Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 102 of 345
Found at i:27593132 original size:63 final size:63
Alignment explanation
Indices: 27592982--27593151 Score: 216
Period size: 63 Copynumber: 2.6 Consensus size: 63
27592972 TTGACTACTT
*
27592982 TTTAATATGCATACAGTGACTGTTTTTTAGGGGTGTGTATGTGTATGATTGTTAGTGTGTATGAC
1 TTTAATATGCATTCAGTGACTGTTTTTTAGGGGTGTGTA----TATGATTGTTAGTGTGTATGAC
27593047 TA
62 TA
* * * *
27593049 TTTAATATGCA-TCTAGTGACTATTTTTTAGGGGTGTGTATATGATTTTTGGTGTGTATGAGTA
1 TTTAATATGCATTC-AGTGACTGTTTTTTAGGGGTGTGTATATGATTGTTAGTGTGTATGACTA
* * *
27593112 TTTAATATGCATTCATTGACTGCTTTTTAGGTGTGTGTAT
1 TTTAATATGCATTCAGTGACTGTTTTTTAGGGGTGTGTAT
27593152 GTATGTGTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
63 54 0.59
64 2 0.02
66 1 0.01
67 35 0.38
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (63 bp):
TTTAATATGCATTCAGTGACTGTTTTTTAGGGGTGTGTATATGATTGTTAGTGTGTATGACTA
Found at i:27593219 original size:26 final size:27
Alignment explanation
Indices: 27593166--27593224 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
27593156 GTGTATAACT
** *
27593166 TTTTTTTAATATACATGTTGTTGTCTA
1 TTTTTTTAATATACATGCAGTTGGCTA
*
27593193 TTTTTTTAATATGCATGCAG-TGGCTA
1 TTTTTTTAATATACATGCAGTTGGCTA
27593219 TTTTTT
1 TTTTTT
27593225 AGATGTGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (27 bp):
TTTTTTTAATATACATGCAGTTGGCTA
Found at i:27593255 original size:85 final size:84
Alignment explanation
Indices: 27593112--27593267 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
27593102 TGTATGAGTA
* * * *
27593112 TTTAATATGCATTCATTGACTGCTTTTTAGGTGTGTGTATGTATGTGTATAACTTTTTTTTAATA
1 TTTAATATGCATGCAGTGACTACTTTTTAGATGTGTG-ATGTATGTGTATAACTTTTTTTTAATA
27593177 TACATGTTGTTGTCTATTTT
65 TACATGTTGTTGTCTATTTT
* * *
27593197 TTTAATATGCATGCAGTGGCTATTTTTTAGATGTGTG-TGTATGTGTATGACTGTTTTTTTTAAT
1 TTTAATATGCATGCAGTGACTACTTTTTAGATGTGTGATGTATGTGTATAAC--TTTTTTTTAAT
*
27593261 ATGCATG
64 ATACATG
27593268 CAGTGATTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 13 0.21
85 48 0.79
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (84 bp):
TTTAATATGCATGCAGTGACTACTTTTTAGATGTGTGATGTATGTGTATAACTTTTTTTTAATAT
ACATGTTGTTGTCTATTTT
Found at i:27594104 original size:39 final size:39
Alignment explanation
Indices: 27594058--27594136 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
27594048 CCAACTCAGC
* *
27594058 AACAGGCTACCCTAAATAAGTAAGAAAATACCCCAACTT
1 AACAGGCTACCCCAAATAAGTAACAAAATACCCCAACTT
* * * * *
27594097 AACAGGCTGCCCCAACTCAGTAACAAACTGCCCCAACTT
1 AACAGGCTACCCCAAATAAGTAACAAAATACCCCAACTT
27594136 A
1 A
27594137 TCAACAAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (39 bp):
AACAGGCTACCCCAAATAAGTAACAAAATACCCCAACTT
Found at i:27594111 original size:18 final size:18
Alignment explanation
Indices: 27594088--27594136 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
27594078 TAAGAAAATA
**
27594088 CCCCAACTTAACAGGCTG
1 CCCCAACTTAACAAACTG
27594106 CCCCAACTCAGTAACAAACTG
1 CCCCAACT---TAACAAACTG
27594127 CCCCAACTTA
1 CCCCAACTTA
27594137 TCAACAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.38
21 16 0.62
ACGTcount: A:0.33, C:0.41, G:0.10, T:0.16
Consensus pattern (18 bp):
CCCCAACTTAACAAACTG
Found at i:27595441 original size:28 final size:28
Alignment explanation
Indices: 27595410--27595465 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
27595400 AAACGATAAA
27595410 AATGACTGTTTTGTCACTTTTCAAAAGT
1 AATGACTGTTTTGTCACTTTTCAAAAGT
* *
27595438 AATGATTGTTTTGTCACTTTTCGAAAGT
1 AATGACTGTTTTGTCACTTTTCAAAAGT
27595466 TGAGTGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (28 bp):
AATGACTGTTTTGTCACTTTTCAAAAGT
Found at i:27596779 original size:24 final size:23
Alignment explanation
Indices: 27596739--27596789 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
27596729 GAAACAACAT
*
27596739 AATATATAAAATAGTTTGAAG-TA
1 AATATATAAAACAGTTT-AAGATA
*
27596762 AATAGTATAAAACGGTTTAAGATA
1 AATA-TATAAAACAGTTTAAGATA
27596786 AATA
1 AATA
27596790 ATATGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (23 bp):
AATATATAAAACAGTTTAAGATA
Found at i:27596828 original size:25 final size:25
Alignment explanation
Indices: 27596778--27596929 Score: 62
Period size: 25 Copynumber: 6.0 Consensus size: 25
27596768 ATAAAACGGT
**
27596778 TTAAGATAAATAATATGTAAAACAA
1 TTAAGATAAATAATATACAAAACAA
*
27596803 TTAAGA-AGAATAATATACAAAGCAA
1 TTAAGATA-AATAATATACAAAACAA
* * * * **
27596828 TTTAAAACAAATAATACATATGACAA
1 -TTAAGATAAATAATATACAAAACAA
* **
27596854 CTTAAAAT-AAT-ATATGA-AAAACGT
1 -TTAAGATAAATAATAT-ACAAAACAA
* * *
27596878 TTAAAATAAATAATATATAAAAAGAA
1 TTAAGATAAATAATATA-CAAAACAA
27596904 GTCTAA-ACTAAATAATATACAAAACA
1 -T-TAAGA-TAAATAATATACAAAACA
27596930 GTTTAAAAAT
Statistics
Matches: 95, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
23 7 0.07
24 11 0.12
25 28 0.29
26 27 0.28
27 8 0.08
28 14 0.15
ACGTcount: A:0.60, C:0.08, G:0.07, T:0.26
Consensus pattern (25 bp):
TTAAGATAAATAATATACAAAACAA
Found at i:27596936 original size:26 final size:27
Alignment explanation
Indices: 27596858--27596937 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
27596848 TGACAACTTA
27596858 AAATAATATATGAAAAAC-GTTTAAAAT
1 AAATAATATAT-AAAAACAGTTTAAAAT
* * *
27596885 AAATAATATATAAAAAGAAGTCTAAACT
1 AAATAATATATAAAAA-CAGTTTAAAAT
*
27596913 AAATAATATA-CAAAACAGTTTAAAA
1 AAATAATATATAAAAACAGTTTAAAA
27596938 ATAATAAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.27
27 15 0.34
28 17 0.39
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATAATATATAAAAACAGTTTAAAAT
Found at i:27597027 original size:25 final size:24
Alignment explanation
Indices: 27596999--27597112 Score: 77
Period size: 25 Copynumber: 4.5 Consensus size: 24
27596989 TAGTAGTTTT
*
27596999 AAATAAATAATATGTAAACATTTTA
1 AAATAAATAATATG-AAACAATTTA
* **
27597024 AAATGGATAATAATTTGAATTAATTTA
1 AAAT--A-AATAATATGAAACAATTTA
* *
27597051 AAATACATAATATGTGAAA-AACTTA
1 AAATAAATAATA--TGAAACAATTTA
* *
27597076 AAATAAACAATAATGAAACAATTTG
1 AAATAAATAAT-ATGAAACAATTTA
*
27597101 AAATGAATAATA
1 AAATAAATAATA
27597113 CACGAGAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
24 11 0.16
25 32 0.47
26 5 0.07
27 12 0.18
28 8 0.12
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (24 bp):
AAATAAATAATATGAAACAATTTA
Found at i:27598818 original size:143 final size:143
Alignment explanation
Indices: 27598532--27598896 Score: 393
Period size: 143 Copynumber: 2.6 Consensus size: 143
27598522 TAATTTTAAC
* * * *
27598532 CTGCTCCACTGCAACTTC-TGAGAGATAAGGCTGGTGGCTTCAATTTGCTCTACTGCAACTTCAG
1 CTGCTCCGCTGCAACTTCAGGA-AGATAAGGCTGGTGGTTTCAATCTGCTCTACTGCAACTTCAG
* * * * *
27598596 GGAGACAATGATT-G---TGACTTGTAGCTACAATCTGTTCAACTGCAACTTCAGGGACATGAGA
65 GAAGATAA-GATTCGCCATAACTTGTAGCTACAATCTGTTCAACTGCAACTTCAGGGAAATAAGA
*
27598657 TTTGCTATCTTCAGT
129 TTCGCTATCTTCAGT
*
27598672 CTGCTCCGCTGCAATTTCAGGAAGATAAGGCTGGTGGTTTCAATCTGCT-TCACTGCAACTTCAG
1 CTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGTGGTTTCAATCTGCTCT-ACTGCAACTTCAG
* ** * *
27598736 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGTGAAATAAGAT
65 GAAGATAAGATTCGCCATAACTTGTAGCTACAATCTGTTCAACTGCAACTTCAGGGAAATAAGAT
* *
27598801 TCGCTGTCTTTAGT
130 TCGCTATCTTCAGT
* * ** * * *
27598815 CTGCTTCGCTGTAACTTCAGGGGGATAAGACTTGTAGCTTT-AATCTGCTCTACTGCAACTTCAG
1 CTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGT-GGTTTCAATCTGCTCTACTGCAACTTCAG
* * *
27598879 GTAGGTAAGATTCACCAT
65 GAAGATAAGATTCGCCAT
27598897 GATGATTTAA
Statistics
Matches: 188, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
139 5 0.03
140 61 0.32
141 2 0.01
143 115 0.61
144 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (143 bp):
CTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGTGGTTTCAATCTGCTCTACTGCAACTTCAGG
AAGATAAGATTCGCCATAACTTGTAGCTACAATCTGTTCAACTGCAACTTCAGGGAAATAAGATT
CGCTATCTTCAGT
Found at i:27598875 original size:44 final size:43
Alignment explanation
Indices: 27598757--27598879 Score: 115
Period size: 45 Copynumber: 2.8 Consensus size: 43
27598747 TCGCCATAAT
* * *
27598757 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGTGAAATAAGA
1 TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAAATAAGA
* * * **
27598800 TTCGCT-GTCTTTAGTCTGCT-TCGCTGTAACTTCAGGGGGATAAGA
1 TT-G-TAG-CTTTAATCTGCTCT-ACTGCAACTTCAGGGAAATAAGA
27598845 CTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGG
1 -TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGG
27598880 TAGGTAAGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.03
44 26 0.42
45 32 0.52
46 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAAATAAGA
Found at i:27598888 original size:44 final size:43
Alignment explanation
Indices: 27598757--27598890 Score: 105
Period size: 44 Copynumber: 3.0 Consensus size: 43
27598747 TCGCCATAAT
* * **
27598757 TTGTAGCTTTAATCTGTTCCACTGCAACTTCA-GTGAAATAAGA
1 TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGT-AGGTAAGA
* * * *
27598800 TTCGCT-GTCTTTAGTCTGCT-TCGCTGTAACTTCAGG-GGGATAAGA
1 TT-G-TAG-CTTTAATCTGCTCT-ACTGCAACTTCAGGTAGG-TAAGA
27598845 CTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGTAGGTAAGA
1 -TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGTAGGTAAGA
27598889 TT
1 TT
27598891 CACCATGATG
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
43 4 0.06
44 31 0.45
45 31 0.45
46 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTTAATCTGCTCTACTGCAACTTCAGGTAGGTAAGA
Found at i:27610960 original size:24 final size:23
Alignment explanation
Indices: 27610929--27611084 Score: 70
Period size: 24 Copynumber: 6.3 Consensus size: 23
27610919 AAAACAACAT
*
27610929 AATATATAAAACAGTTTGAAG-TA
1 AATATATAAAACAATTT-AAGATA
27610952 AATAGTATAAAACAATTTAAGATA
1 AATA-TATAAAACAATTTAAGATA
*
27610976 AATAATATGTAGAACAA-TTAAGA-A
1 AAT-ATA--TAAAACAATTTAAGATA
* *
27611000 GAATAATATACAAAGCAATTTAAAACA
1 -AAT-ATATA-AAA-CAATTTAAGATA
* * *
27611027 AATAATACATAAGACAACTTAAAAT-
1 AAT-AT--ATAAAACAATTTAAGATA
