Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 28
Found at i:4420761 original size:21 final size:21
Alignment explanation
Indices: 4420713--4420762 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4420703 AAATTTTAAA
*
4420713 TATAATTTAAAAATTATTTAT
1 TATAATATAAAAATTATTTAT
* *
4420734 TAAAATATGAAAATTA-TTATT
1 TATAATATAAAAATTATTTA-T
4420755 TATAATAT
1 TATAATAT
4420763 TACATTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TATAATATAAAAATTATTTAT
Found at i:4421248 original size:92 final size:93
Alignment explanation
Indices: 4421086--4421271 Score: 338
Period size: 92 Copynumber: 2.0 Consensus size: 93
4421076 GTAACGAGAA
4421086 AAAAAATCATCTGGAAGGCAGAGACCAATTTATAGGTTTTATAACGAAATTCAACAAATCAATTT
1 AAAAAATCATCTGGAAGGCAGAGACCAATTTATAGGTTTTATAACGAAATTCAACAAATCAATTT
4421151 GTTATTTAGTGTGACATGACTGACCTAT
66 GTTATTTAGTGTGACATGACTGACCTAT
* *
4421179 AAAAAA-CATCTGGAAGGCAGAGACCAATTTATAGGTTTTATAGCGAAATTCAACAAATCAGTTT
1 AAAAAATCATCTGGAAGGCAGAGACCAATTTATAGGTTTTATAACGAAATTCAACAAATCAATTT
*
4421243 TTTATTTAGTGTGACATGACTGACCTAT
66 GTTATTTAGTGTGACATGACTGACCTAT
4421271 A
1 A
4421272 TAAGGAACGC
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 84 0.93
93 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (93 bp):
AAAAAATCATCTGGAAGGCAGAGACCAATTTATAGGTTTTATAACGAAATTCAACAAATCAATTT
GTTATTTAGTGTGACATGACTGACCTAT
Found at i:4423661 original size:19 final size:19
Alignment explanation
Indices: 4423637--4423678 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
4423627 TATTGTACAT
4423637 ATTATATT-TTATATATTAC
1 ATTATATTATTAT-TATTAC
4423656 ATTATATTATTATTATTAC
1 ATTATATTATTATTATTAC
4423675 ATTA
1 ATTA
4423679 GTTATCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATATTATTATTATTAC
Found at i:4423673 original size:14 final size:14
Alignment explanation
Indices: 4423635--4423735 Score: 53
Period size: 12 Copynumber: 7.8 Consensus size: 14
4423625 TATATTGTAC
4423635 ATATTA-TATT-TT
1 ATATTATTATTATT
*
4423647 ATA-TATTA-CATT
1 ATATTATTATTATT
4423659 ATATTATTATTATT
1 ATATTATTATTATT
* *
4423673 ACATTAGTTATCA-T
1 ATATTA-TTATTATT
4423687 ATATTA-TA-TATT
1 ATATTATTATTATT
*
4423699 AGATT-TT-TTA-T
1 ATATTATTATTATT
*
4423710 ATAATATTATTTATCT
1 ATATTATTA-TTAT-T
4423726 A-ATTATTATT
1 ATATTATTATT
4423736 TATTTTTGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 24
0.66 0.10 0.24
Matches are distributed among these distances:
11 7 0.11
12 22 0.33
13 5 0.08
14 19 0.29
15 11 0.17
16 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:4423691 original size:19 final size:20
Alignment explanation
Indices: 4423637--4423692 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
4423627 TATTGTACAT
*
4423637 ATTATATT-TTATATATTAC
1 ATTATATTATCATATATTAC
*
4423656 ATTATATTATTAT-TATTAC
1 ATTATATTATCATATATTAC
*
4423675 ATTA-GTTATCATATATTA
1 ATTATATTATCATATATTA
4423693 TATATTAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.18
19 23 0.70
20 4 0.12
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATATTATCATATATTAC
Found at i:4423709 original size:26 final size:25
Alignment explanation
Indices: 4423658--4423720 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
4423648 TATATTACAT
*
4423658 TATATTATTATTATTACATTAGTTA
1 TATAATATTATTATTACATTAGTTA
* **
4423683 TCAT-ATATTATATATTAGATTTTTTA
1 T-ATAATATTAT-TATTACATTAGTTA
4423709 TATAATATTATT
1 TATAATATTATT
4423721 TATCTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (25 bp):
TATAATATTATTATTACATTAGTTA
Found at i:4423734 original size:15 final size:14
Alignment explanation
Indices: 4423705--4423738 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
4423695 TATTAGATTT
4423705 TTTATATAATATTA
1 TTTATATAATATTA
*
4423719 TTTATCTAATTATTA
1 TTTATATAA-TATTA
4423734 TTTAT
1 TTTAT
4423739 TTTTGTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATATAATATTA
Found at i:4431523 original size:14 final size:13
Alignment explanation
Indices: 4431494--4431519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4431484 CCTGTCAAAT
4431494 TTTTTGTTTCGAA
1 TTTTTGTTTCGAA
4431507 TTTTTGTTTCGAA
1 TTTTTGTTTCGAA
4431520 ATTTAAAACA
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:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTTTGTTTCGAA
Found at i:4432124 original size:44 final size:44
Alignment explanation
Indices: 4432063--4432283 Score: 345
Period size: 44 Copynumber: 5.0 Consensus size: 44
4432053 ATATCATGAG
*
4432063 TGGCACCTTTTATGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACC-TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * ** *
4432108 TGGCACCTTTTTGCCAATAATGCACTGTTATATATTTTTATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
4432152 TGGCACCTTTCTGCCAATAATACACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
4432196 TGGCACCTTTCTGCCAATAATGCACCGTTATGTATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
4432240 T-GAACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
4432283 T
1 T
4432284 TTCGGTAACA
Statistics
Matches: 161, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 41 0.25
44 113 0.70
45 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:4434601 original size:73 final size:73
Alignment explanation
Indices: 4434509--4434682 Score: 201
Period size: 73 Copynumber: 2.4 Consensus size: 73
4434499 CAACATTTTC
** *
4434509 AAAACAAAAATTGTCTCGCTTGAGACAATATT-ATT-TAATACAGAAAATTTATCTCACTTGAGA
1 AAAACAAACTTTGTCTCGCTTGAGACAAT-TTCATTCAAATA-A-AAAATTTATCTCACTTGAGA
4434572 TTATTTTTCTT
63 TTATTTTTCTT
* * * * *
4434583 AAAAC-AATTTTTTCTCGCTTGAGATAGTTTCATTCGAAATAAAAATTTTATCTCACTTGAGATT
1 AAAACAAACTTTGTCTCGCTTGAGACAATTTCATTC-AAATAAAAAATTTATCTCACTTGAGATT
*
4434647 GTTTTTCTT
65 ATTTTTCTT
*
4434656 AAAACAAACTTTGTCTCACTTGAGACA
1 AAAACAAACTTTGTCTCGCTTGAGACA
4434683 GTTTTTACTA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
72 2 0.02
73 55 0.65
74 23 0.27
75 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (73 bp):
AAAACAAACTTTGTCTCGCTTGAGACAATTTCATTCAAATAAAAAATTTATCTCACTTGAGATTA
TTTTTCTT
Found at i:4434642 original size:38 final size:35
Alignment explanation
Indices: 4434552--4434688 Score: 116
Period size: 36 Copynumber: 3.8 Consensus size: 35
4434542 TTTAATACAG
**
4434552 AAAA-TTTATCTCACTTGAGATTA-TTTTTCTTAAA
1 AAAATTTTATCTCACTTGAGA-TAGTTTTTCGAAAA
* * *
4434586 ACAATTTTTTCTCGCTTGAGATAGTTTCATTCGAAATA
1 AAAATTTTATCTCACTTGAGATAGTTT--TTCGAAA-A
* *
4434624 AAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAA
1 AAAATTTTATCTCACTTGAGATAGTTTTTC-GAAAA
* * * *
4434660 CAAACTTTGTCTCACTTGAGACAGTTTTT
1 AAAATTTTATCTCACTTGAGATAGTTTTT
4434689 ACTAGAAACG
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
34 5 0.06
35 17 0.21
36 28 0.34
37 8 0.10
38 24 0.29
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (35 bp):
AAAATTTTATCTCACTTGAGATAGTTTTTCGAAAA
Found at i:4434676 original size:36 final size:36
Alignment explanation
Indices: 4434556--4435083 Score: 138
Period size: 39 Copynumber: 14.0 Consensus size: 36
4434546 ATACAGAAAA
*
4434556 TTTATCTCACTTGAGATTATTTTTCTTAAAAC-AAT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT
* * * * *
4434591 TTTTTCTCGCTTGAGATAGTTTCATTC-GAAATAAAAAT
1 TTTATCTCACTTGAGATTGTTT--TTCTTAAA-ACAAAT
*
4434629 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAC
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT
* **
4434665 TTTGTCTCACTTGAGACAGTTTTTAC-TAGAAACGAGACAT
1 TTTATCTCACTTGAGATTGTTTTT-CTTA-AAAC-A-A-AT
* * ** * *
4434705 TTCATTTCACTACAAATTATTTTTCTTAAAACAAGA-
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-AT
* * * ** *
4434741 TTCATCTCGCTTGAGATAGTTTTTACCCAAAACAAGAAGA
1 TTTATCTCACTTGAGATTGTTTTT-CTTAAAAC-A-AA-T
* * ** * *
4434781 TTCATTTCACTCAAGATTGCTTTTTTTTTTAAAAATAAAT
1 TTTATCTCACTTGAGATTG---TTTTTCTT-AAAACAAAT
* * ** * *
4434821 TTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGAT
1 TTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAA-AT
** ** *
4434860 TTTATCTCGTTTGAG-TTAGTTTCACTTGAAACAGAAGAT
1 TTTATCTCACTTGAGATT-GTTTTTCTT-AAA-ACAA-AT
* * *** * *
4434899 TTTATCTCGCTTGAGATAGTTCCACTCGAAACAGAAGAT
1 TTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAA-AT
** * ** * *
4434938 TTTATCTTGCTTGAGATAGTTTAACTCGAAATAGAAGA-
1 TTTATCTCACTTGAGATTGTTTTTCT-TAAA-ACAA-AT
* *
4434976 TTTATCTCACTTCAGATTGTTTTTCTTAAAATAAGA-
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-AT
* ** ** *
4435012 TTTATCT-ATCTTGAGATAGTTTCACTCGAAACAGAAGA
1 TTTATCTCA-CTTGAGATTGTTTTTCTTAAAACA-AA-T
4435050 TTTATCTCACTTGAGATTG-TTTTCTTAAAACAAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA
4435084 CTACTCCTCA
Statistics
Matches: 374, Mismatches: 87, Indels: 63
0.71 0.17 0.12
Matches are distributed among these distances:
35 19 0.05
36 82 0.22
37 40 0.11
38 67 0.18
39 108 0.29
40 46 0.12
41 2 0.01
42 1 0.00
43 9 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT
Found at i:4434785 original size:76 final size:76
Alignment explanation
Indices: 4434648--4434791 Score: 177
Period size: 76 Copynumber: 1.9 Consensus size: 76
4434638 CTTGAGATTG
** * * *
4434648 TTTTTCTTAAAACAAACTTTGTCTCACTTGAGACAGTTTTTACTAGAAACGAGACATTTCATTTC
1 TTTTTCTTAAAACAAACTTCATCTCACTTGAGACAGTTTTTACCAGAAACAAGACAATTCATTTC
4434713 ACTACAAATTA
66 ACTACAAATTA
* *
4434724 TTTTTCTTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTTTACCCA-AAACAAGA-AGATTCAT
1 TTTTTCTTAAAACAA-ACTTCATCTCACTTGAGACAGTTTTTA-CCAGAAACAAGACA-ATTCAT
4434786 TTCACT
63 TTCACT
4434792 CAAGATTGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
75 1 0.02
76 54 0.93
77 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.38
Consensus pattern (76 bp):
TTTTTCTTAAAACAAACTTCATCTCACTTGAGACAGTTTTTACCAGAAACAAGACAATTCATTTC
ACTACAAATTA
Found at i:4434874 original size:39 final size:39
Alignment explanation
Indices: 4434819--4435071 Score: 300
Period size: 39 Copynumber: 6.6 Consensus size: 39
4434809 TTAAAAATAA
*
4434819 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
4434858 ATTTTATCTCGTTTGAGTTAGTTTCACTTGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
*
4434897 ATTTTATCTCGCTTGAGATAGTTCCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
4434936 ATTTTATCTTGCTTGAGATAGTTTAACTCGAAATAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * ** * *
4434975 A-TTTATCTCACTTCAGATTGTTTTTCT-TAAA-ATAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
**
4435011 A-TTTATCTATCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
4435049 A-TTTATCTCACTTGAGATTGTTT
1 ATTTTATCTCGCTTGAGATAGTTT
4435072 TCTTAAAACA
Statistics
Matches: 181, Mismatches: 31, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
36 25 0.14
37 6 0.03
38 44 0.24
39 106 0.59
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
Found at i:4435185 original size:59 final size:59
Alignment explanation
Indices: 4435090--4435259 Score: 254
Period size: 59 Copynumber: 2.9 Consensus size: 59
4435080 CAAACTACTC
*
4435090 CTCACTTGAGGGATTAACATTTCCTTTTCTCTATTCACAACACTTCGAATCAGCAA--T
1 CTCACTTGAGGGATTAACATTTCCTTTTCTCAATTCACAACACTTCGAATCAGCAACGT
* * *
4435147 ACTTCACTTGAGGAATTAACATTTCCTTTGCTCAATTCATAACACTTCGAATCAGCAACGT
1 -C-TCACTTGAGGGATTAACATTTCCTTTTCTCAATTCACAACACTTCGAATCAGCAACGT
* *
4435208 CTCACTTGAGGGATCAATATTTCCTTTTCTCAATTCACAACACTTCGAATCA
1 CTCACTTGAGGGATTAACATTTCCTTTTCTCAATTCACAACACTTCGAATCA
