Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003325.1 Hibiscus syriacus cultivar Beakdansim tig00007004_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: 88622
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7678 original size:21 final size:20
Alignment explanation
Indices: 7654--7704 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
7644 AAATTGCCTC
7654 AGTATCGATATCA-ACCCTCTG
1 AGTATCGATATCAGACCC-C-G
* *
7675 AGTATCAATATTAGACCCCG
1 AGTATCGATATCAGACCCCG
7695 AGTATCGATA
1 AGTATCGATA
7705 CTTCTTAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.38
21 12 0.46
22 4 0.15
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (20 bp):
AGTATCGATATCAGACCCCG
Found at i:10612 original size:20 final size:20
Alignment explanation
Indices: 10583--10625 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10573 ATTCCACCAT
*
10583 ATGCAACTATATGTTCCTAA
1 ATGCAACTATATGATCCTAA
* *
10603 ATGCATCTATATGATCTTAA
1 ATGCAACTATATGATCCTAA
10623 ATG
1 ATG
10626 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:11110 original size:20 final size:20
Alignment explanation
Indices: 11087--11129 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11077 CCCTTTACAG
11087 ATATACCGAAACATTTATTC
1 ATATACCGAAACATTTATTC
11107 ATATACCGAAACATTTATTC
1 ATATACCGAAACATTTATTC
11127 ATA
1 ATA
11130 ATTTCATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATACCGAAACATTTATTC
Found at i:19319 original size:20 final size:20
Alignment explanation
Indices: 19290--19332 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19280 ATTCCACCAT
*
19290 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
19310 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
19330 ATG
1 ATG
19333 GGCTCTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:25044 original size:3 final size:3
Alignment explanation
Indices: 25038--25114 Score: 77
Period size: 3 Copynumber: 25.3 Consensus size: 3
25028 ATAATATATT
* *
25038 TAA TAA TAA T-A TAA TATA TATA TATA TAA T-A TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TAA TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
**
25084 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
25115 TTAAGTAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 4 0.06
3 48 0.76
4 11 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:25046 original size:15 final size:15
Alignment explanation
Indices: 25026--25118 Score: 77
Period size: 15 Copynumber: 6.0 Consensus size: 15
25016 TTGGGCCTTG
25026 TAATAATATATTTAA
1 TAATAATATATTTAA
*
25041 TAATAATATA-AT-A
1 TAATAATATATTTAA
*
25054 TATATATATATAATATAA
1 TA-ATA-ATAT-ATTTAA
25072 TAATAATAT-TTATAA
1 TAATAATATATT-TAA
25087 TAATAATAATAATTTTAA
1 TAATAAT-AT-A-TTTAA
25105 TAATAATA-ATTTAA
1 TAATAATATATTTAA
25119 GTAAAATGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.05
14 10 0.15
15 25 0.38
16 7 0.11
17 6 0.09
18 13 0.20
19 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:25054 original size:18 final size:18
Alignment explanation
Indices: 25026--25114 Score: 77
Period size: 18 Copynumber: 5.2 Consensus size: 18
25016 TTGGGCCTTG
25026 TAATAATAT-AT-T-TAA
1 TAATAATATAATATATAA
25041 TAATAATATAATATAT-A
1 TAATAATATAATATATAA
25058 T-AT-ATATAATATAATAA
1 TAATAATATAATAT-ATAA
*
25075 TAATATTTATAATA-ATAA
1 TAATA-ATATAATATATAA
*
25093 TAATAATTTTAATA-ATAA
1 TAATAA-TATAATATATAA
25111 TAAT
1 TAAT
25115 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
15 18 0.29
16 6 0.10
17 5 0.08
18 26 0.42
20 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAATATAATATATAA
Found at i:25784 original size:76 final size:75
Alignment explanation
Indices: 25294--26033 Score: 1394
Period size: 75 Copynumber: 9.8 Consensus size: 75
25284 AAGGGTTTTG
* *
25294 AAAACATCAAAAAGCTCCCGAAGGCTTTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA
1 AAAACATCAAAAAGATCCCGAAGGC--TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
25359 CCCTAAGGCTTT
64 CCCTAAGGCTTT
25371 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25436 CTAAGGCTTT
66 CTAAGGCTTT
25446 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25511 CTAAGGCTTT
66 CTAAGGCTTT
25521 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25586 CTAAGGCTTT
66 CTAAGGCTTT
25596 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGC-CTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25660 CTAAGGCTTT
66 CTAAGGCTTT
25670 AAAACATC-AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25734 CTAAGGCTTT
66 CTAAGGCTTT
25744 GAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1 -AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
25809 CCTAAGGCTTT
65 CCTAAGGCTTT
25820 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
1 AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
25885 CTAAGGCTTT
66 CTAAGGCTTT
25895 GAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
1 -AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
25960 CCTAAGGCTTT
65 CCTAAGGCTTT
*
25971 GAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCATTGAAGGACTTACAGATG
1 -AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
26034 TGGGAAATAG
Statistics
Matches: 656, Mismatches: 3, Indels: 9
0.98 0.00 0.01
Matches are distributed among these distances:
73 34 0.05
74 70 0.11
75 325 0.50
76 203 0.31
77 24 0.04
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (75 bp):
AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
CTAAGGCTTT
Found at i:26735 original size:22 final size:22
Alignment explanation
Indices: 26710--26765 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
26700 CATAAAGCTT
* *
26710 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* *
26732 TCATCTTTTAAAAAGGGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
26755 TCATCTTTGAA
1 TCATCTTTGAA
26766 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:29400 original size:114 final size:114
Alignment explanation
Indices: 29200--29413 Score: 329
Period size: 114 Copynumber: 1.9 Consensus size: 114
29190 GATCATGCAG
* * * *
29200 TTCATCTTTCAATTCCAATGATCGGTTATGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
29265 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTAATATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAATATGAGCAAA
* * *
29314 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATTAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
29379 ACACTTCCATAAGATGCTATTGAGTCTTCTTATTT
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTT
29414 TCTATTACGA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATCGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTAATATGAGCAAA
Found at i:31975 original size:2 final size:2
Alignment explanation
Indices: 31968--32007 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
31958 ATAACAAAGG
31968 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
32008 TAAAGGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37840 original size:13 final size:13
Alignment explanation
Indices: 37822--37847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37812 ACCGTACTCT
37822 GCCGCCGGCCACC
1 GCCGCCGGCCACC
37835 GCCGCCGGCCACC
1 GCCGCCGGCCACC
37848 ATGAACAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
GCCGCCGGCCACC
Found at i:38569 original size:3 final size:3
Alignment explanation
Indices: 38540--38613 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
38530 TTGGGCCTTG
*
38540 TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA -AA TTTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA
**
38583 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
38614 TTAAGTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
2 8 0.14
3 47 0.80
4 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:41039 original size:20 final size:20
Alignment explanation
Indices: 41014--41052 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
41004 ATTTAACCAC
*
41014 TTACGTAAGTTTGTTCGTCA
1 TTACGTAAGTTGGTTCGTCA
41034 TTACGTAAGTTGGTTCGTC
1 TTACGTAAGTTGGTTCGTC
41053 CGTTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (20 bp):
TTACGTAAGTTGGTTCGTCA
Found at i:45723 original size:252 final size:253
Alignment explanation
Indices: 45272--45775 Score: 956
Period size: 252 Copynumber: 2.0 Consensus size: 253
45262 GCATATAAAG
*
45272 AGTTTAATTTGAAATTCATTTGTGTTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGGT
1 AGTTTAATTTGAAATTCATTTGTGTTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGAT
45337 AGCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGAAT
66 AGCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGAAT
45402 AAGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAG
131 AAGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAG
*
45467 ATTTCATAATGAACATGTGACCACCCTGGACATGTGTACATCCGTCACTGACTCTCAT
196 ATTTCATAATGAACATGTGACCACCCTGGACATGTGTACATCCGCCACTGACTCTCAT
45525 AGTTTAATTTGAAATTCATTTGTG-TTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGAT
1 AGTTTAATTTGAAATTCATTTGTGTTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGAT
45589 AGCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGAAT
66 AGCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGAAT
*
45654 AAGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTTAG
131 AAGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAG
* *
45719 ATTTCATAATGAACATGTGACCACCCTGGACATGTGTTCATCCGCCACTGGCTCTCA
196 ATTTCATAATGAACATGTGACCACCCTGGACATGTGTACATCCGCCACTGACTCTCA
45776 CAGTCTAGGA
Statistics
Matches: 246, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
252 222 0.90
253 24 0.10
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (253 bp):
AGTTTAATTTGAAATTCATTTGTGTTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGAT
AGCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGAAT
AAGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAG
ATTTCATAATGAACATGTGACCACCCTGGACATGTGTACATCCGCCACTGACTCTCAT
Found at i:49876 original size:146 final size:146
Alignment explanation
Indices: 49612--50001 Score: 548
Period size: 146 Copynumber: 2.7 Consensus size: 146
49602 TCGGATTCTC
* * * *
49612 GCCGGAGATCGGGATATCCGATCAACATTCCGAACGGTCAAAAGTTGTGGAAGGCCATCACGAAC
1 GCCGGTGATCGGAATATCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
* * * *
49677 AACATATTGAAATATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGG
66 AACATATTGAAAAATCAGGACGATCGGACGGTGAACGGTGACGGATCGGAGAAAACAAATCCGGA
*
49742 CGGTTTTTAGCCTCTT
131 CGATTTTTAGCCTCTT
* ** *
49758 GCCGGTGATCGGTATATTTGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCATGAAC
1 GCCGGTGATCGGAATATCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
*
49823 AACATATTGAAAAATCAGGACGATCGGACGGTGAACGGTGACGGATCGGAGAAAATAAATCCGGA
66 AACATATTGAAAAATCAGGACGATCGGACGGTGAACGGTGACGGATCGGAGAAAACAAATCCGGA
*
49888 CGATTTTTAGCTTCTT
131 CGATTTTTAGCCTCTT
* * * * * * *
49904 GCCGGTGATCAGAATCTGCGATCAATATTCCGAACGGTGAAAAGTTGCGTG-ATGCCAACACAAA
1 GCCGGTGATCGGAATATCCGATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAA
* *
49968 CAACCTATTGAAAAATCAGGACAATCGGACGGTG
65 CAACATATTGAAAAATCAGGACGATCGGACGGTG
50002 GATGACGGCA
Statistics
Matches: 217, Mismatches: 26, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
146 216 1.00
147 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (146 bp):
GCCGGTGATCGGAATATCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
AACATATTGAAAAATCAGGACGATCGGACGGTGAACGGTGACGGATCGGAGAAAACAAATCCGGA
CGATTTTTAGCCTCTT
Found at i:52417 original size:46 final size:47
Alignment explanation
Indices: 52310--52426 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
52300 TAAATGTATA
52310 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* *
52357 CGAACTAGAAATCATGCGGTTAGGTTTATTTTCTCGAAC-AAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* **
52403 CGAATTAGTTATCATGCGGTTAGG
1 CGAACTAGAAATCATGCGGTTAGG
52427 ACTTTTTGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 28 0.43
47 37 0.57
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (47 bp):
CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
Found at i:53186 original size:6 final size:6
Alignment explanation
Indices: 53175--53217 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
53165 ATTAACACCT
53175 TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGCA -TTGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA T
53218 GTATTTGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (6 bp):
TTTGCA
Found at i:53199 original size:19 final size:18
Alignment explanation
Indices: 53175--53217 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
53165 ATTAACACCT
53175 TTTGCATTTGCATTTGGCA
1 TTTGCATTTGCATTT-GCA
53194 TTTGCATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
53212 -TTGCAT
1 TTTGCAT
53218 GTATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 15 0.62
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:56054 original size:96 final size:96
Alignment explanation
Indices: 55890--56070 Score: 290
Period size: 96 Copynumber: 1.9 Consensus size: 96
55880 AAGTTGTGAT
* ** * *
55890 ATGTTGGGGCACGACTGAACCCACATCCCGTTGAGATGACGAGATTCAGACCAAGGAGGCATTAA
1 ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
55955 GAATGAGCCTTAAAATTTGAAGTATAAGATA
66 GAATGAGCCTTAAAATTTGAAGTATAAGATA
* *
55986 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
*
56051 GAATGAGCCTTACAATTTGA
66 GAATGAGCCTTAAAATTTGA
56071 GGTGATGGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (96 bp):
ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
GAATGAGCCTTAAAATTTGAAGTATAAGATA
Found at i:56229 original size:122 final size:123
Alignment explanation
Indices: 55977--56243 Score: 385
Period size: 122 Copynumber: 2.2 Consensus size: 123
55967 AAATTTGAAG
* *
55977 TATAAGATAATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGG
1 TATAAGATAATGTTGGGGCATGACTGAACCCACATCATGTCGAGATGAAAAGA--CAGACCAAGA
* * ** *
56042 AGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAG
64 AGGAATGAAGAATGAGCCTTACAAGTTGAGGTGATGGAACATTTTGAAGGCCCGTACCAA
*
56102 TATAAGATAATGTTGGGGCATGACTGAACCCACATCATGTCGAGATGACAAGA-AGACCAAGAAG
1 TATAAGATAATGTTGGGGCATGACTGAACCCACATCATGTCGAGATGAAAAGACAGACCAAGAAG
* * *
56166 GAATTG-AGAATGAGCCTTACAAGTTGAGGTGTTGGAATATTTTGAAGGCCCGTATCAA
66 GAA-TGAAGAATGAGCCTTACAAGTTGAGGTGATGGAACATTTTGAAGGCCCGTACCAA
*
56224 TATAAGATAATGTTGTGGCA
1 TATAAGATAATGTTGGGGCA
56244 CAAGTGACGA
Statistics
Matches: 129, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
122 76 0.59
123 2 0.02
125 51 0.40
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (123 bp):
TATAAGATAATGTTGGGGCATGACTGAACCCACATCATGTCGAGATGAAAAGACAGACCAAGAAG
GAATGAAGAATGAGCCTTACAAGTTGAGGTGATGGAACATTTTGAAGGCCCGTACCAA
Found at i:57458 original size:36 final size:36
Alignment explanation
Indices: 57416--57492 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
57406 AGCAAAGTCA
* * * *
57416 ATCTTAAGCCTTCACTAAAGAGCAATGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAACAATGAAGCAAACC
* *
57452 GTCTTAAGCATGCACCAAAGAATAATGAAGCAAACC
1 ATCTTAAGCATGCACCAAAGAACAATGAAGCAAACC
57488 ATCTT
1 ATCTT
57493 GTTTCTTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCATGCACCAAAGAACAATGAAGCAAACC
Found at i:58045 original size:54 final size:54
Alignment explanation
Indices: 57906--58651 Score: 981
Period size: 54 Copynumber: 13.9 Consensus size: 54
57896 AGTGAAGCAA
* * * *
57906 AAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
** * *
57960 AAGATTAT-T-CGAGTTTCATACTCCCT-GAAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG
* * ** * * *
58012 AAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* *
58066 AAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
58120 AAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
58174 AAGAAGATGTACAAGTTACATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
58228 AAGAAGATGTCTGAGTTCTATACCCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
58282 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
*
58336 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * *
58390 AAGAAGATTTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCG--TG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * * *
58442 -TGAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
**
58495 AAG-AGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
* * * *
58548 AAGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG--T-
1 AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTG
* * * * *
58600 AAGAAGATTATTCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCG
1 AAGAAGA-TGTCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCG
58652 ATTGTTGAAG
Statistics
Matches: 615, Mismatches: 66, Indels: 23
0.87 0.09 0.03
Matches are distributed among these distances:
51 43 0.07
52 51 0.08
53 74 0.12
54 443 0.72
55 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
Found at i:58771 original size:55 final size:55
Alignment explanation
Indices: 58602--59085 Score: 631
Period size: 55 Copynumber: 8.8 Consensus size: 55
58592 AACCCCGTAA
* * *
58602 GAAGATTATTCGAGT-TCTATACTGC-CTGAAAGAAAGAGGGAGC-GAACCCGATTGTT
1 GAAGATTGTTCGAGTCT-TATACT-CTCTG-AAGAAATAGGGAGCAG-ACACGATTGTT
* *
58658 GAAGATTGTTCGAGTCTTATACTCTCTCTGAAGAAATAGGGAGTAGACACGACTGTT
1 GAAGATTGTTCGAGTCTTATA--CTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
58715 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
58770 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
58825 GAAGATTGTTCGAGTCTTATACTCTCTGAATG-AATAGAGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAA-GAAATAGGGAGCAGACACGATTGTT
* * * * * *
58880 GAAGATTGTTTGAGTCTTATACTTTCTGAAGGAATAGGGAGAAAACACGGTTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
58935 GAAGGTTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
58990 GAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* *
59045 GAAGA-TGTTCGAGT-TCTATACT-TCCTAAAGAAAGAGGGAGC
1 GAAGATTGTTCGAGTCT-TATACTCT-CTGAAGAAATAGGGAGC
59086 GAACCCGATT
Statistics
Matches: 385, Mismatches: 34, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
53 2 0.01
54 29 0.08
55 285 0.74
56 19 0.05
57 44 0.11
58 6 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:59180 original size:108 final size:105
Alignment explanation
Indices: 57907--59256 Score: 826
Period size: 108 Copynumber: 12.5 Consensus size: 105
57897 GTGAAGCAAA
* * * * *
57907 AGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCGTTT--GAAGATTATTC
1 AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAGAAGATTGTTC
* *
57970 GAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTT
66 GAG-TTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
** * * * *
58011 GAAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTTGAAGAAGA-TG
1 --AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
* * *
58075 TCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAACCCGTTT
63 TTCGAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
58119 GAAGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
1 --AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
* * *
58183 TACAAGTTACATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
63 TTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * *
58227 GAAGAAGA-TGTCTGAGTTCTATACCCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGAAGA-T
1 --AGAAGATTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATT
* *
58290 GTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
62 GTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
58335 GAAGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTTTGAAGAAGA-T-
1 --AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
* * *
58398 TTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCGTGT
63 TTC-GAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
58443 -GAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA-AGAGA-TGTT
1 AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAGA-AGATTGTT
* *
58505 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
65 CGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
58547 GAAGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG--TAAGAAGATTA
1 --AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTTTGAGAAGATTG
*
58610 TTCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCGATTGT
63 TTCGAGTTC-ATACTCCCT-AAAGAAAGAGGGAGCGAACCCG-TT-T
* * * * * ** *
58657 TGAAGATTGTTCGAG-TCTTATACTCTCTCTGAAGAAATAGGGAG-TAGACACGACTGTTGAAGA
1 AGAAGATT-TTCGAGTTC-TATACTC-C-CTAAAGAAAGAGGGAGCGA-ACCCGTTTG-AGAAGA
* * * * *
58720 TTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGATCGTT
60 TTGTTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-T--TT
** * * * * * * *
58770 -GAAGATTGTTCGAG-TCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTTGAAGATTG
1 AGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
* * * *
58833 TTCGAGTCTTATACTCTCTGAATGAATAGA--GAGC-AGACACGATTGT
63 TTCGAGT-TCATACTCCCT-AAAGAA-AGAGGGAGCGA-ACCCG-TT-T
* * ** * * * ** * * * *
58879 TGAAGATTGTTTGAG-TCTTATACTTTCTGAAGGAATAGGGAGAAAACACGGTTGTTGAAGGTTG
1 AGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
* * * * * *
58943 TTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC-AGACACGATTGT
63 TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGA-ACCCG-TT-T
* ** * * * * * * *
58989 TGAAGATTGTTCGAG-TCTTATACTCTTTGAAGGAATAGGGAGCGGACACGATTGTTGAAGA-TG
1 AGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTG
*
59052 TTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACCCGATTT
63 TTCGAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT
* *** *
59097 CAGAAGATTTGCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGAAGGCATAAGATTGT
1 -AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATTGT
* * * *
59162 TCGAGTTCCTACTCCCTAAAGAAATAGGGAGCGAACCCATTGGC
64 TCGAGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT--T
* * * * *
59206 AGAAGATTATTCAAGTT-TCATACTCTCTGAAGCAAGAGGGAGCAAACCCGT
1 AGAAGATT-TTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGT
59257 AGGCAGAAGA
Statistics
Matches: 1052, Mismatches: 144, Indels: 93
0.82 0.11 0.07
Matches are distributed among these distances:
103 1 0.00
104 44 0.04
105 49 0.05
106 48 0.05
107 62 0.06
108 433 0.41
109 112 0.11
110 214 0.20
111 19 0.02
112 46 0.04
113 22 0.02
114 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (105 bp):
AGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAGAAGATTGTTC
GAGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTT
Found at i:59254 original size:55 final size:54
Alignment explanation
Indices: 57907--59269 Score: 503
Period size: 54 Copynumber: 25.2 Consensus size: 54
57897 GTGAAGCAAA
* * * *
57907 AGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCG-T---T
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * ** *
57958 TGAAGATTATTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCTG-TTTGA
1 AGAAGATT-TTCGAG-TTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
** * * * * ** *
58013 AGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAG-TTTGA
1 AGAAGATTTTCGAG-TTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * ** *
58067 AGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGAAGCGAACCCG-TTTGA
1 AGAAGATTTTCGAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * ** *
58121 AGAAAATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTTGA
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * ** *
58175 AGAAGATGTACAAGTTACATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTTGA
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * ** *
58229 AGAAGA-TGTCTGAGTTCTATACCCCCTAGAGAAAGAGGGAGCGAACCTG-TTTGA
1 AGAAGATTTTC-GAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * ** *
58283 AGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTTGA
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * ** *
58337 AGAAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTG-TTTGA
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* *
58391 AGAAGA-TTTCTGAGTTCCATACTTCCTAGAGAAAGAGGGAGCGAACCCG-T--G-
1 AGAAGATTTTC-GAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * * ** *
58442 TGAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCG-TTTGA
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* ** *
58496 AG-AGATGTTT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTTGA
1 AGAAGAT-TTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * *
58549 AGAAGATTTTCGAGTTCCATACTTCCTAGAGAAAGAGGGAGTGAACCCCG-TA---
1 AGAAGATTTTCGAGTT-CATACTCCCTAAAGAAAGAGGGAGCGAA-CCCGATAGGC
* * *
58601 AGAAGATTATTCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCGAT-TGT
1 AGAAGATT-TTCGAGTTC-ATACTCCCT-AAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * * * *
58657 TGAAGATTGTTCGAGTCTTATACTCTCTCTGAAGAAATAGGGAG-TAGACACGACT--GT
1 AGAAGATT-TTCGAGT-TCATACTC-C-CTAAAGAAAGAGGGAGCGA-ACCCGA-TAGGC
* * * * * * * *
58714 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGAT-CGT
1 AGAAGATT-TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGATAGGC
* * ** * * * * * * *
58769 TGAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGAT-TGT
1 AGAAGATT-TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * * * *
58824 TGAAGATTGTTCGAGTCTTATACTCTCTGAATGAATAGA--GAGC-AGACACGAT-TGT
1 AGAAGATT-TTCGAGT-TCATACTCCCT-AAAGAA-AGAGGGAGCGA-ACCCGATAGGC
* * * ** * * * ** * * * *
58879 TGAAGATTGTTTGAGTCTTATACTTTCTGAAGGAATAGGGAGAAAACACGGT-TGT
1 AGAAGATT-TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * * * * * * *
58934 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC-AGACACGAT-TGT
1 AGAAGATT-TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGA-ACCCGATAGGC
* * ** * * * * * * *
58989 TGAAGATTGTTCGAGTCTTATACTCTTTGAAGGAATAGGGAGCGGACACGAT-TGT
1 AGAAGATT-TTCGAGT-TCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * **
59044 TGAAGATGTTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACCCGAT-TTC
1 AGAAGATTTTCGAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
*
59098 AGAAGATTTGCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGA-AGGC
1 AGAAGATTTTCGAGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * *
59152 ATAAGATTGTTCGAGTTCCTACTCCCTAAAGAAATAGGGAGCGAACCC-ATTGGC
1 AGAAGATT-TTCGAGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
* * * * *
59206 AGAAGATTATTCAAGTTTCATACTCTCTGAAGCAAGAGGGAGCAAACCCG-TAGGC
1 AGAAGATT-TTCGAG-TTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
59261 AGAAGATTT
1 AGAAGATTT
59270 GTTCAAAGAA
Statistics
Matches: 1132, Mismatches: 131, Indels: 95
0.83 0.10 0.07
Matches are distributed among these distances:
51 47 0.04
52 46 0.04
53 82 0.07
54 561 0.50
55 321 0.28
56 24 0.02
57 48 0.04
58 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (54 bp):
AGAAGATTTTCGAGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGATAGGC
Found at i:60241 original size:146 final size:146
Alignment explanation
Indices: 59815--60206 Score: 581
Period size: 146 Copynumber: 2.7 Consensus size: 146
59805 TCGGATTCTC
* * *
59815 GCCGGAGATCAGG-ATCTCCGATCAACATTCCGAACGGTCAAAAGTTGTGGAAGGCCATCACGAA
1 GCCGGTGATC-GGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAA
* * * *
59879 CAACATGTTGAAATATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGG
65 CAACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGG
*
59944 GCGGTTTTTAGCCTCTT
130 ACGGTTTTTAGCCTCTT
* ** *
59961 GCCGGTGATCGGAATATTTGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCATGAAC
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
60026 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
66 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
60091 CGGTTTTTAGCCTCTT
131 CGGTTTTTAGCCTCTT
* * * * *
60107 GCCGGTGATCGGAATCTGCGATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACACAAA
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAA
* *
60171 CAACCTATTGAAAAATCAGGACAATCGGACGGTGGA
65 CAACATATTGAAAAATCAGGACGATCGGACGGTGGA
60207 TGACGGCAGA
Statistics
Matches: 222, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
145 2 0.01
146 219 0.99
147 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (146 bp):
GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
CGGTTTTTAGCCTCTT
Found at i:62597 original size:21 final size:21
Alignment explanation
Indices: 62553--62597 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
62543 CTGCCCATAA
* *
62553 CATGGTGCATCGATGCGCTAT
1 CATGGTGCATCGATCCCCTAT
62574 CATGGTGCATCGATACCCCT-T
1 CATGGTGCATCGAT-CCCCTAT
62595 CAT
1 CAT
62598 TAAATTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
CATGGTGCATCGATCCCCTAT
Found at i:62670 original size:20 final size:20
Alignment explanation
Indices: 62641--62714 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
62631 GTAGCCTTCG
*
62641 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
**
62661 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
* *
62682 TGCATTGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
62702 TGCATCGATGCAC
1 TGCATCGATGCAC
62715 TAATTGCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:62678 original size:41 final size:41
Alignment explanation
Indices: 62633--62714 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
62623 TAGCTGTTGT
*
62633 AGCCTTCG-TGCATGGATGCACAGCAGGATGCATCGATGCAC
1 AGCCTT-GATGCATGGATGCACAGAAGGATGCATCGATGCAC
*
62674 AGCCTTGATGCATTGATGCACAGAAGGATGCATCGATGCAC
1 AGCCTTGATGCATGGATGCACAGAAGGATGCATCGATGCAC
62715 TAATTGCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (41 bp):
AGCCTTGATGCATGGATGCACAGAAGGATGCATCGATGCAC
Found at i:62782 original size:22 final size:23
Alignment explanation
Indices: 62749--62791 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
62739 ATGGATGCAC
62749 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
62772 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
62792 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:62913 original size:29 final size:30