*
27611052 AATATATGAAAA-ACATTTAAAATA
1 AATATAT-AAAACA-ATTTAAGATA
27611076 AATAATATA
1 AAT-ATATA
27611085 TAAAAAGAAG
Statistics
Matches: 108, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
22 3 0.03
23 20 0.19
24 28 0.26
25 24 0.22
26 27 0.25
27 3 0.03
28 3 0.03
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (23 bp):
AATATATAAAACAATTTAAGATA
Found at i:27611109 original size:28 final size:26
Alignment explanation
Indices: 27611048--27611117 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
27611038 AGACAACTTA
* *
27611048 AAATAATATATGAAAAACATTTAAAAT
1 AAATAATATAT-AAAAAAATCTAAAAT
*
27611075 AAATAATATATAAAAAGAAGTCTAAATT
1 AAATAATATATAAAAA-AA-TCTAAAAT
*
27611103 AAATAATATACAAAA
1 AAATAATATATAAAA
27611118 CCGTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.14
27 12 0.32
28 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (26 bp):
AAATAATATATAAAAAAATCTAAAAT
Found at i:27615186 original size:19 final size:19
Alignment explanation
Indices: 27615146--27615204 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
27615136 TTTTTATGTA
*
27615146 TTTATATA-TATATAT-AT
1 TTTATATACTTTATATAAT
*
27615163 ATTTATA-ATCTTTTTATAAT
1 -TTTATATA-CTTTATATAAT
27615183 TTTATATACTTTATATAAT
1 TTTATATACTTTATATAAT
27615202 TTT
1 TTT
27615205 CAATTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 24 0.71
20 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATACTTTATATAAT
Found at i:27628018 original size:19 final size:21
Alignment explanation
Indices: 27627982--27628025 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
27627972 CCACTTTTTG
*
27627982 TTGTTATATTAATTTTTTAAT
1 TTGTTATATTAATATTTTAAT
*
27628003 TTGTTATA-T-ATATTTTCAT
1 TTGTTATATTAATATTTTAAT
27628022 TTGT
1 TTGT
27628026 GAATTTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
TTGTTATATTAATATTTTAAT
Found at i:27628866 original size:2 final size:2
Alignment explanation
Indices: 27628859--27628883 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27628849 GGTACATATC
27628859 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
27628884 AGTACCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27631712 original size:2 final size:2
Alignment explanation
Indices: 27631705--27631734 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27631695 TCAAATCATC
27631705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27631735 TATGTTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27633575 original size:60 final size:60
Alignment explanation
Indices: 27633511--27633630 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
27633501 ACAACATTAT
*
27633511 CAATTGGACTTTAATCATTAAATTAAATTAGTAAAAATATTAAATTTTTAGAATTAAAAG
1 CAATTGGACTTTAATCATTAAAATAAATTAGTAAAAATATTAAATTTTTAGAATTAAAAG
27633571 CAATTGGACTTTAATCATTAAAATAAATTAGTAAAAATATTAAATTTTTAGAATTAAAAG
1 CAATTGGACTTTAATCATTAAAATAAATTAGTAAAAATATTAAATTTTTAGAATTAAAAG
27633631 TAAAAGGATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (60 bp):
CAATTGGACTTTAATCATTAAAATAAATTAGTAAAAATATTAAATTTTTAGAATTAAAAG
Found at i:27635431 original size:16 final size:16
Alignment explanation
Indices: 27635410--27635446 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27635400 TTTTTGGATT
*
27635410 TGGGCTTGAATCAAGC
1 TGGGCTTGAATCAAAC
27635426 TGGGCTTGAATCAAAC
1 TGGGCTTGAATCAAAC
27635442 TGGGC
1 TGGGC
27635447 AGACTATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (16 bp):
TGGGCTTGAATCAAAC
Found at i:27636621 original size:16 final size:16
Alignment explanation
Indices: 27636602--27636634 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27636592 AATAAAATTT
27636602 TAAAGTAAATATGCAA
1 TAAAGTAAATATGCAA
27636618 TAAAGTAAATATGCAA
1 TAAAGTAAATATGCAA
27636634 T
1 T
27636635 GCTTATGAAT
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:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (16 bp):
TAAAGTAAATATGCAA
Found at i:27636953 original size:18 final size:17
Alignment explanation
Indices: 27636930--27636975 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
27636920 TGTTTTTTTT
27636930 ATTAAATTGAAAACTAAA
1 ATTAAATTGAAAACT-AA
*
27636948 ATTAAATTAAAAACTAA
1 ATTAAATTGAAAACTAA
*
27636965 TTTAAATTGAA
1 ATTAAATTGAA
27636976 CGCTTAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (17 bp):
ATTAAATTGAAAACTAA
Found at i:27638346 original size:20 final size:20
Alignment explanation
Indices: 27638323--27638374 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
27638313 AAACGTTCTT
*
27638323 TTAT-TTTTCTTCCTTTCCTC
1 TTATATTTTCTT-CTTTCCCC
* *
27638343 TTATGTTCTCTTCTTTCCCC
1 TTATATTTTCTTCTTTCCCC
*
27638363 TTCTATTTTCTT
1 TTATATTTTCTT
27638375 TTCCTCTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.06, C:0.29, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATATTTTCTTCTTTCCCC
Found at i:27638392 original size:17 final size:18
Alignment explanation
Indices: 27638356--27638393 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27638346 TGTTCTCTTC
*
27638356 TTTCCCCTTCTATTTTCT
1 TTTCCCCTTCTATTTACT
*
27638374 TTTCCTCTTCT-TTTACT
1 TTTCCCCTTCTATTTACT
27638391 TTT
1 TTT
27638394 TTTTACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCCTTCTATTTACT
Found at i:27649275 original size:125 final size:126
Alignment explanation
Indices: 27649026--27649325 Score: 460
Period size: 125 Copynumber: 2.4 Consensus size: 126
27649016 GTTTATTCGA
* *
27649026 AAAATTTTCAAAACAAAGGCAATGTT-TGATGTTTGGGAATTCGAGAAATCGTGCCTTAACGTGC
1 AAAACTTT-AAAAC-AAGGCAATGTTCT-ATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGC
*
27649090 TGGGATTCAATTTTCTGTTTGTCCAAACAATCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
63 TGGGATTCAATTTTCTGTTTGTCCAAACAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
*
27649154 AAAACTTTAAAACAAGGCAATGTTCTATGTTTAGAAATTCGAGAAATCGTGCCTTAACGTGCT-G
1 AAAACTTTAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGG
* * * *
27649218 GATTCAATTTTCTGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCGTCTGTGTTTTC
66 GATTCAATTTTCTGTTTGTCCAAACAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
* * *
27649279 AAAACTTCAAAATAAGGCAATGTTCTATGTTTGGAAATCCGAGAAAT
1 AAAACTTTAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAAT
27649326 TGTACCCTAA
Statistics
Matches: 159, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
125 100 0.63
126 46 0.29
127 6 0.04
128 7 0.04
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (126 bp):
AAAACTTTAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGG
GATTCAATTTTCTGTTTGTCCAAACAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
Found at i:27649383 original size:125 final size:125
Alignment explanation
Indices: 27649032--27649383 Score: 449
Period size: 125 Copynumber: 2.8 Consensus size: 125
27649022 TCGAAAAATT
*
27649032 TTCAAAACAAAGGCAATGTT-TGATGTTTGGGAATTCGAGAAATCGTGCCTTAACGTGCTGGGAT
1 TTCAAAA-AAAGGCAATGTTCT-ATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGGGAT
* *
27649096 TCAATTTTCTGTTTGTCCAAACAATCAAATACCCCTTTAAAATTTCATCCGTGTTTTCAAAAC
64 TCAATTTTCTGTTTGTCCAAATAATCAAATA-TCCTTTAAAATTTCATCCGTGTTTTCAAAAC
* * *
27649159 TTTAAAACAAGGCAATGTTCTATGTTTAGAAATTCGAGAAATCGTGCCTTAACGTGCT-GGATTC
1 TTCAAAAAAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGGGATTC
* * *
27649223 AATTTTCTGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCGTCTGTGTTTTCAAAAC
66 AATTTTCTGTTTGTCCAAATAATCAAATAT-CCTTTAAAATTTCATCCGTGTTTTCAAAAC
* * * * * * * *
27649284 TTCAAAATAAGGCAATGTTCTATGTTTGGAAATCCGAGAAATTGTACCCTAACATGTTGGGTTTC
1 TTCAAAAAAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGGGATTC
* * * *
27649349 GATTTT-TCGTTGGACCAAATAATTAAATATCCTTT
66 AATTTTCT-GTTTGTCCAAATAATCAAATATCCTTT
27649384 TGTAATTTTC
Statistics
Matches: 197, Mismatches: 24, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
125 116 0.59
126 74 0.38
127 7 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (125 bp):
TTCAAAAAAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCTTAACGTGCTGGGATTC
AATTTTCTGTTTGTCCAAATAATCAAATATCCTTTAAAATTTCATCCGTGTTTTCAAAAC
Found at i:27657859 original size:40 final size:40
Alignment explanation
Indices: 27657790--27657865 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
27657780 ACTATGTTCG
*
27657790 GCACTAAGTGTACGATTCGAAATAGCTTCAGCTATAAATA
1 GCACTAAGTGTACGATTCGAAATAACTTCAGCTATAAATA
* *
27657830 GCACTAAGTGTGCGAATT-GGAATAACTTCAGCTATA
1 GCACTAAGTGTACG-ATTCGAAATAACTTCAGCTATA
27657866 TGAGGTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (40 bp):
GCACTAAGTGTACGATTCGAAATAACTTCAGCTATAAATA
Found at i:27661786 original size:2 final size:2
Alignment explanation
Indices: 27661779--27661807 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27661769 TTTTGTGTCC
27661779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27661808 ATTTAATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27670971 original size:29 final size:29
Alignment explanation
Indices: 27670938--27670999 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
27670928 CCAATCAGTC
*
27670938 TCATTGTTTAATTAACAATAATTAAAATT
1 TCATTGTTTAATTAACAATAAATAAAATT
27670967 TCATTGTTTAATTAACAATAAATAAAATT
1 TCATTGTTTAATTAACAATAAATAAAATT
27670996 TCAT
1 TCAT
27671000 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (29 bp):
TCATTGTTTAATTAACAATAAATAAAATT
Found at i:27681391 original size:19 final size:18
Alignment explanation
Indices: 27681367--27681414 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
27681357 ACTTAAAAAG
27681367 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
27681386 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
27681405 TAAAAATAAA
1 TAAAAATAAA
27681415 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:27682335 original size:16 final size:16
Alignment explanation
Indices: 27682305--27682352 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
27682295 GAAAATTAAT
27682305 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
