Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 24 of 100
Found at i:4481167 original size:21 final size:21
Alignment explanation
Indices: 4481099--4481167 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
4481089 ATTTTATTAA
* *
4481099 AAGTTATCAAAATCATATCAT
1 AAGTTACCAAAATTATATCAT
* *
4481120 AACTTACCAAAATTGTATCCA-
1 AAGTTACCAAAATTATAT-CAT
*
4481141 ATGTTACCAAAATTATATCAT
1 AAGTTACCAAAATTATATCAT
4481162 AAGTTA
1 AAGTTA
4481168 TCTCAATTGC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (21 bp):
AAGTTACCAAAATTATATCAT
Found at i:4481252 original size:21 final size:21
Alignment explanation
Indices: 4481106--4481271 Score: 70
Period size: 21 Copynumber: 8.0 Consensus size: 21
4481096 TAAAAGTTAT
* *
4481106 CAAAATCATATCATAACTTAC
1 CAAAATTATATCATAAATTAC
* **
4481127 CAAAATTGTATCCA-ATGTTAC
1 CAAAATTATAT-CATAAATTAC
* *
4481148 CAAAATTATATCATAAGTTAT
1 CAAAATTATATCATAAATTAC
** ** * *
4481169 CTCAATTGCATTAGAAATTAC
1 CAAAATTATATCATAAATTAC
** * * *
4481190 CCTAATGATATTAT-GATTAC
1 CAAAATTATATCATAAATTAC
* * *
4481210 AAAAAATTTTGTCA-AAACTTAC
1 -CAAAATTATATCATAAA-TTAC
4481232 CAAAATTATATCATAAATTAC
1 CAAAATTATATCATAAATTAC
* *
4481253 TAAAATAATATCA-AAATTA
1 CAAAATTATATCATAAATTA
4481272 TATAATAAGT
Statistics
Matches: 104, Mismatches: 35, Indels: 13
0.68 0.23 0.09
Matches are distributed among these distances:
20 13 0.12
21 82 0.79
22 9 0.09
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (21 bp):
CAAAATTATATCATAAATTAC
Found at i:4487181 original size:141 final size:140
Alignment explanation
Indices: 4486870--4487150 Score: 366
Period size: 141 Copynumber: 2.0 Consensus size: 140
4486860 GCCACCACCG
* * * * * *
4486870 AGGTGTCCAAAGCTCGCAACCTTATTGTTGTCCGATTGCCATATAACGAGCATTCCAGAATGTTT
1 AGGTGTCAAAAGCTCACAACC-TATTGTTGTCCAATTGCCAGATAAAGAGCATTCCAGAATGTTA
* ** *
4486935 CTTTGAGCAAATGCATGGACTCAAGATTCTTGATCTTTCTGGGAATTATTTTGAGAGTTTGCCAA
65 CTTTGAGCAAATGCATGGACTCAAGACTCTTGATCTTTCTGGGAATTAGATTGAGAGATTGCCAA
4487000 ATTCCATATCA
130 ATTCCATATCA
* * *
4487011 AGGTGTCAAAAGCTCACAACCTTATTGTTGTCCAATTGCGAGATAAAGAGTATTCCAGATTGTTA
1 AGGTGTCAAAAGCTCACAACC-TATTGTTGTCCAATTGCCAGATAAAGAGCATTCCAGAATGTTA
**
4487076 CTTTGAGCAAATGCATGGACTCAAGACTCTTGATCTTTCCT-TTAATTACGGGATTGAGAGATTG
65 CTTTGAGCAAATGCATGGACTCAAGACTCTTGATCTTT-CTGGGAATTA---GATTGAGAGATTG
4487140 CCAAATTCCAT
126 CCAAATTCCAT
4487151 CTCTAATTTG
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
141 98 0.81
142 2 0.02
144 21 0.17
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (140 bp):
AGGTGTCAAAAGCTCACAACCTATTGTTGTCCAATTGCCAGATAAAGAGCATTCCAGAATGTTAC
TTTGAGCAAATGCATGGACTCAAGACTCTTGATCTTTCTGGGAATTAGATTGAGAGATTGCCAAA
TTCCATATCA
Found at i:4489873 original size:22 final size:23
Alignment explanation
Indices: 4489845--4489888 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4489835 TTGTTGGCTC
4489845 TGTACTTT-TTGTC-TGTCTGTTT
1 TGTACTTTGTT-TCTTGTCTGTTT
4489867 TGTACTTTGTTTCTTGTCTGTT
1 TGTACTTTGTTTCTTGTCTGTT
4489889 AATAGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.05, C:0.14, G:0.18, T:0.64
Consensus pattern (23 bp):
TGTACTTTGTTTCTTGTCTGTTT
Found at i:4494033 original size:17 final size:17
Alignment explanation
Indices: 4494005--4494050 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
4493995 ATTTATTTTT
*
4494005 TTATTTAAAAATTTTCA
1 TTATATAAAAATTTTCA
* *
4494022 TTATATATAAATTTTTA
1 TTATATAAAAATTTTCA
4494039 TTATATAAAAAT
1 TTATATAAAAAT
4494051 ATTAAAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATATAAAAATTTTCA
Found at i:4495250 original size:18 final size:18
Alignment explanation
Indices: 4495227--4495261 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4495217 CTTTTAGCAC
*
4495227 AATCTAATTATAAAAAAA
1 AATCTAATAATAAAAAAA
4495245 AATCTAATAATAAAAAA
1 AATCTAATAATAAAAAA
4495262 TTCATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AATCTAATAATAAAAAAA
Found at i:4498957 original size:22 final size:22
Alignment explanation
Indices: 4498909--4498959 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4498899 AAAAATAAGG
*
4498909 TCTAAATCAATTCTTATAATCA
1 TCTAAATCAATTCTAATAATCA
* *
4498931 ACTAAATCAATATCTAATATTC-
1 TCTAAATCAAT-TCTAATAATCA
4498953 TCTAAAT
1 TCTAAAT
4498960 TAGTATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (22 bp):
TCTAAATCAATTCTAATAATCA
Found at i:4498966 original size:22 final size:23
Alignment explanation
Indices: 4498932--4498976 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
4498922 TTATAATCAA
*
4498932 CTAAATCAATATCTAA-TATTCT
1 CTAAATCAATATCAAATTATTCT
* *
4498954 CTAAATTAGTATCAAATTATTCT
1 CTAAATCAATATCAAATTATTCT
4498977 ATAATGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (23 bp):
CTAAATCAATATCAAATTATTCT
Found at i:4499034 original size:11 final size:11
Alignment explanation
Indices: 4499018--4499048 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4499008 TCATCAATCT
4499018 AGAATATTACC
1 AGAATATTACC
*
4499029 AGAATATTACT
1 AGAATATTACC
4499040 AGAATATTA
1 AGAATATTA
4499049 TTGACACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (11 bp):
AGAATATTACC
Found at i:4499791 original size:153 final size:154
Alignment explanation
Indices: 4499587--4499895 Score: 453
Period size: 153 Copynumber: 2.0 Consensus size: 154
4499577 AAGTGTGAAC
* * * * *
4499587 TCTAAAAGTATTAAAAGTGAACGATATAAATATCCTTATAAATTTTCAAAAATAACAAATTTACC
1 TCTAAAAGTATTAAAAATGAACAATATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACA
* *
4499652 TTTAAATTTCTAGCATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAAC-TTTT
66 TTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTATCATTAAATATATAACTTTTT
4499716 ATT-AGTTAGTTATTTAAA-TTTAAA
131 ATTCA-TTAGTTA-TTAAATTTTAAA
* * * *
4499740 TCTAAAAGTGTTAAAAATGAATAATATAATTACCCTTATAAATTTTAAAAAATAACAAATTTATA
1 TCTAAAAGTATTAAAAATGAACAATATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACA
* * *
4499805 TTTCAATTTCTAGCATTATTTATTTATTTAATAATGATTATTTATCATTAAATATATATCTTTTT
66 TTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTATCATTAAATATATAACTTTTT
4499870 ATTCATTAGTTATTAAATTTTAAA
131 ATTCATTAGTTATTAAATTTTAAA
4499894 TC
1 TC
4499896 AATTAAAAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
153 116 0.83
154 22 0.16
155 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (154 bp):
TCTAAAAGTATTAAAAATGAACAATATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACA
TTTAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTATCATTAAATATATAACTTTTT
ATTCATTAGTTATTAAATTTTAAA
Found at i:4502840 original size:22 final size:22
Alignment explanation
Indices: 4502815--4502882 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
4502805 AACCAGCAAT
4502815 AACTTTATATTAAATTAATGAC
1 AACTTTATATTAAATTAATGAC
* *
4502837 AACTATATATTAAATT-ATGGAT
1 AACTTTATATTAAATTAAT-GAC
* * *
4502859 AACTTAATAGTAAATTAATAAC
1 AACTTTATATTAAATTAATGAC
4502881 AA
1 AA
4502883 TATAATAGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (22 bp):
AACTTTATATTAAATTAATGAC
Found at i:4502878 original size:11 final size:11
Alignment explanation
Indices: 4502862--4502917 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
4502852 TATGGATAAC
4502862 TTAATAGTAAA
1 TTAATAGTAAA
4502873 TTAATA--ACAA
1 TTAATAGTA-AA
4502883 TATAATAGTAAA
1 T-TAATAGTAAA
* *
4502895 TAAATAATAAA
1 TTAATAGTAAA
*
4502906 TTAGTAGTAAA
1 TTAATAGTAAA
4502917 T
1 T
4502918 AATTGATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 3 0.08
11 28 0.78
12 3 0.08
13 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:4502913 original size:22 final size:22
Alignment explanation
Indices: 4502857--4502919 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
4502847 TAAATTATGG
* *
4502857 ATAACTTAATAGTAAATTAATA
1 ATAAATTAATAGTAAATAAATA
*
4502879 A-CAATATAATAGTAAATAAATA
1 ATAAAT-TAATAGTAAATAAATA
*
4502901 ATAAATTAGTAGTAAATAA
1 ATAAATTAATAGTAAATAA
4502920 TTGATAAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (22 bp):
ATAAATTAATAGTAAATAAATA
Found at i:4502982 original size:22 final size:22
Alignment explanation
Indices: 4502945--4503048 Score: 63
Period size: 22 Copynumber: 4.8 Consensus size: 22
4502935 TATGCAATTG
* *
4502945 ATAACATAATAATAAATACATA
1 ATAATATAATAGTAAATACATA
* *
4502967 ATAATATAATGGTAAACAACA-A
1 ATAATATAATAGTAAA-TACATA
*
4502989 ATAACT-TAATATTAAAT-CAT-
1 ATAA-TATAATAGTAAATACATA
* *
4503009 TTATATATAATTGTAAATACATA
1 ATA-ATATAATAGTAAATACATA
* * *
4503032 AAAATATAGTAATAAAT
1 ATAATATAATAGTAAAT
4503049 TAAGGATAAT
Statistics
Matches: 60, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
20 5 0.08
21 10 0.17
22 40 0.67
23 5 0.08
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAATATAATAGTAAATACATA
Found at i:4503100 original size:22 final size:22
Alignment explanation
Indices: 4503075--4503135 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
4503065 AAAATAAGTG
**
4503075 ATAACTTAATAGTAAATCAATT
1 ATAACTTAATAGTAAATCAACA
* * *
4503097 ATAACTTAGTAATAAATTAACA
1 ATAACTTAATAGTAAATCAACA
*
4503119 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