Alignment explanation
Indices: 62881--62949 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
62871 GAAACCTTTT
*
62881 AAAACA-TTGAGTAAATTCAATT-ATGTCCA
1 AAAACATTTGA-TAAATTCAATTCAAGTCCA
*
62910 AAAATATTTGATAAATTCAATTCAAGTCCA
1 AAAACATTTGATAAATTCAATTCAAGTCCA
62940 AAAACCATTT
1 AAAA-CATTT
62950 TGCCTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.47
30 14 0.41
31 4 0.12
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AAAACATTTGATAAATTCAATTCAAGTCCA
Found at i:62941 original size:30 final size:30
Alignment explanation
Indices: 62887--62943 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62877 TTTTAAAACA
*
62887 TTGAGTAAATTCAATTATGTCCAAAAATAT
1 TTGAGTAAATTCAATTAAGTCCAAAAATAT
62917 TTGA-TAAATTCAATTCAAGTCCAAAAA
1 TTGAGTAAATTCAATT-AAGTCCAAAAA
62944 CCATTTTGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TTGAGTAAATTCAATTAAGTCCAAAAATAT
Found at i:64248 original size:19 final size:19
Alignment explanation
Indices: 64216--64276 Score: 104
Period size: 19 Copynumber: 3.2 Consensus size: 19
64206 TCAAAATTTC
64216 ATTTTGATTTTCAAAATCAA
1 ATTTTGA-TTTCAAAATCAA
64236 ATTTTGATTTCAAAATCAA
1 ATTTTGATTTCAAAATCAA
*
64255 ATTTTGCTTTCAAAATCAA
1 ATTTTGATTTCAAAATCAA
64274 ATT
1 ATT
64277 ATCTTTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 33 0.82
20 7 0.17
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTTTGATTTCAAAATCAA
Found at i:66234 original size:20 final size:21
Alignment explanation
Indices: 66203--66275 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 21
66193 GCAGCCTTCG
*
66203 TGCATGGATGCATA-ACAGGA
1 TGCATCGATGCATAGACAGGA
* * **
66223 TGTATCGATGCATAGCCTTGA
1 TGCATCGATGCATAGACAGGA
66244 TGCATCGATGCATAGA-AGGA
1 TGCATCGATGCATAGACAGGA
66264 TGCATCGATGCA
1 TGCATCGATGCA
66276 CTAATTGCAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (21 bp):
TGCATCGATGCATAGACAGGA
Found at i:66240 original size:41 final size:41
Alignment explanation
Indices: 66195--66275 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
66185 TAGCCATTGC
* *
66195 AGCCTTCG-TGCATGGATGCATA-ACAGGATGTATCGATGCAT
1 AGCCTT-GATGCATCGATGCATAGA-AGGATGCATCGATGCAT
66236 AGCCTTGATGCATCGATGCATAGAAGGATGCATCGATGCA
1 AGCCTTGATGCATCGATGCATAGAAGGATGCATCGATGCA
66276 CTAATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 34 0.94
42 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
AGCCTTGATGCATCGATGCATAGAAGGATGCATCGATGCAT
Found at i:66453 original size:29 final size:29
Alignment explanation
Indices: 66421--66483 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
66411 GAAACCTTTT
66421 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
66451 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
66481 AAA
1 AAA
66484 CCATTTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:66500 original size:34 final size:29
Alignment explanation
Indices: 66432--66491 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
66422 AAACTTTGAA
*
66432 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
66461 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
66492 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:72240 original size:32 final size:32
Alignment explanation
Indices: 72204--72287 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
72194 CACACATATG
* *
72204 CATTATCTAAATGCAACAGTGACTCTGTTGTA
1 CATTATCTAAATGCAACACTGACACTGTTGTA
* * *
72236 CATTATCTGAATGCAACACTTACACTGTTGTG
1 CATTATCTAAATGCAACACTGACACTGTTGTA
*
72268 CATTACCTAAATGCAACACT
1 CATTATCTAAATGCAACACT
72288 ACTAGTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (32 bp):
CATTATCTAAATGCAACACTGACACTGTTGTA
Found at i:72358 original size:393 final size:380
Alignment explanation
Indices: 71641--72386 Score: 1082
Period size: 393 Copynumber: 1.9 Consensus size: 380
71631 CAGTAGGTAT
** * *
71641 ATGCATGATCTTAATTAAGTGCTACCTACTTAAGGTTTTACTGTTTTATCGCTGAAGTATGAGTC
1 ATGCATGATCTTAATTAAGTGCTACCTACTTAAGGTTTTACCATTCTATCGCTGAAGTAGGAGTC
* * *
71706 TCATGCTTTCTTAATCCTTTGCTAAGAGCCTCTCCATGAGTACACCTCTATTGGGTCTCTACCCA
66 TCATGCTTCCTTAATCCTCTGCTAAGAGCCTCTCCATGAGTACACCTCTATTAGGTCTCTACCCA
* * * * * *
71771 CACGGACTGTAACTGTTTTGCATTATCTAAATGCGACATTGACACTCCTATGCATTATTTGAATA
131 CACGGACTGTAACTGCTTTGCATTATCTAAATACGACATTGACACACATATGCATTATCTAAATA
* * * *
71836 CAACATTGATTATTTGAATGCAACACTTACACTGTTATGCATTACCTGAATGCGACACTGCTAGT
196 CAACATTGATTATCTGAATGCAACACTTACACTGTTATGCATTACCTAAATGCAACACTACTAGT
* * *
71901 ATCTGGCCTCACATAGCCATTATATACTAGTTAACTGAGGGAATTCAGTGTCACATAATATAGGT
261 ATATGGCCTCACATAGCCATTAGATACTAGTTAACTGAGGGAATTCAATGTCACATAATATAGGT
*
71966 AAAATTCCCATTAAGTTGTTGAATGATCTATTGGTCTCACATAGTAATCAAGTAC
326 AAAATTCCCACTAAGTTGTTGAATGATCTATTGGTCTCACATAGTAATCAAGTAC
*
72021 ATGCATGATCTTAATTAAGTGCTACCTACTTAAGGTTTTACCATTCTATTGCTGAAGTAGGAGTC
1 ATGCATGATCTTAATTAAGTGCTACCTACTTAAGGTTTTACCATTCTATCGCTGAAGTAGGAGTC
72086 TCATGCTTCCCTTAATCCTCTGCTAAGAGCCT-TGCCAT-AGGTACACCTCTATTAGGTCTCTAC
66 TCATGCTT-CCTTAATCCTCTGCTAAGAGCCTCT-CCATGA-GTACACCTCTATTAGGTCTCTAC
* *
72149 CCACACTGACTGTAACTGCTTTGCATTATCTAAATATGACATTGACACACATATGCATTATCTAA
128 CCACACGGACTGTAACTGCTTTGCATTATCTAAATACGACATTGACACACATATGCATTATCTAA
* *
72214 ATGCAACAGTGACTCTGTTGTACATTATCTGAATGCAACACTTACACTGTTGTGCATTACCTAAA
193 AT---ACA---A--C-ATTG---ATTATCTGAATGCAACACTTACACTGTTATGCATTACCTAAA
*
72279 TGCAACACTACTAGTATATGGCCTCACATAGCCATTAGATACTAGTTAATTGAGGGAATTCAATG
246 TGCAACACTACTAGTATATGGCCTCACATAGCCATTAGATACTAGTTAACTGAGGGAATTCAATG
* *
72344 TCACATAGTATAGGTAAAATTTCCACTAAGTTGTTGAATGATC
311 TCACATAATATAGGTAAAATTCCCACTAAGTTGTTGAATGATC
72387 CCCTGGTCTG
Statistics
Matches: 322, Mismatches: 29, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
380 70 0.22
381 106 0.33
384 3 0.01
387 1 0.00
389 1 0.00
390 3 0.01
393 138 0.43
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (380 bp):
ATGCATGATCTTAATTAAGTGCTACCTACTTAAGGTTTTACCATTCTATCGCTGAAGTAGGAGTC
TCATGCTTCCTTAATCCTCTGCTAAGAGCCTCTCCATGAGTACACCTCTATTAGGTCTCTACCCA
CACGGACTGTAACTGCTTTGCATTATCTAAATACGACATTGACACACATATGCATTATCTAAATA
CAACATTGATTATCTGAATGCAACACTTACACTGTTATGCATTACCTAAATGCAACACTACTAGT
ATATGGCCTCACATAGCCATTAGATACTAGTTAACTGAGGGAATTCAATGTCACATAATATAGGT
AAAATTCCCACTAAGTTGTTGAATGATCTATTGGTCTCACATAGTAATCAAGTAC
Found at i:73901 original size:23 final size:23
Alignment explanation
Indices: 73858--73901 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
73848 TGTTTTAAAG
*
73858 TATTATACTGTTTTATTTTATTT
1 TATTATACTGTTTTATATTATTT
*
73881 TATTTTACT-TTTATATATTAT
1 TATTATACTGTTT-TATATTAT
73902 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTATACTGTTTTATATTATTT
Found at i:75347 original size:13 final size:14
Alignment explanation
Indices: 75326--75361 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
75316 TTTTAGGGTG
75326 TATAATTTAAAATT
1 TATAATTTAAAATT
*
75340 TA-AATTTAAGATT
1 TATAATTTAAAATT
75353 TATAATTTA
1 TATAATTTA
75362 GAATCTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATAATTTAAAATT
Found at i:75380 original size:21 final size:19
Alignment explanation
Indices: 75335--75383 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
75325 GTATAATTTA
* *
75335 AAATTTAAATTTAAGATTT
1 AAATTTAAATCTAAGATTG
75354 ATAATTTAGAATCTAAGAATTG
1 A-AATTTA-AATCTAAG-ATTG
75376 AAATTTAA
1 AAATTTAA
75384 GATTTTAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 13 0.52
22 4 0.16
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATTTAAATCTAAGATTG
Found at i:77171 original size:2 final size:2