27682320 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
27682337 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
27682352 A
1 A
27682353 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:27682351 original size:11 final size:11
Alignment explanation
Indices: 27682296--27682366 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
27682286 ATAGCTTAAG
*
27682296 AAAATTAATAT
1 AAAATTAAAAT
27682307 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
27682319 AATAA-T-AATT
1 AA-AATTAAAAT
*
27682329 AAAAAT-AAAT
1 AAAATTAAAAT
27682339 AAAATTAAAAT
1 AAAATTAAAAT
*
27682350 AAACTTAAAAT
1 AAAATTAAAAT
*
27682361 AGAATT
1 AAAATT
27682367 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:27687438 original size:29 final size:28
Alignment explanation
Indices: 27687391--27687456 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
27687381 TGGCCCAAGA
* *
27687391 GTAAATACTCAAAATTTGAAGGATTAAAGT
1 GTAAATA-TCAAAAGTTGAAGGACT-AAGT
*
27687421 GTAAATATGAAAAGTTGAAGGACTAAGT
1 GTAAATATCAAAAGTTGAAGGACTAAGT
*
27687449 GCAAATAT
1 GTAAATAT
27687457 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 14 0.44
30 7 0.22
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (28 bp):
GTAAATATCAAAAGTTGAAGGACTAAGT
Found at i:27689932 original size:46 final size:46
Alignment explanation
Indices: 27689875--27690055 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
27689865 AGTGTGCTCT
*
27689875 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27689921 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27689967 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
27690013 ATGACA-GAAAATGAGTAA-ACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
27690056 TCATGTCAAA
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
45 23 0.18
46 104 0.82
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:27692795 original size:29 final size:30
Alignment explanation
Indices: 27692748--27692815 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
27692738 TGGCCCAAGA
* *
27692748 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
27692778 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
27692808 GCAAATAT
1 GTAAATAT
27692816 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:27695803 original size:46 final size:46
Alignment explanation
Indices: 27695746--27695929 Score: 314
Period size: 46 Copynumber: 4.0 Consensus size: 46
27695736 AGTGTGCTCT
* *
27695746 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27695792 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27695838 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
27695884 CTGATATGAAATGTGTAAGACCATGTAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATG--GTTGAAAGATACCATGGCA
27695930 TCATGTCAAA
Statistics
Matches: 132, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 115 0.87
48 17 0.13
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:27697321 original size:29 final size:32
Alignment explanation
Indices: 27697278--27697337 Score: 90
Period size: 29 Copynumber: 1.9 Consensus size: 32
27697268 CTCTAAAAAG
27697278 TTTATTATAAATTTAAT-TATT-ATATTTTAT
1 TTTATTATAAATTTAATATATTAATATTTTAT
27697308 TTTA-TATAAATTTAATAATATTAATATTTT
1 TTTATTATAAATTTAAT-ATATTAATATTTT
27697338 TACAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 12 0.44
30 4 0.15
31 4 0.15
32 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTATTATAAATTTAATATATTAATATTTTAT
Found at i:27701145 original size:27 final size:29
Alignment explanation
Indices: 27701093--27701150 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
27701083 ATTTAATTAT
*
27701093 TTTTTAAAATTTAAAAATTATAAAAACTA
1 TTTTTAAAATTTAAAAATCATAAAAACTA
* *
27701122 TTTTT-AAA-TTAAAAATCATTAAAATTA
1 TTTTTAAAATTTAAAAATCATAAAAACTA
27701149 TT
1 TT
27701151 AAAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.69
28 3 0.12
29 5 0.19
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTTTAAAATTTAAAAATCATAAAAACTA
Found at i:27701151 original size:19 final size:19
Alignment explanation
Indices: 27701129--27701169 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27701119 CTATTTTTAA
27701129 ATTAAAAATCATTAAAAT-T
1 ATTAAAAATCA-TAAAATAT
*
27701148 ATTAAAAATTATAAAATAT
1 ATTAAAAATCATAAAATAT
27701167 ATT
1 ATT
27701170 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAAAAATCATAAAATAT
Found at i:27704339 original size:11 final size:10
Alignment explanation
Indices: 27704302--27704352 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
27704292 CACGAAAGTC
27704302 CTCTCATAATT
1 CTCTCA-AATT
27704313 CTCTCTAAATT
1 CTCTC-AAATT
27704324 CTCTCAAATTT
1 CTCTCAAA-TT
*
27704335 CTCTCATATT
1 CTCTCAAATT
*
27704345 TTCTCAAA
1 CTCTCAAA
27704353 GCTTTCTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 11 0.31
11 23 0.66
12 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:27706194 original size:18 final size:18
Alignment explanation
Indices: 27706153--27706194 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27706143 GCTAGGTGCG
*
27706153 TATCCTAACCGTTATATG
1 TATCCTAACCGTTATATA
27706171 TATCCTAACTC-TTATATA
1 TATCCTAAC-CGTTATATA
*
27706189 TTTCCT
1 TATCCT
27706195 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (18 bp):
TATCCTAACCGTTATATA
Found at i:27709200 original size:126 final size:126
Alignment explanation
Indices: 27708974--27709395 Score: 616
Period size: 126 Copynumber: 3.4 Consensus size: 126
27708964 TTTGAGGTGG
* *
27708974 ATCCACGTGGGAGCTTTTTAC-GTAATTTTACTGACAGTGCATCCTGCTTGAAGCT-TTTTGGAC
1 ATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAG-TGTTTTGGAC
* * *
27709037 AATATTTGTTCAAAAACGTCTTCTCAAAATTACTTTTTCAGATACTACTGTAGCAAAAGAGC
65 ACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAAGAGC
* * *
27709099 ATCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGATAGTGCATCCTGCTTGAAGTGTTTTGGATA
1 ATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTGGACA
* * *
27709164 CTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATACTATTCTAGCAAAAGAGC
66 CTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAAGAGC
* * * * * *
27709225 GTCCATGTGGGAACTTTTTTCAGTAATTTTGCTTACAGTGCATCATGCTTGAAGCGTTTTGGACA
1 ATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTGGACA
*
27709290 CTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAAGAGC
66 CTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAAGAGC
* * * *
27709351 GTCAACGTGGGAG-TTTTTTTAGTAATTTTGCTGATAGTGCATCCT
1 ATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
27709396 AATTTAATTA
Statistics
Matches: 264, Mismatches: 31, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
125 49 0.19
126 215 0.81
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (126 bp):
ATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTGGACA
CTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAAGAGC
Found at i:27709549 original size:14 final size:15
Alignment explanation
Indices: 27709517--27709556 Score: 73
Period size: 14 Copynumber: 2.7 Consensus size: 15
27709507 TTAAACACAA
27709517 TAAAACCCTAACTCT
1 TAAAACCCTAACTCT
27709532 TAAAACCCTAAC-CT
1 TAAAACCCTAACTCT
27709546 TAAAACCCTAA
1 TAAAACCCTAA
27709557 ATCAAGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAACCCTAACTCT
Found at i:27714323 original size:11 final size:11
Alignment explanation
Indices: 27714304--27714345 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
27714294 CACAAAAAGA
27714304 ATTATAAAATTT
1 ATTA-AAAATTT
*
27714316 A-TAAAAAATT
1 ATTAAAAATTT
*
27714326 ATTAAAAATTA
1 ATTAAAAATTT
27714337 ATTAAAAAT
1 ATTAAAAAT
27714346 CATAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 7 0.27
11 18 0.69
12 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTAAAAATTT
Found at i:27714327 original size:10 final size:10
Alignment explanation
Indices: 27714298--27714353 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
27714288 AAAAAGCACA
27714298 AAAAGAATTAT
1 AAAA-AATTAT
*
27714309 -AAAATTTAT
1 AAAAAATTAT
27714318 AAAAAATTAT
1 AAAAAATTAT
*
27714328 TAAAAATTAAT
1 AAAAAATT-AT
* *
27714339 TAAAAATCAT
1 AAAAAATTAT
27714349 AAAAA
1 AAAAA
27714354 TATAATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
9 5 0.13
10 24 0.63
11 9 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:27714333 original size:21 final size:21
Alignment explanation
Indices: 27714304--27714360 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
27714294 CACAAAAAGA
* *
27714304 ATTATAAAATTTATAAAAAATT
1 ATTA-AAAATTAATAAAAAATC
*
27714326 ATTAAAAATTAATTAAAAATC
1 ATTAAAAATTAATAAAAAATC
27714347 A-TAAAAATATAATA
1 ATTAAAAAT-TAATA
27714361 TTTATATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 7 0.23
21 19 0.63
22 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAATTAATAAAAAATC
Found at i:27716792 original size:23 final size:23
Alignment explanation
Indices: 27716749--27716807 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
27716739 CGTTGGGGTC
27716749 AAAGTGAA-AAATT-TAAAGTAGA
1 AAAG-GAATAAATTATAAAGTAGA
27716771 AAAGGAATAAATTATAAAGTAGA
1 AAAGGAATAAATTATAAAGTAGA
27716794 AAAGGAATAAATTA
1 AAAGGAATAAATTA
27716808 AATTAGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 3 0.09
22 9 0.26
23 23 0.66
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (23 bp):
AAAGGAATAAATTATAAAGTAGA
Found at i:27717081 original size:23 final size:23
Alignment explanation
Indices: 27717051--27717097 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27717041 CGGTTACATA
27717051 TGAGGAAGGGTTAGCACCCTCAC
1 TGAGGAAGGGTTAGCACCCTCAC
27717074 TGAGGAAGGGTTAGCACCCTCAC
1 TGAGGAAGGGTTAGCACCCTCAC
27717097 T
1 T
27717098 ACGTCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (23 bp):
TGAGGAAGGGTTAGCACCCTCAC
Found at i:27717712 original size:2 final size:2
Alignment explanation
Indices: 27717705--27717737 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27717695 CAAATAACAA
