Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006964.1 Hibiscus syriacus cultivar Beakdansim tig00017924_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: 119029
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:6173 original size:74 final size:75
Alignment explanation
Indices: 6075--6567 Score: 512
Period size: 72 Copynumber: 6.7 Consensus size: 75
6065 TATCATAAAT
** * * * * *
6075 TTTATCTCACTCAATATAGTTTTTCTTAAAACAAACTTTGCCTTGCTTAAGACATTTTTCACTCG
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGACATTTTTCACTCG
6140 AAACAAAAAA
66 AAACAAAAAA
* * * *
6150 ATT-TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGATATTTTTCATTCG
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGACATTTTTCACTCG
*
6214 -AAC--AAAT
66 AAACAAAAAA
* * * *
6221 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAA-TTGTTTCTCGCTTGAGACAGTTTTCACTC
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTT-TGTCTCGCTTGAGACATTTTTCACTC
**
6285 GAAACATAAATT
65 GAAACA-AAAAA
* * * * *
6297 TTTTTCTCACATGAGAATGTTTTTCTTAATAA-AAAC--TGTCTCGCTTGAGACAATTTTCACCC
1 TTTATCTCACTTGAGATTGTTTTTCTTAA-AACAAACTTTGTCTCGCTTGAGACATTTTTCACTC
* *
6359 G-AACCAGAAA
65 GAAACAAAAAA
**
6369 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAC--TGTCTCGCTTGAGACAAATTTCACTCG
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGACATTTTTCACTCG
* *
6432 AAACATAAAT
66 AAACAAAAAA
* * *
6442 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCACTTTAAACAGTTTTT-ACTC
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGACA-TTTTTCACTC
6506 GAAACAAAAAAA
65 GAAAC-AAAAAA
* * *
6518 TTTAT-TTACTCGAGATTG-TTTTCTTAAAACAAA-TTTCATCTCGCTTGAGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTT-GTCTCGCTTGAGA
6568 AAGTTTCTTT
Statistics
Matches: 348, Mismatches: 55, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
71 9 0.03
72 108 0.31
73 53 0.15
74 99 0.28
75 35 0.10
76 42 0.12
77 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (75 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCGCTTGAGACATTTTTCACTCG
AAACAAAAAA
Found at i:6195 original size:36 final size:36
Alignment explanation
Indices: 6153--6489 Score: 166
Period size: 36 Copynumber: 9.2 Consensus size: 36
6143 CAAAAAAATT
6153 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
* ** * *
6189 TCTCACTTGAGA-TATTTTTCATTCGAACAAATTTTA
1 TCTCACTTGAGATTGTTTTTC-TTAAAACAAACTTTG
* * *
6225 TCTCACTCGAGATAGTTTTTCTTAAAACAAA-TTGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTT-TG
* ** * * * * *
6261 TCTCGCTTGAGACAGTTTTCACTCGAAACATAAATTTTTT
1 TCTCACTTGAGATTGTTTT-TCT-TAAA-ACAAA-CTTTG
* *
6301 TCTCACATGAGAATGTTTTTCTTAATAA-AAAC--TG
1 TCTCACTTGAGATTGTTTTTCTTAA-AACAAACTTTG
* *** * *** * * *
6335 TCTCGCTTGAGACAATTTTCACCCGAACCAGAAATTTA
1 TCTCACTTGAGATTGTTTT-TCTTAAAACA-AACTTTG
6373 TCTCACTTGAGATTGTTTTTCTTAAAACAAAC--TG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
* *** ** * * * *
6407 TCTCGCTTGAGACAAATTTCACTCGAAACATAAATTTTA
1 TCTCACTTGAGA-TTGTTTTTCT-TAAA-ACAAACTTTG
6446 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
6482 TCTCACTT
1 TCTCACTT
6490 TAAACAGTTT
Statistics
Matches: 214, Mismatches: 68, Indels: 38
0.67 0.21 0.12
Matches are distributed among these distances:
34 28 0.13
35 17 0.08
36 81 0.38
37 23 0.11
38 27 0.13
39 19 0.09
40 17 0.08
41 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTG
Found at i:6337 original size:146 final size:144
Alignment explanation
Indices: 6075--6573 Score: 542
Period size: 146 Copynumber: 3.4 Consensus size: 144
6065 TATCATAAAT
* * * * * *
6075 TTTATCTCACTCAATATAGTTTTTCTTAAAACAAACTTTGCCTTGCTTAAGACATTTTTCACTCG
1 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAA-TTT-TCTCGCTTGAGACAGTTTTCACTCG
*** *
6140 AAACA-AAAAAATTTCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGATAT
64 AAACATAAATTTTTTCTCACTTGAGATTGTTTTTCTTAAAACAAAC-TTGTCTCACTTGAGACAT
* *
6204 TTTTCATTCGAACAAAT
128 TTTTCACTCGAACAAAA
6221 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGACAGTTTTCACTCG
1 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAA-T-TTTCTCGCTTGAGACAGTTTTCACTCG
* * *
6286 AAACATAAATTTTTTTCTCACATGAGAATGTTTTTCTTAATAA-AAAC-TGTCTCGCTTGAGACA
64 AAACATAAA-TTTTTTCTCACTTGAGATTGTTTTTCTTAA-AACAAACTTGTCTCACTTGAGACA
* *
6349 ATTTTCACCCGAACCAGAAA
127 TTTTTCACTCGAA-CA-AAA
* * * * **
6369 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTCTCGCTTGAGACAAATTTCACTCGAA
1 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAATTTTCTCGCTTGAGACAGTTTTCACTCGAA
* * *
6434 ACATAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTGTCTCACTTTAAACAGTT
66 ACATAAATTTTTTCTCACTTGAGATTGTTTTTCTTAAAACAAAC-TTGTCTCACTTGAGACA-TT
6499 TTT-ACTCGAAACAAAAAAA
129 TTTCACTCG-AAC---AAAA
* * *
6518 TTTAT-TTACTCGAGATTG-TTTTCTTAAAACAAATTTCATCTCGCTTGAGAAAGTTT
1 TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAATTT--TCTCGCTTGAGACAGTTT
6574 CTTTGAAATA
Statistics
Matches: 298, Mismatches: 39, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
144 2 0.01
145 31 0.10
146 117 0.39
147 41 0.14
148 81 0.27
149 25 0.08
150 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (144 bp):
TTTATCTCACTCGAGATAGTTTTTCTTAAAACAAATTTTCTCGCTTGAGACAGTTTTCACTCGAA
ACATAAATTTTTTCTCACTTGAGATTGTTTTTCTTAAAACAAACTTGTCTCACTTGAGACATTTT
TCACTCGAACAAAA
Found at i:7046 original size:93 final size:93
Alignment explanation
Indices: 6876--7047 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
6866 CATTTCTAAT
* * * *
6876 GAAGAAGTTATAATGAAGAACTTGTTCAGCCTTTGCTAGATTAACGACATTTTGAATTAGCGACG
1 GAAGAAGTTATAATGAAGAACTTGTTCAACCTTTGCTAGATTAACGACATTTCGAATCAGCAACG
**
6941 CCTCACTTGAGGGATTAACGCCAATGGA
66 CCTCACAAGAGGGATTAACGCCAATGGA
* * * * * *
6969 GAAGAAGTTCGTAATGAA-AACTTGTTCAACTTTTGCTCGATTCATGGCATTTCGAATCAGCAAC
1 GAAGAAGTT-ATAATGAAGAACTTGTTCAACCTTTGCTAGATTAACGACATTTCGAATCAGCAAC
7033 GCCTCACAAGAGGGA
65 GCCTCACAAGAGGGA
7048 CCAATGTTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
93 59 0.89
94 7 0.11
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (93 bp):
GAAGAAGTTATAATGAAGAACTTGTTCAACCTTTGCTAGATTAACGACATTTCGAATCAGCAACG
CCTCACAAGAGGGATTAACGCCAATGGA
Found at i:7107 original size:95 final size:95
Alignment explanation
Indices: 6987--7179 Score: 246
Period size: 95 Copynumber: 2.0 Consensus size: 95
6977 TCGTAATGAA
* *
6987 AACTTGTTCAACTTTTGCTCGATTCATGGCATTTCGAATCAGCAACGCCTCACAAGAGGGACCAA