4435260 ATGACTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
58 1 0.01
59 97 0.97
60 1 0.01
61 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (59 bp):
CTCACTTGAGGGATTAACATTTCCTTTTCTCAATTCACAACACTTCGAATCAGCAACGT
Found at i:4435271 original size:59 final size:57
Alignment explanation
Indices: 4435085--4435289 Score: 234
Period size: 59 Copynumber: 3.5 Consensus size: 57
4435075 TAAAACAAAC
* *
4435085 TACTCCTCACTTGAGGGATTAACATTTCCTTTTCTCTATTCACAACACTTCGAATCAGCAA
1 TACT-CTCACTTGAGGGATCAACATTTCCTTTTCTCAATTCACAACACTTCGAAT---CAA
* * * *
4435146 TACT-TCACTTGAGGAATTAACATTTCCTTTGCTCAATTCATAACACTTCGAATCAGCA
1 TACTCTCACTTGAGGGATCAACATTTCCTTTTCTCAATTCACAACACTTCGAATCA--A
*
4435204 -ACGTCTCACTTGAGGGATCAATATTTCCTTTTCTCAATTCACAACACTTCGAATCAA
1 TAC-TCTCACTTGAGGGATCAACATTTCCTTTTCTCAATTCACAACACTTCGAATCAA
* *
4435261 TGACTCCTCACATGAGGGACCAACATTTC
1 T-ACT-CTCACTTGAGGGATCAACATTTC
4435290 AATGAGAGTA
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
56 2 0.02
57 3 0.02
58 3 0.02
59 113 0.90
61 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (57 bp):
TACTCTCACTTGAGGGATCAACATTTCCTTTTCTCAATTCACAACACTTCGAATCAA
Found at i:4435397 original size:92 final size:92
Alignment explanation
Indices: 4435240--4435475 Score: 303
Period size: 92 Copynumber: 2.6 Consensus size: 92
4435230 CCTTTTCTCA
* * * *
4435240 ATTCACAACACTTCGAATCAATGACTCCTCACAT-GAGGGACCAACATTTCAATGAGAGTATTCA
1 ATTCACGACACTTCGAATCAATGACGCCTCAC-TCGAGGGACCAACATTTCCATGAGAGAATTCA
* *
4435304 TGAGAAGAACTTATTCAACCTTGGCTTG
65 TGAGAAGAACTTATTCAACCTTGGATCG
* * ** *
4435332 ATTCATGACATTTCGAATCAACAACGCCTCACTCGAGGGACCAACATTTCCATTAGAGAATTCAT
1 ATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGACCAACATTTCCATGAGAGAATTCAT
4435397 GAGAAGAACTTATTCAACCTTGGATCG
66 GAGAAGAACTTATTCAACCTTGGATCG
** * * * *
4435424 ATTCACGGTACTTCGAATCAGTGACGCCTCACTCAAGGGACAAAAATTTCCA
1 ATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGACCAACATTTCCA
4435476 ATGGACATAT
Statistics
Matches: 122, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
91 1 0.01
92 121 0.99
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (92 bp):
ATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGACCAACATTTCCATGAGAGAATTCAT
GAGAAGAACTTATTCAACCTTGGATCG
Found at i:4436563 original size:16 final size:18
Alignment explanation
Indices: 4436524--4436563 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
4436514 CTCTAGGTTT
*
4436524 TAAAAAAATGAAAAAAGA
1 TAAAAATATGAAAAAAGA
4436542 -AAAAATAT-AAAAAA-A
1 TAAAAATATGAAAAAAGA
4436557 TAAAAAT
1 TAAAAAT
4436564 GTTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.05
16 12 0.60
17 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
TAAAAATATGAAAAAAGA
Found at i:4437582 original size:5 final size:5
Alignment explanation
Indices: 4437572--4437596 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4437562 ATTATTTTAA
4437572 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
4437597 TTATCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:4437716 original size:92 final size:97
Alignment explanation
Indices: 4437554--4437746 Score: 333
Period size: 92 Copynumber: 2.0 Consensus size: 97
4437544 AAACTCAAGT
*
4437554 TTTAGGATATTATTTTAAATATTATATTATATTATATTATATTTTATCTTTGTTTTAGGTATTTT
1 TTTAGGATATTATTTTAAATATTATATTATATTATATTATATCTTATCTTTGTTTTAGGTATTTT
*
4437619 AGTTTAAATAGTTTTAAGTATTTTAATTAGGA
66 AGTTTAAATAGTTTTAAGTATTTTAATTAGAA
4437651 TTTAGGATATTATTTTAAATATTATA-T-TA-TAT-TT-TATCTTATCTTTGTTTTAGGTATTTT
1 TTTAGGATATTATTTTAAATATTATATTATATTATATTATATCTTATCTTTGTTTTAGGTATTTT
4437711 AGTTTAAATAGTTTTAAGTATTTTAATTAGAA
66 AGTTTAAATAGTTTTAAGTATTTTAATTAGAA
4437743 TTTA
1 TTTA
4437747 TTTTCTTTAT
Statistics
Matches: 94, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
92 60 0.64
93 2 0.02
94 3 0.03
95 2 0.02
96 1 0.01
97 26 0.28
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (97 bp):
TTTAGGATATTATTTTAAATATTATATTATATTATATTATATCTTATCTTTGTTTTAGGTATTTT
AGTTTAAATAGTTTTAAGTATTTTAATTAGAA
Found at i:4440165 original size:21 final size:21
Alignment explanation
Indices: 4440117--4440169 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4440107 GCTATAAATT
* * *
4440117 TCACAAGAAAATCTAGTTACG
1 TCACAGGAAAAGCTAGTTACA
*
4440138 TCACAGGAAAAGCTAGTTGCA
1 TCACAGGAAAAGCTAGTTACA
*
4440159 TCTCAGGAAAA
1 TCACAGGAAAA
4440170 ATTCTAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
TCACAGGAAAAGCTAGTTACA
Found at i:4445623 original size:45 final size:46
Alignment explanation
Indices: 4445550--4445637 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 46
4445540 TGTTCCATGA
*** * *
4445550 AAAAAAAAGAAGTCGAAAAAAATTTGTTCATTGTTTCTAACAACAAC
1 AAAAAAAAGAAAAAGAAAAAAA-TTGTTCACTGTTTCGAACAACAAC
4445597 AAAAAAAAGAAAAAGAAAAAAA-TGTTCACTGTTTCGAACAA
1 AAAAAAAAGAAAAAGAAAAAAATTGTTCACTGTTTCGAACAA
4445638 AAAAAGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 17 0.47
47 19 0.53
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (46 bp):
AAAAAAAAGAAAAAGAAAAAAATTGTTCACTGTTTCGAACAACAAC
Found at i:4447468 original size:17 final size:17
Alignment explanation
Indices: 4447448--4447481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4447438 CTTTATCTCA
*
4447448 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
4447465 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
4447482 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:4451282 original size:22 final size:22
Alignment explanation
Indices: 4451257--4451298 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4451247 CAATTCATTT
4451257 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
*
4451279 ATCTTATTTTTATGTTGTTT
1 ATCTTATTTTTATCTTGTTT
4451299 CCAGCACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:4454077 original size:22 final size:22
Alignment explanation
Indices: 4454052--4454093 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4454042 CAATTCATTT
4454052 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
4454074 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
4454094 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:4458781 original size:20 final size:20
Alignment explanation
Indices: 4458758--4458795 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4458748 GCTCAAGCGA
*
4458758 TATCGATACTCGGGGCCTAG
1 TATCGATACTCAGGGCCTAG
4458778 TATCGATACTCAGGGCCT
1 TATCGATACTCAGGGCCT
4458796 TGATAAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (20 bp):
TATCGATACTCAGGGCCTAG
Found at i:4459000 original size:20 final size:19
Alignment explanation
Indices: 4458962--4459000 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4458952 TACCACAAGG
* *
4458962 AAGGGAAGTATTGATACCA
1 AAGGGAAGTATCGAAACCA
4458981 AAGGGAGAGTATCGAAACCA
1 AAGGGA-AGTATCGAAACCA
4459001 TCGTGATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.44, C:0.13, G:0.28, T:0.15
Consensus pattern (19 bp):
AAGGGAAGTATCGAAACCA
Found at i:4460433 original size:28 final size:28
Alignment explanation
Indices: 4460402--4460469 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 28
4460392 TTTTTAAAAA
*
4460402 ATTATTTTTTATTTTAATT-TTAATTTTT
1 ATTATTTTTTATTTT-ATTATTAATATTT
*
4460430 ATTATTTATTA--TTATTATTAATATTT
1 ATTATTTTTTATTTTATTATTAATATTT
4460456 -TTATTTTTTATTTT
1 ATTATTTTTTATTTT
4460470 TGTTGGCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 12 0.35
26 10 0.29
27 2 0.06
28 10 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (28 bp):
ATTATTTTTTATTTTATTATTAATATTT
Found at i:4460461 original size:6 final size:6
Alignment explanation
Indices: 4460407--4460470 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 6
4460397 AAAAAATTAT
* * *
4460407 TTTTTA TTTTAA TTTTAA TTTTTA TTATTTA TTATTA TTATTAATA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TT-TT--TA TTTTTA
4460459 TTTTTTA TTTTT
1 -TTTTTA TTTTT
4460471 GTTGGCCTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
6 30 0.61
7 13 0.27
8 2 0.04
9 4 0.08
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:4461863 original size:22 final size:23
Alignment explanation
Indices: 4461838--4461880 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4461828 TTTTTTAACA
*
4461838 TTTTTTCTCTCTC-TTAATTTAC
1 TTTTTTCTCCCTCTTTAATTTAC
*
4461860 TTTTTTTTCCCTCTTTAATTT
1 TTTTTTCTCCCTCTTTAATTT
4461881 TATTTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTCTCCCTCTTTAATTTAC
Found at i:4466522 original size:43 final size:43
Alignment explanation
Indices: 4466441--4466523 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
4466431 TGAAGGGGCC
* * **
4466441 ATCCATGATTTTAACTCCACGACGGAGGATATTGTGCCCACAA
1 ATCCATGATTTCAACTCCACGACGAAGGATATCATGCCCACAA
* **
4466484 ATCCATGATTTCAACTTCACGGTGAAGGATATCATGCCCA
1 ATCCATGATTTCAACTCCACGACGAAGGATATCATGCCCA
4466524 TCTACACAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATCCATGATTTCAACTCCACGACGAAGGATATCATGCCCACAA
Found at i:4466806 original size:240 final size:241
Alignment explanation
Indices: 4466484--4467004 Score: 661
Period size: 240 Copynumber: 2.2 Consensus size: 241
4466474 GTGCCCACAA
* ** * *
4466484 ATCCATGATTTCAACTTCACGGTGAAGGATATCATGCCCATCTACACAATATTGGATTTCAACTT
1 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTG-CCA--TACACAAGATTGGATTTCAACTT
* * * * * *
4466549 CATGACGAATGATATCCAATTCAAAGCTCAACTTCACGGCCAATGGGCTTCCCAGTTTCATTTAG
63 CAGGACAAAGGATATCCAATTCAAAGCTCAACTTCACGGCCAATGGGCTTCCCAATTTCATTCAA
*
4466614 AGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACAATACAATCTTGAATTTCAACTT
128 AGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACAATACAAGCTTGAATTTCAACTT
* * ** *
4466679 CA-TGACGAAGGATATTCAAGTCAAGGCTCAACTTCACAACAAAGG-GATC
193 CACAG-CGAAGGATATTCAAGTAAAACCTCAACTTCACAACAAAGGAG-CC
* * *
4466728 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCA-ACTCTAGATTGGATTTCAACTTCAG
1 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCATACACAAGATTGGATTTCAACTTCAG
* * *
4466792 GACAAAGGATATCCAATTCAAAGCTCAACTTCATGGCGAATGTGCTTCCCAATTTCATTCAAAGC
66 GACAAAGGATATCCAATTCAAAGCTCAACTTCACGGCCAATGGGCTTCCCAATTTCATTCAAAGC
* **
4466857 TAATTTCAACTTCACGGTGAAGGATATTGGACTCGAAACAATACAAGCTTGAATTTCAACTTCAC
131 CAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACAATACAAGCTTGAATTTCAACTTCAC
* * * * * *** *
4466922 AGTGAATGATATTCAAGTAAAACCTCAATTTTATAGGGAATGAGCC
196 AGCGAAGGATATTCAAGTAAAACCTCAACTTCACAACAAAGGAGCC
4466968 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGC
1 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGC
4467005 TCGATGAAGT
Statistics
Matches: 240, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
240 203 0.85
241 2 0.01
243 3 0.01
244 32 0.13
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (241 bp):
ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGCCATACACAAGATTGGATTTCAACTTCAG
GACAAAGGATATCCAATTCAAAGCTCAACTTCACGGCCAATGGGCTTCCCAATTTCATTCAAAGC
CAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACAATACAAGCTTGAATTTCAACTTCAC
AGCGAAGGATATTCAAGTAAAACCTCAACTTCACAACAAAGGAGCC
Found at i:4467239 original size:36 final size:36
Alignment explanation
Indices: 4467184--4467500 Score: 244
Period size: 36 Copynumber: 9.2 Consensus size: 36
4467174 AATTTACTCA
*
4467184 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTATCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
