Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 45 of 318
Found at i:16804829 original size:19 final size:18
Alignment explanation
Indices: 16804779--16804830 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
16804769 TAAAAAAAAT
* *
16804779 TAAATTGTTAAATTTATT
1 TAAATTTTTAAATTTATA
*
16804797 TATATTTTTCTAAATTCTATA
1 TA-AATTTT-TAAATT-TATA
16804818 TAAATTTTTAAAT
1 TAAATTTTTAAAT
16804831 AATAATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 11 0.41
21 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (18 bp):
TAAATTTTTAAATTTATA
Found at i:16804854 original size:20 final size:21
Alignment explanation
Indices: 16804815--16804865 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
16804805 TCTAAATTCT
*
16804815 ATATAAAT-TTTTAAATAATA
1 ATATAAATAATTTAAATAATA
16804835 ATATAAATAATTTAAA-AATA
1 ATATAAATAATTTAAATAATA
*
16804855 TTA-AAATAATT
1 ATATAAATAATT
16804866 AGACATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 14 0.50
21 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAAATAATTTAAATAATA
Found at i:16806320 original size:18 final size:18
Alignment explanation
Indices: 16806288--16806325 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
16806278 CGTAAATATG
*
16806288 AAAAAAATTAGGTAC-AA
1 AAAAAAATTAAGTACGAA
16806305 AAAAAAATGTAAGTACGAA
1 AAAAAAAT-TAAGTACGAA
16806324 AA
1 AA
16806326 TGAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.66, C:0.05, G:0.13, T:0.16
Consensus pattern (18 bp):
AAAAAAATTAAGTACGAA
Found at i:16809037 original size:24 final size:25
Alignment explanation
Indices: 16809010--16809058 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16809000 GTCCCATTAA
16809010 TTTCTTAGAT-TCTTCCCTTTTTTT
1 TTTCTTAGATCTCTTCCCTTTTTTT
** *
16809034 TTTCTTTTATCTTTTCCCTTTTTTT
1 TTTCTTAGATCTCTTCCCTTTTTTT
16809059 CTGGTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTCTTAGATCTCTTCCCTTTTTTT
Found at i:16810625 original size:18 final size:18
Alignment explanation
Indices: 16810602--16810643 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16810592 ATAATGCTAC
*
16810602 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
16810620 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
16810638 AATAAC
1 AATAAC
16810644 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:16810668 original size:3 final size:3
Alignment explanation
Indices: 16810662--16810844 Score: 92
Period size: 3 Copynumber: 60.7 Consensus size: 3
16810652 AATAGAAGAC
* * * *
16810662 AAT AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
16810708 AAT AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT
* * * *
16810755 ATAT ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * *
16810800 AA- ATAT AAT AAT AAT AAT ATAT AAT AAT AAC AAT ATT AAA AAT AA
1 AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
16810845 CACTCTCCCT
Statistics
Matches: 134, Mismatches: 33, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
2 12 0.09
3 103 0.77
4 19 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16810689 original size:23 final size:24
Alignment explanation
Indices: 16810662--16810844 Score: 77
Period size: 23 Copynumber: 7.2 Consensus size: 24
16810652 AATAGAAGAC
* *
16810662 AATAATAATAAT-ATATTAATAAA
1 AATAATAATAATAAAAATAATAAA
16810685 AATAATAAT-ATAAAAATAATAAA
1 AATAATAATAATAAAAATAATAAA
* * ***
16810708 AATAAAAATATGTTTCTAATAATAATA
1 AATAATAATA--ATAAAAATAATAA-A
*
16810735 AATCAATAATGATAATAAATATATACAA
1 AAT-AATAATAATAA-AAATA-ATA-AA
* * *
16810763 AATAATAGTAACAGTAATAA-AATAAG
1 AATAATAAT-A-A-TAAAAATAATAAA
* *
16810789 TATAAT-ATAATAAATATAATAATAAT
1 AATAATAATAAT-AA-A-AATAATAAA
* *
16810815 AATATATAATAATAACAATATTAAA
1 AATA-ATAATAATAAAAATAATAAA
16810840 AATAA
1 AATAA
16810845 CACTCTCCCT
Statistics
Matches: 117, Mismatches: 25, Indels: 35
0.66 0.14 0.20
Matches are distributed among these distances:
22 3 0.03
23 29 0.25
24 2 0.02
25 14 0.12
26 24 0.21
27 20 0.17
28 18 0.15
29 4 0.03
30 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (24 bp):
AATAATAATAATAAAAATAATAAA
Found at i:16810697 original size:14 final size:15
Alignment explanation
Indices: 16810679--16810717 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
16810669 ATAATATATT
16810679 AATAAAAATAAT-AA
1 AATAAAAATAATAAA
*
16810693 TATAAAAATAATAAA
1 AATAAAAATAATAAA
16810708 AATAAAAATA
1 AATAAAAATA
16810718 TGTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:16810702 original size:20 final size:21
Alignment explanation
Indices: 16810665--16810712 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16810655 AGAAGACAAT
**
16810665 AATAATAATATATTAATAA-A
1 AATAATAATATAAAAATAATA
16810685 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
16810706 AA-AATAA
1 AATAATAA
16810713 AAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Found at i:16810742 original size:14 final size:13
Alignment explanation
Indices: 16810724--16810844 Score: 64
Period size: 14 Copynumber: 9.5 Consensus size: 13
16810714 AATATGTTTC
16810724 TAATAATAATAAA
1 TAATAATAATAAA
*
16810737 TCAATAATGAT-AA
1 T-AATAATAATAAA
16810750 T-A-AATATATACAA
1 TAATAATA-ATA-AA
*
16810763 -AATAATAGTAACA
1 TAATAATAATAA-A
16810776 GTAATAA-AATAAGTA
1 -TAATAATAATAA--A
16810791 TAAT-ATAATAAA
1 TAATAATAATAAA
16810803 T-ATAATAAT-AA
1 TAATAATAATAAA
16810814 TAATATATAAT-AA
1 TAATA-ATAATAAA
* *
16810827 TAACAATATTAAA
1 TAATAATAATAAA
16810840 -AATAA
1 TAATAA
16810845 CACTCTCCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
10 3 0.04
11 8 0.09
12 19 0.22
13 24 0.28
14 25 0.29
15 6 0.07
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:16810786 original size:20 final size:18
Alignment explanation
Indices: 16810761--16810809 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
16810751 AAATATATAC
16810761 AAAATAATAGTAACAGTAAT
1 AAAATAATA-TAACA-TAAT
*
16810781 AAAATAAGTATAATATAAT
1 AAAATAA-TATAACATAAT
16810800 AAATATAATA
1 AAA-ATAATA
16810810 ATAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.35
20 15 0.58
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATAATATAACATAAT
Found at i:16811099 original size:17 final size:17
Alignment explanation
Indices: 16811077--16811134 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
16811067 TTTGTAGGCA
16811077 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
*
16811094 AGT--GG-GATGG-TTT
1 AGTGGGGTGATGGAGTT
* *
16811107 AATTGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
16811124 AGTGGGGTGAT
1 AGTGGGGTGAT
16811135 TTAGTAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
13 4 0.12
14 5 0.16
15 4 0.12
16 5 0.16
17 14 0.44
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:16811145 original size:30 final size:30
Alignment explanation
Indices: 16811081--16811145 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
16811071 TAGGCAAGTG
* *
16811081 GGGTGATGGAGTTAGTGGGATGGTTTAATT
1 GGGTGATGGAGTTAGTGGGATGATTTAATA
* *
16811111 GGGTGATGGAGTTAGTGGGGTGATTTAGTA
1 GGGTGATGGAGTTAGTGGGATGATTTAATA
16811141 GGGTG
1 GGGTG
16811146 TGGGGGTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (30 bp):
GGGTGATGGAGTTAGTGGGATGATTTAATA
Found at i:16812539 original size:21 final size:21
Alignment explanation
Indices: 16812513--16812553 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16812503 TAACAGGAGT
16812513 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
16812534 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
16812554 TGTCACGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:16812831 original size:15 final size:15
Alignment explanation
Indices: 16812795--16812841 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
16812785 ACAAAAAACC
*
16812795 AGAGGAA-AAGAAGT
1 AGAGGAAGAAGAAGA
16812809 AGAGGAAGAAGAAGA
1 AGAGGAAGAAGAAGA
* * *
16812824 AGATGAAGCAGTAGA
1 AGAGGAAGAAGAAGA
16812839 AGA
1 AGA
16812842 AGGAGCAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.55, C:0.02, G:0.36, T:0.06
Consensus pattern (15 bp):
AGAGGAAGAAGAAGA
Found at i:16813846 original size:20 final size:20
Alignment explanation
Indices: 16813809--16813846 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16813799 TGATGGGGAG
*
16813809 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
16813829 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
16813847 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:16815799 original size:46 final size:46
Alignment explanation
Indices: 16815746--16815973 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
16815736 AGTGTGCTCT
* *
16815746 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