1 AACTTATTCAACTTTTGCTCGATTCACGGCATTTCGAATCAGCAACGCCTCACAAGAGGGACCAA
** *
7052 TGTTTCCTGTAGAGAA-TTCATAATGAGAAG
66 CATTTCCTGTAGA-AAGATCATAATGAGAAG
* * * ** *
7082 AACTTATTCAACCTTTT-CTCGATTCACGGCATTTTGAATCAGTAACGTCTCACTCGAGGGACTA
1 AACTTATTCAA-CTTTTGCTCGATTCACGGCATTTCGAATCAGCAACGCCTCACAAGAGGGACCA
*
7146 ACATTTCCTGTAGAAAGATCATGATGAGAAG
65 ACATTTCCTGTAGAAAGATCATAATGAGAAG
7177 AAC
1 AAC
7180 CCGTAACTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 2 0.02
95 77 0.92
96 5 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (95 bp):
AACTTATTCAACTTTTGCTCGATTCACGGCATTTCGAATCAGCAACGCCTCACAAGAGGGACCAA
CATTTCCTGTAGAAAGATCATAATGAGAAG
Found at i:7343 original size:18 final size:18
Alignment explanation
Indices: 7320--7354 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7310 GTCTCATACC
*
7320 TAAAACTCAACCAGAACA
1 TAAAACCCAACCAGAACA
7338 TAAAACCCAACCAGAAC
1 TAAAACCCAACCAGAAC
7355 CCAAAACCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.31, G:0.06, T:0.09
Consensus pattern (18 bp):
TAAAACCCAACCAGAACA
Found at i:7360 original size:18 final size:18
Alignment explanation
Indices: 7321--7363 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7311 TCTCATACCT
* *
7321 AAAACTCAACCAGAACAT
1 AAAACCCAACCAGAACAC
*
7339 AAAACCCAACCAGAACCC
1 AAAACCCAACCAGAACAC
7357 AAAACCC
1 AAAACCC
7364 GACCCAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.37, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAACCCAACCAGAACAC
Found at i:8299 original size:19 final size:19
Alignment explanation
Indices: 8259--8322 Score: 110
Period size: 19 Copynumber: 3.3 Consensus size: 19
8249 GATACAATTG
*
8259 GTATCGATACTAAGAGGGGA
1 GTATCGATACTGAGA-GGGA
8279 GTATCGATACTGAGAGGGA
1 GTATCGATACTGAGAGGGA
8298 GTATCGATACTGAGAGGGA
1 GTATCGATACTGAGAGGGA
8317 GTATCG
1 GTATCG
8323 GTACCACAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.31, C:0.11, G:0.36, T:0.22
Consensus pattern (19 bp):
GTATCGATACTGAGAGGGA
Found at i:8704 original size:19 final size:19
Alignment explanation
Indices: 8674--8737 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
8664 AATGATTTAA
8674 ATTAATATATGTTTTATAGT
1 ATTAA-ATATGTTTTATAGT
*
8694 ATTAAATATG--TTAT--C
1 ATTAAATATGTTTTATAGT
*
8709 ATT--ATATGTTTTAGAGT
1 ATTAAATATGTTTTATAGT
8726 ATTAAATATGTT
1 ATTAAATATGTT
8738 ATTCATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.14
15 6 0.17
17 7 0.20
19 12 0.34
20 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (19 bp):
ATTAAATATGTTTTATAGT
Found at i:8720 original size:32 final size:32
Alignment explanation
Indices: 8679--8739 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
8669 TTTAAATTAA
*
8679 TATATGTTTTATAGTATTAAATATGTTATCAT
1 TATATGTTTTAGAGTATTAAATATGTTATCAT
8711 TATATGTTTTAGAGTATTAAATATGTTAT
1 TATATGTTTTAGAGTATTAAATATGTTAT
8740 TCATAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (32 bp):
TATATGTTTTAGAGTATTAAATATGTTATCAT
Found at i:8792 original size:17 final size:18
Alignment explanation
Indices: 8772--8811 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
8762 AATGCCATAA
8772 ATGAATT-GCATGAAAGG
1 ATGAATTAGCATGAAAGG
8789 ATGAATTAAGGCATGAAAGG
1 ATGAATT-A-GCATGAAAGG
8809 ATG
1 ATG
8812 CCATATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
20 13 0.65
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
ATGAATTAGCATGAAAGG
Found at i:8862 original size:45 final size:44
Alignment explanation
Indices: 8800--8966 Score: 212
Period size: 45 Copynumber: 3.7 Consensus size: 44
8790 TGAATTAAGG
*
8800 CATGAAAGGATGCCATATATGAAATGCATAACTGTGCATTATCGA
1 CATGAAAGGATACCATATATGAAATGCATAAC-GTGCATTATCGA
* *
8845 CATGAGAGGATACCATATATGAAATGCATAACGATGCATTATCGG
1 CATGAAAGGATACCATATATGAAATGCATAACG-TGCATTATCGA
*
8890 CATGAAAGGATGA-CATATATGAAATGTATAACGGTGCATTAAT-GA
1 CATGAAAGGAT-ACCATATATGAAATGCATAAC-GTGCATT-ATCGA
** *
8935 CATGAAAGGATGTCATATATGAAATGTATAAC
1 CATGAAAGGATACCATATATGAAATGCATAAC
8967 AATGCATAAT
Statistics
Matches: 110, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
44 1 0.01
45 105 0.95
46 4 0.04
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (44 bp):
CATGAAAGGATACCATATATGAAATGCATAACGTGCATTATCGA
Found at i:8909 original size:90 final size:90
Alignment explanation
Indices: 8798--9061 Score: 264
Period size: 90 Copynumber: 2.9 Consensus size: 90
8788 GATGAATTAA
* * *
8798 GGCATGAAAGGATGCCATATATGAAATGCATAACTGTGCATT-ATCGACATGAGAGGATACCATA
1 GGCATGAAAGGATGACATATATGAAATGCATAACGGTGCATTAAT-GACATGAAAGGATACCATA
*
8862 TATGAAATGCATAACGATGCATTATC
65 TATGAAATGCATAACAATGCATTATC
* **
8888 GGCATGAAAGGATGACATATATGAAATGTATAACGGTGCATTAATGACATGAAAGGATGTCATAT
1 GGCATGAAAGGATGACATATATGAAATGCATAACGGTGCATTAATGACATGAAAGGATACCATAT
* * *
8953 ATGAAATGTATAACAATGCATAATT
66 ATGAAATGCATAACAATGCATTATC
* * * * * ** * *
8978 GGTATGAAATGAT-ATCATAAATAAAAATGAATAACAATACA-TAATTGATATGAAAGGATACCA
1 GGCATGAAAGGATGA-CATATAT-GAAATGCATAACGGTGCATTAA-TGACATGAAAGGATACCA
* * *
9041 TAAATAAAAATGAATAACAAT
63 TATAT-GAAATGCATAACAAT
9062 ACATAATTGG
Statistics
Matches: 145, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 97 0.67
91 34 0.23
92 13 0.09
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (90 bp):
GGCATGAAAGGATGACATATATGAAATGCATAACGGTGCATTAATGACATGAAAGGATACCATAT
ATGAAATGCATAACAATGCATTATC
Found at i:8973 original size:45 final size:45
Alignment explanation
Indices: 8800--9061 Score: 208
Period size: 45 Copynumber: 5.8 Consensus size: 45
8790 TGAATTAAGG
**
8800 CATGAAAGGATGCCATATATGAAATGCATAACTGTGCATT-ATCGA
1 CATGAAAGGATGCCATATATGAAATGCATAACAATGCATTAAT-GA
* * * *
8845 CATGAGAGGATACCATATATGAAATGCATAACGATGCATT-ATCGG
1 CATGAAAGGATGCCATATATGAAATGCATAACAATGCATTAAT-GA
* * **
8890 CATGAAAGGATGACATATATGAAATGTATAACGGTGCATTAATGA
1 CATGAAAGGATGCCATATATGAAATGCATAACAATGCATTAATGA
* * *
8935 CATGAAAGGATGTCATATATGAAATGTATAACAATGCA-TAATTGG
1 CATGAAAGGATGCCATATATGAAATGCATAACAATGCATTAA-TGA
* * ** * * * *
8980 TATGAAATGATATCATAAATAAAAATGAATAACAATACA-TAATTGA
1 CATGAAAGGATGCCATATAT-GAAATGCATAACAATGCATTAA-TGA
* * * * *
9026 TATGAAAGGATACCATAAATAAAAATGAATAACAAT
1 CATGAAAGGATGCCATATAT-GAAATGCATAACAAT
9062 ACATAATTGG
Statistics
Matches: 189, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
44 3 0.02
45 129 0.68
46 57 0.30
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGAAAGGATGCCATATATGAAATGCATAACAATGCATTAATGA
Found at i:8974 original size:23 final size:23
