Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 78
Found at i:7810118 original size:20 final size:20
Alignment explanation
Indices: 7810093--7810130 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7810083 TTCATCCAAG
* *
7810093 TTCATCCAGTATTGATACCA
1 TTCATCCAATATCGATACCA
7810113 TTCATCCAATATCGATAC
1 TTCATCCAATATCGATAC
7810131 TCAAACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (20 bp):
TTCATCCAATATCGATACCA
Found at i:7811895 original size:64 final size:64
Alignment explanation
Indices: 7811822--7811959 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 64
7811812 CGGATCCTGG
7811822 CAGGTCAGGTAAAATCAGATACAGGTCA-AGTCAGGTAAATTTGACACCAGATCTAGATCGGGTT
1 CAGGTCAGGTAAAATCAG-TACAGGTCATAGTCAGGTAAATTTGACACCAGATCTAGATCGGGTT
* * * * ** ** *
7811886 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCTAGATCTGGTT
1 CAGGTCAGGTAAAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCTAGATCGGGTT
7811950 CAGGTCAGGT
1 CAGGTCAGGT
7811960 CATTTTCAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 6 0.09
64 58 0.91
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (64 bp):
CAGGTCAGGTAAAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCTAGATCGGGTT
Found at i:7813008 original size:208 final size:212
Alignment explanation
Indices: 7812262--7813092 Score: 1275
Period size: 209 Copynumber: 3.9 Consensus size: 212
7812252 ATTTTATGAA
* *
7812262 AAATACAAATTT-GAGAATTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
1 AAATA-AAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
*
7812326 AACAACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
65 AACAACACACA-T-A-AAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-
* * *
7812391 AAAAAAATACTAAATTATAACCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAATTAAGTAAT
126 -AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAAT
* *
7812456 AAGTATGGATCAATTTCATATGC
190 AAGTATGGGTCAATTTCAGATGC
7812479 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* *
7812544 ACAACACACATTAATGAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAA
66 ACAACACACA-TAA--AGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
*
7812609 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCTATTTAAAAATAGAAATAAGTAATAAG
128 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAG
7812674 TATGGGTCAATTTCAGATGC
193 TATGGGTCAATTTCAGATGC
* *
7812694 AAATAAAATTTGGAGGACTAAATTGAAGAAATATGAAATTACAAATAAAAATTTAAATATATTAA
1 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
7812759 AC-A-ACACA-AAAGGGATCAAATCAAAATAATTTTAAATTTTGAAGTTAAAATTAATACAAAAA
66 ACAACACACATAAAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAA
7812821 GTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTAT
131 GTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTAT
*
7812886 GGGTCAATTTCAGGTGC
196 GGGTCAATTTCAGATGC
* *
7812903 AAA-AAAAATTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAA
1 AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
7812967 ACAACA-A-A-AAAGGGATCAAATCGAAATAATTTTAGATTTTGAGGTTGAAATTAATACAAAAA
66 ACAACACACATAAAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAA
* * *
7813029 TGTACTAAATTTTACTCATTTAAAAAGTTATGGGCCAA-TTAATAAATATAAATAAGTAATAAGT
131 -GTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
7813093 TGAGAAAAAA
Statistics
Matches: 579, Mismatches: 28, Indels: 22
0.92 0.04 0.03
Matches are distributed among these distances:
208 116 0.20
209 188 0.32
210 1 0.00
211 2 0.00
213 5 0.01
214 1 0.00
215 146 0.25
216 7 0.01
217 113 0.20
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (212 bp):
AAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATAAAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAA
GTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTAT
GGGTCAATTTCAGATGC
Found at i:7813202 original size:27 final size:27
Alignment explanation
Indices: 7813163--7813267 Score: 102
Period size: 27 Copynumber: 3.7 Consensus size: 27
7813153 GTATTATTTA
*
7813163 TATAAACTATATAATTTATATATATTATG
1 TATAAAC--TATAATCTATATATATTATG
* **
7813192 TATAAACTATAAACTATATATACCATG
1 TATAAACTATAATCTATATATATTATG
** *
7813219 TATAAACTATAATACTATATAGCTTATA
1 TATAAACTATAAT-CTATATATATTATG
*
7813247 TATAAACTATTGATCTATATA
1 TATAAACTA-TAATCTATATA
7813268 GAAACTACAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 28 0.44
28 25 0.40
29 10 0.16
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.41
Consensus pattern (27 bp):
TATAAACTATAATCTATATATATTATG
Found at i:7813324 original size:20 final size:20
Alignment explanation
Indices: 7813226--7813329 Score: 86
Period size: 20 Copynumber: 5.2 Consensus size: 20
7813216 ATGTATAAAC
**
7813226 TATAATACTATATAGCTTATA
1 TATAA-ACTATATAATTTATA
* *
7813247 TATAAACTAT-TGATCTATA
1 TATAAACTATATAATTTATA
* * *
7813266 TAGAAACTACATAGTTTATA
1 TATAAACTATATAATTTATA
*
7813286 TATAAATTATATGAA-TTATA
1 TATAAACTATAT-AATTTATA
* *
7813306 TATAAACTATACAATTTATT
1 TATAAACTATATAATTTATA
7813326 TATA
1 TATA
7813330 TACAATGTAT
Statistics
Matches: 64, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
19 15 0.23
20 43 0.67
21 6 0.09
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (20 bp):
TATAAACTATATAATTTATA
Found at i:7813324 original size:40 final size:39
Alignment explanation
Indices: 7813242--7813329 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 39
7813232 ACTATATAGC
* *
7813242 TTATATATAAACTATTGATCTATATAGAAACTACATAGT
1 TTATATATAAACTATTGATCTATATAGAAACTACACAAT
* * *
7813281 TTATATATAAATTATATGAAT-TATATATAAACTATACAAT
1 TTATATATAAACTAT-TG-ATCTATATAGAAACTACACAAT
*
7813321 TTATTTATA
1 TTATATATA
7813330 TACAATGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 14 0.34
40 25 0.61
41 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (39 bp):
TTATATATAAACTATTGATCTATATAGAAACTACACAAT
Found at i:7813469 original size:20 final size:20
Alignment explanation
Indices: 7813444--7813516 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
7813434 TATAAACTAC
*
7813444 ATACTATAATTTATATTCAT
1 ATACTATAATTTATATTTAT
*
7813464 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
*
7813487 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
7813509 ATACTATA
1 ATACTATA
7813517 TATATGAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 14 0.31
21 2 0.04
22 11 0.24
23 10 0.22
24 2 0.04
25 6 0.13
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:7813515 original size:33 final size:33
Alignment explanation
Indices: 7813468--7813734 Score: 178
Period size: 33 Copynumber: 8.1 Consensus size: 33
7813458 ATTCATATAC
*
7813468 TATATTT-TATACTATTTATATAAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
7813500 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
* * ** **
7813533 TACA--TATAAACTATAGTTAATATTTAC-ATATGAAA
1 TATATTTATATACTATA--T-ATATAAACTATA-G-TT
*
7813568 TATAGTTTACCTATGAACTATATATATAAAATATGTAGTT
1 TATA-TTTA--TAT--ACTATATATATAAACTA--TAGTT
* * *
7813608 TACA-TAATATACTATATATATAAACTATA-AT
1 TATATTTATATACTATATATATAAACTATAGTT
* * *
7813639 TATA--CATA-A-TATATAAATATACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
* * *
7813668 TACATAT-TATACTATATATATAAATTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
7813700 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
7813733 TA
1 TA
7813735 CATATAAACT
Statistics
Matches: 180, Mismatches: 33, Indels: 43
0.70 0.13 0.17
Matches are distributed among these distances:
28 15 0.08
29 5 0.03
30 5 0.03
31 15 0.08
32 31 0.17
33 55 0.31
34 23 0.13
35 3 0.02
36 3 0.02
38 4 0.02
39 5 0.03
40 7 0.04
41 1 0.01
42 8 0.04
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (33 bp):
TATATTTATATACTATATATATAAACTATAGTT
Found at i:7813582 original size:18 final size:18
Alignment explanation
Indices: 7813555--7813589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7813545 ATAGTTAATA
7813555 TTTACATATGAAATATAG
1 TTTACATATGAAATATAG
* *
7813573 TTTACCTATGAACTATA
1 TTTACATATGAAATATA
7813590 TATATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
TTTACATATGAAATATAG
Found at i:7813665 original size:93 final size:92