4503136 AAAATTCAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAACA
Found at i:4503574 original size:21 final size:21
Alignment explanation
Indices: 4503531--4503611 Score: 56
Period size: 22 Copynumber: 3.6 Consensus size: 21
4503521 GCAATATCAC
*
4503531 TTAATAGTAATCATTGATAAA
1 TTAATAGTAATCAGTGATAAA
*
4503552 TTAATAGTTAATCAGT-ATTAAT
1 TTAATAG-TAATCAGTGA-TAAA
* * *
4503574 TTGGTATAGTAAATTAGTGATAAC
1 TT--AATAGT-AATCAGTGATAAA
4503598 TTAATAGTATATCA
1 TTAATAGTA-ATCA
4503612 ATAATAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
21 9 0.20
22 20 0.43
23 1 0.02
24 15 0.33
25 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (21 bp):
TTAATAGTAATCAGTGATAAA
Found at i:4503696 original size:22 final size:23
Alignment explanation
Indices: 4503671--4503733 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
4503661 TAATACAATG
*
4503671 GTAAATGCATAATAACTTAA-TA
1 GTAAATGCATAATAACATAATTA
* *
4503693 GTAAAT-TAGTTATAACATAATTA
1 GTAAATGCA-TAATAACATAATTA
*
4503716 -TAAATGCATAATAGCATA
1 GTAAATGCATAATAACATA
4503734 GTAATAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.03
22 28 0.88
23 3 0.09
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
GTAAATGCATAATAACATAATTA
Found at i:4503742 original size:44 final size:44
Alignment explanation
Indices: 4503672--4503757 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
4503662 AATACAATGG
* * * *
4503672 TAAATGCATAATAACTTAATAGTAAATTAGTTATAACATAATTA
1 TAAATGCATAATAACATAATAATAAATCAATTATAACATAATTA
* * *
4503716 TAAATGCATAATAGCATAGTAATAAATCAATTATAACTTAAT
1 TAAATGCATAATAACATAATAATAAATCAATTATAACATAAT
4503758 AAAAAAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (44 bp):
TAAATGCATAATAACATAATAATAAATCAATTATAACATAATTA
Found at i:4503801 original size:22 final size:22
Alignment explanation
Indices: 4503770--4503848 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
4503760 AAAAATAAAA
4503770 GATAACTTAATAGTTAATTATT
1 GATAACTTAATAGTTAATTATT
* * * *
4503792 GATAATTTAATAGTAAATCAAT
1 GATAACTTAATAGTTAATTATT
* *
4503814 GAAAACTTAGTAG-TAAGTTATT
1 GATAACTTAATAGTTAA-TTATT
*
4503836 GATAATTTAATAG
1 GATAACTTAATAG
4503849 CAAATCTGTT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
21 2 0.05
22 41 0.95
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (22 bp):
GATAACTTAATAGTTAATTATT
Found at i:4503919 original size:22 final size:22
Alignment explanation
Indices: 4503894--4503936 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4503884 AACTTAGGAG
4503894 TAAATC-ATAAATAATTTAGTAA
1 TAAATCAAT-AATAATTTAGTAA
*
4503916 TAAATCAATGATAATTTAGTA
1 TAAATCAATAATAATTTAGTA
4503937 GTTAATCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATCAATAATAATTTAGTAA
Found at i:4504926 original size:3 final size:3
Alignment explanation
Indices: 4504920--4504964 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
4504910 AATAATAATA
* *
4504920 ATT ATT ATT ATT ATT -TT AAT ATGT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
4504965 TAATATCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4504988 original size:3 final size:3
Alignment explanation
Indices: 4504980--4505005 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4504970 TCTTGAATGG
4504980 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4505006 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4510409 original size:3 final size:3
Alignment explanation
Indices: 4510403--4510429 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4510393 GAAATTTTTT
4510403 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4510430 AATTTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4510567 original size:13 final size:13
Alignment explanation
Indices: 4510549--4510574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4510539 TCATGTTTTT
4510549 TTAAACCCTAAAA
1 TTAAACCCTAAAA
4510562 TTAAACCCTAAAA
1 TTAAACCCTAAAA
4510575 CCGAAAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
TTAAACCCTAAAA
Found at i:4510833 original size:28 final size:26
Alignment explanation
Indices: 4510763--4510833 Score: 61
Period size: 28 Copynumber: 2.6 Consensus size: 26
4510753 TAAACACTCC
* * * *
4510763 AACCTTAAAGTTAAACTTCAAACCTT
1 AACCTTAAAATAAAACTCCAAACCTA
*
4510789 AACCCTAAAATCAAAAACTCCAAACCTAAA
1 AACCTTAAAAT--AAAACTCCAAACCT--A
4510819 AACCTTAAAATAAAA
1 AACCTTAAAATAAAA
4510834 AACCTAAGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 9 0.26
28 16 0.46
30 10 0.29
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.21
Consensus pattern (26 bp):
AACCTTAAAATAAAACTCCAAACCTA
Found at i:4527610 original size:150 final size:149
Alignment explanation
Indices: 4527449--4527751 Score: 579
Period size: 150 Copynumber: 2.0 Consensus size: 149
4527439 TTTTTTTTTT
4527449 TTCCAAAAAAAATCAGTATTTAAAAAAATTACTGACAACATAAAATTGAAGATACGTTACCATGA
1 TTCCAAAAAAAATCAGTATTTAAAAAAATTACTGACAACATAAAATTGAAGATACGTTACCATGA
*
4527514 AACCCATTTGATCATAAACGAAGAGCAATCAAACTCTCAAGCCTTTCCCCCAATCGTGGTGGAAT
66 AACCCATTTGATCATAAACGAAGAGAAATCAAACTCTCAAGCCTTTCCCCCAATCGTGGTGGAAT
4527579 GATTCCAGATAATTTATTC
131 GATTCCAGATAATTTATTC
4527598 TTCCAAAAAAAAATCAGTATTTAAAAAAATTACTGACAACATAAAATTGAAGATACGTTACCATG
1 TTCC-AAAAAAAATCAGTATTTAAAAAAATTACTGACAACATAAAATTGAAGATACGTTACCATG
4527663 AAACCCATTTGATCATAAACGAAGAGAAATCAAACTCTCAAGCCTTTCCCCCAATCGTGGTGGAA
65 AAACCCATTTGATCATAAACGAAGAGAAATCAAACTCTCAAGCCTTTCCCCCAATCGTGGTGGAA
*
4527728 TGATTCCAGGTAATTTATTC
130 TGATTCCAGATAATTTATTC
4527748 TTCC
1 TTCC
4527752 TCATATCCAA
Statistics
Matches: 151, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 4 0.03
150 147 0.97
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (149 bp):
TTCCAAAAAAAATCAGTATTTAAAAAAATTACTGACAACATAAAATTGAAGATACGTTACCATGA
AACCCATTTGATCATAAACGAAGAGAAATCAAACTCTCAAGCCTTTCCCCCAATCGTGGTGGAAT
GATTCCAGATAATTTATTC
Found at i:4528030 original size:24 final size:24
Alignment explanation
Indices: 4528003--4528071 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
4527993 GGTGGTTGTG
*
4528003 GTTTGATAAAA-TTGAGTTTTCATA
1 GTTTGATAAAACTAG-GTTTTCATA
* *
4528027 GTTTAATAAAAACTAGGTTTTCATG
1 GTTTGAT-AAAACTAGGTTTTCATA
4528052 GTTTGATAAAACTAAGGTTT
1 GTTTGATAAAACT-AGGTTT
4528072 CATTTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 12 0.32
25 24 0.63
26 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (24 bp):
GTTTGATAAAACTAGGTTTTCATA
Found at i:4528072 original size:24 final size:23
Alignment explanation
Indices: 4528001--4528074 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 23
4527991 GGGGTGGTTG
* *
4528001 TGGTTTGATAAAATTGAGTTTTCA
1 TGGTTTGATAAAACT-AGGTTTCA
* *
4528025 TAGTTTAATAAAAACTAGGTTTTCA
1 TGGTTTGAT-AAAACTAGG-TTTCA
4528050 TGGTTTGATAAAACTAAGGTTTCA
1 TGGTTTGATAAAACT-AGGTTTCA
4528074 T
1 T
4528075 TTTAAGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.42
Consensus pattern (23 bp):
TGGTTTGATAAAACTAGGTTTCA
Found at i:4529709 original size:11 final size:11
Alignment explanation
Indices: 4529693--4529743 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
4529683 TATAAATTTT
4529693 AAAATTTAATA
1 AAAATTTAATA
4529704 AAAA-TTATATA
1 AAAATTTA-ATA
*
4529715 TAAATTTAATA
1 AAAATTTAATA
**
4529726 AAAATAAAAT-
1 AAAATTTAATA
4529736 AAAATTTA
1 AAAATTTA
4529744 TATTTAATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 9 0.28
11 20 0.62
12 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTTAATA
Found at i:4529719 original size:22 final size:21
Alignment explanation
Indices: 4529692--4529743 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
4529682 TTATAAATTT
* *
4529692 TAAAATTTAATAAAAATTATA
1 TAAAATTTAATAAAAATAAAA
4529713 TATAAATTTAATAAAAATAAAA
1 TA-AAATTTAATAAAAATAAAA
4529735 TAAAATTTA
1 TAAAATTTA
4529744 TATTTAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATTTAATAAAAATAAAA
Found at i:4530904 original size:11 final size:10
Alignment explanation
Indices: 4530863--4530921 Score: 61
Period size: 11 Copynumber: 5.9 Consensus size: 10
4530853 TTTTTATAAA
4530863 ATTAAAATA-
1 ATTAAAATAT
*
4530872 ATTAATATAT
1 ATTAAAATAT
4530882 A-T-AAATAT
1 ATTAAAATAT
4530890 ATTAAAATCAT
1 ATTAAAAT-AT
4530901 ATTAAAAATAT
1 ATT-AAAATAT
4530912 ATATAAAATA
1 AT-TAAAATA
4530922 AAAAAGTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 6 0.14
9 10 0.24
10 5 0.12
11 15 0.36
12 6 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:4531149 original size:17 final size:17
Alignment explanation
Indices: 4531127--4531159 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4531117 AATTTTTAGG
4531127 TTATTGATTTTCAGATA
1 TTATTGATTTTCAGATA
4531144 TTATTGATTTTCAGAT
1 TTATTGATTTTCAGAT
4531160 CTTCATTCAC
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:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (17 bp):
TTATTGATTTTCAGATA
Found at i:4532751 original size:26 final size:27
Alignment explanation
Indices: 4532729--4532781 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
4532719 TAAAAAATAT
* *
4532729 AAATTA-ATCAAAAGTTATCAAAATCA
1 AAATTATATAAAAACTTATCAAAATCA
4532755 AAATTATATAAAAACTTATCAAAATCA
1 AAATTATATAAAAACTTATCAAAATCA