Alignment explanation
Indices: 8858--8974 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 23
8848 GAGAGGATAC
*
8858 CATATATGAAATGCATAACGATG
1 CATATATGAAATGTATAACGATG
** *
8881 CAT-TATCGGCATG-A-AAGGATG
1 CATATAT-GAAATGTATAACGATG
*
8902 ACATATATGAAATGTATAACGGTG
1 -CATATATGAAATGTATAACGATG
* *
8926 CAT-TAATGACATG-A-AAGGATG
1 CATAT-ATGAAATGTATAACGATG
*
8947 TCATATATGAAATGTATAACAATG
1 -CATATATGAAATGTATAACGATG
8971 CATA
1 CATA
8975 ATTGGTATGA
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
21 11 0.15
22 23 0.32
23 27 0.38
24 10 0.14
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (23 bp):
CATATATGAAATGTATAACGATG
Found at i:9021 original size:46 final size:46
Alignment explanation
Indices: 8956--9219 Score: 314
Period size: 46 Copynumber: 5.8 Consensus size: 46
8946 GTCATATATG
* * *
8956 AAATGTATAACAATGCATAATTGGTATGAAATGATATCATAAATAA
1 AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
* *
9002 AAATGAATAACAATACATAATTGATATGAAAGGATACCATAAATAA
1 AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
* * *
9048 AAATGAATAACAATACATAATTGGTAGGAAATGATACCAAAAATGA
1 AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
* * * ** *
9094 ATATGTATAACAATACATAATTGGTAGGAAATGATGTCATAGATAA
1 AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
** * * *
9140 AAATTCATAACAATGCATAATT-GTATGAAATGATAACATAAATGA
1 AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
* * * *
9185 AAATGCATAGCAATGCATAATTGGCATGAAATGAT
1 AAATGAATAACAATACATAATTGGTATGAAATGAT
9220 GCTACAAATG
Statistics
Matches: 188, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 38 0.20
46 150 0.80
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.27
Consensus pattern (46 bp):
AAATGAATAACAATACATAATTGGTATGAAATGATACCATAAATAA
Found at i:9116 original size:138 final size:136
Alignment explanation
Indices: 8953--9219 Score: 381
Period size: 138 Copynumber: 1.9 Consensus size: 136
8943 GATGTCATAT
* *
8953 ATGAAATGTATAACAATGCATAATTGGTATGAAATGATATCATAAATAAAAATGAATAACAATAC
1 ATGAAATGTATAACAATACATAATTGGTAGGAAATGATATCATAAATAAAAATGAATAACAATAC
* *
9018 ATAATTGATATGAAAGGATACCATAAATAAAAATGAATAACAATACATAATTGGTAGGAAATGAT
66 ATAATTG-TATGAAAGGATAACATAAATAAAAATGAATAACAATACATAATTGGCAGGAAATGAT
9083 ACCAAAA
130 ACCAAAA
* * ** *
9090 ATGAATATGTATAACAATACATAATTGGTAGGAAATGATGTCATAGATAAAAATTCATAACAATG
1 ATGAA-ATGTATAACAATACATAATTGGTAGGAAATGATATCATAAATAAAAATGAATAACAATA
* * * * * *
9155 CATAATTGTATGAAATGATAACATAAATGAAAATGCATAGCAATGCATAATTGGCATGAAATGAT
65 CATAATTGTATGAAAGGATAACATAAATAAAAATGAATAACAATACATAATTGGCAGGAAATGAT
9220 GCTACAAATG
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 54 0.47
138 60 0.53
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (136 bp):
ATGAAATGTATAACAATACATAATTGGTAGGAAATGATATCATAAATAAAAATGAATAACAATAC
ATAATTGTATGAAAGGATAACATAAATAAAAATGAATAACAATACATAATTGGCAGGAAATGATA
CCAAAA
Found at i:13268 original size:12 final size:12
Alignment explanation
Indices: 13238--13280 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
13228 TGTAAATATT
**
13238 TTTTTAATAAAA
1 TTTTTAATTTAA
* *
13250 TTATTAATTTAC
1 TTTTTAATTTAA
13262 TTTTTAATTTAA
1 TTTTTAATTTAA
13274 TTTTTAA
1 TTTTTAA
13281 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:18378 original size:13 final size:13
Alignment explanation
Indices: 18360--18427 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
18350 GTCACAACCC
18360 GACCCGACCCGTT
1 GACCCGACCCGTT
18373 GACCCGACCC---
1 GACCCGACCCGTT
18383 GACCCGTTTACCC---
1 GACCCG---ACCCGTT
18396 GACCCGACCCGTT
1 GACCCGACCCGTT
*
18409 GACTCGACCCGTT
1 GACCCGACCCGTT
18422 GACCCG
1 GACCCG
18428 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:18379 original size:18 final size:18
Alignment explanation
Indices: 18356--18433 Score: 111
Period size: 18 Copynumber: 4.2 Consensus size: 18
18346 ACCGGTCACA
18356 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
18374 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
18392 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
18410 ACTCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
18431 ACC
1 ACC
18434 GTTGATCGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
18 42 0.79
21 11 0.21
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:19768 original size:18 final size:18
Alignment explanation
Indices: 19742--19777 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19732 TCGAAATGAC
*
19742 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
19760 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
19778 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:20728 original size:12 final size:12
Alignment explanation
Indices: 20713--20782 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
20703 GATAAATGAC
20713 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
20725 CTGATTTCTGAT
1 CTGAATTCTGTT
*
20737 CTGGATTCTGTT
1 CTGAATTCTGTT
*
20749 TTG-ATATCTGTT
1 CTGAAT-TCTGTT
20761 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
20773 TTGATTTCTG
1 CTGAATTCTG
20783 ATATCTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.53
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:20744 original size:24 final size:24
Alignment explanation
Indices: 20690--20784 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
20680 ATTTCCAACT
** *
20690 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATATCTGATC
*
20714 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
20738 TGGATTCTGTTTTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* *
20762 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
20785 ATCTTCGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:20745 original size:48 final size:48
Alignment explanation
Indices: 20693--20784 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
20683 TCCAACTTGA
20693 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
* ** ** *
20741 ATTCTGTTTTGATATCTGTTCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGAT
20785 ATCTTCGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.50
Consensus pattern (48 bp):
ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:23341 original size:25 final size:24
Alignment explanation
Indices: 23282--23346 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
23272 TTTTTTAATT
* *
23282 TTTTTGTTTATAATTTTTTTTTGGA
1 TTTTTGTTT-TCATTTTTTTTAGGA