Alignment explanation
Indices: 7813568--7813738 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 92
7813558 ACATATGAAA
* *
7813568 TATAGTTTACCTATGA-ACTATATATATAAAATATGTAGTTTACA-TAATATACTATATATATAA
1 TATAGTTTACATATGATACTATATATAT-AAAT-TATAGTTTACATTAATATACTATATATATAA
7813631 ACTATAATTATACATAATATATAAATATAC
64 ACTATAATT-TACATAATATATAAATATAC
* * * *
7813661 TATAGTTTACATATTATACTATATATATAAATTATAGTTTATATTTATATACTATATATATGAAC
1 TATAGTTTACATATGATACTATATATATAAATTATAGTTTACATTAATATACTATATATATAAAC
*
7813726 TATAGTTTACATA
66 TATAATTTACATA
7813739 TAAACTATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 15 0.22
93 43 0.62
94 11 0.16
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (92 bp):
TATAGTTTACATATGATACTATATATATAAATTATAGTTTACATTAATATACTATATATATAAAC
TATAATTTACATAATATATAAATATAC
Found at i:7813669 original size:60 final size:62
Alignment explanation
Indices: 7813586--7813748 Score: 192
Period size: 60 Copynumber: 2.7 Consensus size: 62
7813576 ACCTATGAAC
*
7813586 TATATATATAAA-ATA-TGTAGTTTACATAATATACTATATATATAAACTATA-ATTATACA
1 TATATATATAAATATACTATAGTTTACATAATATACTATATATATAAACTATAGATTATACA
* * * **
7813645 TA-ATATATAAATATACTATAGTTTACATATTATACTATATATATAAATTATAGTTTATATT
1 TATATATATAAATATACTATAGTTTACATAATATACTATATATATAAACTATAGATTATACA
* *
7813706 TATATACTATATATATGAACTATAGTTTACAT-ATAAACTATAT
1 TATATA-TATAAATAT--ACTATAGTTTACATAATATACTATAT
7813749 TGTTTATATA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
58 9 0.10
59 5 0.06
60 33 0.38
61 7 0.08
62 3 0.03
63 8 0.09
64 9 0.10
65 14 0.16
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (62 bp):
TATATATATAAATATACTATAGTTTACATAATATACTATATATATAAACTATAGATTATACA
Found at i:7813739 original size:18 final size:18
Alignment explanation
Indices: 7813718--7813827 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
7813708 TATACTATAT
7813718 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* *
7813736 ATATAAACTATATTGTTTAT
1 ATATGAACTATA--GTTTAC
7813756 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATAGTTTAC
*
7813774 ATATAAACTATAGTTGATATTTAC
1 ATATGAACTATA---G---TTTAC
*
7813798 ATATGAACTATAATTTAC
1 ATATGAACTATAGTTTAC
7813816 ATATGAACTATA
1 ATATGAACTATA
7813828 TATATAGTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.01
18 43 0.56
20 15 0.19
21 2 0.03
24 16 0.21
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:7813757 original size:38 final size:39
Alignment explanation
Indices: 7813715--7813828 Score: 151
Period size: 38 Copynumber: 2.9 Consensus size: 39
7813705 TTATATACTA
7813715 TATATATGAACTATAGTTTACATATAAACTATATTG-TT
1 TATATATGAACTATAGTTTACATATAAACTATATTGATT
7813753 TATATACT-AACTATAGTTTACATATAAACTATAGTTGATATT
1 TATATA-TGAACTATAGTTTACATATAAACTATA-TTG--ATT
* * *
7813795 TACATATGAACTATAATTTACATATGAACTATAT
1 TATATATGAACTATAGTTTACATATAAACTATAT
7813829 ATATAGTTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
38 31 0.46
39 4 0.06
41 2 0.03
42 30 0.45
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (39 bp):
TATATATGAACTATAGTTTACATATAAACTATATTGATT
Found at i:7813847 original size:42 final size:41
Alignment explanation
Indices: 7813719--7813851 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 41
7813709 ATACTATATA
7813719 TATGAACTATAGTTTACATATAAAC--TATAT-T-GTTTAT
1 TATGAACTATAGTTTACATATAAACTATATATATAGTTTAT
*
7813756 ATACT-AACTATAGTTTACATATAAACTATAGT-TGATA-TTTACA
1 -TA-TGAACTATAGTTTACATATAAACTATA-TAT-ATAGTTTA-T
* *
7813799 TATGAACTATAATTTACATATGAACTATATATATAGTTTAT
1 TATGAACTATAGTTTACATATAAACTATATATATAGTTTAT
7813840 TAGTGAACTATA
1 TA-TGAACTATA
7813852 TACACTATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
38 23 0.29
39 1 0.01
40 3 0.04
41 8 0.10
42 44 0.56
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (41 bp):
TATGAACTATAGTTTACATATAAACTATATATATAGTTTAT
Found at i:7813907 original size:13 final size:13
Alignment explanation
Indices: 7813891--7813924 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7813881 AACTATAGTT
* *
7813891 TATATTTATATAC
1 TATATATATAAAC
7813904 TATATATATAAAC
1 TATATATATAAAC
7813917 TATATATA
1 TATATATA
7813925 CTATATAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:7813990 original size:21 final size:21
Alignment explanation
Indices: 7813966--7814009 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7813956 ATAAAAATCC
* *
7813966 TAAATCCTAAACCTTAAACTA
1 TAAACCCTAAACCCTAAACTA
*
7813987 TAAACCCTAAACCCTAAAGTA
1 TAAACCCTAAACCCTAAACTA
7814008 TA
1 TA
7814010 CATTATATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACTA
Found at i:7814087 original size:27 final size:27
Alignment explanation
Indices: 7814057--7814174 Score: 80
Period size: 25 Copynumber: 4.1 Consensus size: 27
7814047 ATATAGAGAC
*
7814057 TATATGGTATATATAAACTATACATTA
1 TATATGGTATATATAAACTATATATTA
*
7814084 TATATAGTTCATTAGTATATAAAACTATAATATTA
1 TATAT-G----GTA-TATAT-AAACTAT-ATATTA
* * *
7814119 TCAT-TAGTATATATAACCTATATA--G
1 T-ATATGGTATATATAAACTATATATTA
*
7814144 TATATGGTATATACAAACTATATATTA
1 TATATGGTATATATAAACTATATATTA
7814171 TATA
1 TATA
7814175 GTTCATTAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
24 2 0.03
25 18 0.26
27 12 0.17
28 7 0.10
29 5 0.07
30 2 0.03
32 2 0.03
33 5 0.07
34 7 0.10
35 7 0.10
36 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (27 bp):
TATATGGTATATATAAACTATATATTA
Found at i:7814146 original size:18 final size:18
Alignment explanation
Indices: 7814025--7814148 Score: 81
Period size: 18 Copynumber: 7.4 Consensus size: 18
7814015 TATAGTTTAT
7814025 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
7814043 TAATATATAGAGACTATA
1 TAGTATATATAAACTATA
*
7814061 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
7814079 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
7814096 TAGTATATA-AAACTATA
1 TAGTATATATAAACTATA
7814113 -A-TAT-TAT---C-AT-
1 TAGTATATATAAACTATA
*
7814123 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
7814141 TAGTATAT
1 TAGTATAT
7814149 GGTATATACA
Statistics
Matches: 78, Mismatches: 16, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
11 3 0.04
12 4 0.05
13 3 0.04
14 2 0.03
15 3 0.04
16 4 0.05
17 13 0.17
18 46 0.59
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:7814198 original size:26 final size:26
Alignment explanation
Indices: 7814180--7814232 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
7814170 ATATAGTTCA
7814180 TTAGTATATATAAAC-TATATATTAAT
1 TTAGTA-ATATAAACATATATATTAAT
*
7814206 TTATTAATATAAACATATATATTAAT
1 TTAGTAATATAAACATATATATTAAT
7814232 T
1 T
7814233 GAAAGAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAGTAATATAAACATATATATTAAT
Found at i:7814216 original size:85 final size:85
Alignment explanation
Indices: 7814057--7814226 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 85
7814047 ATATAGAGAC
*
7814057 TATATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATAAAACTATAATATTATCA
1 TATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATATAAAACTATAATATTATCA
*
7814122 TTAGTATATATAACCTATATAG
66 TTAG-ATATA-AACATATATAG
*
7814144 TATATGGTATATACAAACTATATA-T-TATATAGTTCATTAGTATATATAAACTAT-ATATTAAT
1 TATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATATA-AAACTATAATATT-A-
*
7814206 TTATTA-ATATAAACATATATA
63 TCATTAGATATAAACATATATA
7814227 TTAATTGAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
84 9 0.12
85 31 0.41
86 9 0.12
87 27 0.36
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (85 bp):
TATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATATAAAACTATAATATTATCA
TTAGATATAAACATATATAG
Found at i:7818574 original size:41 final size:39
Alignment explanation
Indices: 7818498--7818576 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
7818488 TGTTGAACAT
*
7818498 AATATAAAATATTATAATATTTTTTAATATTTTCGATTG
1 AATATAAAATATTATAATATTTTTTAACATTTTCGATTG
** *
7818537 AATATAAAATATTACTCTTTTTTTTTAAACATTTTCGATT
1 AATATAAAATATTA-TAATATTTTTT-AACATTTTCGATT
7818577 AACAAACGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.41
40 8 0.24
41 12 0.35
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (39 bp):
AATATAAAATATTATAATATTTTTTAACATTTTCGATTG
