Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001504.1 Hibiscus syriacus cultivar Beakdansim tig00002948_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: 149522
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3641 original size:83 final size:81
Alignment explanation
Indices: 3375--3651 Score: 303
Period size: 84 Copynumber: 3.4 Consensus size: 81
3365 GTTGTGTCGC
** * **
3375 TTGTTGAAAAAACGTTACTATAGATGAACCATATTGTGGCGTTTGTAT-AAA-ACGCTAAAGTAC
1 TTGTTGAAAAAACGCCACTATAGATGAACCCTATTACGGCGTTTGTATAAAACACGCTAAAGTAC
*
3438 TACTCTGTTGCGGCGT
66 TACTCTGTTGCGGCAT
* * * *
3454 TTGTTGAAAAAATGCCATTATAGATG-ACCCT-CTAGCGGCGTTTGTATAAAACGCCGCTAACA-
1 TTGTTGAAAAAACGCCACTATAGATGAACCCTATTA-CGGCGTTTGTATAAAAC-ACGCTAA-AG
*
3516 TACTACTCTGTTGCGACAT
63 TACTACTCTGTTGCGGCAT
* * *
3535 TTGTTGAAAAAACACCAACTATAGATGAACCCTATTACGGTGTTTGTATAAAAACATCACTAAAG
1 TTGTTGAAAAAACGCC-ACTATAGATGAACCCTATTACGGCGTTTGTAT-AAAACA-CGCTAAAG
* *
3600 TACTACTCTTTTACGGCAT
63 TACTACTCTGTTGCGGCAT
* *
3619 TTGTTGAAAAAAGGCCACTATAGATGAAACCTA
1 TTGTTGAAAAAACGCCACTATAGATGAACCCTA
3652 ATGTGATGTT
Statistics
Matches: 163, Mismatches: 24, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
77 1 0.01
78 15 0.09
79 25 0.15
81 37 0.23
82 10 0.06
83 33 0.20
84 42 0.26
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (81 bp):
TTGTTGAAAAAACGCCACTATAGATGAACCCTATTACGGCGTTTGTATAAAACACGCTAAAGTAC
TACTCTGTTGCGGCAT
Found at i:3662 original size:83 final size:80
Alignment explanation
Indices: 3375--3681 Score: 305
Period size: 83 Copynumber: 3.8 Consensus size: 80
3365 GTTGTGTCGC
** *
3375 TTGTTGAAAAAACGTTACTATAGATGAACCATATTGTGGCGTTTGTAT-AAA-ACGCTAAAGTAC
1 TTGTTGAAAAAACGCCACTATAGATGAACC-TATTGCGGCGTTTGTATAAAACACGCTAAAGTAC
*
3438 TACTCTGTTGCGGCGT
65 TACTCTGTTGCGGCAT
* * * * * *
3454 TTGTTGAAAAAATGCCATTATAGATGACCCTCTAGCGGCGTTTGTATAAAACGCCGCTAACA-TA
1 TTGTTGAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTTGTATAAAAC-ACGCTAA-AGTA
*
3518 CTACTCTGTTGCGACAT
64 CTACTCTGTTGCGGCAT
* * * *
3535 TTGTTGAAAAAACACCAACTATAGATGAACCCTATTACGGTGTTTGTATAAAAACATCACTAAAG
1 TTGTTGAAAAAACGCC-ACTATAGATGAA-CCTATTGCGGCGTTTGTAT-AAAACA-CGCTAAAG
* *
3600 TACTACTCTTTTACGGCAT
62 TACTACTCTGTTGCGGCAT
* * * **
3619 TTGTTGAAAAAAGGCCACTATAGATGAAACCTAATGTGATGTTTGTATAAAAACACCGCTAAA
1 TTGTTGAAAAAACGCCACTATAGATG-AACCTATTGCGGCGTTTGTAT-AAAACA-CGCTAAA
3682 ATTACCATTT
Statistics
Matches: 186, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
78 14 0.08
79 28 0.15
81 37 0.20
82 11 0.06
83 54 0.29
84 42 0.23
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (80 bp):
TTGTTGAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTTGTATAAAACACGCTAAAGTACT
ACTCTGTTGCGGCAT
Found at i:6574 original size:33 final size:33
Alignment explanation
Indices: 6537--6602 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
6527 TAATTTTCAT
*
6537 GGAGAATGTAATATTTTTAATTTCAACCTAATA
1 GGAGAACGTAATATTTTTAATTTCAACCTAATA
*
6570 GGAGAACGTAATATTTTTAATTTCAACTTAATA
1 GGAGAACGTAATATTTTTAATTTCAACCTAATA
6603 TATTTTTCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (33 bp):
GGAGAACGTAATATTTTTAATTTCAACCTAATA
Found at i:7735 original size:190 final size:191
Alignment explanation
Indices: 7409--7782 Score: 529
Period size: 190 Copynumber: 2.0 Consensus size: 191
7399 AGCAATATCT
* * **
7409 TTTAATTTGAAATATTCAAAAGATAAAACTCCTTTTACTATTCAAACTTAAATAGTTATTATTTT
1 TTTAATTTGAAATAGTCAAAAGATAAAACTCCTTTTACTATTCAAACTTAAACAAATATTATTTT
*
7474 AATTTGAAATATACAAAAGTATATAATTATCTTTAATATTCAAAGTTAAAAAGATAACAAATACC
66 AATTTGAAATATACAAAAGTATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATACC
** * *
7539 CTTTTTACGTTGACATATTCAAAA-AATAATTATCCTATTAATATTCAAATTAAATAATATA
131 CTTTTTAAATTGACATATT-AAAAGAATAATTATCATACTAATATTCAAATTAAATAATATA
* * * * * *
7600 TTTAATTTGTAATGGTCAAAAGGT-AAACTCTTTTTACTATTTAAACTTAAACAAATGTTATTTT
1 TTTAATTTGAAATAGTCAAAAGATAAAACTCCTTTTACTATTCAAACTTAAACAAATATTATTTT
* *
7664 AATTTGAAATATATAAAAGTATATAATTATCTTTTAATATTCAAAATTGAAAAGATAACAAATA-
66 AATTTGAAATATACAAAAGTATATAATTATC-TTTAATATTCAAAATTAAAAAGATAACAAATAC
* * *
7728 TCTTTTTAAATTGACTTATTAAAAGAGTAATTATCATACTAATATTCAAATTAAA
130 CCTTTTTAAATTGACATATTAAAAGAATAATTATCATACTAATATTCAAATTAAA
7783 AATTATCTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
189 4 0.02
190 107 0.66
191 50 0.31
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (191 bp):
TTTAATTTGAAATAGTCAAAAGATAAAACTCCTTTTACTATTCAAACTTAAACAAATATTATTTT
AATTTGAAATATACAAAAGTATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATACC
CTTTTTAAATTGACATATTAAAAGAATAATTATCATACTAATATTCAAATTAAATAATATA
Found at i:16810 original size:28 final size:28
Alignment explanation
Indices: 16755--16837 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
16745 TTAGCATGTT
*
16755 TAAAAAT-AAAACTTG-AAATAAAG---
1 TAAAAATGAAAACTTGAAAAAAAAGAAA
16778 TAAAAATGAAAACTTGAAAAAAAAGAAA
1 TAAAAATGAAAACTTGAAAAAAAAGAAA
16806 TAAAAATGAAAACTTGAAAAGAAAAGAAA
1 TAAAAATGAAAACTTGAAAA-AAAAGAAA
16835 TAA
1 TAA
16838 CTTTATAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
23 7 0.13
24 8 0.15
25 7 0.13
28 20 0.38
29 11 0.21
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.17
Consensus pattern (28 bp):
TAAAAATGAAAACTTGAAAAAAAAGAAA
Found at i:29673 original size:77 final size:77
Alignment explanation
Indices: 29540--29838 Score: 393
Period size: 77 Copynumber: 3.9 Consensus size: 77
29530 TAAAATGGTG
* * * *
29540 ATGTTGATCCAACTCCTTATGTGATGGAATTGAGCCAAGATTGAACAAATTCTTCTCATTATGAA