*
23307 -TTTAGTTTTTCATTTTTTTCTAGGA
1 TTTTTG-TTTTCATTTTTTT-TAGGA
23332 TTTTTGTTTTC-TTTT
1 TTTTTGTTTTCATTTT
23347 GATTTTGGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 17 0.52
25 12 0.36
26 4 0.12
ACGTcount: A:0.12, C:0.05, G:0.11, T:0.72
Consensus pattern (24 bp):
TTTTTGTTTTCATTTTTTTTAGGA
Found at i:24110 original size:43 final size:46
Alignment explanation
Indices: 24020--24111 Score: 145
Period size: 43 Copynumber: 2.1 Consensus size: 46
24010 CAAGTTAAAC
24020 AATTATGATGGTATTAATAAAAATAATAATTTAAATTAAATTATAA
1 AATTATGATGGTATTAATAAAAATAATAATTTAAATTAAATTATAA
* *
24066 AATTATGATGGTGTTAAT-AAAA-AAT-ATTTAAATTAAATTCTAA
1 AATTATGATGGTATTAATAAAAATAATAATTTAAATTAAATTATAA
24109 AAT
1 AAT
24112 ATAAGAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 20 0.45
44 3 0.07
45 4 0.09
46 17 0.39
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (46 bp):
AATTATGATGGTATTAATAAAAATAATAATTTAAATTAAATTATAA
Found at i:24699 original size:33 final size:37
Alignment explanation
Indices: 24630--24703 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 37
24620 ACAAATACAC
24630 TCATATACATATATCATCATCTACTTTCTTAGCATTA
1 TCATATACATATATCATCATCTACTTTCTTAGCATTA
* * *
24667 TCATATATAT-TATTATCAT-TA-TTTC-TATCATTA
1 TCATATACATATATCATCATCTACTTTCTTAGCATTA
24700 TCAT
1 TCAT
24704 CAAATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 11 0.32
34 4 0.12
35 2 0.06
36 8 0.24
37 9 0.26
ACGTcount: A:0.32, C:0.18, G:0.01, T:0.49
Consensus pattern (37 bp):
TCATATACATATATCATCATCTACTTTCTTAGCATTA
Found at i:24991 original size:23 final size:23
Alignment explanation
Indices: 24965--25025 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
24955 CTCGTATAAA
* *
24965 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
24988 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
25011 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
25026 TATAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:28051 original size:3 final size:3
Alignment explanation
Indices: 28034--28100 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
28024 CGGGTTTTTT
* ** *
28034 TTA TCA TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
28080 GTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
28101 ATACAAATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:28063 original size:26 final size:26
Alignment explanation
Indices: 28034--28096 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
28024 CGGGTTTTTT
*
28034 TTATCATTATTTTATTATTATTATTA
1 TTATCATTATTTTATTATTAGTATTA
* * *
28060 TTATCGTTATATTATTATTGGTATTA
1 TTATCATTATTTTATTATTAGTATTA
*
28086 TTATTATTATT
1 TTATCATTATT
28097 ATTAATACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (26 bp):
TTATCATTATTTTATTATTAGTATTA
Found at i:29307 original size:19 final size:19
Alignment explanation
Indices: 29261--29307 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
29251 CATTAATTTG
*
29261 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
29281 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
29301 TATATTT
1 TATATTT
29308 AGTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:34928 original size:24 final size:23
Alignment explanation
Indices: 34875--34931 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
34865 TGAAAGGGGT
34875 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTGATTA
* *
34898 AACATTTTTAAAACTCTTTTGA-TA
1 AATATTTTCAAAA-TC-TTTGATTA
*
34922 GATATTTTCA
1 AATATTTTCA
34932 TACTTTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.41
24 11 0.41
25 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTGATTA
Found at i:35830 original size:156 final size:157
Alignment explanation
Indices: 35640--35931 Score: 428
Period size: 156 Copynumber: 1.9 Consensus size: 157
35630 AATTTCTTTC
* * *
35640 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCAC-
* * *
35705 TT-AAACAAAGTTGATCTCA-TTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCGCTTGA
65 TTAAAACAAAATTAATCTCACCTT-AGATCGTTATTTATTTCAAAACAAATTTCGTCTCGCTTGA
35767 GACATTTTTCCACAAATTTTGAGAATTTT
129 GACATTTTTCCACAAATTTTGAGAATTTT
* * *
35796 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACT
* * *
35861 TAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGA
66 TAAAACAAAATTAATCTCACCTTAGATCGTTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGA
*
35926 CCTTTT
131 CATTTT
35932 CCCTTTGAGA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
155 2 0.02
156 78 0.65
157 40 0.33
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (157 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACT
TAAAACAAAATTAATCTCACCTTAGATCGTTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGA
CATTTTTCCACAAATTTTGAGAATTTT
Found at i:35937 original size:105 final size:102
Alignment explanation
Indices: 35796--36034 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
35786 TGAGAATTTT
* * *
35796 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
35860 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
35901 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
35966 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
36003 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
36035 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:36025 original size:36 final size:34
Alignment explanation
Indices: 35980--36098 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
35970 ACAAAGTTGA
*
35980 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
36016 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
36052 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
36086 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
36099 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:36086 original size:34 final size:36
Alignment explanation
Indices: 35998--36099 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
35988 GAGATCGTTT
* *
35998 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
36033 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
36069 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
36100 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:36437 original size:30 final size:28
Alignment explanation
Indices: 36358--36452 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 28
36348 CTCTTGAGAT
*
36358 AAATCTTTGAGTATGTTCCTTTTGAATA-A
1 AAATCTTTGAGT-TGTTTCTTTTGAA-ACA