16815792 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16815838 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
16815884 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16815930 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16815974 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16822113 original size:13 final size:13
Alignment explanation
Indices: 16822095--16822121 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16822085 CAATAGCCAG
16822095 TTATTTCATTCAA
1 TTATTTCATTCAA
16822108 TTATTTCATTCAA
1 TTATTTCATTCAA
16822121 T
1 T
16822122 GATCCAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTTCATTCAA
Found at i:16822595 original size:6 final size:6
Alignment explanation
Indices: 16822580--16822621 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
16822570 TGGTGGGGGA
* * *
16822580 GGTGGT GGTGGC GGTGGC GGTGGC GGTGGA GGTGGG GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
16822622 AAAGGCGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.10, G:0.69, T:0.19
Consensus pattern (6 bp):
GGTGGC
Found at i:16822595 original size:12 final size:12
Alignment explanation
Indices: 16822568--16822620 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
16822558 TGGCGGCTTA
* *
16822568 GGTGGTGGGGGA
1 GGTGGTGGTGGC
16822580 GGTGGTGGTGGC
1 GGTGGTGGTGGC
*
16822592 GGTGGCGGTGGC
1 GGTGGTGGTGGC
* *
16822604 GGTGGAGGTGGG
1 GGTGGTGGTGGC
16822616 GGTGG
1 GGTGG
16822621 CAAAGGCGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.04, C:0.06, G:0.72, T:0.19
Consensus pattern (12 bp):
GGTGGTGGTGGC
Found at i:16824189 original size:42 final size:42
Alignment explanation
Indices: 16824082--16824164 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
16824072 AAAAGAAAAG
* *
16824082 AAATTGGTTGACAATGATGAGATTGAACCTTTTTTCCACATT
1 AAATTGATTGACAATGACGAGATTGAACCTTTTTTCCACATT
16824124 AAATTGATTGACAATGACGAGATTGAA-CTTTTTTCCACATT
1 AAATTGATTGACAATGACGAGATTGAACCTTTTTTCCACATT
16824165 TAAAATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 14 0.36
42 25 0.64
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (42 bp):
AAATTGATTGACAATGACGAGATTGAACCTTTTTTCCACATT
Found at i:16829867 original size:15 final size:16
Alignment explanation
Indices: 16829849--16829879 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16829839 TTCAAGAGCA
16829849 AAAGGA-AAACATTTG
1 AAAGGAGAAACATTTG
16829864 AAAGGAGAAACATTTG
1 AAAGGAGAAACATTTG
16829880 CATGGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
AAAGGAGAAACATTTG
Found at i:16839148 original size:6 final size:6
Alignment explanation
Indices: 16839137--16839161 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16839127 ATGTTGGTCC
16839137 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
16839162 CAGAACATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:16839809 original size:20 final size:21
Alignment explanation
Indices: 16839772--16839811 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16839762 GCAGTGTACC
*
16839772 AAATATTTTTCATTATTTTAA
1 AAATATTTTTCATCATTTTAA
16839793 AAATATTTTT-ATCATTTTA
1 AAATATTTTTCATCATTTTA
16839812 TATCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATTTTTCATCATTTTAA
Found at i:16851994 original size:5 final size:6
Alignment explanation
Indices: 16851964--16851992 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16851954 TCCTTAAATT
16851964 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
16851993 TAGATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:16862034 original size:114 final size:113
Alignment explanation
Indices: 16861715--16862268 Score: 885
Period size: 114 Copynumber: 4.9 Consensus size: 113
16861705 CAATAAGCAA
* * * *
16861715 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
16861780 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
16861828 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
16861893 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
16861941 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
* *
16862006 TGTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * **
16862055 TAGCGGCGTTTTTGAGATAGCGCTGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCTT
* *
16862120 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
16862170 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* *
16862235 CG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
16862269 AAAAAACCTA
Statistics
Matches: 412, Mismatches: 25, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
113 157 0.38
114 165 0.40
115 90 0.22
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:16862109 original size:227 final size:228
Alignment explanation
Indices: 16861715--16862268 Score: 898
Period size: 227 Copynumber: 2.4 Consensus size: 228
16861705 CAATAAGCAA
* * *
16861715 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTTT
*
16861780 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAGA
*
16861845 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAG-TTTTGTGAGCTTT-GTGGATTTAGCGGCA
131 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
*
16861908 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
196 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
16861941 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
*
16862006 TGTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAG
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAG
* * * **
16862071 ATAGCGCTGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
130 AAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGC
*
16862136 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
195 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
* * *
16862170 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTTT
* *
16862235 CG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
16862269 AAAAAACCTA
Statistics
Matches: 304, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
226 24 0.08
227 131 0.43
228 51 0.17
229 98 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (228 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTGAGA
AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAGCGGCA
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:16862253 original size:73 final size:73
Alignment explanation
Indices: 16862168--16862326 Score: 228
Period size: 73 Copynumber: 2.2 Consensus size: 73
16862158 TGCTCAGGGC
* * *
16862168 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
16862233 TTCGGAGA
66 TTCGGAGA
* * * * *
16862241 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
*
16862306 TTCGGGGA
66 TTCGGAGA
*
16862314 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
16862327 AATTGATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGAGA
Found at i:16862711 original size:17 final size:17
Alignment explanation
Indices: 16862680--16862723 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
16862670 TAGGGAGTAT
16862680 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
16862695 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
16862712 TTATGGTTTAAT
1 TTATGGATTAAT
16862724 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:16863027 original size:14 final size:15
Alignment explanation
Indices: 16862997--16863034 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16862987 CTACTATATA
16862997 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
16863012 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
16863026 TATGG-TTTA
1 TATGGATTTA
16863035 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:16863082 original size:15 final size:14
Alignment explanation
Indices: 16863057--16863088 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
16863047 TGGTCGAGAT
16863057 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
16863071 TTAAGAGTTTAGGGG
1 TTAAG-GTTTAGGGG
16863086 TTA
1 TTA
16863089 GACGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:16863125 original size:29 final size:30
Alignment explanation
Indices: 16863054--16863125 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
16863044 CGTTGGTCGA
* *
16863054 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
* * *
16863084 G-GTTAGACG-TTAGTGGCTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGCTAAGAGTTTAGG
16863112 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
16863126 AGTTTTAAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
28 7 0.22
29 23 0.72
30 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
Found at i:16863595 original size:47 final size:46
Alignment explanation
Indices: 16863530--16863630 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