1 ATGTTGATCCACCTCCTTCTGTGATGG-A-TGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAA
29605 CTTCTTCATCGAAA
64 CTTCTTCATCGAAA
* * *
29619 ATGTTGATCCACCTCCTTCTGTGACGGATGAGCCAAGGTTGAACAAGTTATTCTCATTACGAACT
1 ATGTTGATCCACCTCCTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACT
29684 TCTTCATCGAAA
66 TCTTCATCGAAA
* * *
29696 ATGTTAATTCACCTCCTCCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAA-T
1 ATGTTGATCCACCTCCTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACT
* * *
29760 TGTTTTATTGAAA
66 T-CTTCATCGAAA
* * * * * *
29773 ATGTTGATCCACCTCATTCTATGTTGAATGAGCCAAGGTTAAACAAGTTCTTCTCATGATGAACT
1 ATGTTGATCCACCTCCTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACT
29838 T
66 T
29839 ATTCTCCCTT
Statistics
Matches: 193, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
76 2 0.01
77 164 0.85
78 3 0.02
79 24 0.12
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (77 bp):
ATGTTGATCCACCTCCTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACT
TCTTCATCGAAA
Found at i:30926 original size:75 final size:75
Alignment explanation
Indices: 30809--30974 Score: 233
Period size: 75 Copynumber: 2.2 Consensus size: 75
30799 TTGCTCAGAT
* * * *
30809 GGTACCGATACCCCCAAGAGGGTACCAATACCCCCATGTAAGATTTGGCTCCGAGAAATAACAGA
1 GGTACAGATACCCCCAAGAGGGTACCAATACCCCCATATAAGATTTGGCTCCGAGAAATAAAAAA
30874 TTGCTCGAAG
66 TTGCTCGAAG
* * * * *
30884 GGTATAGATACCCTCAATAGGGTACCAATACCTCCATATAAGATTTGGCTCTGAGAAATAAAAAA
1 GGTACAGATACCCCCAAGAGGGTACCAATACCCCCATATAAGATTTGGCTCCGAGAAATAAAAAA
*
30949 TTGCTCGGAG
66 TTGCTCGAAG
*
30959 GGTACCGATACCCCCA
1 GGTACAGATACCCCCA
30975 TCTTATAACG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (75 bp):
GGTACAGATACCCCCAAGAGGGTACCAATACCCCCATATAAGATTTGGCTCCGAGAAATAAAAAA
TTGCTCGAAG
Found at i:32136 original size:14 final size:15
Alignment explanation
Indices: 32117--32151 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32107 TCATTCTTCT
*
32117 TTTTTTCA-CTTTTA
1 TTTTTTCATCTTTCA
32131 TTTTTTCATCTTTCA
1 TTTTTTCATCTTTCA
32146 TTTTTT
1 TTTTTT
32152 TTCCTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTCATCTTTCA
Found at i:32136 original size:15 final size:16
Alignment explanation
Indices: 32116--32152 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
32106 ATCATTCTTC
*
32116 TTTTTTTCA-CTTTTA
1 TTTTTTTCATCTTTCA
32131 -TTTTTTCATCTTTCA
1 TTTTTTTCATCTTTCA
32146 TTTTTTT
1 TTTTTTT
32153 TCCTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTCATCTTTCA
Found at i:33490 original size:2 final size:2
Alignment explanation
Indices: 33483--33533 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
33473 CTCGTGCATA
33483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33525 AT AT AT AT A
1 AT AT AT AT A
33534 GGTTAAGCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35948 original size:20 final size:20
Alignment explanation
Indices: 35923--35960 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
35913 TTTTTTTGTC
35923 TTAATTTAATTATTAAAATT
1 TTAATTTAATTATTAAAATT
35943 TTAATTTAATTATTAAAA
1 TTAATTTAATTATTAAAA
35961 ATTTGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTTAATTATTAAAATT
Found at i:36752 original size:16 final size:15
Alignment explanation
Indices: 36733--36777 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
36723 TTTTTATTAT
36733 TTTTGTTTTTACTTTC
1 TTTTGTTTTT-CTTTC
*
36749 TTTTGTTTTTTTTTC
1 TTTTGTTTTTCTTTC
**
36764 TTTTCCTTTTCTTT
1 TTTTGTTTTTCTTT
36778 GTTACATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTTCTTTC
Found at i:36757 original size:15 final size:16
Alignment explanation
Indices: 36733--36767 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36723 TTTTTATTAT
36733 TTTTGTTTTTACTTTC
1 TTTTGTTTTTACTTTC
*
36749 TTTTGTTTTT-TTTTC
1 TTTTGTTTTTACTTTC
36764 TTTT
1 TTTT
36768 CCTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTGTTTTTACTTTC
Found at i:39355 original size:10 final size:10
Alignment explanation
Indices: 39340--39364 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39330 TAAATCAAAG
39340 ATAAAGAAAA
1 ATAAAGAAAA
39350 ATAAAGAAAA
1 ATAAAGAAAA
39360 ATAAA
1 ATAAA
39365 TAAATAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (10 bp):
ATAAAGAAAA
Found at i:40934 original size:20 final size:20
Alignment explanation
Indices: 40911--40952 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
40901 GAATCCTTCG
40911 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
*
40931 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
40951 TC
1 TC
40953 AAAGTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:41290 original size:105 final size:105
Alignment explanation
Indices: 41129--42054 Score: 1676
Period size: 105 Copynumber: 8.8 Consensus size: 105
41119 AAATTGAGAA
** * *** *
41129 GTTGACAGTCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41194 GTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
* *
41234 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATTCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41299 GTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
41339 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41404 GTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
41444 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
41509 GTTGTGAAGTTGAAATTGGCTCTGAAAT-TGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTG-AATCTGAGAAATGTTT
