Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 43
Found at i:8401682 original size:30 final size:29
Alignment explanation
Indices: 8401592--8401684 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 29
8401582 AGTTAATAAT
* *
8401592 TATATATTT-TAAGTTAAAACAAGAATGAA
1 TATATATTTGTAA-TCAAAATAAGAATGAA
* *
8401621 -ATATATTTTTAATCAAAATAAGAATAAAA
1 TATATATTTGTAATCAAAATAAGAAT-GAA
* *
8401650 TATATATTTGTAATTGAAGATAAGAATGAA
1 TATATATTTGTAA-TCAAAATAAGAATGAA
8401680 TATAT
1 TATAT
8401685 TTAAATTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 19 0.36
29 5 0.09
30 18 0.34
31 11 0.21
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (29 bp):
TATATATTTGTAATCAAAATAAGAATGAA
Found at i:8401786 original size:20 final size:21
Alignment explanation
Indices: 8401735--8401781 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
8401725 ATATAGATTT
8401735 TTTAAATAAAAAATAAAAAATA
1 TTTAAAT-AAAAATAAAAAATA
8401757 TTTAAATAAAAATAAAAAATA
1 TTTAAATAAAAATAAAAAATA
8401778 TTTA
1 TTTA
8401782 GTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTTAAATAAAAATAAAAAATA
Found at i:8403641 original size:2 final size:2
Alignment explanation
Indices: 8403634--8403665 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8403624 GCTATGATAA
8403634 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
8403666 CACTTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8405756 original size:5 final size:5
Alignment explanation
Indices: 8405740--8405830 Score: 128
Period size: 5 Copynumber: 17.6 Consensus size: 5
8405730 TGTATATATT
*
8405740 TATAA TAAAA TATAATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TAT-A-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA
**
8405792 TATAA TATTT TGATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA TAT
8405831 TTTGGTTGTC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
5 68 0.88
6 5 0.06
7 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:8406352 original size:21 final size:20
Alignment explanation
Indices: 8406323--8406373 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
8406313 ACCAGACTTT
* * *
8406323 TAAATATAACATAGATATATA
1 TAAAAATAACATAAAGAT-TA
8406344 TAAAAATAA-ATAAAGATTA
1 TAAAAATAACATAAAGATTA
*
8406363 TAAAATTAACA
1 TAAAAATAACA
8406374 GATGGGCCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAATAACATAAAGATTA
Found at i:8415387 original size:46 final size:46
Alignment explanation
Indices: 8415330--8415420 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
8415320 ATTCTGCCAT
*
8415330 TGTTGTACACAAGTTGTTGGCCACTTTGCTTCCAAATCAACTCCAA
1 TGTTGTACACAAGTTGTTAGCCACTTTGCTTCCAAATCAACTCCAA
* * *
8415376 TGTTGTGCACAAGTTGTTAGTCGCTTTGCTTCCAAATCAACTCCA
1 TGTTGTACACAAGTTGTTAGCCACTTTGCTTCCAAATCAACTCCA
8415421 TTTCCAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (46 bp):
TGTTGTACACAAGTTGTTAGCCACTTTGCTTCCAAATCAACTCCAA
Found at i:8416313 original size:23 final size:23
Alignment explanation
Indices: 8416270--8416313 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8416260 TTTTTAAATA
*
8416270 ATAAAAATTAAAATTAGAAAACC
1 ATAAAAATTAAAATTAAAAAACC
8416293 ATAAAAATATAAAA-TAAAAAA
1 ATAAAAAT-TAAAATTAAAAAA
8416314 TTTTAGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
ATAAAAATTAAAATTAAAAAACC
Found at i:8419754 original size:30 final size:31
Alignment explanation
Indices: 8419720--8419804 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 31
8419710 CCTAATTAAA
*
8419720 GGACTAAGATGGTAAAAATCTAAATTCT-AG
1 GGACTAAGATGGTAAAAATCTAAAGTCTAAG
*
8419750 GGACTAA-A-GTGTAAAAGATCAAAAGTCTAAG
1 GGACTAAGATG-GTAAAA-ATCTAAAGTCTAAG
*
8419781 GGCCTAAG-T-GTAAAAATCTAAAGT
1 GGACTAAGATGGTAAAAATCTAAAGT
8419805 TTAGAGTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
28 1 0.02
29 15 0.33
30 22 0.48
31 8 0.17
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (31 bp):
GGACTAAGATGGTAAAAATCTAAAGTCTAAG
Found at i:8419815 original size:29 final size:29
Alignment explanation
Indices: 8419731--8419826 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
8419721 GACTAAGATG
*
8419731 GTAAAAATCTAAA-TTCTAG-GGACTAAAGT
1 GTAAAAATCTAAAGTT-TAGAGGCCT-AAGT
* *
8419760 GTAAAAGATCAAAAGTCTA-AGGGCCTAAGT
1 GTAAAA-ATCTAAAGTTTAGA-GGCCTAAGT
*
8419790 GTAAAAATCTAAAGTTTAGAGTCCTAAGT
1 GTAAAAATCTAAAGTTTAGAGGCCTAAGT
8419819 GTAAAAAT
1 GTAAAAAT
8419827 ATAATGCTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
29 32 0.57
30 19 0.34
31 5 0.09
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (29 bp):
GTAAAAATCTAAAGTTTAGAGGCCTAAGT
Found at i:8419844 original size:28 final size:29
Alignment explanation
Indices: 8419731--8419844 Score: 92
Period size: 29 Copynumber: 3.9 Consensus size: 29
8419721 GACTAAGATG
* * *
8419731 GTAAAAATCTAAATTCTAG-GGACTAAAGT
1 GTAAAAATATAAAGTCTAGAGGGCT-AAGT
8419760 GTAAAAGATCA-AAAGTCTA-AGGGCCTAAGT
1 GTAAAA-AT-ATAAAGTCTAGAGGG-CTAAGT
* * **
8419790 GTAAAAATCTAAAGTTTAGAGTCCTAAGT
1 GTAAAAATATAAAGTCTAGAGGGCTAAGT
*
8419819 GTAAAAATATAATG-CTAGAGGGCTAA
1 GTAAAAATATAAAGTCTAGAGGGCTAA
8419845 ATATGTAGTT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
28 9 0.13
29 33 0.49
30 23 0.34
31 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (29 bp):
GTAAAAATATAAAGTCTAGAGGGCTAAGT
Found at i:8420306 original size:9 final size:9
Alignment explanation
Indices: 8420292--8420318 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
8420282 GATAAAATTG
8420292 AAATAAAAT
1 AAATAAAAT
8420301 AAATAAAAT
1 AAATAAAAT
8420310 AAATAAAAT
1 AAATAAAAT
8420319 CAAGGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:8421102 original size:37 final size:37
Alignment explanation
Indices: 8421018--8421102 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
8421008 TCAAAAAATT
* *
8421018 GGGTCAGGTTCGGGTCGGGTGAAGTGTATATATTTTTC
1 GGGT-AGGGTCGGGTCGGGTGAAGTGTATATAATTTTC
* *
8421056 GGGTCGGGTCGGGTCGGGTGAAGGATGTA-A-AATTTTG
1 GGGTAGGGTCGGGTCGGGTGAA-G-TGTATATAATTTTC
8421093 GGGTAGGGTC
1 GGGTAGGGTC
8421103 AGGTTGGCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 30 0.75
38 6 0.15
39 4 0.10
ACGTcount: A:0.16, C:0.09, G:0.44, T:0.31
Consensus pattern (37 bp):
GGGTAGGGTCGGGTCGGGTGAAGTGTATATAATTTTC
Found at i:8422257 original size:39 final size:36
Alignment explanation
Indices: 8422204--8422296 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 36
8422194 TTGAACAAGC
* *
8422204 TCTTCTTATTATGAACTTCTTCTTCCTCGTTGGATGAGT
1 TCTTCTCATTATGAAC-TCTTC--CCTCGTCGGATGAGT
*
8422243 TCTTCTCATTATGAAC-C--CCTTCGTCGGATGAGT
1 TCTTCTCATTATGAACTCTTCCCTCGTCGGATGAGT
8422276 TCTTCTCATTATGAACTCTTC
1 TCTTCTCATTATGAACTCTTC
8422297 ATTTATCCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
33 29 0.60
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
39 15 0.31
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (36 bp):
TCTTCTCATTATGAACTCTTCCCTCGTCGGATGAGT
Found at i:8422382 original size:139 final size:138
Alignment explanation
Indices: 8422132--8422428 Score: 398
Period size: 139 Copynumber: 2.1 Consensus size: 138
8422122 TTATTCCTTG
* * **
8422132 TGAGTTCTTCTCATTACGAACTCTTCGTTAATCCACCTCCTTGCGTGATAGACGATCCCAGGTTG
1 TGAGTTCTTCTCATTATGAACTCTTCATTAATCCACCTCCTTGCGCAATAGACGATCCCAGGTTG
* * * * *
8422197 AACAAGCTCTTCTTATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACCCC
66 AACAAGCTATTCTCATTACGAAATTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTACGAA-CCC
*
8422262 TTCGTCGGA
130 TTCGTCGAA
* * * * * *
8422271 TGAGTTCTTCTCATTATGAACTCTTCATTTATCCACCTTCTTGTGCAATGGACGATTCTAGGTTG
1 TGAGTTCTTCTCATTATGAACTCTTCATTAATCCACCTCCTTGCGCAATAGACGATCCCAGGTTG
* * *
8422336 AACAAGTTATTCTCATTACGAAATTTTTC-TCCATTGTTGGATGAGTTCTTCTCATTACGAACCC
66 AACAAGCTATTCTCATTACGAAATTCTTCTTCC-TCGTTGGATGAGTTCTTCTCATTACGAACCC
8422400 TTCGTCGAA
130 TTCGTCGAA
8422409 TGAGTTCTTCTCATTATGAA
1 TGAGTTCTTCTCATTATGAA
8422429 ATATTTTTTC
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
138 34 0.25
139 104 0.75
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (138 bp):
TGAGTTCTTCTCATTATGAACTCTTCATTAATCCACCTCCTTGCGCAATAGACGATCCCAGGTTG
AACAAGCTATTCTCATTACGAAATTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTACGAACCCT
TCGTCGAA
Found at i:8422580 original size:115 final size:116
Alignment explanation
Indices: 8422408--8422862 Score: 503
Period size: 116 Copynumber: 3.9 Consensus size: 116
8422398 CCTTCGTCGA
* * * * * *
8422408 ATGAGTTCTTCTCATTATGAA-ATATTTTTTCGAAATGTT-AGTCTATCTCCTTGTGTGATGTAT
1 ATGAGTTCTTCTCATTATGAACCT-TCTTCT-GAAATGTTGA-TCCATCTCCTTGTGTGACGGAT
* * **
8422471 GTGTTGAGTTTC-GAACAAGTTCTTCGCATTATGAAC-TCATTCTTCCTCACTGG
63 ATGTTGAGTTTCAGAACAAGTTCTTCTCATTATGAACTTC-TTCTTCCTCGTTGG
* * * * * * *
8422524 GTGAGTTTTTCTCATTACGAACCTTCTTCAGAAATATTGATCCATCTCTTTGTGTGACGGATGTG
1 ATGAGTTCTTCTCATTATGAACCTTCTTCTGAAATGTTGATCCATCTCCTTGTGTGACGGATATG
** * *
8422589 TCAAG-TTCAGAACAAGTTCTTATTATTATGAACTTCTTCTTCCTCGTTGG
66 TTGAGTTTCAGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGG
*
8422639 ATGAGTTCTTCTCATTATGAACCTCTCTTCTGAAATGTTGATCCATCTCCTTGTGCGA-GAGATA
1 ATGAGTTCTTCTCATTATGAACCT-TCTTCTGAAATGTTGATCCATCTCCTTGTGTGACG-GATA
* *