Found at i:7820970 original size:2 final size:2
Alignment explanation
Indices: 7820963--7820997 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7820953 ACATGACGAT
7820963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7820998 GCATCATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7821838 original size:76 final size:76
Alignment explanation
Indices: 7821746--7821974 Score: 386
Period size: 76 Copynumber: 3.0 Consensus size: 76
7821736 TCAATGGTTA
* *
7821746 AAGTAAATATTGTTCTCCCTAGATATTATGGAGTCGTGTAGTTACATCTACTGTATATTGTCAAT
1 AAGTAAATATTGTTCTCCCTAAATATTATGGAGTCGTGTAGTTACATCTACTGTGTATTGTCAAT
7821811 AACTACGAAAG
66 AACTACGAAAG
*
7821822 AAGTAAATATTGTTCTCCCTAAATATTATGGAGTCGTGTAGTTACATCTATTGTGTATTGTCAAT
1 AAGTAAATATTGTTCTCCCTAAATATTATGGAGTCGTGTAGTTACATCTACTGTGTATTGTCAAT
7821887 AACTACGAAAG
66 AACTACGAAAG
* * *
7821898 AAGTAAATATTGTTCTCCCTAAATATTATGGGGTTGTGTAGTTACATCTACTATGTATTGTCAAT
1 AAGTAAATATTGTTCTCCCTAAATATTATGGAGTCGTGTAGTTACATCTACTGTGTATTGTCAAT
* *
7821963 AAATACAAAAG
66 AACTACGAAAG
7821974 A
1 A
7821975 TTCTGAACCA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 144 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (76 bp):
AAGTAAATATTGTTCTCCCTAAATATTATGGAGTCGTGTAGTTACATCTACTGTGTATTGTCAAT
AACTACGAAAG
Found at i:7823354 original size:7 final size:7
Alignment explanation
Indices: 7823324--7823348 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7823314 TTTTTTCTTC
7823324 TCTTTCT
1 TCTTTCT
7823331 TCTTTCT
1 TCTTTCT
7823338 TCTTTCT
1 TCTTTCT
7823345 TCTT
1 TCTT
7823349 ATTTCTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:7825964 original size:41 final size:41
Alignment explanation
Indices: 7825890--7826010 Score: 181
Period size: 41 Copynumber: 3.0 Consensus size: 41
7825880 CGAACTCCAA
* *
7825890 TTTCGCAACAC-ATTTTCCAAATTCGCAATGCGATTTTATT
1 TTTCACAACACGATTTTCCAAATTCGCAACGCGATTTTATT
*
7825930 TTTCACAACACGATTTTCCAAATTCGTAACGCGATTTTATT
1 TTTCACAACACGATTTTCCAAATTCGCAACGCGATTTTATT
* * *
7825971 TTTTACAACGCGAATTTCCAAATTCGCAACGCGATTTTAT
1 TTTCACAACACGATTTTCCAAATTCGCAACGCGATTTTAT
7826011 CTGATAAACT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 10 0.14
41 63 0.86
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (41 bp):
TTTCACAACACGATTTTCCAAATTCGCAACGCGATTTTATT
Found at i:7826100 original size:21 final size:21
Alignment explanation
Indices: 7826076--7826121 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
7826066 CCATGTCTAT
7826076 TTTCGCAATGCGAACTTAAAG
1 TTTCGCAATGCGAACTTAAAG
7826097 TTTCGCAATGCGAACTTAAAG
1 TTTCGCAATGCGAACTTAAAG
7826118 TTTC
1 TTTC
7826122 ACAAACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (21 bp):
TTTCGCAATGCGAACTTAAAG
Found at i:7831580 original size:30 final size:30
Alignment explanation
Indices: 7831529--7831587 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7831519 TTTTATTTGA
* *
7831529 ACCTTAAATTTTAGATAAAATATTAATTTT
1 ACCTTAAAGTTTACATAAAATATTAATTTT
7831559 ACCTCTAAAGTTTACAT-AAATATTAATTT
1 ACCT-TAAAGTTTACATAAAATATTAATTT
7831588 AATATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (30 bp):
ACCTTAAAGTTTACATAAAATATTAATTTT
Found at i:7831618 original size:31 final size:30
Alignment explanation
Indices: 7831532--7831621 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
7831522 TATTTGAACC
* *
7831532 TTAAATTTTAGATAAAATATTAATTTTACCT
1 TTAAA-TTTAGATAAAATATTAATTTAACAT
* * *
7831563 CTAAAGTTTACAT-AAATATTAATTTAATAT
1 TTAAA-TTTAGATAAAATATTAATTTAACAT
*
7831593 TTAAATTCTAGATAAAATATCAATTTAAC
1 TTAAATT-TAGATAAAATATTAATTTAAC
7831622 CACTGAATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.04
30 22 0.47
31 23 0.49
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (30 bp):
TTAAATTTAGATAAAATATTAATTTAACAT
Found at i:7833067 original size:23 final size:23
Alignment explanation
Indices: 7833041--7833104 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
7833031 CAACTCATAT
7833041 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7833064 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
7833087 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
7833105 TAATAATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7838434 original size:21 final size:21
Alignment explanation
Indices: 7838392--7838434 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7838382 CAAACAACTA
**
7838392 TATTATCATCTTCATTTTTTT
1 TATTATCATCTTCATTGATTT
7838413 TATTATCA-CTATCATTGATTT
1 TATTATCATCT-TCATTGATTT
7838434 T
1 T
7838435 CATCATATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATCATCTTCATTGATTT
Found at i:7838645 original size:23 final size:23
Alignment explanation
Indices: 7838619--7838682 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
7838609 CAGCTCATAT
7838619 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7838642 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7838665 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
7838683 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7840680 original size:43 final size:43
Alignment explanation
Indices: 7840592--7840706 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
7840582 GAATATATCA
* * * *
7840592 ATATTTTAAACAATTAAAATACTATA-TTTATAATCATTTATT
1 ATATTTTAAATAATTAAAATAATATATTTTATAATAATTTACT
*
7840634 ATATTTTAAATTATTAAAATAATATATTTTATAATAATTTACT
1 ATATTTTAAATAATTAAAATAATATATTTTATAATAATTTACT
*
7840677 ATATTTTTAATAATT-AAATAATATATTTTA
1 ATATTTTAAATAATTAAAATAATATATTTTA
7840707 ACATCATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 38 0.58
43 27 0.42
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.50
Consensus pattern (43 bp):
ATATTTTAAATAATTAAAATAATATATTTTATAATAATTTACT
Found at i:7840701 original size:22 final size:22
Alignment explanation
Indices: 7840633--7840705 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 22
7840623 AATCATTTAT
* *
7840633 TATATTTTAAATTATTAAAATAA
1 TATATTTTTAATAATT-AAATAA
*
7840656 TATATTTTATAATAATT---TAC
1 TATATTTT-TAATAATTAAATAA
7840676 TATATTTTTAATAATTAAATAA
1 TATATTTTTAATAATTAAATAA
7840698 TATATTTT
1 TATATTTT
7840706 AACATCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 8 0.19
20 10 0.24
22 10 0.24
23 8 0.19
24 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTTTTAATAATTAAATAA
Found at i:7840753 original size:25 final size:25
Alignment explanation
Indices: 7840692--7840753 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
7840682 TTTAATAATT
*
7840692 AAATAATATAT-TTTAACATCATAA
1 AAATAATATATATTTAAAATCATAA
* *
7840716 AAATAAAAAATATTTAAAATC-TGAA
1 AAATAATATATATTTAAAATCAT-AA
*
7840741 ATATAATATATAT
1 AAATAATATATAT
7840754 ATTCTATATC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATAATATATATTTAAAATCATAA
Found at i:7846193 original size:21 final size:21
Alignment explanation
Indices: 7846128--7846197 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
7846118 ATGTGACCTA
* *
7846128 GCTGTAGTGGCATATAAAATG
1 GCTGTGGTGCCATATAAAATG
* * * *
7846149 GTTGTGGTGCCATTTGATATG
1 GCTGTGGTGCCATATAAAATG
* *
7846170 GCTGTGGTGCCATCTAAAACG
1 GCTGTGGTGCCATATAAAATG
7846191 GCTGTGG
1 GCTGTGG
7846198 AATGTACATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.31
Consensus pattern (21 bp):
GCTGTGGTGCCATATAAAATG
Found at i:7847670 original size:27 final size:25
Alignment explanation
Indices: 7847623--7847678 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
7847613 CTTAATACAA
7847623 TTTGAGCTTTGAGAGAATTTGAGAATG
1 TTTGAGCTTTGAGAGAATTTG-G-ATG
**
7847650 TTTGAGCTTTGAGAGGGTTTGGATG
1 TTTGAGCTTTGAGAGAATTTGGATG
7847675 TTTG
1 TTTG
7847679 TGTTTGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 7 0.26
26 1 0.04
27 19 0.70
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (25 bp):
TTTGAGCTTTGAGAGAATTTGGATG
Found at i:7850614 original size:20 final size:20
Alignment explanation
Indices: 7850589--7850681 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
7850579 TTTTCCCAAT
7850589 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
7850609 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
7850629 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
