Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 43
Found at i:8661681 original size:16 final size:16
Alignment explanation
Indices: 8661655--8661696 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
8661645 TGGTGTCTTT
8661655 TGAAC-CGATTTAGATG
1 TGAACACGATTTAG-TG
8661671 -GAACACGATTTAGTG
1 TGAACACGATTTAGTG
*
8661686 TGAAAACGATT
1 TGAACACGATT
8661697 GTTTCAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (16 bp):
TGAACACGATTTAGTG
Found at i:8667301 original size:13 final size:13
Alignment explanation
Indices: 8667283--8667308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8667273 ATTTCTTTTA
8667283 TCTTTTCATTTCT
1 TCTTTTCATTTCT
8667296 TCTTTTCATTTCT
1 TCTTTTCATTTCT
8667309 ATCCTAACAT
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:0.23, G:0.00, T:0.69
Consensus pattern (13 bp):
TCTTTTCATTTCT
Found at i:8669961 original size:15 final size:14
Alignment explanation
Indices: 8669934--8669963 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8669924 TATAACATAG
8669934 ATATATTCATCTAT
1 ATATATTCATCTAT
8669948 ATATATTACATCTAT
1 ATATATT-CATCTAT
8669963 A
1 A
8669964 ACTATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTCATCTAT
Found at i:8675971 original size:24 final size:24
Alignment explanation
Indices: 8675940--8675991 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
8675930 CTTTTGGTGA
8675940 TCCACAAGACATGTCACTTGAAGT
1 TCCACAAGACATGTCACTTGAAGT
*
8675964 TCCACAAGACATGTCACTTGAATT
1 TCCACAAGACATGTCACTTGAAGT
8675988 TCCA
1 TCCA
8675992 AAATATGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (24 bp):
TCCACAAGACATGTCACTTGAAGT
Found at i:8678207 original size:19 final size:18
Alignment explanation
Indices: 8678179--8678218 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
8678169 TAATCGACCA
8678179 AAAGCATGTACTTTCATT
1 AAAGCATGTACTTTCATT
*
8678197 AAAGCCATGTATTTTCATT
1 AAAG-CATGTACTTTCATT
8678216 AAA
1 AAA
8678219 AATCATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAGCATGTACTTTCATT
Found at i:8682059 original size:40 final size:39
Alignment explanation
Indices: 8682015--8682141 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
8682005 TATCTCGTAT
* * *
8682015 AATACATCATCACTCTCGTACTTAGGTGTGTATCTCATGC
1 AATACATCA-CATTCTCGTAATTAGGTGTGTATCCCATGC
* * * *
8682055 AATACATCACATTTCTAGTAGTTTGGTGTGTATCCCATAC
1 AATACATCACA-TTCTCGTAATTAGGTGTGTATCCCATGC
*
8682095 AATTA-ATCACCATTGTCGTAATTAGGTGTGTATCCCATGC
1 AA-TACATCA-CATTCTCGTAATTAGGTGTGTATCCCATGC
8682135 AATACAT
1 AATACAT
8682142 AACCTTTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.06
40 64 0.89
41 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (39 bp):
AATACATCACATTCTCGTAATTAGGTGTGTATCCCATGC
Found at i:8682157 original size:40 final size:40
Alignment explanation
Indices: 8682036--8682159 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
8682026 ACTCTCGTAC
* * * ** *
8682036 TTAGGTGTGTATCTCATGCAATACATCACATTTCTAGTAG
1 TTAGGTGTGTATCCCATGCAATACATCACCTTTTTTCTAA
* * * *
8682076 TTTGGTGTGTATCCCATACAATTA-ATCACC-ATTGTCGTAA
1 TTAGGTGTGTATCCCATGCAA-TACATCACCTTTTTTC-TAA
*
8682116 TTAGGTGTGTATCCCATGCAATACATAACCTTTTTTCTAA
1 TTAGGTGTGTATCCCATGCAATACATCACCTTTTTTCTAA
8682156 TTAG
1 TTAG
8682160 TGCCAATACA
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
39 3 0.05
40 56 0.86
41 6 0.09
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (40 bp):
TTAGGTGTGTATCCCATGCAATACATCACCTTTTTTCTAA
Found at i:8682299 original size:39 final size:39
Alignment explanation
Indices: 8682211--8682299 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
8682201 TCCATACCAC
* * **
8682211 TATTTTGGTAAACATACTCTAAAACGGTTCCCATATTGA
1 TATTTTGGTACACATACTATAAAACAATTCCCATATTGA
* * *
8682250 TGTTCTGGTACATATACTATAAAACAATTCCCATATTGA
1 TATTTTGGTACACATACTATAAAACAATTCCCATATTGA
8682289 TATTTTGGTAC
1 TATTTTGGTAC
8682300 CGATGAGTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (39 bp):
TATTTTGGTACACATACTATAAAACAATTCCCATATTGA
Found at i:8683783 original size:61 final size:61
Alignment explanation
Indices: 8683688--8683822 Score: 252
Period size: 61 Copynumber: 2.2 Consensus size: 61
8683678 TAGTCCTGAG
* *
8683688 TTGGTATCGATATCAAAACTAGCTACTTGAATTTCTATCCCAATATTCTCTGAAATCTCAA
1 TTGGTATCGATATCAAAACTAGCTACTTGAATTTCTATCCCAAAATTCTCTGAAATATCAA
8683749 TTGGTATCGATATCAAAACTAGCTACTTGAATTTCTATCCCAAAATTCTCTGAAATATCAA
1 TTGGTATCGATATCAAAACTAGCTACTTGAATTTCTATCCCAAAATTCTCTGAAATATCAA
8683810 TTGGTATCGATAT
1 TTGGTATCGATAT
8683823 TGTTCTATTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (61 bp):
TTGGTATCGATATCAAAACTAGCTACTTGAATTTCTATCCCAAAATTCTCTGAAATATCAA
Found at i:8686232 original size:21 final size:21
Alignment explanation
Indices: 8686183--8686232 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
8686173 TATTTACAAG
* *
8686183 AAATAAAAAAATCTCAAAGTT
1 AAATAAAAAAATCTAAAAATT
**
8686204 AAATTAAAATTATCTAAAAATT
1 AAA-TAAAAAAATCTAAAAATT
8686226 AAATAAA
1 AAATAAA
8686233 GACTCAAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATAAAAAAATCTAAAAATT
Found at i:8686930 original size:16 final size:16
Alignment explanation
Indices: 8686909--8686940 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8686899 AAAATAAAAT
*
8686909 AAAATTTAAAACTGAA
1 AAAATTTAAAAATGAA
8686925 AAAATTTAAAAATGAA
1 AAAATTTAAAAATGAA
8686941 TTCAACCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAATTTAAAAATGAA
Found at i:8690991 original size:11 final size:10
Alignment explanation
Indices: 8690970--8690994 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8690960 TTTATCAAAT
8690970 AAAAGAAAAA
1 AAAAGAAAAA
8690980 AAAAGAAAAA
1 AAAAGAAAAA
8690990 AAAAG
1 AAAAG
8690995 GAGAAGAAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:8694362 original size:12 final size:11
Alignment explanation
Indices: 8694341--8694365 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8694331 CTTCCCAAGT
8694341 CTTGAAAAAAA
1 CTTGAAAAAAA
8694352 CTTGAAAAAAA
1 CTTGAAAAAAA
8694363 CTT
1 CTT
8694366 TTCCTTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (11 bp):
CTTGAAAAAAA
Found at i:8695990 original size:4 final size:4
Alignment explanation
Indices: 8695981--8696018 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
8695971 CTAAGTATTG
* *
8695981 TTTA TTTA TTTA TTAA TTAA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
8696019 CTCATATTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:8696246 original size:16 final size:16
Alignment explanation
Indices: 8696204--8696247 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8696194 CTGCTAACCA
* *
8696204 CTAACCGCTAACTTTT
1 CTAACTGCTAACATTT
8696220 CTAACAT-CTAACATTT
1 CTAAC-TGCTAACATTT
8696236 CTAACTGCTAAC
1 CTAACTGCTAAC
8696248 CACTAACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.34
Consensus pattern (16 bp):
CTAACTGCTAACATTT
Found at i:8697724 original size:21 final size:21
Alignment explanation
Indices: 8697697--8697744 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
8697687 TCAACATGAC
8697697 ATCCATAACAACAAACTTTAA
1 ATCCATAACAACAAACTTTAA
* *
8697718 TTCCATAACAACCAACTTTAA
1 ATCCATAACAACAAACTTTAA
8697739 ATCCAT
1 ATCCAT
8697745 TATAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
ATCCATAACAACAAACTTTAA
Found at i:8706217 original size:43 final size:42
Alignment explanation
Indices: 8706160--8706298 Score: 165
Period size: 42 Copynumber: 3.3 Consensus size: 42
8706150 AAATACAAAT
* *
8706160 GCCACTAAGGTACATGACTATTGCTGAGTTTATTACAAAAAAC
1 GCCACTAAAGTACATGACTATTGCGGAGTTTATTA-AAAAAAC
* * * *
8706203 GCCACTAAATTACATGATTATTACGGTGTTTATTAAAAAAAC
1 GCCACTAAAGTACATGACTATTGCGGAGTTTATTAAAAAAAC
* * * *
8706245 GCCACTAAAGTACACGACTATTGCGGCG-TT-TGAACAAAAC