8422703 TGTTGAGTTTCA-AACAAGTTCTTCTCATTATAAACTTCTTCTTCCTCGTTGA
64 TGTTGAGTTTCAGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGG
* * * *
8422755 ATGAGTTCTTCCCATTATAAACCCTTCTTCTGAAATGTTGATCCATTTCATTGTGTGACGGATAT
1 ATGAGTTCTTCTCATTATGAA-CCTTCTTCTGAAATGTTGATCCATCTCCTTGTGTGACGGATAT
* * * *
8422820 GTTG-GGTTCTGAACAAGTTTTTTTCATTATGAACTTCTTCTTC
65 GTTGAGTTTCAGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
8422863 AAAACGAGTT
Statistics
Matches: 286, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
114 3 0.01
115 90 0.31
116 184 0.64
117 9 0.03
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (116 bp):
ATGAGTTCTTCTCATTATGAACCTTCTTCTGAAATGTTGATCCATCTCCTTGTGTGACGGATATG
TTGAGTTTCAGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGG
Found at i:8423750 original size:59 final size:59
Alignment explanation
Indices: 8423601--8423763 Score: 195
Period size: 57 Copynumber: 2.8 Consensus size: 59
8423591 TTGAGTAATC
* * * * *
8423601 ATCAAGAAATCTCTGAAAATCAGACTTAGGTTCTTTTAAAACTCATTTGAAGAAATCAT
1 ATCAAGAAAACTCTAAAAATCAGACTTAGTTTCTTTAAAAAATCATTTGAAGAAATCAT
* * * * *
8423660 A--AAGAAAATTCCAAAAATCGGACTTAGTTTCTTTAAAAATTCATTTGAAGACATCAT
1 ATCAAGAAAACTCTAAAAATCAGACTTAGTTTCTTTAAAAAATCATTTGAAGAAATCAT
* * *
8423717 ATCAAGAAACCTCTTAAAATTAGACTTAGTTTCTTTAAAAAATCATT
1 ATCAAGAAAACTCTAAAAATCAGACTTAGTTTCTTTAAAAAATCATT
8423764 CGAACCCCTC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
57 48 0.56
59 38 0.44
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (59 bp):
ATCAAGAAAACTCTAAAAATCAGACTTAGTTTCTTTAAAAAATCATTTGAAGAAATCAT
Found at i:8423865 original size:59 final size:59
Alignment explanation
Indices: 8423777--8423961 Score: 165
Period size: 66 Copynumber: 3.0 Consensus size: 59
8423767 ACCCCTCATC
* * * *
8423777 TCTTTAAAAACTCATTTAAGAAGATCATGTCAAGAAATCTCTGAAAATCATACTTAGTT
1 TCTTTAAAAACTCATTTAAAAACACCATGTCAAGAAACCTCTGAAAATCATACTTAGTT
* ** * * *
8423836 TCTTTTAAAAATTC-TTTTGAAACACCATGTTAATCTTCAAGAAACCTATGGAAATCGTACTTAG
1 TC-TTTAAAAACTCATTTAAAAACACCATG-------TCAAGAAACCTCTGAAAATCATACTTAG
8423900 TT
58 TT
* * * *
8423902 TCTTTGAAAACTCATTTAAAAATACCATGTCAAGAAACCTCTGAAAATAAAACTTAGTT
1 TCTTTAAAAACTCATTTAAAAACACCATGTCAAGAAACCTCTGAAAATCATACTTAGTT
8423961 T
1 T
8423962 GTAAAAAAAC
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
59 38 0.39
60 10 0.10
65 9 0.09
66 40 0.41
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (59 bp):
TCTTTAAAAACTCATTTAAAAACACCATGTCAAGAAACCTCTGAAAATCATACTTAGTT
Found at i:8426166 original size:11 final size:10
Alignment explanation
Indices: 8426146--8426218 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
8426136 ATTTGATATG
8426146 TTTTCTTTTT
1 TTTTCTTTTT
*
8426156 TTTTCCTTTT
1 TTTTCTTTTT
*
8426166 TTCTCTTTTT
1 TTTTCTTTTT
8426176 TCTTTCTTTATT
1 T-TTTCTTT-TT
* *
8426188 CTCTCTCTTTT
1 TTTTCT-TTTT
* *
8426199 TTATGTTTTT
1 TTTTCTTTTT
*
8426209 TCTTCTTTTT
1 TTTTCTTTTT
8426219 ACTATAGCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
10 29 0.60
11 15 0.31
12 4 0.08
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:8426174 original size:20 final size:19
Alignment explanation
Indices: 8426149--8426218 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
8426139 TGATATGTTT
8426149 TCTTTTTTTTTCCTTTTTTC
1 TCTTTTTTTTT-CTTTTTTC
8426169 TCTTTTTTCTTTCTTTATTCTC
1 TCTTTTTT-TTTCTTT-TT-TC
* *
8426191 TCTCTTTTTTATGTTTTTTC
1 TCT-TTTTTTTTCTTTTTTC
8426211 TTCTTTTT
1 -TCTTTTT
8426219 ACTATAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 18 0.42
21 10 0.23
22 10 0.23
23 5 0.12
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (19 bp):
TCTTTTTTTTTCTTTTTTC
Found at i:8426211 original size:22 final size:23
Alignment explanation
Indices: 8426166--8426218 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
8426156 TTTTCCTTTT
* *
8426166 TTCTCTTTTTTCTTTCTTTATTC
1 TTCTCTTTTTTATGTCTTTATTC
8426189 TCTCTCTTTTTTATGT-TTT-TTC
1 T-TCTCTTTTTTATGTCTTTATTC
8426211 TTCT-TTTT
1 TTCTCTTTT
8426219 ACTATAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 3 0.11
22 4 0.15
23 4 0.15
24 12 0.44
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (23 bp):
TTCTCTTTTTTATGTCTTTATTC
Found at i:8428409 original size:20 final size:20
Alignment explanation
Indices: 8428386--8428428 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8428376 AATCCACCAC
*
8428386 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
8428406 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
8428426 ATG
1 ATG
8428429 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:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:8433355 original size:20 final size:20
Alignment explanation
Indices: 8433332--8433374 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8433322 AATCCACCAC
*
8433332 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
8433352 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
8433372 ATG
1 ATG
8433375 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:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:8436447 original size:30 final size:30
Alignment explanation
Indices: 8436413--8436494 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
8436403 CCTAATTAAA
8436413 GGACTAAGATGATAAAAATCTAAAGTCTA-G
1 GGACTAAGATG-TAAAAATCTAAAGTCTAGG
*
8436443 GGACTAA-AGTGTAAAATATCTAAATTCTAGG
1 GGACTAAGA-TGTAAAA-ATCTAAAGTCTAGG
*
8436474 GGAATAAG-TGTAAAAATCTAA
1 GGACTAAGATGTAAAAATCTAA
8436495 TCCTAGAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
29 12 0.26
30 27 0.59
31 7 0.15
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (30 bp):
GGACTAAGATGTAAAAATCTAAAGTCTAGG
Found at i:8436505 original size:29 final size:30
Alignment explanation
Indices: 8436425--8436505 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
8436415 ACTAAGATGA
*
8436425 TAAAA-ATCTAAAGT-CTA-GGGACTAAAGTG
1 TAAAATATCTAAA-TCCTAGGGGAAT-AAGTG
*
8436454 TAAAATATCTAAATTCTAGGGGAATAAGTG
1 TAAAATATCTAAATCCTAGGGGAATAAGTG
8436484 TAAAA-ATCT-AATCCTAGAGGGA
1 TAAAATATCTAAATCCTAG-GGGA
8436506 TAAAAATGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 7 0.15
29 14 0.30
30 20 0.43
31 5 0.11
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (30 bp):
TAAAATATCTAAATCCTAGGGGAATAAGTG
Found at i:8436516 original size:30 final size:30
Alignment explanation
Indices: 8436452--8436516 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
8436442 GGGACTAAAG
* * *
8436452 TGTAAAATATCTAAATTCTAGGGGAATAAG
1 TGTAAAATATCTAAATCCTAGGGGAAAAAA
8436482 TGTAAAA-ATCT-AATCCTAGAGGGATAAAAA
1 TGTAAAATATCTAAATCCTAG-GGGA-AAAAA
8436512 TGTAA
1 TGTAA
8436517 TTCTAGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 8 0.27
30 15 0.50
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (30 bp):
TGTAAAATATCTAAATCCTAGGGGAAAAAA
Found at i:8436939 original size:17 final size:17
Alignment explanation
Indices: 8436910--8436945 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
8436900 GTTAATAAGC
8436910 AAATTGTAAATAAGAATA
1 AAATTGTAAATAA-AATA
8436928 AAATTG-AAATAAAATA
1 AAATTGTAAATAAAATA
8436944 AA
1 AA
8436946 TAAAATCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
AAATTGTAAATAAAATA
Found at i:8439323 original size:2 final size:2
Alignment explanation
Indices: 8439316--8439347 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8439306 ATGAGTCTTT
8439316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8439348 GTATTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8439561 original size:2 final size:2
Alignment explanation
Indices: 8439554--8439616 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
8439544 TGTATGACAC
8439554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8439596 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
8439617 GTGTGTGTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8442696 original size:270 final size:270
Alignment explanation
Indices: 8442215--8442757 Score: 1070
Period size: 270 Copynumber: 2.0 Consensus size: 270
8442205 CATGCCGTGA
8442215 TTCAACGAACCATTGTGGATCATTTTCCCTCATGACATGACGATCCGATTGAAGGAAGAGCTGCT
1 TTCAACGAACCATTGTGGATCATTTTCCCTCATGACATGACGATCCGATTGAAGGAAGAGCTGCT
8442280 CATGAATTCGTTCAAGACGATCGATGGTCGAGGTGCAAGCGTCCACATTGCAGGGGGTCCTTGTA
66 CATGAATTCGTTCAAGACGATCGATGGTCGAGGTGCAAGCGTCCACATTGCAGGGGGTCCTTGTA
8442345 TAACCATTCAGTATGTGACCCAACATTTCATTCACGGACTCAACATCCATGACTGCAAGCAAGGA
131 TAACCATTCAGTATGTGACCCAACATTTCATTCACGGACTCAACATCCATGACTGCAAGCAAGGA
8442410 GGGAATGCTATGGTGAGGGACTCCCCAAAGCATTACGGTTGGCGAACCTTATCGGACGGTGACGG
196 GGGAATGCTATGGTGAGGGACTCCCCAAAGCATTACGGTTGGCGAACCTTATCGGACGGTGACGG
8442475 CGTGTCCATC
261 CGTGTCCATC
8442485 TTCAACGAACCATTGTGGATCATTTTCCCTCATGACATGACGATCCGATTGAAGGAAGAGCTGCT
1 TTCAACGAACCATTGTGGATCATTTTCCCTCATGACATGACGATCCGATTGAAGGAAGAGCTGCT
8442550 CATGAATTCGTTCAAGACGATCGATGGTCGAGGTGCAAGCGTCCACATTGCAGGGGGTCCTTGTA
66 CATGAATTCGTTCAAGACGATCGATGGTCGAGGTGCAAGCGTCCACATTGCAGGGGGTCCTTGTA
8442615 TAACCATTCAGTATGTGA-CCAACATTATCATTCACGGACTCAACATCCATGACTGCAAGCAAGG
131 TAACCATTCAGTATGTGACCCAACATT-TCATTCACGGACTCAACATCCATGACTGCAAGCAAGG
8442679 AGGGAATGCTATGGTGAGGGACTCCCCAAAGCATTACGGTTGGCGAACCTTATCGGACGGTGACG