7850650 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
7850671 TCGCAATGCGA
1 TCGCAATGCGA
7850682 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:7850631 original size:41 final size:41
Alignment explanation
Indices: 7850586--7850681 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
7850576 CGATTTTCCC
7850586 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
7850627 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
7850668 AAATCGCAATGCGA
1 AATTCGCAATGCGA
7850682 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:7850635 original size:21 final size:20
Alignment explanation
Indices: 7850589--7850681 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
7850579 TTTTCCCAAT
*
7850589 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
7850609 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
7850629 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
7850650 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
7850671 TCGCAATGCGA
1 TCGCAATGCGA
7850682 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:7850694 original size:41 final size:41
Alignment explanation
Indices: 7850608--7850742 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
7850598 GAATAAGTAA
* * *
7850608 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
7850649 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
7850690 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
7850731 TTCGCAACGCGA
1 ATCGCAACGCGA
7850743 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:7850695 original size:20 final size:20
Alignment explanation
Indices: 7850670--7850764 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
7850660 AATTGGGAAA
*
7850670 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
7850690 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
7850711 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
7850731 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
7850751 TTCGCAACGCGATA
1 ATCGCAACGCGATA
7850765 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:7850981 original size:22 final size:22
Alignment explanation
Indices: 7850953--7850996 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7850943 ACTCTCTCAC
7850953 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
*
7850975 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
7850997 ATCTAAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:7851279 original size:20 final size:20
Alignment explanation
Indices: 7851254--7851291 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7851244 CGATTCTCTC
7851254 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
7851274 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
7851292 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:7852612 original size:18 final size:18
Alignment explanation
Indices: 7852591--7852635 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7852581 TCCACTTCGG
*
7852591 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
7852609 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
7852627 GAGCCATCA
1 GAGCCATCA
7852636 TCTGATCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:7853153 original size:20 final size:20
Alignment explanation
Indices: 7853103--7853169 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
7853093 TAGTTTACTT
*
7853103 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
7853123 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
7853143 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
7853162 TCGCAACG
1 TCGCAACG
7853170 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:7853164 original size:19 final size:18
Alignment explanation
Indices: 7853142--7853237 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
7853132 GAAAATGGCT
7853142 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
7853161 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
7853175 ATCGCAACGCGAAATG-AA
1 ATCGCAA-GCGAAATGAAA
*
7853193 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
7853207 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
7853226 ATCGCAATGCGA
1 ATCGCAA-GCGA
7853238 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:7853177 original size:14 final size:14
Alignment explanation
Indices: 7853158--7853215 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
7853148 ATGCGAAATG
7853158 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
7853172 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
7853188 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
7853204 AAAATCGCAACG
1 AAAATCGCAACG
7853216 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:7853200 original size:32 final size:33
Alignment explanation
Indices: 7853142--7853232 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
7853132 GAAAATGGCT
*
7853142 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
7853175 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
7853207 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
7853233 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:7853268 original size:14 final size:14
Alignment explanation
Indices: 7853249--7853305 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
7853239 TTGTGTTTCG
*
7853249 CGTTGCGCTTTTGT
1 CGTTGCGATTTTGT
7853263 CGTTGCGATTTCAT-T
1 CGTTGCGATTT--TGT
7853278 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
7853294 CGTTGCGATTTT
1 CGTTGCGATTTT
7853306 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 22 0.59
15 2 0.05
16 2 0.05
17 11 0.30
ACGTcount: A:0.07, C:0.19, G:0.26, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:7853283 original size:31 final size:33
Alignment explanation
Indices: 7853244--7853321 Score: 124
Period size: 31 Copynumber: 2.4 Consensus size: 33
7853234 GCGATTTGTG
*
7853244 TTTCGCGTTGCGCTTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
7853276 -TTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
7853308 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
7853322 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
31 25 0.60
32 5 0.12
33 12 0.29
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:7853320 original size:19 final size:20
Alignment explanation
Indices: 7853296--7853344 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7853286 GATTTTGTCG
7853296 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
*** *
7853315 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTTCCGCA
7853335 TTGCGATTTT
1 TTGCGATTTT
7853345 AAGTTTCGTG
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:7855312 original size:14 final size:15
Alignment explanation
Indices: 7855293--7855369 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
7855283 CGAAATGGCT
7855293 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
7855307 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
7855325 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
7855344 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
7855358 ATCGCAATGCGA
1 ATCGCAA-GCGA
7855370 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:7855325 original size:19 final size:19
Alignment explanation
Indices: 7855303--7855369 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
7855293 ATCGCAACGA
7855303 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7855322 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7855340 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
7855354 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
7855370 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:7855445 original size:20 final size:20
Alignment explanation
Indices: 7855395--7855445 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
7855385 GCGATATTCT
* *
7855395 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
7855415 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
7855435 CGTTGCGATAG
1 CGTTGCGATAG
7855446 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:7855829 original size:14 final size:14
Alignment explanation