1 GCCACTAAAGTACATGACTATTGCGGAGTTTATTAAAAAAAC
8706285 GCCACTAAAGTACA
1 GCCACTAAAGTACA
8706299 AGTCTATAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 22 0.27
41 2 0.02
42 30 0.36
43 29 0.35
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (42 bp):
GCCACTAAAGTACATGACTATTGCGGAGTTTATTAAAAAAAC
Found at i:8706295 original size:40 final size:40
Alignment explanation
Indices: 8706160--8706316 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
8706150 AAATACAAAT
* * * * *
8706160 GCCACTAAGGTACATGACTATTGCTGAGTTTATTACAAAAAAC
1 GCCACTAAAGTACAAGACTATTGCGGCG-TT-TGA-AAAAAAC
* * * * * *
8706203 GCCACTAAATTACATGATTATTACGGTGTTTATTAAAAAAAC
1 GCCACTAAAGTACAAGACTATTGCGGCG-TT-TGAAAAAAAC
* *
8706245 GCCACTAAAGTACACGACTATTGCGGCGTTTGAACAAAAC
1 GCCACTAAAGTACAAGACTATTGCGGCGTTTGAAAAAAAC
* *
8706285 GCCACTAAAGTACAAGTCTATAGCGGCGTTTG
1 GCCACTAAAGTACAAGACTATTGCGGCGTTTG
8706317 TTTATAAACA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
40 37 0.38
41 2 0.02
42 30 0.31
43 29 0.30
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (40 bp):
GCCACTAAAGTACAAGACTATTGCGGCGTTTGAAAAAAAC
Found at i:8706697 original size:40 final size:41
Alignment explanation
Indices: 8706652--8706769 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 41
8706642 TATTAACCCT
* *
8706652 ATTGTGGTGTTTGTAT-AAAACACCGCTAACGTACTACTCA
1 ATTGTGGTGTTTGTATAAAAACACCACTAAAGTACTACTCA
* ** *
8706692 ATTGTGGTATTTGT-TGCAAAAATGCCACTAAAGTACTACTCT
1 ATTGTGGTGTTTGTAT--AAAAACACCACTAAAGTACTACTCA
* * *
8706734 ATTGTGGCGTTTGGATAAAAACACCACAAAAGTACT
1 ATTGTGGTGTTTGTATAAAAACACCACTAAAGTACT
8706770 CTCTGTTGCG
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
39 1 0.02
40 13 0.21
41 17 0.27
42 30 0.48
43 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (41 bp):
ATTGTGGTGTTTGTATAAAAACACCACTAAAGTACTACTCA
Found at i:8706736 original size:82 final size:83
Alignment explanation
Indices: 8706487--8706835 Score: 323
Period size: 82 Copynumber: 4.2 Consensus size: 83
8706477 CATTTTAATC
* * * * * *
8706487 ATTGTGGGGTTTGTATAGAAACGCTGCTAAAGTACAACTCTATTGTGGAATTTGTT-AAAAAATG
1 ATTGTGGCGTTTGTATA-AAACACCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAATG
*
8706551 CCACTACAG-ATTAACCCT
65 CCACTAAAGTATTAACCCT
* * * * * * * *
8706569 ATTGCGCCGTTTATATAAAACCGCCGCTAAAGTGCTTCTCTATTGCGGCGTTTGTTGGAAAAATG
1 ATTGTGGCGTTTGTATAAAA-CACCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAATG
*
8706634 CCACTATA-TATTAACCCT
65 CCACTAAAGTATTAACCCT
* * * * * *
8706652 ATTGTGGTGTTTGTATAAAACACCGCTAACGTACTACTCAATTGTGGTATTTGTTGCAAAAATGC
1 ATTGTGGCGTTTGTATAAAACACCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAATGC
* *
8706717 CACTAAAGTACT-ACTCT
66 CACTAAAGTATTAACCCT
* * * * *
8706734 ATTGTGGCGTTTGGATAAAAACACCACAAAAGTACT-CTCTGTTGCGGCGTTTGTTGAAAAAATG
1 ATTGTGGCGTTTGTAT-AAAACACCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAATG
* *
8706798 CCACTATA-TATGAACCCT
65 CCACTAAAGTATTAACCCT
* * *
8706816 ATTGCGGTGTTTATATAAAA
1 ATTGTGGCGTTTGTATAAAA
8706836 ATGCCGCTAA
Statistics
Matches: 213, Mismatches: 48, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
81 9 0.04
82 146 0.69
83 58 0.27
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (83 bp):
ATTGTGGCGTTTGTATAAAACACCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAATGC
CACTAAAGTATTAACCCT
Found at i:8706738 original size:42 final size:41
Alignment explanation
Indices: 8706513--8706803 Score: 148
Period size: 41 Copynumber: 7.1 Consensus size: 41
8706503 AGAAACGCTG
* ** *
8706513 CTAAAGTACAACTCTATTGTGGAATTTGTTAAAAAATGCCA
1 CTAAAGTACTACTCTATTGTGGTGTTTGTTGAAAAATGCCA
* * * * ** * ** *
8706554 CTACAG-ATTAACCCTATTGCGCCGTTTATAT-AAAACCGCCG
1 CTAAAGTACT-ACTCTATTGTGGTGTTTGT-TGAAAAATGCCA
* * * *
8706595 CTAAAGTGCTTCTCTATTGCGGCGTTTGTTGGAAAAATGCCA
1 CTAAAGTACTACTCTATTGTGGTGTTTGTT-GAAAAATGCCA
* * * *
8706637 CTATA-TATTAACCCTATTGTGGTGTTTGTAT-AAAACA--CCG
1 CTAAAGTACT-ACTCTATTGTGGTGTTTGT-TGAAAA-ATGCCA
* * *
8706677 CTAACGTACTACTCAATTGTGGTATTTGTTGCAAAAATGCCA
1 CTAAAGTACTACTCTATTGTGGTGTTTGTTG-AAAAATGCCA
* * **
8706719 CTAAAGTACTACTCTATTGTGGCGTTTGGAT-AAAAACACCA
1 CTAAAGTACTACTCTATTGTGGTGTTT-GTTGAAAAATGCCA
* * * *
8706760 CAAAAGTACT-CTCTGTTGCGGCGTTTGTTGAAAAAATGCCA
1 CTAAAGTACTACTCTATTGTGGTGTTTGTTG-AAAAATGCCA
8706801 CTA
1 CTA
8706804 TATATGAACC
Statistics
Matches: 183, Mismatches: 51, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
39 3 0.02
40 38 0.21
41 85 0.46
42 54 0.30
43 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (41 bp):
CTAAAGTACTACTCTATTGTGGTGTTTGTTGAAAAATGCCA
Found at i:8706789 original size:164 final size:164
Alignment explanation
Indices: 8706487--8706835 Score: 432
Period size: 164 Copynumber: 2.1 Consensus size: 164
8706477 CATTTTAATC
* * * *
8706487 ATTGTGGGGTTTGTATAGAAACGCTGCTAAAGTACAACTCTATTGTGGAATTTGTTAAAAAATGC
1 ATTGTGGTGTTTGTATA-AAACACCGCTAAAGTACAACTCAATTGTGGAATTTGTTAAAAAATGC
* * * * * * * *
8706552 CACTACAGATTAACCCTATTGCGCCGTTTATATAAAACCGCCGCTAAAGTGCTTCTCTATTGCGG
65 CACTAAAGACTAACCCTATTGCGCCGTTTAGATAAAAACACCACAAAAGTACTTCTCTATTGCGG
* *
8706617 CGTTTGTTGGAAAAATGCCACTATATATTAACCCT
130 CGTTTGTTGAAAAAATGCCACTATATATGAACCCT
* * * *
8706652 ATTGTGGTGTTTGTATAAAACACCGCTAACGTACTACTCAATTGTGGTATTTGTTGCAAAAATGC
1 ATTGTGGTGTTTGTATAAAACACCGCTAAAGTACAACTCAATTGTGGAATTTGTT-AAAAAATGC
* * * * *
8706717 CACTAAAGTACT-ACTCTATTGTGGCGTTTGGATAAAAACACCACAAAAGTAC-TCTCTGTTGCG
65 CACTAAAG-ACTAACCCTATTGCGCCGTTTAGATAAAAACACCACAAAAGTACTTCTCTATTGCG
8706780 GCGTTTGTTGAAAAAATGCCACTATATATGAACCCT
129 GCGTTTGTTGAAAAAATGCCACTATATATGAACCCT
* *
8706816 ATTGCGGTGTTTATATAAAA
1 ATTGTGGTGTTTGTATAAAA
8706836 ATGCCGCTAA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
164 94 0.60
165 61 0.39
166 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (164 bp):
ATTGTGGTGTTTGTATAAAACACCGCTAAAGTACAACTCAATTGTGGAATTTGTTAAAAAATGCC
ACTAAAGACTAACCCTATTGCGCCGTTTAGATAAAAACACCACAAAAGTACTTCTCTATTGCGGC
GTTTGTTGAAAAAATGCCACTATATATGAACCCT
Found at i:8706795 original size:41 final size:42
Alignment explanation
Indices: 8706597--8706795 Score: 113
Period size: 42 Copynumber: 4.8 Consensus size: 42
8706587 AACCGCCGCT
* * * ** *
8706597 AAAGTGCTTCTCTATTGCGGCGTTTGTTGGAAAAATGCCACT
1 AAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAACACCACA
* * * * * * * *
8706639 ATA-TATTAACCCTATTGTGGTGTTTG-T-ATAAAACACCGCT
1 AAAGTACT-ACTCTATTGCGGCGTTTGTTGAAAAAACACCACA
* * * ** * ** *
8706679 AACGTACTACTCAATTGTGGTATTTGTTGCAAAAATGCCACT
1 AAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAACACCACA
*
8706721 AAAGTACTACTCTATTGTGGCGTTTG--GATAAAAACACCACA
1 AAAGTACTACTCTATTGCGGCGTTTGTTGA-AAAAACACCACA
*
8706762 AAAGTACT-CTCTGTTGCGGCGTTTGTTGAAAAAA
1 AAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAA
8706796 TGCCACTATA
Statistics
Matches: 117, Mismatches: 33, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
40 40 0.34
41 29 0.25
42 48 0.41
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (42 bp):
AAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAACACCACA
Found at i:8724818 original size:30 final size:32
Alignment explanation
Indices: 8724777--8724841 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
8724767 CTTTACTTAG
**
8724777 CATTATATTATGTTTACATATGTTTTAGAT-T
1 CATTATATTATGTTTACATATCATTTAGATAT
*
8724808 CATT-TATTATGTTTGCATATCATTTAGATAT
1 CATTATATTATGTTTACATATCATTTAGATAT
8724839 CAT
1 CAT
8724842 GGCAGCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.52
Consensus pattern (32 bp):
CATTATATTATGTTTACATATCATTTAGATAT
Found at i:8725545 original size:22 final size:22
Alignment explanation
Indices: 8725520--8725573 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
8725510 GCAAGAAGAC