4532782 TATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.28
Consensus pattern (27 bp):
AAATTATATAAAAACTTATCAAAATCA
Found at i:4532751 original size:27 final size:28
Alignment explanation
Indices: 4532721--4532787 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
4532711 AAAAAATATA
* *
4532721 AAAAATATAAATTA-ATCAAAAGTTATC
1 AAAAATATAAATTATATAAAAACTTATC
4532748 -AAAATCA-AAATTATATAAAAACTTATC
1 AAAAAT-ATAAATTATATAAAAACTTATC
4532775 AAAATCATATAAA
1 AAAA--ATATAAA
4532788 AATTTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
26 11 0.34
27 12 0.38
28 3 0.09
29 1 0.03
30 5 0.16
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAAATATAAATTATATAAAAACTTATC
Found at i:4532777 original size:21 final size:21
Alignment explanation
Indices: 4532751--4532801 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
4532741 AGTTATCAAA
4532751 ATCAAAATTATATAAAAACTT
1 ATCAAAATTATATAAAAACTT
* *
4532772 ATCAAAATCATATAAAAATTT
1 ATCAAAATTATATAAAAACTT
*
4532793 ATTAAAATT
1 ATCAAAATT
4532802 GTAGCCAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCAAAATTATATAAAAACTT
Found at i:4532886 original size:21 final size:21
Alignment explanation
Indices: 4532857--4532921 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
4532847 TCATTGATCA
*
4532857 CAAACATTATATCATAAGTTAT
1 CAAA-ATTATATAATAAGTTAT
4532879 CAAAATTATATTAA-AAGTTA-
1 CAAAATTATA-TAATAAGTTAT
4532899 CTAAAATTATATTAATAAGTTAT
1 C-AAAATTATA-TAATAAGTTAT
4532922 TATCACAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 25 0.66
22 12 0.32
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATTATATAATAAGTTAT
Found at i:4533103 original size:47 final size:47
Alignment explanation
Indices: 4533035--4533158 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
4533025 TTATCAAACT
* *
4533035 TATAACAATGGTTATCAAATTATGTCAAAGG-TATTTAAAATAAAAATTA
1 TATAA-AA-GGTTATCAAATTATATCAAAGGTTA-TCAAAATAAAAATTA
* * *
4533084 TATAAAAGGTTATCAAATTATATTAAAGGTTATCAAAATTAAAATTT
1 TATAAAAGGTTATCAAATTATATCAAAGGTTATCAAAATAAAAATTA
4533131 TATTAAAA-GTTATCAAAATTATATCAAA
1 TA-TAAAAGGTTATC-AAATTATATCAAA
4533159 ACTTACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
47 40 0.61
48 21 0.32
49 5 0.08
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (47 bp):
TATAAAAGGTTATCAAATTATATCAAAGGTTATCAAAATAAAAATTA
Found at i:4533122 original size:21 final size:21
Alignment explanation
Indices: 4533077--4533124 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
4533067 ATTTAAAATA
4533077 AAAATTATATAAAAGGTTATC
1 AAAATTATATAAAAGGTTATC
*
4533098 -AAATTATATTAAAGGTTATC
1 AAAATTATATAAAAGGTTATC
4533118 AAAATTA
1 AAAATTA
4533125 AAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (21 bp):
AAAATTATATAAAAGGTTATC
Found at i:4533128 original size:27 final size:27
Alignment explanation
Indices: 4533098--4533151 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4533088 AAAGGTTATC
*
4533098 AAATTATATTAAAGGTTATCAAAATTA
1 AAATTATATTAAAAGTTATCAAAATTA
*
4533125 AAATTTTATTAAAAGTTATCAAAATTA
1 AAATTATATTAAAAGTTATCAAAATTA
4533152 TATCAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (27 bp):
AAATTATATTAAAAGTTATCAAAATTA
Found at i:4533150 original size:21 final size:21
Alignment explanation
Indices: 4533124--4533198 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
4533114 TATCAAAATT
* * * *
4533124 AAAATTTTATTAAAAGTTATC
1 AAAATTATATCAAAACTTACC
4533145 AAAATTATATCAAAACTTACC
1 AAAATTATATCAAAACTTACC
* * ** *
4533166 AAAATTGTATCCAATGTCACC
1 AAAATTATATCAAAACTTACC
4533187 AAAATTATATCA
1 AAAATTATATCA
4533199 TAAGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATTATATCAAAACTTACC
Found at i:4533169 original size:48 final size:47
Alignment explanation
Indices: 4533071--4533171 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 47
4533061 AAAGGTATTT
* * ** *
4533071 AAAATAAAAATTATATAAAAGGTTATCAAATTATATTAAAGGTTATC
1 AAAATTAAAATTATATAAAAGGTTATCAAATTATATCAAAACTTACC
*
4533118 AAAATTAAAATTTTATTAAAA-GTTATCAAAATTATATCAAAACTTACC
1 AAAATTAAAATTATA-TAAAAGGTTATC-AAATTATATCAAAACTTACC
4533166 AAAATT
1 AAAATT
4533172 GTATCCAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 19 0.41
48 27 0.59
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (47 bp):
AAAATTAAAATTATATAAAAGGTTATCAAATTATATCAAAACTTACC
Found at i:4533315 original size:21 final size:21
Alignment explanation
Indices: 4533291--4533353 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
4533281 CAATGGTTAT
4533291 TAAAATTATATCATAAATTAC
1 TAAAATTATATCATAAATTAC
*
4533312 TAAAATAATATCA-AAATTTA-
1 TAAAATTATATCATAAA-TTAC
* *
4533332 TCGAAATTATATAATAAATTAC
1 T-AAAATTATATCATAAATTAC
4533354 CAAACTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 4 0.12
21 27 0.79
22 3 0.09
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATTATATCATAAATTAC
Found at i:4533325 original size:42 final size:42
Alignment explanation
Indices: 4533266--4533353 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
4533256 TTGTCAAAAC
* ** * *
4533266 TTACTAAAATAGTATCAATGGTTATTAAAATTATATCATAAA
1 TTACTAAAATAATATCAAAAGTTATCAAAATTATATAATAAA
* *
4533308 TTACTAAAATAATATCAAAATTTATCGAAATTATATAATAAA
1 TTACTAAAATAATATCAAAAGTTATCAAAATTATATAATAAA
4533350 TTAC
1 TTAC
4533354 CAAACTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (42 bp):
TTACTAAAATAATATCAAAAGTTATCAAAATTATATAATAAA
Found at i:4534826 original size:14 final size:14
Alignment explanation
Indices: 4534807--4534836 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4534797 TGCCAGCCAT
4534807 TTTTTTCTTCACTG
1 TTTTTTCTTCACTG
*
4534821 TTTTTTCTTCCCTG
1 TTTTTTCTTCACTG
4534835 TT
1 TT
4534837 GGAGGTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.23, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTCTTCACTG
Found at i:4536636 original size:19 final size:21
Alignment explanation
Indices: 4536612--4536656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4536602 AAATATTCTT
4536612 AAATATATT-TTTA-AAATAA
1 AAATATATTATTTATAAATAA
* *
4536631 AAATATGTTATTTATTAATAA
1 AAATATATTATTTATAAATAA
4536652 AAATA
1 AAATA
4536657 ATATAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATATTATTTATAAATAA
Found at i:4537398 original size:24 final size:24
Alignment explanation
Indices: 4537366--4537413 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4537356 TTTAGAACTC
*
4537366 CTTACCCTGAATTACGTTTCCAGA
1 CTTACCCTGAATTACATTTCCAGA
* *
4537390 CTTATCCTGAATTATATTTCCAGA
1 CTTACCCTGAATTACATTTCCAGA
4537414 AGCCTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (24 bp):
CTTACCCTGAATTACATTTCCAGA
Found at i:4539170 original size:22 final size:22
Alignment explanation
Indices: 4539145--4539198 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
4539135 TAGAAAATTA
*
4539145 AGTAATAAATAAAAAATAATAT
1 AGTAATAAATAAAAAATAACAT
* * **
4539167 AGTAGTAATTGTAAAATAACAT
1 AGTAATAAATAAAAAATAACAT
*
4539189 ATTAATAAAT
1 AGTAATAAAT
4539199 TATTGAAACT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (22 bp):
AGTAATAAATAAAAAATAACAT
Found at i:4539202 original size:11 final size:11
Alignment explanation
Indices: 4539188--4539294 Score: 51
Period size: 11 Copynumber: 9.3 Consensus size: 11
4539178 TAAAATAACA
4539188 TATTAATAAAT
1 TATTAATAAAT
*
4539199 TATTGAAACTTAA-
1 TATT--AA-TAAAT
*
4539212 TAGTAATAAAT
1 TATTAATAAAT
* *
4539223 TACTAATAATT
1 TATTAATAAAT
4539234 TAATT-ATAAAT
1 T-ATTAATAAAT
*
4539245 CATTAAT-AAT
1 TATTAATAAAT
4539255 T-TTAAAGTAAAT
1 TATT-AA-TAAAT
*
4539267 TATCAATAAAT
1 TATTAATAAAT
4539278 TATAGTAAATAAAT
1 TAT--T-AATAAAT
4539292 TAT
1 TAT
4539295 AATTTTATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 23
0.68 0.10 0.22
Matches are distributed among these distances:
9 2 0.03
10 11 0.15
11 32 0.44
12 8 0.11
13 6 0.08
14 13 0.18
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (11 bp):
TATTAATAAAT
Found at i:4539319 original size:22 final size:22
Alignment explanation
Indices: 4539215--4539352 Score: 63
Period size: 22 Copynumber: 6.3 Consensus size: 22
4539205 AACTTAATAG
* *
4539215 TAATAAATTA-CTAATAATTTAA
1 TAATAAATTATC-ATTAATTTTA
* * * *
4539237 TTATAAATCATTAATAATTTTA
1 TAATAAATTATCATTAATTTTA
* *
4539259 -AAGTAAATTATCAATAA-ATTA
1 TAA-TAAATTATCATTAATTTTA
* * *
4539280 TAGTAAATAAATTA-TAATTTTA
1 TAATAAAT-TATCATTAATTTTA
4539302 TAATAAATTATC-TGTAA-TTTA
1 TAATAAATTATCAT-TAATTTTA
* *
4539323 GTACTAAATTATCATTAATTTAA
1 -TAATAAATTATCATTAATTTTA
4539346 TAGATAA
1 TA-ATAA
4539353 TTTAGTAGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
21 18 0.21
22 62 0.71
23 7 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TAATAAATTATCATTAATTTTA
Found at i:4539724 original size:21 final size:21
Alignment explanation
Indices: 4539700--4539771 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
4539690 ATATTACTAG
*
4539700 AATTATATAAAATGTTACCAA
1 AATTATATAAAAAGTTACCAA
* * * *
4539721 AATTACATCAAGAGGTTACAAA
1 AATTATAT-AAAAAGTTACCAA
* * *
4539743 AATTTTATAAAAAATTATCAA
1 AATTATATAAAAAGTTACCAA
4539764 AATTATAT
1 AATTATAT