Indices: 7855810--7855845 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7855800 ATTGTTTAAT
7855810 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
7855824 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
7855838 TGATTTGT
1 TGATTTGT
7855846 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7857122 original size:24 final size:24
Alignment explanation
Indices: 7857066--7857124 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
7857056 AGTCAGTATT
* *
7857066 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
7857090 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
7857114 CGAATTTTGAT
1 CGAAATTTGAT
7857125 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:7857310 original size:13 final size:13
Alignment explanation
Indices: 7857292--7857316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7857282 CATATATCCT
7857292 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
7857305 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7857317 GTCCCCGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAA
Found at i:7859594 original size:32 final size:33
Alignment explanation
Indices: 7859553--7859645 Score: 170
Period size: 32 Copynumber: 2.8 Consensus size: 33
7859543 GGAAATTACT
7859553 ATCGCAATGCGAAATGAAAATCGCAACGAGAG-
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7859585 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7859618 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7859646 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 31 0.53
33 28 0.47
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7859667 original size:19 final size:20
Alignment explanation
Indices: 7859645--7859687 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7859635 AAATCGCAAC
7859645 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
7859664 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
7859684 GCGA
1 GCGA
7859688 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:7859672 original size:14 final size:14
Alignment explanation
Indices: 7859673--7859706 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7859663 TGCGATTTTC
7859673 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
7859687 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
7859701 ATTTTC
1 ATTTTC
7859707 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:7859843 original size:14 final size:14
Alignment explanation
Indices: 7859826--7859862 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7859816 ACACAATTAA
7859826 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7859840 ACAAATCACCTTTT
1 ACAAATCAACTTTT
7859854 ACAAATCAA
1 ACAAATCAA
7859863 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7862327 original size:19 final size:19
Alignment explanation
Indices: 7862210--7862394 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
7862200 TCTTTTGGTT
*
7862210 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
7862229 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
7862249 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
7862267 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
7862283 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
7862301 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
7862316 GAAATGAAAATCGCAACCTC
1 GAAATGAAAATCGCAA-CGC
*
7862336 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7862355 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
7862374 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
7862393 GA
1 GA
7862395 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.45
20 44 0.32
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:7862359 original size:39 final size:38
Alignment explanation
Indices: 7862210--7862394 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
7862200 TCTTTTGGTT
* *
7862210 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
7862249 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
7862283 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
7862316 GAAATGAAAATCGCAACCTCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
7862355 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
7862393 GA
1 GA
7862395 TTTTGGTTTC
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
33 42 0.34
34 16 0.13
35 2 0.02
38 23 0.18
39 28 0.22
40 14 0.11
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:7862423 original size:19 final size:19
Alignment explanation
Indices: 7862390--7862434 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
7862380 AAAATCGCAA
*
7862390 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
7862409 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
7862428 TGCGATT
1 TGCGATT
7862435 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:7863048 original size:20 final size:20
Alignment explanation
Indices: 7862963--7863056 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
7862953 CGCTAAGTAA
*
7862963 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
7862983 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
7863003 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
7863024 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
7863044 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
7863057 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:7863075 original size:41 final size:41
Alignment explanation
Indices: 7863045--7863140 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
7863035 ATAGTCAGTA
* * *
7863045 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
7863086 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
7863127 TCGCATTGCGAATT
1 TCGCATTGCGAATT
7863141 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:7863089 original size:20 final size:20
Alignment explanation
Indices: 7863045--7863137 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
7863035 ATAGTCAGTA
* **
7863045 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
7863066 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
7863086 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
7863107 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
7863127 TCGCATTGCGA
1 TCGCATTGCGA
7863138 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:7864288 original size:36 final size:38
Alignment explanation
Indices: 7864248--7864349 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 38
7864238 TTTTTATATT
*
7864248 TTTAATTTTATAAAAAATATATATAAATATTAT-GAA-
1 TTTAATTTTATAAAAAATATATATAAATATTATCCAAC
* * *
7864284 TTTAATTTTTTAAAGAAA-AAATATAAATATTTTCCAAC
1 TTTAATTTTATAAA-AAATATATATAAATATTATCCAAC
*
7864322 TTGTAATATTAT-AAAAATATATAATAAA
1 TT-TAATTTTATAAAAAATATAT-ATAAA
7864350 GATAATTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
36 26 0.49
37 8 0.15
38 7 0.13
39 12 0.23
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
TTTAATTTTATAAAAAATATATATAAATATTATCCAAC
Found at i:7864493 original size:20 final size:20
Alignment explanation
Indices: 7864468--7864505 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7864458 ATCCTATTCC
7864468 CTGGTAATCTTACATTCCTA
1 CTGGTAATCTTACATTCCTA
7864488 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
7864506 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCTA
Found at i:7866024 original size:18 final size:19
Alignment explanation
Indices: 7865986--7866029 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7865976 TTTAAAAAAG
*
7865986 AAATAATTAAAAAATTAT-
1 AAATATTTAAAAAATTATA
7866004 AAATATTTAAAAAA-TATTA
1 AAATATTTAAAAAATTA-TA
7866023 AAATATT
1 AAATATT
7866030 CATAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATTTAAAAAATTATA
Found at i:7866036 original size:19 final size:20
Alignment explanation
Indices: 7865993--7866037 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
7865983 AAGAAATAAT
*
7865993 TAAAAAATTATAAATATTTA
1 TAAAAAATTATAAATATTCA
7866013 -AAAAATATTA-AAATATTCA
1 TAAAAA-ATTATAAATATTCA
7866032 TAAAAA
1 TAAAAA
7866038 GAAATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAAATTATAAATATTCA
Found at i:7866392 original size:22 final size:22
Alignment explanation
Indices: 7866367--7866411 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
7866357 GACTTTATAA
*
7866367 ATATTTTTA-AATTT-TGATTT
1 ATATATTTATAATTTATGATTT
*
7866387 ATATATTTATAATTTATTATTT
1 ATATATTTATAATTTATGATTT
7866409 ATA
1 ATA
7866412 AATCATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATATTTATAATTTATGATTT
Found at i:7866394 original size:14 final size:14
Alignment explanation
Indices: 7866383--7866412 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7866373 TTAAATTTTG
7866383 ATTTATATATTTATA
1 ATTTAT-TATTTATA
7866398 ATTTATTATTTATA
1 ATTTATTATTTATA
7866412 A
1 A
7866413 ATCATGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTATTATTTATA
Found at i:7866498 original size:13 final size:13
Alignment explanation
Indices: 7866480--7866506 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7866470 CGAAGAATAT
7866480 TTTAATTTTTATA
1 TTTAATTTTTATA
7866493 TTTAATTTTTATA
1 TTTAATTTTTATA
7866506 T
1 T
7866507 GAGTTATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTAATTTTTATA
Found at i:7880906 original size:14 final size:15
Alignment explanation
Indices: 7880883--7880920 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
7880873 TTTCTTTGCT
7880883 TTGTTCATCATC-GA
1 TTGTTCATCATCTGA
*
7880897 TTGTTTATCATCTGA
1 TTGTTCATCATCTGA
*
7880912 TTCTTCATC
1 TTGTTCATC
7880921 TTCATCACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (15 bp):
TTGTTCATCATCTGA
Found at i:7881374 original size:3 final size:3
Alignment explanation
Indices: 7881366--7881432 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
7881356 ATTTTAAAAT
* * * * * *
7881366 TTA TTA TTA TTA TTA TTA TTA TCA TTA TAA TAA TAA TAA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7881414 TTAA ATA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA
7881433 ATTACAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:7881857 original size:25 final size:25
Alignment explanation
Indices: 7881824--7881886 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
7881814 TGATAACTAT
*
7881824 AAAAGCCATCAACCGCTCCTACGAA
1 AAAATCCATCAACCGCTCCTACGAA
*
7881849 AGAATCCATCAACCGCTCCTACGAA
1 AAAATCCATCAACCGCTCCTACGAA
7881874 AAAATCCATCAAC
1 AAAATCCATCAAC
7881887 AACGAGATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.41, C:0.35, G:0.10, T:0.14
Consensus pattern (25 bp):
AAAATCCATCAACCGCTCCTACGAA
Found at i:7882951 original size:2 final size:2
Alignment explanation
Indices: 7882946--7882982 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7882936 AATCATATTA
7882946 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7882983 GAAGATTAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7884260 original size:31 final size:32
Alignment explanation
Indices: 7884222--7884293 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
7884212 TCCACCACCC
7884222 ACATTAGTGAAC-ATTTTATTACAAATCGATA
1 ACATTAGTGAACTATTTTATTACAAATCGATA
* * * *
7884253 ACATTAGTG-ACTATTTTGTTATAAGTCGTTA
1 ACATTAGTGAACTATTTTATTACAAATCGATA
7884284 ACATTAGTGA
1 ACATTAGTGA
7884294 TCAATTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (32 bp):
ACATTAGTGAACTATTTTATTACAAATCGATA
Found at i:7884302 original size:31 final size:30
Alignment explanation
Indices: 7884222--7884302 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
7884212 TCCACCACCC
*
7884222 ACATTAGTGAACATTTTATTACAAATCGATA
1 ACATTAGTG-ACATTTTGTTACAAATCGATA
* * *
7884253 ACATTAGTGACTATTTTGTTATAAGTCGTTA
1 ACATTAGTGAC-ATTTTGTTACAAATCGATA
*
7884284 ACATTAGTGATCAATTTGT
1 ACATTAGTGA-CATTTTGT
7884303 AACTTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
30 2 0.05
31 40 0.93
32 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
ACATTAGTGACATTTTGTTACAAATCGATA
Found at i:7884527 original size:37 final size:36
Alignment explanation
Indices: 7884486--7884679 Score: 169
Period size: 37 Copynumber: 5.2 Consensus size: 36
7884476 TTGAAAATAT
*
7884486 TTTTTGGAAACATATAATACATAGTTTTTAGAAAACG
1 TTTTTGAAAACATATAATACATAGTTTTTA-AAAACG
* ** *
7884523 TTTTTGAAAGCATATAATGTATAGATTTTAAAAATCG
1 TTTTTGAAAACATATAATACATAGTTTTTAAAAA-CG
* * * *
7884560 GTTTTGAAAATATATAAT--ATTGTTTTGAAAATTACG
1 TTTTTGAAAACATATAATACATAGTTTTTAAAA--ACG
* * * *
7884596 TTTTTGAAAACATATATTATATAGTTTTGAAAACACA
1 TTTTTGAAAACATATAATACATAGTTTTTAAAA-ACG
*
7884633 TTTTTGAAAACGTATAATATACATAG-TTTTAAAAACG
1 TTTTTGAAAACATAT-A-ATACATAGTTTTTAAAAACG
7884670 ATTTTTGAAA
1 -TTTTTGAAA
7884680 CGTATATAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
35 10 0.08
36 21 0.17
37 61 0.48
38 29 0.23
39 6 0.05
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTTTGAAAACATATAATACATAGTTTTTAAAAACG
Found at i:7887604 original size:16 final size:16
Alignment explanation
Indices: 7887570--7887603 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7887560 CGATCCAAAA
7887570 TTTCGGATATCCGAAT
1 TTTCGGATATCCGAAT
*
7887586 TTTCGGGTATCC-AAT
1 TTTCGGATATCCGAAT
7887601 TTT
1 TTT
7887604 TTCGGATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTCGGATATCCGAAT
Found at i:7892700 original size:38 final size:36
Alignment explanation
Indices: 7892611--7892823 Score: 177
Period size: 37 Copynumber: 5.8 Consensus size: 36
7892601 TTGAAAATAT
* * *
7892611 TTTTTGAAAACATATAATACATAGTTTTTAGAAAAC-G
1 TTTTTGAAAATATATAATATATAG-TTTTA-AAAACAA
*
7892648 TTTTTGAAAGTATATAATATATAGTTTTAAAAAATCAA
1 TTTTTGAAAATATATAATATATAGTTTT-AAAAA-CAA
* *
7892686 TTTTTGAAAATATAT-A-ATATGGTTTTGAAAAA-TA
1 TTTTTGAAAATATATAATATATAGTTTT-AAAAACAA
* * *
7892720 TGCTTTTGAAAATGTATATTATATAGTTTTGAAAACACA
1 T--TTTTGAAAATATATAATATATAGTTTTAAAAACA-A
* *
7892759 TTTTTGAAAACAAATAATATACATAGTTTTAAAAACAA
1 TTTTTGAAAATATATAATAT--ATAGTTTTAAAAACAA
*
7892797 -TTTTGAAAATGTAT-ATAATATAGTTTT
1 TTTTTGAAAATATATAAT-ATATAGTTTT
7892824 CGAAACATAT
Statistics
Matches: 143, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
34 2 0.01
35 8 0.06
36 37 0.26
37 56 0.39
38 24 0.17
39 16 0.11
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (36 bp):
TTTTTGAAAATATATAATATATAGTTTTAAAAACAA
Found at i:7892721 original size:15 final size:15
Alignment explanation
Indices: 7892701--7892731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7892691 GAAAATATAT
*
7892701 AATATGGTTTTGAAA
1 AATATGCTTTTGAAA
7892716 AATATGCTTTTGAAA
1 AATATGCTTTTGAAA
7892731 A
1 A
7892732 TGTATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (15 bp):
AATATGCTTTTGAAA
Found at i:7892801 original size:74 final size:75
Alignment explanation
Indices: 7892611--7892828 Score: 216
Period size: 74 Copynumber: 2.9 Consensus size: 75
7892601 TTGAAAATAT
** * * *
7892611 TTTTTGAAAACATATA-ATACATAGTTTTTAGAAAACGTTTTTGAAAGTATATAATATATAGTTT
1 TTTTTGAAAACATATATATACATAG-TTTTA-AAAACAATTTTGAAAATGTATATTATATAGTTT
7892675 T-AAAAAATCAA
64 TGAAAAAATCAA
* * * *
7892686 TTTTTG-AAA-ATATATA-ATATGGTTTTGAAAAATATGCTTTTGAAAATGTATATTATATAGTT
1 TTTTTGAAAACATATATATACATAGTTTT-AAAAACA--ATTTTGAAAATGTATATTATATAGTT
*
7892748 TTGAAAACA-C-A
63 TTGAAAAAATCAA
* *
7892759 TTTTTGAAAACAAATAATATACATAGTTTTAAAAACAATTTTGAAAATGTATATAATATAGTTTT
1 TTTTTGAAAACATAT-ATATACATAGTTTTAAAAACAATTTTGAAAATGTATATTATATAGTTTT
7892824 CGAAA
65 -GAAA
7892829 CATATATATA
Statistics
Matches: 118, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
72 8 0.07
73 17 0.14
74 58 0.49
75 18 0.15
76 9 0.08
77 8 0.07
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (75 bp):
TTTTTGAAAACATATATATACATAGTTTTAAAAACAATTTTGAAAATGTATATTATATAGTTTTG
AAAAAATCAA
Found at i:7892882 original size:41 final size:43
Alignment explanation
Indices: 7892834--7892930 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
7892824 CGAAACATAT
*
7892834 ATATATAACTTTTT-AAAACA-A-TATTTTTGGAAACATAGATA
1 ATATATAA-TTTTTAAAAACATATTATTTTTGAAAACATAGATA
*
7892875 ATATATAATTTTTAAAAACATATTATTTTTGAAAACATA-ATT
1 ATATATAATTTTTAAAAACATATTATTTTTGAAAACATAGATA
* *
7892917 TTATATAGTTTTTA
1 ATATATAATTTTTA
7892931 TTATATCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.10
41 14 0.29
42 15 0.31
43 15 0.31
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (43 bp):