8725520 CCATGTGCATTCAAGTAGGCTG
1 CCATGTGCATTCAAGTAGGCTG
8725542 CCATGTGCATTCAAGTAGGCTG
1 CCATGTGCATTCAAGTAGGCTG
8725564 CCATGTGCAT
1 CCATGTGCAT
8725574 CATTCAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (22 bp):
CCATGTGCATTCAAGTAGGCTG
Found at i:8725766 original size:19 final size:20
Alignment explanation
Indices: 8725742--8725792 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8725732 CGGCCAAGAG
* *
8725742 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
8725761 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
8725781 CATGTATTTTCA
1 CATGTATTTTCA
8725793 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:8726229 original size:19 final size:20
Alignment explanation
Indices: 8726205--8726244 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8726195 TATCCCATCC
8726205 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
8726224 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
8726244 T
1 T
8726245 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:8726542 original size:27 final size:27
Alignment explanation
Indices: 8726518--8726570 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
8726508 TGCAAAAACA
* *
8726518 AAGAAAAAGACAAAAGAAGAGAAAAAT
1 AAGAAAAAAACAAAAGAAAAGAAAAAT
* *
8726545 CAGAAAAAAAGAAAAGAAAAGAAAAA
1 AAGAAAAAAACAAAAGAAAAGAAAAA
8726571 GAAAAATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (27 bp):
AAGAAAAAAACAAAAGAAAAGAAAAAT
Found at i:8726589 original size:18 final size:16
Alignment explanation
Indices: 8726510--8726589 Score: 56
Period size: 18 Copynumber: 4.6 Consensus size: 16
8726500 AATAGGAGTG
*
8726510 CAAAAACAAAGAAAAAGA
1 CAAAAA-AAAGAAAAA-T
*
8726528 CAAAAGAAGAGAAAAAT
1 CAAAA-AAAAGAAAAAT
8726545 CAGAAAAAAAGAAAAGA-
1 CA-AAAAAAAGAAAA-AT
8726562 -AAAGAAAAAGAAAAATT
1 CAAA-AAAAAGAAAAA-T
8726579 CAAAAAGAAAG
1 CAAAAA-AAAG
8726590 CAATCCAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 12 0.24
18 24 0.47
19 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.15, T:0.04
Consensus pattern (16 bp):
CAAAAAAAAGAAAAAT
Found at i:8729095 original size:30 final size:31
Alignment explanation
Indices: 8729059--8729118 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
8729049 CTTAGCTTTA
**
8729059 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
8729089 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
8729119 GGCAGCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:8730763 original size:19 final size:20
Alignment explanation
Indices: 8730708--8730766 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
8730698 GAGTGCAAAA
8730708 AGAAAGAAAAAGACAAAAGAAG
1 AGAAAG-AAAAGA-AAAAGAAG
*
8730730 AGAAA-AATCAG-AAAAGAAG
1 AGAAAGAA-AAGAAAAAGAAG
8730749 A-AAAGAAAAGAAAAAGAA
1 AGAAAGAAAAGAAAAAGAA
8730767 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.16
19 18 0.56
20 2 0.06
21 2 0.06
22 5 0.16
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAGAAAAAGAAG
Found at i:8734232 original size:19 final size:20
Alignment explanation
Indices: 8734208--8734258 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8734198 CGGCCAAGAG
* * *
8734208 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAA
8734227 CATGTATTTTCATAAAAAAA
1 CATGTATTTTCATAAAAAAA
8734247 CATGTATTTTCA
1 CATGTATTTTCA
8734259 AAGGGGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAA
Found at i:8734696 original size:19 final size:20
Alignment explanation
Indices: 8734672--8734711 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8734662 TATCCCATCC
8734672 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
8734691 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
8734711 T
1 T
8734712 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:8737775 original size:10 final size:10
Alignment explanation
Indices: 8737760--8737811 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
8737750 ATTAGAGTGC
8737760 AAAAAGAAAG
1 AAAAAGAAAG
8737770 AAAAAG--AG
1 AAAAAGAAAG
* *
8737778 AAAAATAAAA
1 AAAAAGAAAG
*
8737788 AAAAAGAAAA
1 AAAAAGAAAG
8737798 AAAAAGAAAAG
1 AAAAAG-AAAG
8737809 AAA
1 AAA
8737812 TTCAAAAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.20
10 22 0.63
11 6 0.17
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:8737781 original size:8 final size:8
Alignment explanation
Indices: 8737761--8737811 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
8737751 TTAGAGTGCA
8737761 AAAAGAAAG
1 AAAA-AAAG
*
8737770 AAAAAGAG
1 AAAAAAAG
8737778 AAAAATAA-
1 AAAAA-AAG
8737786 AAAAAAAG
1 AAAAAAAG
8737794 AAAAAAA-
1 AAAAAAAG
*
8737801 AAGAAAAG
1 AAAAAAAG
8737809 AAA
1 AAA
8737812 TTCAAAAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 8 0.23
8 22 0.63
9 5 0.14
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8737791 original size:18 final size:17
Alignment explanation
Indices: 8737760--8737807 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
8737750 ATTAGAGTGC
*
8737760 AAAAAGAAAGAAAAAGAG
1 AAAAAAAAAGAAAAA-AG
*
8737778 AAAAATAAA-AAAAAAG
1 AAAAAAAAAGAAAAAAG
8737794 AAAAAAAAAGAAAA
1 AAAAAAAAAGAAAA
8737808 GAAATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 10 0.37
17 9 0.33
18 8 0.30
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:8737797 original size:15 final size:15
Alignment explanation
Indices: 8737761--8737811 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
8737751 TTAGAGTGCA
*
8737761 AAAAGAAAGAAAAAG
1 AAAAGAAAAAAAAAG
* *
8737776 AGAA-AAATAAAAA-
1 AAAAGAAAAAAAAAG
8737789 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
8737804 AAAAGAAA
1 AAAAGAAA
8737812 TTCAAAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 16 0.53
15 11 0.37
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:8742014 original size:19 final size:20
Alignment explanation
Indices: 8741990--8742029 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8741980 TATCCTTTAT
8741990 TTATTTAATTTCATT-CTTA
1 TTATTTAATTTCATTACTTA
*
8742009 TTATTTATTTTCATTACTTA
1 TTATTTAATTTCATTACTTA
8742029 T
1 T
8742030 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTAATTTCATTACTTA
Found at i:8743486 original size:19 final size:20
Alignment explanation
Indices: 8743462--8743512 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8743452 CGGCCAAGAG
* *
8743462 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
8743481 CATGTATTTTCATAAAAAAT
1 CATGTATTTTCATAAAAAAT
8743501 CATGTATTTTCA
1 CATGTATTTTCA
8743513 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:8751445 original size:33 final size:33
Alignment explanation
Indices: 8751403--8751471 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
8751393 GTTGATGAAT
*
8751403 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
8751436 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
8751469 GAA
1 GAA
8751472 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:8755186 original size:12 final size:12
Alignment explanation
Indices: 8755169--8755197 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8755159 TCAAGATACT
8755169 ATCCTCACAACC
1 ATCCTCACAACC
8755181 ATCCTCACAACC
1 ATCCTCACAACC
8755193 ATCCT
1 ATCCT
8755198 TTTATTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (12 bp):
ATCCTCACAACC
Found at i:8755808 original size:49 final size:51
Alignment explanation
Indices: 8755711--8755819 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 51
8755701 AATGTATTGG
* *
8755711 AATGAATGCATTATAATATAATGAGCTGCCATGCAAGTGTGCATCAACTAA
1 AATGAATGCATTATAATATAATGAACTGCCATGCAAGTGTGCACCAACTAA
* * * *
8755762 AATGAATGTATTAT-A-ATAGTGAACTGCCGTGCATGTGTGCACCAACTAA
1 AATGAATGCATTATAATATAATGAACTGCCATGCAAGTGTGCACCAACTAA
8755811 AATGAATGC
1 AATGAATGC