4467221 AAACAAATTTTGTCTCTCTTTAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
4467257 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
4467293 AAACAAA------ATCT-TTGA-ATATGTTT-TACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-TTG
* * * *
4467322 AAACAAATTTCGTCTCCCTTGAGACAGATTCTTTTGG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-G
**
4467359 AATTAAATTTTGTCTCTCTTGAGACTA-TTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGAC-AGTTTCTCTTG
*
4467395 AAACAAATTTTG--TCT-TT------GTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
4467422 AAACAAATTTTGTCTCTCTTGAGACAGTATCCCCTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
4467458 GAACAAATTTTAT-TCCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCT-CTCTTGAGACAGTTTCTCTTG
4467494 AAACAAA
1 AAACAAA
4467501 ATCTTTGAAT
Statistics
Matches: 225, Mismatches: 29, Indels: 53
0.73 0.09 0.17
Matches are distributed among these distances:
27 20 0.09
28 3 0.01
29 19 0.08
30 7 0.03
33 2 0.01
34 3 0.01
35 5 0.02
36 128 0.57
37 37 0.16
38 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:4467589 original size:36 final size:36
Alignment explanation
Indices: 4467542--4467643 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 36
4467532 TTGTCTCCCT
*
4467542 TCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
* * *
4467578 TCTCTCTTGAGATAGTTTCCCTTAAAACAAAATTTTG
1 TCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTG
* * *
4467615 CCTCCCTGGAGACAGTTTCTCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACA
4467644 CAAAAAACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 25 0.45
37 30 0.55
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (36 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
Found at i:4467696 original size:34 final size:33
Alignment explanation
Indices: 4467629--4467756 Score: 170
Period size: 33 Copynumber: 3.9 Consensus size: 33
4467619 CCTGGAGACA
*
4467629 GTTTCTCTTGAAACACAAAAAACTTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
4467662 GTTTCTCTTGAAACACAAAAACACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAA-ACCTTTGAAATC
* *
4467696 GTTTCTCTTGAAACAAAAAAAAACTTTGAAAAT-
1 GTTTCTCTTGAAACACAAAAAACCTTTG-AAATC
* * *
4467729 GTTTCTTTTAAAACAC-AAAGACCTTTGA
1 GTTTCTCTTGAAACACAAAAAACCTTTGA
4467757 GTTCGACTAC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.01
32 9 0.11
33 40 0.47
34 35 0.41
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:4468065 original size:83 final size:82
Alignment explanation
Indices: 4467940--4468182 Score: 251
Period size: 83 Copynumber: 3.0 Consensus size: 82
4467930 CAGCTTCGAG
* * * * * * *
4467940 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTC
1 GGCACATCATTCACAGCATAGCTCAAAGCAAGAAAGGCTATCTGTCAACAAAGACCTTCGAGTTC
4468005 GACTACGC-TT-AGCTAAA
66 GA-TAC-CATTCAGCTAAA
* * * * *
4468022 GGGCACATCATTCGCAGCATAGCTTAAATCAAGAAAGGCTATCTATCATCAAAGACCTTCGAGTT
1 -GGCACATCATTCACAGCATAGCTCAAAGCAAGAAAGGCTATCTGTCAACAAAGACCTTCGAGTT
* *
4468087 CGATTCCATTCAGCTCAA
65 CGATACCATTCAGCTAAA
* * * *
4468105 GGCACATCATTCACAGCATAGCTCAAGGCAAGAAGGGCTATATGTCAACAAA-A-TTGTCGAGTT
1 GGCACATCATTCACAGCATAGCTCAAAGCAAGAAAGGCTATCTGTCAACAAAGACCT-TCGAGTT
*
4468168 CGATTCCATTCAGCT
65 CGATACCATTCAGCT
4468183 CGATGACAGT
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 24 0.18
82 48 0.36
83 62 0.46
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (82 bp):
GGCACATCATTCACAGCATAGCTCAAAGCAAGAAAGGCTATCTGTCAACAAAGACCTTCGAGTTC
GATACCATTCAGCTAAA
Found at i:4468422 original size:3 final size:3
Alignment explanation
Indices: 4468403--4468472 Score: 104
Period size: 3 Copynumber: 23.0 Consensus size: 3
4468393 TTTTAAAAAA
* * *
4468403 ATT ATT TTT ATT TTT ATT ATT ATT ATT ACT ATT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
4468449 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
4468473 TATTTTTACA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4469892 original size:24 final size:22
Alignment explanation
Indices: 4469865--4469913 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
4469855 TTACACATTT
4469865 TTTAACATTTTTTCTCTCTTTTAA
1 TTTAACATTTTTTC-CTC-TTTAA
*
4469889 TTT-ACTTTTTTTCCTCTTTAA
1 TTTAACATTTTTTCCTCTTTAA
4469910 TTTA
1 TTTA
4469914 TTTAGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 9 0.39
24 3 0.13
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTAACATTTTTTCCTCTTTAA
Found at i:4469905 original size:22 final size:22
Alignment explanation
Indices: 4469872--4469913 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
4469862 TTTTTTAACA
4469872 TTTTTTCTCTCTTTTAATTTACT
1 TTTTTTCTCTC-TTTAATTTACT
4469895 TTTTTTC-CTCTTTAATTTA
1 TTTTTTCTCTCTTTAATTTA
4469914 TTTAGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTTCTCTCTTTAATTTACT
Found at i:4470007 original size:6 final size:6
Alignment explanation
Indices: 4469996--4470023 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4469986 TGAATTGAGT
4469996 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
4470024 TCATAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:4471203 original size:20 final size:20
Alignment explanation
Indices: 4471178--4471218 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4471168 AACATGCATA
4471178 GGGGTATCTGTACCCCCTGG
1 GGGGTATCTGTACCCCCTGG
*
4471198 GGGGTATCTGTACCCTCTGG
1 GGGGTATCTGTACCCCCTGG
4471218 G
1 G
4471219 CAATCTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (20 bp):
GGGGTATCTGTACCCCCTGG
Found at i:4471492 original size:12 final size:12
Alignment explanation
Indices: 4471477--4471508 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4471467 AGAAAATCAT
4471477 TTTGAAATCAAA
1 TTTGAAATCAAA
4471489 TTTGAAATCAAA
1 TTTGAAATCAAA
4471501 TTTGAAAT
1 TTTGAAAT
4471509 TACTACTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (12 bp):
TTTGAAATCAAA
Found at i:4473738 original size:20 final size:22
Alignment explanation
Indices: 4473713--4473763 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4473703 CGTGGAGGGT
4473713 ATCGGTTCCC-T-CAAGGGGGA
1 ATCGGTTCCCATGCAAGGGGGA
* *
4473733 ATCGGTACCCATGCAAGGGGGT
1 ATCGGTTCCCATGCAAGGGGGA
*
4473755 ATCGATTCC
1 ATCGGTTCC
4473764 TAGCGCCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.36
21 1 0.04
22 15 0.60
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (22 bp):
ATCGGTTCCCATGCAAGGGGGA
Found at i:4477852 original size:2 final size:2
Alignment explanation
Indices: 4477847--4477910 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
4477837 AACTTCAGCA
4477847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4477887 AT AT AT AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4477911 ACTCATAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4478477 original size:24 final size:24
Alignment explanation
Indices: 4478445--4478490 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4478435 TCTTCCAGAT
4478445 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
4478469 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
4478491 CGTATTATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:4479709 original size:30 final size:30
Alignment explanation
Indices: 4479685--4479742 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4479675 TTGGTCCCTG
* * *
4479685 AACTTTTCAAAGTTTATACTTTGGTCACCA
1 AACTTTACAAAATTTATAATTTGGTCACCA
4479715 AACTTTACAAAATTTATAATTTGGTCAC
1 AACTTTACAAAATTTATAATTTGGTCAC
4479743 TAAATAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (30 bp):
AACTTTACAAAATTTATAATTTGGTCACCA
Found at i:4482274 original size:20 final size:20
Alignment explanation
Indices: 4482234--4482275 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4482224 TTTTAATAGC
* *
4482234 TTACAATTTTTTGTTGTTGT
1 TTACAATTTTTTGTCGCTGT
*
4482254 TTACACTTTTTTGTCGCTGT
1 TTACAATTTTTTGTCGCTGT
4482274 TT
1 TT
4482276 TTGTTTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.62
Consensus pattern (20 bp):
TTACAATTTTTTGTCGCTGT
Found at i:4486875 original size:14 final size:14
Alignment explanation
Indices: 4486856--4486932 Score: 118
Period size: 14 Copynumber: 5.5 Consensus size: 14
4486846 ATATGGTCGC
4486856 TTATGTTCGTTCGT
1 TTATGTTCGTTCGT
4486870 TTATGTTCGTTCGT
1 TTATGTTCGTTCGT
*
4486884 TTATGTTCGTTCCT
1 TTATGTTCGTTCGT
* * *
4486898 TTATTTTCTTTTGT
1 TTATGTTCGTTCGT
4486912 TTATGTTCGTTCGT
1 TTATGTTCGTTCGT
4486926 TTATGTT
1 TTATGTT
4486933 TAGGTCAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 55 1.00
ACGTcount: A:0.08, C:0.13, G:0.17, T:0.62
Consensus pattern (14 bp):
TTATGTTCGTTCGT
Found at i:4487354 original size:34 final size:34
Alignment explanation
Indices: 4487289--4487354 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
4487279 TTGTGTTCGA
* *
4487289 TTATGTTCGTTAATCATCGTTCATTTGTGTTCAG
1 TTATGTTCGTTAATCATCGATCATTTATGTTCAG
* *
4487323 TTATGTTCGTTTA-CATCTGATCGTTTATGTTC
1 TTATGTTCGTTAATCATC-GATCATTTATGTTC
4487355 GTTTATCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.52
Consensus pattern (34 bp):
TTATGTTCGTTAATCATCGATCATTTATGTTCAG
Found at i:4489111 original size:2 final size:2
Alignment explanation
Indices: 4489104--4489131 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4489094 GTAGACAGAA
4489104 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
4489132 GCTTGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4489586 original size:16 final size:16
Alignment explanation
Indices: 4489565--4489609 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4489555 ACAGAGCCTC
4489565 TGAATTATTCAGCATT
1 TGAATTATTCAGCATT
**
4489581 TGAATTATTCAATATT
1 TGAATTATTCAGCATT
*
4489597 TGAATCATTCAGC
1 TGAATTATTCAGC
4489610 GCTTAATCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (16 bp):
TGAATTATTCAGCATT
Found at i:4491102 original size:3 final size:3
Alignment explanation
Indices: 4491094--4491196 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
4491084 TTTTTATCCA
*
4491094 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4491142 TAA TAT TAT TAT T-T TTT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4491189 TAT TAT TA
1 TAT TAT TA
4491197 AATATATTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 2 0.02
3 88 0.98
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4492825 original size:17 final size:18
Alignment explanation
Indices: 4492800--4492852 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
4492790 GGATATTTTT
4492800 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
4492818 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
4492834 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
4492852 A
1 A
4492853 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:4505030 original size:84 final size:84
Alignment explanation
Indices: 4504889--4505201 Score: 590
Period size: 84 Copynumber: 3.7 Consensus size: 84
4504879 AACCTTTTAT
4504889 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
*
4504954 CATTGAAGTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
4504973 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
4505038 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
*
4505057 ATGTGCTCAATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
4505122 CATTGAATTTAGAAGATGA
66 CATTGAATTTAGAAGATGA
* *
4505141 ATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGCAGAAC
1 ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAAC
4505202 TTACAGAACC
Statistics
Matches: 224, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 224 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (84 bp):
ATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTAGAAGATGA
Found at i:4505981 original size:113 final size:113
Alignment explanation
Indices: 4505814--4506567 Score: 1294
Period size: 113 Copynumber: 6.7 Consensus size: 113
4505804 GCAAGGTAGA
*
4505814 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *** * * * * * * *
4505879 ACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAA
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
4505927 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
4505992 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
*
4506040 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
4506105 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
4506153 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
4506218 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
* *
4506266 GTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
4506331 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
* *
4506379 GTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
4506444 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAA
66 ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
* *
4506492 GTTCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 GTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
4506557 AAC-CTTTGTTT
65 AACTTTTTGTTT
4506568 GATATTATCT
Statistics
Matches: 617, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
113 559 0.91
114 58 0.09
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAAG
Found at i:4506866 original size:3 final size:3
Alignment explanation
Indices: 4506858--4506955 Score: 144
Period size: 3 Copynumber: 32.7 Consensus size: 3
4506848 TTTTTATCCA
*
4506858 TAT TAT TAT TAT TATT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4506904 TA- TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4506951 TAT TA
1 TAT TA
4506956 AATATATTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.94
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4508583 original size:17 final size:18
Alignment explanation
Indices: 4508558--4508610 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
4508548 GGATATTTTT
4508558 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
4508576 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
4508592 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
4508610 A
1 A
4508611 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:4511703 original size:16 final size:17
Alignment explanation
Indices: 4511672--4511704 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4511662 TTAAGGGACT
4511672 AAATTGAAATAAAATAA
1 AAATTGAAATAAAATAA
*
4511689 AAATT-AAATAGAATAA
1 AAATTGAAATAAAATAA
4511705 TTGAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAATTGAAATAAAATAA
Found at i:4518404 original size:15 final size:15
Alignment explanation
Indices: 4518384--4518412 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4518374 AATTTCTTTT
4518384 TCATTATCTAAACCC
1 TCATTATCTAAACCC
4518399 TCATTATCTAAACC
1 TCATTATCTAAACC
4518413 AAAGATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
TCATTATCTAAACCC
Found at i:4519520 original size:21 final size:23
Alignment explanation
Indices: 4519469--4519526 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
4519459 TACACCTGTG
*
4519469 AGTGTATCGATAAACATTCAATT
1 AGTGTATCGATACACATTCAATT
* *
4519492 AATGTATCGGTACACATTC-A-T
1 AGTGTATCGATACACATTCAATT
4519513 AGTGTATCGATACA
1 AGTGTATCGATACA
4519527 TAGAAAAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 13 0.43
22 1 0.03
23 16 0.53
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (23 bp):
AGTGTATCGATACACATTCAATT
Found at i:4535426 original size:118 final size:118
Alignment explanation
Indices: 4535185--4535882 Score: 459
Period size: 118 Copynumber: 6.1 Consensus size: 118
4535175 AACATAACCA
* * * *
4535185 GTTAGTTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAACGTAATAGG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAACGTAATAAG
* * * * *
4535250 TAGCGCCTTTTTAAAGATGACGGGTCTTTCGAAATCCGACGATAACATAACT-G
66 TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACA-AAATAG
* *
4535303 GTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGATAGCGCTTATATAACGTAATAAG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAACGTAATAAG
4535368 TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
66 TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
* * *** * * * * *
4535421 ATTAATTACT-TAATTTTTTTAT-TAGTATTATCAACATATTAGGTAACG-TCTA-A-AATGTTA
1 GTTAATTACTGGAA--ACATTATCAAGCATAAT-AACATATTAGGTAGCGCT-TATATAACG-TA
** * * * * * **
4535481 CCAA--A--G----TTT-AAGCTGATAGAGAC-TTAGAAATCCGATGATAACATAACCG
61 ATAAGTAGCGCCTTTTTAAAGCTGAT-GGGGCTTTGGAAATCCGACGATAACAAAATAG
* **
4535530 GTTAATTACTGGAAACATTATCAAGCATAATAAAATATTAGGTAGAACTTATATAACGTAAT-AG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAACGTAATAAG
** * * * * *
4535594 ATAGCATCTTTTTGAAGCTTAT-GGGCTTTGAAAATTCGACAATAACAAAATAG
66 -TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
* * *** * * * * * * **
4535647 GTTATTTACT-TAATTTGTTAT-TAGTATTATCAACATATTAGGTAACGCCTA-A-AATGTTACC
1 GTTAATTACTGGAA-ACATTATCAAGCATAAT-AACATATTAGGTAGCGCTTATATAACG-TAAT
* * ** * ** * *
4535708 AA--A--G----TTT-AAGCTTATAGAACCTTAAAAATCCGACGATAACATAATGG
63 AAGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
* * *
4535755 GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGTTTATGTAACGTAATAGG
1 GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAACGTAATAAG
* * * *
4535820 TAGCGCATTATTAAAGCTTATGGGGCTTTGGAAATTCGACGATAACAAAATAG
66 TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
4535873 GTTAATTACT
1 GTTAATTACT
4535883 TAATTTGTTA
Statistics
Matches: 431, Mismatches: 108, Indels: 82
0.69 0.17 0.13
Matches are distributed among these distances:
107 8 0.02
108 75 0.17
109 59 0.14
110 14 0.03
111 2 0.00
113 1 0.00
114 2 0.00
115 3 0.01
116 14 0.03
117 60 0.14
118 172 0.40
119 21 0.05
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (118 bp):
GTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAACGTAATAAG
TAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACAAAATAG
Found at i:4536020 original size:226 final size:225
Alignment explanation
Indices: 4535280--4535987 Score: 1026
Period size: 225 Copynumber: 3.1 Consensus size: 225
4535270 CGGGTCTTTC
*
4535280 GAAATCCGACGATAACATAA-CTGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAG
1 GAAATCCGACGATAACATAATC-GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAG
* * * *
4535344 ATAGCGCTTATATAACGTAATAAGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACG
65 GTAGCGCTTATATAACGTAATAGGTAGCG-CTTTTTAAAGCTTATGGGGCTTTGGAAATTCGACG
* * *
4535409 ATAACAAAATAGATTAATTACTTAATTTTTTTATTAGTATTATCAACATATTAGGTAACGTCTAA
129 ATAACAAAATAGGTTAATTACTTAA-TTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAA
*
4535474 AATGTTACCAAAGTTTAAGCTGATAGAGACTTA
193 AATGTTACCAAAGTTTAAGCTGATAGAGCCTTA
* * *
4535507 GAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAAAATATTAGG
1 GAAATCCGACGATAACATAATCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
** * * * * *
4535572 TAGAACTTATATAACGTAATAGATAGCATCTTTTTGAAGCTTAT-GGGCTTTGAAAATTCGACAA
66 TAGCGCTTATATAACGTAATAGGTAGC-GCTTTTTAAAGCTTATGGGGCTTTGGAAATTCGACGA
*
4535636 TAACAAAATAGGTTATTTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
130 TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
* *
4535701 TGTTACCAAAGTTTAAGCTTATAGAACCTTA
195 TGTTACCAAAGTTTAAGCTGATAGAGCCTTA
* *
4535732 AAAATCCGACGATAACATAATGGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAATCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
* * *
4535797 TAGCGTTTATGTAACGTAATAGGTAGCGCATTATTAAAGCTTATGGGGCTTTGGAAATTCGACGA
66 TAGCGCTTATATAACGTAATAGGTAGCGC-TTTTTAAAGCTTATGGGGCTTTGGAAATTCGACGA
* * *
4535862 TAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACACCT-AAA
130 TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
* * * *
4535926 TGTTAACAAAATTTAAGATGATGGAGCCTTA
195 TGTTACCAAAGTTTAAGCTGATAGAGCCTTA
* *
4535957 GGAATCCGATGATAACATAATCGGTTAATTA
1 GAAATCCGACGATAACATAATCGGTTAATTA
4535988 ATTGATTTGT
Statistics
Matches: 427, Mismatches: 50, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
224 1 0.00
225 216 0.51
226 114 0.27
227 95 0.22
228 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (225 bp):
GAAATCCGACGATAACATAATCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGG
TAGCGCTTATATAACGTAATAGGTAGCGCTTTTTAAAGCTTATGGGGCTTTGGAAATTCGACGAT
AACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAAT
GTTACCAAAGTTTAAGCTGATAGAGCCTTA
Found at i:4539184 original size:446 final size:442
Alignment explanation
Indices: 4538255--4539547 Score: 1864
Period size: 444 Copynumber: 2.9 Consensus size: 442
4538245 TTGAATACTC
* *
4538255 TTACCTAAGTATTGATACTTTT-TTGTACGGTATCGACACTTTCGAGACGTTTC-ATTTTTTTAA
1 TTACCTAAGTATCGATACTTTTATT-TACGGTATCGATACTTTCGAGACGTTTCGA-TTTTTTAA
* * *
4538318 AACCGGTAGCTATTTACCGTTTACATTGT-ATATTGAAACTGGTTTTTATCAATTTTAACCTATT
64 AACCGGTAGCTATTTACCGGTT---TTGTCATATTGAAAC-CGTTTTTATCAATTTTAACCTGTT
* * * *
4538382 ATATTATCAGGTATCGATATATGTGTTATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGA
125 ATATTGTCATGTATCGATACATGTGTCATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGA
* * *
4538447 AGCATACTGGACATAAAGTATCGATACATATGCCAAAAGTATTGATACTTTATGTAAATGTATTT
190 AGCATACTGGACATAAAGTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACGTATTT
* *
4538512 TGTCATTAAACTGGTATA--TTTACAGCTTACATTGTAAATTAACCTATTACTTTAAAGTAATCG
255 TGTCATTAAACTGGTATATTTTTACAGCTTACATTGTAAATTTACCGATTACTTTAAAG--A-CG
* * * * *
4538575 GTTTCGATGTTTTAAGAATCGATATTTTTCATACGTGTATCGATACTTTATAGGTGCAATTTTAG
317 GTTTCAAAGTTTTAAGAATCGATACTTTTCATACGTGTATCGATACTTTATAGGTGC-ATTATGG
* *
4538640 AAACTGGTTTTGTCAAAAAGATGAACCTGTTATGTTATTATATTTAATCGATACCATTACCC
381 AAACTGGTTTTGTCAAAAAGATGAACCTGCTATGTTATTATATTTAATCGATACCATTACCA
* * * *
4538702 TTACCTAAGTATCGATACTTTTATGTATGTTATCGATACTATCGAGACGTTTCGATTTTTTCAAA
1 TTACCTAAGTATCGATACTTTTATTTACGGTATCGATACTTTCGAGACGTTTCGATTTTTT-AAA
** *
4538767 ATTGGTAGCTATTTATCGGTTTTGTCATATTGAAACCGTTTTTATCAATTTTGAACCTGTTATAT
65 ACCGGTAGCTATTTACCGGTTTTGTCATATTGAAACCGTTTTTATCAATTTT-AACCTGTTATAT
*
4538832 TGTCATGTATCGATACATGTGTCATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGAAGTA
129 TGTCATGTATCGATACATGTGTCATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGAAGCA
4538897 TACTGGACATAAAGTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACGTATTTTGTC
194 TACTGGACATAAAGTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACGTATTTTGTC
4538962 ATTAAACTGGTATATTTTTACAGCTTACATTGTAAATTTACCGATTACTTTAAAG-CGGTTTCAA
259 ATTAAACTGGTATATTTTTACAGCTTACATTGTAAATTTACCGATTACTTTAAAGACGGTTTCAA
*
4539026 AGTTTTAAGAATCGATACTTTTCATACGTGTATCGATACTTTGTAGGTGC-TTATGGAAACTGGT
324 AGTTTTAAGAATCGATACTTTTCATACGTGTATCGATACTTTATAGGTGCATTATGGAAACTGGT
4539090 TTTGTCAAAAAGATGACGAACCTGCTATGTTATTTATATTTAATCGATACCATTACCA
389 TTTGTCAAAAAGAT---GAACCTGCTATGTTA-TTATATTTAATCGATACCATTACCA