27717705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27717738 ACAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27718139 original size:20 final size:22
Alignment explanation
Indices: 27718116--27718172 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
27718106 TCAACAATAT
*
27718116 ATAAAAGAAAAT-TTT-AAAAA
1 ATAAAACAAAATATTTAAAAAA
27718136 ATAAAACAAAATGTATTTAAAAAA
1 ATAAAACAAAA--TATTTAAAAAA
27718160 ATAAAACAAAATA
1 ATAAAACAAAATA
27718173 ATATATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.31
22 3 0.09
23 3 0.09
24 16 0.50
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
ATAAAACAAAATATTTAAAAAA
Found at i:27718153 original size:24 final size:25
Alignment explanation
Indices: 27718126--27718189 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
27718116 ATAAAAGAAA
*
27718126 ATTTTAAAAAATAAAACAAAAT-GT
1 ATTTTAAAAAATAAAACAAAATAAT
*
27718150 ATTTAAAAAAATAAAACAAAATAAT
1 ATTTTAAAAAATAAAACAAAATAAT
*
27718175 ATATTAAAATAATAA
1 ATTTTAAAA-AATAA
27718190 GTTAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 21 0.62
25 8 0.24
26 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (25 bp):
ATTTTAAAAAATAAAACAAAATAAT
Found at i:27718559 original size:17 final size:18
Alignment explanation
Indices: 27718526--27718559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27718516 GAAAACGCGA
*
27718526 GGATCCAGTCTGCAGGTT
1 GGATCCAGGCTGCAGGTT
27718544 GGATCCAGGC-GCAGGT
1 GGATCCAGGCTGCAGGT
27718560 CAAAGGACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.21
Consensus pattern (18 bp):
GGATCCAGGCTGCAGGTT
Found at i:27720514 original size:16 final size:14
Alignment explanation
Indices: 27720484--27720523 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
27720474 AAATATATTA
27720484 AATTAATTTTAATT
1 AATTAATTTTAATT
27720498 AATTAATTTCCTAATT
1 AATTAATTT--TAATT
*
27720514 AAATAATTTT
1 AATTAATTTT
27720524 TTTAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:27725094 original size:2 final size:2
Alignment explanation
Indices: 27725083--27725119 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
27725073 AGAGTGACGT
27725083 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27725120 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27725124 original size:2 final size:2
Alignment explanation
Indices: 27725119--27725167 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
27725109 ATATATATAT
27725119 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
27725161 AA AG AG A
1 AG AG AG A
27725168 TAGACATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27726317 original size:55 final size:56
Alignment explanation
Indices: 27726175--27726320 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 56
27726165 AAAAAATCAT
*
27726175 TTGTTTATATGTTTAAATCGATTGTTATGTTAGAATATTGTGTCTTCTTCTTTTGAATAGA
1 TTGTTTATATGTTTAAATCGATTGTTATGTTAGAATA-----TCTACTTCTTTTGAATAGA
* * * * *
27726236 TTGTTTATATGTATAATTTGATTGTTATGTTGGAATA-CTACTTCTTTTGAATTGA
1 TTGTTTATATGTTTAAATCGATTGTTATGTTAGAATATCTACTTCTTTTGAATAGA
* *
27726291 TTGTTTATATATTTAAATCGACTGTTATGT
1 TTGTTTATATGTTTAAATCGATTGTTATGT
27726321 AGCATGTCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 41 0.55
61 33 0.45
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (56 bp):
TTGTTTATATGTTTAAATCGATTGTTATGTTAGAATATCTACTTCTTTTGAATAGA
Found at i:27730790 original size:26 final size:29
Alignment explanation
Indices: 27730752--27730806 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 29
27730742 TTACGTTCTT
*
27730752 CATCTGTTACTTTTTATTCT-TCCTTTCC
1 CATCTGTTACTTTTTATTCTACCCTTTCC
*
27730780 CATC-GTT-CTTTTTTTTCTACCCTTTCC
1 CATCTGTTACTTTTTATTCTACCCTTTCC
27730807 AATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 10 0.42
28 4 0.17
ACGTcount: A:0.09, C:0.31, G:0.04, T:0.56
Consensus pattern (29 bp):
CATCTGTTACTTTTTATTCTACCCTTTCC
Found at i:27731389 original size:21 final size:21
Alignment explanation
Indices: 27731365--27731409 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27731355 TACACGTGCA
*
27731365 TGTGTCCCCTCCACACAGGTG
1 TGTGTCCCCTCCACACAGGCG
** *
27731386 TGTGTGGCCTCCACATAGGCG
1 TGTGTCCCCTCCACACAGGCG
27731407 TGT
1 TGT
27731410 AGACCCCCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.31, G:0.29, T:0.27
Consensus pattern (21 bp):
TGTGTCCCCTCCACACAGGCG
Found at i:27741536 original size:43 final size:43
Alignment explanation
Indices: 27741473--27741640 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
27741463 GGTTACCGAG
* *
27741473 ATGTAATTACATGTAGGACCATGTCTAGGACATTGGCATTGTA
1 ATGTAATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
* * * *
27741516 TTGTGATTACGTGTAAGACCATGTCTAAAGACATTGGCATCGTTA
1 ATGTAATTACATGTAAGACCATGTCT-AGGACATTGGCATCG-TA
* * * * * *
27741561 AT-CAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-A
1 ATGTAATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
* * *
27741602 CATGTAATAACATGTAAGACCATATCTGGGACA-TGGCAT
1 -ATGTAATTACATGTAAGACCATGTCTAGGACATTGGCAT
27741641 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 57 0.56
44 32 0.32
45 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
ATGTAATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA
Found at i:27750012 original size:46 final size:45
Alignment explanation
Indices: 27749958--27750148 Score: 136
Period size: 44 Copynumber: 4.4 Consensus size: 45
27749948 AGTAAACAAT
27749958 AATACTATATATAATATATATATATATGTATATAATAGAAATACAC
1 AATACTATATATAATATATATATATAT-TATATAATAGAAATACAC
*
27750004 ACTACTATATAT-A-ATA-ATA-ATA--A-AT-ATAGAAATACA-
1 AATACTATATATAATATATATATATATTATATAATAGAAATACAC
* * * * * *
27750040 AAAAGTATATATAATAAAAATATTAAATTAAAGTAATA-AAA-A-AC
1 AATACTATATATAATATATATA-TATATTATA-TAATAGAAATACAC
* *
27750084 AATACTATATATAAATATATATATATATGTATATACATAAAAATATAC
1 AATACTATATAT-AATATATATATATAT-TATATA-ATAGAAATACAC
* *
27750132 ACTAATATATAATAATA
1 AATACTATAT-ATAATA
27750149 ATAGTAATAG
Statistics
Matches: 113, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
36 9 0.08
37 12 0.11
38 4 0.04
39 4 0.04
41 2 0.02
42 3 0.03
43 5 0.04
44 21 0.19
45 19 0.17
46 17 0.15
47 1 0.01
48 14 0.12
49 2 0.02
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.34
Consensus pattern (45 bp):
AATACTATATATAATATATATATATATTATATAATAGAAATACAC
Found at i:27750059 original size:17 final size:17
Alignment explanation
Indices: 27750009--27750059 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
27749999 TACACACTAC
27750009 TATATATAATAATAATAAA
1 TATATATAATAA-AA-AAA
* *
27750028 TATAGA-AATACAAAAAG
1 TATATATAATA-AAAAAA
27750045 TATATATAATAAAAA
1 TATATATAATAAAAA
27750060 TATTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 11 0.41
18 10 0.37
19 6 0.22
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (17 bp):
TATATATAATAAAAAAA
Found at i:27750082 original size:39 final size:38
Alignment explanation
Indices: 27750009--27750098 Score: 90
Period size: 39 Copynumber: 2.3 Consensus size: 38
27749999 TACACACTAC
* *
27750009 TATATATAATAATAATAAATATAGAAATACAAAAAGTA
1 TATATATAAAAATAATAAATAAAGAAATACAAAAAGTA
* * * *
27750047 TATATAATAAAAATATTAAATTAAAGTAATAAAAAACAATA
1 TATAT-ATAAAAATAATAAA-TAAAGAAATACAAAA-AGTA
27750088 CTATATATAAA
1 -TATATATAAA
27750099 TATATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 5 0.12
39 12 0.29
40 12 0.29
41 8 0.19
42 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (38 bp):
TATATATAAAAATAATAAATAAAGAAATACAAAAAGTA
Found at i:27750364 original size:3 final size:3
Alignment explanation
Indices: 27750351--27750433 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
27750341 GAGGGCATAT
27750351 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
27750395 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27750434 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:27750375 original size:12 final size:12
Alignment explanation
Indices: 27750351--27750430 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
27750341 GAGGGCATAT
27750351 ATAATAT-AATA
1 ATAATATAAATA
27750362 ATAATATAAATA
1 ATAATATAAATA
*
27750374 ATAATATATACATG
1 ATAATATA-A-ATA
*
27750388 AGAA-AT-AATA
1 ATAATATAAATA
27750398 ATAATATAAATA
1 ATAATATAAATA
* *
27750410 ATAGTAAAAATA
1 ATAATATAAATA
*
27750422 ATAAAATAA
1 ATAATATAA
27750431 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:27750765 original size:25 final size:26
Alignment explanation
Indices: 27750734--27750782 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27750724 AAAAACTAGC
* *
27750734 CTTTCC-AAGAAACAAAAACAACATT
1 CTTTCCAAAAAAACAAAAAAAACATT
27750759 CTTTCCAAAAAAACAAAAAAAACA
1 CTTTCCAAAAAAACAAAAAAAACA
27750783 CCTCTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.16
Consensus pattern (26 bp):
CTTTCCAAAAAAACAAAAAAAACATT
Found at i:27751001 original size:4 final size:4
Alignment explanation
Indices: 27750992--27751022 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
27750982 GGCCAAGGTT
27750992 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
27751023 GTGTTTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:27751407 original size:44 final size:44
Alignment explanation
Indices: 27751359--27751647 Score: 377
Period size: 44 Copynumber: 6.6 Consensus size: 44
27751349 TCTTCGATCC
27751359 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
*
27751403 GTTCCCTATAAGCACAGAGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
** * *
27751447 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTT
* * * * * * * * * * *
27751490 GCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
27751535 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
27751579 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
*
27751623 ATTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
27751648 TGCTGAAATC
Statistics
Matches: 209, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.01
43 7 0.03
44 192 0.92
45 6 0.03
46 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