36387 AAATCTTTGAGTTGTTTCTTTTGAAACA
1 AAATCTTTGAGTTGTTTCTTTTGAAACA
*
36415 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGT-TGTTTCTTTTGAAACA
36445 AAAT-TTTG
1 AAATCTTTG
36453 TCTCTCTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 24 0.39
30 17 0.28
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (28 bp):
AAATCTTTGAGTTGTTTCTTTTGAAACA
Found at i:36477 original size:67 final size:68
Alignment explanation
Indices: 36401--36569 Score: 261
Period size: 67 Copynumber: 2.5 Consensus size: 68
36391 CTTTGAGTTG
* *
36401 TTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTTTTG-AAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTTGAAAACAAAATTTTGTCTCTCTTAAGA
36465 TAA
66 TAA
*
36468 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTC-TTTGAAAACAAAATTTTTTCTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTTGAAAACAAAATTTTGTCTCTCTTAAGA
*
36532 TAT
66 TAA
* * *
36535 TTTCTTTTAAAAAAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
36570 CTTAAAATGA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
66 4 0.04
67 89 0.96
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (68 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTTGAAAACAAAATTTTGTCTCTCTTAAGA
TAA
Found at i:36764 original size:256 final size:252
Alignment explanation
Indices: 36295--36768 Score: 604
Period size: 256 Copynumber: 1.9 Consensus size: 252
36285 CAAAATCGAC
* *
36295 AATCTTTGAATCTTTTTCTCTTAAAATGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAGATAA
1 AATCTTTGAATCTGTTTCTCTTAAAATGAATTTTATCTCTCTTGAGACAGTTTCTCTTGAGATAA
* * *
36360 ATCTTTGAGTATGTTCCTTTTGAATAAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTG
66 ATCTTTGAATATGTTCATTTTG---AAAAATCTTTGAGTTGTTTCTCTTGAAACAAATATCTTTG
** * * * **
36425 AGTCTATTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACAAAAATCTT
128 AGTCTATTTCTTTAAAAACAAAATGTTATCTCTCTTAAGACAATTTCTAATGAAACAAAAATCTT
36490 TGAGTCTGTTTCTTTGAAAACAAAATTTTTTCTCTCTTAAGATATTTTCTTTTAAAAAAAA
193 TGAGTCTGTTTCTTTG-AAACAAAATTTTTTCTCTCTTAAGATATTTTCTTTTAAAAAAAA
36551 AATCTTTGAATCTGTTTCTCTTAAAATGAATTATGTTATCTCTCTTGAGACAGTTTCTCTTGA-A
1 AATCTTTGAATCTGTTTCTCTTAAAATGAA-T-T-TTATCTCTCTTGAGACAGTTTCTCTTGAGA
*
36615 GTAAATCTTTGAATATGTTCATTTTG-AAAATCTTTGAATTTGTTTCTCTT--AACAAAATCATC
63 -TAAATCTTTGAATATGTTCATTTTGAAAAATCTTTG-AGTTGTTTCTCTTGAAAC-AAAT-ATC
* * * *
36677 TTTGAGTCTATTTCTTTAAAAAC-ATATGTTATCTCTCTTGAGACAGTTTCTAATGAAA-AACTA
124 TTTGAGTCTATTTCTTTAAAAACAAAATGTTATCTCTCTTAAGACAATTTCTAATGAAACAA-AA
36740 A-CTTTTGAGAT-TGTTTCATTTGAAACAAA
188 ATC-TTTGAG-TCTGTTTC-TTTGAAACAAA
36769 TTTGGTCTTA
Statistics
Matches: 190, Mismatches: 17, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
254 6 0.03
255 62 0.33
256 69 0.36
257 1 0.01
258 2 0.01
259 50 0.26
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (252 bp):
AATCTTTGAATCTGTTTCTCTTAAAATGAATTTTATCTCTCTTGAGACAGTTTCTCTTGAGATAA
ATCTTTGAATATGTTCATTTTGAAAAATCTTTGAGTTGTTTCTCTTGAAACAAATATCTTTGAGT
CTATTTCTTTAAAAACAAAATGTTATCTCTCTTAAGACAATTTCTAATGAAACAAAAATCTTTGA
GTCTGTTTCTTTGAAACAAAATTTTTTCTCTCTTAAGATATTTTCTTTTAAAAAAAA
Found at i:37585 original size:28 final size:28
Alignment explanation
Indices: 37539--37634 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 28
37529 GAGACAGTTG
37539 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
37570 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
37598 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
37626 CTCTTGAAA
1 CTTTTGAAA
37635 TCATAACTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
28 45 0.76
29 3 0.05
30 3 0.05
31 8 0.14
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:37716 original size:40 final size:41
Alignment explanation
Indices: 37661--37857 Score: 123
Period size: 40 Copynumber: 4.6 Consensus size: 41
37651 TGGCCAGCCG
* * *
37661 TCCTCGTCACATAGGAACCGTGTCATTCCT-CAACCAGACC
1 TCCTCATCACGTAGGAACCGTGTCATCCCTACAACCAGACC
* * * * * *
37701 TCCTCATCACGTAGGAGCCGGGTCA-CCCTTAGATAATCAGTCG
1 TCCTCATCACGTAGGAACCGTGTCATCCC-T--ACAACCAGACC
* * *
37744 TCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGATGGCCAG-CC
1 TCCTCATCACGTAGGAACC--G-TGTCA--TC-CCTACA-A---CCAGACC
*
37794 GTCCTCATCACGTAGGAACCGTGTCATCCCT-CGACCAGACC
1 -TCCTCATCACGTAGGAACCGTGTCATCCCTACAACCAGACC
37835 TCCTCATCACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAACCGTGT
37858 TATCACCTTG
Statistics
Matches: 121, Mismatches: 19, Indels: 34
0.70 0.11 0.20
Matches are distributed among these distances:
39 2 0.02
40 49 0.40
41 2 0.02
43 25 0.21
45 4 0.03
46 4 0.03
47 2 0.02
48 5 0.04
49 3 0.02
50 3 0.02
51 22 0.18
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (41 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCTACAACCAGACC
Found at i:37929 original size:87 final size:83
Alignment explanation
Indices: 37798--37987 Score: 227
Period size: 87 Copynumber: 2.2 Consensus size: 83
37788 CCAGCCGTCC
* * * *
37798 TCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCTCATCACGTAGGAACCGTGTTATCA
1 TCATCACGTATGAGCAGTGTCATCCCTCGACCAGACCTCCTCATCACGTAGGAACCGTGTCA-C-
* *
37863 CCTTGAGATGGCCAAGAACTCT
64 CCTT-AGACGACC-AGAACTCT
* * ** * *
37885 TCATCATGTATGAGTAGTGTCATCCCTCGACCAGATTTCTTCATCACGTAGGAATCGTGTCACCC
1 TCATCACGTATGAGCAGTGTCATCCCTCGACCAGACCTCCTCATCACGTAGGAACCGTGTCACCC
*
37950 TTAGACGACCCGAACTCT
66 TTAGACGACCAGAACTCT
37968 TCATCACGTATGAGCAGTGT
1 TCATCACGTATGAGCAGTGT
37988 TCGCCCCCAC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
83 25 0.28
84 6 0.07
85 4 0.05
86 1 0.01
87 52 0.59
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (83 bp):
TCATCACGTATGAGCAGTGTCATCCCTCGACCAGACCTCCTCATCACGTAGGAACCGTGTCACCC
TTAGACGACCAGAACTCT
Found at i:38160 original size:3 final size:3
Alignment explanation
Indices: 38143--38206 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
38133 CGGGTTTTTT
* ** *
38143 TTA TCA TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
38189 GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
38207 ATACAAATAC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:38172 original size:26 final size:26
Alignment explanation
Indices: 38143--38205 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
38133 CGGGTTTTTT
*
38143 TTATCATTATTTTATTATTATTATTA
1 TTATCATTATTTTATTATTAGTATTA
* * *
38169 TTATCGTTATATTATTATTGGTATTA
1 TTATCATTATTTTATTATTAGTATTA
*