16863520 AATAATGAAA
* *
16863530 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
16863577 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
16863624 TAAAAAA
1 TAAAAAA
16863631 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:16866754 original size:14 final size:14
Alignment explanation
Indices: 16866735--16866764 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16866725 ACATAAAGCA
16866735 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
16866749 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
16866763 AC
1 AC
16866765 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:16867947 original size:15 final size:15
Alignment explanation
Indices: 16867927--16867956 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16867917 GAGTTGAAAG
16867927 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
16867942 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
16867957 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:16868200 original size:23 final size:23
Alignment explanation
Indices: 16868173--16868228 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
16868163 ACTAAAAGTA
*
16868173 TATATTTAATACTAATTAATTTT
1 TATATTTAATAATAATTAATTTT
** *
16868196 TATA-TTAATAATGTTTTATTTT
1 TATATTTAATAATAATTAATTTT
*
16868218 AATATTTAATA
1 TATATTTAATA
16868229 TTTCTAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTAATAATAATTAATTTT
Found at i:16868207 original size:15 final size:16
Alignment explanation
Indices: 16868189--16868221 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16868179 TAATACTAAT
16868189 TAAT-TTTTATATTAA
1 TAATGTTTTATATTAA
*
16868204 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
16868220 TA
1 TA
16868222 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:16868400 original size:43 final size:44
Alignment explanation
Indices: 16868297--16868411 Score: 153
Period size: 43 Copynumber: 2.6 Consensus size: 44
16868287 TGTTTTTAGC
* * *
16868297 GGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATATATAGT
1 GGCGTTTGTAGTAAAAGCGTCGCTAAAGGTCTTTGAGATATAGT
* *
16868341 GGCGTTTGTGGTAAAAGCGTCGCTAAAGGTC-TTGAGCTATAGT
1 GGCGTTTGTAGTAAAAGCGTCGCTAAAGGTCTTTGAGATATAGT
*
16868384 GGCGTTTGTTAG-AAAAGCGCCGCTAAAG
1 GGCGTTTG-TAGTAAAAGCGTCGCTAAAG
16868412 ATCCCAAGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 33 0.52
44 30 0.48
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (44 bp):
GGCGTTTGTAGTAAAAGCGTCGCTAAAGGTCTTTGAGATATAGT
Found at i:16868425 original size:43 final size:43
Alignment explanation
Indices: 16868335--16868455 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
16868325 GTCTTTGATA
* * * ***
16868335 TATAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGC
1 TATAGTGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCCAAGC
*
16868378 TATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGT
1 TATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGC
* * **
16868421 TATAGCGGCGTTTATTTCTAAAAGCGCCGCTAAAG
1 TATAGTGGCGTTT-GTTAGAAAAGCGCCGCTAAAG
16868456 TTTGCGGCGA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 45 0.69
44 20 0.31
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
TATAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGC
Found at i:16870328 original size:29 final size:29
Alignment explanation
Indices: 16870258--16870329 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
16870248 AGAAAATATC
16870258 CAGTGCACTCTCTATTCTATTAATGCATTT
1 CAGTGCA-TCTCTATTCTATTAATGCATTT
* *
16870288 CAGTGCCA-CTCTGTTCTATTTATGCACTTT
1 CAGTG-CATCTCTATTCTATTAATGCA-TTT
*
16870318 -GGTGCATCTCTA
1 CAGTGCATCTCTA
16870330 CATTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 2 0.06
29 23 0.66
30 8 0.23
31 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (29 bp):
CAGTGCATCTCTATTCTATTAATGCATTT
Found at i:16870755 original size:21 final size:19
Alignment explanation
Indices: 16870726--16870799 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
16870716 AAATTGATAG
16870726 ATATTATAATAAAATATAT
1 ATATTATAATAAAATATAT
* * *
16870745 TTACTTAATAATTAAGTATAT
1 ATA-TT-ATAATAAAATATAT
*
16870766 ATATTATAATAATATATA-
1 ATATTATAATAAAATATAT
16870784 ATAATATATAATAAAA
1 AT-AT-TATAATAAAA
16870800 GCAAAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 14 0.33
20 13 0.30
21 14 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (19 bp):
ATATTATAATAAAATATAT
Found at i:16870785 original size:10 final size:10
Alignment explanation
Indices: 16870770--16870797 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16870760 GTATATATAT
16870770 TATAATAATA
1 TATAATAATA
16870780 TATAATAATA
1 TATAATAATA
16870790 TATAATAA
1 TATAATAA
16870798 AAGCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TATAATAATA
Found at i:16871687 original size:41 final size:40
Alignment explanation
Indices: 16871642--16871756 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 40
16871632 ACTTCGAGTT
**
16871642 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAAGCC
* * *
16871683 GATGAGGCACTGGGTGCCAA-TT-TACTTCGG-TTTAGCC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
*
16871720 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTA
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTA
16871757 TCCAATGAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
37 22 0.36
38 10 0.16
40 9 0.15
41 20 0.33
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
Found at i:16871765 original size:40 final size:40
Alignment explanation
Indices: 16871642--16871775 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
16871632 ACTTCGAGTT
* *
16871642 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATCC
* * * *
16871683 GATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAGCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
*
16871720 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
* * *
16871760 AATGAGGCACTAGGTG
1 GATGAGACACTGGGTG
16871776 CCAAAATGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
37 20 0.26
38 10 0.13
39 2 0.03
40 26 0.34
41 18 0.24
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
Found at i:16875246 original size:20 final size:21
Alignment explanation
Indices: 16875213--16875261 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16875203 ACCATTACCG
* * *
16875213 TTATTATTATTATTATTAGTA
1 TTATTTTTACTATTATTAGAA
16875234 -TATTTTTACTATTATTAGAA
1 TTATTTTTACTATTATTAGAA
16875254 TTATTTTT
1 TTATTTTT
16875262 TTAGTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTTTTACTATTATTAGAA
Found at i:16875832 original size:24 final size:23
Alignment explanation
Indices: 16875790--16875850 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
16875780 TCTAATATGT
* * *
16875790 ATATACTATGTAAATATTTTAATA
1 ATATATTATGTATACATTTT-ATA
* *
16875814 ATATATTATGTATACATTTTTTT
1 ATATATTATGTATACATTTTATA
*
16875837 ATATATTACGTATA
1 ATATATTATGTATA
16875851 TATATCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 14 0.45
24 17 0.55
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
ATATATTATGTATACATTTTATA
Found at i:16875865 original size:23 final size:23
Alignment explanation
Indices: 16875814--16875866 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16875804 TATTTTAATA
* *
16875814 ATATATTATGTATACATTTTTTT
1 ATATATTACGTATACATTCTTTT
*
16875837 ATATATTACGTATATATATCTTTT
1 ATATATTACGTATACAT-TCTTTT
16875861 A-ATATT
1 ATATATT
16875867 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (23 bp):
ATATATTACGTATACATTCTTTT
Found at i:16876129 original size:3 final size:3
Alignment explanation
Indices: 16876121--16876153 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
16876111 CGTTTTATAC
16876121 TAT TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
16876154 CGTTTTCGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16876134 original size:15 final size:15
Alignment explanation
Indices: 16876114--16876145 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16876104 TTGTTAACGT
16876114 TTTATACTATTATTA
1 TTTATACTATTATTA
*
16876129 TTTATATTATTATTA
1 TTTATACTATTATTA
16876144 TT
1 TT
16876146 ATTATTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:16879218 original size:29 final size:29
Alignment explanation
Indices: 16879176--16879236 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
16879166 TATGTCCATA
16879176 TCATTCAAAATTCTTTCTACATAACCTAC
1 TCATTCAAAATTCTTTCTACATAACCTAC
16879205 TCATTCAAAATTCTTTCTACATAACCTAC
1 TCATTCAAAATTCTTTCTACATAACCTAC
16879234 TCA
1 TCA
16879237 AAGCTTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (29 bp):