Found at i:27751537 original size:88 final size:88
Alignment explanation
Indices: 27751303--27751671 Score: 313
Period size: 88 Copynumber: 4.2 Consensus size: 88
27751293 GATATCCGCT
* * * * * * * *
27751303 ATCTTTGATCTGCTTCACTGTAAGCACGGGAATGTCAGATTTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTTGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGATATCTTCAACT-TGTTCCCTA
*
27751367 TAAGCACAGGGATGCCAAATCTGAT
65 TAAGCACAGGGATGCC-AATCTGAA
* * * * * *
27751392 GT-TTTCAACTTG-TTCCCTATAAGCACA-GAGATGCCAAATCTGATGTTTTCAACTTGTTCCCT
1 ATCTTTGATC-TGCTTCACTATAAGCACAGGA-ATGCCAAATCTGATATCTTCAACTTGTTCCCT
27751454 ATAAGCACAGGGATGCC-ATGCTGAA
64 ATAAGCACAGGGATGCCAAT-CTGAA
* * * * * * *
27751479 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTAT
*
27751544 AAGCACAGGGATGCCAAATCTGAT
66 AAGCACAGGGATGCC-AATCTGAA
* * * * * * * *
27751568 GT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTATTCCCTA
1 ATCTTTGATC-TGCTTCACTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTA
27751631 TAAGCACAGGGATGCC-ATGCTGAA
65 TAAGCACAGGGATGCCAAT-CTGAA
* *
27751655 ATCTTCGATCTTCTTCA
1 ATCTTTGATCTGCTTCA
27751672 TTGCAACTCC
Statistics
Matches: 216, Mismatches: 51, Indels: 27
0.73 0.17 0.09
Matches are distributed among these distances:
86 4 0.02
87 15 0.07
88 182 0.84
89 13 0.06
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (88 bp):
ATCTTTGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTAT
AAGCACAGGGATGCCAATCTGAA
Found at i:27751603 original size:176 final size:176
Alignment explanation
Indices: 27751303--27751671 Score: 675
Period size: 176 Copynumber: 2.1 Consensus size: 176
27751293 GATATCCGCT
*
27751303 ATCTTTGATCTGCTTCACTGTAAGCACGGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
27751368 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGATGCCAAATCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGATGCCAAATCT
*
27751433 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
131 GATGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCATGCTGAA
**
27751479 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
*
27751544 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGATGCCAAATCT
27751609 GATGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCATGCTGAA
131 GATGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCATGCTGAA
* *
27751655 ATCTTCGATCTTCTTCA
1 ATCTTTGATCTGCTTCA
27751672 TTGCAACTCC
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
176 186 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (176 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGATGCCAAATCT
GATGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCATGCTGAA
Found at i:27751905 original size:44 final size:43
Alignment explanation
Indices: 27751833--27752079 Score: 205
Period size: 44 Copynumber: 5.7 Consensus size: 43
27751823 TGATTTTCAA
* * * *
27751833 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGAT
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAGGCTTGT-A-AATTGAG
* * *
27751878 CC-GTTTCCCTACTGCTTAGGGGTTTAAGATCTTGTAAAATCAG
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTGAG
* * *
27751921 CCTGTTACCCTACTGCTTAGGGGTTTAA-GATCTGTAAATTTAG
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAGGCT-TGTAAATTGAG
* * * ** **
27751964 CCTGTTACCCTACTGCTTAAGGGTTTAAGACTCATCACCTTCGA-
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAGGCTTGT-AAATT-GAG
* * * *
27752008 TCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATTTAG
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAGGCT-TGTAAATTGAG
*
27752051 CCTGTTGCCCTACTGCTTAGGGGTTTAAG
1 CCTGTTTCCCTACTGCTTAGGGGTTTAAG
27752080 ACTCATCACC
Statistics
Matches: 159, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.01
43 71 0.45
44 78 0.49
45 8 0.05
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CCTGTTTCCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTGAG
Found at i:27752013 original size:87 final size:87
Alignment explanation
Indices: 27751922--27752133 Score: 370
Period size: 87 Copynumber: 2.4 Consensus size: 87
27751912 TAAAATCAGC
* *
27751922 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGGG
*
27751987 TTTAAGACTCATCACCTTCGAT
66 TTTAAGACTCATCACCTTCAAT
* *
27752009 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTGCCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGGG
27752074 TTTAAGACTCATCACCTTCAAT
66 TTTAAGACTCATCACCTTCAAT
*
27752096 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT
27752134 CTTCAATCTG
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 119 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGGG
TTTAAGACTCATCACCTTCAAT
Found at i:27752106 original size:131 final size:131
Alignment explanation
Indices: 27751828--27752124 Score: 366
Period size: 131 Copynumber: 2.3 Consensus size: 131
27751818 ATATTTGATT
* * **
27751828 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGATCCGTTTCCCTACTGC
1 TTCAACCTATTACCCTACTGCTTAGGGGGTTAAGACTCATCATCATTGATCCGTTTCCCTACTGC
* *
27751893 TTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAA
66 TTAGGGGGTTAAGATCTTGTAAAATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGCAA
27751958 A
131 A
* * * * * * *
27751959 TTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGACTCATCA-CCTTCGATCTGTTTCCCTACTG
1 TTCAACCTATTACCCTACTGCTTAGGGGGTTAAGACTCATCATCATT-GATCCGTTTCCCTACTG
* * *
27752023 CTTAGGGGGTTAAGATC-TGTAAATTTAGCCTGTTGCCCTACTGCTTAGGGGTTTAAGACTCAT-
65 CTTAGGGGGTTAAGATCTTGTAAAATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA-TC-TG
**
27752086 CACC
128 CAAA
* *
27752090 TTCAATCTATTTCCCTACTGCTTAGGGGGTTAAGA
1 TTCAACCTATTACCCTACTGCTTAGGGGGTTAAGA
27752125 TCTGTAAATC
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
130 41 0.29
131 98 0.70
132 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (131 bp):
TTCAACCTATTACCCTACTGCTTAGGGGGTTAAGACTCATCATCATTGATCCGTTTCCCTACTGC
TTAGGGGGTTAAGATCTTGTAAAATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGCAA
A
Found at i:27752116 original size:44 final size:44
Alignment explanation
Indices: 27751828--27752124 Score: 183
Period size: 44 Copynumber: 6.8 Consensus size: 44
27751818 ATATTTGATT
* * * ** *
27751828 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCATCA-CC
* * * * * **
27751873 TT-GATCCGTTTCCCTACTGCTTAGGGGTTTAAGA-TCTTGTAAA
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCAT-CACC
* ** * * * **
27751916 ATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA-TC-TGTAAA
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCAT-CACC
* ** * * *
27751959 TTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGACTCATCACC
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCATCACC
* * **
27752003 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA-TC-TGTAAA
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCAT-CACC
* ** * *
27752046 TTTAGCCTGTTGCCCTACTGCTTAGGGGTTTAAGACTCATCACC
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCATCACC
*
27752090 TTCAATCTATTTCCCTACTGCTTAGGGGGTTAAGA
1 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGA
27752125 TCTGTAAATC
Statistics
Matches: 198, Mismatches: 47, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.01
43 74 0.37
44 119 0.60
45 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (44 bp):
TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGACTCATCACC
Found at i:27758377 original size:40 final size:40
Alignment explanation
Indices: 27758275--27758458 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
27758265 AAATTGAATG
* * * * *
27758275 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
27758315 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
27758355 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * * *
27758395 AAATCCAGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
27758435 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
27758459 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.95
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:27764026 original size:19 final size:19
Alignment explanation
Indices: 27763984--27764030 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
27763974 AGTAAAAGTT
*
27763984 TAATGCAAATGTTTCAATG
1 TAATGCAAATGTTGCAATG
*
27764003 TAATGCAAATGTATGGAATG
1 TAATGCAAATGT-TGCAATG
27764023 -AATGCAAA
1 TAATGCAAA
27764031 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (19 bp):
TAATGCAAATGTTGCAATG
Found at i:27766872 original size:3 final size:3
Alignment explanation
Indices: 27766859--27766941 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
27766849 GAGGGCATAT
27766859 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
27766903 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27766942 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:27766883 original size:12 final size:12
Alignment explanation
Indices: 27766859--27766938 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
27766849 GAGGGCATAT
27766859 ATAATAT-AATA
1 ATAATATAAATA
27766870 ATAATATAAATA
1 ATAATATAAATA
*
27766882 ATAATATATACATG
1 ATAATATA-A-ATA
*
27766896 AGAA-AT-AATA
1 ATAATATAAATA
27766906 ATAATATAAATA
1 ATAATATAAATA
* *
27766918 ATAGTAAAAATA
1 ATAATATAAATA
*
27766930 ATAAAATAA
1 ATAATATAA
27766939 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:27767564 original size:16 final size:17
Alignment explanation
Indices: 27767547--27767586 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
27767537 TGGGATTAGG
27767547 TTGGGCCAAAATTGGGT
1 TTGGGCCAAAATTGGGT
*
27767564 TTAGGCCAAAATTGGGT
1 TTGGGCCAAAATTGGGT
27767581 TTGGGC
1 TTGGGC
27767587 TTGTAACTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (17 bp):
TTGGGCCAAAATTGGGT
Found at i:27768725 original size:24 final size:24
Alignment explanation
Indices: 27768675--27768726 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
27768665 TTTCTAGAAG
* * *
27768675 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAACAT
* *
27768699 ATTTAGCATTTATTAGCATGACCT
1 ATTTAGCATTTATTAGCATAACAT
27768723 ATTT
1 ATTT
27768727 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAACAT
Found at i:27770086 original size:20 final size:19
Alignment explanation
Indices: 27770053--27770092 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
27770043 AATTAGTTTA
27770053 TTAATTAATTATAATTAAC
1 TTAATTAATTATAATTAAC
27770072 TTAATTAACTTATAATTAAC
1 TTAATTAA-TTATAATTAAC
27770092 T
1 T
27770093 AAACTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTAATTATAATTAAC
Found at i:27770089 original size:11 final size:11
Alignment explanation
Indices: 27770054--27770092 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
27770044 ATTAGTTTAT
27770054 TAATTAA-TTA
1 TAATTAACTTA
27770064 TAATTAAC-T-
1 TAATTAACTTA
27770073 TAATTAACTTA
1 TAATTAACTTA
27770084 TAATTAACT
1 TAATTAACT
27770093 AAACTTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTAACTTA
Found at i:27771778 original size:22 final size:23
Alignment explanation
Indices: 27771745--27771791 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
27771735 CAATTTATAT
27771745 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
27771768 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATATATAAATATTTG
27771790 TT
1 TT
27771792 CGCTAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:27771787 original size:14 final size:14
Alignment explanation
Indices: 27771737--27771788 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
27771727 AAATTATTCA
27771737 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
27771750 -TTTATATATAAAT
1 ATTTATATATTTAT
* *
27771763 ATTTGTTTATTTAT
1 ATTTATATATTTAT
27771777 ATTTATATATTT
1 ATTTATATATTT
27771789 GTTCGCTAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 19 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:27777969 original size:37 final size:37
Alignment explanation
Indices: 27777919--27777993 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
27777909 GTTTTATTGT
27777919 GTTTGGCAAAGAACACATGGTGTATAGGCTCAAAAAG
1 GTTTGGCAAAGAACACATGGTGTATAGGCTCAAAAAG
27777956 GTTTGGCAAAGAACACATGGTGTATAGGCTCAAAAAG
1 GTTTGGCAAAGAACACATGGTGTATAGGCTCAAAAAG
27777993 G
1 G
27777994 CCTTGTATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.21
Consensus pattern (37 bp):
GTTTGGCAAAGAACACATGGTGTATAGGCTCAAAAAG
Found at i:27785226 original size:158 final size:158
Alignment explanation
Indices: 27784934--27785242 Score: 528
Period size: 158 Copynumber: 2.0 Consensus size: 158
27784924 TTTATTTTCG
* * * *
27784934 AATACACACCTTTATATATAGTTGTGTGGCGTAGAAAGTTGCTTTTCACAAGTATGTTTTCATTA
1 AATACACACCTTTATATATAGTTGTGTAGCGTAGAAAGTTGCGTCTCACAAGTATGTTTCCATTA
* *
27784999 TTTAGTAGTATTTATTTATTAATTCGTTACTATATGTTTGTCTCAGTTAATGGTAAGGGGTCATT
66 TTTAGCAGTATTTATTTATTAATTCGTTACTATATGTTTGTCTCAGTTAATGGTAAGGGGTCATC
27785064 AGTTGGTCTTTTTAAAGGAATGCACTCA
131 AGTTGGTCTTTTTAAAGGAATGCACTCA
27785092 AATACACACCTTTATATATAGTTGTGTAGCGTAGAAAGTTGCGTCTCACAAGTATGTTTCCATTA
1 AATACACACCTTTATATATAGTTGTGTAGCGTAGAAAGTTGCGTCTCACAAGTATGTTTCCATTA
* * * *
27785157 TTTAGCAGTATTTATTTGTTAATTCTTTACTATATGTTTGTTTCAGTTAATGTTAAGGGGTCATC
66 TTTAGCAGTATTTATTTATTAATTCGTTACTATATGTTTGTCTCAGTTAATGGTAAGGGGTCATC
27785222 AGTTGGTCTTTTTAAAGGAAT
131 AGTTGGTCTTTTTAAAGGAAT
27785243 TGCATTCCTG
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 141 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (158 bp):
AATACACACCTTTATATATAGTTGTGTAGCGTAGAAAGTTGCGTCTCACAAGTATGTTTCCATTA
TTTAGCAGTATTTATTTATTAATTCGTTACTATATGTTTGTCTCAGTTAATGGTAAGGGGTCATC
AGTTGGTCTTTTTAAAGGAATGCACTCA
Found at i:27788343 original size:81 final size:81
Alignment explanation
Indices: 27788208--27788356 Score: 217
Period size: 81 Copynumber: 1.8 Consensus size: 81
27788198 AATACTCGAT
* *
27788208 ATCTCGCACACTAAATGCCGTACATAGCCGAAGTTATCTCAAATCACACACTAAGTGCCATATAT
1 ATCTCGCACACTAAATGCCATACATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
27788273 AGCCGAAGCTATCTTG
66 AGCCGAAGCTATCTTG
* * * * * * *
27788289 ATCTCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATCGCGCACTAAGTGCCATATAT
1 ATCTCGCACACTAAATGCCATACATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
27788354 AGC
66 AGC
27788357 TGATTTGTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (81 bp):
ATCTCGCACACTAAATGCCATACATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
AGCCGAAGCTATCTTG
Found at i:27788359 original size:40 final size:40
Alignment explanation
Indices: 27788211--27788356 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
27788201 ACTCGATATC
* * * * *
27788211 TCGCACACTAAATGCCGTACATAGCCGAAGTTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAA
* * *
27788251 TCACACACTAAGTGCCATATATAGCCGAAGCTATCTTGATC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGA-A
* *
27788292 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAA
*
27788332 TCGCGCACTAAGTGCCATATATAGC
1 TCGCACACTAAGTGCCATATATAGC
27788357 TGATTTGTCG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 56 0.62
41 35 0.38
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAA
Found at i:27799537 original size:16 final size:16
Alignment explanation
Indices: 27799516--27799549 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27799506 AGGCACTCAG
27799516 AGATGTCAGTGTATGA
1 AGATGTCAGTGTATGA
27799532 AGATGTCAGTGTATGA
1 AGATGTCAGTGTATGA
27799548 AG
1 AG
27799550 CCGCCGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (16 bp):
AGATGTCAGTGTATGA
Found at i:27810787 original size:30 final size:30
Alignment explanation
Indices: 27810751--27810807 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
27810741 CACGAGCTGG
* * *
27810751 CACATGGTCGTGTGTCCAGCCCGTGTGCCT
1 CACATGGGCATGTGTCCAACCCGTGTGCCT
*
27810781 CACATGGGCATGTGTCCAACCTGTGTG
1 CACATGGGCATGTGTCCAACCCGTGTG
27810808 GAAGGGCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (30 bp):
CACATGGGCATGTGTCCAACCCGTGTGCCT
Found at i:27813266 original size:20 final size:20
Alignment explanation
Indices: 27813207--27813266 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
27813197 TTTATTTCTA
27813207 TTAATTTAGTATTTTTTATTT
1 TTAATTTAGTA-TTTTTATTT
* * *
27813228 TTATTTTAATATCTTTATTT
1 TTAATTTAGTATTTTTATTT
27813248 TTAATTTAGT-TTTTATATT
1 TTAATTTAGTATTTT-TATT
27813267 CTAATATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.09
20 20 0.62
21 9 0.28
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (20 bp):
TTAATTTAGTATTTTTATTT
Found at i:27818464 original size:25 final size:25
Alignment explanation
Indices: 27818436--27818483 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27818426 TTATAATATG
* * *
27818436 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27818461 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27818484 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27818552 original size:20 final size:20
Alignment explanation
Indices: 27818527--27818585 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
27818517 TAAATATGGT
27818527 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
27818547 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
27818567 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
27818586 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:27818567 original size:11 final size:11
Alignment explanation
Indices: 27818531--27818585 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
27818521 TATGGTATGT
27818531 ATGATATGCAC
1 ATGATATGCAC
* *
27818542 ATGAAATG--T
1 ATGATATGCAC
27818551 ATGATATGCAC
1 ATGATATGCAC
*
27818562 ATGATATG--T
1 ATGATATGCAC
27818571 ATGATATGCAC
1 ATGATATGCAC
27818582 ATGA
1 ATGA
27818586 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:27818663 original size:24 final size:24
Alignment explanation
Indices: 27818636--27818778 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
27818626 GAGGAAGTGA
27818636 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
27818660 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
27818684 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
27818707 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
27818731 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
27818755 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
27818779 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:27818729 original size:47 final size:47
Alignment explanation
Indices: 27818636--27818778 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
27818626 GAGGAAGTGA
27818636 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
27818684 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
27818731 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
27818779 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:27818752 original size:71 final size:72
Alignment explanation
Indices: 27818636--27818779 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
27818626 GAGGAAGTGA
*
27818636 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
27818699 CCAGTTAT
65 CCAGTTAT
** * *
27818707 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
27818772 CAGTTAT
66 CAGTTAT
27818779 A
1 A
27818780 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:27819005 original size:31 final size:31
Alignment explanation
Indices: 27818970--27819064 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
27818960 CGTTTACAGT
27818970 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27819001 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
27819032 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27819063 AA
1 AA
27819065 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:27826547 original size:25 final size:25
Alignment explanation
Indices: 27826518--27826565 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27826508 TTATAATATG
* * *