195 AGGGAATGCTATGGTGAGGGACTCCCCAAAGCATTACGGTTGGCGAACCTTATCGGACGGTGACG
8442744 GCGTGTCCATC
260 GCGTGTCCATC
8442755 TTC
1 TTC
8442758 GGCGGTAGCC
Statistics
Matches: 272, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
269 8 0.03
270 264 0.97
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (270 bp):
TTCAACGAACCATTGTGGATCATTTTCCCTCATGACATGACGATCCGATTGAAGGAAGAGCTGCT
CATGAATTCGTTCAAGACGATCGATGGTCGAGGTGCAAGCGTCCACATTGCAGGGGGTCCTTGTA
TAACCATTCAGTATGTGACCCAACATTTCATTCACGGACTCAACATCCATGACTGCAAGCAAGGA
GGGAATGCTATGGTGAGGGACTCCCCAAAGCATTACGGTTGGCGAACCTTATCGGACGGTGACGG
CGTGTCCATC
Found at i:8443646 original size:11 final size:11
Alignment explanation
Indices: 8443625--8443654 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8443615 GAAAAATTAA
8443625 ATATA-TATAT
1 ATATATTATAT
8443635 ATATATTATAT
1 ATATATTATAT
8443646 ATATATTAT
1 ATATATTAT
8443655 GAAGGTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATATTATAT
Found at i:8446332 original size:15 final size:17
Alignment explanation
Indices: 8446308--8446339 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8446298 TTTTATTTTT
8446308 TTAAAGTTTAAC-ATAA
1 TTAAAGTTTAACTATAA
8446324 TTAAA-TTTAACTATAA
1 TTAAAGTTTAACTATAA
8446340 AGTAAGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TTAAAGTTTAACTATAA
Found at i:8451287 original size:19 final size:19
Alignment explanation
Indices: 8451241--8451291 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
8451231 TTTTCATAAA
*
8451241 TTTAATTATTTTTTATTTG
1 TTTAAATATTTTTTATTTG
*
8451260 TTTATAATATTTTTT-TTATT
1 TTTA-AATATTTTTTATT-TG
8451280 TTTAAATATTTT
1 TTTAAATATTTT
8451292 AAATGGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTAAATATTTTTTATTTG
Found at i:8455146 original size:19 final size:19
Alignment explanation
Indices: 8455108--8455174 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
8455098 TTTAATTGAA
8455108 CATCGAATGCATT-T-CATG
1 CATCG-ATGCATTCTCCATG
8455126 CATCGATGCATTCTCCATG
1 CATCGATGCATTCTCCATG
8455145 CATCGATGCATTCTCCATG
1 CATCGATGCATTCTCCATG
8455164 CATCGATGCAT
1 CATCGATGCAT
8455175 CAGGCTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 34 0.72
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (19 bp):
CATCGATGCATTCTCCATG
Found at i:8461061 original size:24 final size:22
Alignment explanation
Indices: 8461033--8461113 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 22
8461023 CATTTAACAA
8461033 TGCATCGATGCATCCCTTTGAAT
1 TGCATCGATGCATCCC-TTGAAT
*
8461056 GTGCATCGATGCATCCACATG-A-
1 -TGCATCGATGCATCC-CTTGAAT
* *
8461078 TGCACCGATGCATGCCTTGAAT
1 TGCATCGATGCATCCCTTGAAT
8461100 ATGCATCGATGCAT
1 -TGCATCGATGCAT
8461114 AAGACCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.06
21 14 0.29
23 13 0.27
24 17 0.35
25 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCCTTGAAT
Found at i:8461068 original size:44 final size:42
Alignment explanation
Indices: 8461012--8461135 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 42
8461002 TTTGTGCTTA
* * *
8461012 ATGCACCGATGCATTTAACAATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCA-TAAACAATGCACCGATGCATCCC-TTGAAT
* ** *
8461056 GTGCATCGATGCATCCACATGATGCACCGATGCATGCCTTGAAT
1 ATGCATCGATGCATAAACA--ATGCACCGATGCATCCCTTGAAT
*
8461100 ATGCATCGATGCATAAGACCATGCACCGATGCATCC
1 ATGCATCGATGCATAA-ACAATGCACCGATGCATCC
8461136 ATCGGGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 19 0.29
44 30 0.45
45 17 0.26
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCATCGATGCATAAACAATGCACCGATGCATCCCTTGAAT
Found at i:8462439 original size:8 final size:8
Alignment explanation
Indices: 8462426--8462471 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
8462416 AATGCATTTC
8462426 ATGCATCG
1 ATGCATCG
8462434 ATGCATCG
1 ATGCATCG
8462442 ATGCAT-G
1 ATGCATCG
* *
8462449 CATTC-TCC
1 -ATGCATCG
8462457 ATGCATCG
1 ATGCATCG
8462465 ATGCATC
1 ATGCATC
8462472 AGGCTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (8 bp):
ATGCATCG
Found at i:8463933 original size:32 final size:30
Alignment explanation
Indices: 8463883--8463966 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 30
8463873 ATAAGGAATG
*
8463883 ATATGAACATGTGATATGTGAACATAAGAGA
1 ATATG-ACATGAGATATGTGAACATAAGAGA
* ** * *
8463914 CTAAGTGACATGATCTATGTGACCATATGAGA
1 AT-A-TGACATGAGATATGTGAACATAAGAGA
8463946 ATATGACATGAGATATGTGAA
1 ATATGACATGAGATATGTGAA
8463967 TTATATGGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
30 15 0.37
31 2 0.05
32 22 0.54
33 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (30 bp):
ATATGACATGAGATATGTGAACATAAGAGA
Found at i:8464233 original size:28 final size:28
Alignment explanation
Indices: 8464200--8464271 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
8464190 TTCTTAAGGA
*
8464200 GTGGTCCTTCAGGATATATGTGTTATAT
1 GTGGTCCTTCAGGACATATGTGTTATAT
*
8464228 GTGGTCCTTCGGGACATATGTGTTATAT
1 GTGGTCCTTCAGGACATATGTGTTATAT
* *
8464256 ATGGTCCTTCGGGACA
1 GTGGTCCTTCAGGACA
8464272 AATCCTAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (28 bp):
GTGGTCCTTCAGGACATATGTGTTATAT
Found at i:8471600 original size:2 final size:2
Alignment explanation
Indices: 8471593--8471622 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8471583 GGTCACGAGT
8471593 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8471623 ATTTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8472807 original size:2 final size:2
Alignment explanation
Indices: 8472800--8472831 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8472790 CGCCTCTATT
8472800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8472832 ACAACCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8476963 original size:23 final size:20
Alignment explanation
Indices: 8476916--8476967 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 20
8476906 AAAAATCGGT
8476916 TTTTAAAAATATATAATATG
1 TTTTAAAAATATATAATATG
*
8476936 ATTTTGAAAATATATATTATATAG
1 -TTTT-AAAA-ATATATAATAT-G
8476960 TTTTAAAA
1 TTTTAAAA
8476968 CGATTTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 14 0.52
24 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
TTTTAAAAATATATAATATG
Found at i:8476976 original size:35 final size:37
Alignment explanation
Indices: 8476936--8477071 Score: 124
Period size: 35 Copynumber: 3.8 Consensus size: 37
8476926 ATATAATATG
8476936 ATTTTGAAAATATATATTATATAGTTTT-AAAACGAT
1 ATTTTGAAAATATATATTATATAGTTTTAAAAACGAT
* * *
8476972 -TTTTGAAAACATATATAATAT-GTTTTTGAAAAC-AT
1 ATTTTGAAAATATATATTATATAG-TTTTAAAAACGAT
*
8477007 ATTTTG-AAA-ACATA-TATATAGTTTTCAAAAACGAT
1 ATTTTGAAAATATATATTATATAGTTTT-AAAAACGAT
* * *
8477042 CTTTTGGAAACATATATAATATATAATTTT
1 ATTTT-GAAA-ATATATATTATATAGTTTT
8477072 TGAAAACATA
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 8 0.10
34 11 0.14
35 34 0.42
36 11 0.14
37 2 0.02
38 1 0.01
39 4 0.05
40 10 0.12
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (37 bp):
ATTTTGAAAATATATATTATATAGTTTTAAAAACGAT
Found at i:8476992 original size:58 final size:59
Alignment explanation
Indices: 8476878--8477008 Score: 169
Period size: 58 Copynumber: 2.2 Consensus size: 59
8476868 AGAAGACGTT
* *
8476878 TTTTGAAAGTATATAACATATAGTTTTTAAAAATCGGTTTTTAAAAATATATAATATGA
1 TTTTGAAAATATATAACATATAGTTTTTAAAAATCGATTTTTAAAAATATATAATATGA
** *
8476937 TTTTGAAAATATATATTATATAG-TTTT-AAAA-CGATTTTTGAAAACATATATAATATGT
1 TTTTGAAAATATATAACATATAGTTTTTAAAAATCGATTTTT-AAAA-ATATATAATATGA
*
8476995 TTTTGAAAACATAT
1 TTTTGAAAATATAT
8477009 TTTGAAAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
56 7 0.11
57 8 0.12
58 29 0.45
59 20 0.31
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (59 bp):
TTTTGAAAATATATAACATATAGTTTTTAAAAATCGATTTTTAAAAATATATAATATGA
Found at i:8477013 original size:13 final size:13
Alignment explanation
Indices: 8476995--8477021 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8476985 TATAATATGT
8476995 TTTTGAAAACATA
1 TTTTGAAAACATA
8477008 TTTTGAAAACATA
1 TTTTGAAAACATA
8477021 T
1 T
8477022 ATATAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTGAAAACATA
Found at i:8477023 original size:94 final size:95
Alignment explanation
Indices: 8476827--8477024 Score: 210
Period size: 94 Copynumber: 2.1 Consensus size: 95
8476817 TTTAGTATAT
* * **
8476827 ATATAATAATATAATTTTTTAAAACATATAATATATAGTTTAGAAGACGTTTTTTGAAAGTATAT
1 ATAT-ATAATATAATTTTTGAAAACATATAATATATAGTTTAGAAGACGATTTTTGAAAACATAT
* *
8476892 AACATATAGTTTTTAAAAATCGGTTTTTAAAA
65 AACATATAGTTTTTAAAAATC-ATTTTGAAAA
* * *
8476924 ATATATAATATGA-TTTTGAAAATATATATTATATAGTTTTA-AA-ACGATTTTTGAAAACATAT
1 ATATATAATATAATTTTTGAAAACATATAATATATAG-TTTAGAAGACGATTTTTGAAAACATAT
8476986 ATA-ATAT-GTTTTTGAAAACAT-ATTTTGAAAA
65 A-ACATATAGTTTTT-AAAA-ATCATTTTGAAAA
8477017 CATATATA
1 -ATATATA
8477025 TAGTTTTCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
93 14 0.16
94 32 0.37
95 25 0.29
96 12 0.14
97 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (95 bp):
ATATATAATATAATTTTTGAAAACATATAATATATAGTTTAGAAGACGATTTTTGAAAACATATA
ACATATAGTTTTTAAAAATCATTTTGAAAA
Found at i:8477078 original size:26 final size:25
Alignment explanation