38195 TTATTATTATT
1 TTATCATTATT
38206 AATACAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (26 bp):
TTATCATTATTTTATTATTAGTATTA
Found at i:39413 original size:19 final size:19
Alignment explanation
Indices: 39367--39413 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
39357 CATTAATTTG
*
39367 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
39387 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
39407 TATATTT
1 TATATTT
39414 AGTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:48461 original size:67 final size:67
Alignment explanation
Indices: 48387--48535 Score: 280
Period size: 67 Copynumber: 2.2 Consensus size: 67
48377 AACAAAAAAG
48387 GAGAAAAGGGAAATTGACCAAAATTAGCAAAATTAACACTTCTATGCTTTAGCTGACCAAGTGCA
1 GAGAAAAGGGAAATTGACCAAAATTAGCAAAATTAACACTTCTATGCTTTAGCTGACCAAGTGCA
48452 AT
66 AT
* *
48454 GAGAAAAGGGAAATTGACCAAAATTTGCAAAATTAACACTTTTATGCTTTAGCTGACCAAGTGCA
1 GAGAAAAGGGAAATTGACCAAAATTAGCAAAATTAACACTTCTATGCTTTAGCTGACCAAGTGCA
48519 AT
66 AT
48521 GAGAAAAGGGAAATT
1 GAGAAAAGGGAAATT
48536 AACCTTCTCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (67 bp):
GAGAAAAGGGAAATTGACCAAAATTAGCAAAATTAACACTTCTATGCTTTAGCTGACCAAGTGCA
AT
Found at i:66443 original size:28 final size:28
Alignment explanation
Indices: 66388--66443 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
66378 ACTATTATTG
* * *
66388 CTTTTAAGCACTGGCTTAATGGTATAAT
1 CTTTAAAGCACTGGATTAATAGTATAAT
* *
66416 CTTTAAAGCACTGGATTGATAGTGTAAT
1 CTTTAAAGCACTGGATTAATAGTATAAT
66444 ATAAATGAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (28 bp):
CTTTAAAGCACTGGATTAATAGTATAAT
Found at i:68331 original size:9 final size:9
Alignment explanation
Indices: 68317--68342 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68307 GATGGCTGAA
68317 CAAGTTGAT
1 CAAGTTGAT
68326 CAAGTTGAT
1 CAAGTTGAT
68335 CAAGTTGA
1 CAAGTTGA
68343 CAGCCCGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (9 bp):
CAAGTTGAT
Found at i:71143 original size:13 final size:13
Alignment explanation
Indices: 71140--71215 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 13
71130 CCGTTGACCC
*
71140 GACCCGACCCATT
1 GACCCGACCCGTT
*
71153 TACCCGACCCGTT
1 GACCCGACCCGTT
*
71166 TACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
71183 GACTCGACCCGTT
1 GACCCGACCCGTT
71196 GACCCGTTGACCCGTT
1 GACCC---GACCCGTT
71212 GACC
1 GACC
71216 GTTGACCGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
13 26 0.51
15 2 0.04
16 12 0.24
17 11 0.22
ACGTcount: A:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:71162 original size:18 final size:18
Alignment explanation
Indices: 71117--71163 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
71107 GACCGGTCAC
* *
71117 GACCCGACCAGACCCGTT
1 GACCCGACCCGACCCATT
71135 GACCCGACCCGACCCATT
1 GACCCGACCCGACCCATT
*
71153 TACCCGACCCG
1 GACCCGACCCG
71164 TTTACCCGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.49, G:0.19, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGACCCATT
Found at i:71179 original size:30 final size:31
Alignment explanation
Indices: 71122--71201 Score: 108
Period size: 30 Copynumber: 2.6 Consensus size: 31
71112 GTCACGACCC
*
71122 GACCAGACCCGTTGACCCGACCCGACCCATT
1 GACCCGACCCGTTGACCCGACCCGACCCATT
* * *
71153 TACCCGACCCGTTTACCCGA-CCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCATT
*
71183 GACTCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
71202 TTGACCCGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.19, C:0.45, G:0.20, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCATT
Found at i:71190 original size:17 final size:17
Alignment explanation
Indices: 71117--71191 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
71107 GACCGGTCAC
71117 GACCCGACCAGACCCGTT
1 GACCCGACC-GACCCGTT
*
71135 GACCCGACCCGACCCATT
1 GACCCGA-CCGACCCGTT
*
71153 TA--C--CCGACCCGTT
1 GACCCGACCGACCCGTT
*
71166 TACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
*
71183 GACTCGACC
1 GACCCGACC
71192 CGTTGACCCG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 11 0.23
15 1 0.02
16 1 0.02
17 17 0.36
18 15 0.32
19 2 0.04
ACGTcount: A:0.20, C:0.47, G:0.19, T:0.15
Consensus pattern (17 bp):
GACCCGACCGACCCGTT
Found at i:71209 original size:16 final size:15
Alignment explanation
Indices: 71175--71222 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 15
71165 TTACCCGACC
*
71175 GACCCGTTGA-C-TC
1 GACCCGTTGACCGTT
71188 GACCCGTTGACCCGTT
1 GACCCGTTGA-CCGTT
71204 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
71219 GACC
1 GACC
71223 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.32
15 10 0.32
16 11 0.35
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:71223 original size:7 final size:8
Alignment explanation
Indices: 71188--71222 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
71178 CCGTTGACTC
71188 GACCCGTT
1 GACCCGTT
71196 GACCCGTT
1 GACCCGTT
71204 GACCCGTT
1 GACCCGTT
71212 GA-CCGTT
1 GACCCGTT
71219 GACC
1 GACC
71223 GGAGTTGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.14, C:0.37, G:0.26, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:72548 original size:18 final size:18
Alignment explanation
Indices: 72522--72557 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72512 TCGAAAGGAC
*
72522 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
72540 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
72558 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:73789 original size:24 final size:24
Alignment explanation
Indices: 73700--73789 Score: 112
Period size: 23 Copynumber: 3.8 Consensus size: 24
73690 TCCGACTTGA
* *
73700 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
73723 ATTCTGATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
73746 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
73770 ATTCTGATATGAAACTTGAC
1 ATTCTGATATGATACTTGAC
73790 TTGAATTATG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
23 32 0.57
24 24 0.43
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:75946 original size:13 final size:13
Alignment explanation
Indices: 75946--76007 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
75936 CCGTTGACCC
75946 GACCCGACCCGTT
1 GACCCGACCCGTT
*
75959 TACCCGACCCGTT
1 GACCCGACCCGTT
*
75972 TACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
75989 GACTCGACCCGTT
1 GACCCGACCCGTT
76002 GACCCG
1 GACCCG