TCATTCAAAATTCTTTCTACATAACCTAC
Found at i:16879434 original size:23 final size:23
Alignment explanation
Indices: 16879402--16879453 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
16879392 CCATGCATCC
16879402 TAACACGTATGCT-ATCCTAAACT
1 TAACACGTATGCTGAT-CTAAACT
* *
16879425 TAACATGTATGCTGATCTAGACT
1 TAACACGTATGCTGATCTAAACT
16879448 TAACAC
1 TAACAC
16879454 ATGCTCGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (23 bp):
TAACACGTATGCTGATCTAAACT
Found at i:16889237 original size:28 final size:28
Alignment explanation
Indices: 16889196--16889250 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16889186 TTTTTTTTGA
* *
16889196 AATTTTCATGAATT-TAATAATTTTAAAG
1 AATTTTCATAAATTAGAAT-ATTTTAAAG
*
16889224 AATTTTTATAAATTAGAATATTTTAAA
1 AATTTTCATAAATTAGAATATTTTAAA
16889251 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (28 bp):
AATTTTCATAAATTAGAATATTTTAAAG
Found at i:16893940 original size:24 final size:26
Alignment explanation
Indices: 16893893--16893941 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
16893883 ATATTAAAAG
*
16893893 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
16893919 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
16893942 GGTATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:16894544 original size:39 final size:39
Alignment explanation
Indices: 16894460--16894598 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
16894450 CTCATGCTAC
* * * **
16894460 TTTGTTTTATTATTAATCAAAAAC-AC-TCCCCATGCTAT
1 TTTGTTTTATTGTTAAT-TAAAACTACTTCTCCATAATAT
* *
16894498 TTTGTTTTACTGTTAATTAAAACTATTTCTCCATAATAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCTCCATAATAT
* *
16894537 TTTGTTTTATTGTTAATTAAAACTACTTCTTCATACTAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCTCCATAATAT
*
16894576 TTTGTTTTATTATTAATTAAAAC
1 TTTGTTTTATTGTTAATTAAAAC
16894599 CATACTTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 5 0.06
38 16 0.18
39 66 0.76
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (39 bp):
TTTGTTTTATTGTTAATTAAAACTACTTCTCCATAATAT
Found at i:16894637 original size:22 final size:23
Alignment explanation
Indices: 16894609--16894659 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
16894599 CATACTTTAT
16894609 TTTTTTTATCAT-AAAAAAAACC
1 TTTTTTTATCATAAAAAAAAACC
16894631 TTTTTTTATCATAAAAAAAAACC
1 TTTTTTTATCATAAAAAAAAACC
16894654 TTTTTT
1 TTTTTT
16894660 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTTTATCATAAAAAAAAACC
Found at i:16894669 original size:23 final size:23
Alignment explanation
Indices: 16894621--16894669 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16894611 TTTTTATCAT
* ** *
16894621 AAAAAAAACCTTTTTTTATCATA
1 AAAAAAAACCTTTTTTAAAAAAA
16894644 AAAAAAAACCTTTTTTAAAAAAA
1 AAAAAAAACCTTTTTTAAAAAAA
16894667 AAA
1 AAA
16894670 CAACAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAAAAACCTTTTTTAAAAAAA
Found at i:16896173 original size:21 final size:21
Alignment explanation
Indices: 16896139--16896182 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16896129 AAATCTCTAC
*
16896139 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
16896160 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
16896181 AA
1 AA
16896183 GCTCTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:16897170 original size:16 final size:17
Alignment explanation
Indices: 16897144--16897186 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
16897134 ATATATATAT
*
16897144 AAAAAGTAAAATGAATA-
1 AAAAAG-AAAAAGAATAG
16897161 AAAAAGAAAAAGAATAG
1 AAAAAGAAAAAGAATAG
16897178 AAAAAGAAA
1 AAAAAGAAA
16897187 GAAAGGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAAAGAATAG
Found at i:16897255 original size:16 final size:16
Alignment explanation
Indices: 16897217--16897249 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16897207 AGAGCAGGGG
*
16897217 AAAGAAAGAAGTAAAA
1 AAAGAAAGAAGGAAAA
16897233 AAAGAAAGAAGGAAAA
1 AAAGAAAGAAGGAAAA
16897249 A
1 A
16897250 GGGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAGGAAAA
Found at i:16899383 original size:46 final size:46
Alignment explanation
Indices: 16899327--16899602 Score: 399
Period size: 46 Copynumber: 6.0 Consensus size: 46
16899317 AGTGTGCTCT
* **
16899327 CTGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
16899373 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
16899419 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
16899465 GTGACATGAAAAGAATTAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
16899511 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
16899557 GTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
16899603 ATGACAGAAA
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16899490 original size:92 final size:92
Alignment explanation
Indices: 16899327--16899602 Score: 444
Period size: 92 Copynumber: 3.0 Consensus size: 92
16899317 AGTGTGCTCT
* * * * **
16899327 CTGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
16899392 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *
16899419 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATTAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
*
16899484 ACCATGGTTGAAAGATACCATGTCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
** *
16899511 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
16899576 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
16899603 ATGACAGAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 169 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:16899581 original size:138 final size:138
Alignment explanation
Indices: 16899344--16899650 Score: 454
Period size: 138 Copynumber: 2.2 Consensus size: 138
16899334 GAAATGTGTA
**
16899344 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
* * ** * *
16899409 CCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGA
66 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GA
16899474 AAA-GAATT
130 AAATGAATT
*
16899482 AGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
1 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
16899547 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
66 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
16899612 AATGAATGAGT
131 AATGAAT---T
* * *
16899623 AAGACCATAGTTGAAAGACACTATGGCA
1 -AGACCATGGTTGAAAGATACCATGGCA
16899651 TCATGTCAAA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
137 5 0.03
138 122 0.81
141 1 0.01
142 23 0.15
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
AATGAATT
Found at i:16899608 original size:46 final size:46
Alignment explanation
Indices: 16899342--16899650 Score: 395
Period size: 46 Copynumber: 6.6 Consensus size: 46
16899332 GTGAAATGTG
* * * **
16899342 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * **
16899388 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16899434 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * * *
16899480 TTAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16899526 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
16899572 TAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
16899621 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
16899651 TCATGTCAAA
Statistics
Matches: 237, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 205 0.86
47 1 0.00
49 1 0.00
50 25 0.11
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:16902865 original size:44 final size:45
Alignment explanation
Indices: 16902815--16902917 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
16902805 TGTCTTTGAC
* * *
16902815 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
** * * *
16902859 ATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATA-TTATAAT
16902905 ATGGACTTACATG
1 ATGGACTTACATG
16902918 GTTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
Found at i:16904784 original size:21 final size:21
Alignment explanation
Indices: 16904760--16904803 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16904750 TCGGAGTAAT
16904760 CACAATCCCCGCAGAAGCAAC
1 CACAATCCCCGCAGAAGCAAC
* * *
16904781 CACAATCCTCGCCGGAGCAAC
1 CACAATCCCCGCAGAAGCAAC
16904802 CA
1 CA
16904804 AAGAGGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.43, G:0.16, T:0.07
Consensus pattern (21 bp):
CACAATCCCCGCAGAAGCAAC
Found at i:16906446 original size:126 final size:126
Alignment explanation
Indices: 16906171--16906672 Score: 618
Period size: 126 Copynumber: 4.0 Consensus size: 126
16906161 GGCCAATCAT
* ** *** *
16906171 GAACTACTGTAGAAAAAGATCGTCCACG-TAGGAACTTTTTTCACAAATTTTGCTGACATTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTTA-GAGTTTTTTTCTGTAATTTTGCTGACAGTGCAT