41549 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41614 GTTGTGAAGTTGAAATTGACTCTGAATCTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
41654 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41719 GTTGTGAAGTTGAAATTGACTCTGAATCTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
41759 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
41824 GTTGTGAAGTTGAAATTGACTCTGAATCTGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
*
41864 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
41929 GTTGTGAAGTTGAAATTGGCTCTGAAAT-TGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTG-AATCTGAGAAATGTTT
41969 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
42034 GTTGTGAAGTTGAAATTGGCT
66 GTTGTGAAGTTGAAATTGGCT
42055 ATGGGTAAAA
Statistics
Matches: 800, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
104 3 0.00
105 792 0.99
106 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
GTTGTGAAGTTGAAATTGGCTCTGAATCTGAGAAATGTTT
Found at i:41439 original size:210 final size:210
Alignment explanation
Indices: 41020--42054 Score: 1832
Period size: 210 Copynumber: 5.0 Consensus size: 210
41010 CTGAAATTGG
* * *
41020 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTTTGGAGTCC
1 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
**
41085 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-----GTTGACAGTCAGCGG
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGG
* *** *
41144 TTCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
130 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
41209 TTGGCTCTGAATTTGA
195 TTGGCTCTGAATCTGA
*
41225 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
41290 ATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
41355 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
41420 TGGCTCTGAAACTGA
196 TGGCTCTGAATCTGA
41435 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
41500 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
41565 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
41630 TGACTCTGAATCTGA
196 TGGCTCTGAATCTGA
41645 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
41710 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AATCTGAGAAATGTTTGTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAT-TGAGAAATGTTTGTTGACAACCAGCGG
41774 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
130 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
41839 TTGACTCTGAATCTGA
195 TTGGCTCTGAATCTGA
*
41855 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
41920 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
41985 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
42050 TGGCT
196 TGGCT
42055 ATGGGTAAAA
Statistics
Matches: 798, Mismatches: 24, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
204 96 0.12
205 6 0.01
209 3 0.00
210 690 0.86
211 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (210 bp):
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAATCTGA
Found at i:41597 original size:315 final size:315
Alignment explanation
Indices: 41010--42054 Score: 1818
Period size: 315 Copynumber: 3.3 Consensus size: 315
41000 CGTTGTGAAG
* * *
41010 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
41075 TTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-----GTTGA
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTTGTTGA
** * *** *
41134 CAGTCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
41199 GAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
195 GAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
* *
41264 GTTGAACTTACGTTGTCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCT
260 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
41320 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
41385 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTTGTTGAC
41450 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
41515 AAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
196 AAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
41580 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
261 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
41635 CTG-AATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAAT-TGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
41699 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATCTGAGAAATGTTTGTTGA
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTTGTTGA
41764 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
41829 GAAGTTGAAATTGACTCTG-AATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
195 GAAGTTGAAATTGGCTCTGAAAT-TGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
41893 AGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
259 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
41950 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
42015 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
42055 ATGGGTAAAA
Statistics
Matches: 702, Mismatches: 24, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
309 98 0.14
310 14 0.02
314 5 0.01
315 582 0.83
316 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (315 bp):
CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATGTTTGTTGAC
AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
AAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:42852 original size:14 final size:14
Alignment explanation
Indices: 42833--42881 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
42823 CACCCTAAAC
42833 GTTTTTCTCTTTTT
1 GTTTTTCTCTTTTT
* *