4539772 CAATGTTTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 22 0.58
22 16 0.42
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTATATAAAAAGTTACCAA
Found at i:4539834 original size:21 final size:21
Alignment explanation
Indices: 4539819--4539860 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4539809 AATATTGAAT
4539819 GTTATCAAAATTATATCCAAA
1 GTTATCAAAATTATATCCAAA
*
4539840 GTTATCAAAATTTTAT-CAAA
1 GTTATCAAAATTATATCCAAA
4539860 G
1 G
4539861 GATATAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (21 bp):
GTTATCAAAATTATATCCAAA
Found at i:4541439 original size:14 final size:14
Alignment explanation
Indices: 4541420--4541446 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4541410 GAACTTCACA
4541420 AACTTCATTTAAGG
1 AACTTCATTTAAGG
4541434 AACTTCATTTAAG
1 AACTTCATTTAAG
4541447 TCTTTCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAAGG
Found at i:4546912 original size:34 final size:34
Alignment explanation
Indices: 4546859--4546991 Score: 160
Period size: 34 Copynumber: 3.9 Consensus size: 34
4546849 TGCTATTAAA
*
4546859 TGTTGAATTTAGTGACGTTTGTATTAAAAAACAG
1 TGTTAAATTTAGTGACGTTTGTATTAAAAAACAG
* *
4546893 TGTTAAATTTAGTGGCGTTTGTATCAAAAAAC-G
1 TGTTAAATTTAGTGACGTTTGTATTAAAAAACAG
* * * * *
4546926 TCGCTAAATTTAGTGGCATTTATATTAAAAAACAC
1 T-GTTAAATTTAGTGACGTTTGTATTAAAAAACAG
*
4546961 TGTTAAATTTAGTGACGTTTGTGCTTAAAAA
1 TGTTAAATTTAGTGACGTTTGT-ATTAAAAA
4546992 CATCGTTAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.02
34 73 0.88
35 8 0.10
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (34 bp):
TGTTAAATTTAGTGACGTTTGTATTAAAAAACAG
Found at i:4571515 original size:15 final size:14
Alignment explanation
Indices: 4571485--4571555 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
4571475 AAGGTTTAGA
4571485 GTTTTGATTTAAGG
1 GTTTTGATTTAAGG
*
4571499 GTTTTGATTTTAGGG
1 GTTTTGA-TTTAAGG
* * *
4571514 GTTTCGAATTTTATG
1 GTTTTG-ATTTAAGG
*
4571529 GTTTTGGATTAAAGG
1 GTTTT-GATTTAAGG
4571544 GATTTTGGATTT
1 G-TTTT-GATTT
4571556 TTAGGGTTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
14 7 0.16
15 25 0.58
16 11 0.26
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (14 bp):
GTTTTGATTTAAGG
Found at i:4573245 original size:26 final size:26
Alignment explanation
Indices: 4573190--4573248 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
4573180 GTTTGAGCTT
* * *
4573190 AATTAGGTCCGTTTGTGTCTAGGCCC
1 AATTAGGGCCATTTGTGTCTAGGCCA
* *
4573216 AATTAGGGCCATTTGTGTCTGGGTCA
1 AATTAGGGCCATTTGTGTCTAGGCCA
4573242 AATTAGG
1 AATTAGG
4573249 CACTTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (26 bp):
AATTAGGGCCATTTGTGTCTAGGCCA
Found at i:4573297 original size:3 final size:3
Alignment explanation
Indices: 4573291--4573333 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4573281 ATTATAAAGA
4573291 ATT 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 ATT A
4573334 CTACTACTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4574334 original size:5 final size:5
Alignment explanation
Indices: 4574315--4574348 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
4574305 CAATCGTAGG
4574315 TTTT- TTTTCA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
4574349 TAACCTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 20 0.71
6 4 0.14
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:4574384 original size:16 final size:15
Alignment explanation
Indices: 4574316--4574384 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
4574306 AATCGTAGGT
4574316 TTTTTTTC-ATTTTA
1 TTTTTTTCTATTTTA
4574330 TTTTATTT-TATTTTA
1 TTTT-TTTCTATTTTA
**
4574345 TTTTTAACCTATTTTTA
1 TTTTT-TTCTA-TTTTA
*
4574362 TTATTTTCTAGTTTTA
1 TTTTTTTCTA-TTTTA
4574378 TTTTTTT
1 TTTTTTT
4574385 AAAAAAAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.12
15 13 0.30
16 16 0.37
17 9 0.21
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTTTCTATTTTA
Found at i:4574532 original size:16 final size:17
Alignment explanation
Indices: 4574511--4574543 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4574501 AAATAATAAT
4574511 AAAAAAT-CTTTTCAAA
1 AAAAAATACTTTTCAAA
*
4574527 AAAAAATATTTTTCAAA
1 AAAAAATACTTTTCAAA
4574544 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATACTTTTCAAA
Found at i:4576791 original size:23 final size:23
Alignment explanation
Indices: 4576764--4576811 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4576754 TCTTGATTAA
4576764 ATTAAA-CAAAATCATTCATAAAT
1 ATTAAATCAAAAT-ATTCATAAAT
* *
4576787 ATTAAATTAATATATTCATAAAT
1 ATTAAATCAAAATATTCATAAAT
4576810 AT
1 AT
4576812 ATATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAAATCAAAATATTCATAAAT
Found at i:4576820 original size:23 final size:23
Alignment explanation
Indices: 4576777--4576829 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
4576767 AAACAAAATC
*
4576777 ATTCATAAATATTAAATTAATAT
1 ATTCATAAATATTAAATTAATAA
*
4576800 ATTCATAAATA-TATATATAATAA
1 ATTCATAAATATTAAAT-TAATAA
4576823 ATT-ATAA
1 ATTCATAA
4576830 TAAATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTCATAAATATTAAATTAATAA
Found at i:4576828 original size:10 final size:10
Alignment explanation
Indices: 4576815--4576849 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
4576805 TAAATATATA
4576815 TATAATAAAT
1 TATAATAAAT
4576825 TATAATAAAT
1 TATAATAAAT
4576835 TATAAATAAA-
1 TAT-AATAAAT
4576845 TATAA
1 TATAA
4576850 ACGAATTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.08
10 16 0.67
11 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TATAATAAAT
Found at i:4576850 original size:10 final size:10
Alignment explanation
Indices: 4576804--4576850 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
4576794 TAATATATTC
*
4576804 ATAAATATAT
1 ATAAATAAAT
4576814 ATATAATAAAT
1 ATA-AATAAAT
4576825 -TATAATAAATT
1 ATA-AATAAA-T
4576836 ATAAATAAAT
1 ATAAATAAAT
4576846 ATAAA
1 ATAAA
4576851 CGAATTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.55
11 13 0.39
12 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:4576891 original size:3 final size:3
Alignment explanation
Indices: 4576883--4576915 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4576873 GAATTAAGAT
4576883 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4576916 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4576924 original size:8 final size:7
Alignment explanation
Indices: 4576884--4576940 Score: 59
Period size: 6 Copynumber: 8.4 Consensus size: 7
4576874 AATTAAGATT
4576884 AATAAT-
1 AATAATA
4576890 AATAAT-
1 AATAATA
4576896 AATAAT-
1 AATAATA
4576902 AATAAT-
1 AATAATA
4576908 AATAATA
1 AATAATA
4576915 AATAAATA
1 AAT-AATA
*
4576923 AATACTA
1 AATAATA
4576930 AATGAATA
1 AAT-AATA
4576938 AAT
1 AAT
4576941 TTTAAATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 24 0.52
7 9 0.20
8 13 0.28
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:4578389 original size:58 final size:59
Alignment explanation
Indices: 4578327--4578448 Score: 208
Period size: 60 Copynumber: 2.1 Consensus size: 59
4578317 GGAAAATCCA
* *
4578327 TTTTTGAAAACTTATTTTTAAGGAAAATTGATACTTTCAATTTTTCCCCAAAAATATTT
1 TTTTTGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT
*
4578386 TTTTTAGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
1 TTTTT-GAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT
4578446 TTT
1 TTT
4578449 AGAAAGCTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 5 0.08
60 54 0.92
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTTTGAAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT
Found at i:4582757 original size:4 final size:5
Alignment explanation
Indices: 4582731--4582759 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4582721 AAATTATGTC
4582731 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
4582760 CGTATGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:4586492 original size:24 final size:24
Alignment explanation
Indices: 4586448--4586497 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
4586438 AGTTTGACGA
* *
4586448 AGAAGTTGACAGATACCTGAGTGG
1 AGAAGCTGACAGATACCTGAGAGG
* *
4586472 AGAAGCTGACAGATTCGTGAGAGG
1 AGAAGCTGACAGATACCTGAGAGG
4586496 AG
1 AG
4586498 GGGAAATAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.36, T:0.18
Consensus pattern (24 bp):
AGAAGCTGACAGATACCTGAGAGG
Found at i:4600235 original size:22 final size:21
Alignment explanation
Indices: 4600194--4600235 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4600184 TGGAATCTAA
*
4600194 ATCGATGATTATCATCTAACC
1 ATCGATGATTATCATATAACC
*
4600215 ATCGATGATGTCTCATATAAC
1 ATCGATGAT-TATCATATAAC
4600236 AGAACTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCGATGATTATCATATAACC
Found at i:4603253 original size:334 final size:331
Alignment explanation
Indices: 4602546--4603476 Score: 1230
Period size: 330 Copynumber: 2.8 Consensus size: 331
4602536 TCCATTACAG
* ** ** *
4602546 AAAGCATTTGCTAGA-AACAGACGCCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAA
1 AAAGCATTTGTTA-ATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTTGGAATTAGTAAA
* * * * *