* * *
16906235 CCTGTTTGAAGCGTTTTTGACACTATTTGTT-AAAAATATCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
16906296 GAACTACTGTAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * *
16906361 CTGCTTGAAGCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTAAAAATTATTTTTTCAT
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * *
16906422 AAATTACTGTAGAAAAAGAGCGTCCACGTGGTA-ACTTTTTTCCT-TAATTTTACTGACTGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGT--TAGAGTTTTTTTCTGTAATTTTGCTGACAGTGCA
* * * * * *
16906485 TCCTACTTGAAGCGTTTTTTACAGTATTTGTTCAGAAACGTCTTCTTAAAATTATTTTTTTAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * *
16906548 GAACTACTGTAGAAAATGAGCGTTCACGTGAGAGCTTTTTTT-TGTATTTTTGCTAACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTTAGAG-TTTTTTTCTGTAATTTTGCTGACAGTGCAT
* *
16906612 CCTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCA
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
16906673 ACGTACAAAA
Statistics
Matches: 324, Mismatches: 46, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
124 1 0.00
125 84 0.26
126 228 0.70
127 9 0.03
128 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:16906664 original size:252 final size:251
Alignment explanation
Indices: 16906175--16906672 Score: 707
Period size: 252 Copynumber: 2.0 Consensus size: 251
16906165 AATCATGAAC
* * **
16906175 TACTGTAGAAAAAGATCGTCCACGTAGGAACTTTTTTCACAAATTTTGCTGACATTGCATCCTGT
1 TACTGTAGAAAAAGAGCGTCCACGTAGGAACTTTTTTCACAAATTTTACTGACATTGCATCCTAC
*
16906240 TTGAAGCGTTTTTGACACTATTTGTTAAAAATATCTTCTCAAAATTATTTTTTCAGGAACTACTG
66 TTGAAGCGTTTTTGACACTATTTGTTAAAAACATCTTCTCAAAATTATTTTTTCAGGAACTACTG
* * *
16906305 TAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTGACAGTGCATCCTGCTTGAA
131 TAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTCTGTAATTTTGCTAACAATGCATCCTGCTTGAA
* * *
16906370 GCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTAAAAATTATTTTTTCATAAAT
196 GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCATAAAT
*
16906426 TACTGTAGAAAAAGAGCGTCCACGT-GGTAACTTTTTTC-CTTAATTTTACTGAC-TGTGCATCC
1 TACTGTAGAAAAAGAGCGTCCACGTAGG-AACTTTTTTCAC-AAATTTTACTGACAT-TGCATCC
* * * * * *
16906488 TACTTGAAGCGTTTTTTACAGTATTTGTTCAGAAACGTCTTCTTAAAATTATTTTTTTAGGAACT
63 TACTTGAAGCGTTTTTGACACTATTTGTT-AAAAACATCTTCTCAAAATTATTTTTTCAGGAACT
* * *
16906553 ACTGTAGAAAATGAGCGTTCACGTGAGAGCTTTTTTT-TGTATTTTTGCTAACAATGCATCCTGC
127 ACTGTAGAAAAAGAGCGTCCACGTGAGAG-TTTTTTTCTGTAATTTTGCTAACAATGCATCCTGC
* * *
16906617 TTGAAGTGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCA
191 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCA
16906673 ACGTACAAAA
Statistics
Matches: 218, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
250 4 0.02
251 77 0.35
252 130 0.60
253 7 0.03
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (251 bp):
TACTGTAGAAAAAGAGCGTCCACGTAGGAACTTTTTTCACAAATTTTACTGACATTGCATCCTAC
TTGAAGCGTTTTTGACACTATTTGTTAAAAACATCTTCTCAAAATTATTTTTTCAGGAACTACTG
TAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTCTGTAATTTTGCTAACAATGCATCCTGCTTGAA
GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCATAAAT
Found at i:16909102 original size:34 final size:34
Alignment explanation
Indices: 16909042--16909113 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
16909032 AAACCCTAAT
*
16909042 TTAATTTATTTAAAACACTAGGACCCTAATTTAC
1 TTAATTTATTTAAAACACTAGAACCCTAATTTAC
*
16909076 TTAATTTATTTAAAA-ACCATA-AACCCTAATTTAT
1 TTAATTTATTTAAAACA-C-TAGAACCCTAATTTAC
16909110 TTAA
1 TTAA
16909114 ATCACTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 31 0.91
35 2 0.06
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (34 bp):
TTAATTTATTTAAAACACTAGAACCCTAATTTAC
Found at i:16912014 original size:211 final size:211
Alignment explanation
Indices: 16911650--16912075 Score: 843
Period size: 211 Copynumber: 2.0 Consensus size: 211
16911640 GGAAAGCTTC
*
16911650 ACATTTCATTCACTTCATAATATGTGAAACAACCATAGCCCCGTGACTAAGTAAAGCAATGAATG
1 ACATTTCATTCACTTCACAATATGTGAAACAACCATAGCCCCGTGACTAAGTAAAGCAATGAATG
16911715 CCAAAAATTTAAATACTGAACAGTGGAGTTTTCTTACACGAAAAAATAATTAAATAAATTGTAAT
66 CCAAAAATTTAAATACTGAACAGTGGAGTTTTCTTACACGAAAAAATAATTAAATAAATTGTAAT
16911780 AAAAATGTCACAAGTTTCCTATCAGACCTCCCTCAATTTGATCAAAGGTACTATGCCAATTCTTA
131 AAAAATGTCACAAGTTTCCTATCAGACCTCCCTCAATTTGATCAAAGGTACTATGCCAATTCTTA
16911845 TCTTCTTAGTCAAACA
196 TCTTCTTAGTCAAACA
16911861 ACATTTCATTCACTTCACAATATGTGAAACAACCATAGCCCCGTGACTAAGTAAAGCAATGAATG
1 ACATTTCATTCACTTCACAATATGTGAAACAACCATAGCCCCGTGACTAAGTAAAGCAATGAATG
16911926 CCAAAAATTTAAATACTGAACAGTGGAGTTTTCTTACACGAAAAAATAATTAAATAAATTGTAAT
66 CCAAAAATTTAAATACTGAACAGTGGAGTTTTCTTACACGAAAAAATAATTAAATAAATTGTAAT
16911991 AAAAATGTCACAAGTTTCCTATCAGACCTCCCTCAATTTGATCAAAGGTACTATGCCAATTCTTA
131 AAAAATGTCACAAGTTTCCTATCAGACCTCCCTCAATTTGATCAAAGGTACTATGCCAATTCTTA
16912056 TCTTCTTAGTCAAACA
196 TCTTCTTAGTCAAACA
16912072 ACAT
1 ACAT
16912076 GATCTAACAT
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 214 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (211 bp):
ACATTTCATTCACTTCACAATATGTGAAACAACCATAGCCCCGTGACTAAGTAAAGCAATGAATG
CCAAAAATTTAAATACTGAACAGTGGAGTTTTCTTACACGAAAAAATAATTAAATAAATTGTAAT
AAAAATGTCACAAGTTTCCTATCAGACCTCCCTCAATTTGATCAAAGGTACTATGCCAATTCTTA
TCTTCTTAGTCAAACA
Found at i:16919174 original size:12 final size:11
Alignment explanation
Indices: 16919152--16919186 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
16919142 AAAGAGCTAA
16919152 AAATAATTTTT
1 AAATAATTTTT
16919163 AAATATATTTTT
1 AAATA-ATTTTT
*
16919175 AAAAAATTTTT
1 AAATAATTTTT
16919186 A
1 A
16919187 GAGTTAGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:16919260 original size:61 final size:61
Alignment explanation
Indices: 16919181--16919308 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 61
16919171 TTTTAAAAAA
* * * * * *
16919181 TTTTTAGAGTTAGGACTAAATTGACATATTTTGTAAATATTGAGGGCCA-AAATTTATTG-AT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACATTAAGGG--ATAAATTTATTGAAT
*
16919242 TTTTTAGAATT-GGAACTAAAATGATAAATTTTATAAACATTAAGGGATAAATTTATTGAAT
1 TTTTTAGAATTAGG-ACTAAAATGACAAATTTTATAAACATTAAGGGATAAATTTATTGAAT
16919303 TTTTTA
1 TTTTTA
16919309 TACTTAAGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 12 0.21
61 44 0.77
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACATTAAGGGATAAATTTATTGAAT
Found at i:16926685 original size:18 final size:19
Alignment explanation
Indices: 16926662--16926698 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16926652 AAATAAATAT
*
16926662 AATAAAA-CAAGATTTTAA
1 AATAAAATCAACATTTTAA
16926680 AATAAAATCAACATTTTAA
1 AATAAAATCAACATTTTAA
16926699 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (19 bp):
AATAAAATCAACATTTTAA
Found at i:16936749 original size:11 final size:11
Alignment explanation
Indices: 16936725--16936754 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16936715 TAATACTTTT
16936725 ATATTTAA-AA
1 ATATTTAATAA
16936735 ATATTTAATAA
1 ATATTTAATAA
16936746 ATATTTAAT
1 ATATTTAAT
16936755 CTACATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTTAATAA
Found at i:16941725 original size:15 final size:16
Alignment explanation
Indices: 16941705--16941737 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16941695 TCCAACATGA
16941705 GGCAAATTGTGAG-GG
1 GGCAAATTGTGAGAGG
16941720 GGCAAATTGTGAGAGG
1 GGCAAATTGTGAGAGG
16941736 GG
1 GG
16941738 AGCCCATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.27, C:0.06, G:0.48, T:0.18
Consensus pattern (16 bp):
GGCAAATTGTGAGAGG
Found at i:16951721 original size:27 final size:26
Alignment explanation
Indices: 16951691--16951772 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
16951681 CTCAATAGTA
16951691 TTTAATATTTTTTTTAATTTATGCAAT
1 TTTAATATTTTTTTTAATTTA-GCAAT
* *
16951718 TTTAAT-TAATTTTTCAA--TA-C-AT
1 TTTAATAT-TTTTTTTAATTTAGCAAT
*
16951740 TTTAATATTTTTTTTCATTTAAGCAAT
1 TTTAATATTTTTTTTAATTT-AGCAAT
16951767 TTTAAT
1 TTTAAT
16951773 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 14 0.33
23 2 0.05
24 1 0.02
25 3 0.07
26 2 0.05
27 21 0.49
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTAATATTTTTTTTAATTTAGCAAT
Found at i:16952730 original size:7 final size:7
Alignment explanation
Indices: 16952718--16952757 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
16952708 TACTCGTTTC
16952718 GTATTTA
1 GTATTTA
16952725 GTATTTA
1 GTATTTA
*
16952732 ATATTTA
1 GTATTTA
16952739 GTATTTA
1 GTATTTA
16952746 GTATTTA
1 GTATTTA
*
16952753 ATATT
1 GTATT
16952758 ATGTATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:16952763 original size:21 final size:21
Alignment explanation
