Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 38 of 190
Found at i:10738641 original size:44 final size:44
Alignment explanation
Indices: 10738495--10738628 Score: 214
Period size: 44 Copynumber: 3.0 Consensus size: 44
10738485 GGTGAAACTT
*
10738495 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAT
1 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAC
** *
10738539 AAGTCCTATCTCCCTGGTCATTAGTGGAATAGGTTGAAGATTGC
1 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAC
* *
10738583 AAGTCCTATCTCCCTGGGCAGCAGAGGAATAGGTTGAAGATTAC
1 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAC
10738627 AA
1 AA
10738629 ATATTATCTC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 81 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTAC
Found at i:10738652 original size:88 final size:87
Alignment explanation
Indices: 10738495--10738834 Score: 299
Period size: 87 Copynumber: 3.9 Consensus size: 87
10738485 GGTGAAACTT
* * * * *
10738495 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATAAGTCCTATCTCCCT-GGTCA
1 AAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTACAAATCTTATCTCCCTAAG-CA
* * * * **
10738559 TTAGTGGAATAGGTTGAAGATTGC
65 GTAGTGGAACAGATCGAAGA-CCC
* *
10738583 AAGTCCTATCTCCCTGGGCAGCAGAGGAATAGGTTGAAGATTACAAATATTATCTCCCTAAGCAG
1 AAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAG
*
10738648 TAGTGGAGCAGATCGAAGACCC
66 TAGTGGAACAGATCGAAGACCC
* * ** * *
10738670 CAG-CCTTGTCTCCCTTAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
1 AAGTCC-TATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTACAAATCTTATCTCCCTAAGCA
* *
10738734 GTAGTGGAGCAGATCGAAGTCCC
65 GTAGTGGAACAGATCGAAGACCC
* * ** * ** * * ** * *
10738757 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-AGTCTTATCTCCCTAAGTA
1 AAG-TCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTACAAATCTTATCTCCCTAAGCA
*
10738821 GTAGTGGAGCAGAT
65 GTAGTGGAACAGAT
10738835 TAAAGCCAAT
Statistics
Matches: 213, Mismatches: 35, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
86 2 0.01
87 109 0.51
88 100 0.47
89 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
AAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAG
TAGTGGAACAGATCGAAGACCC
Found at i:10738666 original size:44 final size:44
Alignment explanation
Indices: 10738618--10738834 Score: 224
Period size: 44 Copynumber: 5.0 Consensus size: 44
10738608 GGAATAGGTT
* *
10738618 GAAGATTACAAATATTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * ** * * * * * *
10738662 GAAGA-CCCCAGCCTTGTCTCCCTTAGCAGCAGTGGAGTAGGTT
1 GAAGATCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
10738705 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
10738749 GAAG-TCCCCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGAT-CACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
** * *
10738793 GAAGATGGC-AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGAT
1 GAAGATCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
10738835 TAAAGCCAAT
Statistics
Matches: 139, Mismatches: 31, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
43 62 0.45
44 76 0.55
45 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
GAAGATCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:10738713 original size:87 final size:88
Alignment explanation
Indices: 10738589--10738834 Score: 316
Period size: 87 Copynumber: 2.8 Consensus size: 88
10738579 TTGCAAGTCC
** * * *
10738589 TATCTCCCTGGGCAGCAGAGGAATAGGTTGAAGATTACAAATATTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGG
10738654 AGCAGATCGAAGACCCCAG-CCT
66 AGCAGATCGAAGACCCCAGACCT
* * *
10738676 TGTCTCCCTTAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGG
* *
10738741 AGCAGATCGAAGTCCCCAGATCT
66 AGCAGATCGAAGACCCCAGACCT
* * * * ** * *
10738764 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-AGTCTTATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGG
10738828 AGCAGAT
66 AGCAGAT
10738835 TAAAGCCAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
87 106 0.77
88 32 0.23
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (88 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACCCCAGACCT
Found at i:10738854 original size:43 final size:42
Alignment explanation
Indices: 10738627--10738858 Score: 176
Period size: 43 Copynumber: 5.4 Consensus size: 42
10738617 TGAAGATTAC
* *
10738627 AAATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCC
1 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-CCA
* ** * * * * * * **
10738670 CAGCCTTGTCTCCCTTAGCAGCAGTGGAGTAGGTTGAAGATTA
1 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-CCA
* *
10738713 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCC
1 -AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG--CCA
* ***
10738758 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-CCA
* * * **
10738801 CAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGATTAAAGCCA
1 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGCCA
*
10738843 ATAATCCTATCTCCCT
1 A-AATCTTATCTCCCT
10738859 GAGGTTACAG
Statistics
Matches: 143, Mismatches: 43, Indels: 6
0.74 0.22 0.03
Matches are distributed among these distances:
43 75 0.52
44 68 0.48
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (42 bp):
AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGCCA
Found at i:10739034 original size:216 final size:214
Alignment explanation
Indices: 10738761--10739397 Score: 830
Period size: 216 Copynumber: 2.9 Consensus size: 214
10738751 AGTCCCCAGA
* * *
10738761 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG-TCTTATCTCCCTAAGTAGTAG
1 TCTTATCCCCCTAAGTAGCAGTGG-GCAGATCGAAGATGGCAGATCTTATCTCCCTAAGTAGTAG
10738825 TGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAATAACAG
65 TGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGTTACAGCGGAGC-GATTAAAATAACAG
10738890 ATCTTATCTCTCTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTATAGT
129 ATCTTATCTCTCTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTATAGT
*
10738955 GGAGCAGACTGAGTAAGCAGG
194 GGAGCAGACTGAATAAGCAGG
* * *
10738976 TCTTATCCCCCTGAAGTAGCAGTGGGCAGATCGGAGATGGTAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCCCCCT-AAGTAGCAGTGGGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGTAGTAG
*
10739041 TGGAGCAGATTAAAGCCAATAATTCTATCTCCCTGAGGTTACAGCGGAGCGAATTAAAATAACAG
65 TGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGTTACAGCGGAGCG-ATTAAAATAACAG
*
10739106 ATCTTATCTCTTTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTATAGT
129 ATCTTATCTCTCTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTATAGT
10739171 GGAGCAGACTGAATAAGCAGG
194 GGAGCAGACTGAATAAGCAGG
* * * * ** *
10739192 TCTTATCCCCCTAAAGTTGCAGTGGGGCAGACCCAAAATAACCA-ATCTTATCTCCCTGAAGTTG
1 TCTTATCCCCCT-AAGTAGCAGT-GGGCAGATCGAAGAT-GGCAGATCTTATCTCCCT-AAGTAG
* * * * * * ** ** *
10739256 CAGTGGAGCAGATTTAAGCCTATAATCCTATTTTCCTGAAGTTGTAGTAGAGCGGATTAAAATCA
62 TAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGTTACAGCGGAGC-GATTAAAATAA
* * * * * * * * * *
10739321 CAAATCTTAGCTCTCTGAAATTGTAG-AGAGCAGATCTCATCTAGTCTTATCTCCATGAGGTTAC
126 CAGATCTTATCTCTCTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTAT
*
10739385 AGTGGGGCAGACT
191 AGTGGAGCAGACT
10739398 CAAAATGGCG
Statistics
Matches: 371, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
215 28 0.08
216 197 0.53
217 69 0.19
218 76 0.20
219 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (214 bp):
TCTTATCCCCCTAAGTAGCAGTGGGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGTAGTAGT
GGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGTTACAGCGGAGCGATTAAAATAACAGAT
CTTATCTCTCTGAAGTGGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTATAGTGG
AGCAGACTGAATAAGCAGG
Found at i:10741043 original size:9 final size:8
Alignment explanation
Indices: 10741025--10741061 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
10741015 ATTTAGTCCC
10741025 TTTTTATT
1 TTTTTATT
10741033 TTTTTATT
1 TTTTTATT
10741041 TTTTTA-T
1 TTTTTATT
*
10741048 TGTTTATT
1 TTTTTATT
10741056 TTTTTA
1 TTTTTA
10741062 ATTAAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:10741043 original size:15 final size:16
Alignment explanation
Indices: 10741025--10741061 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
10741015 ATTTAGTCCC
*
10741025 TTTTTATTTTTTTATT
1 TTTTTATTTGTTTATT
10741041 TTTTTA-TTGTTTATT
1 TTTTTATTTGTTTATT
10741056 TTTTTA
1 TTTTTA
10741062 ATTAAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTATTTGTTTATT
Found at i:10743102 original size:29 final size:30
Alignment explanation
Indices: 10743042--10743104 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
10743032 CGATCTTGGA
* *
10743042 ACTTAAACTATTTTTTTTGTCACAAATGGT
1 ACTTAAACTATTTTTTTTGCCACAAATAGT
*
10743072 ACTTAAACTA-TTTTTTT-CCCCAAATTAGT
1 ACTTAAACTATTTTTTTTGCCACAAA-TAGT
10743101 ACTT
1 ACTT