8755820 CATGTGTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 37 0.73
50 1 0.02
51 13 0.25
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (51 bp):
AATGAATGCATTATAATATAATGAACTGCCATGCAAGTGTGCACCAACTAA
Found at i:8760319 original size:30 final size:29
Alignment explanation
Indices: 8760285--8760342 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8760275 TGGCTTTGCT
*
8760285 TTCTTTT-TGAATTCTTTTTCTTTTCTTTTG
1 TTCTTTTCTG-ATT-TTTCTCTTTTCTTTTG
*
8760315 TTCTTTTCTGATTTTTCTCTTTTTTTTT
1 TTCTTTTCTGATTTTTCTCTTTTCTTTT
8760343 TTTGCACTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 10 0.40
31 2 0.08
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (29 bp):
TTCTTTTCTGATTTTTCTCTTTTCTTTTG
Found at i:8761111 original size:19 final size:20
Alignment explanation
Indices: 8761070--8761120 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
8761060 GAAACCCCTT
*
8761070 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTTAA
8761090 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
8761109 TGAAGATACATG
1 TGAAAATACATG
8761121 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:8766010 original size:19 final size:20
Alignment explanation
Indices: 8765967--8766007 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8765957 TATCCTTTCT
8765967 TTATTTCATTTTCATTCTTA
1 TTATTTCATTTTCATTCTTA
8765987 TTATTTC-TTTTCATTACTTA
1 TTATTTCATTTTCATT-CTTA
8766007 T
1 T
8766008 ATTGTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTCATTTTCATTCTTA
Found at i:8772713 original size:23 final size:23
Alignment explanation
Indices: 8772660--8772713 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
8772650 AAGATATGGT
* *
8772660 AATGAAGTAAGAAAAGATGAAAG
1 AATGAAGAAAGAAAAGATGAAAA
* *
8772683 AATAAAGAAATGAAATGAT-AAAA
1 AATGAAGAAA-GAAAAGATGAAAA
8772706 AATGAAGA
1 AATGAAGA
8772714 TAACTTACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (23 bp):
AATGAAGAAAGAAAAGATGAAAA
Found at i:8772887 original size:20 final size:21
Alignment explanation
Indices: 8772843--8772887 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8772833 ACTTTCTTCA
8772843 CTTTTTCTTTACTTTTGATTT
1 CTTTTTCTTTACTTTTGATTT
* *
8772864 -TTTTTCTTTTCTTTT-CTTT
1 CTTTTTCTTTACTTTTGATTT
8772883 CTTTT
1 CTTTT
8772888 GCACTCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (21 bp):
CTTTTTCTTTACTTTTGATTT
Found at i:8773367 original size:35 final size:36
Alignment explanation
Indices: 8773320--8773387 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
8773310 ATTTAGAAGT
8773320 TGGTGATAATATAGGCATGAT-ATGGTGATGGAATA
1 TGGTGATAATATAGGCATGATAATGGTGATGGAATA
*
8773355 TGGTGATGATATAGGCATGATAATGGTGATGGA
1 TGGTGATAATATAGGCATGATAATGGTGATGGA
8773388 CAGATTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.32, C:0.03, G:0.34, T:0.31
Consensus pattern (36 bp):
TGGTGATAATATAGGCATGATAATGGTGATGGAATA
Found at i:8783573 original size:19 final size:20
Alignment explanation
Indices: 8783549--8783599 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8783539 CGGCCAAGAG
* *
8783549 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
8783568 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
8783588 CATGTATTTTCA
1 CATGTATTTTCA
8783600 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:8785378 original size:22 final size:22
Alignment explanation
Indices: 8785334--8785378 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8785324 TCAAAACACC
* *
8785334 TTGAAGAAGAACATTGAAGCAA
1 TTGAAGAACAACATTAAAGCAA
8785356 TTGAAGAACAAC-TTAAAGACAA
1 TTGAAGAACAACATTAAAG-CAA
8785378 T
1 T
8785379 GCAACTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (22 bp):
TTGAAGAACAACATTAAAGCAA
Found at i:8787489 original size:19 final size:20
Alignment explanation
Indices: 8787465--8787515 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8787455 CGGCCAAGAG
* *
8787465 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
8787484 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
8787504 CATGTATTTTCA
1 CATGTATTTTCA
8787516 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:8787891 original size:12 final size:12
Alignment explanation
Indices: 8787874--8787920 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
8787864 CATCTTCATT
8787874 TCATCATCAACA
1 TCATCATCAACA
8787886 TCATCATCAACA
1 TCATCATCAACA
* *
8787898 TCCTTCATCAAGA
1 T-CATCATCAACA
*
8787911 CCATCATCAA
1 TCATCATCAA
8787921 TCCCATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.38, C:0.34, G:0.02, T:0.26
Consensus pattern (12 bp):
TCATCATCAACA
Found at i:8791671 original size:45 final size:45
Alignment explanation
Indices: 8791599--8791708 Score: 188
Period size: 45 Copynumber: 2.5 Consensus size: 45
8791589 TGAATTTTCT
*
8791599 TCTTTTCTTTTC--TTTCTTTTGTACTCCAAATTTGTTGTAAGAG
1 TCTTTTCTTTTCTTTTTCTTTTGCACTCCAAATTTGTTGTAAGAG
*
8791642 TCTTTTCTTTTCTTTTTCTTTTGCACTCCAAATTTGTTGTAGGAG
1 TCTTTTCTTTTCTTTTTCTTTTGCACTCCAAATTTGTTGTAAGAG
8791687 TCTTTTCTTTTCTTTTTCTTTT
1 TCTTTTCTTTTCTTTTTCTTTT
8791709 CTTCTTTCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
43 12 0.19
45 51 0.81
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.61
Consensus pattern (45 bp):
TCTTTTCTTTTCTTTTTCTTTTGCACTCCAAATTTGTTGTAAGAG
Found at i:8806947 original size:23 final size:24
Alignment explanation
Indices: 8806921--8806972 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
8806911 ATCCAGCAAT
8806921 GAAAATCAAAGCACTC-AAAAGAA
1 GAAAATCAAAGCACTCGAAAAGAA
* *
8806944 GAAATTGAAAGCACTCGAAAAGAA
1 GAAAATCAAAGCACTCGAAAAGAA
8806968 GAAAA
1 GAAAA
8806973 AGAAAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (24 bp):
GAAAATCAAAGCACTCGAAAAGAA
Found at i:8806977 original size:24 final size:23
Alignment explanation
Indices: 8806928--8806978 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
8806918 AATGAAAATC
**
8806928 AAAGCACTCAAAAGAAGAAATTG
1 AAAGCACTCAAAAGAAGAAAAAG
8806951 AAAGCACTCGAAAAGAAGAAAAAG
1 AAAGCACTC-AAAAGAAGAAAAAG
8806975 AAAG
1 AAAG
8806979 AAAGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.61, C:0.12, G:0.20, T:0.08
Consensus pattern (23 bp):
AAAGCACTCAAAAGAAGAAAAAG
Found at i:8823043 original size:19 final size:20
Alignment explanation
Indices: 8823019--8823061 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8823009 AGCATTTATC
*
8823019 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
8823038 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
8823058 TTCA
1 TTCA
8823062 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:8823449 original size:36 final size:36
Alignment explanation
Indices: 8823402--8823506 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
8823392 GATACAATAT
8823402 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
8823438 GTCCATCACCATTGTCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
8823474 TTCCATCACCA-CATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
8823507 ACCTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.30
36 45 0.70
ACGTcount: A:0.30, C:0.37, G:0.06, T:0.28
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:8823954 original size:5 final size:5
Alignment explanation
Indices: 8823939--8823980 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
8823929 ATTGGAGTGC
8823939 AAAAG -AAAG AAAAG AAAAG --AAG AAAAG AAAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAA
8823981 AGTGAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 3 0.09
4 4 0.12
5 21 0.64
6 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8823958 original size:14 final size:15
Alignment explanation
Indices: 8823939--8823980 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
8823929 ATTGGAGTGC