Indices: 16952718--16952757 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16952708 TACTCGTTTC
16952718 GTATTTAGTATTTAATATTTA
1 GTATTTAGTATTTAATATTTA
16952739 GTATTTAGTATTTAATATT
1 GTATTTAGTATTTAATATT
16952758 ATGTATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
GTATTTAGTATTTAATATTTA
Found at i:16953301 original size:30 final size:30
Alignment explanation
Indices: 16953234--16953302 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
16953224 GGATAACGAC
* *
16953234 CCGGGCCCATCAATAATGCCCATACAATCA
1 CCGGGCCCATCAATAACGCCCACACAATCA
* * * *
16953264 GCTGGCCCATCAATAGCGCCCACACAGTCA
1 CCGGGCCCATCAATAACGCCCACACAATCA
16953294 CCGGGCCCA
1 CCGGGCCCA
16953303 ACACTTCAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.41, G:0.19, T:0.13
Consensus pattern (30 bp):
CCGGGCCCATCAATAACGCCCACACAATCA
Found at i:16953870 original size:56 final size:56
Alignment explanation
Indices: 16953809--16953946 Score: 258
Period size: 56 Copynumber: 2.5 Consensus size: 56
16953799 TTCTTTCATT
16953809 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTCGTATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTCGTATTTG
*
16953865 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTCGTATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTCGTATTTG
*
16953921 TAATAAAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
16953947 AGGAAATATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTCGTATTTG
Found at i:16957132 original size:124 final size:124
Alignment explanation
Indices: 16956982--16957273 Score: 329
Period size: 126 Copynumber: 2.3 Consensus size: 124
16956972 CTACTGTAGA
* * *
16956982 AAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAATGCATAC-CATGAAGCGTT
1 AAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAATGCATACGCATAAAGCATT
* *
16957046 TTTGACACTATTTGTTT-AGAAAGGTAATCTCACAATTATTTT-TTCAGATACCACTGTATC
66 TTTGACACTATTT-TTTCAGAAACGTAATCTCAAAATTATTTTCTT-AGATACCACTGTA-C
* * * * * * *
16957106 AAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTAAATCAT
1 AAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAATGCATAC-GCATAAAGCAT
* ** *
16957171 TTTTTACACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTCTTAGATACCACTGTAG
65 TTTTGACACTATTTTTTCAGAAACGTAATCTCAAAATTATTTTCTTAGATACCACTGTAC
* ** * * *
16957231 AAAAAAAAGTCTACGTGGGAGCATTTTTCAGTAATTTTACTGA
1 AAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGA
16957274 CAGTGCATCC
Statistics
Matches: 140, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
124 47 0.34
125 38 0.27
126 53 0.38
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (124 bp):
AAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAATGCATACGCATAAAGCATT
TTTGACACTATTTTTTCAGAAACGTAATCTCAAAATTATTTTCTTAGATACCACTGTAC
Found at i:16957315 original size:125 final size:125
Alignment explanation
Indices: 16956974--16957363 Score: 403
Period size: 125 Copynumber: 3.1 Consensus size: 125
16956964 AATAGGAACT
** * * * * *
16956974 ACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGAAAATGCATAC--CA
1 ACTGTAGAAAAA-AAAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * * ** *
16957037 TGAAGCGTTTTTGACACTATTTGTTTAGAAAGGTAATCTCACAATTATTTTTTCAGATACC
65 TGAAGTGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACC
* * ** * *
16957098 ACTGTATCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCT
1 ACTGTA-GAAAAAAAAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * *
16957163 T-AAATCATTTTTTACACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTCTT-AGATACC
65 TGAAGT-GTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTT-TTCAGATACC
* * *
16957224 ACTGTAGAAAAAAAAGTCTACGTGGGAGCATTTTTCAGTAATTTTACTGACAGTGCATCCTGCTT
1 ACTGTAGAAAAAAAAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
* * * * *
16957289 GAAGTGTTTTGGATACTATTTCTTCAGAAACTTCTTCTTAAAATT-TTTTTTCCAGATACT
66 GAAGTGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTT-CAGATACC
*
16957349 ACTGAAGAAAAAAAA
1 ACTGTAGAAAAAAAA
16957364 CCAAAAATTT
Statistics
Matches: 220, Mismatches: 38, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
123 2 0.01
124 52 0.24
125 109 0.50
126 55 0.25
127 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
ACTGTAGAAAAAAAAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
GAAGTGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACC
Found at i:16957481 original size:12 final size:12
Alignment explanation
Indices: 16957463--16957505 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
16957453 CTAAACTCGA
16957463 ATTTAATTAATT
1 ATTTAATTAATT
*
16957475 TTTTAATTAA-T
1 ATTTAATTAATT
16957486 ATTTAATTTAATT
1 ATTTAA-TTAATT
*
16957499 AATTAAT
1 ATTTAAT
16957506 CTTAGACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:16957577 original size:30 final size:31
Alignment explanation
Indices: 16957541--16957603 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
16957531 ACCCTTACAA
*
16957541 AAACCATAAATC-CTAAAAAACCCTAACCCT
1 AAACCATAAAACTCTAAAAAACCCTAACCCT
***
16957571 AAACCATAAAACTCTAACCCACCCTAACCCT
1 AAACCATAAAACTCTAAAAAACCCTAACCCT
16957602 AA
1 AA
16957604 TCCCAACAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.16
Consensus pattern (31 bp):
AAACCATAAAACTCTAAAAAACCCTAACCCT
Found at i:16960245 original size:6 final size:6
Alignment explanation
Indices: 16960222--16960261 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
16960212 CTCTGATTTT
16960222 TCTTT- TCTTTC T-TCTTC TCTTTC TCTTTC TCTTTC TCTTT
1 TCTTTC TCTTTC TCT-TTC TCTTTC TCTTTC TCTTTC TCTTT
16960262 ATCCTTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.19
6 25 0.78
7 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TCTTTC
Found at i:16961634 original size:16 final size:16
Alignment explanation
Indices: 16961613--16961645 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16961603 TGAAAAAATG
16961613 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
16961629 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
16961645 A
1 A
16961646 AAAAAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:16961727 original size:17 final size:18
Alignment explanation
Indices: 16961690--16961732 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
16961680 AACACTTTCT
16961690 ATAAATATTTTTTAATAAA
1 ATAAAT-TTTTTTAATAAA
* *
16961709 ATTAATTTTTTTTAT-AA
1 ATAAATTTTTTTAATAAA
16961726 ATAAATT
1 ATAAATT
16961733 ATACTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAAATTTTTTTAATAAA
Found at i:16961753 original size:11 final size:10
Alignment explanation
Indices: 16961727--16961756 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
16961717 TTTTTATAAA
16961727 TAAATTATAC
1 TAAATTATAC
16961737 TAAATTATAC
1 TAAATTATAC
16961747 TACAATTATA
1 TA-AATTATA
16961757 TAATTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAATTATAC
Found at i:16965080 original size:34 final size:35
Alignment explanation
Indices: 16965009--16965080 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
16964999 ATTACTCTAT
*
16965009 TAAATATATTTAAAATATATTTGTAATTATAAATTA
1 TAAATATATCTAAAATATATTTGTAA-TATAAATTA
* *
16965045 TAAATATATCTCAAATATATTTTTAA-ATAAATTA
1 TAAATATATCTAAAATATATTTGTAATATAAATTA
16965079 TA
1 TA
16965081 GTTTAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 10 0.30
36 23 0.70
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (35 bp):
TAAATATATCTAAAATATATTTGTAATATAAATTA
Found at i:16975527 original size:6 final size:6
Alignment explanation
Indices: 16975516--16975544 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16975506 GAGCTTTGTT
16975516 GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
1 GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
16975545 TTGACGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
GGTGAG
Found at i:16980381 original size:12 final size:12
Alignment explanation
Indices: 16980364--16980389 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16980354 ACGAGTTTAG
16980364 AAAAAAAAACAA
1 AAAAAAAAACAA
16980376 AAAAAAAAACAA
1 AAAAAAAAACAA
16980388 AA
1 AA
16980390 CTTATGACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:16982357 original size:20 final size:21
Alignment explanation
Indices: 16982328--16982367 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16982318 CTATAATATT
*
16982328 TTTTATTTTTACC-TAAATTC
1 TTTTACTTTTACCTTAAATTC
*
16982348 TTTTACTTTTCCCTTAAATT
1 TTTTACTTTTACCTTAAATT
16982368 ATTTGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTACTTTTACCTTAAATTC
Found at i:16985214 original size:18 final size:18
Alignment explanation
Indices: 16985171--16985324 Score: 166