10743105 CCGTTAGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.17
29 14 0.48
30 10 0.34
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.46
Consensus pattern (30 bp):
ACTTAAACTATTTTTTTTGCCACAAATAGT
Found at i:10744801 original size:19 final size:19
Alignment explanation
Indices: 10744777--10744814 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10744767 AAGTTAATAA
*
10744777 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGATGGG
10744796 CAAATTTGATTACGATGGG
1 CAAATTTGATTACGATGGG
10744815 TGACAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGATGGG
Found at i:10747282 original size:26 final size:26
Alignment explanation
Indices: 10747253--10747305 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10747243 TTGATTTGAC
10747253 ATGTTTATTATTTTAATTTAACTCGA
1 ATGTTTATTATTTTAATTTAACTCGA
10747279 ATGTTTATTATTTTAATTTAACTCGA
1 ATGTTTATTATTTTAATTTAACTCGA
10747305 A
1 A
10747306 CAATTTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (26 bp):
ATGTTTATTATTTTAATTTAACTCGA
Found at i:10747342 original size:21 final size:20
Alignment explanation
Indices: 10747317--10747364 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
10747307 AATTTCACTC
10747317 AATTTGATTCCACTCGACTTA
1 AATTTGATTCCACTCGAC-TA
* * * *
10747338 AATTTCATTTCATTCGACTC
1 AATTTGATTCCACTCGACTA
10747358 AATTTGA
1 AATTTGA
10747365 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (20 bp):
AATTTGATTCCACTCGACTA
Found at i:10750304 original size:3 final size:3
Alignment explanation
Indices: 10750296--10750348 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10750286 TACTAAAATG
10750296 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10750344 ATA AT
1 ATA AT
10750349 GATGATGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10752409 original size:17 final size:18
Alignment explanation
Indices: 10752389--10752424 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10752379 TATTTGTAAA
10752389 AATTTAATAT-TTTTGTT
1 AATTTAATATATTTTGTT
*
10752406 AATTTTATATATTTTGTT
1 AATTTAATATATTTTGTT
10752424 A
1 A
10752425 TCTTTGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
AATTTAATATATTTTGTT
Found at i:10756026 original size:16 final size:16
Alignment explanation
Indices: 10756005--10756037 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10755995 CTACAATAGA
10756005 AGAACTCCAAAAGTAT
1 AGAACTCCAAAAGTAT
*
10756021 AGAACTCCAAAATTAT
1 AGAACTCCAAAAGTAT
10756037 A
1 A
10756038 TTGTTCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (16 bp):
AGAACTCCAAAAGTAT
Found at i:10759792 original size:33 final size:33
Alignment explanation
Indices: 10759755--10759819 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
10759745 CCACCTACGT
10759755 TGTCTCAGATTCAAATCTTTTTACGACATCAGG
1 TGTCTCAGATTCAAATCTTTTTACGACATCAGG
**
10759788 TGTCTCAGATTCAAATCTTTTTGTGACATCAG
1 TGTCTCAGATTCAAATCTTTTTACGACATCAG
10759820 ATACTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTCTCAGATTCAAATCTTTTTACGACATCAGG
Found at i:10761935 original size:9 final size:9
Alignment explanation
Indices: 10761921--10761948 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10761911 CGATCATGAT
10761921 ATTTCTTTG
1 ATTTCTTTG
10761930 ATTTCTTTG
1 ATTTCTTTG
10761939 ATTTCTTTG
1 ATTTCTTTG
10761948 A
1 A
10761949 AGTCGAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (9 bp):
ATTTCTTTG
Found at i:10764038 original size:25 final size:25
Alignment explanation
Indices: 10763954--10764043 Score: 128
Period size: 25 Copynumber: 3.6 Consensus size: 25
10763944 CAAGCATAAA
10763954 AACGGGAAGCTCAT-TCGAGCCATGT
1 AACGGGAAGCTCATGT-GAGCCATGT
**
10763979 AACAAGAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATGTGAGCCATGT
*
10764004 AACGGAAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATGTGAGCCATGT
*
10764029 AATGGGAAGCTCATG
1 AACGGGAAGCTCATG
10764044 CCAGCCAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 56 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCCATGT
Found at i:10764206 original size:17 final size:17
Alignment explanation
Indices: 10764184--10764217 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10764174 TATGGTGTGT
10764184 TCACAA-CACATACAGGA
1 TCACAACCA-ATACAGGA
10764201 TCACAACCAATACAGGA
1 TCACAACCAATACAGGA
10764218 ACCCTGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.47, C:0.29, G:0.12, T:0.12
Consensus pattern (17 bp):
TCACAACCAATACAGGA
Found at i:10766203 original size:13 final size:14