4602610 GGCTTCTTCTACTGTAAAATACCTTCTATATACCGCTACACATATTGTAACACTATTATTAAAGG
65 GGCATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTGTAACACTATTATTGAAGG
* * * * *
4602675 CGTATATTTAAGATAGATGCCTTTAATAATTTCTATCACAGTTTGTATATAACTACTGAAGGTGA
130 TGTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTACTGAAGATGG
* * * **
4602740 TTTTAGAAAAC-A-TCTTTAATAACTTCTCTAATAAAAATTTT-TTAGATTATTAAAGGTGTCTT
195 TTTTAGAAAACAAGTCTTCAATAATTTC-CTAATAAAAATTTTCAT-GATTATTAAAGGCATCTT
* * * * *
4602802 TCATTATAAAAGACCTTCGATATACCATGATTGTAATGGTAGGCATTTATTAGAAAAGGCACCTT
258 TTATTATAAAAGACCTTCGATATACCACGATGGTAATAGAAGGCATTTATTAGAAAAGGCACCTT
4602867 CAATTACTA
323 CAATTACTA
* * *
4602876 AAAGCATTTGTTAATAACAGATGCCATCAAAAGTTTCCCACTAAATATTTTTGGAATTAGTAAAG
1 AAAGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTTGGAATTAGTAAAG
* *
4602941 GCATCTTCTACTGTATAATGCCTTCTATATACCACCACACAAATTGTAACACTATTATTGAAGGT
66 GCATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTGTAACACTATTATTGAAGGT
* *
4603006 GTATATTTAAGATAGATGCCTTTAGTAATTCCTCTCACAGTTTTGTATATAATTACTGAAGATGG
131 GTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAG-TTTGTATATAATTACTGAAGATGG
* * * *
4603071 TTTCAGAAAACAACGCCTTCAATAATTTTCCTAATAAAAGTTTTCATGATTATTAAAGGCATTTT
195 TTTTAGAAAACAA-GTCTTCAATAA-TTTCCTAATAAAAATTTTCATGATTATTAAAGGCATCTT
*
4603136 TTATTATAAAACG-CCTTCGATATACCACGATGGTAATAGAAGGCGTTTATTAGAAAAGGCACCT
258 TTATTATAAAA-GACCTTCGATATACCACGATGGTAATAGAAGGCATTTATTAGAAAAGGCACCT
4603200 TCAATTACTA
322 TCAATTACTA
* * * *
4603210 AAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTGCCACTAAATA-TTTTGGAATTAGTAAAA
1 AAAGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTTGGAATTAGTAAAG
* * * * * *
4603274 GCGTCTTTTACTATAAAATACCTTCTATATACCACCACACAAATTATAACAATGTTATTGAAGGT
66 GCATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTGTAACACTATTATTGAAGGT
** * *
4603339 GTATATTTAAGATAGACACATTTAATAATTCCTATCATAGTTTGTATATAATTACTGAAGATGGT
131 GTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTACTGAAGATGGT
* *
4603404 TTTAGATAACAATGTCTTCAATAATTTCCCAA-AAAAATTTTC-TCAGATTATTAAAGGCATCTT
196 TTTAGAAAACAA-GTCTTCAATAATTTCCTAATAAAAATTTTCAT--GATTATTAAAGGCATCTT
4603467 TTATTATAAA
258 TTATTATAAA
4603477 CCACCTTCAA
Statistics
Matches: 525, Mismatches: 66, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
329 2 0.00
330 157 0.30
331 65 0.12
332 46 0.09
333 107 0.20
334 143 0.27
335 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (331 bp):
AAAGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTTGGAATTAGTAAAG
GCATCTTCTACTGTAAAATACCTTCTATATACCACCACACAAATTGTAACACTATTATTGAAGGT
GTATATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATATAATTACTGAAGATGGT
TTTAGAAAACAAGTCTTCAATAATTTCCTAATAAAAATTTTCATGATTATTAAAGGCATCTTTTA
TTATAAAAGACCTTCGATATACCACGATGGTAATAGAAGGCATTTATTAGAAAAGGCACCTTCAA
TTACTA
Found at i:4604640 original size:42 final size:42
Alignment explanation
Indices: 4604567--4604649 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
4604557 GTGTGAACTC
* * ** * *
4604567 CAAAATTGATAATAGTGAACGATTAAAATACCTTTAATAAAT
1 CAAAAGTGATAATAATGAACGACCAAAATACCCTCAATAAAT
* *
4604609 CAAAAGTGATAATAATGAATGACCAATATACCCTCAATAAA
1 CAAAAGTGATAATAATGAACGACCAAAATACCCTCAATAAA
4604650 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.27
Consensus pattern (42 bp):
CAAAAGTGATAATAATGAACGACCAAAATACCCTCAATAAAT
Found at i:4605000 original size:39 final size:42
Alignment explanation
Indices: 4604951--4605036 Score: 106
Period size: 44 Copynumber: 2.1 Consensus size: 42
4604941 TTATGAAGAT
* *
4604951 AAATTATAATTTGAA-C-TTTTT-TATTATTAGACTTCTTAA
1 AAATTATAATTTAAACCTTTTTTATATTATTAGACTTCTAAA
*
4604990 AAATTGTAATTTAAACTCTTTTTTTATATTATTAGACTTCTAAA
1 AAATTATAATTTAAAC-C-TTTTTTATATTATTAGACTTCTAAA
4605034 AAA
1 AAA
4605037 AATTAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 13 0.33
41 1 0.03
43 5 0.13
44 20 0.51
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (42 bp):
AAATTATAATTTAAACCTTTTTTATATTATTAGACTTCTAAA
Found at i:4607677 original size:27 final size:27
Alignment explanation
Indices: 4607622--4607694 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
4607612 GATTTTAAGG
*
4607622 TTTTGGATTTTAGGG-CTTGG---GAA
1 TTTTGGATTTTAGGGTTTTGGTTTGAA
4607645 -TTTGGATTTTAGGGTTTTGGTTTGAA
1 TTTTGGATTTTAGGGTTTTGGTTTGAA
*
4607671 TTTTGGATTTT-GGTGTTTAGGTTT
1 TTTTGGATTTTAGG-GTTTTGGTTT
4607695 TTTATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 14 0.33
23 4 0.10
26 5 0.12
27 19 0.45
ACGTcount: A:0.14, C:0.01, G:0.32, T:0.53
Consensus pattern (27 bp):
TTTTGGATTTTAGGGTTTTGGTTTGAA
Found at i:4607683 original size:19 final size:20
Alignment explanation
Indices: 4607645--4607684 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4607635 GGCTTGGGAA
* *
4607645 TTTGGATTTTAGGGTTTTGG
1 TTTGAATTTTAGGATTTTGG
4607665 TTTGAATTTT-GGATTTTGG
1 TTTGAATTTTAGGATTTTGG
4607684 T
1 T
4607685 GTTTAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.57
Consensus pattern (20 bp):
TTTGAATTTTAGGATTTTGG
Found at i:4607815 original size:29 final size:29
Alignment explanation
Indices: 4607685--4607857 Score: 135
Period size: 28 Copynumber: 6.0 Consensus size: 29
4607675 GGATTTTGGT
4607685 GTTT-AGGTTTTTTATTTTAAGGTTT-GAG
1 GTTTGAGG-TTTTTATTTTAAGGTTTGGAG
*
4607713 GTTTG-GAGTTTTGATTTTAAGGTTT-GAG
1 GTTTGAG-GTTTTTATTTTAAGGTTTGGAG
* * * *
4607741 GTTTGAAG-TTTAACTTTAAAGTTTGGAG
1 GTTTGAGGTTTTTATTTTAAGGTTTGGAG
** *
4607769 TGTTT-AGG-AATTAGTTTTAGGGTTTGGAG
1 -GTTTGAGGTTTTTA-TTTTAAGGTTTGGAG
*
4607798 GTTTGAGGTTTTTATTTTAAGGTTTTGATG
1 GTTTGAGGTTTTTATTTTAAGGTTTGGA-G
* * * *
4607828 GTTTAAGGTTTTGATTTTAGGGTTCGGAG
1 GTTTGAGGTTTTTATTTTAAGGTTTGGAG
4607857 G
1 G
4607858 GTTTAGAAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
27 13 0.11
28 41 0.36
29 34 0.30
30 27 0.23
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (29 bp):
GTTTGAGGTTTTTATTTTAAGGTTTGGAG
Found at i:4607822 original size:14 final size:14
Alignment explanation
Indices: 4607803--4607851 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
4607793 TGGAGGTTTG
*
4607803 AGGTTTTTATTTTA
1 AGGTTTTGATTTTA
4607817 AGGTTTTGATGGTTTA
1 AGGTTTTGAT--TTTA
4607833 AGGTTTTGATTTTA
1 AGGTTTTGATTTTA
*
4607847 GGGTT
1 AGGTT
4607852 CGGAGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 17 0.55
16 14 0.45
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (14 bp):
AGGTTTTGATTTTA
Found at i:4607834 original size:16 final size:16
Alignment explanation
Indices: 4607784--4607842 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
4607774 AGGAATTAGT
* *
4607784 TTTAGGGTTTGGA-GG
1 TTTAAGGTTTTGATGG
* *
4607799 TTTGAGGTTTTTAT--
1 TTTAAGGTTTTGATGG
4607813 TTTAAGGTTTTGATGG
1 TTTAAGGTTTTGATGG
4607829 TTTAAGGTTTTGAT
1 TTTAAGGTTTTGAT
4607843 TTTAGGGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 12 0.34
15 9 0.26
16 14 0.40
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (16 bp):
TTTAAGGTTTTGATGG
Found at i:4607861 original size:30 final size:29
Alignment explanation
Indices: 4607685--4607969 Score: 108
Period size: 29 Copynumber: 9.9 Consensus size: 29
4607675 GGATTTTGGT
* *
4607685 GTTT-AGGTTTTTTATTTTAAGGTTT-GAG
1 GTTTAAGG-TTTTGATTTTAGGGTTTGGAG
* *
4607713 GTTT-GGAGTTTTGATTTTAAGGTTT-GAG
1 GTTTAAG-GTTTTGATTTTAGGGTTTGGAG
* * **
4607741 GTTTGAA-G-TTTAACTTTAAAGTTTGGAG
1 GTTT-AAGGTTTTGATTTTAGGGTTTGGAG
**
4607769 TGTTT-AGGAATT-AGTTTTAGGGTTTGGAG
1 -GTTTAAGGTTTTGA-TTTTAGGGTTTGGAG
* * * *
4607798 GTTTGAGGTTTTTATTTTAAGGTTTTGATG
1 GTTTAAGGTTTTGATTTTAGGGTTTGGA-G
*
4607828 GTTTAAGGTTTTGATTTTAGGGTTCGGAGG
1 GTTTAAGGTTTTGATTTTAGGGTTTGGA-G
*** * **
4607858 GTTT-A-GAAATCACTTTTAGGGTTTAAAAG
1 GTTTAAGGTTTTGA-TTTTAGGGTTT-GGAG
** * *
4607887 GTTGGA-GTTTTGACTTTAAGGTTTGGAGG
1 GTTTAAGGTTTTGATTTTAGGGTTTGGA-G
* * * * *
4607916 GTTTAGGGCTTTGATTTTAGGATTTAGAT
1 GTTTAAGGTTTTGATTTTAGGGTTTGGAG
*
4607945 ATTTAA-GTTTTCGATTTTAGGGTTT
1 GTTTAAGGTTTT-GATTTTAGGGTTT
4607970 AATTTTAGGG
Statistics
Matches: 191, Mismatches: 49, Indels: 33
0.70 0.18 0.12
Matches are distributed among these distances:
27 14 0.07
28 46 0.24
29 80 0.42
30 51 0.27
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (29 bp):
GTTTAAGGTTTTGATTTTAGGGTTTGGAG
Found at i:4607897 original size:88 final size:85
Alignment explanation
Indices: 4607715--4607936 Score: 223
Period size: 88 Copynumber: 2.6 Consensus size: 85
4607705 GGTTTGAGGT
* * ** * * *
4607715 TTGGAGTTTTGATTTTAAGG-TTTGAGGTTTGAA-GTTTAACTTTAAAGTTTGGAGTGTTTAGGA
1 TTGGAGTTTTGATTTTAAGGTTTTGAGGTTT-AAGGTTTGATTTTAGGGTTCGGAGGGTTTAGAA
* * **
4607778 ATTAGTTTTAGGGTTTGGAGG
65 ATCACTTTTAGGGTTTAAAGG
* *
4607799 TTTGAGGTTTTTATTTTAAGGTTTTGATGGTTTAAGGTTTTGATTTTAGGGTTCGGAGGGTTTAG
1 TTGGA-GTTTTGATTTTAAGGTTTTGA-GGTTTAAGG-TTTGATTTTAGGGTTCGGAGGGTTTAG
4607864 AAATCACTTTTAGGGTTTAAAAGG
63 AAATCACTTTTAGGGTTT-AAAGG
* * *
4607888 TTGGAGTTTTGACTTTAAGGTTTGGAGGGTTTAGGGCTTTGATTTTAGG
1 TTGGAGTTTTGATTTTAAGGTTTTGA-GGTTTAAGG-TTTGATTTTAGG
4607937 ATTTAGATAT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
84 4 0.04
85 14 0.12
86 7 0.06
87 6 0.05