76008 TTGACCGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 28 0.68
15 2 0.05
17 11 0.27
ACGTcount: A:0.16, C:0.45, G:0.21, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:75946 original size:18 final size:18
Alignment explanation
Indices: 75923--76013 Score: 86
Period size: 18 Copynumber: 5.2 Consensus size: 18
75913 AACCGGTCAC
75923 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
75941 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
75959 -----TACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
75972 TACCCGA-CCGACCCGTT
1 GACCCGACCCGACCCGTT
*
75989 GACTCGACCCGTTGACCCGTT
1 GACCCGACCC---GACCCGTT
76010 GACC
1 GACC
76014 GTTGACCACT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
13 12 0.20
17 15 0.25
18 21 0.36
21 11 0.19
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:75985 original size:30 final size:31
Alignment explanation
Indices: 75928--76007 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
75918 GTCACGACCC
75928 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
75959 TACCCGACCCGTTTACCCGA-CCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
75989 GACTCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
76008 TTGACCGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 26 0.59
31 18 0.41
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:76017 original size:15 final size:17
Alignment explanation
Indices: 75997--76030 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
75987 TTGACTCGAC
75997 CCGTTGACC-C-GTTGA
1 CCGTTGACCACTGTTGA
76012 CCGTTGACCACTGTTGA
1 CCGTTGACCACTGTTGA
76029 CC
1 CC
76031 AAAACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (17 bp):
CCGTTGACCACTGTTGA
Found at i:77331 original size:18 final size:18
Alignment explanation
Indices: 77305--77340 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77295 TCGAAAGGAC
*
77305 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
77323 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
77341 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:78539 original size:24 final size:23
Alignment explanation
Indices: 78470--78550 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 23
78460 TCCGACTTGA
* **
78470 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATAATGACCTGG
* *
78493 ATTC-GATATGATATTGACATGG
1 ATTCTGATATGATAATGACCTGG
*
78515 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATA-ATGACCTGG
78539 ATTCTGATATGA
1 ATTCTGATATGA
78551 AACTTGACTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 18 0.38
23 12 0.25
24 18 0.38
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (23 bp):
ATTCTGATATGATAATGACCTGG
Found at i:78558 original size:24 final size:24
Alignment explanation
Indices: 78470--78558 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
78460 TCCGACTTGA
* *
78470 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
78493 ATTC-GATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
78515 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
78539 ATTCTGATATGAAACTTGAC
1 ATTCTGATATGATACTTGAC
78559 TGAATTATGC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
22 18 0.33
23 12 0.22
24 24 0.44
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:79780 original size:35 final size:34
Alignment explanation
Indices: 79695--79781 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
79685 ATTTGATATT
*
79695 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
79729 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
79767 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
79782 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:79863 original size:46 final size:45
Alignment explanation
Indices: 79807--79894 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
79797 AAGTCCAACA
* * * *
79807 AATTTAACAAAATAAAGTAAGTTTAAATGAGAATAATAAAAATTAC
1 AATTAAACAAAATAAAGTAAATATAAAT-AGAATAAAAAAAATTAC
*
79853 AATTAAACAAAATAAAGTAAATATAAATATAATAAAAAAAAT
1 AATTAAACAAAATAAAGTAAATATAAATAGAATAAAAAAAAT
79895 CTATCGATGC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 12 0.32
46 25 0.68
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (45 bp):
AATTAAACAAAATAAAGTAAATATAAATAGAATAAAAAAAATTAC
Found at i:80388 original size:18 final size:18
Alignment explanation
Indices: 80365--80399 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
80355 GCAATGGCGG
80365 CATCATATATGGCTGCGA
1 CATCATATATGGCTGCGA
*
80383 CATCATTTATGGCTGCG
1 CATCATATATGGCTGCG
80400 GTGGCTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (18 bp):
CATCATATATGGCTGCGA
Found at i:82065 original size:110 final size:110
Alignment explanation
Indices: 81868--82083 Score: 344
Period size: 110 Copynumber: 2.0 Consensus size: 110
81858 TTACAAAAAT
* *
81868 TTCTTAATCTAATAATCATGCATTAATGAATCAACTAATTATTACTAATAATTTAAATTAAATTA
1 TTCTTAATCTAATAATCATGCATTAATAAATCAACTAAATATTACTAATAATTTAAATTAAATTA
* * *
81933 AAACGTTAAAATGTTACCGTATCAGCAAAATGTTGAGATATTTAA
66 AAACATTAAAATGTTACCGTATCAACAAAATGTAGAGATATTTAA
*
81978 TTCTTAATCTAATAATTATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTAAATT
1 TTCTTAATCTAATAATCATGCATT-AATAAATCAACTAAATATTACTAATAATTTAAATTAAATT
* *
82043 AAAA-ATTAAAATGTTACTGTATCAACAAAGTGTAGAGATAT
65 AAAACATTAAAATGTTACCGTATCAACAAAATGTAGAGATAT
82084 ATGATTTCCA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
110 55 0.57
111 42 0.43
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (110 bp):
TTCTTAATCTAATAATCATGCATTAATAAATCAACTAAATATTACTAATAATTTAAATTAAATTA
AAACATTAAAATGTTACCGTATCAACAAAATGTAGAGATATTTAA
Found at i:82067 original size:55 final size:55
Alignment explanation
Indices: 81897--82068 Score: 127
Period size: 55 Copynumber: 3.1 Consensus size: 55
81887 GCATTAATGA
* * *
81897 ATCAACTAATTATTACTAATAATTTAAATTAAATTAAAACGTTAAAATGTTACCGT
1 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAA-ATTAAAATGTTACTGT
* * * * * * * ** * * **
81953 ATCAGCAAAATGTTGA--GAT-ATTTAATTCTTAATCTAATAATTATGCAT-TAAATAA
1 ATCAACTAAATATT-ACTAATAATTTAAAT-TAAAT-TAAAAATTA-AAATGTTACTGT
82008 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAAATTAAAATGTTACTGT
1 ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAAATTAAAATGTTACTGT
82063 ATCAAC
1 ATCAAC
82069 AAAGTGTAGA
Statistics
Matches: 79, Mismatches: 29, Indels: 17
0.63 0.23 0.14
Matches are distributed among these distances:
54 10 0.13
55 39 0.49
56 22 0.28
57 8 0.10
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (55 bp):
ATCAACTAAATATTACTAATAATTTAAATTAAATTAAAAATTAAAATGTTACTGT
Found at i:82190 original size:16 final size:16
Alignment explanation
Indices: 82137--82190 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
82127 CTACAAAAGA
*
82137 ATTATATTAGTAAAAT
1 ATTATAATAGTAAAAT
82153 ATTA-AATAAAGTAAAA-
1 ATTATAAT--AGTAAAAT
*
82169 A-CATAATAGTAAAAT
1 ATTATAATAGTAAAAT
82184 ATTATAA
1 ATTATAA
82191 AATATACCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 12 0.40
17 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTATAATAGTAAAAT
Found at i:82255 original size:145 final size:148
Alignment explanation
Indices: 82098--82391 Score: 567
Period size: 145 Copynumber: 2.0 Consensus size: 148
82088 TTTCCATCCG
82098 AGCGAAGTAGACTGCCTTCCATTATATATCTACAAAAGAATTATATTAGTAAAATATTAAATAAA
1 AGCGAAGTAGACTGCCTTCCATTATATATCTACAAAAGAATTATATTAGTAAAATATTAAATAAA
82163 GTAAAAACATAATAGT-AAAATATTATAAAATATACCTT-AAAAGAGAGTATTTGAGAGAAATTT
66 GTAAAAACATAATAGTAAAAATATTATAAAATATACCTTAAAAAGAGAGTATTTGAGAGAAATTT
82226 AGAGAATTT-GTGTGATA
131 AGAGAATTTGGTGTGATA
82243 AGCGAAGTAGACTGCCTTCCATTATATATCTACAAAAGAATTATATTAGTAAAATATTAAATAAA
1 AGCGAAGTAGACTGCCTTCCATTATATATCTACAAAAGAATTATATTAGTAAAATATTAAATAAA
82308 GTAAAAACATAATAGTAAAAATATTATAAAATATACCTTAAAAAGAGAGTATTTGAGAGAAATTT
66 GTAAAAACATAATAGTAAAAATATTATAAAATATACCTTAAAAAGAGAGTATTTGAGAGAAATTT
82373 AGAGAATTTGGTGTGATA
131 AGAGAATTTGGTGTGATA
82391 A
1 A
82392 AAGTGATTGA
Statistics
Matches: 146, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
145 81 0.55
146 22 0.15
147 34 0.23
148 9 0.06
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (148 bp):
AGCGAAGTAGACTGCCTTCCATTATATATCTACAAAAGAATTATATTAGTAAAATATTAAATAAA
GTAAAAACATAATAGTAAAAATATTATAAAATATACCTTAAAAAGAGAGTATTTGAGAGAAATTT
AGAGAATTTGGTGTGATA
Found at i:82619 original size:50 final size:50
Alignment explanation
Indices: 82504--82620 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
82494 CAGATCCTGG
* * * *
82504 TATAGCGCGAAT-CAGGGGGCGCGCTATACCCACGTGGCGCCAGATCACTG
1 TATAGCGCG-ATGCAGGGGGCACGCTATACCCACGTGACGCCAAATCACTA
* **
82554 TATATCGCGGGGCAGGGGGCACGCTATACCCACGTGACGCCAAATCAGC-A
1 TATAGCGCGATGCAGGGGGCACGCTATACCCACGTGACGCCAAATCA-CTA
82604 TATAGCGCGATGCAGGG
1 TATAGCGCGATGCAGGG
82621 CGCGCGCTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.15
Consensus pattern (50 bp):
TATAGCGCGATGCAGGGGGCACGCTATACCCACGTGACGCCAAATCACTA
Found at i:85844 original size:23 final size:23
Alignment explanation
Indices: 85800--85844 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85790 AAATACAGTA
*
85800 AAAATTTAAACTTTCATTAATAT
1 AAAATTTAAACTTTCATCAATAT
*
85823 AAAATTT-ACCTTTACATCAATA
1 AAAATTTAAACTTT-CATCAATA
85845 CTTTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTAAACTTTCATCAATAT
Found at i:86328 original size:22 final size:22
Alignment explanation
Indices: 86307--86436 Score: 197
Period size: 22 Copynumber: 5.9 Consensus size: 22
86297 ATGTGAAATT
* * * *
86307 TGTCCCGAATGACCTATGAATT
1 TGTCCCGAAGGACCTCTGTATA
* *
86329 TGTCCTGAAAGACCTCTGTATA
1 TGTCCCGAAGGACCTCTGTATA
86351 TGTCCCGAAGGACCTCTGTATA
1 TGTCCCGAAGGACCTCTGTATA
86373 TGTCCCGAAGGACCTCTGTATA
1 TGTCCCGAAGGACCTCTGTATA
86395 TGTCCCGAAGGACCTCTGTATA
1 TGTCCCGAAGGACCTCTGTATA
*
86417 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTCTGTA
86437 ACCCTTGACT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 100 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (22 bp):
TGTCCCGAAGGACCTCTGTATA
Found at i:93163 original size:22 final size:22
Alignment explanation
Indices: 93101--93164 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
93091 CATGTGAAAT
* *
93101 TGTCCCGAATGACCTATGAATT
1 TGTCCCGAATGACCTATGTATA
93123 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAATGACCTATGTATA
*
93145 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAATGACCTATGTA
93165 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
TGTCCCGAATGACCTATGTATA
Found at i:95861 original size:2 final size:2
Alignment explanation
Indices: 95854--95880 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95844 AATTAGATGT
95854 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
95881 TACGAACGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96510 original size:2 final size:2
Alignment explanation
Indices: 96505--96535 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96495 AGAGTTGGAT
96505 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96536 GAAATGGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96878 original size:2 final size:2
Alignment explanation
Indices: 96867--96913 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
96857 TTTTATTACC
96867 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96910 AT AT
1 AT AT
96914 GTAGAGTTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110913 original size:14 final size:14
Alignment explanation
Indices: 110871--110916 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
110861 GTAACAGCTT
110871 AAAAAGAAAAAGAAA
1 AAAAAG-AAAAGAAA
**
110886 AAAAAGAAGTGAAA
1 AAAAAGAAAAGAAA
110900 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
110914 AAA
1 AAA
110917 TGTGTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:113579 original size:89 final size:88
Alignment explanation
Indices: 113453--113686 Score: 351
Period size: 89 Copynumber: 2.6 Consensus size: 88
113443 AAAGAGTCAG
* ** *
113453 CCTAAGGATATTCCTTTGGGCCTATAAGCCTACCCAAGGGTATCCTTATATCCGTAGGGTTACCC
1 CCTAAGGATATACC-TTGGGCCTATGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCC
*
113518 TAAGCACACAGCAAAGGGAACTAA
65 TAAGCACACAGCAAAGGGAACCAA
* * * *
113542 CCTAAGGATATGCCTTGGAGCCTATGGGCCTATCCAAGGGTATCCTCAGATTCGTAGGGTTACCC
1 CCTAAGGATATACCTTGG-GCCTATGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCC
113607 TAAGCACACAGCAAAGGGAACCAA
65 TAAGCACACAGCAAAGGGAACCAA
*
113631 CCTAAGGATATACCTTGGGGCCTATGGGCCTACCCAAGGGTATCCTTAGGTCCGTA
1 CCTAAGGATATACCTT-GGGCCTATGGGCCTACCCAAGGGTATCCTTAGATCCGTA
113687 AGGTCTTACC
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
88 4 0.03
89 124 0.95
90 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (88 bp):
CCTAAGGATATACCTTGGGCCTATGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCCT
AAGCACACAGCAAAGGGAACCAA
Done.