Alignment explanation
Indices: 10766174--10766203 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10766164 CATTTGATAA
10766174 TTTTTTTTTAAATT
1 TTTTTTTTTAAATT
*
10766188 TTTTTTTTTAGATT
1 TTTTTTTTTAAATT
10766202 TT
1 TT
10766204 CATGAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTAAATT
Found at i:10775253 original size:13 final size:14
Alignment explanation
Indices: 10775229--10775258 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10775219 ATAAAAATTC
10775229 TAAAATAAAGATAA
1 TAAAATAAAGATAA
10775243 TAAAA-AAAGATAA
1 TAAAATAAAGATAA
10775256 TAA
1 TAA
10775259 TTAGACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
TAAAATAAAGATAA
Found at i:10775732 original size:3 final size:3
Alignment explanation
Indices: 10775724--10775768 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10775714 CCAAATTTGA
10775724 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10775769 GTGAAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10779871 original size:2 final size:2
Alignment explanation
Indices: 10779866--10779891 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10779856 TTAATAAGTA
10779866 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
10779892 TCTTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10782227 original size:42 final size:42
Alignment explanation
Indices: 10782168--10782250 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
10782158 TCACAAGTTC
*
10782168 CCTTATAAAAAGTTCCACGTCATTTATGAAATTAAATTATGA
1 CCTTATAAAAAGTTCCACGTCATTTACGAAATTAAATTATGA
10782210 CCTTATAAAAAGTTCCACGTCATTTACGAAATTAAATTATG
1 CCTTATAAAAAGTTCCACGTCATTTACGAAATTAAATTATG
10782251 TTATATTAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (42 bp):
CCTTATAAAAAGTTCCACGTCATTTACGAAATTAAATTATGA
Found at i:10786752 original size:26 final size:24
Alignment explanation
Indices: 10786706--10786753 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
10786696 GACATCATTA
* *
10786706 ACTAACAATTAATTTATAATAATT
1 ACTAACAAATAATTTAAAATAATT
10786730 ACTAACAAAATAACTTTAAAATAA
1 ACTAAC-AAATAA-TTTAAAATAA
10786754 ATTAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 5 0.25
26 9 0.45
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
ACTAACAAATAATTTAAAATAATT
Found at i:10786904 original size:4 final size:4
Alignment explanation
Indices: 10786895--10786936 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
10786885 CTCTACTACA
10786895 CTTT CTTT CTTT CTTT CTTT -TTT GCTTCT CATTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTT-T C-TTT CTTT CTTT
10786937 TAGCTATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.09
4 23 0.68
5 5 0.15
6 3 0.09
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:10788290 original size:22 final size:20
Alignment explanation
Indices: 10788254--10788312 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
10788244 AGCCTAGCCC
10788254 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
10788276 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
10788297 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
10788313 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:10788303 original size:21 final size:20
Alignment explanation
Indices: 10788279--10788339 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 20
10788269 ACCAAAAATT
10788279 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
**
10788299 GTATTTTAAAAATATTTTAAAAA
1 -TATTTT-AAAA-ATTAAAAAAA
10788322 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
10788340 TAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 3 0.09
21 6 0.18
22 10 0.29
23 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:10788314 original size:11 final size:11
Alignment explanation
Indices: 10788294--10788331 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
10788284 TAAAAATTAA
10788294 AAAAAGTATTTT
1 AAAAA-TATTTT
10788306 AAAAATATTTT
1 AAAAATATTTT
10788317 AAAAATATTTT
1 AAAAATATTTT
10788328 AAAA
1 AAAA
10788332 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:10788344 original size:21 final size:21
Alignment explanation
Indices: 10788279--10788344 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
10788269 ACCAAAAATT
*
10788279 TATTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATTAAAAAAAA
***
10788300 TATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAAT-TAAAAAAAA
10788322 TATTTT-AAAATTAAAAAATAA