8823939 AAAAGAAAGAAAAG-
1 AAAAGAAAGAAAAGA
8823953 AAAAG-AAGAAAAGA
1 AAAAGAAAGAAAAGA
8823967 AAAAGAAAAGAAAA
1 AAAAG-AAAGAAAA
8823981 AGTGAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.32
14 10 0.40
16 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:8823990 original size:11 final size:11
Alignment explanation
Indices: 8823944--8823982 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
8823934 AGTGCAAAAG
8823944 AAAGAAAAGAAA
1 AAAGAAAAG-AA
8823956 AGAAGAAAAGAA
1 A-AAGAAAAGAA
8823968 AAAGAAAAGAA
1 AAAGAAAAGAA
8823979 AAAG
1 AAAG
8823983 TGAAGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 14 0.54
12 4 0.15
13 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:8827209 original size:13 final size:12
Alignment explanation
Indices: 8827190--8827254 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
8827180 ATATAGCCGT
8827190 GATATGGTGATG
1 GATATGGTGATG
8827202 GAATATGGTGAT-
1 G-ATATGGTGATG
*
8827214 GATATAGGCG-T-
1 GATAT-GGTGATG
8827225 GATAATGGTGATG
1 GAT-ATGGTGATG
8827238 GACTATGGTGAT-
1 GA-TATGGTGATG
8827250 GATAT
1 GATAT
8827255 AGGCGTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 14 0.31
12 10 0.22
13 20 0.44
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:8827245 original size:36 final size:36
Alignment explanation
Indices: 8827172--8827276 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
8827162 ATTTATAAGT
* * *
8827172 TGGTGATAATATAGCCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
8827207 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
8827243 TGGTGATGATATAGGCGTGATAATAGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
8827277 AGATTGTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.30, C:0.06, G:0.34, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:8832104 original size:13 final size:11
Alignment explanation
Indices: 8832064--8832147 Score: 64
Period size: 11 Copynumber: 7.1 Consensus size: 11
8832054 CAATATGTTT
8832064 ATCACCATTATC
1 ATCACCA-TATC
*
8832076 ATGC-CTATATC
1 AT-CACCATATC
8832087 ATCACCATAGTCC
1 ATCACCATA-T-C
8832100 ATCACCATTATC
1 ATCACCA-TATC
*
8832112 ATGC-CTATATC
1 AT-CACCATATC
8832123 ATCACCATATTCC
1 ATCACCATA-T-C
8832136 ATCACCATATC
1 ATCACCATATC
8832147 A
1 A
8832148 CGCCTATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
10 2 0.03
11 22 0.37
12 12 0.20
13 21 0.36
14 2 0.03
ACGTcount: A:0.32, C:0.33, G:0.04, T:0.31
Consensus pattern (11 bp):
ATCACCATATC
Found at i:8832111 original size:36 final size:36
Alignment explanation
Indices: 8832064--8832164 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
8832054 CAATATGTTT
8832064 ATCACCATTATCATGCCTATATCATCACCATAGTCC
1 ATCACCATTATCATGCCTATATCATCACCATAGTCC
*
8832100 ATCACCATTATCATGCCTATATCATCACCATATTCC
1 ATCACCATTATCATGCCTATATCATCACCATAGTCC
* *
8832136 ATCACCA-TATCACGCCTATATTATCACCA
1 ATCACCATTATCATGCCTATATCATCACCA
8832165 ACTTATAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 20 0.32
36 42 0.68
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.31
Consensus pattern (36 bp):
ATCACCATTATCATGCCTATATCATCACCATAGTCC
Found at i:8840578 original size:19 final size:20
Alignment explanation
Indices: 8840554--8840603 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
8840544 CCGCCAAGAG
8840554 CATGTATCTTTA-TT-AAAAT
1 CATGTAT-TTTATTTAAAAAT
8840573 CATGTATTTTCATTTAAAAAT
1 CATGTATTTT-ATTTAAAAAT
8840594 CATGTATTTT
1 CATGTATTTT
8840604 TAAAGGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.11
19 8 0.29
20 2 0.07
21 15 0.54
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (20 bp):
CATGTATTTTATTTAAAAAT
Found at i:8841342 original size:11 final size:10
Alignment explanation
Indices: 8841314--8841370 Score: 78
Period size: 10 Copynumber: 5.5 Consensus size: 10
8841304 AATTGGAGTG
8841314 AAAAAAGAAA
1 AAAAAAGAAA
*
8841324 AGAAAAGACAA
1 AAAAAAGA-AA
*
8841335 AAAGAAGAAAA
1 AAAAAAG-AAA
8841346 AAAAAAGAAA
1 AAAAAAGAAA
8841356 AAAAAAGAAA
1 AAAAAAGAAA
8841366 AAAAA
1 AAAAA
8841371 TTCAAAACGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 25 0.61
11 15 0.37
12 1 0.02
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:8841344 original size:21 final size:18
Alignment explanation
Indices: 8841314--8841370 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 18
8841304 AATTGGAGTG
8841314 AAAAAAGAAAAGAAAAGACA
1 AAAAAAGAAAA-AAAAGA-A
8841334 AAAAGAAGAAAAAAAAAAGAAA
1 AAAA-AAG--AAAAAAAAG-AA
8841356 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
8841371 TTCAAAACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAGAA
Found at i:8841377 original size:21 final size:21
Alignment explanation
Indices: 8841314--8841370 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
8841304 AATTGGAGTG
*
8841314 AAAAAAGAAAAGAAAAGAC-AA
1 AAAAAAGAAAA-AAAAAACAAA
* *
8841335 AAAGAAGAAAAAAAAAAGAAA
1 AAAAAAGAAAAAAAAAACAAA
8841356 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
8841371 TTCAAAACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAACAAA
Found at i:8852967 original size:36 final size:36
Alignment explanation
Indices: 8852911--8853030 Score: 172
Period size: 36 Copynumber: 3.4 Consensus size: 36
8852901 AAGATACAAT
*
8852911 CTAT-TCATCACCATCTTCCATCACCATTATCACGC
1 CTATATCATCACCATATTCCATCACCATTATCACGC
* *
8852946 CTATATCATCACCATAGTCCATCACCATTATAACGC
1 CTATATCATCACCATATTCCATCACCATTATCACGC
* *
8852982 CTATATCATCACCATATTCCATCACCA-TAACACAC
1 CTATATCATCACCATATTCCATCACCATTATCACGC
*
8853017 CTATATTATCACCA
1 CTATATCATCACCA
8853031 ACTTCTAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
35 22 0.29
36 54 0.71
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.29
Consensus pattern (36 bp):
CTATATCATCACCATATTCCATCACCATTATCACGC
Found at i:8864253 original size:36 final size:36
Alignment explanation
Indices: 8864201--8864316 Score: 189
Period size: 36 Copynumber: 3.2 Consensus size: 36
8864191 TACAATCTGT
*
8864201 TCATCACCATCTTCCATCACCATTATCACGCCTATA
1 TCATCACCATATTCCATCACCATTATCACGCCTATA
* *
8864237 TCATCACCATAGTCCATCACCATTATCATGCCTATA
1 TCATCACCATATTCCATCACCATTATCACGCCTATA
8864273 TCATCACCATATTCCATCACCA-TATCACGCCTATA
1 TCATCACCATATTCCATCACCATTATCACGCCTATA
*
8864308 TTATCACCA
1 TCATCACCA
8864317 ACTTCTAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 20 0.27
36 54 0.73
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.30
Consensus pattern (36 bp):
TCATCACCATATTCCATCACCATTATCACGCCTATA
Found at i:8864256 original size:13 final size:11
Alignment explanation
Indices: 8864201--8864299 Score: 67
Period size: 13 Copynumber: 8.3 Consensus size: 11
8864191 TACAATCTGT
*
8864201 TCATCACCATCT
1 TCATCACCAT-A
8864213 TCCATCACCATTA
1 T-CATCACCA-TA
*
8864226 TCA-CGCCTATA
1 TCATCACC-ATA
8864237 TCATCACCATA
1 TCATCACCATA
8864248 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
8864262 TCATGC-CTATA
1 TCAT-CACCATA
8864273 TCATCACCATA
1 TCATCACCATA
8864284 TTCCATCACCATA
1 -T-CATCACCATA
8864297 TCA
1 TCA
8864300 CGCCTATATT
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
10 1 0.01
11 23 0.32
12 15 0.21
13 29 0.41
14 3 0.04
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.30
Consensus pattern (11 bp):
TCATCACCATA
Found at i:8872698 original size:19 final size:21
Alignment explanation
Indices: 8872674--8872725 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
8872664 CGGCCAAGAG
*
8872674 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
8872693 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
8872714 CATGTATTTTCA
1 CATGTATTTTCA
8872726 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:8874620 original size:15 final size:14
Alignment explanation