42847 GTTTTTTTGTTTTT
1 GTTTTTCTCTTTTT
*
42861 GTTTTTTTCGTTTTT
1 GTTTTTCTC-TTTTT
42876 -TTTTTC
1 GTTTTTC
42882 AACTTAGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 25 0.83
15 5 0.17
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (14 bp):
GTTTTTCTCTTTTT
Found at i:53500 original size:2 final size:2
Alignment explanation
Indices: 53493--53540 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
53483 ATAATAAATA
53493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53535 AT AT AT
1 AT AT AT
53541 GTAGAATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53630 original size:17 final size:19
Alignment explanation
Indices: 53610--53662 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
53600 TACATATACG
*
53610 TATATAATAATAAAAAATA
1 TATATAATAATAAATAATA
53629 TAATATAATAGCATAAATAA-A
1 T-ATATAATA--ATAAATAATA
*
53650 TAAATAATAATAA
1 TATATAATAATAA
53663 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 2 0.07
22 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATATAATAATAAATAATA
Found at i:53634 original size:20 final size:20
Alignment explanation
Indices: 53611--53664 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
53601 ACATATACGT
53611 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
53631 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
53653 ATAATAATAATA
1 AT-ATAATAATA
53665 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:53791 original size:2 final size:2
Alignment explanation
Indices: 53784--53814 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
53774 GGTAAAATGA
*
53784 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53815 CATACATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55166 original size:15 final size:14
Alignment explanation
Indices: 55132--55170 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
55122 TATAAATGGA
55132 TATATAATAT-AAT
1 TATATAATATAAAT
55145 T-TATAATATAAAT
1 TATATAATATAAAT
55158 CTATATAATATAA
1 -TATATAATATAA
55171 TGAATGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 1 0.04
15 10 0.43
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATAATATAAAT
Found at i:56637 original size:14 final size:14
Alignment explanation
Indices: 56618--56647 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56608 ATCCGGATGC
*
56618 TACTCTGTTTAGAG
1 TACTCTGTGTAGAG
56632 TACTCTGTGTAGAG
1 TACTCTGTGTAGAG
56646 TA
1 TA
56648 AATATTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (14 bp):
TACTCTGTGTAGAG
Found at i:59530 original size:17 final size:18
Alignment explanation
Indices: 59494--59537 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
59484 TAATCTAGAG
59494 TATTTATAAAGTAATATT
1 TATTTATAAAGTAATATT
59512 TATTTA-AAA-TAATTATT
1 TATTTATAAAGTAA-TATT
*
59529 TATTAATAA
1 TATTTATAA
59538 TACATACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATTTATAAAGTAATATT
Found at i:70996 original size:16 final size:16
Alignment explanation
Indices: 70977--71043 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 16
70967 CAATATACGA
70977 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
70993 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
** * **
71009 ATTTAAATGTATAAAT
1 ATAAAAATATATTTAT
* *
71025 AAAAAAATATATTCAT
1 ATAAAAATATATTTAT
71041 ATA
1 ATA
71044 TTAATGTATG
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:71015 original size:18 final size:16
Alignment explanation
Indices: 70984--71021 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
70974 CGAATAAAAA
70984 TATATTTATATAAATG
1 TATATTTATATAAATG
71000 TATATTTATATTTAAATG
1 TATATTTATA--TAAATG
71018 TATA
1 TATA
71022 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
18 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TATATTTATATAAATG
Found at i:71084 original size:16 final size:18
Alignment explanation
Indices: 71052--71085 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
71042 TATTAATGTA
71052 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
71070 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
71086 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:71757 original size:130 final size:130
Alignment explanation
Indices: 71553--71800 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
71543 AATTTTCTTC
* * *
71553 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGTT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
* ** * *
71618 TCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCATATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
71683 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
71748 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
71801 TATATAAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:72247 original size:35 final size:35
Alignment explanation
Indices: 72197--72272 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
72187 AATTGAATTT
* *
72197 AATTGAATTATTTTGGAATTTAGGG-TTTAGAATGA
1 AATTGAATTACTTTGGAAATT-GGGATTTAGAATGA
72232 AATTGAATTACTTTGGAAATTGGGATTTAGAATGA
1 AATTGAATTACTTTGGAAATTGGGATTTAGAATGA
72267 AATTGA
1 AATTGA
72273 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 3 0.08
35 35 0.92
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTGGGATTTAGAATGA
Found at i:79174 original size:194 final size:195
Alignment explanation
Indices: 78842--79233 Score: 745
Period size: 194 Copynumber: 2.0 Consensus size: 195
78832 TTTTGTTTTA
78842 AAAAAATTATTTATGTTTTGTCTATTATACAATACAAGTATAGGGGCATAAAATTGTTATCTCGC