ATATATAATTTTTAAAAACATATTATTTTTGAAAACATAGATA
Found at i:7892902 original size:17 final size:17
Alignment explanation
Indices: 7892877--7892913 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7892867 CATAGATAAT
7892877 ATATAATTTTTAAAAAC
1 ATATAATTTTTAAAAAC
* *
7892894 ATATTATTTTTGAAAAC
1 ATATAATTTTTAAAAAC
7892911 ATA
1 ATA
7892914 ATTTTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
ATATAATTTTTAAAAAC
Found at i:7892952 original size:19 final size:19
Alignment explanation
Indices: 7892928--7892984 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
7892918 TATATAGTTT
*
7892928 TTATTATATCTTATTTAAA
1 TTATTATATATTATTTAAA
* *
7892947 TTATTATTTATTATTTATA
1 TTATTATATATTATTTAAA
*
7892966 TTATTATTTATTTATTTAA
1 TTATTATATA-TTATTTAA
7892985 TTTAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATATATTATTTAAA
Found at i:7897712 original size:24 final size:24
Alignment explanation
Indices: 7897679--7897743 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 24
7897669 TTCAAAAACC
*
7897679 GTTTTAAAAAACTCTATATTATAT
1 GTTTTCAAAAACTCTATATTATAT
7897703 GTTTTCAAAAA--CTATATTATAT
1 GTTTTCAAAAACTCTATATTATAT
* *
7897725 ATTTTCAAAAACTATATAT
1 GTTTTCAAAAACTCTATAT
7897744 ATTATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 21 0.58
24 15 0.42
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (24 bp):
GTTTTCAAAAACTCTATATTATAT
Found at i:7897720 original size:22 final size:22
Alignment explanation
Indices: 7897692--7897745 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
7897682 TTAAAAAACT
*
7897692 CTATATTATATGTTTTCAAAAA
1 CTATATTATATATTTTCAAAAA
7897714 CTATATTATATATTTTCAAAAA
1 CTATATTATATATTTTCAAAAA
7897736 CTATA-TATAT
1 CTATATTATAT
7897746 TATATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (22 bp):
CTATATTATATATTTTCAAAAA
Found at i:7897773 original size:28 final size:26
Alignment explanation
Indices: 7897693--7897755 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 26
7897683 TAAAAAACTC
*
7897693 TATATTATATGTTTTCAAAAAC----
1 TATATTATATATTTTCAAAAACTATA
7897715 TATATTATATATTTTCAAAAACTATA
1 TATATTATATATTTTCAAAAACTATA
7897741 TATATTATATATTTT
1 TATATTATATATTTT
7897756 TGAAATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 21 0.58
26 15 0.42
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TATATTATATATTTTCAAAAACTATA
Found at i:7897779 original size:28 final size:28
Alignment explanation
Indices: 7897715--7897779 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
7897705 TTTCAAAAAC
7897715 TATATTATATATTTTCAAAAAC--TATA
1 TATATTATATATTTTCAAAAACTATATA
* * *
7897741 TATATTATATATTTTTGAAATTATTATATA
1 TATATTATATA-TTTTCAAA-AACTATATA
7897771 TATATTATA
1 TATATTATA
7897780 ATATATACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.34
27 7 0.22
28 1 0.03
30 13 0.41
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
TATATTATATATTTTCAAAAACTATATA
Found at i:7897800 original size:19 final size:19
Alignment explanation
Indices: 7897765--7897806 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
7897755 TTGAAATTAT
*
7897765 TATA-TATATATTATAATA
1 TATACTATATAATATAATA
*
7897783 TATACTATATAATGTAATA
1 TATACTATATAATATAATA
*
7897802 AATAC
1 TATAC
7897807 CCTTGAAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
TATACTATATAATATAATA
Found at i:7898936 original size:22 final size:20
Alignment explanation
Indices: 7898911--7898958 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
7898901 GGGGTATCAG
*
7898911 TACCTTAGTAAGGTAGTATCGA
1 TACCATAGTAA-G-AGTATCGA
*
7898933 TACCATGGTAAGAGTATCGA
1 TACCATAGTAAGAGTATCGA
7898953 TACCAT
1 TACCAT
7898959 GAAACATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (20 bp):
TACCATAGTAAGAGTATCGA
Found at i:7898984 original size:34 final size:34
Alignment explanation
Indices: 7898946--7899025 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
7898936 CATGGTAAGA
7898946 GTATCGATACCATGAAACATCGAACCTAATTTTG
1 GTATCGATACCATGAAACATCGAACCTAATTTTG
7898980 GTATCGATACCATGAAACATCGAACCTAATTTTG
1 GTATCGATACCATGAAACATCGAACCTAATTTTG
7899014 GTATCGATACCA
1 GTATCGATACCA
7899026 GGTAGGAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (34 bp):
GTATCGATACCATGAAACATCGAACCTAATTTTG
Found at i:7899057 original size:22 final size:20
Alignment explanation
Indices: 7899014--7899085 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
7899004 CCTAATTTTG
* * *
7899014 GTATCGATACCAG-GTAGGA
1 GTATCGGTACTAGAGTAGAA
*
7899033 GTATCGGTACCCTAGTGTAGAA
1 GTATCGGTA--CTAGAGTAGAA
*
7899055 GTATCGGTACTAGAGTAGTA
1 GTATCGGTACTAGAGTAGAA
*
7899075 GTATCGATACT
1 GTATCGGTACT
7899086 TAATGTTATG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 8 0.18
20 19 0.43
21 3 0.07
22 14 0.32
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
GTATCGGTACTAGAGTAGAA
Found at i:7899748 original size:20 final size:20
Alignment explanation
Indices: 7899723--7899797 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
7899713 TTGTAGCCTT
*
7899723 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATGGCAG
**
7899743 GATGCATCGATGCATGGCCTT
1 GATGCATCGATGCATGG-CAG
** *
7899764 GATGCATCGATGCACAGAAG
1 GATGCATCGATGCATGGCAG
7899784 GATGCATCGATGCA
1 GATGCATCGATGCA
7899798 CTAATTGCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 30 0.65
21 16 0.35
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCATGGCAG
Found at i:7899776 original size:41 final size:41
Alignment explanation
Indices: 7899718--7899797 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
7899708 AGCCGTTGTA
* ** *
7899718 GCCTTGATGCATGGATGCATGGCAGGATGCATCGATGCATG
1 GCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCATG
7899759 GCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
1 GCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
7899798 CTAATTGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (41 bp):
GCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCATG
Found at i:7899871 original size:22 final size:20
Alignment explanation
Indices: 7899819--7899893 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
7899809 CGGTGTTTGA
7899819 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCATG
* * **
7899839 ATGCATCGATGCACTAGTGTAG
1 GTGCATGGATGCACT-GCAT-G
* *
7899861 GTGCATGGATGCACTGTAGG
1 GTGCATGGATGCACTGCATG
7899881 GATGCATGGATGC
1 G-TGCATGGATGC
7899894 CCCGCAGGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 15 0.34
21 15 0.34
22 14 0.32
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (20 bp):
GTGCATGGATGCACTGCATG
Found at i:7899888 original size:21 final size:21
Alignment explanation
Indices: 7899820--7899907 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 21
7899810 GGTGTTTGAG
*
7899820 TGCATGGATGCACTGCA-TGA
1 TGCATGGATGCACTGCAGGGA
* *
7899840 TGCATCGATGCACT--AGTGTAGG
1 TGCATGGATGCACTGCAG-G--GA
*
7899862 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGCAGGGA
* *
7899883 TGCATGGATGCCCCGCAGGGA
1 TGCATGGATGCACTGCAGGGA
7899904 TGCA
1 TGCA
7899908 CTTTGACACC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.02
20 13 0.24
21 23 0.43
22 14 0.26
23 1 0.02
24 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:7900010 original size:29 final size:29
Alignment explanation
Indices: 7899989--7900046 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
7899979 AAACTTTGAA
7899989 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
7900018 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
7900047 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:7900036 original size:30 final size:30
Alignment explanation
Indices: 7899989--7900048 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
7899979 AAACTTTGAA
7899989 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
7900018 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
7900049 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:7901362 original size:19 final size:20
Alignment explanation
Indices: 7901319--7901366 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7901309 TCTAAATCAT
*
7901319 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