Alignment explanation
Indices: 77152--77190 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
77142 TAATAATTAA
*
77152 AT AT A- AT AT TT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77191 ACTGATAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:77175 original size:20 final size:19
Alignment explanation
Indices: 77137--77190 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
77127 GTCAATTATC
*
77137 ATATTTAATA-ATTAAATAT
1 ATATTTAATATA-TATATAT
77156 AATATTTAATATATATATAT
1 -ATATTTAATATATATATAT
*
77176 ATATAT-ATATATATA
1 ATATTTAATATATATA
77191 ACTGATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 16 0.52
21 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTTAATATATATATAT
Found at i:77754 original size:23 final size:22
Alignment explanation
Indices: 77731--77808 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
77721 TTTAATATAT
77731 TTATATTTTTAAACTAAATTTA
1 TTATATTTTTAAACTAAATTTA
* ** *
77753 TTATTATTATTCTAC-ATATTTCA
1 TTA-TATTTTTAAACTAAATTT-A
77776 -TATATTTTTAAACTAAATTTA
1 TTATATTTTTAAACTAAATTTA
77797 TTAATATATTTT
1 TT-ATAT-TTTT
77809 CAAAATTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
21 9 0.21
22 16 0.38
23 13 0.31
24 4 0.10
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATTTTTAAACTAAATTTA
Found at i:77759 original size:25 final size:24
Alignment explanation
Indices: 77728--77808 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 24
77718 GAGTTTAATA
77728 TATT-TATATTTTTAAACTAAATT
1 TATTATATATTTTTAAACTAAATT
* *
77751 TATTAT-TATTATT---CTACATAT
1 TATTATATATTTTTAAACTAAAT-T
*
77772 T-TCATATATTTTTAAACTAAATT
1 TATTATATATTTTTAAACTAAATT
77795 TATTAATATATTTT
1 TATT-ATATATTTT
77809 CAAAATTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 8 0.18
21 8 0.18
23 12 0.27
24 7 0.16
25 9 0.20
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTATATATTTTTAAACTAAATT
Found at i:77795 original size:22 final size:21
Alignment explanation
Indices: 77732--77797 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
77722 TTAATATATT
77732 TATATTTTTAAACTAAATTTA
1 TATATTTTTAAACTAAATTTA
* **
77753 T-TATTATTATTCTACATATTTCA
1 TATATTTTTAAACTA-A-ATTT-A
77776 TATATTTTTAAACTAAATTTA
1 TATATTTTTAAACTAAATTTA
77797 T
1 T
77798 TAATATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 10 0.29
21 4 0.11
22 8 0.23
23 3 0.09
24 10 0.29
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTTTTAAACTAAATTTA
Found at i:79669 original size:76 final size:75
Alignment explanation
Indices: 79515--79734 Score: 280
Period size: 76 Copynumber: 2.9 Consensus size: 75
79505 CCTAACAATG
* *
79515 TCATGGTTCACTAAGAATTAGGTTATGATCTGTAATGTTAATATTTTTATTAATAAAATGGGTTG
1 TCATGGTTCACTAAGAAATAGGTTGTGATCTG-AATGTTAATA-TTTTATTAATAAAATGGGTTG
**
79580 TGCCCAAGAATA
64 CACCCAAGAATA
* * * * *
79592 TCATGGTTCATTAAGAAATAAGTTGTGATATAGAATGTTAATATTTTATTAACAAAATGGGTAGC
1 TCATGGTTCACTAAGAAATAGGTTGTGATCT-GAATGTTAATATTTTATTAATAAAATGGGTTGC
79657 ACCCAAGAATA
65 ACCCAAGAATA
* * * *
79668 TCATGCTTCACTAAGAAATAGGTTGGGATCTGGAATGCTAATATTTT-TTAATAAAATGAGTTGC
1 TCATGGTTCACTAAGAAATAGGTTGTGATCT-GAATGTTAATATTTTATTAATAAAATGGGTTGC
79732 ACC
65 ACC
79735 TAAAATGTTA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
75 17 0.14
76 69 0.56
77 36 0.29
78 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (75 bp):
TCATGGTTCACTAAGAAATAGGTTGTGATCTGAATGTTAATATTTTATTAATAAAATGGGTTGCA
CCCAAGAATA
Found at i:80050 original size:183 final size:184
Alignment explanation
Indices: 79674--80283 Score: 888
Period size: 183 Copynumber: 3.3 Consensus size: 184
79664 AATATCATGC
* * * * * *
79674 TTCACTAAGAAATAGGTTGGGATCTGGAATGCTAATA-TTTT-TTAATAAAATGAGTTGCACCTA
1 TTCACTAAGAAATATGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
* * * * *
79737 AAATGTTACCACA-ATTAAAACTGATGGAGCATTAGATTTTCCCACTATAAGAAAATAAATTAAA
66 AAATGTTA-CATAGTTTAAGA-TGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAATTAAA
79801 AACTAAAAATGTTATGAATATATATAAAATATGGTTGCGTCAAAAAATTGTCATTA
129 AACTAAAAATGTTATGAATATATATAAAATATGGTTGCGTCAAAAAATTGTCATTA
* *
79857 TTCACTGAGAAATTTGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
1 TTCACTAAGAAATATGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
79922 AAATGTTACATAGTTTAAGATGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAATTAAAAA
66 AAATGTTACATAGTTTAAGATGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAATTAAAAA
79987 CTAAAAATGTTATGAATATATAT-AAATATGGTTGCGTCAAAAAATTGTCATTA
131 CTAAAAATGTTATGAATATATATAAAATATGGTTGCGTCAAAAAATTGTCATTA
* *
80040 TTCACTGAGAAATTTGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
1 TTCACTAAGAAATATGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
*
80105 AAATGTTACATAGTTTAAGATGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAGTTAAAAA
66 AAATGTTACATAGTTTAAGATGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAATTAAAAA
* * * * * * **
80170 CTGAAAATGTTAGGAATATATATAAGAAATACGGTTGCGCCTAAAAA-TATCATGG
131 CTAAAAATGTTATGAATATATAT-A-AAATATGGTTGCGTCAAAAAATTGTCATTA
* * * * *
80225 TTAACTAAGAAACATGTTGCAATATGAAATGTTGATATTTTTATTAATAAAATGGGTTG
1 TTCACTAAGAAATATGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTG
80284 GGCCCAAGAA
Statistics
Matches: 392, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
183 210 0.54
184 73 0.19
185 91 0.23
186 18 0.05
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (184 bp):
TTCACTAAGAAATATGTTGCGATTTGAAATGTTAATATTTTTATTAATAAAATGGGTTGCACCTA
AAATGTTACATAGTTTAAGATGATGGAGCATTGGATTTTCCCACGATAAGAAAATAAATTAAAAA
CTAAAAATGTTATGAATATATATAAAATATGGTTGCGTCAAAAAATTGTCATTA
Found at i:80452 original size:260 final size:259
Alignment explanation
Indices: 80067--80885 Score: 912
Period size: 260 Copynumber: 3.1 Consensus size: 259
80057 TGCGATTTGA
* *
80067 AATGTTAATATTTTTATTAATAAAATGGGTTGCACCTAAAATGTTA-CATAGTTTAAGA-TGATG
1 AATGTT-ATA-TTTTATTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAA-ACTGATG
*
80130 GAGCATTGGATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTAGGAATATATATAA
63 GAGCA-TGGATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAA
* * *
80195 GAAATACGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCAATATGAAATGTTGA
127 GAAATATGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCGATATGAAATGTTAA
*
80260 TATTTTTATTAATAAAATGGGTTGGGCCCAAGAATGTCATGATTCA-TGAAGAAATAGGTTACAA
192 TATTTTTATTAATAAAATGGGTTGCGCCCAAGAATGTCATGATTCACT-AAGAAATAGGTTACAA
80324 TATG
256 TATG
* * * ** * *
80328 AAATATTAT-TTTTTTTAATAAAATGAATTGCGTCTAAAATCTTACCACGGTTTAAACTGATGGA
1 -AATGTTATATTTTATTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGA
* * *
80392 GCATAGGGTTTTCTCATGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAAA
65 GCAT-GGATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATAT---A
* * * * * * *
80457 AAAAATATGGTTGCGTCTAAAAATGTCATAGTTTACTAAGAAACATGTTGGGATCT-AGAATGTT
126 AGAAATATGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCGATATGA-AATGTT
* * * * * *
80521 AATATTTTTATTAATAAAATGAGTTACACCCAAGAATGTC-TCATTCACTAAGAAATAGGTTGCG
190 AATATTTTTATTAATAAAATGGGTTGCGCCCAAGAATGTCATGATTCACTAAGAAATAGGTTACA
**
80585 ACCTGG
255 ATAT-G
* * * * * * *
80591 AATGTTAATATTTTTTTAATAAATTGGATTGTACCTAAAATGTTACCACAATTTAAGCTAATTGA
1 AATGTT-ATATTTTATTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGA
* * * * *
80656 GCATTGAATTTCCCACGATAAGAAAATAAATTGAAAATTGAAAATGTTATGAATATATATAAGAA
65 GCATGGATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAGAA
* * * * * * * ** *