Indices: 8477043--8477097 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
8477033 AAAAACGATC
*
8477043 TTTTGGAAACATATATAATATATAAT
1 TTTTGAAAACATAT-TAATATATAAT
* *
8477069 TTTTGAAAACATATTATTATATAGT
1 TTTTGAAAACATATTAATATATAAT
8477094 TTTT
1 TTTT
8477098 ATTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (25 bp):
TTTTGAAAACATATTAATATATAAT
Found at i:8477117 original size:27 final size:26
Alignment explanation
Indices: 8477083--8477253 Score: 110
Period size: 24 Copynumber: 6.6 Consensus size: 26
8477073 GAAAACATAT
8477083 TATT-ATATAGTTTTTATTATATATTA
1 TATTAATATA-TTTTTATTATATATTA
* *
8477109 TATTAATAT-TATTTATTTTATA-TA
1 TATTAATATATTTTTATTATATATTA
8477133 TATTAATATTACTTATTATATTATATATTA
1 TATTAATA-TA-TT-TT-TATTATATATTA
*
8477163 TATTAATACTATTTAGTATTAT-TATTA
1 TATTAATA-TATTT-TTATTATATATTA
* * *
8477190 TTTGTATATATATATATATT-TATTATT-
1 TAT-TA-ATATATTTTTATTATA-TATTA
*
8477217 TATT-AT-TATTTATATTATATATT-
1 TATTAATATATTTTTATTATATATTA
*
8477240 TATTTAT-TATTTTT
1 TATTAATATATTTTT
8477254 TTGCTCCAGG
Statistics
Matches: 119, Mismatches: 12, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
23 17 0.14
24 22 0.18
25 12 0.10
26 6 0.05
27 18 0.15
28 19 0.16
29 13 0.11
30 12 0.10
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTAATATATTTTTATTATATATTA
Found at i:8477237 original size:34 final size:34
Alignment explanation
Indices: 8477104--8477251 Score: 151
Period size: 34 Copynumber: 4.2 Consensus size: 34
8477094 TTTTATTATA
*
8477104 TATTATATTAATATTATTTAT-TT-TATATATATT
1 TATTAT-TTATTATTATTTATATTATATATATATT
*
8477137 AATATTACTTATTA-TATTATATATTATATTAATACTATT
1 --TATTATTTATTATTATT-TATATTATA-T-ATA-TATT
* *
8477176 TAGTA-TTATTATTATTTGTATATATATATATATT
1 TATTATTTATTATTATTTATAT-TATATATATATT
*
8477210 TATTATTTATTATTATTTATATTATATATTTATT
1 TATTATTTATTATTATTTATATTATATATATATT
8477244 TATTATTT
1 TATTATTT
8477252 TTTTGCTCCA
Statistics
Matches: 97, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
33 4 0.04
34 35 0.36
35 25 0.26
36 13 0.13
37 13 0.13
38 3 0.03
39 4 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTATTATTATTTATATTATATATATATT
Found at i:8477344 original size:31 final size:31
Alignment explanation
Indices: 8477306--8477377 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
8477296 AGCCATGCCA
8477306 GCCTGACCCAACAAAGCAGGTCTGGTTAGGC
1 GCCTGACCCAACAAAGCAGGTCTGGTTAGGC
*
8477337 GCCTGACCCAACAAAGCAGGTTTGGTTAGGC
1 GCCTGACCCAACAAAGCAGGTCTGGTTAGGC
8477368 GCCTGACCCA
1 GCCTGACCCA
8477378 GTCCATATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.25, C:0.31, G:0.28, T:0.17
Consensus pattern (31 bp):
GCCTGACCCAACAAAGCAGGTCTGGTTAGGC
Found at i:8478796 original size:53 final size:48
Alignment explanation
Indices: 8478739--8478913 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 48
8478729 AATTTGATCC
8478739 TTTAACACTTTCTTCATTTTTAAATTTTATTATTATGTTTATTTATTCTAAAA
1 TTTAACA-TTTCTTCATTTTT---TTTTATT-TTATGTTTATTTATTCTAAAA
* * * *
8478792 TTTAACATTTCTT--TCTCTTTTTATTTTATTTTTATTTATTTTAAAA
1 TTTAACATTTCTTCATTTTTTTTTATTTTATGTTTATTTATTCTAAAA
* * * *
8478838 ATTAATATTTTCTTCATTTTTTATTTATTTTA----AATTTATTTTAAAA
1 TTTAACA-TTTCTTCATTTTTT-TTTATTTTATGTTTATTTATTCTAAAA
*
8478884 TTTAAAATTTTCTTCATTTTTTATTTATTT
1 TTTAACA-TTTCTTCATTTTTT-TTTATTT
8478914 CTCTTTTAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
46 65 0.61
47 13 0.12
49 4 0.04
50 12 0.11
52 6 0.06
53 7 0.07
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (48 bp):
TTTAACATTTCTTCATTTTTTTTTATTTTATGTTTATTTATTCTAAAA
Found at i:8478831 original size:46 final size:45
Alignment explanation
Indices: 8478762--8478913 Score: 184
Period size: 46 Copynumber: 3.3 Consensus size: 45
8478752 TCATTTTTAA
* * *
8478762 ATTTTATTA-TTATGTTTATTTATTCTAAAATTTAACA-TTTCTTTC
1 ATTTT-TTATTTATTTTTATTTATTTTAAAATTTAAAATTTTC-TTC
* *
8478807 -TCTTTTTATTTTATTTTTATTTATTTTAAAAATTAATATTTTCTTC
1 AT-TTTTTA-TTTATTTTTATTTATTTTAAAATTTAAAATTTTCTTC
*
8478853 ATTTTTTATTTATTTTAAATTTATTTTAAAATTTAAAATTTTCTTC
1 ATTTTTTATTTATTTT-TATTTATTTTAAAATTTAAAATTTTCTTC
8478899 ATTTTTTATTTATTT
1 ATTTTTTATTTATTT
8478914 CTCTTTTAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
44 4 0.04
45 11 0.12
46 74 0.79
47 5 0.05
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (45 bp):
ATTTTTTATTTATTTTTATTTATTTTAAAATTTAAAATTTTCTTC
Found at i:8479436 original size:22 final size:21
Alignment explanation
Indices: 8479395--8479439 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8479385 TATCAACTGT
*
8479395 TTAAAATATATATTAATTTTG
1 TTAAAATATATAATAATTTTG
*
8479416 TTAAAA-ATATAATAAGTTT-
1 TTAAAATATATAATAATTTTG
8479435 TTAAA
1 TTAAA
8479440 TTAATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 11 0.50
21 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TTAAAATATATAATAATTTTG
Found at i:8482502 original size:30 final size:32
Alignment explanation
Indices: 8482468--8482535 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
8482458 ATAGTTTTTA
8482468 TATTTTATAGT-AAT-ATAATTATATAAATAT
1 TATTTTATAGTAAATAATAATTATATAAATAT
* * * *
8482498 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATAGT-AAATAATAATTATATAAATAT
8482531 TATTT
1 TATTT
8482536 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 9 0.29
32 3 0.10
33 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TATTTTATAGTAAATAATAATTATATAAATAT
Found at i:8482537 original size:30 final size:28
Alignment explanation
Indices: 8482496--8482559 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
8482486 TTATATAAAT
* *
8482496 ATTATTTTTTATTAAAATAATATTTATATA
1 ATTATTATTTATTAAAAT-ATATTAAT-TA
* *
8482526 ATTATTATTTATTTAAATTTATTAATTA
1 ATTATTATTTATTAAAATATATTAATTA
8482554 ATTATT
1 ATTATT
8482560 TTTTGTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.27
29 6 0.20
30 16 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTATTATTTATTAAAATATATTAATTA
Found at i:8484362 original size:21 final size:21
Alignment explanation
Indices: 8484333--8484384 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
8484323 TATGTCATCT
8484333 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
** *
8484354 CTTCAGGGTTATATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
8484375 CCGCAGGGTT
1 CCGCAGGGTT
8484385 TTATGAGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:8484933 original size:34 final size:34
Alignment explanation
Indices: 8484890--8484962 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
8484880 TTAAATGTTT
*
8484890 TTAATATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
8484924 TTAAAATACAAATTATGGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
8484958 TTAAA
1 TTAAA
8484963 TTCAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:8485089 original size:14 final size:14
Alignment explanation
Indices: 8485070--8485100 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8485060 TTTTATCCTT
8485070 AACATATACATTAA
1 AACATATACATTAA
8485084 AACATATACATTAA
1 AACATATACATTAA
8485098 AAC
1 AAC
8485101 CAACTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:8485246 original size:63 final size:63
Alignment explanation
Indices: 8485167--8485293 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
8485157 TTCAATGTCT
* *
8485167 CAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTTAAA
1 CAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAA
** *
8485230 CAACCAACTGATCACTTCACATTTATTCAATTTATTTATAACATTTTATCCAATTTATTCAAA
1 CAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAA
8485293 C
1 C
8485294 TTCACATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (63 bp):
CAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAA
Found at i:8485593 original size:138 final size:137
Alignment explanation
Indices: 8485345--8486104 Score: 1218
Period size: 138 Copynumber: 5.5 Consensus size: 137
8485335 ACATGAGTGA
* *
8485345 GGCAATGATAATATATTCTCTGACAAAATAATGGAAG-GCGTACCCCCGGGAACGCGCTTTCACC
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAAGCGCG--CCCCCAGGAACGCGCTTTCACC
* * *
8485409 ACTTTGCTAAGTCCCCTCAGAAATAATAGGTACTGACATTAATAGTTCTCCGGGGGACATGAGTG
64 ACTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTG
8485474 ACATAATAG
129 ACATAATAG
* * *
8485483 GGCAATGATAACATATTCTCTGACAAAATAATAGAAGATGCGCCCCCAGGAACGCCCTTTCACCA
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAAG-CGCGCCCCCAGGAACGCGCTTTCACCA
8485548 CTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGA
65 CTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGA
8485613 CATAATAG
130 CATAATAG
*
8485621 GGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCTTTCACCA
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAA-GCGCGCCCCCAGGAACGCGCTTTCACCA
* * *
8485686 CTTTGCCAAGTCCCATAAGAAATAATAAGTACTGACATGAATAGTTCTTCGGGGGACATGAGTGA
65 CTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGA
8485751 CATAATAG
130 CATAATAG
*
8485759 GGCAATGATAACATATTCTCTGACAAAATAATGGAAGACGCGCCCCCAGGAACGCTCTTTCACCA
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAAG-CGCGCCCCCAGGAACGCGCTTTCACCA
* * * * * *
8485824 CTTTGCCAAGTCCCATCAGAAATAATAGGTATTAACATAAATAGTTCTCCGAGGGACGTGAGTGG
65 CTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGA
8485889 CATAATAG
130 CATAATAG
8485897 GGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCTTTCACCA
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAA-GCGCGCCCCCAGGAACGCGCTTTCACCA
*
8485962 CTTTGCCAAGTCCCATCAGAAATAATAGGTATTGACATGAATAGTTCTCCGGGGGACATGAGTGA
65 CTTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGA
8486027 CATAATAG
130 CATAATAG
* * * *
8486035 GGCAATGATAACATATTCTCTGACAAAATAATCGAAG-GCGCCCCTCCGGGAATGCTCTTTCACC
1 GGCAATGATAACATATTCTCTGACAAAATAATGGAAGCGCG-CCC-CCAGGAACGCGCTTTCACC
8486099 ACTTTG
64 ACTTTG
8486105 GGTACTAACA
Statistics
Matches: 580, Mismatches: 35, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
136 3 0.01
137 5 0.01
138 567 0.98
139 2 0.00
140 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (137 bp):
GGCAATGATAACATATTCTCTGACAAAATAATGGAAGCGCGCCCCCAGGAACGCGCTTTCACCAC
TTTGCCAAGTCCCATCAGAAATAATAGGTACTGACATGAATAGTTCTCCGGGGGACATGAGTGAC
ATAATAG
Found at i:8486269 original size:86 final size:86
Alignment explanation
Indices: 8486124--8486291 Score: 264
Period size: 86 Copynumber: 2.0 Consensus size: 86
8486114 ATGAATAGTG
* * * * *
8486124 CCCCCGAGGGACATGAGTGACATAATAGGGTAACGATAACATATTCTCTGACAAAATAATGGAAG
1 CCCCCGAGGGACATGAATGACATAATAGAGCAACGATAACATATTATCTGACAAAATAATCGAAG
8486189 GCGCCCCCCTAGGAACGCGTA
66 GCGCCCCCCTAGGAACGCGTA
* *
8486210 CCCCCGAGGGATATGAATGACATAATAGAGCAATGATAACATATTATCTGACAAAATAATCGAAG
1 CCCCCGAGGGACATGAATGACATAATAGAGCAACGATAACATATTATCTGACAAAATAATCGAAG
*
8486275 GCGCGCCCCTAGGAACG
66 GCGCCCCCCTAGGAACG
8486292 TGCCTTTACG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (86 bp):
CCCCCGAGGGACATGAATGACATAATAGAGCAACGATAACATATTATCTGACAAAATAATCGAAG
GCGCCCCCCTAGGAACGCGTA
Found at i:8489431 original size:16 final size:16
Alignment explanation
Indices: 8489393--8489434 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
8489383 ATGTACACCT
8489393 AAATAATTTT-TTTAA
1 AAATAATTTTATTTAA
8489408 AAA-AATTTTATTTAA
1 AAATAATTTTATTTAA
*
8489423 AAATTATTTTAT
1 AAATAATTTTAT
8489435 GATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATTTTATTTAA
Found at i:8495704 original size:21 final size:20
Alignment explanation
Indices: 8495678--8495726 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
8495668 TAAAAGATTA
*
8495678 AAAATAATAAAGATATATGTT
1 AAAATAATAAA-ATATATGTC
*
8495699 AAAAT-AGAAAATATATGTC
1 AAAATAATAAAATATATGTC
8495718 AAGAATAAT
1 AA-AATAAT
8495727 TTGGTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAATAATAAAATATATGTC
Found at i:8497246 original size:16 final size:16
Alignment explanation
Indices: 8497220--8497281 Score: 106
Period size: 16 Copynumber: 3.8 Consensus size: 16
8497210 TATTATAACT
*
8497220 GCTCATACACATCAGCA
1 GCTC-TACACATCAACA
8497237 GCTCTACACATCAACA
1 GCTCTACACATCAACA
8497253 GCTCTACACATCAACA
1 GCTCTACACATCAACA
8497269 GCTCTACACATCA
1 GCTCTACACATCA
8497282 GCTACACTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
16 40 0.91
17 4 0.09
ACGTcount: A:0.35, C:0.37, G:0.08, T:0.19
Consensus pattern (16 bp):
GCTCTACACATCAACA
Found at i:8501303 original size:20 final size:20
Alignment explanation
Indices: 8501266--8501304 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8501256 TATATTGGGT
* *
8501266 TATTGTCTATTGTTTATGGC
1 TATTGTCTATGGTATATGGC
8501286 TATTGTCTATGGTATATGG
1 TATTGTCTATGGTATATGG
8501305 TTTATTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.23, T:0.51
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGC
Found at i:8501383 original size:44 final size:45
Alignment explanation
Indices: 8501333--8501467 Score: 209
Period size: 45 Copynumber: 3.0 Consensus size: 45
8501323 GTAAGCATGC
* *
8501333 AAATAAGCTTATGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
8501377 AAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
8501422 AAATAAGCTTACGAGCTTATGGGATAAATGATATGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
8501467 A
1 A
8501468 GAAAGTTGTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 23 0.28
45 60 0.72
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:8501828 original size:21 final size:21
Alignment explanation
Indices: 8501790--8501829 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8501780 TTGGGAAACA
*
8501790 AAATGGTAACTTTATATGATG
1 AAATGGTAAATTTATATGATG
* *
8501811 AAATGTTAAATTTTTATGA
1 AAATGGTAAATTTATATGA
8501830 ATTTTTATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (21 bp):
AAATGGTAAATTTATATGATG
Found at i:8509737 original size:10 final size:9
Alignment explanation
Indices: 8509702--8509800 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
8509692 GCTGCTGGAA
*
8509702 ACCGGTTTA
1 ACCGGTTTG
*
8509711 ACCGGTTTTCA
1 ACCGG-TTT-G
8509722 ACCGGTTCTG
1 ACCGGTT-TG
8509732 ACCGGTTTG
1 ACCGGTTTG
*
8509741 ACCGGTTTCA
1 ACCGGTTT-G
*
8509751 ACCGGTTCG
1 ACCGGTTTG
8509760 AACCGGTTTG
1 -ACCGGTTTG
*
8509770 ACCGGTCTG
1 ACCGGTTTG
*
8509779 AATCGGTTTG
1 -ACCGGTTTG
*
8509789 ACCGGTCTG
1 ACCGGTTTG
8509798 ACC
1 ACC
8509801 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:8509746 original size:19 final size:19
Alignment explanation
Indices: 8509703--8509800 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
8509693 CTGCTGGAAA
* * *
8509703 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
8509723 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
8509742 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
8509762 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
8509781 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
8509799 CC
1 CC
8509801 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:8509764 original size:29 final size:30
Alignment explanation
Indices: 8509701--8509800 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
8509691 GGCTGCTGGA
*
8509701 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
8509732 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
8509760 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
8509789 -ACCGGTCTGACC
1 AACCGGTTTGACC
8509801 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:8509807 original size:5 final size:5
Alignment explanation
Indices: 8509797--8509876 Score: 70
Period size: 5 Copynumber: 14.8 Consensus size: 5
8509787 TGACCGGTCT
* * *
8509797 GACCC GACCC GACCGTT GACCC TACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
*
8509846 GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACC--C GACCC GACCC GACCC GACC
8509877 GTTGACTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 49 0.80
7 12 0.20
ACGTcount: A:0.19, C:0.51, G:0.21, T:0.09
Consensus pattern (5 bp):
GACCC
Found at i:8509824 original size:22 final size:22
Alignment explanation
Indices: 8509797--8509882 Score: 163
Period size: 22 Copynumber: 3.9 Consensus size: 22
8509787 TGACCGGTCT
8509797 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
8509819 TACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
8509841 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
8509863 GACCCGACCCGACCGTTGAC
1 GACCCGACCCGACCGTTGAC
8509883 TGTTGACCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.19, C:0.49, G:0.22, T:0.10
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:8509889 original size:7 final size:7
Alignment explanation
Indices: 8509873--8509910 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
8509863 GACCCGACCC
8509873 GACCGTT
1 GACCGTT
*
8509880 GACTGTT
1 GACCGTT
8509887 GACCGTT
1 GACCGTT
8509894 GACCGTT
1 GACCGTT
*
8509901 GACCATT
1 GACCGTT
8509908 GAC
1 GAC
8509911 TTTCTTTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:8513721 original size:18 final size:18
Alignment explanation
Indices: 8513698--8513732 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8513688 TTCCATCCGG
*
8513698 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
8513716 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
8513733 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:8515042 original size:8 final size:8
Alignment explanation
Indices: 8515012--8515068 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
8515002 GGTCAACAAT
8515012 GGTCAACG
1 GGTCAACG
8515020 CCGGTCAAC-
1 --GGTCAACG
8515029 GGTCAACG
1 GGTCAACG
8515037 GGTCAAC-
1 GGTCAACG
*
8515044 GGTCAATG
1 GGTCAACG
8515052 GGT---CG
1 GGTCAACG
8515057 GGTCAACG
1 GGTCAACG
8515065 GGTC
1 GGTC
8515069 GGGTCGGGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 4 0.10
7 13 0.32
8 16 0.40
10 7 0.17
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:8515042 original size:15 final size:15
Alignment explanation
Indices: 8515012--8515068 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
8515002 GGTCAACAAT
8515012 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
8515029 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
* *
8515044 GGTCAATGGGTC--G
1 GGTCAACGGGTCAAC
8515057 GGTCAACGGGTC
1 GGTCAACGGGTC
8515069 GGGTCGGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 11 0.30
15 18 0.49
17 8 0.22
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:8515062 original size:13 final size:13
Alignment explanation