88 74 0.66
89 7 0.06
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (85 bp):
TTGGAGTTTTGATTTTAAGGTTTTGAGGTTTAAGGTTTGATTTTAGGGTTCGGAGGGTTTAGAAA
TCACTTTTAGGGTTTAAAGG
Found at i:4607936 original size:14 final size:14
Alignment explanation
Indices: 4607917--4607983 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
4607907 GTTTGGAGGG
4607917 TTTAGGGCTTT-GAT
1 TTTAGGG-TTTAGAT
*
4607931 TTTAGGATTTAGAT
1 TTTAGGGTTTAGAT
* * *
4607945 ATTTAAGTTTTCGAT
1 -TTTAGGGTTTAGAT
4607960 TTTAGGGTTTA-AT
1 TTTAGGGTTTAGAT
4607973 TTTAGGGTTTA
1 TTTAGGGTTTA
4607984 AAAAAACGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 16 0.36
14 17 0.39
15 11 0.25
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:4607974 original size:13 final size:13
Alignment explanation
Indices: 4607917--4607984 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
4607907 GTTTGGAGGG
*
4607917 TTTAGGGCTTTGAT
1 TTTAGGG-TTTAAT
*
4607931 TTTAGGATTTAGAT
1 TTTAGGGTTTA-AT
* * *
4607945 ATTTAAGTTTTCGAT
1 -TTTAGGGTTT-AAT
4607960 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
4607973 TTTAGGGTTTAA
1 TTTAGGGTTTAA
4607985 AAAAACGTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
13 17 0.40
14 16 0.37
15 10 0.23
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (13 bp):
TTTAGGGTTTAAT
Found at i:4612128 original size:22 final size:21
Alignment explanation
Indices: 4612047--4612128 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
4612037 TAAAACAGAT
*
4612047 TTACTATTAAGTTATTAATAA
1 TTACTATTAAGTTATCAATAA
* * *
4612068 CTTACTATAAAGTTTTCATTAA
1 -TTACTATTAAGTTATCAATAA
* *
4612090 TTTACTACTAAATTATCAATAA
1 -TTACTATTAAGTTATCAATAA
4612112 TTAACTATTAAGTTATC
1 TT-ACTATTAAGTTATC
4612129 GTTTATTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 2 0.04
22 45 0.96
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
TTACTATTAAGTTATCAATAA
Found at i:4612196 original size:44 final size:44
Alignment explanation
Indices: 4612142--4612227 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
4612132 TATTTTTTTT
* * *
4612142 ATTAAGTTATAATTGATTTACTGCTATGCTATTATGCATTTATA
1 ATTAAGTTATAACTGATTTACTACTAAGCTATTATGCATTTATA
* * *
4612186 ATTATGTTATAACTGATTTACTATTAAGTTATTATGCATTTA
1 ATTAAGTTATAACTGATTTACTACTAAGCTATTATGCATTTA
4612228 CTATTATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (44 bp):
ATTAAGTTATAACTGATTTACTACTAAGCTATTATGCATTTATA
Found at i:4612211 original size:22 final size:22
Alignment explanation
Indices: 4612141--4612239 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 22
4612131 TTATTTTTTT
*
4612141 TATTAAGTTATAATTG-ATTTAC
1 TATTATGTTATAA-TGCATTTAC
** * *
4612163 TGCTATGCTATTATGCATTTA-
1 TATTATGTTATAATGCATTTAC
4612184 TAATTATGTTATAACTG-ATTTAC
1 T-ATTATGTTATAA-TGCATTTAC
* *
4612207 TATTAAGTTATTATGCATTTAC
1 TATTATGTTATAATGCATTTAC
*
4612229 TATTATATTAT
1 TATTATGTTAT
4612240 TTTTTATTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
21 5 0.08
22 51 0.86
23 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (22 bp):
TATTATGTTATAATGCATTTAC
Found at i:4612234 original size:44 final size:43
Alignment explanation
Indices: 4612141--4612239 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 43
4612131 TTATTTTTTT
* * * *
4612141 TATTAAGTTATAATTGATTTACTGCTATGCTATTATGCATTTA
1 TATTATGTTATAACTGATTTACTACTAAGCTATTATGCATTTA
* *
4612184 TAATTATGTTATAACTGATTTACTATTAAGTTATTATGCATTTA
1 T-ATTATGTTATAACTGATTTACTACTAAGCTATTATGCATTTA
*
4612228 CTATTATATTAT
1 -TATTATGTTAT
4612240 TTTTTATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 45 0.96
45 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (43 bp):
TATTATGTTATAACTGATTTACTACTAAGCTATTATGCATTTA
Found at i:4612300 original size:22 final size:22
Alignment explanation
Indices: 4612199--4612388 Score: 109
Period size: 22 Copynumber: 8.6 Consensus size: 22
4612189 ATGTTATAAC
*
4612199 TGATTTACTATTAAGTTATTA-
1 TGATTTACTATTAAATTATTAT
* *
4612220 TGCATTTACTATTATATTATTTT
1 TG-ATTTACTATTAAATTATTAT
* * * *
4612243 TTATTTACTACTAAACTATCAAT
1 TGATTTACTATTAAATTAT-TAT
* *
4612266 T-ATTTATTGTTAAATTATTAT
1 TGATTTACTATTAAATTATTAT
* * * *
4612287 TGATATACTATTAAGTTATCAC
1 TGATTTACTATTAAATTATTAT
* * *
4612309 TAATTTACTATACTAAATTAATAC
1 TGATTTACTAT--TAAATTATTAT
* * * *
4612333 TGATTAACTATTAATTTATCAA
1 TGATTTACTATTAAATTATTAT
* *
4612355 TGA-TTACTATT-AAGTAATAT
1 TGATTTACTATTAAATTATTAT
*
4612375 TGATTTACTTTTAA
1 TGATTTACTATTAA
4612389 TTTTCAATTA
Statistics
Matches: 123, Mismatches: 38, Indels: 15
0.70 0.22 0.09
Matches are distributed among these distances:
20 7 0.06
21 19 0.15
22 77 0.63
23 3 0.02
24 17 0.14
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TGATTTACTATTAAATTATTAT
Found at i:4612363 original size:21 final size:21
Alignment explanation
Indices: 4612333--4612401 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
4612323 AAATTAATAC
4612333 TGATTAACTATTAATTTATCAA
1 TGATT-ACTATTAATTTATCAA
* * *
4612355 TGATTACTATTAAGTAAT-AT
1 TGATTACTATTAATTTATCAA
*
4612375 TGATTTACTTTTAATTT-TCAA
1 TGA-TTACTATTAATTTATCAA
*
4612396 TTATTA
1 TGATTA
4612402 ATTACTACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
20 8 0.22
21 24 0.65
22 5 0.14
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (21 bp):
TGATTACTATTAATTTATCAA
Found at i:4612789 original size:22 final size:22
Alignment explanation
Indices: 4612764--4612845 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
4612754 ACTGAATCTT
**
4612764 ATTTACTATTAAATTATTGTTA
1 ATTTACTATTAAATTATAATTA
* * *
4612786 ATTTATTACTAAATTATAATTG
1 ATTTACTATTAAATTATAATTA
* *
4612808 ATTTACTATTAAGTTATCACTT-
1 ATTTACTATTAAATTAT-AATTA
*
4612830 ATTT-TTATTAAATTAT
1 ATTTACTATTAAATTAT
4612846 CTTTACTACT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 10 0.21
22 35 0.73
23 3 0.06
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTACTATTAAATTATAATTA
Found at i:4612927 original size:22 final size:22
Alignment explanation
Indices: 4612847--4613031 Score: 98
Period size: 22 Copynumber: 8.5 Consensus size: 22
4612837 TTAAATTATC
* *
4612847 TTTACTACTATATTTTTATGTA
1 TTTACTATTATATTATTATGTA
* *
4612869 TTTACAATTATA-TATAAATG-A
1 TTTACTATTATATTAT-TATGTA
* *
4612890 TTCAATATTA-AGTTATT-TGTTA
1 TTTACTATTATA-TTATTATG-TA
4612912 TTTACTATTATATTATTATGTA
1 TTTACTATTATATTATTATGTA
* * * *
4612934 TTTATTATTATGTTATCAATTGCA
1 TTTACTATTATATTAT-TA-TGTA
* * *
4612958 --TACAATTATCTTATCAAT-TA
1 TTTACTATTATATTAT-TATGTA
* * *
4612978 TTTACTACTAAATTATTATTTA
1 TTTACTATTATATTATTATGTA
*
4613000 TTTACTATTATGTTATTAT-TAA
1 TTTACTATTATATTATTATGT-A
4613022 TTTACTATTA
1 TTTACTATTA
4613032 AGTTATCCAT
Statistics
Matches: 124, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
20 4 0.03
21 14 0.11
22 99 0.80
23 4 0.03
24 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTACTATTATATTATTATGTA
Found at i:4612939 original size:14 final size:15
Alignment explanation
Indices: 4612917--4612946 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4612907 TGTTATTTAC
4612917 TATTATATTATTATG
1 TATTATATTATTATG
4612932 TATT-TATTATTATG
1 TATTATATTATTATG
4612946 T
1 T
4612947 TATCAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTATATTATTATG
Found at i:4613032 original size:11 final size:11
Alignment explanation
Indices: 4612977--4613032 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
4612967 CTTATCAATT
*
4612977 ATTTACTACTA
1 ATTTACTATTA
* * *
4612988 AATTATTATTT
1 ATTTACTATTA
4612999 ATTTACTATT-
1 ATTTACTATTA
*
4613009 ATGTTATTATTA
1 AT-TTACTATTA
4613021 ATTTACTATTA
1 ATTTACTATTA
4613032 A
1 A
4613033 GTTATCCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 2 0.06
11 31 0.89
12 2 0.06
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (11 bp):
ATTTACTATTA
Found at i:4613036 original size:22 final size:21
Alignment explanation
Indices: 4612977--4613083 Score: 90
Period size: 22 Copynumber: 4.9 Consensus size: 21
4612967 CTTATCAATT
* *
4612977 ATTTACTACTAAATTATTATTT
1 ATTTACTA-TAAGTTATTATTA
*
4612999 ATTTACTATTATGTTATTATTA
1 ATTTACTA-TAAGTTATTATTA
*
4613021 ATTTACTATTAAGTTATCCA-TA
1 ATTTACTA-TAAGTTAT-TATTA
* *
4613043 ATTTAATATACAGTTATCATTA
1 ATTTACTATA-AGTTATTATTA
*
4613065 ATTTAATATATAGTTATTA
1 ATTTACTATA-AGTTATTA
4613084 CTGGTTTTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.05
22 68 0.93
23 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTACTATAAGTTATTATTA
Found at i:4613038 original size:66 final size:66
Alignment explanation
Indices: 4612847--4613047 Score: 158
Period size: 66 Copynumber: 3.1 Consensus size: 66
4612837 TTAAATTATC
* * * * * * * ***
4612847 TTTACTACTATATTTTTATGTATTTACAATTAT-ATAT-AAATGATTCAATATTAAGTTATTTGT
1 TTTACTACTAAATTATTATGTATTTACTATTATGTTATCAATTGAAT-ACTATTAAGTTATCAAT
4612910 TA
65 TA
* * * * * **
4612912 TTTACTATTATATTATTATGTATTTATTATTATGTTATCAATTGCATACAATTATCTTATCAATT
1 TTTACTACTAAATTATTATGTATTTACTATTATGTTATCAATTGAATACTATTAAGTTATCAATT
4612977 A
66 A
* * *
4612978 TTTACTACTAAATTATTATTTATTTACTATTATGTTAT-TATT-AATTTACTATTAAGTTATCCA
1 TTTACTACTAAATTATTATGTATTTACTATTATGTTATCAATTGAA--TACTATTAAGTTATCAA