80721 ATATGGTTGTGCCTAAATATATCATGATAAATTAAGAAATAGGTCACGATATGAAATTTTAATAT
130 ATATGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCGATATGAAATGTTAATAT
* * * * **
80786 TTTTATTAATAAAATGGGATGTGCTCAAGAATGTCATGGTTCACTACTAAATAGGTTACAATATT
195 TTTTATTAATAAAATGGGTTGCGCCCAAGAATGTCATGATTCACTAAGAAATAGGTTACAATA--
80851 TG
258 TG
*
80853 AATGTTATATTTTATTAATAAAATGGGTTGCAC
1 AATGTTATATTTTATTAATAAAATGGATTGCAC
80886 ACAAGAATGA
Statistics
Matches: 455, Mismatches: 87, Indels: 31
0.79 0.15 0.05
Matches are distributed among these distances:
259 31 0.07
260 150 0.33
261 45 0.10
262 39 0.09
263 142 0.31
264 48 0.11
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (259 bp):
AATGTTATATTTTATTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGAG
CATGGATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAGAAA
TATGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCGATATGAAATGTTAATATT
TTTATTAATAAAATGGGTTGCGCCCAAGAATGTCATGATTCACTAAGAAATAGGTTACAATATG
Found at i:80555 original size:263 final size:260
Alignment explanation
Indices: 80075--80801 Score: 797
Period size: 263 Copynumber: 2.8 Consensus size: 260
80065 GAAATGTTAA
* * *
80075 TATTTTTATTAATAAAATGGGTTGCACCTAAAATGTTA-CATAGTTTAAGA-TGATGGAGCATTG
1 TATTTTTTTTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAA-ACTGATGGAGCA-TG
* *
80138 GATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTAGGAATATATAT--AAGAAATA
64 GATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAAAAAAATA
* *
80201 CGGTTGCGCCTAAAAATATCATGGTTAACTAAGAAACATGTTGCAATATGAAATGTTGATATTTT
129 CGGTTGCGCCTAAAAATATCATAGTTAACTAAGAAACATGTTGCAATATGAAATGTTAATATTTT
* *** * *
80266 TATTAATAAAATGGGTTGGGCCCAAGAATGTCATGATTCA-TGAAGAAATAGGTTACAATATGAA
194 TATTAATAAAATGAGTTACACCCAAGAATGTC-TCATTCACT-AAGAAATAGGTTACAACATGAA
80330 ATAT
257 ATAT
* ** * *
80334 TATTTTTTTTAATAAAATGAATTGCGTCTAAAATCTTACCACGGTTTAAACTGATGGAGCATAGG
1 TATTTTTTTTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGAGCAT-GG
* * *
80399 GTTTTCTCATGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAAAAAAAATA
65 ATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATAT-AAAAAAAATA
* * * * ** *
80464 TGGTTGCGTCTAAAAATGTCATAGTTTACTAAGAAACATGTTGGGATCT-AGAATGTTAATATTT
129 CGGTTGCGCCTAAAAATATCATAGTTAACTAAGAAACATGTTGCAATATGA-AATGTTAATATTT
* * * *
80528 TTATTAATAAAATGAGTTACACCCAAGAATGTCTCATTCACTAAGAAATAGGTTGCGACCTGGAA
193 TTATTAATAAAATGAGTTACACCCAAGAATGTCTCATTCACTAAGAAATAGGTTACAACATGAAA
*
80593 TGT
258 TAT
* * * * * * *
80596 TAATATTTTTTTAATAAATTGGATTGTACCTAAAATGTTACCACAATTTAAGCTAATTGAGCATT
1 T-AT-TTTTTTTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGAGCATG
* * * * *
80661 GAATTTCCCACGATAAGAAAATAAATTGAAAATTGAAAATGTTATGAATATATAT--AAGAAATA
64 GATTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAAAAAAATA
* * * * * * * ** * *
80724 TGGTTGTGCCTAAATATATCAT-GATAAATTAAGAAATAGGTCACGATATGAAATTTTAATATTT
129 CGGTTGCGCCTAAAAATATCATAG-TTAACTAAGAAACATGTTGCAATATGAAATGTTAATATTT
80788 TTATTAATAAAATG
193 TTATTAATAAAATG
80802 GGATGTGCTC
Statistics
Matches: 389, Mismatches: 67, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
259 35 0.09
260 137 0.35
261 1 0.00
262 28 0.07
263 140 0.36
264 48 0.12
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (260 bp):
TATTTTTTTTAATAAAATGGATTGCACCTAAAATGTTACCACAGTTTAAACTGATGGAGCATGGA
TTTTCCCACGATAAGAAAATAAGTTAAAAACTGAAAATGTTATGAATATATATAAAAAAAATACG
GTTGCGCCTAAAAATATCATAGTTAACTAAGAAACATGTTGCAATATGAAATGTTAATATTTTTA
TTAATAAAATGAGTTACACCCAAGAATGTCTCATTCACTAAGAAATAGGTTACAACATGAAATAT
Found at i:81242 original size:76 final size:76
Alignment explanation
Indices: 81106--81493 Score: 355
Period size: 75 Copynumber: 5.1 Consensus size: 76
81096 TCTTGTGTAT
* * * * * *
81106 AACCCATTTTATTAATAAAAATATTAACATTCAAAATCTA-ACCTTATTTCTTAACT-AACCATG
1 AACCCATTTTATTAA-AAAAATAATAATATTCCAGATC-ACAACTTATTTCTT-AGTGAACCATG
*
81169 ACATTTTTTGG-CGC
63 ACA-TTCTTGGACGC
* * * * * *
81183 ATCCCATTTTATTTAAAAAATAAAAATATTCCAAATCACAACCTATTTCTTAGTGAACCATAACA
1 AACCCATTTTATTAAAAAAATAATAATATTCCAGATCACAACTTATTTCTTAGTGAACCATGACA
81248 TTCTTGGACGC
66 TTCTTGGACGC
* * *** ** *
81259 AACTCA-TTTATTAATAAAAA-ATTAATATTATTGATCGTAACTTATTTCTTAGTAAACCATGAC
1 AACCCATTTTATTAA-AAAAATAATAATATTCCAGATCACAACTTATTTCTTAGTGAACCATGAC
81322 ATTCTT-GAGCGC
65 ATTCTTGGA-CGC
* *
81334 AACCCATTTTATTAATAAAAATATTAACATTCCAGATCGTA-AACTTATTTCTTAGTGAACCATG
1 AACCCATTTTATTAA-AAAAATAATAATATTCCAGATC--ACAACTTATTTCTTAGTGAACCATG
81398 ACATTC-TGGACGC
63 ACATTCTTGGACGC
* * * ** *
81411 AACACATTTT-TTAAAAAAAT-TTAACATTTTAGATCACAACTTATTTCTTAGTGAACAATGACA
1 AACCCATTTTATTAAAAAAATAATAATATTCCAGATCACAACTTATTTCTTAGTGAACCATGACA
81474 TTCTTGGACGC
66 TTCTTGGACGC
*
81485 AACTCATTT
1 AACCCATTT
81494 GTAATATATT
Statistics
Matches: 262, Mismatches: 37, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
72 1 0.00
73 28 0.11
74 30 0.11
75 68 0.26
76 67 0.26
77 38 0.15
78 30 0.11
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (76 bp):
AACCCATTTTATTAAAAAAATAATAATATTCCAGATCACAACTTATTTCTTAGTGAACCATGACA
TTCTTGGACGC
Found at i:81334 original size:151 final size:148
Alignment explanation
Indices: 81113--81493 Score: 421
Period size: 151 Copynumber: 2.5 Consensus size: 148
81103 TATAACCCAT
** * *
81113 TTTATTAATAAAAATATTAACATTCA-AAATCTAACCTTATTTCTTAACTAACCATGACATTTTT
1 TTTATTAATAAAAA-ATTAACATT-ATTGATCTAA-CTTATTTCTT-AGTAACCATGACA-TTCT
* * *
81177 TGGCGCATCCCATTTTATTTA-AAAAATAAAAATATTCCAAATC-ACAACCTATTTCTTAGTGAA
61 TGGCGCAACCCATTTTATTAATAAAAATAAAAACATTCCAAATCGA-AACCTATTTCTTAGTGAA
*
81240 CCATAACATTCTTGGACGCAACTCA
125 CCATAACATTC-TGGACGCAACACA
*
81265 TTTATTAATAAAAAATTAATATTATTGATCGTAACTTATTTCTTAGTAAACCATGACATTCTTGA
1 TTTATTAATAAAAAATTAACATTATTGATC-TAACTTATTTCTTAGT-AACCATGACATTCTTG-
** * *
81330 GCGCAACCCATTTTATTAATAAAAATATTAACATTCCAGATCGTAAACTTATTTCTTAGTGAACC
63 GCGCAACCCATTTTATTAATAAAAATAAAAACATTCCAAATCG-AAACCTATTTCTTAGTGAACC
*
81395 ATGACATTCTGGACGCAACACA
127 ATAACATTCTGGACGCAACACA
* * * *
81417 TTTTTTAA-AAAAATTTAACATT-TTAGATCACAACTTATTTCTTAGTGAACAATGACATTCTTG
1 TTTATTAATAAAAAATTAACATTATT-GATC-TAACTTATTTCTTAGT-AACCATGACATTCTTG
*
81480 GACGCAACTCATTT
63 G-CGCAACCCATTT
81494 GTAATATATT
Statistics
Matches: 198, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
150 11 0.06
151 105 0.53
152 54 0.27
153 27 0.14
154 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (148 bp):
TTTATTAATAAAAAATTAACATTATTGATCTAACTTATTTCTTAGTAACCATGACATTCTTGGCG
CAACCCATTTTATTAATAAAAATAAAAACATTCCAAATCGAAACCTATTTCTTAGTGAACCATAA
CATTCTGGACGCAACACA
Found at i:81488 original size:37 final size:37
Alignment explanation
Indices: 81227--81493 Score: 98
Period size: 37 Copynumber: 7.1 Consensus size: 37
81217 ATCACAACCT
* *
81227 ATTTCTTAGTGAACCATAACATTCTTGGACGCAACTC
1 ATTTCTTAGTGAACAATGACATTCTTGGACGCAACTC
* * * * * * * * *
81264 ATTTATTAATAAAAAATTAATATTATT-GATCGTAACTT
1 ATTTCTTAGTGAACAA-TGACATTCTTGGA-CGCAACTC
* * *
81302 ATTTCTTAGTAAACCATGACATTCTT-GAGCGCAACCC
1 ATTTCTTAGTGAACAATGACATTCTTGGA-CGCAACTC
* * * * * ** * *
81339 ATTTTATTAATAAAAATATTAACATTC-CAGATCGTAAACTT
1 A-TTTCTTAGTGAACA-A-TGACATTCTTGGA-CG-CAACTC
* *
81380 ATTTCTTAGTGAACCATGACATTC-TGGACGCAACAC
1 ATTTCTTAGTGAACAATGACATTCTTGGACGCAACTC
* * * * * * *
81416 ATTTTTTA--AAAAAATTTAACATT-TTAGATCACAACTT
1 ATTTCTTAGTGAACAA--TGACATTCTTGGA-CGCAACTC
81453 ATTTCTTAGTGAACAATGACATTCTTGGACGCAACTC
1 ATTTCTTAGTGAACAATGACATTCTTGGACGCAACTC
81490 ATTT
1 ATTT
81494 GTAATATATT
Statistics
Matches: 159, Mismatches: 57, Indels: 28