1 AAAAAATTATTTATGTTTTGTCTATTATACAATACAAGTATAGGGGCATAAAATTGTTATCTCGC
78907 CCAGGACATTAAAACTCATTGGACTGGCCCTGCAGACTTGTTAGTCATAATATGTTCTTAACGTT
66 CCAGGACATTAAAACTCATTGGACTGGCCCTGCAGACTTGTTAGTCATAATATGTTCTTAACGTT
78972 CTTAATATGGTTGCATAATAATACTTGTTCTTATATTAGTTCTAAACATGTAACAAATAAGATTA
131 CTTAATATGGTTGCATAATAATACTTGTTCTTATA-TAG-TCTAAACATGTAACAAATAAGATTA
79037 TT
194 TT
79039 AAAAAATTATTTATGTTTTGTCTATTATACAATAC-AGTATAGGGGCATAAAATTG-TATCTCGC
1 AAAAAATTATTTATGTTTTGTCTATTATACAATACAAGTATAGGGGCATAAAATTGTTATCTCGC
79102 CCAGGACATTAAAA-TCATTGGACTGGCCCTGCAGACTTGTTAGTCATAATATGTTCTTAACGTT
66 CCAGGACATTAAAACTCATTGGACTGGCCCTGCAGACTTGTTAGTCATAATATGTTCTTAACGTT
79166 CTTAATATGGTTGCATAATAATACTTGTTCTTATATAGTCTAAACATGTAACAAATAAGATTATT
131 CTTAATATGGTTGCATAATAATACTTGTTCTTATATAGTCTAAACATGTAACAAATAAGATTATT
79231 AAA
1 AAA
79234 TTTGGTTCAT
Statistics
Matches: 195, Mismatches: 0, Indels: 5
0.98 0.00 0.03
Matches are distributed among these distances:
192 30 0.15
193 3 0.02
194 85 0.44
195 22 0.11
196 20 0.10
197 35 0.18
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (195 bp):
AAAAAATTATTTATGTTTTGTCTATTATACAATACAAGTATAGGGGCATAAAATTGTTATCTCGC
CCAGGACATTAAAACTCATTGGACTGGCCCTGCAGACTTGTTAGTCATAATATGTTCTTAACGTT
CTTAATATGGTTGCATAATAATACTTGTTCTTATATAGTCTAAACATGTAACAAATAAGATTATT
Found at i:79535 original size:147 final size:150
Alignment explanation
Indices: 79337--79636 Score: 538
Period size: 148 Copynumber: 2.0 Consensus size: 150
79327 AGAGGCTAAA
79337 TGAACTTGAAAATTTGATATATAATATACTAAATAAAAATTGAAGAATTAATTAAAACTCAAT-A
1 TGAACTTGAAAATTTGATATATAATATACTAAATAAAAATTGAAGAATTAATTAAAACTCAATAA
79401 ACTCTCATAATAGATCACATGGCCGTGGCACCAACCGATACAACGGACATAA-TCGTAATTATCT
66 ACTCTCATAATAGATCACATGGCCGTGGCACCAACCGATACAACGGACATAACTCGTAATTATCT
79465 CCAACTTAAAAGGCCAATTC
131 CCAACTTAAAAGGCCAATTC
79485 TGAACTTG-AAATTTGA-ATATAATATATACTAAA-AAAAATTGAAGAATTAATTAAAACTCAAT
1 TGAACTTGAAAATTTGATATAT-A-ATATACTAAATAAAAATTGAAGAATTAATTAAAACTCAAT
79547 AAACTCTCATAATAGATCACATGGCCGTGGCACCAACCGATACAACGGACATAATCTCGTAATTA
64 AAACTCTCATAATAGATCACATGGCCGTGGCACCAACCGATACAACGGACATAA-CTCGTAATTA
79612 TCTCCAACTTAAAAGGCCAATTC
128 TCTCCAACTTAAAAGGCCAATTC
79635 TG
1 TG
79637 TCAATCCACG
Statistics
Matches: 147, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
146 4 0.03
147 38 0.26
148 71 0.48
150 34 0.23
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (150 bp):
TGAACTTGAAAATTTGATATATAATATACTAAATAAAAATTGAAGAATTAATTAAAACTCAATAA
ACTCTCATAATAGATCACATGGCCGTGGCACCAACCGATACAACGGACATAACTCGTAATTATCT
CCAACTTAAAAGGCCAATTC
Found at i:81032 original size:3 final size:3
Alignment explanation
Indices: 81026--81054 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
81016 ATATTTTGTA
81026 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
81055 CTTGTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:88769 original size:175 final size:175
Alignment explanation
Indices: 88465--88815 Score: 535
Period size: 175 Copynumber: 2.0 Consensus size: 175
88455 TTGTTGGAGC
* *
88465 ATTCTGGAAATTTAAAAGAATGGTAGAAAATCAAAGTGGCAATCACATTATAATAGTAAGGTCTG
1 ATTCTGAAAATTCAAAAGAATGGTAGAAAATCAAAGTGGCAATCACATTATAATAGTAAGGTCTG
* *
88530 ATAATGGAAATGAGTATACGTAAAATAATTTCAATGCATTTTATGAAGAAGCTGACATTGAGCAT
66 ACAATGGAAAAGAGTATACGTAAAATAATTTCAATGCATTTTATGAAGAAGCTGACATTGAGCAT
** * **
88595 CAGTTGACATTTCGTTATTTGCTGTAGCAAAATGGAGTTAGTGAA
131 CAGTTGACAACTCCTTATTCACTGTAGCAAAATGGAGTTAGTGAA
* * *
88640 ATTCTGAAAATTCAAAAGAATGGTGGAAAATCAAAGTGGCAATCACATTCA-AATATTGAGGTCT
1 ATTCTGAAAATTCAAAAGAATGGTAGAAAATCAAAGTGGCAATCACATT-ATAATAGTAAGGTCT
*
88704 GACAATGGAAAAGAGTATACGTCAGAA-AATTTCAATGCATTTTATGAAGAAGCTGACATTGAGC
65 GACAATGGAAAAGAGTATACGT-AAAATAATTTCAATGCATTTTATGAAGAAGCTGACATTGAGC
* *
88768 ATTAGTTGACAACTCCTTATTCACTGTAGTAAAATGGAGTTAGTGAA
129 ATCAGTTGACAACTCCTTATTCACTGTAGCAAAATGGAGTTAGTGAA
88815 A
1 A
88816 GGAAAAATAA
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
175 155 0.97
176 4 0.03
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (175 bp):
ATTCTGAAAATTCAAAAGAATGGTAGAAAATCAAAGTGGCAATCACATTATAATAGTAAGGTCTG
ACAATGGAAAAGAGTATACGTAAAATAATTTCAATGCATTTTATGAAGAAGCTGACATTGAGCAT
CAGTTGACAACTCCTTATTCACTGTAGCAAAATGGAGTTAGTGAA
Found at i:92714 original size:16 final size:16
Alignment explanation
Indices: 92693--92723 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92683 GCAGCAGAAG
92693 ATTTGTTTGTAGATGC
1 ATTTGTTTGTAGATGC
*
92709 ATTTGTTTTTAGATG
1 ATTTGTTTGTAGATG
92724 TATGTCAGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.23, T:0.55
Consensus pattern (16 bp):
ATTTGTTTGTAGATGC
Found at i:101434 original size:181 final size:183
Alignment explanation
Indices: 101110--101474 Score: 675
Period size: 181 Copynumber: 2.0 Consensus size: 183
101100 CCCCAAAATC
101110 ACAATTTGGTTTGAGACCCCTAACCAAAACCCGATGCGTACATTTGGGCTCTTGCTTTTTATCAA
1 ACAATTTGGTTTGAGACCCCTAACCAAAACCCGATGCGTACATTTGGGCTCTTGCTTTTTATCAA
*
101175 ACAATAATAGTAAATGATAAAATATATTATATAACCAGTAAATATTAAATTAATTTTAATAAATC
66 ACAATAATAGTAAATGATAAAATATATTATATAACAAGTAAATATTAAATTAATTTTAATAAATC
101240 TGCATTCTGAATTAACCATCTAATTGAATTGGAATAGATTGGTCATGAATTAG
131 TGCATTCTGAATTAACCATCTAATTGAATTGGAATAGATTGGTCATGAATTAG
101293 ACAATTTGGTTTGAGACCCACTAACCAAAACCCGATGCGTACATTTGGGCTCTTGC-TTTTATCA
1 ACAATTTGGTTTGAGACCC-CTAACCAAAACCCGATGCGTACATTTGGGCTCTTGCTTTTTATCA
101357 AACAATAATAGTAAATGAT-AAA-ATATTATATAACAAGTAAATATTAAATT-ATATTTAATAAA
65 AACAATAATAGTAAATGATAAAATATATTATATAACAAGTAAATATTAAATTAAT-TTTAATAAA