*
4613041 TAA
64 TTA
4613044 TTTA
1 TTTA
4613048 ATATACAGTT
Statistics
Matches: 106, Mismatches: 26, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
64 1 0.01
65 32 0.30
66 68 0.64
67 5 0.05
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (66 bp):
TTTACTACTAAATTATTATGTATTTACTATTATGTTATCAATTGAATACTATTAAGTTATCAATT
A
Found at i:4614040 original size:6 final size:6
Alignment explanation
Indices: 4614029--4614078 Score: 73
Period size: 6 Copynumber: 8.0 Consensus size: 6
4614019 ATTTTTTTAA
*
4614029 TTTATT TTTATT TTGTATT TTACATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TT-TATT TT-TATT TTTATT TTTATT TTTATT TTTATT
4614079 ATTTTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 29 0.73
7 11 0.28
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4614048 original size:26 final size:24
Alignment explanation
Indices: 4614019--4614082 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
4614009 TTTTCTCTTC
4614019 ATTTTTTTAATTTATTTTTATTTTGT
1 ATTTTTTT-ATTTATTTTTATTTT-T
*
4614045 ATTTTACATT-TTTATTTTTATTTTT
1 ATTTT--TTTATTTATTTTTATTTTT
4614070 ATTTTTATTATTT
1 ATTTTT-TTATTT
4614083 TATATATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
24 2 0.06
25 9 0.28
26 19 0.59
28 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (24 bp):
ATTTTTTTATTTATTTTTATTTTT
Found at i:4614049 original size:12 final size:11
Alignment explanation
Indices: 4614022--4614078 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
4614012 TCTCTTCATT
*
4614022 TTTTTAATTTA
1 TTTTTATTTTA
4614033 TTTTTATTTTGTA
1 TTTTTA-TTT-TA
*
4614046 TTTTACATTTTTA
1 TTTT-TA-TTTTA
4614059 TTTTTATTTTTA
1 TTTTTA-TTTTA
4614071 TTTTTATT
1 TTTTTATT
4614079 ATTTTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 8 0.20
12 15 0.38
13 12 0.30
14 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:4614083 original size:20 final size:19
Alignment explanation
Indices: 4614029--4614085 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
4614019 ATTTTTTTAA
*
4614029 TTTATTTTTATTTTGTATT
1 TTTATTTTTATTTTTTATT
*
4614048 TTACATTTTTA-TTTTTATT
1 TT-TATTTTTATTTTTTATT
4614067 TTTATTTTTATTATTTTAT
1 TTTATTTTTATT-TTTTAT
4614086 ATATGTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.22
19 12 0.38
20 13 0.41
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTATTTTTATTTTTTATT
Found at i:4614103 original size:3 final size:3
Alignment explanation
Indices: 4614056--4614113 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
4614046 TTTTACATTT
* * *
4614056 TTA TTT TTA TTT TTA TTT TTA TTA TT- TTA TATA TGTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA
4614103 TTA TTA TTA TT
1 TTA TTA TTA TT
4614114 TTTTATCTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 34 0.76
4 9 0.20
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:4614139 original size:38 final size:37
Alignment explanation
Indices: 4614030--4614160 Score: 92
Period size: 38 Copynumber: 3.5 Consensus size: 37
4614020 TTTTTTTAAT
* * *
4614030 TTATTTTTATTTTGTATTTTACATTT-TTATTT-TTA
1 TTATTATTATTTTTTATCTTACATTTATTATTTATTA
* * * *
4614065 TTTTTATT-TTTATTATTTTATATATGTA-TATATTATTA
1 TTATTATTATTTTTTATCTTACAT-T-TATTAT-TTATTA
*
4614103 TTATTATTATTTTTTATCTTAGATTTATGTATTTATTA
1 TTATTATTATTTTTTATCTTACATTTAT-TATTTATTA
* *
4614141 ATATGTA-TATTTTTTTTCTT
1 TTAT-TATTATTTTTTATCTT
4614161 CTTCTTTTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
34 12 0.16
35 7 0.09
36 4 0.05
37 4 0.05
38 32 0.42
39 17 0.22
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (37 bp):
TTATTATTATTTTTTATCTTACATTTATTATTTATTA
Found at i:4614225 original size:18 final size:19
Alignment explanation
Indices: 4614202--4614249 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
4614192 TATCTGTTAT
4614202 TTAATTTTAATTTATCT-A
1 TTAATTTTAATTTATCTAA
*
4614220 TTAATTTATCTGATTTATCTAA
1 TTAA-TT-T-TAATTTATCTAA
4614242 TTAATTTT
1 TTAATTTT
4614250 CGTTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAATTTTAATTTATCTAA
Found at i:4614750 original size:20 final size:20
Alignment explanation
Indices: 4614701--4614750 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4614691 CAACTTCTGG
*
4614701 CGAAATTTTCCAGATTTCGA
1 CGAAATTTTCCAGATTCCGA
*
4614721 CGACATTTTCCAGATTCCGA
1 CGAAATTTTCCAGATTCCGA
*
4614741 CGAAAATTTC
1 CGAAATTTTC
4614751 ACCGGAGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (20 bp):
CGAAATTTTCCAGATTCCGA
Found at i:4614965 original size:10 final size:10
Alignment explanation
Indices: 4614950--4614975 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4614940 CTGCCCCCCT
4614950 CCGAGCCAAG
1 CCGAGCCAAG
4614960 CCGAGCCAAG
1 CCGAGCCAAG
4614970 CCGAGC
1 CCGAGC
4614976 TCCAAGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.42, G:0.31, T:0.00
Consensus pattern (10 bp):
CCGAGCCAAG
Found at i:4615077 original size:5 final size:4
Alignment explanation
Indices: 4615065--4615162 Score: 58
Period size: 4 Copynumber: 23.0 Consensus size: 4
4615055 TTTTTTTAAA
*
4615065 ATTT ATTT GATTT -TTT CATTT ATTT ATTT ATTTT ATTT ATTAG ATTAT
1 ATTT ATTT -ATTT ATTT -ATTT ATTT ATTT A-TTT ATTT ATT-T ATT-T
* * *
4615113 ATTT ATTT AATTT -TTT -TTAT CTTT ATCTT ATTT TTATT CTTT ATTT
1 ATTT ATTT -ATTT ATTT ATT-T ATTT AT-TT ATTT AT-TT ATTT ATTT
4615159 ATTT
1 ATTT
4615163 TCACTTTTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
3 8 0.10
4 39 0.50
5 31 0.40
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:4615077 original size:9 final size:8
Alignment explanation
Indices: 4615065--4615162 Score: 58
Period size: 9 Copynumber: 11.5 Consensus size: 8
4615055 TTTTTTTAAA
4615065 ATTTATTT
1 ATTTATTT
4615073 GATTT-TTT
1 -ATTTATTT
4615081 CATTTATTT
1 -ATTTATTT
4615090 ATTTATTTT
1 ATTTA-TTT
*
4615099 ATTTATTAG
1 ATTTATT-T
4615108 ATTATATTT
1 ATT-TATTT
4615117 ATTTAATTT
1 ATTT-ATTT
4615126 -TTT-TTAT
1 ATTTATT-T
*
4615133 CTTTATCTT
1 ATTTAT-TT
*
4615142 ATTTTTATT
1 ATTTAT-TT
*
4615151 CTTTATTT
1 ATTTATTT
4615159 ATTT
1 ATTT
4615163 TCACTTTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.03
7 1 0.01
8 26 0.37
9 37 0.52
10 5 0.07
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (8 bp):
ATTTATTT
Found at i:4615085 original size:17 final size:18
Alignment explanation
Indices: 4615065--4615121 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
4615055 TTTTTTTAAA
4615065 ATTTATTTGATTT-TTTC
1 ATTTATTTGATTTATTTC
*
4615082 ATTTATTT-ATTTATTTT
1 ATTTATTTGATTTATTTC
*
4615099 ATTTATTAGATTATATTT-
1 ATTTATTTGATT-TATTTC
4615117 ATTTA
1 ATTTA
4615122 ATTTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 4 0.11
17 18 0.51
18 8 0.23
19 5 0.14
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (18 bp):
ATTTATTTGATTTATTTC
Found at i:4615131 original size:14 final size:14
Alignment explanation
Indices: 4615083--4615162 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
4615073 GATTTTTTCA
4615083 TTTATTTATTT-AT
1 TTTATTTATTTAAT
4615096 TTTATTTA-TTAGAT
1 TTTATTTATTTA-AT
*
4615110 TATATTTATTTAAT
1 TTTATTTATTTAAT
* *
4615124 TTTTTTTATCTTTAT
1 TTTATTTAT-TTAAT
* *
4615139 CTTA-TT-TTTATT
1 TTTATTTATTTAAT
4615151 CTTTATTTATTT
1 -TTTATTTATTT
4615163 TCACTTTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
12 5 0.10
13 12 0.24
14 22 0.43
15 12 0.24
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTATTTATTTAAT
Found at i:4615148 original size:11 final size:10
Alignment explanation
Indices: 4615083--4615150 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 10
4615073 GATTTTTTCA
4615083 TTTATTTATT
1 TTTATTTATT
*
4615093 TAT-TTTATT
1 TTTATTTATT
* *
4615102 TATTAGATTATA
1 T-TTA-TTTATT
4615114 TTTATTTAATT
1 TTTATTT-ATT
*
4615125 TTT-TTTATC
1 TTTATTTATT
4615134 TTTATCTTATT
1 TTTAT-TTATT
4615145 TTTATT
1 TTTATT
4615151 CTTTATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
9 12 0.27
10 10 0.23
11 17 0.39
12 5 0.11
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (10 bp):
TTTATTTATT
Found at i:4615148 original size:17 final size:17
Alignment explanation
Indices: 4615122--4615163 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
4615112 TATTTATTTA
4615122 ATTT-TTTTTA-TCTTT
1 ATTTATTTTTATTCTTT
4615137 ATCTTATTTTTATTCTTT
1 AT-TTATTTTTATTCTTT
4615155 ATTTATTTT
1 ATTTATTTT
4615164 CACTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 13 0.54
18 7 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTATTTTTATTCTTT
Found at i:4615288 original size:60 final size:59
Alignment explanation
Indices: 4615199--4615481 Score: 410
Period size: 60 Copynumber: 4.7 Consensus size: 59
4615189 TAAATAAAAA
*
4615199 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TT
1 TCAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTT
* * * *
4615257 TCAAAAAAAAAGGTTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
1 TCAAAAAAAAA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTT
*
4615318 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TT
1 TCAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTT
* *
4615375 TCCAAAAAAAGGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