Indices: 8874572--8874623 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
8874562 AAGGATAAGG
8874572 AAATGAAATAAGAAA
1 AAATGAAAT-AGAAA
* * *
8874587 ATATGAAAGAAAAA
1 AAATGAAATAGAAA
8874601 GAAATGAAATAGTAAA
1 -AAATGAAATAG-AAA
8874617 AAATGAA
1 AAATGAA
8874624 GATACTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 4 0.14
15 22 0.76
16 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAATGAAATAGAAA
Found at i:8877871 original size:19 final size:20
Alignment explanation
Indices: 8877847--8877885 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8877837 CTCTTTTCTA
8877847 TATTTCATTTCATT-CTTAT
1 TATTTCATTTCATTACTTAT
*
8877866 TATTTCTTTTCATTACTTAT
1 TATTTCATTTCATTACTTAT
8877886 ATTATTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTCATTTCATTACTTAT
Found at i:8877888 original size:19 final size:18
Alignment explanation
Indices: 8877845--8877888 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
8877835 ATCTCTTTTC
8877845 TATATTTCATTTCATTCT
1 TATATTTCATTTCATTCT
*
8877863 TATTATTTCTTTTCATTACT
1 TA-TATTTCATTTCATT-CT
8877883 TATATT
1 TATATT
8877889 ATTATTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTCATTTCATTCT
Found at i:8881426 original size:19 final size:20
Alignment explanation
Indices: 8881402--8881452 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
8881392 CGGCCAAGAG
* *
8881402 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
8881421 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
8881441 CATGTATTTTCA
1 CATGTATTTTCA
8881453 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:8881891 original size:19 final size:20
Alignment explanation
Indices: 8881867--8881906 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8881857 TCCCTTTTCT
8881867 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
8881886 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
8881906 T
1 T
8881907 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:8884875 original size:19 final size:20
Alignment explanation
Indices: 8884847--8884886 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8884837 GAATAATAAT
8884847 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
8884867 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
8884886 A
1 A
8884887 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:8889445 original size:19 final size:20
Alignment explanation
Indices: 8889417--8889456 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8889407 AAATAATAAT
8889417 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
8889437 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
8889456 A
1 A
8889457 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:8892000 original size:45 final size:45
Alignment explanation
Indices: 8891936--8892022 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
8891926 ATGCACTTCT
* * * *
8891936 CTTTTTGATTTTCTTTTTATTGAATGGTAGGATGTTTCTTTTTCA
1 CTTTTTGATCTTCTTTTTATTAAATGATAGGATGTTGCTTTTTCA
8891981 CTTTTTGATCTTCTTTTTATTAAATGATAGGATGTTGCTTTT
1 CTTTTTGATCTTCTTTTTATTAAATGATAGGATGTTGCTTTT
8892023 GCTTGTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.59
Consensus pattern (45 bp):
CTTTTTGATCTTCTTTTTATTAAATGATAGGATGTTGCTTTTTCA
Found at i:8892252 original size:19 final size:20
Alignment explanation
Indices: 8892225--8892264 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8892215 GAATAATAAT
8892225 ATAAGGAATGAAAAGAAATA
1 ATAAGGAATGAAAAGAAATA
*
8892245 ATAA-GAATGAAATGAAATA
1 ATAAGGAATGAAAAGAAATA
8892264 A
1 A
8892265 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
ATAAGGAATGAAAAGAAATA
Found at i:8895055 original size:30 final size:31
Alignment explanation
Indices: 8895010--8895069 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
8895000 CTTAGCTTTA
**
8895010 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
8895040 TATTTTGTTTTCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
8895070 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:8895983 original size:19 final size:20
Alignment explanation
Indices: 8895959--8896009 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
8895949 CGGCCAAGAG
**
8895959 CATGTATCTTC-TTTAAAAT
1 CATGTATCTTCATCAAAAAT
*
8895978 CATGTATTTTCATCAAAAAT
1 CATGTATCTTCATCAAAAAT
*
8895998 CATGTATTTTCA
1 CATGTATCTTCA
8896010 AAGGGGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATCTTCATCAAAAAT
Found at i:8897020 original size:36 final size:34
Alignment explanation
Indices: 8896919--8897029 Score: 168
Period size: 35 Copynumber: 3.2 Consensus size: 34
8896909 TTGGTGGTTA
*
8896919 TATAGGCGTGAAATGGTGATAGAAGATGGTGATGA
1 TATAGGCGTGAAATGGTGAT-GAAGATGGTGATGT
* *
8896954 TATAGGTGTGCAATGGTGATGAAGATGGTGATGT
1 TATAGGCGTGAAATGGTGATGAAGATGGTGATGT
8896988 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTGAT-GAAGATGGTGATGT
8897024 TATAGG
1 TATAGG
8897030 TAGTATCTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 22 0.32
35 27 0.39
36 20 0.29
ACGTcount: A:0.31, C:0.03, G:0.38, T:0.29
Consensus pattern (34 bp):
TATAGGCGTGAAATGGTGATGAAGATGGTGATGT
Found at i:8909031 original size:52 final size:52
Alignment explanation
Indices: 8908926--8909085 Score: 245
Period size: 51 Copynumber: 3.1 Consensus size: 52
8908916 ATATTTAAAT
* * *
8908926 TCATTTGTTTTGTTAATTTCACGTGAATTCACATT--CATAACAGCATGTCTA
1 TCATTTGTTTTGTTAA-TTCACGTGCACTCACATTCACATAACAGCATGTTTA
8908977 TCATTTGTTTTGTTAATTCACGTGCACTCACATTCACATAACAGCATGTTTA
1 TCATTTGTTTTGTTAATTCACGTGCACTCACATTCACATAACAGCATGTTTA
* *
8909029 TCATTTGTTTTGTTAATT-TCGTGCACTCACATTCACATAACAGCATGTTTT
1 TCATTTGTTTTGTTAATTCACGTGCACTCACATTCACATAACAGCATGTTTA
8909080 TCATTT
1 TCATTT
8909086 AATTATAATT
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
50 16 0.16
51 53 0.52
52 33 0.32
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (52 bp):
TCATTTGTTTTGTTAATTCACGTGCACTCACATTCACATAACAGCATGTTTA
Found at i:8909735 original size:30 final size:30
Alignment explanation
Indices: 8909699--8909755 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
8909689 GTAACTCACC
*
8909699 ATTTGGAACAAAACAACACCCATGTGCGTG
1 ATTTGGAACAAAACAACAACCATGTGCGTG
*
8909729 ATTTGGAACAAAACAGCAACCATGTGC
1 ATTTGGAACAAAACAACAACCATGTGC
8909756 AACTTGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (30 bp):
ATTTGGAACAAAACAACAACCATGTGCGTG
Found at i:8920538 original size:34 final size:31
Alignment explanation
Indices: 8920496--8920567 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 31
8920486 GTACAAAAAG
*
8920496 AAAGAAAAGATA-AAAAGAAGAAGAAAATTCAGAA
1 AAAGAAAAGA-AGAAAAGAAAAAG-AAATTC--AA
8920530 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
8920561 AAAGAAA
1 AAAGAAA
8920568 GCAAGCCAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.25
33 7 0.19
34 20 0.56
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.07
Consensus pattern (31 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
Found at i:8921477 original size:33 final size:32
Alignment explanation
Indices: 8921437--8921522 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 32
8921427 ACTTTGGAAT
*
8921437 CACATGGGCTGTGCAGATCACTTCTTTCTCACG
1 CACATGGGCTGTGCAGATCACTCCTTT-TCACG
*
8921470 CACATGGGGTGT-CTAG-TGC-CTCCTTTTCACG
1 CACATGGGCTGTGC-AGAT-CACTCCTTTTCACG
8921501 CACATGGGCTGTTTGCAGATCA
1 CACATGGGCTG--TGCAGATCA
8921523 GCAAATGGCG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
31 15 0.35
32 8 0.19
33 18 0.42
34 2 0.05
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.30
Consensus pattern (32 bp):
CACATGGGCTGTGCAGATCACTCCTTTTCACG
Found at i:8925335 original size:33 final size:32
Alignment explanation
Indices: 8925295--8925380 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 32
8925285 ACTTTGGAAT