27826518 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27826543 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27826566 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27826634 original size:20 final size:20
Alignment explanation
Indices: 27826609--27826667 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
27826599 TAAATATGGT
27826609 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
27826629 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
27826649 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
27826668 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:27826649 original size:11 final size:11
Alignment explanation
Indices: 27826613--27826667 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
27826603 TATGGTATGT
27826613 ATGATATGCAC
1 ATGATATGCAC
* *
27826624 ATGAAATG--T
1 ATGATATGCAC
27826633 ATGATATGCAC
1 ATGATATGCAC
*
27826644 ATGATATG--T
1 ATGATATGCAC
27826653 ATGATATGCAC
1 ATGATATGCAC
27826664 ATGA
1 ATGA
27826668 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:27826745 original size:24 final size:24
Alignment explanation
Indices: 27826718--27826860 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
27826708 GAGGAAGTGA
27826718 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
27826742 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
27826766 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
27826789 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
27826813 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
27826837 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
27826861 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:27826811 original size:47 final size:47
Alignment explanation
Indices: 27826718--27826860 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
27826708 GAGGAAGTGA
27826718 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
27826766 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
27826813 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
27826861 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:27826834 original size:71 final size:72
Alignment explanation
Indices: 27826718--27826861 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
27826708 GAGGAAGTGA
*
27826718 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
27826781 CCAGTTAT
65 CCAGTTAT
** * *
27826789 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
27826854 CAGTTAT
66 CAGTTAT
27826861 A
1 A
27826862 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:27827087 original size:31 final size:31
Alignment explanation
Indices: 27827052--27827146 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
27827042 CGTTTACAGT
27827052 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27827083 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
27827114 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27827145 AA
1 AA
27827147 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:27849181 original size:67 final size:66
Alignment explanation
Indices: 27849110--27849238 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 66
27849100 TACTATGTGT
* * *
27849110 ACACCATGTAGACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCACAT-GCGTGGTTCTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATAG-GTGGTACTAAGTG
27849173 AAGG
63 AAGG
27849177 ACACCATGTAGACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATAGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATAGGTGGTACTAAGTG
27849239 TTCACCATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
66 24 0.42
67 31 0.54
68 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATAGGTGGTACTAAGTGAAG
G
Found at i:27853509 original size:14 final size:14
Alignment explanation
Indices: 27853490--27853518 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27853480 TTGAGATGTT
27853490 TTCTTTCATAAGTA
1 TTCTTTCATAAGTA
27853504 TTCTTTCATAAGTA
1 TTCTTTCATAAGTA
27853518 T
1 T
27853519 GAACTAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCTTTCATAAGTA
Found at i:27868062 original size:26 final size:26
Alignment explanation
Indices: 27868033--27868089 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
27868023 AACCATTGAT
*
27868033 CTATCACTCTCAGTCAAACTCAAGAA
1 CTATCACCCTCAGTCAAACTCAAGAA
*
27868059 CTATCACCCTCAGTCATACTCAAGAA
1 CTATCACCCTCAGTCAAACTCAAGAA
27868085 CTATC
1 CTATC
27868090 TCCTACAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.33, G:0.07, T:0.25
Consensus pattern (26 bp):
CTATCACCCTCAGTCAAACTCAAGAA
Found at i:27870237 original size:49 final size:49
Alignment explanation
Indices: 27870156--27870336 Score: 231
Period size: 49 Copynumber: 3.7 Consensus size: 49
27870146 TCTACTGTGA
*
27870156 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * * *
27870205 GGTCGCATTTGTAGTACTAAGTGCAGACTACT--ATGCTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATG-TACCAGATAA-TT
* * *
27870254 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* *
27870304 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
27870337 TGCGTACCAA
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
47 3 0.03
48 9 0.08
49 61 0.54
50 30 0.27
51 8 0.07
52 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
Found at i:27870335 original size:99 final size:100
Alignment explanation
Indices: 27870158--27870344 Score: 313
Period size: 99 Copynumber: 1.9 Consensus size: 100
27870148 TACTGTGAGG
* *
27870158 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATTTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
27870223 AAGTGCAGACTACTATGC-TACCCGATAACTTCGA
66 AAGTGCAGACTACTATGCGTACCCGATAACTTCGA
* *
27870257 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
27870322 AAGTGTAGGCTACTATGCGTACC
66 AAGTGCAGACTACTATGCGTACC
27870345 AAATAGCTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 77 0.95
100 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTATGCGTACCCGATAACTTCGA
Found at i:27877573 original size:37 final size:37
Alignment explanation
Indices: 27877531--27877612 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
27877521 TTAAGCTAAA
27877531 ACATACTTCATTCATGCCATAATATTATCAACCATTT
1 ACATACTTCATTCATGCCATAATATTATCAACCATTT
27877568 ACATACTTCATTCATGCCATAATATTATCAACCATTT
1 ACATACTTCATTCATGCCATAATATTATCAACCATTT
27877605 ACATACTT
1 ACATACTT
27877613 ATAAACCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.38
Consensus pattern (37 bp):
ACATACTTCATTCATGCCATAATATTATCAACCATTT
Found at i:27878399 original size:30 final size:29
Alignment explanation
Indices: 27878352--27878416 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
27878342 GCCTCAAGTA
27878352 GCCAAAGCTAGTTAAATCACACACTTAGT
1 GCCAAAGCTAGTTAAATCACACACTTAGT
* *
27878381 GCCAAAGCTATTTTAAATCGCACACTTAGT
1 GCCAAAGCTA-GTTAAATCACACACTTAGT
27878411 GCCAAA
1 GCCAAA
27878417 ACTTCCGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCACACACTTAGT
Found at i:27898200 original size:12 final size:12
Alignment explanation
Indices: 27898183--27898208 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27898173 TTTTCAGTCC
27898183 AAACGCCACTAA
1 AAACGCCACTAA
27898195 AAACGCCACTAA
1 AAACGCCACTAA
27898207 AA
1 AA
27898209 GCTTAATTTC
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:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:27903485 original size:17 final size:15
Alignment explanation
Indices: 27903464--27903505 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
27903454 ATTGTTGTAA
27903464 ATTTTTTATGTATAT
1 ATTTTTTATGTATAT
27903479 ATTTTTTATGTATAT
1 ATTTTTTATGTATAT
27903494 ATTTTTTATGTA
1 ATTTTTTATGTA
27903506 CGTTTCCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTTATGTATAT
Found at i:27905323 original size:12 final size:12
Alignment explanation
Indices: 27905306--27905336 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27905296 ATTTATTTGA
*
27905306 CATTCATGCATT
1 CATTCATGCATC
27905318 CATTCATGCATC
1 CATTCATGCATC
27905330 CATTCAT
1 CATTCAT
27905337 TTATTGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (12 bp):
CATTCATGCATC
Found at i:27913691 original size:76 final size:76
Alignment explanation
Indices: 27913586--27913755 Score: 233
Period size: 76 Copynumber: 2.3 Consensus size: 76
27913576 TATTTTGATG
* * *
27913586 TTTTTATTTCTG--TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTAATTTCTGCTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAACCTCAAGACA
*
27913648 CATTGAGGT-A
66 CATTAAGGTAA
* *
27913658 TTTTCAATTTCTGCTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGC
1 TTTT-AATTTCTGCTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAACCTCAAGAC
*
27913723 ACGTTAAGGTAA
65 ACATTAAGGTAA
27913735 TTTTAATTTCTGCTTTT-AAAA
1 TTTTAATTTCTGCTTTTCAAAA
27913756 TTTATATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
72 4 0.05
73 7 0.08
75 8 0.09
76 62 0.72
77 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (76 bp):
TTTTAATTTCTGCTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAACCTCAAGACA
CATTAAGGTAA
Found at i:27913825 original size:92 final size:85
Alignment explanation
Indices: 27913672--27914081 Score: 336
Period size: 77 Copynumber: 4.9 Consensus size: 85
27913662 CAATTTCTGC
* * * *
27913672 TTTTCAAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTAAGGTAAT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
*
27913736 TTTAATTTCTGCTTTTAAAATTTATA
65 TTTAATTTCTG-TTGTAAAA---A-A
27913762 TTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 -TTTTCAAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
27913827 TTTAAATTTCTGTTGTAAAAAA
64 TTTTAATTTCTGTTGTAAAAAA
** * *
27913849 -----AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT-ATT
1 TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
27913908 TTCAA-TT-T-TTGT------
66 TT-AATTTCTGTTGTAAAAAA
* ** * * * * *
27913920 CTTTCAAAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACATGTTGAGGTAGT
1 TTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * ***