101419 TCTGCATTCTGAATTAACCATCTAATTGAATTGGAATAGATTGGTCATGAATTAG
129 TCTGCATTCTGAATTAACCATCTAATTGAATTGGAATAGATTGGTCATGAATTAG
101474 A
1 A
101475 TCAAATTGAT
Statistics
Matches: 179, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
180 2 0.01
181 92 0.51
182 3 0.02
183 46 0.26
184 36 0.20
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (183 bp):
ACAATTTGGTTTGAGACCCCTAACCAAAACCCGATGCGTACATTTGGGCTCTTGCTTTTTATCAA
ACAATAATAGTAAATGATAAAATATATTATATAACAAGTAAATATTAAATTAATTTTAATAAATC
TGCATTCTGAATTAACCATCTAATTGAATTGGAATAGATTGGTCATGAATTAG
Found at i:101800 original size:23 final size:23
Alignment explanation
Indices: 101770--101813 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
101760 ATTGGTAGAA
101770 CACAAGGTTCTTAACCTTGAGAG
1 CACAAGGTTCTTAACCTTGAGAG
101793 CACAAGGTTCTTAACCTTGAG
1 CACAAGGTTCTTAACCTTGAG
101814 GTCGTGGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
CACAAGGTTCTTAACCTTGAGAG
Found at i:106843 original size:15 final size:15
Alignment explanation
Indices: 106823--106860 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
106813 GAAATGGATT
106823 AATTTAA-ATTATTCA
1 AATTTAATATT-TTCA
106838 AATTTAATATTTTCA
1 AATTTAATATTTTCA
*
106853 AATATAAT
1 AATTTAAT
106861 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAATATTTTCA
Found at i:107126 original size:19 final size:19
Alignment explanation
Indices: 107098--107139 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
107088 CACCTTATTT
107098 GAGC-AATTAATCTTGGGA
1 GAGCAAATTAATCTTGGGA
107116 GAGCAAATTAATCTTGGGA
1 GAGCAAATTAATCTTGGGA
107135 GAGCA
1 GAGCA
107140 TTATCTCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCAAATTAATCTTGGGA
Found at i:107819 original size:2 final size:2
Alignment explanation
Indices: 107812--107843 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
107802 TTCGTTCGTA
107812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107844 TGTCAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110349 original size:27 final size:28
Alignment explanation
Indices: 110265--110365 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 28
110255 AATTCTACAG
* *
110265 TGGCATCCGGGCGAGCTTGGAGGTCGCCA
1 TGGCATCCGAGCGACCTTGGAGGTC-CCA
*
110294 TTGTCAT-CGAGCGA-CTTGGAGGTCGCCA
1 -TGGCATCCGAGCGACCTTGGAGGTC-CCA
110322 TGGCATCCG-GACGACCTTGGAGGT-CCA
1 TGGCATCCGAG-CGACCTTGGAGGTCCCA
110349 TGGCATCCGAGCGACCT
1 TGGCATCCGAGCGACCT
110366 GTGGTGTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
27 24 0.38
28 20 0.31
29 15 0.23
30 5 0.08
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.20
Consensus pattern (28 bp):
TGGCATCCGAGCGACCTTGGAGGTCCCA
Found at i:110471 original size:20 final size:20
Alignment explanation
Indices: 110446--110483 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
110436 GTGGATGCAT
*
110446 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
110466 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
110484 CCATGCACGT
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:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:110622 original size:21 final size:21
Alignment explanation
Indices: 110596--110667 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
110586 GGGAGATTCC
110596 TGCATCCGTAGCTGCATGCGT
1 TGCATCCGTAGCTGCATGCGT
* * * *
110617 TGCATCCATAGCTGGGAGATTC-C
1 TGCATCCGTAGCT--G-CATGCGT
*
110640 TGCATCCGTAGCTGCATGTGT
1 TGCATCCGTAGCTGCATGCGT
110661 TGCATCC
1 TGCATCC
110668 ATAGTAGCGT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 2 0.05
21 20 0.53
23 13 0.34
24 3 0.08
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (21 bp):
TGCATCCGTAGCTGCATGCGT
Found at i:110645 original size:23 final size:23
Alignment explanation
Indices: 110584--110653 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
110574 TAGATTCTAA
110584 CTGGGAGATTCCTGCATCCGTAG
1 CTGGGAGATTCCTGCATCCGTAG
* * * *
110607 CT--G-CATGCGTTGCATCCATAG
1 CTGGGAGATTC-CTGCATCCGTAG
110628 CTGGGAGATTCCTGCATCCGTAG
1 CTGGGAGATTCCTGCATCCGTAG
110651 CTG
1 CTG
110654 CATGTGTTGC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
23 16 0.46
24 3 0.09
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (23 bp):
CTGGGAGATTCCTGCATCCGTAG
Found at i:110647 original size:44 final size:44
Alignment explanation
Indices: 110584--110671 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
110574 TAGATTCTAA
110584 CTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCATAG
1 CTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCATAG
*
110628 CTGGGAGATTCCTGCATCCGTAGCTGCATGTGTTGCATCCATAG
1 CTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCATAG
110672 TAGCGTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (44 bp):
CTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCATAG
Found at i:111082 original size:20 final size:21
Alignment explanation
Indices: 111036--111082 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
111026 ACTAAAATCT
111036 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTTAGTATA
*
111058 A-TTATTAGTTTG-TAGTTTA
1 AGTTATTAGTTTGTTAGTATA
111077 AGTTAT
1 AGTTAT
111083 ATTATATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 2 0.09
22 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (21 bp):
AGTTATTAGTTTGTTAGTATA
Found at i:111106 original size:28 final size:28
Alignment explanation
Indices: 111035--111117 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 28
111025 AACTAAAATC
* *