Indices: 8515029--8515117 Score: 61
Period size: 13 Copynumber: 6.3 Consensus size: 13
8515019 GCCGGTCAAC
*
8515029 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
*
8515044 GGTCAATGGGTCG
1 GGTCAACGGGTCG
8515057 GGTCAACGGGTCGGGTCG
1 GGTCAAC--G---GGTCG
*
8515075 GGTCAACTGGTCG
1 GGTCAACGGGTCG
* *
8515088 GATAAACGGGTCG
1 GGTCAACGGGTCG
*
8515101 GGTAAACGGGTCG
1 GGTCAACGGGTCG
8515114 GGTC
1 GGTC
8515118 GGGTCGGGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
13 36 0.60
15 12 0.20
18 12 0.20
ACGTcount: A:0.19, C:0.20, G:0.43, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:8515074 original size:18 final size:18
Alignment explanation
Indices: 8515051--8515088 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8515041 AACGGTCAAT
8515051 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTCAACGGGTC
*
8515069 GGGTCGGGTCAACTGGTC
1 GGGTCGGGTCAACGGGTC
8515087 GG
1 GG
8515089 ATAAACGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.50, T:0.18
Consensus pattern (18 bp):
GGGTCGGGTCAACGGGTC
Found at i:8515087 original size:31 final size:31
Alignment explanation
Indices: 8515044--8515103 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
8515034 ACGGGTCAAC
* *
8515044 GGTCAATGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAATGGGTCGGATAAACGGGTCGGGTCG
8515075 GGTCAACT-GGTCGGATAAACGGGTCGGGT
1 GGTCAA-TGGGTCGGATAAACGGGTCGGGT
8515104 AAACGGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.17, C:0.18, G:0.45, T:0.20
Consensus pattern (31 bp):
GGTCAATGGGTCGGATAAACGGGTCGGGTCG
Found at i:8515115 original size:5 final size:5
Alignment explanation
Indices: 8515107--8515131 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8515097 GTCGGGTAAA
8515107 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
8515132 TATGACCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:8519344 original size:64 final size:63
Alignment explanation
Indices: 8519257--8519418 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 63
8519247 AATTGTTCAG
* * *
8519257 TGTGTATCGATGCACAAGAAGTGCATCGATGCACCCCTTAAAAATGGAAACATCGAATG-CAAT
1 TGTGCATCGATGCATAAGAAGTGCATCGATGCACCCCTT-AAAATGAAAACATCGAATGTCAAT
* * * * * * *
8519320 TAGTGCATCGATGCATAAGGAGTGCATTGATACATCCCCTTAAGATTAAAACATCGAATGTGACT
1 T-GTGCATCGATGCATAAGAAGTGCATCGATGCA-CCCCTTAAAATGAAAACATCGAATGTCAAT
* * * *
8519385 TGTGTATCAATGCATGAGTAGTGCATCGATGCAC
1 TGTGCATCGATGCATAAGAAGTGCATCGATGCAC
8519419 ATGTTAAGGG
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
63 2 0.03
64 69 0.86
65 9 0.11
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (63 bp):
TGTGCATCGATGCATAAGAAGTGCATCGATGCACCCCTTAAAATGAAAACATCGAATGTCAAT
Found at i:8520337 original size:31 final size:31
Alignment explanation
Indices: 8520251--8520356 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
8520241 AGTCGAGGGT
** *
8520251 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTAATGAACATATGGACAGTA
* *
8520282 TTACCTATG-TCT-TTCGAGATATATGGACAGTA
1 -TACCTATGTTCTAAT-GA-ACATATGGACAGTA
*
8520314 TACCTATGTTCTAATGAACATATGGACAGTT
1 TACCTATGTTCTAATGAACATATGGACAGTA
*
8520345 TACCTAGGTTCT
1 TACCTATGTTCT
8520357 TTGGGACCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
31 36 0.58
32 25 0.40
33 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
TACCTATGTTCTAATGAACATATGGACAGTA
Found at i:8523334 original size:10 final size:10
Alignment explanation
Indices: 8523321--8523347 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8523311 CAGAGTTCTA
8523321 TTCTTCTCCT
1 TTCTTCTCCT
8523331 TTCTTCTCCT
1 TTCTTCTCCT
8523341 TTCTTCT
1 TTCTTCT
8523348 TCTTCTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TTCTTCTCCT
Found at i:8524954 original size:31 final size:31
Alignment explanation
Indices: 8524870--8524993 Score: 124
Period size: 31 Copynumber: 4.0 Consensus size: 31
8524860 AGTCGAGGGT
* *
8524870 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTATGGAACATATGGACAGTA
* * *
8524901 TTATCTATG-TCTTTCGAGACATATGGACAGTA
1 -TACCTATGTTCTATGGA-ACATATGGACAGTA
* *
8524933 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTATGGAACATATGGACAGTA
* * * *
8524964 TACCTAGGTTCTTTGGGACCTATGGACAGT
1 TACCTATGTTCTATGGAACATATGGACAGT
8524994 TGCCGAGGTT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
31 50 0.67
32 25 0.33
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTATGGAACATATGGACAGTA
Found at i:8524977 original size:63 final size:62
Alignment explanation
Indices: 8524870--8524993 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 62
8524860 AGTCGAGGGT
* * *
8524870 TACCTATGTTCTACGGAACATATGGACAGAATTATCTATGTCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGGTCTTT-GAGACATATGGACAGTA
* * *
8524933 TACCTATGTTCTAAGGAACATATGGACAG-TTTACCTAGGTTCTTTGGGACCTATGGACAGT
1 TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGG-TCTTTGAGACATATGGACAGT
8524994 TGCCGAGGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
62 21 0.39
63 33 0.61
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (62 bp):
TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGGTCTTTGAGACATATGGACAGTA
Found at i:8524994 original size:31 final size:31
Alignment explanation
Indices: 8524869--8525007 Score: 111
Period size: 31 Copynumber: 4.5 Consensus size: 31
8524859 GAGTCGAGGG
* ** *
8524869 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTAGGTTCTTTGGAACATATGGACAG-T
* * *
8524901 TTATCTATG-TCTTTCGAGACATATGGACAGT
1 TTACCTAGGTTCTTTGGA-ACATATGGACAGT
* * **
8524932 ATACCTATGTTCTAAGGAACATATGGACAGT
1 TTACCTAGGTTCTTTGGAACATATGGACAGT
* *
8524963 TTACCTAGGTTCTTTGGGACCTATGGACAG-
1 TTACCTAGGTTCTTTGGAACATATGGACAGT
* *
8524993 TTGCCGAGGTTCTTT
1 TTACCTAGGTTCTTT
8525008 ATGACCTCTG
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
30 13 0.15
31 49 0.56
32 25 0.29
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (31 bp):
TTACCTAGGTTCTTTGGAACATATGGACAGT
Found at i:8525014 original size:30 final size:31
Alignment explanation
Indices: 8524922--8525019 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
8524912 TTTCGAGACA
* * * * *
8524922 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGTTTACCGAGGTTCTTTAGG-ACC
* *
8524953 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
* *
8524984 TATGGACAG-TTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
*
8525014 TCTGGA
1 TATGGA
8525020 TAGGTCATTC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
30 22 0.39
31 31 0.55
32 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTTAGGACC
Found at i:8527282 original size:21 final size:21
Alignment explanation
Indices: 8527229--8527285 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 21
8527219 TAAATAGATC
8527229 AATAATTAATA-T-TTTTAAT
1 AATAATTAATATTATTTTAAT
* *
8527248 AAT-ATT-AT-TAATTTTTAT
1 AATAATTAATATTATTTTAAT
8527266 AATAATTAATATTATTTTAA
1 AATAATTAATATTATTTTAA
8527286 ATTTATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 6 0.21
20 2 0.07
21 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATAATTAATATTATTTTAAT
Found at i:8529458 original size:3 final size:3
Alignment explanation
Indices: 8529450--8529474 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8529440 GTGTGTTGGA
8529450 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8529475 AATGCATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8537473 original size:2 final size:2
Alignment explanation
Indices: 8537466--8537492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8537456 TAAATTTGGA
8537466 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 A
8537493 ATCCATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8537921 original size:2 final size:2
Alignment explanation
Indices: 8537916--8537982 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
8537906 CAAAAAAAAT
8537916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8537958 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8537983 TGTAAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8538517 original size:19 final size:20
Alignment explanation
Indices: 8538487--8538536 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8538477 ATTTTATTTT
*
8538487 TTATAATTTTAGT-AAAAAA
1 TTATATTTTTAGTGAAAAAA
*
8538506 TTGA-ATTTTTAGTGAAAACA
1 TT-ATATTTTTAGTGAAAAAA
8538526 TTATATTTTTA
1 TTATATTTTTA
8538537 ATTAAAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (20 bp):
TTATATTTTTAGTGAAAAAA
Found at i:8539318 original size:39 final size:39
Alignment explanation
Indices: 8539212--8539322 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 39
8539202 TTATTCATAA
* * *
8539212 TTCTCAAATTATTTTAC-TCTAACATTATAAATTCTAAAT
1 TTCTTAAATTATTTCACATC-AACATTCTAAATTCTAAAT
* * *
8539251 TTCTTAAATT-TTGACACCAT-AACGTTCTAAATTCTCAAT
1 TTCTTAAATTATT-TCA-CATCAACATTCTAAATTCTAAAT
*
8539290 TTCTTAAATTATTTCACATCAACCTTCTAAATT
1 TTCTTAAATTATTTCACATCAACATTCTAAATT
8539323 ATTTTTTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
38 5 0.08
39 50 0.85
40 3 0.05
41 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (39 bp):
TTCTTAAATTATTTCACATCAACATTCTAAATTCTAAAT
Found at i:8539478 original size:2 final size:2