Period size: 18 Copynumber: 8.6 Consensus size: 18
16985161 TATCTATATA
*
16985171 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TCAGTT
* *
16985189 GTTTAGTAACAGTCAGTT
1 ATTCAGTAACAGTCAGTT
*
16985207 ATTCAGTAACAGTCATTT
1 ATTCAGTAACAGTCAGTT
* *
16985225 ATTTAGTAACAGTCAATT
1 ATTCAGTAACAGTCAGTT
* *
16985243 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAGTCAGTT
16985261 ATTCAGTAACAGTCAGTT
1 ATTCAGTAACAGTCAGTT
* *
16985279 ATTCAGTAACAGTTAATT
1 ATTCAGTAACAGTCAGTT
* * *
16985297 ATTCAATAGCATTCAGTT
1 ATTCAGTAACAGTCAGTT
*
16985315 ATTTAGTAAC
1 ATTCAGTAAC
16985325 TTTATTTACC
Statistics
Matches: 111, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
18 110 0.99
19 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (18 bp):
ATTCAGTAACAGTCAGTT
Found at i:16985234 original size:54 final size:54
Alignment explanation
Indices: 16985171--16985324 Score: 193
Period size: 54 Copynumber: 2.9 Consensus size: 54
16985161 TATCTATATA
* * * *
16985171 ATTCAGTAAC-GATCAATTGTTTAGTAACAGTCAGTTATTCAGTAACAGTCATTT
1 ATTCAGTAACAG-TCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
* *
16985225 ATTTAGTAACAGTCAATTATTCAGTAATAATCAGTTATTCAGTAACAGTCAGTT
1 ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
* * * * *
16985279 ATTCAGTAACAGTTAATTATTCAATAGCATTCAGTTATTTAGTAAC
1 ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAAC
16985325 TTTATTTACC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 85 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (54 bp):
ATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
Found at i:16985562 original size:44 final size:44
Alignment explanation
Indices: 16985475--16985566 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
16985465 CTAAAGTAAC
*
16985475 AGTAACAGTACGACACACGAAGTGCCTCATCGACACAAAGTCGA
1 AGTAACAGTACGACACACGAAGTGCCTCATCAACACAAAGTCGA
** * **
16985519 AGTAACAGTACGACACTA-TTAGTGCCTCATCAACCCATGGTCGA
1 AGTAACAGTACGACAC-ACGAAGTGCCTCATCAACACAAAGTCGA
16985563 AGTA
1 AGTA
16985567 TCTCTGTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (44 bp):
AGTAACAGTACGACACACGAAGTGCCTCATCAACACAAAGTCGA
Found at i:16986910 original size:5 final size:6
Alignment explanation
Indices: 16986884--16986908 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16986874 TATATAATAT
16986884 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
16986909 TATCTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:17006044 original size:672 final size:672
Alignment explanation
Indices: 17005155--17006503 Score: 2698
Period size: 672 Copynumber: 2.0 Consensus size: 672
17005145 GAAACCAATG
17005155 TTAAACAGTTGATTAAGTTCATTGGCGGTTTTCTTTTTTTACTTTTATGGTAAACTCATTTTAGC
1 TTAAACAGTTGATTAAGTTCATTGGCGGTTTTCTTTTTTTACTTTTATGGTAAACTCATTTTAGC
17005220 AAATTTCTCGATAACCACTTGATAAACAAGGTTACCCTTATGATTCGAAGCTACGTAGGTACACA
66 AAATTTCTCGATAACCACTTGATAAACAAGGTTACCCTTATGATTCGAAGCTACGTAGGTACACA
17005285 ATCGAATAACACGCATGGGTTTTTGAGATGAAGACCCGTCGTAGCTAGAGTTATAGCTGGATATA
131 ATCGAATAACACGCATGGGTTTTTGAGATGAAGACCCGTCGTAGCTAGAGTTATAGCTGGATATA
17005350 AGAAAACAAGATGCAACAACCAAAGGAAAAGAAAGGGTAGACCCAAAAGCAAATGTGGACGAGCA
196 AGAAAACAAGATGCAACAACCAAAGGAAAAGAAAGGGTAGACCCAAAAGCAAATGTGGACGAGCA
17005415 ACAATCAGATCGTCAATGGAGAAATGACGACTGAAACGATATCTCGGCCTTCGGTTTTGATATAC
261 ACAATCAGATCGTCAATGGAGAAATGACGACTGAAACGATATCTCGGCCTTCGGTTTTGATATAC
17005480 CTCAATGTTCCCTATGAAGAGACAATCGTATAAGCCGCCTCTTCACTTTTAAAACCGAACAGAGG
326 CTCAATGTTCCCTATGAAGAGACAATCGTATAAGCCGCCTCTTCACTTTTAAAACCGAACAGAGG
17005545 TTTTCTGACGAAAGTCTGAGTACTGAATAAAGAAAAAGAACCCCATAAAAAAGAACAAAAGAGAG
391 TTTTCTGACGAAAGTCTGAGTACTGAATAAAGAAAAAGAACCCCATAAAAAAGAACAAAAGAGAG
17005610 CAAAAACAGACATAAGAAATTCTACAAGCGACAGAAACGAGCAGAATAAAAATAGAGAAGCATTG
456 CAAAAACAGACATAAGAAATTCTACAAGCGACAGAAACGAGCAGAATAAAAATAGAGAAGCATTG
17005675 GCAGCAGGGATGGTGTTTTTATATATGGGTTTCTATAGAGGCCTAACCCTAGAGACGCTGCTGCC
521 GCAGCAGGGATGGTGTTTTTATATATGGGTTTCTATAGAGGCCTAACCCTAGAGACGCTGCTGCC
17005740 AATGACTTATCTGATCATAATAATACACCCTTCTTTAATTATTAAAGTTTGAATGGGCTATTAGA
586 AATGACTTATCTGATCATAATAATACACCCTTCTTTAATTATTAAAGTTTGAATGGGCTATTAGA
17005805 GTTGGGGCATGGCCTAATCCAT
651 GTTGGGGCATGGCCTAATCCAT
17005827 TTAAACAGTTGATTAAGTTCATTGGCGGTTTTCTTTTTTTACTTTTATGGTAAACTCATTTTAGC
1 TTAAACAGTTGATTAAGTTCATTGGCGGTTTTCTTTTTTTACTTTTATGGTAAACTCATTTTAGC
17005892 AAATTTCTCGATAACCACTTGATAAACAAGGTTACCCTTATGATTCGAAGCTACGTAGGTACACA
66 AAATTTCTCGATAACCACTTGATAAACAAGGTTACCCTTATGATTCGAAGCTACGTAGGTACACA
17005957 ATCGAATAACACGCATGGGTTTTTGAGATGAAGACCCGTCGTAGCTAGAGTTATAGCTGGATATA
131 ATCGAATAACACGCATGGGTTTTTGAGATGAAGACCCGTCGTAGCTAGAGTTATAGCTGGATATA
17006022 AGAAAACAAGATGCAACAACCAAAGGAAAAGAAAGGGTAGACCCAAAAGCAAATGTGGACGAGCA
196 AGAAAACAAGATGCAACAACCAAAGGAAAAGAAAGGGTAGACCCAAAAGCAAATGTGGACGAGCA
17006087 ACAATCAGATCGTCAATGGAGAAATGACGACTGAAACGATATCTCGGCCTTCGGTTTTGATATAC
261 ACAATCAGATCGTCAATGGAGAAATGACGACTGAAACGATATCTCGGCCTTCGGTTTTGATATAC
17006152 CTCAATGTTCCCTATGAAGAGACAATCGTATAAGCCGCCTCTTCACTTTTAAAACCGAACAGAGG
326 CTCAATGTTCCCTATGAAGAGACAATCGTATAAGCCGCCTCTTCACTTTTAAAACCGAACAGAGG
17006217 TTTTCTGACGAAAGTCTGAGTACTGAATAAAGAAAAAGAACCCCATAAAAAAGAACAAAAGAGAG
391 TTTTCTGACGAAAGTCTGAGTACTGAATAAAGAAAAAGAACCCCATAAAAAAGAACAAAAGAGAG
17006282 CAAAAACAGACATAAGAAATTCTACAAGCGACAGAAACGAGCAGAATAAAAATAGAGAAGCATTG
456 CAAAAACAGACATAAGAAATTCTACAAGCGACAGAAACGAGCAGAATAAAAATAGAGAAGCATTG
17006347 GCAGCAGGGATGGTGTTTTTATATATGGGTTTCTATAGAGGCCTAACCCTAGAGACGCTGCTGCC
521 GCAGCAGGGATGGTGTTTTTATATATGGGTTTCTATAGAGGCCTAACCCTAGAGACGCTGCTGCC
17006412 AATGACTTATCTGATCATAATAATACACCCTTCTTTAATTATTAAAGTTTGAATGGGCTATTAGA
586 AATGACTTATCTGATCATAATAATACACCCTTCTTTAATTATTAAAGTTTGAATGGGCTATTAGA
17006477 GTTGGGGCATGGCCTAATCCAT
651 GTTGGGGCATGGCCTAATCCAT
17006499 TTAAA
1 TTAAA
17006504 TAGGGCACTA
Statistics
Matches: 677, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
672 677 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (672 bp):
TTAAACAGTTGATTAAGTTCATTGGCGGTTTTCTTTTTTTACTTTTATGGTAAACTCATTTTAGC
AAATTTCTCGATAACCACTTGATAAACAAGGTTACCCTTATGATTCGAAGCTACGTAGGTACACA
ATCGAATAACACGCATGGGTTTTTGAGATGAAGACCCGTCGTAGCTAGAGTTATAGCTGGATATA
AGAAAACAAGATGCAACAACCAAAGGAAAAGAAAGGGTAGACCCAAAAGCAAATGTGGACGAGCA
ACAATCAGATCGTCAATGGAGAAATGACGACTGAAACGATATCTCGGCCTTCGGTTTTGATATAC
CTCAATGTTCCCTATGAAGAGACAATCGTATAAGCCGCCTCTTCACTTTTAAAACCGAACAGAGG
TTTTCTGACGAAAGTCTGAGTACTGAATAAAGAAAAAGAACCCCATAAAAAAGAACAAAAGAGAG
CAAAAACAGACATAAGAAATTCTACAAGCGACAGAAACGAGCAGAATAAAAATAGAGAAGCATTG
GCAGCAGGGATGGTGTTTTTATATATGGGTTTCTATAGAGGCCTAACCCTAGAGACGCTGCTGCC
AATGACTTATCTGATCATAATAATACACCCTTCTTTAATTATTAAAGTTTGAATGGGCTATTAGA
GTTGGGGCATGGCCTAATCCAT
Found at i:17011862 original size:20 final size:20
Alignment explanation
Indices: 17011839--17011888 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
17011829 AAATCCAAAT
17011839 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
17011859 TAAAATCCTAAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
17011879 TAAAAATACT
1 T-AAAATACT
17011889 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:17014639 original size:27 final size:28
Alignment explanation
Indices: 17014593--17014646 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
17014583 TTGTTTCAAT
17014593 TTTTTTATTTAATAAATATTTT-TTTAA
1 TTTTTTATTTAATAAATATTTTATTTAA
**
17014620 TTTTTTATTTAATACCTATTTTATTTA
1 TTTTTTATTTAATAAATATTTTATTTA
17014647 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTTATTTAATAAATATTTTATTTAA
Found at i:17015645 original size:14 final size:15
Alignment explanation
Indices: 17015606--17015647 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
17015596 GATAATTAAT
17015606 TTTTA-ATTATTCTA
1 TTTTATATTATTCTA
17015620 TTTTAATAATTATT-TA
1 TTTT-AT-ATTATTCTA
17015636 TTTTATATTATT
1 TTTTATATTATT
17015648 AGGGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 6 0.24
17 6 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATATTATTCTA
Found at i:17015648 original size:17 final size:17
Alignment explanation
Indices: 17015609--17015640 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17015599 AATTAATTTT
17015609 TAATTATTCTATTTTAA
1 TAATTATTCTATTTTAA
17015626 TAATTATT-TATTTTA
1 TAATTATTCTATTTTA
17015641 TATTATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTATTCTATTTTAA
Found at i:17022573 original size:13 final size:13
Alignment explanation
Indices: 17022555--17022579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17022545 TTTTTCATTG
17022555 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
17022568 CTTTTGAAAAGT
1 CTTTTGAAAAGT
17022580 GTTGTGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:17022900 original size:21 final size:19