0.65 0.23 0.11
Matches are distributed among these distances:
34 3 0.02
36 19 0.12
37 58 0.36
38 49 0.31
39 6 0.04
40 20 0.13
41 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (37 bp):
ATTTCTTAGTGAACAATGACATTCTTGGACGCAACTC
Found at i:81596 original size:124 final size:121
Alignment explanation
Indices: 81379--81604 Score: 310
Period size: 124 Copynumber: 1.8 Consensus size: 121
81369 ATCGTAAACT
**
81379 TATTTCTTAGTGAACCATGACATTCTGGACGCAACACATTTTTTAAAAAAATTTAACATTTTAGA
1 TATTTCTTAGTGAACCATGACATTCTGGACGCAACACATTTTTTAAAAAAATTTAACATTACAGA
81444 TCACAACTTATTTCTTAGTGAACAATGACATTCTTGGACGCAACTCATTTGTAATA
66 TCACAACTTATTTCTTAGTGAACAATGACATTCTTGGACGCAACTCATTTGTAATA
* * * ** *
81500 TATTTCTTAGTGAATCATTACATTTTGGGGTGCAAC-CTATTTTATTAATAAAATATTAACATTA
1 TATTTCTTAGTGAACCATGACATTCT-GGACGCAACAC-ATTTT-TTAAAAAAAT-TTAACATTA
** *
81564 CAGATCGTAACTTATTTCTTAGTGAACCATGACATTCTTGG
62 CAGATCACAACTTATTTCTTAGTGAACAATGACATTCTTGG
81605 GTGTAACTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
121 24 0.27
122 12 0.13
123 9 0.10
124 45 0.50
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (121 bp):
TATTTCTTAGTGAACCATGACATTCTGGACGCAACACATTTTTTAAAAAAATTTAACATTACAGA
TCACAACTTATTTCTTAGTGAACAATGACATTCTTGGACGCAACTCATTTGTAATA
Found at i:81626 original size:76 final size:76
Alignment explanation
Indices: 81500--81694 Score: 275
Period size: 77 Copynumber: 2.5 Consensus size: 76
81490 ATTTGTAATA
* * *
81500 TATTTCTTAGTGAATCATTACATTTTGGGGTGCAACCTATTTTATTAAT-AAAATATTAACATTA
1 TATTTCTTAGTGAACCATGACATTTT-GGGTGCAACTTATTTTATTAATAAAAATATTAACATTA
* *
81564 CAGATCGTAACT
65 CAGATCGCAACC
*
81576 TATTTCTTAGTGAACCATGACATTCTTGGGTGTAACTTATTTTATTAATAAAAATATTAACATTA
1 TATTTCTTAGTGAACCATGACATT-TTGGGTGCAACTTATTTTATTAATAAAAATATTAACATTA
*
81641 CATATCGCAACC
65 CAGATCGCAACC
* *
81653 TGTTTCTTAGTGAACCATGACATTTTAGGTGCAACTGTATTT
1 TATTTCTTAGTGAACCATGACATTTTGGGTGCAACT-TATTT
81695 CTTATATATA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
76 52 0.49
77 54 0.51
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (76 bp):
TATTTCTTAGTGAACCATGACATTTTGGGTGCAACTTATTTTATTAATAAAAATATTAACATTAC
AGATCGCAACC
Found at i:84140 original size:32 final size:32
Alignment explanation
Indices: 84104--84377 Score: 172
Period size: 34 Copynumber: 8.3 Consensus size: 32
84094 TATACATAAT
*
84104 AAATATATATATAGTTTTGAAAACATTTTTGA
1 AAATATATATATAATTTTGAAAACATTTTTGA
* **
84136 AAATATATA-ATATATTTTGAAAACGTTTGAGA
1 AAATATATATATA-ATTTTGAAAACATTTTTGA
* ***
84168 AAATATATAATTTTGAATTTTG-AATTTTTTTTG-
1 AAATATAT-A-TAT-AATTTTGAAAACATTTTTGA
* *
84201 --A-AT-TATATAGTTTTGAAATCA-TTTTGAA
1 AAATATATATATAATTTTGAAAACATTTTTG-A
* *
84229 AATATATAATATATAATTTTGAAAATATTTTTAAA
1 AA-ATAT-ATATATAATTTTGAAAACATTTTT-GA
* *
84264 AAATATAATGTATAGTTTTGAAAACA-TTTTGAA
1 AAATAT-ATATATAATTTTGAAAACATTTTTG-A
* *
84297 AATATATAATATATAATTTTGAAAACGTTTTGGAA
1 AA-ATAT-ATATATAATTTTGAAAACATTTTTG-A
84332 AATATATATATTATATATTTTAGAAAACA-TTTTGA
1 AA-ATATATA-TATA-ATTTT-GAAAACATTTTTGA
*
84367 AAATTTATATA
1 AAATATATATA
84378 AAATATAATA
Statistics
Matches: 191, Mismatches: 29, Indels: 43
0.73 0.11 0.16
Matches are distributed among these distances:
26 11 0.06
27 5 0.03
28 1 0.01
29 1 0.01
30 2 0.01
31 5 0.03
32 34 0.18
33 10 0.05
34 72 0.38
35 34 0.18
36 10 0.05
37 6 0.03
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (32 bp):
AAATATATATATAATTTTGAAAACATTTTTGA
Found at i:84249 original size:34 final size:34
Alignment explanation
Indices: 84204--84419 Score: 227
Period size: 34 Copynumber: 6.1 Consensus size: 34
84194 TTTTTTGAAT
* *
84204 TATATAGTTTTGAAATCATTTTGAAAATATATAA
1 TATATAATTTTGAAAACATTTTGAAAATATATAA
* * *
84238 TATATAATTTTGAAAATATTTTTAAAAAATATAA
1 TATATAATTTTGAAAACATTTTGAAAATATATAA
* *
84272 TGTATAGTTTTGAAAACATTTTGAAAATATATAA
1 TATATAATTTTGAAAACATTTTGAAAATATATAA
*
84306 TATATAATTTTGAAAACGTTTTGGAAAATATAT-A
1 TATATAATTTTGAAAACATTTT-GAAAATATATAA
84340 TATTATATATTTTAGAAAACATTTTGAAAATTTATATAA
1 TA-TATA-ATTTT-GAAAACATTTTGAAAA--TATATAA
* * **
84379 AATATAATATTTTGAAAAAAAATTCCGAAAATATATAA
1 TATAT-A-ATTTTG--AAAACATTTTGAAAATATATAA
84417 TAT
1 TAT
84420 TATTTTTTAT
Statistics
Matches: 153, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
34 80 0.52
35 14 0.09
36 10 0.07
37 10 0.07
38 18 0.12
39 9 0.06
40 12 0.08
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (34 bp):
TATATAATTTTGAAAACATTTTGAAAATATATAA
Found at i:84337 original size:128 final size:126
Alignment explanation
Indices: 84106--84337 Score: 283
Period size: 128 Copynumber: 1.8 Consensus size: 126
84096 TACATAATAA
* * *
84106 ATATATATATAGTTTTGAAAACATTTTTGAAAATATATAATATATTTTGAAAACGTTTGAGAAAA
1 ATATATATATAATTTTGAAAACATTTTTGAAAAAATATAATATATTTTGAAAACATTTGAGAAAA
* *** * *
84171 TATATAATTTTGAATTTTGAATTTTTTTTGAATTATATAGTTTTGAAATCATTTTGAAAAT
66 TATATAATTATGAATTTTGAAACGTTTTGGAATAATATAGTTTTGAAATCATTTTGAAAAT
* *
84232 ATATAATATATAATTTTGAAAATATTTTT-AAAAAATATAATGTATAGTTTTGAAAACATTT-TG
1 ATAT-ATATATAATTTTGAAAACATTTTTGAAAAAATATAA--TATA-TTTTGAAAACATTTGAG
84295 AAAATATATAATATAT-AATTTTGAAAACGTTTTGGAA-AATATA
62 AAAATATATAAT-TATGAATTTTG-AAACGTTTTGGAATAATATA
84338 TATATTATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
126 14 0.16
127 22 0.25
128 29 0.33
129 24 0.27
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (126 bp):
ATATATATATAATTTTGAAAACATTTTTGAAAAAATATAATATATTTTGAAAACATTTGAGAAAA
TATATAATTATGAATTTTGAAACGTTTTGGAATAATATAGTTTTGAAATCATTTTGAAAAT
Found at i:84358 original size:128 final size:126
Alignment explanation
Indices: 84106--84343 Score: 277
Period size: 129 Copynumber: 1.9 Consensus size: 126
84096 TACATAATAA
* * *
84106 ATATATATATAGTTTTGAAAACATTTTTGAAAATATATAATATATTTTGAAAACGTTTGAGAAAA
1 ATATATATATAATTTTGAAAACATTTTTGAAAAAATATAATATATTTTGAAAACATTTGAGAAAA
* *** * * *
84171 TATATAATTTTGAATTTTGAATTTTTTTTGAATTATATAGTTTTGAAATCATTTTGAAAAT
66 TATATAATTATGAATTTTGAAACGTTTTGGAAATATATAGTATTGAAATCATTTTGAAAAT
* *
84232 ATATAATATATAATTTTGAAAATATTTTT-AAAAAATATAATGTATAGTTTTGAAAACATTT-TG
1 ATAT-ATATATAATTTTGAAAACATTTTTGAAAAAATATAA--TATA-TTTTGAAAACATTTGAG
84295 AAAATATATAATATAT-AATTTTGAAAACGTTTTGGAAAATATATA-TATT
62 AAAATATATAAT-TATGAATTTTG-AAACGTTTTGG-AAATATATAGTATT
84344 ATATATTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
126 14 0.15
127 22 0.24
128 24 0.26
129 25 0.27
130 8 0.09
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (126 bp):
ATATATATATAATTTTGAAAACATTTTTGAAAAAATATAATATATTTTGAAAACATTTGAGAAAA
TATATAATTATGAATTTTGAAACGTTTTGGAAATATATAGTATTGAAATCATTTTGAAAAT
Found at i:84813 original size:18 final size:18
Alignment explanation
Indices: 84790--84825 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84780 TGTTTTAGCC
*
84790 GGTCAACCAACAACCCTT
1 GGTCAAACAACAACCCTT
*
84808 GGTCAAACAATAACCCTT
1 GGTCAAACAACAACCCTT
84826 AACCTCGAAC
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:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (18 bp):
GGTCAAACAACAACCCTT
Found at i:86664 original size:24 final size:24
Alignment explanation
Indices: 86637--86698 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 24
86627 AGGTTTTTTC
*
86637 TTTTAGTTTTTAT-ATATTAGATTT
1 TTTTAGTTTTTATCATACTAG-TTT
**
86661 TTTTTCTTTTT-TCATACTAGTTT
1 TTTTAGTTTTTATCATACTAGTTT
86684 TATTATAGTTTTTAT
1 T-TT-TAGTTTTTAT
86699 TACTCGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.17
24 17 0.59
25 6 0.21
26 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTAGTTTTTATCATACTAGTTT
Done.