7901339 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
7901358 TTTTCAAAA
1 TTTTCAAAA
7901367 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:7902299 original size:30 final size:31
Alignment explanation
Indices: 7902236--7902300 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 31
7902226 TTAGTTTTTT
*
7902236 ACGGGTTAAACTAGAACCTTTCCCTAGATTTTAC
1 ACGGGCTAAACTAGAACCTTTCCC---ATTTTAC
*
7902270 ACGGGCTAAGCTAGAACCTTTCCC-TTTTAC
1 ACGGGCTAAACTAGAACCTTTCCCATTTTAC
7902300 A
1 A
7902301 AAAGGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.24
34 22 0.76
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (31 bp):
ACGGGCTAAACTAGAACCTTTCCCATTTTAC
Found at i:7902833 original size:13 final size:13
Alignment explanation
Indices: 7902817--7902842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7902807 CACTGTAGGG
7902817 ATGCATGGATGCA
1 ATGCATGGATGCA
7902830 ATGCATGGATGCA
1 ATGCATGGATGCA
7902843 CTTTGACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
ATGCATGGATGCA
Found at i:7902839 original size:21 final size:21
Alignment explanation
Indices: 7902797--7902842 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7902787 CTAGTGTAGG
* *
7902797 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCAATGCAGGGA
*
7902818 TGCATGGATGCAATGCATGGA
1 TGCATGGATGCAATGCAGGGA
7902839 TGCA
1 TGCA
7902843 CTTTGACACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (21 bp):
TGCATGGATGCAATGCAGGGA
Found at i:7902945 original size:29 final size:29
Alignment explanation
Indices: 7902924--7902981 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
7902914 AAACTTTGAA
7902924 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
7902953 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
7902982 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:7902971 original size:30 final size:30
Alignment explanation
Indices: 7902924--7902983 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
7902914 AAACTTTGAA
7902924 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
7902953 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
7902984 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:7904298 original size:19 final size:20
Alignment explanation
Indices: 7904255--7904302 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7904245 TCTAAATCAT
*
7904255 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
7904275 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
7904294 TTTTCAAAA
1 TTTTCAAAA
7904303 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:7905622 original size:12 final size:12
Alignment explanation
Indices: 7905605--7905643 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7905595 TTGATGCATG
7905605 GATGCATGGCAA
1 GATGCATGGCAA
7905617 GATGCAT--C--
1 GATGCATGGCAA
7905625 GATGCATGGCAA
1 GATGCATGGCAA
7905637 GATGCAT
1 GATGCAT
7905644 CGATGCATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.30
10 2 0.09
12 14 0.61
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (12 bp):
GATGCATGGCAA
Found at i:7905622 original size:20 final size:20
Alignment explanation
Indices: 7905597--7905691 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
7905587 TTGCAGCCTT
*
7905597 GATGCATGGATGCATGGCAA
1 GATGCATCGATGCATGGCAA
7905617 GATGCATCGATGCATGGCAA
1 GATGCATCGATGCATGGCAA
**
7905637 GATGCATCGATGCATGGCCTT
1 GATGCATCGATGCATGG-CAA
* **
7905658 GATGCATTGATGCACAG-AA
1 GATGCATCGATGCATGGCAA
7905677 GGATGCATCGATGCA
1 -GATGCATCGATGCA
7905692 CTAATTGCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 49 0.77
21 15 0.23
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (20 bp):
GATGCATCGATGCATGGCAA
Found at i:7905782 original size:21 final size:21
Alignment explanation
Indices: 7905714--7905807 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
7905704 GGTGTTTGAG
*
7905714 TGCATGGATGCACTGCA-TGA
1 TGCATGGATGCACTGCAGGGA
* *
7905734 TGCATCGATGCACT--AGTGTAGG
1 TGCATGGATGCACTGCAG-G--GA
*
7905756 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGCAGGGA
* *
7905777 TGCATGGATGCACCGCAAGGA
1 TGCATGGATGCACTGCAGGGA
7905798 TGCATGGATG
1 TGCATGGATG
7905808 GACTTTGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
20 13 0.22
21 29 0.48
22 14 0.23
23 1 0.02
24 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:7905939 original size:30 final size:30
Alignment explanation
Indices: 7905891--7905950 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
7905881 ATACTTTTGA
7905891 ATAAATTCAATTAAGTCCAAAAA-CATTTT
1 ATAAATTCAATTAAGTCCAAAAACCATTTT
7905920 ATAAATTCAATTCAAGTCCAAAAACCATTTT
1 ATAAATTCAATT-AAGTCCAAAAACCATTTT
7905951 GCCTTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.41
30 11 0.38
31 6 0.21
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (30 bp):
ATAAATTCAATTAAGTCCAAAAACCATTTT
Found at i:7907266 original size:19 final size:20
Alignment explanation
Indices: 7907223--7907270 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7907213 TCTAAATCCT
*
7907223 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
7907243 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
7907262 TTTTCAAAA
1 TTTTCAAAA
7907271 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:7908619 original size:41 final size:41
Alignment explanation
Indices: 7908561--7908640 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
7908551 AGCCGTTGCA
** *
7908561 GCCTTGATGCATGGATGCATGGCAGGATGCATCAATGCATG
1 GCCTTGATGCATGGATGCACAGAAGGATGCATCAATGCATG
* *
7908602 GCCTTGATGCATTGATGCACAGAAGGATGCATCGATGCA
1 GCCTTGATGCATGGATGCACAGAAGGATGCATCAATGCA
7908641 CAGAAGGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTTGATGCATGGATGCACAGAAGGATGCATCAATGCATG
Found at i:7908632 original size:20 final size:20
Alignment explanation
Indices: 7908607--7908661 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
7908597 GCATGGCCTT
*
7908607 GATGCATTGATGCACAGAAG
1 GATGCATCGATGCACAGAAG
7908627 GATGCATCGATGCACAGAAG
1 GATGCATCGATGCACAGAAG
7908647 GATGCATCGATGCAC
1 GATGCATCGATGCAC
7908662 TAATTGCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (20 bp):
GATGCATCGATGCACAGAAG
Found at i:7908751 original size:21 final size:21
Alignment explanation
Indices: 7908683--7908801 Score: 136
Period size: 21 Copynumber: 5.7 Consensus size: 21
7908673 GGTGTTTGAG
* * *
7908683 TGCATGAATGCACTGCA-TGA
1 TGCATGGATGCACTGTAGGGA
*
7908703 TGCATCGATGCACTAGT-GTAGG-
1 TGCATGGATGCACT-GTAG--GGA
7908725 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGTAGGGA
7908746 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGTAGGGA
* *
7908767 TGCATGGATGCACCGCAGGGA
1 TGCATGGATGCACTGTAGGGA
7908788 TGCATGGATGCACT
1 TGCATGGATGCACT
7908802 TTGACACCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.16
21 56 0.66
22 14 0.16
23 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (21 bp):
TGCATGGATGCACTGTAGGGA
Found at i:7908902 original size:29 final size:29
Alignment explanation
Indices: 7908881--7908938 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
7908871 AAACTTTGAA
*
7908881 TAAATTCAATT-ATGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
7908910 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
7908939 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:7908930 original size:30 final size:30
Alignment explanation
Indices: 7908881--7908940 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
7908871 AAACTTTGAA
*
7908881 TAAATTCAATTATGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
7908910 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
7908941 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:7911605 original size:41 final size:41
Alignment explanation
Indices: 7911547--7911626 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
7911537 AGCCGTTGCA
*
7911547 GCCTTGATGCATGGATGCA-TGACAGGATGCATCAATGCATG
1 GCCTTGATGCATGGATGCACAGA-AGGATGCATCAATGCATG
* *
7911588 GCCTTGATGCATTGATGCACAGAAGGATGCATCGATGCA
1 GCCTTGATGCATGGATGCACAGAAGGATGCATCAATGCA
7911627 CAGAAGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTTGATGCATGGATGCACAGAAGGATGCATCAATGCATG
Done.