*
8925295 CACATGGGCTGTGCAGATCACTTCTTTCTCACG
1 CACATGGGCTGTGCAGATCACTCCTTT-TCACG
*
8925328 CACATGGGGTGT-CTAG-TGC-CTCCTTTTCACG
1 CACATGGGCTGTGC-AGAT-CACTCCTTTTCACG
8925359 CACATGGGCTGTTTGCAGATCA
1 CACATGGGCTG--TGCAGATCA
8925381 GCAAATGGCG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
31 15 0.35
32 8 0.19
33 18 0.42
34 2 0.05
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.30
Consensus pattern (32 bp):
CACATGGGCTGTGCAGATCACTCCTTTTCACG
Found at i:8935565 original size:19 final size:21
Alignment explanation
Indices: 8935522--8935573 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
8935512 GAAACCCCTT
8935522 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
8935543 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
8935562 TGAAGATACATG
1 TGAAAATACATG
8935574 CTCTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:8937854 original size:24 final size:21
Alignment explanation
Indices: 8937820--8937862 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
8937810 TCCACAAGAC
*
8937820 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
8937842 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
8937863 AGAATGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:8945205 original size:15 final size:15
Alignment explanation
Indices: 8945185--8945213 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8945175 GAATATAGCT
8945185 GAACATGCTGTTATA
1 GAACATGCTGTTATA
8945200 GAACATGCTGTTAT
1 GAACATGCTGTTAT
8945214 GGAGCTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (15 bp):
GAACATGCTGTTATA
Found at i:8948107 original size:36 final size:36
Alignment explanation
Indices: 8948067--8948243 Score: 255
Period size: 36 Copynumber: 4.9 Consensus size: 36
8948057 AACACCATCT
* *
8948067 TCCATCTCTATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8948103 TCCATCACCATTATCACGCCTTTATCATCACTATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
8948139 TCCATCACTATTATCACGCCTTTATCATCACTATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8948175 TCCATCTCCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8948211 TCCACCACCATTATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
8948244 ACTTATAAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 128 1.00
ACGTcount: A:0.28, C:0.34, G:0.05, T:0.33
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:8948649 original size:11 final size:11
Alignment explanation
Indices: 8948633--8948658 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8948623 AGCAACGAGA
8948633 AAAAAGAAAAG
1 AAAAAGAAAAG
8948644 AAAAAGAAAAG
1 AAAAAGAAAAG
8948655 AAAA
1 AAAA
8948659 GACTCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:8948707 original size:14 final size:14
Alignment explanation
Indices: 8948684--8948729 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
8948674 TTTGGAGTGC
8948684 AAAAGAAAGAAAAGA
1 AAAAG-AAGAAAAGA
*
8948699 AAAAGAAGAATA-A
1 AAAAGAAGAAAAGA
*
8948712 AAAA-AAGTAAAGA
1 AAAAGAAGAAAAGA
8948725 AAAAG
1 AAAAG
8948730 TGAAGCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 6 0.23
15 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAGAAAAGA
Found at i:8952256 original size:36 final size:36
Alignment explanation
Indices: 8952216--8952392 Score: 273
Period size: 36 Copynumber: 4.9 Consensus size: 36
8952206 AACACCATCT
*
8952216 TCCATCTCCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8952252 TCCATCACCATTATCACGCCTTTATCATCACTATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8952288 TCCATCACCATTATCACGCCTTTATCATCACTATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8952324 TCCATCTCCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
8952360 TCCACCACCATTATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
8952393 ACTTATAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 131 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.32
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:8952517 original size:22 final size:22
Alignment explanation
Indices: 8952492--8952535 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8952482 CATCACTTGA
8952492 AGGATCATTCTACAACACTTCC
1 AGGATCATTCTACAACACTTCC
8952514 AGGATCATTCTACAACACTTCC
1 AGGATCATTCTACAACACTTCC
8952536 GCAACCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.27
Consensus pattern (22 bp):
AGGATCATTCTACAACACTTCC
Found at i:8953262 original size:52 final size:52
Alignment explanation
Indices: 8953103--8953263 Score: 236
Period size: 52 Copynumber: 3.1 Consensus size: 52
8953093 ATATTTGAAT
* *
8953103 TCATTTGTTTTGTTAATTTCACGTGCATTCACATT--CATAACAGCATGTCTA
1 TCATTTGTTTTGTTAATTT-ACGTGCACTCACATTCACATAACAGCATGTTTA
* * **
8953154 TCATTTGTTTTTTTAATTCACGTGCACTCACATTCACATAACAGCAAATTTA
1 TCATTTGTTTTGTTAATTTACGTGCACTCACATTCACATAACAGCATGTTTA
*
8953206 TCATTTGTTTTGTTAATTTACGTGCACTCACATTCACATAACAGCATGTTTT
1 TCATTTGTTTTGTTAATTTACGTGCACTCACATTCACATAACAGCATGTTTA
8953258 TCATTT
1 TCATTT
8953264 AATTATAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 14 0.14
51 17 0.18
52 66 0.68
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (52 bp):
TCATTTGTTTTGTTAATTTACGTGCACTCACATTCACATAACAGCATGTTTA
Found at i:8955644 original size:24 final size:25
Alignment explanation
Indices: 8955617--8955674 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
8955607 ATCAGAAAAG
* *
8955617 AAGCACTCAAAAAGAAGAAA-TTGA
1 AAGCACTCAAAAAAAAAAAAGTTGA
*
8955641 AAGCACTCAAAAAAAAAAAAGTTGG
1 AAGCACTCAAAAAAAAAAAAGTTGA
8955666 AAGCACTCA
1 AAGCACTCA
8955675 TCAACAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (25 bp):
AAGCACTCAAAAAAAAAAAAGTTGA
Found at i:8958723 original size:14 final size:14
Alignment explanation
Indices: 8958706--8958764 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
8958696 GAACGTTCAG
8958706 TTATGTTCGTTCGT
1 TTATGTTCGTTCGT
* *
8958720 TTATGTTTGTTCGG
1 TTATGTTCGTTCGT
8958734 TTATG--C--TCGT
1 TTATGTTCGTTCGT
* *
8958744 TTATGTTCATTCAT
1 TTATGTTCGTTCGT
8958758 TTATGTT
1 TTATGTT
8958765 TAACCAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 8 0.22
12 1 0.03
14 27 0.75
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (14 bp):
TTATGTTCGTTCGT
Found at i:8958761 original size:24 final size:24
Alignment explanation
Indices: 8958716--8958762 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8958706 TTATGTTCGT
** *
8958716 TCGTTTATGTTTGTTCGGTTATGC
1 TCGTTTATGTTCATTCAGTTATGC
*
8958740 TCGTTTATGTTCATTCATTTATG
1 TCGTTTATGTTCATTCAGTTATG
8958763 TTTAACCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (24 bp):
TCGTTTATGTTCATTCAGTTATGC
Found at i:8959628 original size:11 final size:11
Alignment explanation
Indices: 8959612--8959663 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
8959602 TGGGGTAATG
8959612 TCGAGCTTGAA
1 TCGAGCTTGAA
**
8959623 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
8959635 TCGAGATTGAA
1 TCGAGCTTGAA
*
8959646 TCGAGATTGAA
1 TCGAGCTTGAA
8959657 TCGAGCT
1 TCGAGCT
8959664 CGAGTCTCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:8959917 original size:16 final size:16
Alignment explanation
Indices: 8959898--8959964 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
8959888 TTTATGTCCG
8959898 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
**
8959914 TTTATGTTCGTGTTTG
1 TTTATGTTCGTGTTCA
* *
8959930 TTTATATTCGTGTTCG
1 TTTATGTTCGTGTTCA
8959946 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
8959960 TTTAT
1 TTTAT
8959965 TAAATGAACG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 38 0.84
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:8962685 original size:14 final size:14
Alignment explanation