27913985 TTCAATTTCTGTT-CAATTTA
65 TTTAATTTCTGTTGTAAAAAA
*** *
27914005 TGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT-AT
1 T-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
27914068 TTTCAATTTCTGTT
65 TTT-AATTTCTGTT
27914082 TTTCAAAAAT
Statistics
Matches: 269, Mismatches: 29, Indels: 49
0.78 0.08 0.14
Matches are distributed among these distances:
77 60 0.22
78 6 0.02
79 7 0.03
80 48 0.18
81 8 0.03
83 3 0.01
84 56 0.21
86 3 0.01
87 1 0.00
88 1 0.00
91 23 0.09
92 53 0.20
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (85 bp):
TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TTAATTTCTGTTGTAAAAAA
Found at i:27914013 original size:88 final size:84
Alignment explanation
Indices: 27913929--27915106 Score: 609
Period size: 73 Copynumber: 14.8 Consensus size: 84
27913919 TCTTTCAAAA
***
27913929 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACATGTTGAGGTAGTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
*
27913994 TGTTCAATTTATGTTTTTC
66 TGTTCAATTTATGTCTTTC
** * * *
27914013 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
27914078 TG---------T-T-TTTC
66 TGTTCAATTTATGTCTTTC
** * ** * *
27914086 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTT-TCAA--T
* *
27914150 TTGTGTTTCAATCTAT-T-TTTC
63 TTCTG-TTCAATTTATGTCTTTC
* * * * *
27914171 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
27914236 TG------TT-TG----TC
66 TGTTCAATTTATGTCTTTC
** * * ** *
27914244 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
* *
27914309 TGCTTTTCAATTTATATTTTTC
66 TG---TTCAATTTATGTCTTTC
* ** * * * *
27914331 AAAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAAT
**
27914396 TTCTGTTGTCAA---A------AA
63 TTCTG-T-TCAATTTATGTCTTTC
* ** * *
27914411 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
**
27914476 TG-TC----T-T-TC--AA
66 TGTTCAATTTATGTCTTTC
* ** * *
27914486 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
****
27914551 TG-TC----T-T-TCAAAAA
66 TGTTCAATTTATGTC-TTTC
* * **
27914564 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
* *
27914629 TGCTCAATTTATGTTTTTC
66 TGTTCAATTTATGTCTTTC
** * * * *
27914648 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
27914709 T-TTC----TAT-T-TTTC
66 TGTTCAATTTATGTCTTTC
** * ** *
27914721 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTT-TCAA--T
* *
27914785 TTGTGTTTCAATCTAT-T-TTTC
63 TTCTG-TTCAATTTATGTCTTTC
* * * * * *
27914806 AAAAATCAACTTATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
27914871 TG------TT-TG----TC
66 TGTTCAATTTATGTCTTTC
** * * ** *
27914879 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATATC
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAAT-T-
* * *
27914944 TGCTTTTCAATTTATATTTTTC
64 T-CTGTTCAATTTATGTCTTTC
** * * * *
27914966 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAAT
**
27915031 TTCTG-------T-TGTC--AA
63 TTCTGTTCAATTTATGTCTTTC
* ** *
27915043 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTT
27915107 TTATCTTTCA
Statistics
Matches: 929, Mismatches: 86, Indels: 168
0.79 0.07 0.14
Matches are distributed among these distances:
72 4 0.00
73 240 0.26
74 59 0.06
75 92 0.10
76 4 0.00
77 55 0.06
78 69 0.07
79 7 0.01
80 2 0.00
81 3 0.00
82 4 0.00
83 13 0.01
84 115 0.12
85 121 0.13
86 5 0.01
87 6 0.01
88 3 0.00
89 15 0.02
90 112 0.12
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (84 bp):
AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACACTGAGGTAGTTTCAATTTC
TGTTCAATTTATGTCTTTC
Found at i:27914088 original size:73 final size:73
Alignment explanation
Indices: 27913996--27914953 Score: 636
Period size: 73 Copynumber: 12.3 Consensus size: 73
27913986 TCAATTTCTG
* * *
27913996 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCT
27914061 GAGGTATT
66 GAGGTATT
* * *
27914069 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCT
27914134 GAGGTATT
66 GAGGTATT
* * * *
27914142 GTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCC
1 TTCAA---------TT---TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC
*
27914207 TCAGGACACGCTGAGGTAAT
54 TCAGGACACGCTGAGGTATT
* * *
27914227 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AGGACACGC
*
27914291 TGAGGTAAT
65 TGAGGTATT
* * ** * * * * * *
27914300 TTCAATTTCTGCTTTTCAATTTATATTTTTCAA-AAAAATTCAACTCATATTGCAAGAGGTGAG-
1 TTCAATTTCTGTTTTTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-ATGAGTTGAGC
* * ** * * *
27914363 TTGAGCCTCAGGAC--ACGCTGA-G
53 CTCAG-GACACG-CTGA-GGT-ATT
* * *
27914385 GT-AATTTCAATTTCTGTTGTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 TTCAATTTC--TGT-T-TT-TC-----AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC
* *
27914449 AAGACATGCTGAGGTATT
56 AGGACACGCTGAGGTATT
* * * * *
27914467 TTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACG
27914532 CTGAGGTATT
64 CTGAGGTATT
* * * * *
27914542 TTCAATTTTTGTCTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGAC
1 TTCAATTTCTGTTTTTC-----AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGAC
*
27914607 ACGTTGAGGTAGTTTCAATTT
61 ACGCTGA-G--G--T--A-TT
* *
27914628 CTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 -T--TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACAC
27914693 GCTGAGGTATT
63 GCTGAGGTATT
* * *
27914704 TTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCT
27914769 GAGGTATT
66 GAGGTATT
* * * * *
27914777 GTCAATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTTATATTACGAGAAATGAGTTGAGCC
1 TTCAA---------TT---TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC
*
27914842 TCAGGACACGCTGAGGTAAT
54 TCAGGACACGCTGAGGTATT
* * *
27914862 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AGGACACGC
*
27914926 TGAGGTAAT
65 TGAGGTATT
* *
27914935 TTCAATATCTGCTTTTCAA
1 TTCAATTTCTGTTTTTCAA
27914954 TTTATATTTT
Statistics
Matches: 717, Mismatches: 94, Indels: 148
0.75 0.10 0.15
Matches are distributed among these distances:
73 290 0.40
74 6 0.01
75 76 0.11
76 7 0.01
77 2 0.00
78 51 0.07
79 8 0.01
80 4 0.01
81 7 0.01
82 20 0.03
83 12 0.02
84 54 0.08
85 143 0.20
86 5 0.01
87 6 0.01
88 6 0.01
89 16 0.02
90 1 0.00
91 1 0.00
94 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCT
GAGGTATT
Found at i:27914210 original size:158 final size:157
Alignment explanation
Indices: 27913770--27915117 Score: 1458
Period size: 158 Copynumber: 8.5 Consensus size: 157
27913760 TATTTTTCAA
* *
27913770 AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATT
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATT
* * ****** *
27913835 TCTGT-TGT-AA--AAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
64 TTTGTGTTTCAATTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
* * *
27913896 TGCTGAGGTATTTTCAATTTTTGTCTT-TC
129 CGCTGAGGTAATTTCAATTTCTGT-TTGTC
** * * *
27913925 AAAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACATGTTGAGGTAGTTTCAA
1 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTCAA
* **
27913990 --TTTCTG-TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
62 TTTTTGTGTTTCAA-TTA--TTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * *
27914052 GGACACACTGAGGTATTTTCAATTTCTGTTTTTC
124 GGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
** *
27914086 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT-TCAATTT
*
27914150 TTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
65 TTGTGTTTCAAT-TATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
27914215 CGCTGAGGTAATTTCAATTTCTGTTTGTC
129 CGCTGAGGTAATTTCAATTTCTGTTTGTC
* *
27914244 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTT
* * **
27914308 CTGCT-TTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
65 TTG-TGTTTCAA--T-TATTTTTC--AAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTC
27914372 AGGACACGCTGAGGTAATTTCAATTTCTG-TTGTC
123 AGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
** *
27914406 AAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTCA
* *
27914471 ATTTTTGTCTTTC-A--A------AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
61 ATTTTTGTGTTTCAATTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
* * *
27914527 ACATGCTGAGGTATTTTCAATTTTTGTCTT-TC
126 ACACGCTGAGGTAATTTCAATTTCTGT-TTGTC
* ** *
27914559 AAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCA
1 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTCA
* * **
27914624 A--TTTCTG-CTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
61 ATTTTTGTGTTTCAA-TTA--TTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* * *
27914686 AGGACACGCTGAGGTATTTTCAATTTCTATTTTTC
123 AGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
**
27914721 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT-TCAATTT
* *
27914785 TTGTGTTTCAATCTATTTTTCAAAAATCAACTTATATTACGAGAAATGAGTTGAGCCTCAGGACA
65 TTGTGTTTCAAT-TATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
27914850 CGCTGAGGTAATTTCAATTTCTGTTTGTC
129 CGCTGAGGTAATTTCAATTTCTGTTTGTC
* * *
27914879 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTT
* **
27914943 CTGCT-TTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 TTG-TGTTTCAA--T-TATTTTTC--AAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTC
27915007 AGGACACGCTGAGGTAATTTCAATTTCTG-TTGTC
123 AGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
** *
27915041 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTCAATT
* *
27915106 TTTATCTTTCAA
64 TTTGTGTTTCAA
27915118 AAAATCAACT
Statistics
Matches: 1025, Mismatches: 106, Indels: 112
0.82 0.09 0.09
Matches are distributed among these distances:
150 2 0.00
151 5 0.00
152 55 0.05
153 69 0.07
154 3 0.00
155 4 0.00
156 7 0.01
157 149 0.15
158 279 0.27
159 21 0.02
160 33 0.03
161 67 0.07
162 84 0.08
163 118 0.12
164 63 0.06
166 3 0.00
167 63 0.06
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (157 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTT
TGTGTTTCAATTATTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTTCTGTTTGTC
Done.