*
4539148 TTACCAAAGTATCGATACTTTTATTTACGGTATCGATACTTTCGAGACGTTTCG-TTTTTTAAAA
1 TTACCTAAGTATCGATACTTTTATTTACGGTATCGATACTTTCGAGACGTTTCGATTTTTTAAAA
* * * *
4539212 CCGGTTGTTATTTACCGGTTTTGACATATTGAAACCGTTTTTATCAATTTTTAACATGTTATATT
66 CCGGTAGCTATTTACCGGTTTTGTCATATTGAAACCGTTTTTATCAA-TTTTAACCTGTTATATT
* * * *
4539277 GTCATGTATCGATACATGTGTCATAGGTATAGATATTTTCTACGTGCATCTAGTTTGGGAAACAT
130 GTCATGTATCGATACATGTGTCATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGAAGCAT
* * *
4539342 ACTGAACATAAAGTATCAATACATATACCAAAAGTATCGATACTTTTTGTAAACGTATTTTGTCA
195 ACTGGACATAAAGTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACGTATTTTGTCA
* * * * *
4539407 TTAAACCGATATATTTTTACAGCTTACATTGTTAATTTACTGATTACTTTAAAGTAATCGATTTC
260 TTAAACTGGTATATTTTTACAGCTTACATTGTAAATTTACCGATTACTTTAAAG--A-CGGTTTC
* * ** *
4539472 AAAGTTTTAAGAATTGATACTTTTCATACGTGTATTGATACTTTATAGGCACAATTATGGAAACC
322 AAAGTTTTAAGAATCGATACTTTTCATACGTGTATCGATACTTTATAGGTGC-ATTATGGAAACT
*
4539537 GATTTTGTCAA
386 GGTTTTGTCAA
4539548 TTCTTTACCT
Statistics
Matches: 766, Mismatches: 62, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
442 26 0.03
444 284 0.37
445 43 0.06
446 230 0.30
447 51 0.07
448 112 0.15
450 20 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (442 bp):
TTACCTAAGTATCGATACTTTTATTTACGGTATCGATACTTTCGAGACGTTTCGATTTTTTAAAA
CCGGTAGCTATTTACCGGTTTTGTCATATTGAAACCGTTTTTATCAATTTTAACCTGTTATATTG
TCATGTATCGATACATGTGTCATAGGTATCGATACTTCCTACGTGCATCTAGTTTGGGAAGCATA
CTGGACATAAAGTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACGTATTTTGTCAT
TAAACTGGTATATTTTTACAGCTTACATTGTAAATTTACCGATTACTTTAAAGACGGTTTCAAAG
TTTTAAGAATCGATACTTTTCATACGTGTATCGATACTTTATAGGTGCATTATGGAAACTGGTTT
TGTCAAAAAGATGAACCTGCTATGTTATTATATTTAATCGATACCATTACCA
Found at i:4542864 original size:200 final size:200
Alignment explanation
Indices: 4542514--4543461 Score: 1464
Period size: 200 Copynumber: 4.7 Consensus size: 200
4542504 ATTTACCTAT
* *
4542514 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAGGTATCGATACTACTGAAACAA
1 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
* *
4542579 GAATCGATACTTTATGTTTACCTATTTTCTAATTAAACCGGTATATTTTTACCGGTTACATTGTA
66 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
* * * * *
4542644 AATTTATCTATTATTTTATAATAATCAGTTTTGATGTTTTAAGGATCGATATTTCTCATACATGT
131 AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
4542709 ATCGA
196 ATCGA
*
4542714 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATAATACTTAAACAA
1 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
* * *
4542779 GTATTGATACTTTATGTTTACCTATTTTCTAATTAAATTGGTATATTTTTACCGGTAACATTGTA
66 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
*
4542844 AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAATGATCGATACTTCTCATACATGT
131 AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
4542909 ATCGA
196 ATCGA
* * * *
4542914 TACTTTATGAGTGTATCTCGTTTGGGATTCATATTGAACAAAGAGTATCGATACTACTTAAACAA
1 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
* * * ** * *
4542979 GTATTGATAATTTATGTTTACCGATTTTCTAATTAAACCAGTATATTTTTATCGGTTACATTTTA
66 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
*
4543044 AATTTACCTATTACTTTATAATAATCGTTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
131 AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
4543109 ATCGA
196 ATCGA
* * * *
4543114 TACTTTATGCGTGCATCTGGTTTGGGATTCATACTAGACAAAAAGTATCGATAATACTTAAACAA
1 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
* * *
4543179 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTATCAGTAACATTGTA
66 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
*
4543244 AATTTACCTATTACTTTATAATAATCGGTTTCGATATTTTAAGGATCGATACTTCTCATACATGT
131 AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
*
4543309 ATCAA
196 ATCGA
* * * * *
4543314 TACTTTATGTGTGCTTCTCGTTTGGGATTCATACTTGACAAAATGTATCGATACTACTGAAACAA
1 TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
* * * ** * *
4543379 GTATCGATACTTTATGTTTACCTATTCTCTCATTAAACTGGTAAAAATATACCGCTTACATTGTA
66 GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
*
4543444 AATTTATCTATTACTTTA
131 AATTTACCTATTACTTTA
4543462 AAGTAATAAA
Statistics
Matches: 682, Mismatches: 66, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
200 682 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (200 bp):
TACTTTATGAGTGCATCTCGTTTGGGATTCATACTGGACAAAAAGTATCGATACTACTTAAACAA
GTATCGATACTTTATGTTTACCTATTTTCTAATTAAACTGGTATATTTTTACCGGTTACATTGTA
AATTTACCTATTACTTTATAATAATCGGTTTCGATGTTTTAAGGATCGATACTTCTCATACATGT
ATCGA
Found at i:4548068 original size:12 final size:12
Alignment explanation
Indices: 4548031--4548061 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4548021 TACCATATCA
4548031 TCTTCCTTCTCT
1 TCTTCCTTCTCT
4548043 TCTTCCTTCTCT
1 TCTTCCTTCTCT
4548055 TCTTCCT
1 TCTTCCT
4548062 CATCTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTTCCTTCTCT
Found at i:4548082 original size:21 final size:21
Alignment explanation
Indices: 4548043--4548082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4548033 TTCCTTCTCT
* * *
4548043 TCTTCCTTCTCTTCTTCCTCA
1 TCTTCCTCCTCTACCTCCTCA
4548064 TCTTCCTCCTCTACCTCCT
1 TCTTCCTCCTCTACCTCCT
4548083 TCCCAATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.47, G:0.00, T:0.47
Consensus pattern (21 bp):
TCTTCCTCCTCTACCTCCTCA
Found at i:4550678 original size:194 final size:195
Alignment explanation
Indices: 4550346--4551013 Score: 1038
Period size: 194 Copynumber: 3.4 Consensus size: 195
4550336 TTTTCTTTTA
* *
4550346 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTTAACATATCTAGTAGCG
1 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCG
* * * *
4550411 CTTTACCGGTTTTGTCATACTGAAATCAGTTTTT-TCATATTTTAACTTGTTATATTGTCATGTA
66 CTTTACCGGTTTTGTCATATTGAAATCAGTTTTTGTCATATTTTTACATGTTATATTGTTATGTA
* * *
4550475 TCAATACATGTTTATAAAATATCGATGCTTTATAGGCGTCATTATTTCAATTCTTTTAAATTCCT
131 TCGATACATGTTTATAAAATATCGATACTTTATAGGCGTCATTATTGCAATTCTTTTAAATTCCT
* **
4550540 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCGGTAGTT
1 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCG
* * *
4550605 TTTTACTGGTTTTGTCATATTGAAATCATTTTTTGTCATATTTTTACATG-TATATTGTTATGTA
66 CTTTACCGGTTTTGTCATATTGAAATCAGTTTTTGTCATATTTTTACATGTTATATTGTTATGTA
*
4550669 TCGATACATGTTTATAAAGA-ATCGATACTTTATTGGCGTCATTATTGCAATTCTTTTAAATTCC
131 TCGATACATGTTTATAAA-ATATCGATACTTTATAGGCGTCATTATTGCAATTCTTTTAAATTCC
4550733 T
195 T
* *
4550734 GAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCT
1 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCG
* * * * * * *
4550799 TTTTACTGATTTTGTTATATTTAAATC-GGTTTTGTCATATTTTTACCTGTTATATTGTTATGTA
66 CTTTACCGGTTTTGTCATATTGAAATCAGTTTTTGTCATATTTTTACATGTTATATTGTTATGTA
*
4550863 TCGATACATGTTTATAAAATATCGATACTTTATAGGCGTTATTATTGCAATTCTTTTAAATTCCT
131 TCGATACATGTTTATAAAATATCGATACTTTATAGGCGTCATTATTGCAATTCTTTTAAATTCCT
* * *
4550928 AAAGTATCGATAATGTAATACATATACTTATTAAAGTATCGATACCTTCAACATATCCGGTAGCG
1 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCG
4550993 CTTTACCGGTTTTGTCATATT
66 CTTTACCGGTTTTGTCATATT
4551014 TTTACTTATT
Statistics
Matches: 434, Mismatches: 36, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
193 20 0.05
194 400 0.92
195 14 0.03
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (195 bp):
AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTCAACATATCCAGTAGCG
CTTTACCGGTTTTGTCATATTGAAATCAGTTTTTGTCATATTTTTACATGTTATATTGTTATGTA
TCGATACATGTTTATAAAATATCGATACTTTATAGGCGTCATTATTGCAATTCTTTTAAATTCCT
Found at i:4551115 original size:174 final size:174
Alignment explanation
Indices: 4550825--4551216 Score: 624
Period size: 174 Copynumber: 2.3 Consensus size: 174
4550815 ATATTTAAAT
* * * *
4550825 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAATATCGATA
1 CGGTTTTGTCATATTTTTACTTATTATATTGTTATGTATTGATACATGTTTATAAAATATCAATA
* * *
4550890 CTTTATAGGCGTTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATAATGTAATACATATAC
66 CTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCCTAAAATATCGATAATATAATACATATAC
* * *
4550955 TTATTAAAGTATCGATACCTTCAACATATCCGGTAGCGCTTTAC
131 GTATTAAAGCATCGATACCTTCAACATATCCGGTAGCACTTTAC
*
4550999 CGGTTTTGTCATATTTTTACTTATTATATTGTTATGTATTGATACATGTTTATAAAGTATCAATA
1 CGGTTTTGTCATATTTTTACTTATTATATTGTTATGTATTGATACATGTTTATAAAATATCAATA
* * *
4551064 CTTTATAGGCGCTATTATTTCAATTCTTTTAAATTCTTAAAATATCGATAATATGATACATATAC
66 CTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCCTAAAATATCGATAATATAATACATATAC
4551129 GTATTAAAGCATCGATACCTTCAACATATCCGGTAGCACTTTAC
131 GTATTAAAGCATCGATACCTTCAACATATCCGGTAGCACTTTAC
* * *
4551173 TGGTTTTGTCATATTTTTACTGA-TATATTATTATGTATTGATAC
1 CGGTTTTGTCATATTTTTACTTATTATATTGTTATGTATTGATAC
4551217 TTATTTGCAA
Statistics
Matches: 201, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
173 20 0.10
174 181 0.90
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (174 bp):
CGGTTTTGTCATATTTTTACTTATTATATTGTTATGTATTGATACATGTTTATAAAATATCAATA
CTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCCTAAAATATCGATAATATAATACATATAC
GTATTAAAGCATCGATACCTTCAACATATCCGGTAGCACTTTAC
Found at i:4551679 original size:25 final size:26
Alignment explanation
Indices: 4551648--4551718 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 26
4551638 ATATAAAACT
4551648 AAAAAAATAAAGGAATAGTTCACCAAAA
1 AAAAAAATAAAGGAATAGTTCACC--AA
4551676 AAAAAAATAAAGGAATAGTTCACC-A
1 AAAAAAATAAAGGAATAGTTCACCAA
4551701 AAAAAAATAAAGGAATAG
1 AAAAAAATAAAGGAATAG
4551719 AATGAGAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 19 0.44
28 24 0.56
ACGTcount: A:0.65, C:0.08, G:0.13, T:0.14
Consensus pattern (26 bp):
AAAAAAATAAAGGAATAGTTCACCAA
Found at i:4551752 original size:17 final size:16
Alignment explanation
Indices: 4551732--4551767 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4551722 GAGAAATAAA
*
4551732 ATAAAAATATATAAATT
1 ATAAAAATAT-TAAAAT
4551749 ATAAAAATATTAAAAT
1 ATAAAAATATTAAAAT
4551765 ATA
1 ATA
4551768 TATTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAATATTAAAAT
Found at i:4558621 original size:23 final size:23
Alignment explanation
Indices: 4558583--4558639 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
4558573 TGGTGAACTG
* *
4558583 TAAGTTATAGAATTTTTATATTTA
1 TAAGTTAT-GTATTTTTTTATTTA
* *
4558607 T-AGTTATGTATTTTTTTCTTTC
1 TAAGTTATGTATTTTTTTATTTA
4558629 TAAGTTATGTA
1 TAAGTTATGTA
4558640 AAATGAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.43
23 15 0.54
24 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (23 bp):
TAAGTTATGTATTTTTTTATTTA
Found at i:4561125 original size:20 final size:20
Alignment explanation
Indices: 4561100--4561170 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
4561090 CAAATTTCCC
*
4561100 AAATTCGCAACTCGGTTTTG
1 AAATTCGCAACTCGATTTTG
*
4561120 AAATTCGCAACTCGATTTTC
1 AAATTCGCAACTCGATTTTG
*** *
4561140 TTTTTCGCAACTCGAATTTG
1 AAATTCGCAACTCGATTTTG
* *
4561160 GAATTTGCAAC
1 AAATTCGCAAC
4561171 ACAAAAGTCA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (20 bp):
AAATTCGCAACTCGATTTTG
Found at i:4561730 original size:20 final size:20
Alignment explanation
Indices: 4561707--4561745 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4561697 TTTGAAACTT
4561707 AAATTCGCAACATGAAAATG
1 AAATTCGCAACATGAAAATG
4561727 AAATTCGCAACATGAAAAT