Indices: 8962666--8962693 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8962656 TAAGATACTA
8962666 TTTCCATCACCATC
1 TTTCCATCACCATC
8962680 TTTCCATCACCATC
1 TTTCCATCACCATC
8962694 AATCCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:8962778 original size:11 final size:11
Alignment explanation
Indices: 8962762--8962798 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8962752 TTTCATTTCT
*
8962762 TCATCCTTGAA
1 TCATCCTTCAA
8962773 TCATCCTTCAA
1 TCATCCTTCAA
*
8962784 TCATCCTTTAA
1 TCATCCTTCAA
8962795 TCAT
1 TCAT
8962799 TAACAAGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.27, C:0.30, G:0.03, T:0.41
Consensus pattern (11 bp):
TCATCCTTCAA
Found at i:8962914 original size:15 final size:16
Alignment explanation
Indices: 8962892--8962939 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
8962882 TACTTTGATA
8962892 CATTTCTTTCCATTTC
1 CATTTCTTTCCATTTC
8962908 C-TTTCTTAT-CATTTC
1 CATTTCTT-TCCATTTC
*
8962923 CATTTTTCTTCCATTTC
1 CATTTCT-TTCCATTTC
8962940 TTATTTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 13 0.48
16 7 0.26
17 7 0.26
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.58
Consensus pattern (16 bp):
CATTTCTTTCCATTTC
Found at i:8975805 original size:16 final size:16
Alignment explanation
Indices: 8975774--8975820 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
8975764 TGGTAATGAA
8975774 ATAAGAAAAGATGAAA-G
1 ATAA-AAAA-ATGAAATG
*
8975791 AATAAAGAAATGAAATG
1 -ATAAAAAAATGAAATG
8975808 ATAAAAAAATGAA
1 ATAAAAAAATGAA
8975821 GATAACTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 4 0.15
18 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATAAAAAAATGAAATG
Found at i:8980861 original size:19 final size:20
Alignment explanation
Indices: 8980814--8980864 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
8980804 GAAACCCCTT
**
8980814 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
8980834 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
8980853 TGAAGATACATG
1 TGAAAATACATG
8980865 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:8984661 original size:19 final size:20
Alignment explanation
Indices: 8984614--8984664 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
8984604 GAAACCCCTT
**
8984614 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
8984634 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
8984653 TGAAGATACATG
1 TGAAAATACATG
8984665 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:8987816 original size:11 final size:11
Alignment explanation
Indices: 8987800--8987825 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8987790 TTGTAGGAGT
8987800 TTTTTCTTTTC
1 TTTTTCTTTTC
8987811 TTTTTCTTTTC
1 TTTTTCTTTTC
8987822 TTTT
1 TTTT
8987826 ATTCTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:8992486 original size:11 final size:11
Alignment explanation
Indices: 8992472--8992527 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
8992462 TCTTTTTGAA
8992472 TTCTTTTTCTT
1 TTCTTTTTCTT
8992483 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
8992496 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
8992509 TGTCTTTTTC-T
1 T-TCTTTTTCTT
8992520 TTCTTTTT
1 TTCTTTTT
8992528 TTGCACTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:8992496 original size:19 final size:18
Alignment explanation
Indices: 8992472--8992528 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
8992462 TCTTTTTGAA
8992472 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
8992490 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
8992509 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
8992527 TT
1 TT
8992529 TGCACTCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.03
18 16 0.46
19 13 0.37
20 5 0.14
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:8992528 original size:11 final size:12
Alignment explanation
Indices: 8992472--8992528 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 12
8992462 TCTTTTTGAA
8992472 TTCTTT-TTCTT
1 TTCTTTCTTCTT
8992483 TTCTTTTCTTCTT
1 TTC-TTTCTTCTT
8992496 TTC-TTCTTCTT
1 TTCTTTCTTCTT
*
8992507 TT-TGTC-T-TT
1 TTCTTTCTTCTT
8992516 TTCTTTCTT-TT
1 TTCTTTCTTCTT
8992527 TT
1 TT
8992529 TGCACTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
11 20 0.51
12 3 0.08
13 8 0.21
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (12 bp):
TTCTTTCTTCTT
Found at i:9002513 original size:90 final size:91
Alignment explanation
Indices: 9002365--9002537 Score: 249
Period size: 90 Copynumber: 1.9 Consensus size: 91
9002355 CACATGTGCC
* * *
9002365 TTGCATATGACCAGCCCCCATGTGCCTTGCATGAGAATCATTTAGGCACCGAGATGAAGAGTTCT
1 TTGCATATGAACAGCCCCCATGTGCCTTGCATGAGAATCATTTAGGCACCAAGATGAAGAGCTCT
9002430 CTCCCTATTCGGCCAAGCCATGTGTT
66 CTCCCTATTCGGCCAAGCCATGTGTT
* * * ** * *
9002456 TTGCATGTGAACAG-CCCCATGTGCCTTGTATGTGGTTTATTTAGGCACCAAGGTGAAGAGCTCT
1 TTGCATATGAACAGCCCCCATGTGCCTTGCATGAGAATCATTTAGGCACCAAGATGAAGAGCTCT
9002520 CTCCCTATTCGGCCAAGC
66 CTCCCTATTCGGCCAAGC
9002538 ATCATTACCC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 60 0.83
91 12 0.17
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (91 bp):
TTGCATATGAACAGCCCCCATGTGCCTTGCATGAGAATCATTTAGGCACCAAGATGAAGAGCTCT
CTCCCTATTCGGCCAAGCCATGTGTT
Found at i:9003349 original size:23 final size:24
Alignment explanation
Indices: 9003321--9003374 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
9003311 AAAATCAGCA
9003321 AAGAAAATAAAAGCACTC-AAAAG
1 AAGAAAATAAAAGCACTCGAAAAG
* *
9003344 AAGAAATTGAAAGCACTCGAAAAG
1 AAGAAAATAAAAGCACTCGAAAAG
9003368 AAGAAAA
1 AAGAAAA
9003375 AGAAAGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.63, C:0.11, G:0.17, T:0.09
Consensus pattern (24 bp):
AAGAAAATAAAAGCACTCGAAAAG
Found at i:9003379 original size:24 final size:23
Alignment explanation
Indices: 9003321--9003380 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
9003311 AAAATCAGCA
9003321 AAGAAAATA-AAAGCACTCAAAAG
1 AAGAAAA-AGAAAGCACTCAAAAG
**
9003344 AAGAAATTGAAAGCACTCGAAAAG
1 AAGAAAAAGAAAGCACTC-AAAAG
9003368 AAGAAAAAGAAAG
1 AAGAAAAAGAAAG
9003381 AAAGAAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.63, C:0.10, G:0.18, T:0.08
Consensus pattern (23 bp):
AAGAAAAAGAAAGCACTCAAAAG
Found at i:9006159 original size:11 final size:13
Alignment explanation
Indices: 9006127--9006156 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9006117 TGGCCAAAGA
9006127 TGAAAAGGTATGT
1 TGAAAAGGTATGT
9006140 TGAAAAGGTATG-
1 TGAAAAGGTATGT
9006152 TGAAA
1 TGAAA
9006157 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:9010607 original size:15 final size:14
Alignment explanation
Indices: 9010580--9010617 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
9010570 GTGCTTCAAC
9010580 TTTCTTTCTTTTCT
1 TTTCTTTCTTTTCT
9010594 TTTCTTTGCTTTTCT
1 TTTCTTT-CTTTTCT
9010609 TTT-TTTCTT
1 TTTCTTTCTT
9010618 AAAGTGCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 10 0.43
15 10 0.43
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTCTTTCTTTTCT
Found at i:9013392 original size:13 final size:13
Alignment explanation
Indices: 9013374--9013409 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9013364 ACTACCCAAA
9013374 CATCACCATTTTC
1 CATCACCATTTTC
*
9013387 CATCACCATATTC
1 CATCACCATTTTC
*
9013400 CATTACCATT
1 CATCACCATT
9013410 GCATGCCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (13 bp):
CATCACCATTTTC
Found at i:9013497 original size:11 final size:11
Alignment explanation
Indices: 9013481--9013507 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9013471 TACCATCTAT
9013481 TCATCCTTCAA
1 TCATCCTTCAA
9013492 TCATCCTTCAA
1 TCATCCTTCAA
9013503 TCATC
1 TCATC
9013508 ATCAAGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (11 bp):
TCATCCTTCAA
Done.