111035 TAGTTAATTAGTTT--GTTAGTATAATTAT
1 TAGTTTATTAGTTTAAGTTA-TATTA-TAT
*
111063 TAGTTT-GTAGTTTAAGTTATATTATAT
1 TAGTTTATTAGTTTAAGTTATATTATAT
111090 TAGTTTATTAGTTTAAG-TATA-TATAT
1 TAGTTTATTAGTTTAAGTTATATTATAT
111116 TA
1 TA
111118 TAAAAAAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.15
27 19 0.40
28 18 0.38
29 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (28 bp):
TAGTTTATTAGTTTAAGTTATATTATAT
Found at i:111184 original size:42 final size:42
Alignment explanation
Indices: 111081--111184 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
111071 AGTTTAAGTT
*
111081 ATATTATATTAGTTTATTAGTTTAAGTATATATATTATAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTATAAATATTATAAAAA
* *
111124 A-GTTAATTAGTTTCTTAGTTTAAGTTATTAAATA-TA-AAAAA
1 ATATTAATTAGTTTATTAGTTTAAG-TA-TAAATATTATAAAAA
* *
111165 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
111185 GTCTTTAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 24 0.46
42 22 0.42
43 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (42 bp):
ATATTAATTAGTTTATTAGTTTAAGTATAAATATTATAAAAA
Found at i:111611 original size:16 final size:16
Alignment explanation
Indices: 111590--111645 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
111580 TAATTTCCGT
111590 TTTAAAAAATATTGTG
1 TTTAAAAAATATTGTG
*
111606 TTTAAAAATATTAGTGTTG
1 TTTAAAAA-A-TATTG-TG
* *
111625 TTTTAAAAATATTTTG
1 TTTAAAAAATATTGTG
111641 TTTAA
1 TTTAA
111646 TTACATTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 14 0.44
17 4 0.12
18 5 0.16
19 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
TTTAAAAAATATTGTG
Found at i:111614 original size:15 final size:16
Alignment explanation
Indices: 111594--111623 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111584 TTCCGTTTTA
111594 AAAAATATT-GTGTTT
1 AAAAATATTAGTGTTT
111609 AAAAATATTAGTGTT
1 AAAAATATTAGTGTT
111624 GTTTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
AAAAATATTAGTGTTT
Found at i:111931 original size:26 final size:25
Alignment explanation
Indices: 111902--111960 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
111892 AAATCATATT
*
111902 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
111928 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
111954 ATTATTA
1 ATTATTA
111961 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:114717 original size:33 final size:34
Alignment explanation
Indices: 114636--114718 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
114626 CTAAACCCTT
*
114636 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
*
114669 AAACTAACTAATAAACTATTTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
114703 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
114719 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 15 0.34
34 22 0.50
35 2 0.05
36 5 0.11
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:114850 original size:46 final size:49
Alignment explanation
Indices: 114759--114850 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 49
114749 CAACAAACAA
*
114759 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTTT
** *
114808 ATATAAC-TAACTA-TTAAC-AAAACACTCTAATT-AATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT
114851 AACTATATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 10 0.26
46 11 0.28
47 5 0.13
48 6 0.15
49 7 0.18
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (49 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTTT
Found at i:114861 original size:47 final size:48
Alignment explanation
Indices: 114759--114863 Score: 117
Period size: 47 Copynumber: 2.2 Consensus size: 48
114749 CAACAAACAA
* *
114759 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
** *
114808 ATATAACTAACTA-TTAAC-AAAACACTCTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
114855 ATATAACTA
1 ATATAACTA
114864 TCAAACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
45 10 0.20
46 11 0.22
47 15 0.31
48 6 0.12
49 7 0.14
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:115470 original size:29 final size:29
Alignment explanation
Indices: 115437--115540 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
115427 TCATGAGCTA
**
115437 GGACTACATGGCGACCTACTTGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
115466 GGACTACATGGCAACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
115495 GGACTACATGGCGACCTACAAGGTCGCCC
1 GGACTACATGGCGACCTACAAGGTCGCCG
* *
115524 AGACTGCATGGCGACCT
1 GGACTACATGGCGACCT
115541 CTCCATTGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.16
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:116906 original size:29 final size:29
Alignment explanation
Indices: 116864--116939 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
116854 CTCTGGGGGT
116864 AGGTCGCCATGCACGCCCAGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
*
116893 AGGTCGCCATGCACGCCCAGTGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
116922 AGGTCGCCATGCACGCCC
1 AGGTCGCCATGCACGCCC
116940 CAACACGCTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.20, C:0.43, G:0.25, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:117005 original size:23 final size:23
Alignment explanation
Indices: 116970--117021 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
116960 ACCATCCGAT
* *
116970 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
*
116993 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
117016 CGAGGG
1 CGAGGG