1 AAATTCGCAACATGAAAAT
4561746 CGCAACGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACATGAAAATG
Found at i:4563378 original size:42 final size:42
Alignment explanation
Indices: 4563319--4563471 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
4563309 TGAGCACTCC
* * **
4563319 CCACTTCGACACCGAGATCTATCACCTCATCGAGCCTCTTCT
1 CCACTTCGACACCGAGATCCATCACCTGATCGAGCCAATTCT
*
4563361 CCACTTCGACACCGAGATCCATCACCTGATCAAGCCAATTCT
1 CCACTTCGACACCGAGATCCATCACCTGATCGAGCCAATTCT
* * * * *
4563403 ACACCTCAACACCGAGAGCCATCACCTGATCGAGCCGATTCT
1 CCACTTCGACACCGAGATCCATCACCTGATCGAGCCAATTCT
* * * * *
4563445 ACACCTCGATACTGAGAGCCATCACCT
1 CCACTTCGACACCGAGATCCATCACCT
4563472 ATTCCATCAC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.27, C:0.39, G:0.14, T:0.21
Consensus pattern (42 bp):
CCACTTCGACACCGAGATCCATCACCTGATCGAGCCAATTCT
Found at i:4563609 original size:21 final size:21
Alignment explanation
Indices: 4563585--4563638 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4563575 GGTTAGGTGG
*
4563585 TTTACGTGATGAGGTCAGTTC
1 TTTACGTGATGAGGTCAGTGC
* *
4563606 TTTACATGATGAGGTCGGTGC
1 TTTACGTGATGAGGTCAGTGC
4563627 TTTACGTGATGA
1 TTTACGTGATGA
4563639 CAATGGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (21 bp):
TTTACGTGATGAGGTCAGTGC
Found at i:4563693 original size:21 final size:21
Alignment explanation
Indices: 4563653--4563761 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 21
4563643 GGTAAATGGT
*
4563653 GTGATGAGGTAG-GGTCTTTAC
1 GTGATGAGGTAGCTG-CTTTAC
* *
4563674 GTGGTGAGGTAGCTGTTTTAC
1 GTGATGAGGTAGCTGCTTTAC
** *
4563695 GTGATGA-CAATGGTGCTTTAC
1 GTGATGAGGTA-GCTGCTTTAC
* **
4563716 GTGTTGAGGTATTTGCTTTAC
1 GTGATGAGGTAGCTGCTTTAC
* *
4563737 GTGATGAGGTAGCTTCTCTAC
1 GTGATGAGGTAGCTGCTTTAC
4563758 GTGA
1 GTGA
4563762 GATTGTTTTA
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
20 1 0.01
21 64 0.96
22 2 0.03
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.37
Consensus pattern (21 bp):
GTGATGAGGTAGCTGCTTTAC
Found at i:4563699 original size:42 final size:43
Alignment explanation
Indices: 4563653--4563748 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
4563643 GGTAAATGGT
*
4563653 GTGATGAGGTAGGGT-CTTTACGTGGTGAGGTAGCTGTTTTAC
1 GTGATGAGGTAGGGTGCTTTACGTGGTGAGGTAGCTGCTTTAC
** * * **
4563695 GTGATGA-CAATGGTGCTTTACGTGTTGAGGTATTTGCTTTAC
1 GTGATGAGGTAGGGTGCTTTACGTGGTGAGGTAGCTGCTTTAC
4563737 GTGATGAGGTAG
1 GTGATGAGGTAG
4563749 CTTCTCTACG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
41 4 0.10
42 37 0.88
43 1 0.02
ACGTcount: A:0.19, C:0.09, G:0.35, T:0.36
Consensus pattern (43 bp):
GTGATGAGGTAGGGTGCTTTACGTGGTGAGGTAGCTGCTTTAC
Found at i:4563724 original size:63 final size:62
Alignment explanation
Indices: 4563580--4563761 Score: 184
Period size: 63 Copynumber: 2.9 Consensus size: 62
4563570 GGATGGGTTA
* * * *
4563580 GGTGGTTTACGTGATGAGGTCAGTTCTTTACATGATGAGGTCGGTGCTTTACGTGATGACAAT
1 GGTGATTTACGTGATGAGGT-AGTTCTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAAT
* * *** * * *
4563643 GGTAAATGGTGTGATGAGGTAGGGTCTTTACGTGGTGAGGTAGCTGTTTTACGTGATGACAAT
1 GGTGATTTACGTGATGAGGTA-GTTCTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAAT
* * * * *
4563706 GGTGCTTTACGTGTTGAGGTATTTGCTTTACGTGATGAGGTAGCTTCTCTACGTGA
1 GGTGATTTACGTGATGAGGTAGTT-CTTTACGTGATGAGGTAGCTGCTTTACGTGA
4563762 GATTGTTTTA
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
62 2 0.02
63 90 0.98
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.36
Consensus pattern (62 bp):
GGTGATTTACGTGATGAGGTAGTTCTTTACGTGATGAGGTAGCTGCTTTACGTGATGACAAT
Found at i:4564071 original size:21 final size:21
Alignment explanation
Indices: 4564045--4564089 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
4564035 GAAGAAGCCC
4564045 GATCCACCTACC-ATTGTTCAG
1 GATCCACCT-CCTATTGTTCAG
4564066 GATCCACCTCCTATTGTTCAG
1 GATCCACCTCCTATTGTTCAG
4564087 GAT
1 GAT
4564090 TCATCTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (21 bp):
GATCCACCTCCTATTGTTCAG
Found at i:4564122 original size:21 final size:21
Alignment explanation
Indices: 4564098--4564148 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4564088 ATTCATCTGT
*
4564098 CATCATTCAAGAGGCTCATCC
1 CATCATTCAAGAGGCCCATCC
*
4564119 CATCATTCAAGAGGCCCCTCC
1 CATCATTCAAGAGGCCCATCC
4564140 CATCATTCA
1 CATCATTCA
4564149 GGATCCAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (21 bp):
CATCATTCAAGAGGCCCATCC
Found at i:4564160 original size:21 final size:21
Alignment explanation
Indices: 4564136--4564176 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4564126 CAAGAGGCCC
*
4564136 CTCCCATCATTCAGGATCCAG
1 CTCCCAACATTCAGGATCCAG
*
4564157 CTCCCAACGTTCAGGATCCA
1 CTCCCAACATTCAGGATCCA
4564177 CATGGCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (21 bp):
CTCCCAACATTCAGGATCCAG
Found at i:4565655 original size:20 final size:20
Alignment explanation
Indices: 4565630--4565676 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
4565620 GCACTATGTT
4565630 GAAGGCAATAAAGACCTGTC
1 GAAGGCAATAAAGACCTGTC
*
4565650 GAAGGCAATAAAGACCTGTT
1 GAAGGCAATAAAGACCTGTC
4565670 GAAGGCA
1 GAAGGCA
4565677 CACTACCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (20 bp):
GAAGGCAATAAAGACCTGTC
Found at i:4565808 original size:54 final size:54
Alignment explanation
Indices: 4565750--4565855 Score: 122
Period size: 54 Copynumber: 2.0 Consensus size: 54
4565740 TGCAAATTTT
* * * ** *
4565750 ATTTTCGCGCTGTGAATTCGGTTTTCGTGTTGCGAATTTGACTATCAAGTTACG
1 ATTTTCGAGCTGCGAATTCGATTTTCGCATTGCGAATTTGAATATCAAGTTACG
* ** *
4565804 ATTTTCGAGTTGCGAATTTTATTTTCGCATTGCGAATTTGAATATCGAGTTA
1 ATTTTCGAGCTGCGAATTCGATTTTCGCATTGCGAATTTGAATATCAAGTTA
4565856 TGAATTTGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (54 bp):
ATTTTCGAGCTGCGAATTCGATTTTCGCATTGCGAATTTGAATATCAAGTTACG
Found at i:4565829 original size:20 final size:20
Alignment explanation
Indices: 4565804--4565842 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4565794 TCAAGTTACG
4565804 ATTTTCG-AGTTGCGAATTTT
1 ATTTTCGCA-TTGCGAATTTT
4565824 ATTTTCGCATTGCGAATTT
1 ATTTTCGCATTGCGAATTT
4565843 GAATATCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (20 bp):
ATTTTCGCATTGCGAATTTT
Found at i:4567420 original size:19 final size:19
Alignment explanation
Indices: 4567366--4567420 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
4567356 AACCAATAAT
4567366 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
4567385 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
4567404 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
4567421 GAAGATCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:4567584 original size:22 final size:21
Alignment explanation
Indices: 4567505--4567631 Score: 78
Period size: 22 Copynumber: 5.7 Consensus size: 21
4567495 CAAAGAAACT
*
4567505 AAAA-ATATA-ATGAAAATAA
1 AAAATATATATATAAAAATAA
*
4567524 ATAAATAGTATAAATAAAATAATAA
1 A-AAATA-TATATAT-AAA-AATAA
4567549 AAAATATATATATAAAAATATA
1 AAAATATATATATAAAAATA-A
* *
4567571 AAAATGTATGTATAATATAATAA
1 AAAATATATATATAA-A-AATAA
* * *
4567594 AATACTAAATAGTAATAATAATAA
1 AA-AATATATA-T-ATAAAAATAA
*
4567618 AAAATAAATATATA
1 AAAATATATATATA
4567632 TATAATATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 8 0.09
22 22 0.26
23 19 0.22
24 22 0.26
25 7 0.08
26 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATATATAAAAATAA
Found at i:4567672 original size:23 final size:21
Alignment explanation
Indices: 4567587--4567680 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 21
4567577 TATGTATAAT
*
4567587 ATAATAAAATACTAAATAGTAATA
1 ATAATAAAATA-TAAA-AAT-ATA
* *
4567611 ATAATAAAAAATAAATATATA
1 ATAATAAAATATAAAAATATA
*
4567632 TATAATATTAACTA-AAAAATAGTA
1 -ATAATA--AAATATAAAAATA-TA
*
4567656 ATAATAGAAATAT-AAAATAAA
1 ATAATA-AAATATAAAAATATA
4567677 ATAA
1 ATAA
4567681 AGTAAGAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
21 8 0.14
22 17 0.30
23 16 0.29
24 15 0.27
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
ATAATAAAATATAAAAATATA
Found at i:4567676 original size:29 final size:30
Alignment explanation
Indices: 4567633--4567701 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
4567623 AAATATATAT
* *
4567633 ATAATATTAACTAAAAAATAGTAATAATAG
1 ATAATATAAAATAAAAAATAGTAATAATAG
* *
4567663 A-AATATAAAATAAAATAA-AGTAAGAATAT
1 ATAATATAAAATAAAA-AATAGTAATAATAG
4567692 ATATATATAA
1 ATA-ATATAA
4567702 CGTTAGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 22 0.69
30 4 0.12
31 6 0.19
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (30 bp):
ATAATATAAAATAAAAAATAGTAATAATAG
Found at i:4567796 original size:21 final size:21
Alignment explanation
Indices: 4567755--4567803 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
4567745 TAGATAAAAA
* *
4567755 ATAATAATATAATATATATAT
1 ATAATAATAGAAAATATATAT
4567776 ATAATAATAGGAAAATAATATAAT
1 ATAATAATA-GAAAAT-ATAT-AT
4567800 ATAA
1 ATAA
4567804 CGTAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 4 0.17
24 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATAATAGAAAATATATAT
Found at i:4567850 original size:23 final size:25
Alignment explanation
Indices: 4567824--4567879 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
4567814 AATGAAAAAC
4567824 AAATTATAA-TAAATAAATAAATA-
1 AAATTATAATTAAATAAATAAATAT
* *
4567847 AAA-TATAATTAAATATATACATAT
1 AAATTATAATTAAATAAATAAATAT
*
4567871 AAATAATAA
1 AAATTATAA
4567880 GGGTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 15 0.56
24 3 0.11
25 4 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATTATAATTAAATAAATAAATAT
Found at i:4568364 original size:37 final size:37
Alignment explanation
Indices: 4568271--4568372 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
4568261 ATGCTTGTGG
* * ** * *
4568271 ATCCTATCTTTAGGAGTTTAAATAATAGTACAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
* *
4568308 ATCATATTTTTAGGAGTTTGAATCCTAGAAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
4568345 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
4568373 TAGGATGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
Found at i:4569256 original size:106 final size:106
Alignment explanation
Indices: 4569125--4570397 Score: 1975
Period size: 106 Copynumber: 12.0 Consensus size: 106
4569115 GCATTGTTCC
* * * * *
4569125 GAGTCCAATATCATCCG-TCGTGAAGTTGAAATTGGCTCTGGAATAGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
4569189 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTG-TTTGGTCTC
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT-GTCTG
* * * * *
4569231 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4569296 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4569337 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTCTGAAATTAGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4569402 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4569443 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
4569508 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4569549 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
4569614 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4569655 GAGTTCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4569720 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4569761 GAGTCCAATATTCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