Alignment explanation
Indices: 8539471--8539542 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
8539461 TTTTATAATT
8539471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8539513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8539543 AAATAATATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8540478 original size:113 final size:112
Alignment explanation
Indices: 8540146--8540587 Score: 733
Period size: 112 Copynumber: 3.9 Consensus size: 112
8540136 TTGTCGGTTT
* ** * *
8540146 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAATAGGTAAAAAAATGAAAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
8540211 AGACTATAAATGACAAAACAGGTAAAGCACTACTGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAA
8540258 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
8540323 GGTCTATAAATGACAAAACAGGTAAAGCGCTA-TCGGATATATTTAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACT-GGATATATTGAAA
*
8540370 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* *
8540435 CGGTCTATAAATGAAAAAACAGGTAAAGCGCTACAGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAA
* *
8540483 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAACAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
8540548 GGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATAT
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATAT
8540588 GTTAAAAGAG
Statistics
Matches: 311, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
111 1 0.00
112 202 0.65
113 108 0.35
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAA
Found at i:8540541 original size:225 final size:224
Alignment explanation
Indices: 8540146--8540587 Score: 742
Period size: 225 Copynumber: 2.0 Consensus size: 224
8540136 TTGTCGGTTT
* *
8540146 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAATAGGTAAAAAAATGAAAAAACC
1 GTGTCGATACTTTATAAAAATATATCAATCCATAACAATATAACAGGTAAAAAAATGAAAAAACC
* *
8540211 AGACTATAAATGACAAAACAGGTAAAGCACTACTGGATATATTGAAAGTGTCGATACTTTATAAA
66 AGACTATAAATGAAAAAACAGGTAAAGCACTACAGGATATATTGAAAGTGTCGATACTTTATAAA
8540276 AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
131 AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
8540341 CAGGTAAAGCGCTA-TCGGATATATTTAAA
196 CAGGTAAAGCGCTACT-GGATATATTTAAA
* * * *
8540370 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCAATCCATAACAATATAACAGGT-AAAAAAATGAAAAAAC
* * *
8540435 CGGTCTATAAATGAAAAAACAGGTAAAGCGCTACAGGATATATTGAAAGTGTCGATACTTTATAA
65 CAGACTATAAATGAAAAAACAGGTAAAGCACTACAGGATATATTGAAAGTGTCGATACTTTATAA
* *
8540500 AAATGTATCGATCCATAACAATATAACATGTAAACAAATGACAAAACCGGTCTATAAATGACAAA
130 AAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
8540565 ACAGGTAAAGCGCTACTGGATAT
195 ACAGGTAAAGCGCTACTGGATAT
8540588 GTTAAAAGAG
Statistics
Matches: 203, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
224 43 0.21
225 159 0.78
226 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (224 bp):
GTGTCGATACTTTATAAAAATATATCAATCCATAACAATATAACAGGTAAAAAAATGAAAAAACC
AGACTATAAATGAAAAAACAGGTAAAGCACTACAGGATATATTGAAAGTGTCGATACTTTATAAA
AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
CAGGTAAAGCGCTACTGGATATATTTAAA
Found at i:8540664 original size:137 final size:137
Alignment explanation
Indices: 8540480--8540732 Score: 418
Period size: 137 Copynumber: 1.8 Consensus size: 137
8540470 GGATATATTG
*
8540480 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAACAA-ATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AATATGACAA
* * *
8540544 AACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACTGGATATGTTAAAAGAGAAGAAGTTATA
65 AACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTAAAAGAGAAGAAGTTATA
8540609 TCGCTAAT
130 TCGCTAAT
8540617 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
8540682 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAG
66 ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTAAAAG
8540733 TGTCGATACT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
136 2 0.02
137 105 0.98
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (137 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTAAAAGAGAAGAAGTTATAT
CGCTAAT
Found at i:8542437 original size:50 final size:50
Alignment explanation
Indices: 8542355--8542454 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
8542345 GAATCTGCCC
* * * * **
8542355 ACCCTTAAATTTGAATTTTCTTCGATTTGTCACCTAATTTATTGATGGTG
1 ACCCTGAAATTTAAATTTTCTTCAATTGGTCACAGAATTTATTGATGGTG
*
8542405 ACCCTGAAATTTAAATTTTCTTCAATTGGTCACAGATTTTATTGATGGTG
1 ACCCTGAAATTTAAATTTTCTTCAATTGGTCACAGAATTTATTGATGGTG
8542455 CCCACACTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (50 bp):
ACCCTGAAATTTAAATTTTCTTCAATTGGTCACAGAATTTATTGATGGTG
Found at i:8546785 original size:21 final size:21
Alignment explanation
Indices: 8546761--8546834 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
8546751 ACCGAAAACA
*
8546761 TTATTATTTCTACCAGTTTTG
1 TTATTATTTCTACCGGTTTTG
* *
8546782 TTATTATTTGGCTACTGGTTTTTT
1 TTATTATTT--CTACCGG-TTTTG
*
8546806 TTATTTTTTCTACCGGTTTTG
1 TTATTATTTCTACCGGTTTTG
8546827 TTATTATT
1 TTATTATT
8546835 AGACACTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 20 0.47
22 6 0.14
23 5 0.12
24 12 0.28
ACGTcount: A:0.15, C:0.11, G:0.12, T:0.62
Consensus pattern (21 bp):
TTATTATTTCTACCGGTTTTG
Found at i:8547881 original size:13 final size:13
Alignment explanation
Indices: 8547865--8547897 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
8547855 GACCGGTCTG
8547865 GTTGACCCGAACC
1 GTTGACCCGAACC
*
8547878 GTTGACCCGACCC
1 GTTGACCCGAACC
8547891 GTTGACC
1 GTTGACC
8547898 GTTGACCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.39, G:0.24, T:0.18
Consensus pattern (13 bp):
GTTGACCCGAACC
Found at i:8549206 original size:17 final size:19
Alignment explanation
Indices: 8549181--8549219 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8549171 ATATATGTAT
8549181 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
8549199 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
8549218 TA
1 TA
8549220 AGTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:8553278 original size:35 final size:35
Alignment explanation
Indices: 8553235--8553304 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
8553225 AATCTTCATG
*
8553235 GGGTATCGATACTGAA-GTGATAGTATCGATACCAT
1 GGGTATCGATAC-CAATGTGATAGTATCGATACCAT
* *
8553270 GGGTATCGATACCAATGTGGTGGTATCGATACCAT
1 GGGTATCGATACCAATGTGATAGTATCGATACCAT
8553305 TTTTGCGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (35 bp):
GGGTATCGATACCAATGTGATAGTATCGATACCAT
Found at i:8554233 original size:21 final size:21
Alignment explanation
Indices: 8554207--8554264 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
8554197 TCCTTAAGAA
*
8554207 GTGGTCATTCGGGACATCTAT
1 GTGGTCATTCGGGACATATAT
* *
8554228 GTGGTCCTTCGAGACATATAT
1 GTGGTCATTCGGGACATATAT
8554249 GTGGTCATTCGGGACA
1 GTGGTCATTCGGGACA
8554265 AATTTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (21 bp):
GTGGTCATTCGGGACATATAT
Found at i:8555169 original size:2 final size:2
Alignment explanation
Indices: 8555162--8555218 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
8555152 ATATCAACTA
8555162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8555204 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8555219 ATTAAATTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8556175 original size:63 final size:65
Alignment explanation
Indices: 8556074--8556202 Score: 208
Period size: 63 Copynumber: 2.0 Consensus size: 65
8556064 GATCTAATTA
* *
8556074 ATTAATTTTTTTATGCACATGACGTATTGGGTCAATTTTACCATCAACACCAGGTTGACGGGTTG
1 ATTAATTTTTTTATGCACATGACCTATTGGGCCAATTTTACCATCAACACCAGGTTGACGGGTTG
* *
8556139 ATTAA-TTTTTTATGCACATG-CCTATTGGGCCAATTTTACCCTCAACACCAGGTTGACTGGTTG
1 ATTAATTTTTTTATGCACATGACCTATTGGGCCAATTTTACCATCAACACCAGGTTGACGGGTTG
8556202 A
1 A
8556203 CCCGTTCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 40 0.67
64 15 0.25
65 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (65 bp):
ATTAATTTTTTTATGCACATGACCTATTGGGCCAATTTTACCATCAACACCAGGTTGACGGGTTG
Found at i:8563803 original size:186 final size:186
Alignment explanation
Indices: 8563476--8563862 Score: 650
Period size: 186 Copynumber: 2.1 Consensus size: 186
8563466 TTTTCTAATT
* * *
8563476 TATATAA-AAATTAAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
8563540 ATTATAAAATAAAAAAATTATATAAATTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAAAATTATATAAATTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTA
**
8563605 ATGAATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCTCATATGTTA
131 ATGAATCTTAAATTATTAATTGAATTTTAAATGGTTTGGGCTGAGCTCATATGTTA
*
8563661 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
** * *
8563726 ATTATAAAATAAAAATTTTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAAAATTATATAAATTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* *
8563791 TTGGATCTTAAATTATTAATTGAATTTTAAATGGTTTGGGCTGAGCTCATATGTTA
131 ATGAATCTTAAATTATTAATTGAATTTTAAATGGTTTGGGCTGAGCTCATATGTTA
*
8563847 GATATAATATATTTAA
1 TATATAATATATTTAA
8563863 AATATAAAAT
Statistics