117022 AATCCGAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:117028 original size:23 final size:24
Alignment explanation
Indices: 116977--117029 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
116967 GATCGAGGCC
*
116977 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
117001 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
117023 ATCCGAG
1 ATCCGAG
117030 GGCAACCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.36, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:117163 original size:33 final size:32
Alignment explanation
Indices: 117106--117197 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
117096 GCGACCTACC
* *
117106 CTCGCTCGATTG-CTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
*
117137 CTCGCTCGGTTGCCCTCGGATGCCCTCACATAG
1 CTCGCTCGGTTG-CCTCGGATGCCCTCGCATAG
* * * *
117170 CTTGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGG-TTGCCTCGGATGCCCTCG
117198 GATGGCCTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 11 0.22
33 37 0.74
34 2 0.04
ACGTcount: A:0.11, C:0.35, G:0.26, T:0.28
Consensus pattern (32 bp):
CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
Found at i:117190 original size:10 final size:10
Alignment explanation
Indices: 117175--117228 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
117165 CATAGCTTGT
117175 TCGGATGGCC
1 TCGGATGGCC
117185 TCGGAT-GCTC
1 TCGGATGGC-C
117195 TCGGATGGCC
1 TCGGATGGCC
*
117205 TCGGAT-GCTT
1 TCGGATGGC-C
117215 TCGGATGGCC
1 TCGGATGGCC
117225 TCGG
1 TCGG
117229 TCGAATGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 30 0.79
11 4 0.11
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:117198 original size:43 final size:40
Alignment explanation
Indices: 117141--117228 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 40
117131 GCATAGCTCG
*
117141 CTCGGTTGCCCTCGGATGCCCTCACATAGCTTGTTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCACAT-GC-T-TTCGGATGGC
* * **
117184 CTCGGATGCTCTCGGATGGCCTCGGATGCTTTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCACATGCTTTCGGATGGC
117224 CTCGG
1 CTCGG
117229 TCGAATGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 15 0.38
41 1 0.03
42 2 0.05
43 22 0.55
ACGTcount: A:0.10, C:0.31, G:0.32, T:0.27
Consensus pattern (40 bp):
CTCGGATGCCCTCGGATGCCCTCACATGCTTTCGGATGGC
Found at i:117200 original size:20 final size:20
Alignment explanation
Indices: 117175--117228 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
117165 CATAGCTTGT
117175 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
117195 TCGGATGGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
117215 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
117229 TCGAATGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:117350 original size:29 final size:30
Alignment explanation
Indices: 117293--117365 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
117283 CTGCATGGAT
117293 TGCATGGCGACCTACCTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
**
117323 TGCATGGCGACCT-GGTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
117352 TGCATGGCGACCTA
1 TGCATGGCGACCTA
117366 TATGGGGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.21
Consensus pattern (30 bp):
TGCATGGCGACCTACCTAGGTCGCTGGGCG
Found at i:123765 original size:19 final size:19
Alignment explanation
Indices: 123741--123780 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
123731 CGTTAGACAG
123741 GGGGGGAATCGGTACCCCT
1 GGGGGGAATCGGTACCCCT
*
123760 GGGGGGAATCTGTACCCCT
1 GGGGGGAATCGGTACCCCT
123779 GG
1 GG
123781 ACAATCTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.17
Consensus pattern (19 bp):
GGGGGGAATCGGTACCCCT
Found at i:127173 original size:20 final size:20
Alignment explanation
Indices: 127134--127174 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
127124 CCGTTAGACA
*
127134 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
127154 GGGGGAATCTGTACCTCCTG
1 GGGGGAATCTGTACCCCCTG
127174 G
1 G
127175 AAATCTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:137198 original size:4 final size:4
Alignment explanation
Indices: 137191--137219 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
137181 ATATACATAC
137191 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
137220 AAGTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:138587 original size:33 final size:30
Alignment explanation
Indices: 138543--138602 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 30
138533 TTTTTATATT
138543 ATTTTTTTTATTAATATATACGTATATTAATA
1 ATTTTTTTTATTAATATATA--TATATTAATA
138575 ATTTTTTATTATTAATATATATATATTA
1 ATTTTTT-TTATTAATATATATATATTA
138603 CCCTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 7 0.26
32 7 0.26
33 13 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
ATTTTTTTTATTAATATATATATATTAATA
Found at i:141727 original size:32 final size:32
Alignment explanation
Indices: 141686--141809 Score: 121
Period size: 31 Copynumber: 3.9 Consensus size: 32
141676 AGTCGAGGGT
141686 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTACGGAACATATGGACAGAA
* * *
141718 TTACCTATG-TCTTTCGGGACATATGGACAGTA
1 TTACCTATGTTC-TACGGAACATATGGACAGAA
* * * *
141750 -TACCTATATTCTAAGGAACATATAGACA-AT
1 TTACCTATGTTCTACGGAACATATGGACAGAA
* *
141780 TTACCTAGGTTCTAC-GAGACCTATGGACAG
1 TTACCTATGTTCTACGGA-ACATATGGACAG
141810 TTGCTGAGGT
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
30 2 0.03
31 42 0.58
32 28 0.39
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGAA
Done.