4569826 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4569867 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4569932 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTAGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4569973 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4570038 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4570079 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4570144 CCAACGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4570185 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTG--T-TTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4570247 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4570288 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTTACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
4570353 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4570394 GAGT
1 GAGT
4570398 GACACGATAT
Statistics
Matches: 1083, Mismatches: 77, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
103 97 0.09
104 1 0.00
105 1 0.00
106 980 0.90
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4570937 original size:18 final size:18
Alignment explanation
Indices: 4570911--4570946 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4570901 GTTGAATCCC
*
4570911 CAAATAATGCCCCAATAT
1 CAAAAAATGCCCCAATAT
4570929 CAAAAAATGCCCCAATAT
1 CAAAAAATGCCCCAATAT
4570947 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (18 bp):
CAAAAAATGCCCCAATAT
Found at i:4571025 original size:12 final size:12
Alignment explanation
Indices: 4571008--4571032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4570998 GCATTTATTC
4571008 TGAAAAAATGTT
1 TGAAAAAATGTT
4571020 TGAAAAAATGTT
1 TGAAAAAATGTT
4571032 T
1 T
4571033 TTCTTTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TGAAAAAATGTT
Found at i:4571330 original size:22 final size:22
Alignment explanation
Indices: 4571300--4571355 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
4571290 TTGTGTTTAG
* *
4571300 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGACGC
*
4571322 TTAAAGGTTTGACATTTGACGC
1 TCAAAGGTTTGACATTTGACGC
4571344 TCAAAGGTTTGA
1 TCAAAGGTTTGA
4571356 TGGGGTAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGACGC
Found at i:4571957 original size:16 final size:15
Alignment explanation
Indices: 4571933--4571980 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
4571923 TTGATTTTTG
*
4571933 TTCTTTTTTTTTGTT
1 TTCTTCTTTTTTGTT
4571948 TTCTTCTTTTTTGCTT
1 TTCTTCTTTTTTG-TT
4571964 ATT-TTCTTTTTTGTT
1 -TTCTTCTTTTTTGTT
4571979 TT
1 TT
4571981 TGCGCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 12 0.40
17 2 0.07
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.81
Consensus pattern (15 bp):
TTCTTCTTTTTTGTT
Found at i:4571968 original size:19 final size:18
Alignment explanation
Indices: 4571928--4571975 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4571918 TCTTTTTGAT
* * *
4571928 TTTTGTTCTTTTTTTTTG
1 TTTTCTTCTTTTTTCTTA
4571946 TTTTCTTCTTTTTTGCTTA
1 TTTTCTTCTTTTTT-CTTA
4571965 TTTTCTT-TTTT
1 TTTTCTTCTTTT
4571976 GTTTTTGCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTCTTCTTTTTTCTTA
Found at i:4576415 original size:20 final size:19
Alignment explanation
Indices: 4576365--4576420 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
4576355 AACCAATAAT
4576365 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
4576384 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
4576404 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
4576421 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:4576554 original size:22 final size:22
Alignment explanation
Indices: 4576520--4576600 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
4576510 AAATATAATG
4576520 AAAATAA-ATAAATAGTATAAAT
1 AAAATAATA-AAATAGTATAAAT
4576542 AAAATAATAAAATA-TATATATAT
1 AAAATAATAAAATAGTATA-A-AT
**
4576565 AAAA-ATATAAAA-ATGTATGTAT
1 AAAATA-ATAAAATA-GTATAAAT
*
4576587 AATATAATAAAATA
1 AAAATAATAAAATA
4576601 CTAAATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 4 0.08
22 26 0.54
23 15 0.31
24 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATAATAAAATAGTATAAAT
Found at i:4576577 original size:24 final size:24
Alignment explanation
Indices: 4576542--4576634 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 24
4576532 TAGTATAAAT
4576542 AAAATAATAAAATATATATATATA
1 AAAATAATAAAATATATATATATA
* *
4576566 AAAAT-ATAAAA-ATGTATGTAT-
1 AAAATAATAAAATATATATATATA
* *
4576587 AATATAATAAAATACTAAATAGTAATA
1 AAAATAATAAAATA-TATATA-T-ATA
*
4576614 ATAATAAT-AAATATATATATA
1 AAAATAATAAAATATATATATA
4576635 ATATTAACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
21 4 0.07
22 14 0.26
23 8 0.15
24 9 0.17
25 6 0.11
26 7 0.13
27 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAATAATAAAATATATATATATA
Found at i:4576636 original size:21 final size:20
Alignment explanation
Indices: 4576507--4576706 Score: 64
Period size: 18 Copynumber: 10.6 Consensus size: 20
4576497 GCAAAGAAAC
*
4576507 TAAAAATATAATGAA-AATAAA
1 TAAATATATAAT-AATAAT-AA
4576528 TAAATAGTATAAATAA-AATAA
1 TAAATA-TAT-AATAATAATAA
4576549 TAAA-ATAT-AT-ATATATAA
1 TAAATATATAATAATA-ATAA
*
4576567 -AAATATA-AA-AAT-GT-A
1 TAAATATATAATAATAATAA
** *
4576582 TGTATAATATAATAA-AATAC
1 TAAAT-ATATAATAATAATAA
*
4576602 TAAATA-GTAATAATAATAA
1 TAAATATATAATAATAATAA
*
4576621 TAAATATATATATAATATTAA
1 TAAATATATA-ATAATAATAA
* *
4576642 CTAAA-A-A-AATAGTAATCA
1 -TAAATATATAATAATAATAA
4576660 TAGAA-ATATAA-AATAA-AA
1 TA-AATATATAATAATAATAA
*
4576678 TAAA-ATA-AAGTAAGAAT-A
1 TAAATATATAA-TAATAATAA
*
4576696 TATATATATAA
1 TAAATATATAA
4576707 AGTTAGGAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 51
0.66 0.09 0.25
Matches are distributed among these distances:
15 1 0.01
16 6 0.04
17 16 0.12
18 39 0.29
19 26 0.19
20 11 0.08
21 21 0.16
22 12 0.09
23 3 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAATATATAATAATAATAA
Found at i:4576783 original size:11 final size:10
Alignment explanation
Indices: 4576761--4576790 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
4576751 TAGATAAAAA
4576761 ATAATAATAT
1 ATAATAATAT
4576771 ATAATATATAT
1 ATAATA-ATAT
4576782 ATAATAATA
1 ATAATAATA
4576791 GGAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAATAATAT
Found at i:4576853 original size:23 final size:24
Alignment explanation
Indices: 4576819--4576883 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
4576809 ACGCAAAGAA
4576819 AAATGAAA-AAAATTATAA-TAAAT
1 AAAT-AAATAAAATTATAATTAAAT
4576842 AAATAAATAAAA-TATAATTAAAT
1 AAATAAATAAAATTATAATTAAAT
* * *
4576865 ATATACATATAAATAATAA
1 AAATAAATA-AAATTATAA
4576884 GGGTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 8 0.23
23 20 0.57
24 3 0.09
25 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATTATAATTAAAT
Found at i:4576858 original size:19 final size:18
Alignment explanation
Indices: 4576836--4576880 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4576826 AAAAATTATA
4576836 ATAAATAAATAAATAAAAT
1 ATAAATAAATAAAT-AAAT
* * *
4576855 ATAATTAAATATATACAT
1 ATAAATAAATAAATAAAT
4576873 ATAAATAA
1 ATAAATAA
4576881 TAAGGGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:4577369 original size:37 final size:37
Alignment explanation
Indices: 4577284--4577379 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
4577274 GGATCATATC
* ** *
4577284 TTTAGGAGTTTAAATAATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
*
4577321 TTTAGGAGTTTGAATCCTAGTAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
4577358 TTTAGGAGTTTGAATCCTAGTA
1 TTTAGGAGTTTGAATCCTAGTA
4577380 GGACGAAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTATT
Found at i:4579110 original size:19 final size:19
Alignment explanation
Indices: 4579086--4579131 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4579076 TTTCTTGGTG
*
4579086 ATGAAATTATGGTGGAACC
1 ATGAAATTATGATGGAACC
*
4579105 ATGAAATTTTGATGGAACC
1 ATGAAATTATGATGGAACC
*
4579124 ATAAAATT
1 ATGAAATT
4579132 TTGAGGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (19 bp):
ATGAAATTATGATGGAACC
Found at i:4579132 original size:19 final size:19
Alignment explanation
Indices: 4579098--4579135 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4579088 GAAATTATGG
*
4579098 TGGAACCATGAAATTTTGA
1 TGGAACCATAAAATTTTGA
4579117 TGGAACCATAAAATTTTGA
1 TGGAACCATAAAATTTTGA
4579136 GGTTGATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (19 bp):
TGGAACCATAAAATTTTGA
Found at i:4580036 original size:21 final size:20
Alignment explanation
Indices: 4579859--4580252 Score: 157
Period size: 20 Copynumber: 19.6 Consensus size: 20
4579849 AAATAAAAGC
4579859 TGTTGCGAAATTA-AAATTCG
1 TGTTGCG-AATTAGAAATTCG
*
4579879 TGTTGCGAATTCGGAAA-TCG
1 TGTTGCGAATT-AGAAATTCG
* ** *
4579899 AGTTGCGTAAACA-AAATTCA
1 TGTTGCG-AATTAGAAATTCG
* * *
4579919 TGTTGCAAATTAGAAAATCT
1 TGTTGCGAATTAGAAATTCG
* *
4579939 TGTTGTGAA-AAGGAAACTT-G
1 TGTTGCGAATTA-GAAA-TTCG
*
4579959 TGTTGCGAA-AAGGAAACTT-G
1 TGTTGCGAATTA-GAAA-TTCG
* *
4579979 TGTTGCGAATTTA-AAAATCA
1 TGTTGCGAA-TTAGAAATTCG
** *
4579999 TGTTGCGAAAAAGAAATTTG
1 TGTTGCGAATTAGAAATTCG
*
4580019 TGTTGCGAATTCAGAAA-TAG
1 TGTTGCGAATT-AGAAATTCG
* *
4580039 AGTTGCGAATTTGAAATTCCG
1 TGTTGCGAATTAGAAATT-CG
*
4580060 TGTTGCGAA-TACCAAATTCG
1 TGTTGCGAATTA-GAAATTCG
* * *
4580080 CGTTGCGAAATT-GGAGTTCG
1 TGTTGCG-AATTAGAAATTCG
* * *
4580100 TATTGCGAATTTGAAAATCG
1 TGTTGCGAATTAGAAATTCG
* *
4580120 CGTTGCGAAATT-GTCAAATCCG
1 TGTTGCG-AATTAG--AAATTCG
* *
4580142 CGTTGCGAATTCATAAA-TCG
1 TGTTGCGAATT-AGAAATTCG
* * **
4580162 AGTTGGGAATTCCAAATTCG
1 TGTTGCGAATTAGAAATTCG
* **
4580182 CGTTGCGAATTCCAAATTCG
1 TGTTGCGAATTAGAAATTCG
* **
4580202 CGTTGCGAATTCCAAATTCG
1 TGTTGCGAATTAGAAATTCG
* **
4580222 CGTTGCGAATTCCAAATTCG
1 TGTTGCGAATTAGAAATTCG
*
4580242 CGTTGCGAATT
1 TGTTGCGAATT
4580253 TGGAAACTAT
Statistics
Matches: 294, Mismatches: 56, Indels: 48
0.74 0.14 0.12
Matches are distributed among these distances:
19 24 0.08
20 218 0.74
21 38 0.13
22 14 0.05
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (20 bp):
TGTTGCGAATTAGAAATTCG
Found at i:4580212 original size:60 final size:60
Alignment explanation
Indices: 4580020--4580252 Score: 238
Period size: 60 Copynumber: 3.8 Consensus size: 60
4580010 AGAAATTTGT
* ** * *
4580020 GTTGCGAATTCAGAAATAGAGTTGCGAATTTGAAATTCCGTGTTGCGAATACCAAATTCGC
1 GTTGCGAATTCAGAAATCGAGTTGCGAATTCCAAATT-CGCGTTGCGAATTCCAAATTCGC
* ** ** * * *
4580081 GTTGCGAAATT-GGAGTTCGTA-TTGCGAATTTGAAAATCGCGTTGCGAAATTGTCAAATCCGC
1 GTTGCG-AATTCAGAAATCG-AGTTGCGAATTCCAAATTCGCGTTGCG-AATT-CCAAATTCGC
* *
4580143 GTTGCGAATTCATAAATCGAGTTGGGAATTCCAAATTCGCGTTGCGAATTCCAAATTCGC
1 GTTGCGAATTCAGAAATCGAGTTGCGAATTCCAAATTCGCGTTGCGAATTCCAAATTCGC
* *
4580203 GTTGCGAATTCCA-AATTCGCGTTGCGAATTCCAAATTCGCGTTGCGAATT
1 GTTGCGAATT-CAGAAATCGAGTTGCGAATTCCAAATTCGCGTTGCGAATT
4580253 TGGAAACTAT
Statistics
Matches: 143, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
60 60 0.42
61 39 0.27
62 44 0.31
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (60 bp):
GTTGCGAATTCAGAAATCGAGTTGCGAATTCCAAATTCGCGTTGCGAATTCCAAATTCGC
Found at i:4580251 original size:20 final size:20
Alignment explanation
Indices: 4580040--4580252 Score: 214
Period size: 20 Copynumber: 10.5 Consensus size: 20
4580030 CAGAAATAGA