1 T-CAAAAAAA--AATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTT
*
4615437 TCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCC
1 TCAAAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
4615482 CTGCACAAGA
Statistics
Matches: 203, Mismatches: 13, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
57 3 0.01
58 21 0.10
59 37 0.18
60 116 0.57
61 23 0.11
62 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (59 bp):
TCAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTT
Found at i:4615325 original size:119 final size:118
Alignment explanation
Indices: 4615199--4615481 Score: 478
Period size: 119 Copynumber: 2.4 Consensus size: 118
4615189 TAAATAAAAA
4615199 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC-AAAA
4615264 AAAAGG-TTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
64 AAAAGGATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
*
4615318 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAA
* * *
4615383 AAGGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
66 AAGG-ATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
*
4615437 TCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCC
1 TC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
4615482 CTGCACAAGA
Statistics
Matches: 156, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
117 9 0.06
118 7 0.04
119 99 0.63
120 41 0.26
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (118 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAA
AAGGATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
Found at i:4620670 original size:42 final size:42
Alignment explanation
Indices: 4620611--4620693 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
4620601 TCTTTTGGTA
4620611 TCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAG
1 TCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAG
4620653 TCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAA
1 TCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAA
4620694 ATTCTTTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TCAGGGTTGATTTATAAGACCTTTGGGCATAATCTCCTGAAG
Found at i:4620855 original size:42 final size:42
Alignment explanation
Indices: 4620746--4621076 Score: 428
Period size: 42 Copynumber: 8.0 Consensus size: 42
4620736 CAAGGAGCCT
* *
4620746 TTTAATTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAA
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
* ** *
4620787 TTTATTTTC-CAAAGTTTTGTTGCCTCTGTTTAGAGGAGCAA
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
4620828 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
* *
4620870 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTCTACAGGAGCAA
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
4620912 TTTACATTT-TCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAA
1 TTTAC-TTTCTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAA
4620954 TTTACTTT-TCCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAA
1 TTTACTTTCT-CAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAA
*
4620996 TTTACTGTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
* * * *
4621037 TTTACTTTCTCAAAGGCGTTGAGCCTCTGCTTAGAGGAGC
1 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
4621077 TTTGGTAAAA
Statistics
Matches: 262, Mismatches: 19, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
39 4 0.02
41 82 0.31
42 169 0.65
43 3 0.01
44 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (42 bp):
TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:4620927 original size:84 final size:83
Alignment explanation
Indices: 4620746--4621076 Score: 431
Period size: 83 Copynumber: 4.0 Consensus size: 83
4620736 CAAGGAGCCT
* * * ** *
4620746 TTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTATTTTC-CAAAGTTTTGTTGC
1 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGC
4620810 CTCTGTTTAGAGGAGCAA
66 CTCTGTTTAGAGGAGCAA
4620828 TTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTG
1 TTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTG
* *
4620893 CCTCTGTCTACAGGAGCAA
65 CCTCTGTTTAGAGGAGCAA
*
4620912 TTTACATTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTT-TCCAAAGTTTCG
1 TTTAC-TTTCCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCT-CAAAG--TCG
4620974 T--TGCCTCTGTTTAGAGGAGCAA
60 TGGTGCCTCTGTTTAGAGGAGCAA
* * * *
4620996 TTTACTGTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGGCGTTGAGC
1 TTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGC
*
4621061 CTCTGCTTAGAGGAGC
66 CTCTGTTTAGAGGAGC
4621077 TTTGGTAAAA
Statistics
Matches: 220, Mismatches: 16, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
81 7 0.03
82 8 0.04
83 98 0.45
84 96 0.44
85 3 0.01
86 8 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (83 bp):
TTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCAA
Found at i:4621096 original size:8 final size:8
Alignment explanation
Indices: 4621083--4621179 Score: 116
Period size: 8 Copynumber: 12.6 Consensus size: 8
4621073 GAGCTTTGGT
4621083 AAAAAAAC
1 AAAAAAAC
4621091 AAAAAAAC
1 AAAAAAAC
4621099 AAAAAAA-
1 AAAAAAAC
4621106 ACAAAAAAC
1 A-AAAAAAC
4621115 -AAAAAAC
1 AAAAAAAC
4621122 AAAAAAAC
1 AAAAAAAC
4621130 ---AAAAC
1 AAAAAAAC
4621135 AAAAAAAC
1 AAAAAAAC
4621143 AAAAAAAAC
1 -AAAAAAAC
*
4621152 CAAAAAAC
1 AAAAAAAC
*
4621160 AAAAACA-
1 AAAAAAAC
4621167 AAAAAAAC
1 AAAAAAAC
4621175 AAAAA
1 AAAAA
4621180 GTAAAAAGGG
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
5 5 0.06
7 14 0.18
8 50 0.65
9 8 0.10
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4621119 original size:31 final size:30
Alignment explanation
Indices: 4621084--4621179 Score: 140
Period size: 31 Copynumber: 3.2 Consensus size: 30
4621074 AGCTTTGGTA
4621084 AAAAAACAAAAAAACAAAAAAAACAAAAAAC
1 AAAAAACAAAAAAACAAAAAAAA-AAAAAAC
*
4621115 AAAAAACAAAAAAACAAAACAAAAAAACAA-
1 AAAAAACAAAAAAACAAAA-AAAAAAAAAAC
* *
4621145 AAAAAACCAAAAAACAAAAACAAAAAAAAC
1 AAAAAACAAAAAAACAAAAAAAAAAAAAAC
4621175 AAAAA
1 AAAAA
4621180 GTAAAAAGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
29 8 0.14
30 23 0.39
31 24 0.41
32 4 0.07
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (30 bp):
AAAAAACAAAAAAACAAAAAAAAAAAAAAC
Found at i:4621142 original size:44 final size:45
Alignment explanation
Indices: 4621086--4621178 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
4621076 CTTTGGTAAA
4621086 AAAACAAAAAAACAAAAAAAA-CAAAAAACAAAAA-ACAAAAAAAC
1 AAAACAAAAAAACAAAAAAAACCAAAAAACAAAAACA-AAAAAAAC
4621130 AAAACAAAAAAACAAAAAAAACCAAAAAACAAAAACAAAAAAAAC
1 AAAACAAAAAAACAAAAAAAACCAAAAAACAAAAACAAAAAAAAC
4621175 AAAA
1 AAAA
4621179 AGTAAAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 21 0.45
45 25 0.53
46 1 0.02
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (45 bp):
AAAACAAAAAAACAAAAAAAACCAAAAAACAAAAACAAAAAAAAC
Found at i:4621186 original size:1 final size:1
Alignment explanation
Indices: 4621083--4621179 Score: 77
Period size: 1 Copynumber: 97.0 Consensus size: 1
4621073 GAGCTTTGGT
* * * * * * * *
4621083 AAAAAAACAAAAAAACAAAAAAAACAAAAAACAAAAAACAAAAAAACAAAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
4621148 AAACCAAAAAACAAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4621180 GTAAAAAGGG
Statistics
Matches: 72, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4621186 original size:23 final size:21
Alignment explanation
Indices: 4621086--4621179 Score: 127
Period size: 22 Copynumber: 4.2 Consensus size: 21
4621076 CTTTGGTAAA
4621086 AAAACAAAAAAACAAAAAAAAC
1 AAAA-AAAAAAACAAAAAAAAC
4621108 AAAAAACAAAAA-ACAAAAAAAC
1 AAAAAA-AAAAACA-AAAAAAAC
4621130 AAAACAAAAAAACAAAAAAAACC
1 AAAA-AAAAAAACAAAAAAAA-C
4621153 AAAAAACAAAAACAAAAAAAAC
1 AAAAAA-AAAAACAAAAAAAAC
4621175 AAAAA
1 AAAAA
4621180 GTAAAAAGGG
Statistics
Matches: 66, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.05
22 41 0.62
23 22 0.33
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAACAAAAAAAAC
Found at i:4621186 original size:45 final size:44
Alignment explanation
Indices: 4621086--4621178 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
4621076 CTTTGGTAAA
4621086 AAAACAAAAAAACAAAAAAAACAAAAAACAAAAAACAAAAAAAC
1 AAAACAAAAAAACAAAAAAAACAAAAAACAAAAAACAAAAAAAC
4621130 AAAACAAAAAAACAAAAAAAACCAAAAAAC-AAAAACAAAAAAAAC
1 AAAACAAAAAAACAAAAAAAA-CAAAAAACAAAAAAC-AAAAAAAC
4621175 AAAA
1 AAAA
4621179 AGTAAAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 27 0.57
45 20 0.43
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (44 bp):
AAAACAAAAAAACAAAAAAAACAAAAAACAAAAAACAAAAAAAC
Found at i:4621366 original size:6 final size:6
Alignment explanation
Indices: 4621355--4621404 Score: 73
Period size: 6 Copynumber: 8.0 Consensus size: 6
4621345 TTTTTTTTAA
*
4621355 TTTATT TTTATT TTGTATT TTACATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TT-TATT TT-TATT TTTATT TTTATT TTTATT TTTATT
4621405 ATTTTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 29 0.73
7 11 0.28
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Done.