Alignment explanation
Indices: 17022844--17022904 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
17022834 TAATTATTTA
17022844 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
17022863 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
17022882 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
17022903 TT
1 TT
17022905 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:17024963 original size:4 final size:4
Alignment explanation
Indices: 17024954--17024979 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17024944 GAGATGGGGC
17024954 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
17024980 TGAGGAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:17032458 original size:12 final size:12
Alignment explanation
Indices: 17032441--17032465 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17032431 CGCTATCCAT
17032441 CATTATACACTG
1 CATTATACACTG
17032453 CATTATACACTG
1 CATTATACACTG
17032465 C
1 C
17032466 TCATAATTAT
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATTATACACTG
Found at i:17042714 original size:14 final size:14
Alignment explanation
Indices: 17042697--17042723 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17042687 ATAACTTTTA
17042697 GAAAATGATTTATG
1 GAAAATGATTTATG
17042711 GAAAATGATTTAT
1 GAAAATGATTTAT
17042724 TTTTGTGGAA
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:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (14 bp):
GAAAATGATTTATG
Found at i:17043204 original size:15 final size:15
Alignment explanation
Indices: 17043184--17043235 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
17043174 ACTACAAAAC
17043184 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
17043199 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
17043218 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
17043233 ATT
1 ATT
17043236 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:17043354 original size:22 final size:22
Alignment explanation
Indices: 17043329--17043370 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17043319 TATTAAATAA
17043329 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
17043351 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
17043371 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:17047277 original size:14 final size:15
Alignment explanation
Indices: 17047253--17047281 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17047243 GACCGTCCCA
17047253 TATTAATTTTTATAT
1 TATTAATTTTTATAT
17047268 TATT-ATTTTTATAT
1 TATTAATTTTTATAT
17047282 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTAATTTTTATAT
Found at i:17047366 original size:21 final size:20
Alignment explanation
Indices: 17047306--17047366 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
17047296 TATAATACAT
*
17047306 AAAAAATATTAAAAACATTAA
1 AAAAAATTTTAAAAA-ATTAA
* *
17047327 AAAATATTTTTCAACAAATTAA
1 AAAA-AATTTT-AAAAAATTAA
17047349 AAATAAATTTTAAAAAAT
1 AAA-AAATTTTAAAAAAT
17047367 ATACATACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 10 0.31
22 17 0.53
23 5 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATTTTAAAAAATTAA
Found at i:17047790 original size:7 final size:7
Alignment explanation
Indices: 17047778--17047802 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17047768 CATAAATATA
17047778 AATTGAT
1 AATTGAT
17047785 AATTGAT
1 AATTGAT
17047792 AATTGAT
1 AATTGAT
17047799 AATT
1 AATT
17047803 TGGATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
AATTGAT
Found at i:17047939 original size:20 final size:19
Alignment explanation
Indices: 17047916--17047960 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
17047906 ATACATTTTT
17047916 TATTTTATAAATAATTCTAA
1 TATTTTATAAATAATT-TAA
* * *
17047936 TATTTTTTTAATAATTTAT
1 TATTTTATAAATAATTTAA
17047955 TATTTT
1 TATTTT
17047961 CATATAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTATAAATAATTTAA
Found at i:17048195 original size:31 final size:30
Alignment explanation
Indices: 17048124--17048196 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
17048114 ATATATATAT
* *
17048124 AAATTTTAATTTGATATAATTATAAACTTA
1 AAATTTTAATTTGATTTAAATATAAACTTA
* * *
17048154 AAACTCTAATTGTGATTTAAATA-AATATTTA
1 AAATTTTAATT-TGATTTAAATATAA-ACTTA
17048185 AAATTTTAATTT
1 AAATTTTAATTT
17048197 TAATTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
AAATTTTAATTTGATTTAAATATAAACTTA
Found at i:17050062 original size:18 final size:18
Alignment explanation
Indices: 17050039--17050074 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17050029 CCAATACAGG
17050039 ATCTGAATGAAGATGTTT
1 ATCTGAATGAAGATGTTT
17050057 ATCTGAATGAAGATGTTT
1 ATCTGAATGAAGATGTTT
17050075 GTTGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
ATCTGAATGAAGATGTTT
Found at i:17064149 original size:16 final size:15
Alignment explanation
Indices: 17064124--17064153 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17064114 TTTAATGTGA
17064124 CATAATTATATTTAG
1 CATAATTATATTTAG
17064139 CATATATTATATTTA
1 CATA-ATTATATTTA
17064154 AAAAGTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
CATAATTATATTTAG
Found at i:17069293 original size:56 final size:56
Alignment explanation
Indices: 17069207--17069320 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
17069197 CTCACCGCCC
*
17069207 TTTCTATTGTTCCTGTTCCTCAACTCAAAACTCAAGCTACTAATGGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTACTAATGGGCTATTGTCT
* *
17069263 TTTCTATTGTTCCTCTTTCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTACTAATGGGCTATTGTCT
17069319 TT
1 TT
17069321 GTTTCATAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTACTAATGGGCTATTGTCT
Found at i:17072533 original size:150 final size:146
Alignment explanation
Indices: 17072301--17072601 Score: 388
Period size: 149 Copynumber: 2.0 Consensus size: 146
17072291 TCATGAAAAT
* * * *
17072301 TACATTAATTTAATTTAAAAAATTATTAAAATATTTTTATACATAAAATAATATATATTATTATG
1 TACATTAATTT-ATTTAAAAAATTACTAAAATATTTTTATACATAAAATAAGATATATTATCATA
* *
17072366 AGGGTGTTTTTATCTTTTTACATTTTTATTTAAATTTTATACTAATATTAAATCCTAAACTATGT
65 AGGGTGTTTTTATCTTTTTACATTTTTATATAAA-TCTATACTAATATTAAATCCTAAACTATGT
*
17072431 TGGTATCACGAGTTAACA
129 TGGTATCACAAGTTAACA
* * *
17072449 TACATTAATTCT-TTTGAAAAATTACTAAAATATCTTTTATATATAAATTGAGAGATATATTATC
1 TACATTAATT-TATTTAAAAAATTACTAAAATAT-TTTTATACATAAAAT-A-AGATATATTATC
* * * * * *
17072513 ATAAGGGTGTTTTTATCTTTTTGCATTTTTATATAAATCTATATTTATATTAAGTCTTAAACTGT
62 ATAAGGGTGTTTTTATCTTTTTACATTTTTATATAAATCTATACTAATATTAAATCCTAAACTAT
*
17072578 GTTGGTATCACAAGTTAATA
127 GTTGGTATCACAAGTTAACA
17072598 TACA
1 TACA
17072602 CCAATGCAAG
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
147 19 0.14
148 23 0.17
149 46 0.35
150 44 0.33
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (146 bp):
TACATTAATTTATTTAAAAAATTACTAAAATATTTTTATACATAAAATAAGATATATTATCATAA
GGGTGTTTTTATCTTTTTACATTTTTATATAAATCTATACTAATATTAAATCCTAAACTATGTTG
GTATCACAAGTTAACA
Found at i:17073182 original size:11 final size:11
Alignment explanation
Indices: 17073168--17073213 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
17073158 ATATCTAAAC
17073168 AATAACAATAA
1 AATAACAATAA
*
17073179 AATAATAATAA
1 AATAACAATAA
* *
17073190 TATAATAATAA
1 AATAACAATAA
*
17073201 AATGACAATAA
1 AATAACAATAA
17073212 AA
1 AA
17073214 CAATAACATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAACAATAA
Found at i:17073191 original size:14 final size:14
Alignment explanation
Indices: 17073168--17073219 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
17073158 ATATCTAAAC
17073168 AATAACAATAAAAT
1 AATAACAATAAAAT
* *
17073182 AATAATAATATAAT
1 AATAACAATAAAAT
*
17073196 AATAA-AATGACAAT
1 AATAACAAT-AAAAT
17073210 AA-AACAATAA
1 AATAACAATAA
17073220 CATTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.19
14 26 0.81
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:17073218 original size:22 final size:22
Alignment explanation
Indices: 17073174--17073219 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
17073164 AAACAATAAC
* * *
17073174 AATAAAATAATAATAATATAAT
1 AATAAAATAACAATAAAACAAT
*
17073196 AATAAAATGACAATAAAACAAT
1 AATAAAATAACAATAAAACAAT
17073218 AA
1 AA
17073220 CATTAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAATAACAATAAAACAAT
Found at i:17101666 original size:3 final size:3
Alignment explanation
Indices: 17101658--17101682 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17101648 ATTATATCTT
17101658 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
17101683 ACTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.