 CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
* * *
96204 CAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTTTCATTATGAAC
131 CAAAAAAGCTCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAAC
96269 TCTCCATTGAAAATGTTGATGCGAATTT
196 TCTCCATTG-AAATGTTGATGCGAATTT
96297 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACT
* * *
96361 C-TC-CTGAAAATATCAATCCCTCAAGCGTGGTGTCACTGATTCAAAATGTCATAAATCGAGTGA
61 CTTCACTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGA
* * *
96424 TAAGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCTCTGTCGAATGAGTTCTTCTCATTA
126 TAAGTCAAAAAAGCTCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTA
96489 TGAACTCTCCATTGAAATGTTG
191 TGAACTCTCCATTGAAATGTTG
96511 GTTCACCTCC
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
223 24 0.13
224 9 0.05
225 125 0.65
226 6 0.03
227 25 0.13
228 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (222 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
CAAAAAAGCTCTTCTCATTATGAACTTATTCTCCCTCTATCGAATGAGTTCTTCTCATTATGAAC
TCTCCATTGAAATGTTGATGCGAATTT
Found at i:97409 original size:21 final size:20
Alignment explanation
Indices: 97371--97429 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 20
97361 AACCCTCCTT
97371 TTTCTCTTTTTATTTTTTCA
1 TTTCTCTTTTTATTTTTTCA
97391 TTTCT-TTTTTCATTTTTTTCA
1 TTTCTCTTTTT-A-TTTTTTCA
97412 TTTTTCATCTTTTTATTT
1 --TTTC-TCTTTTTATTT
97430 GTTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 8 0.24
23 7 0.21
24 2 0.06
25 5 0.15
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTCTTTTTATTTTTTCA
Found at i:97415 original size:16 final size:16
Alignment explanation
Indices: 97391--97440 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
97381 TATTTTTTCA
*
97391 TTTCTTTTTTCATTTT
1 TTTCATTTTTCATTTT
*
97407 TTTCATTTTTCATCTT
1 TTTCATTTTTCATTTT
97423 TTT-ATTTGTTC-TTTT
1 TTTCATTT-TTCATTTT
97438 TTT
1 TTT
97441 TTTCTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.33
16 20 0.67
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTCATTTTTCATTTT
Done.