** *
4580040 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTCCAAATT-CGC
*
4580061 GTTGCGAATACCAAATTCGC
1 GTTGCGAATTCCAAATTCGC
** * *
4580081 GTTGCGAAATT-GGAGTTCGT
1 GTTGCG-AATTCCAAATTCGC
* ** *
4580101 ATTGCGAATTTGAAAATCGC
1 GTTGCGAATTCCAAATTCGC
* *
4580121 GTTGCGAAATTGTCAAATCCGC
1 GTTGCG-AATT-CCAAATTCGC
* *
4580143 GTTGCGAATT-CATAAATCGA
1 GTTGCGAATTCCA-AATTCGC
*
4580163 GTTGGGAATTCCAAATTCGC
1 GTTGCGAATTCCAAATTCGC
4580183 GTTGCGAATTCCAAATTCGC
1 GTTGCGAATTCCAAATTCGC
4580203 GTTGCGAATTCCAAATTCGC
1 GTTGCGAATTCCAAATTCGC
4580223 GTTGCGAATTCCAAATTCGC
1 GTTGCGAATTCCAAATTCGC
4580243 GTTGCGAATT
1 GTTGCGAATT
4580253 TGGAAACTAT
Statistics
Matches: 161, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
19 6 0.04
20 115 0.71
21 27 0.17
22 13 0.08
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTCCAAATTCGC
Found at i:4580995 original size:180 final size:182
Alignment explanation
Indices: 4580769--4581215 Score: 585
Period size: 180 Copynumber: 2.4 Consensus size: 182
4580759 TTATGACAAG
* * * * ** *
4580769 AAAAAATTGTCACAACAAATAATGAGATTCAATTTTTTTCTGACAAATTTTGTTTGTAGTTATAT
1 AAAAAATTATCACAACAAATATTGAGATTAAAATTTTTAGTGACAAATTATGTTTGTAGTTATAT
* * * * * * *
4580834 ATTTTAATTATGGTGACAAAATGTATTGTCACAAATCTTTTCTTCCAGTTTTTAGAGCAAAACCA
66 ATTTTAATTATAGTGACAAAATGTATAGTCACAAATCTTTACCTCCAATTTTTAGAACAAAAACA
*
4580899 AAAGTTATAGAGTGACA-GAATTTGTAACTATAACTTATAATTATTGTTAT-T
131 AAAGTTATAGAATGACATG-ATTTGTAACTATAACTTATAATTATTGTTATAT
*
4580950 GAAAAA-TATCACAACAAATATTGAGATTAAAATTTTTAGTGACAAATTATGTTTGTAGTTATAT
1 AAAAAATTATCACAACAAATATTGAGATTAAAATTTTTAGTGACAAATTATGTTTGTAGTTATAT
** * * * *
4581014 ATTTTAATTGCAATGACAAAATGTATAGTCACAAATGTTTACCTCTAATTTTTGGAACAAAAACA
66 ATTTTAATTATAGTGACAAAATGTATAGTCACAAATCTTTACCTCCAATTTTTAGAACAAAAACA
* *
4581079 AAAGTTATTGAATGACATGTTTTGTAACTATAACTTATAATTATTGTTATAGAT
131 AAAGTTATAGAATGACATGATTTGTAACTATAACTTATAATTATTGTTAT--AT
* * *
4581133 AAAAAATTATCACAACAAATATTGAGATTTAAATTTTTGGTGAAAAATTATGTTTGTAGTTATAT
1 AAAAAATTATCACAACAAATATTGAGATTAAAATTTTTAGTGACAAATTATGTTTGTAG-T-TAT
4581198 ATATTTTAATTATAGTGA
64 ATATTTTAATTATAGTGA
4581216 GAAATATATC
Statistics
Matches: 228, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
180 148 0.65
181 6 0.03
183 6 0.03
184 49 0.21
185 1 0.00
186 18 0.08
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (182 bp):
AAAAAATTATCACAACAAATATTGAGATTAAAATTTTTAGTGACAAATTATGTTTGTAGTTATAT
ATTTTAATTATAGTGACAAAATGTATAGTCACAAATCTTTACCTCCAATTTTTAGAACAAAAACA
AAAGTTATAGAATGACATGATTTGTAACTATAACTTATAATTATTGTTATAT
Found at i:4582303 original size:118 final size:110
Alignment explanation
Indices: 4582162--4582384 Score: 329
Period size: 110 Copynumber: 2.0 Consensus size: 110
4582152 TACTCCATCT
4582162 TTTTCTTTCTTCTTCAACATGAAGGGAAAAAACAGTAAGTTATTCTTTTATTATTATTATTTTTT
1 TTTTCTTTCTTCTTCAACATGAAGGGAAAAAACAGTAAG---TTC--TT-TTATT-TT-TTTTTT
* *
4582227 TATATTTGATCTATAATCTAATATGATATATAATTTATGGTTTATATTAATCC
58 GATATTTGATCTATAATCTAATATGATATATAATTTATAGTTTATATTAATCC
* *
4582280 TTTTCTTTCTTCTTCAACGTGAAGGGAAAAAACAGTAAGTTCTTTTCTTTTTTTTTTGATATTTG
1 TTTTCTTTCTTCTTCAACATGAAGGGAAAAAACAGTAAGTTCTTTTATTTTTTTTTTGATATTTG
*
4582345 ATCTATAATCTAATATGATCTATAATTTATAGTTTATATT
66 ATCTATAATCTAATATGATATATAATTTATAGTTTATATT
4582385 TGTTTTCTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
110 51 0.51
111 2 0.02
112 4 0.04
113 2 0.02
115 3 0.03
118 38 0.38
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.50
Consensus pattern (110 bp):
TTTTCTTTCTTCTTCAACATGAAGGGAAAAAACAGTAAGTTCTTTTATTTTTTTTTTGATATTTG
ATCTATAATCTAATATGATATATAATTTATAGTTTATATTAATCC
Found at i:4585499 original size:44 final size:44
Alignment explanation
Indices: 4585438--4585878 Score: 679
Period size: 44 Copynumber: 10.0 Consensus size: 44
4585428 TCATTTAATC
* * *
4585438 CATAAGCTCGTAAGCTTATTTTATCAATATACTTA-TCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACT-ATAATTT
* * * *
4585482 CATAAGCTCGTGAGCTTATTTTACCAATATACTTACCATTAAATC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTA-TAATTT
* * * * * *
4585527 CCTAAGCTGGTAATCTTATTTTACCCATATACTTA-TCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACT-ATAATTT
4585571 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
4585615 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
4585659 CATAAGCTCGTAAGCTTATTTTACCAAGATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* *
4585703 CATAAGCTCGTAAGCTTATTTTACCAATATATTTAATATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
4585747 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
4585791 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
4585835 CATAAGCTCGTAAACTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
4585879 GCATTATTAA
Statistics
Matches: 366, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
44 330 0.90
45 36 0.10
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
Found at i:4586074 original size:59 final size:59
Alignment explanation
Indices: 4586011--4586205 Score: 186
Period size: 60 Copynumber: 3.3 Consensus size: 59
4586001 TATCATATAC
4586011 TTAATATGATTTCCTGCTT-A-TTTTAGCACACT-AAGTGCCCTATTCGAGAATCCATACCA
1 TTAATATGATTTCCT--TTCATTTTTAGCAC-CTGAAGTGCCCTATTCGAGAATCCATACCA
*
4586070 TTAATATGA-TTCCTTTACCATTTTTAGCACCTGAAGTGCTCTATTCGAGAATCCATACCA
1 TTAATATGATTTCCTTT--CATTTTTAGCACCTGAAGTGCCCTATTCGAGAATCCATACCA
* * * * * ***
4586130 TTAGTATGA-TCCCTTTACCATTTTTAGCACATGAAGTTCCCTATAT-GAAAATCCATATTG
1 TTAATATGATTTCCTTT--CATTTTTAGCACCTGAAGTGCCCTAT-TCGAGAATCCATACCA
*
4586190 TTAGTATGATTTCCTT
1 TTAATATGATTTCCTT
4586206 ATCCTTGTAG
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
56 2 0.02
58 5 0.04
59 12 0.10
60 93 0.79
61 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (59 bp):
TTAATATGATTTCCTTTCATTTTTAGCACCTGAAGTGCCCTATTCGAGAATCCATACCA
Found at i:4586199 original size:60 final size:60
Alignment explanation
Indices: 4586031--4586186 Score: 226
Period size: 60 Copynumber: 2.6 Consensus size: 60
4586021 TTCCTGCTTA
* *
4586031 TTTTAGCACACT-AAGTGCCCTATTCGAGAATCCATACCATTAATATGATTCCTTTACCAT
1 TTTTAGCACA-TGAAGTGCCCTATTCGAGAATCCATACCATTAGTATGATCCCTTTACCAT
* *
4586091 TTTTAGCACCTGAAGTGCTCTATTCGAGAATCCATACCATTAGTATGATCCCTTTACCAT
1 TTTTAGCACATGAAGTGCCCTATTCGAGAATCCATACCATTAGTATGATCCCTTTACCAT
* *
4586151 TTTTAGCACATGAAGTTCCCTATAT-GAAAATCCATA
1 TTTTAGCACATGAAGTGCCCTAT-TCGAGAATCCATA
4586187 TTGTTAGTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
59 1 0.01
60 84 0.98
61 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (60 bp):
TTTTAGCACATGAAGTGCCCTATTCGAGAATCCATACCATTAGTATGATCCCTTTACCAT
Found at i:4586255 original size:59 final size:59
Alignment explanation
Indices: 4586192--4586522 Score: 452
Period size: 59 Copynumber: 5.6 Consensus size: 59
4586182 CCATATTGTT
* * * * ** *
4586192 AGTATGATTTCCTTATCCTTGTAGAACCCT-TAGTGCTTTTTTTGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCA-CATATAGTGCTTCATATGGAAATCCATACACTC
* * * * * *
4586251 AGTATGATTCCCTTACCATTTTAGCACATATAATGCCTT-ATCTGGAAATCCATATATTC
1 AGTATGATTTCCTTATCATTTTAGCACATATAGTG-CTTCATATGGAAATCCATACACTC
* * *
4586310 AATATGATTTCCTTATCATTTTAGCACACT-CAGTGCTCCATATGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACA-TATAGTGCTTCATATGGAAATCCATACACTC
*
4586369 AGTATGATTTCCTTATCATTTTAGCACATATAGTACTTCATATGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACATATAGTGCTTCATATGGAAATCCATACACTC
*
4586428 AGTATGATTTCCTTATCATTTTAGCACATATAGTGCTCCATATGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACATATAGTGCTTCATATGGAAATCCATACACTC
4586487 AGTATGATTTCCTTATCATTTTAGCACATATAGTGC
1 AGTATGATTTCCTTATCATTTTAGCACATATAGTGC
4586523 CATTTGATAA
Statistics
Matches: 241, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
58 5 0.02
59 232 0.96
60 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
AGTATGATTTCCTTATCATTTTAGCACATATAGTGCTTCATATGGAAATCCATACACTC
Found at i:4586323 original size:118 final size:118
Alignment explanation
Indices: 4586030--4586523 Score: 481
Period size: 118 Copynumber: 4.2 Consensus size: 118
4586020 TTTCCTGCTT
* * * * *
4586030 ATTTTAGCACACTA-AGTGCCCTAT-TCGAGAATCCATACCATT-AATATGA-TTCCTTTACCAT
1 ATTTTAGCACA-TATAGTGCCTTATATGGA-AATCCATA-TATTCAGTATGATTTCC-TTATCA-
* * * *
4586091 TTTTAGCA-CCTGAAGTGCTCTAT-TCGAGAATCCATAC-CATTAGTATGA-TCCCTTTACC
61 TTTTAGCACCCT-TAGTGCTCCATATGGA-AATCCATACAC-TCAGTATGATTCCC-TTACC
* * * * *
4586149 ATTTTTAGCACATGA-AGTTCCCTATATGAAAATCCATAT-TGTTAGTATGATTTCCTTATCCTT
1 A-TTTTAGCACAT-ATAGTGCCTTATATGGAAATCCATATAT-TCAGTATGATTTCCTTATCATT
* * *** *
4586212 GTAGAACCCTTAGTGCTTTTTTTGGAAATCCATACACTCAGTATGATTCCCTTACC
63 TTAGCACCCTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCTTACC
* * *
4586268 ATTTTAGCACATATAATGCCTTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTA
1 ATTTTAGCACATATAGTGCCTTATATGGAAATCCATATATTCAGTATGATTTCCTTATCATTTTA
* * * *
4586333 GCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATC
66 GCACCCTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCTTACC
* * *
4586386 ATTTTAGCACATATAGT-ACTTCATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTT
1 ATTTTAGCACATATAGTGCCTT-ATATGGAAATCCATATATTCAGTATGATTTCCTTATCATTTT
* * *
4586450 AGCA-CATATAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATC
65 AGCACCCT-TAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCTTACC
4586504 ATTTTAGCACATATAGTGCC
1 ATTTTAGCACATATAGTGCC
4586524 ATTTGATAAT
Statistics
Matches: 318, Mismatches: 42, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
117 5 0.02
118 216 0.68
119 42 0.13
120 49 0.15
121 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (118 bp):
ATTTTAGCACATATAGTGCCTTATATGGAAATCCATATATTCAGTATGATTTCCTTATCATTTTA
GCACCCTTAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCCTTACC
Found at i:4589980 original size:12 final size:11
Alignment explanation
Indices: 4589959--4590022 Score: 56
Period size: 12 Copynumber: 5.4 Consensus size: 11
4589949 ACTAATCTAA
4589959 TATTATTTATT
1 TATTATTTATT
4589970 TATTAATTTATT
1 TATT-ATTTATT
*
4589982 AGTATTATTCATAT
1 --TATTATTTAT-T
*
4589996 TATTATTGATT
1 TATTATTTATT
*
4590007 TATTAATTAATT
1 TATT-ATTTATT
4590019 TATT
1 TATT
4590023 TTCTTTTCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.20
12 26 0.58
13 5 0.11
14 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (11 bp):
TATTATTTATT
Found at i:4591769 original size:21 final size:21
Alignment explanation
Indices: 4591743--4591801 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
4591733 ATTTACCGTG
4591743 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGCGCT
** * *
4591764 ATTGCGATCGTCGTGGACGCT
1 ATTGCGGCCGTCGCGGGCGCT
4591785 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
4591802 TAACTCGGAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.08, C:0.29, G:0.41, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCGCT
Found at i:4596828 original size:31 final size:31
Alignment explanation
Indices: 4596765--4596828 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
4596755 TATAAAAAAT
* * **
4596765 AATTTTACTATAATTTAATTATAGTTTTTTA
1 AATTTTACTAAAATTTAATTATAATTAATTA
4596796 AATTTTAACTAAAATTTAATTA-AATTAATTA
1 AATTTT-ACTAAAATTTAATTATAATTAATTA
4596827 AA
1 AA
4596829 AATATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
AATTTTACTAAAATTTAATTATAATTAATTA
Done.