Matches: 188, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
185 7 0.04
186 181 0.96
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAAAATTATATAAATTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTA
ATGAATCTTAAATTATTAATTGAATTTTAAATGGTTTGGGCTGAGCTCATATGTTA
Found at i:8565786 original size:121 final size:119
Alignment explanation
Indices: 8565614--8565838 Score: 297
Period size: 121 Copynumber: 1.9 Consensus size: 119
8565604 GTAACTGGGT
* * * * *
8565614 ACTAAAAAGTTTGTTATTGTGTATTAAATGATCTATGAGAAGAGGATGTTTTTCATGAAAGCATT
1 ACTAAAAAGTTTGTTATTGTGCATTAAATGATCTATGAGAAAAGAACGTTTTTCATGAAAGAATT
* ** * * *
8565679 GGTCAAAAATGTCATTCAATTGTCTGATATATCACTGAAGTAAAGTGATTTATC
66 AGTCAAAAACATCATTAAATGGTCAGATATATCACTGAAGTAAAGTGATTTATC
* * * *
8565733 ACTAAAAAGTTTATGTTGTTGTGCATTAAATGATCTCTGAGAAAATAACGTTTTTCATTAAAGAA
1 ACTAAAAAG-TT-TGTTATTGTGCATTAAATGATCTATGAGAAAAGAACGTTTTTCATGAAAGAA
8565798 TTAGTCAAAAACATCATTAAATGGTCAGATATATCACTGAA
64 TTAGTCAAAAACATCATTAAATGGTCAGATATATCACTGAA
8565839 AAGTTTTTGT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 9 0.10
120 2 0.02
121 78 0.88
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (119 bp):
ACTAAAAAGTTTGTTATTGTGCATTAAATGATCTATGAGAAAAGAACGTTTTTCATGAAAGAATT
AGTCAAAAACATCATTAAATGGTCAGATATATCACTGAAGTAAAGTGATTTATC
Found at i:8572688 original size:19 final size:19
Alignment explanation
Indices: 8572668--8572770 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
8572658 CGTTTTTATG
* * *
8572668 AATAATACTATATTGTATG
1 AATAGTACTATATGGTATA
* *
8572687 AATAGTACTATACGGTTTA
1 AATAGTACTATATGGTATA
* *
8572706 AATAGTATTATATTGTATA
1 AATAGTACTATATGGTATA
*
8572725 AATAGTACTATATGGTTTA
1 AATAGTACTATATGGTATA
*
8572744 AATAGTACTATATGGTATG
1 AATAGTACTATATGGTATA
8572763 AATAGTAC
1 AATAGTAC
8572771 CGTGAACAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 70 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (19 bp):
AATAGTACTATATGGTATA
Found at i:8572729 original size:38 final size:38
Alignment explanation
Indices: 8572668--8572770 Score: 161
Period size: 38 Copynumber: 2.7 Consensus size: 38
8572658 CGTTTTTATG
*
8572668 AATAATACTATATTGTATGAATAGTACTATACGGTTTA
1 AATAGTACTATATTGTATGAATAGTACTATACGGTTTA
* * *
8572706 AATAGTATTATATTGTATAAATAGTACTATATGGTTTA
1 AATAGTACTATATTGTATGAATAGTACTATACGGTTTA
*
8572744 AATAGTACTATATGGTATGAATAGTAC
1 AATAGTACTATATTGTATGAATAGTAC
8572771 CGTGAACAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (38 bp):
AATAGTACTATATTGTATGAATAGTACTATACGGTTTA
Found at i:8576258 original size:35 final size:35
Alignment explanation
Indices: 8576212--8576287 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
8576202 AAAACAATCC
* *
8576212 TCAATTTCATTCT-AAACCCTAAATTCCAAAATAAT
1 TCAATTACATTCTAAAACTC-AAATTCCAAAATAAT
* *
8576247 TCAATTACATTCTAAAACTCAAATTCTAAAATACT
1 TCAATTACATTCTAAAACTCAAATTCCAAAATAAT
8576282 TCAATT
1 TCAATT
8576288 TCTGTCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 31 0.86
36 5 0.14
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTACATTCTAAAACTCAAATTCCAAAATAAT
Found at i:8577392 original size:35 final size:34
Alignment explanation
Indices: 8577344--8577455 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
8577334 ATTCCTCCTT
* *
8577344 AAATTGAAATATTTTAGAATTTGGGTTTTAGAAT-
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
8577378 ATAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 A-AATTGAATTATTTTGGAATTT-GGGTTTAGAATG
8577414 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
8577449 AAATTGA
1 AAATTGA
8577456 GGAATGTTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
34 1 0.01
35 67 0.93
36 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:8599868 original size:15 final size:15
Alignment explanation
Indices: 8599832--8599870 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8599822 AATTTACATG
8599832 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
8599846 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
8599861 TTTGCATTTG
1 TTTACATTTG
8599871 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:8603096 original size:16 final size:15
Alignment explanation
Indices: 8603071--8603101 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8603061 AAGAAAGAAG
8603071 AAAAAAAAAGGAAAA
1 AAAAAAAAAGGAAAA
8603086 AAAAGAAAAAGGAAAA
1 AAAA-AAAAAGGAAAA
8603102 TTGAATCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGGAAAA
Found at i:8608140 original size:22 final size:22
Alignment explanation
Indices: 8608108--8608229 Score: 201
Period size: 22 Copynumber: 5.6 Consensus size: 22
8608098 ACATCTACAT
8608108 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8608130 TCTACAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8608152 TTTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
8608174 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
8608196 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
8608218 T-TTCAAAGATGA
1 TCTTCAAAGATGA
8608230 AATCTTTATT
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
21 10 0.11
22 83 0.89
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:8608822 original size:112 final size:112
Alignment explanation
Indices: 8608656--8609066 Score: 642
Period size: 112 Copynumber: 3.7 Consensus size: 112
8608646 TCAACATTTT
*
8608656 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAGAAGAAC
1 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAC
* *
8608721 TTTTTCAACTTTTTGCTTAAATTCATCCCTCGGTGGATCAGCAATGC
66 TTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAATGC
8608768 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAC
1 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAC
*
8608833 TTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAGTGC
66 TTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAATGC
* * *
8608880 CAGTTAGAGTTCATAATGAAAAGAATTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAAC
1 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAC
* * * * ** *
8608945 TTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTC
66 TTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAATGC
* ** * *
8608992 TAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAG
1 CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAA
8609057 CTTGTTCAAC
65 CTTGTTCAAC
8609067 CTTTGTTTGA
Statistics
Matches: 276, Mismatches: 22, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
112 241 0.87
113 35 0.13
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (112 bp):
CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATCAGCAATGC
Found at i:8612264 original size:18 final size:18
Alignment explanation
Indices: 8612241--8612275 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8612231 GTTCTTAAGG
8612241 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
*
8612259 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCAGGACA
8612276 AGTTTAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:8614233 original size:40 final size:40
Alignment explanation
Indices: 8614115--8614233 Score: 157
Period size: 40 Copynumber: 3.0 Consensus size: 40
8614105 CGCATACAAA
* * * * *
8614115 GGTTAATATGACTATCGACCCTCGTTCATTACAGGTTGAT
1 GGTTAATATGACTATCGATCCTCATTCATTACAAGTTCAG
* *
8614155 GGTTAATATGGCTATCGATCCTCATTCATTACATGTTCAG
1 GGTTAATATGACTATCGATCCTCATTCATTACAAGTTCAG
* *
8614195 GGTTAATATGACTATCGATCTTCATTCATTATAAGTTCA
1 GGTTAATATGACTATCGATCCTCATTCATTACAAGTTCA
8614234 CGAGTCGAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (40 bp):
GGTTAATATGACTATCGATCCTCATTCATTACAAGTTCAG
Found at i:8614820 original size:18 final size:18
Alignment explanation
Indices: 8614797--8614832 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8614787 AAAAATTATT
8614797 TTATTATTT-TACTTTTAA
1 TTATTATTTGTA-TTTTAA
8614815 TTATTATTTGTATTTTAA
1 TTATTATTTGTATTTTAA
8614833 AAACTATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTATTTGTATTTTAA
Found at i:8622573 original size:23 final size:23
Alignment explanation
Indices: 8622547--8622594 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
8622537 ATAAAGTACA
*
8622547 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
8622570 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
8622593 AT
1 AT
8622595 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:8623345 original size:18 final size:18
Alignment explanation
Indices: 8623322--8623358 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8623312 CGAAATATAT
8623322 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
8623340 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
8623358 A
1 A
8623359 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:8623588 original size:23 final size:23
Alignment explanation
Indices: 8623562--8623626 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
8623552 ATGCGAGATA
8623562 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
8623585 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
8623608 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
8623627 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Done.