1 TATTTTAAAAATTAAAAAA-AA
10788343 TA
1 TA
10788345 AAAAAATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 4 0.11
21 21 0.58
22 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATTTTAAAAATTAAAAAAAA
Found at i:10790074 original size:17 final size:19
Alignment explanation
Indices: 10790052--10790087 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
10790042 CTGAAATAGT
10790052 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
10790069 AACAAAAGTTATACAATAA
1 AACAAAAGTTATACAATAA
10790088 CAACTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:10792247 original size:44 final size:44
Alignment explanation
Indices: 10792159--10792244 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
10792149 GTAGGTCAAA
* * *
10792159 TAATATTAAAATAACCTACACTAATCATATTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
*
10792203 TAATATTAAAATAGCCTACACTAATAAGAGTTTAAGTG-GAAA
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAA
10792245 ACTTAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
Found at i:10809918 original size:128 final size:128
Alignment explanation
Indices: 10809690--10809943 Score: 409
Period size: 128 Copynumber: 2.0 Consensus size: 128
10809680 ATTGGACAGT
* * *
10809690 GTTTGATGCAATAGTTGGTTCCACAAAATCAATTCCTGATGGGAAAAGATTGCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* *
10809755 TGAAGAAACATCTGTCAGGTGTTTCTTATATGAACTCATCGTTGAAACCATAGTTTGACCAGC
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCAGC
* * *
10809818 GTTTGATGCAATAGTTGGTTCCGCAAAATCAACTCCTCATGCGAAACGATTTCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* * *
10809883 TGAAGAAGCATCTATTAGGTGTTTCTTATATGAACTTATCATTGAAACCATAGTTTGACCA
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCA
10809944 CGTGAAGGAA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (128 bp):
GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCAGC
Found at i:10815997 original size:44 final size:44
Alignment explanation
Indices: 10815943--10816033 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
10815933 GTTGAAGTAA
* * * * *
10815943 AATAGAAGTTGTGATAGTTATACATTTAAAAGTAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
10815987 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
10816031 AAT
1 AAT
10816034 TTACAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
Found at i:10817342 original size:16 final size:17
Alignment explanation
Indices: 10817312--10817345 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10817302 CATGCATCAC
10817312 TTTTTAAAAATATTTAT
1 TTTTTAAAAATATTTAT
*
10817329 TTTTTAAATA-ATTTAT
1 TTTTTAAAAATATTTAT
10817345 T
1 T
10817346 ATACCTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTAAAAATATTTAT
Found at i:10823890 original size:29 final size:29
Alignment explanation
Indices: 10823853--10823917 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
10823843 AAATTAGCTG
*
10823853 AAAAC-ACATCCTTCAAGACACATTTTTA
1 AAAACTACATACTTCAAGACACATTTTTA
10823881 AAAACTACATACTTCAAGACACATTTTTA
1 AAAACTACATACTTCAAGACACATTTTTA
10823910 AAAACTAC
1 AAAACTAC
10823918 TGAGACTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAACTACATACTTCAAGACACATTTTTA
Found at i:10824327 original size:30 final size:30
Alignment explanation
Indices: 10824285--10824341 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10824275 AATTAGAGCA
*
10824285 GTTATTTATTATGTTAAAAACCTGAAACAT
1 GTTATTTATTATGTTAAAAACCCGAAACAT
10824315 GTTATTGT-TTATGTTAAAAACCCGAAA
1 GTTATT-TATTATGTTAAAAACCCGAAA
10824342 TTGGGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (30 bp):
GTTATTTATTATGTTAAAAACCCGAAACAT
Found at i:10836512 original size:25 final size:26
Alignment explanation
Indices: 10836484--10836537 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
10836474 TTACAATTAA
10836484 TTAATTT-TA-ATAATGTAATTATTTT
1 TTAATTTCTATAT-ATGTAATTATTTT
*
10836509 TTAATTTCTTTATATGTAATTATTTT
1 TTAATTTCTATATATGTAATTATTTT
10836535 TTA
1 TTA
10836538 TAATCTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 17 0.65
27 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (26 bp):
TTAATTTCTATATATGTAATTATTTT
Found at i:10836546 original size:24 final size:25
Alignment explanation
Indices: 10836496--10836550 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
10836486 AATTTTAATA
*
10836496 ATGTAATTATTTTTTAATTTCTTTAT
1 ATGTAATTATTTTTTAATATC-TTAT
10836522 ATGTAATTATTTTTT-ATAATC-TAT
1 ATGTAATTATTTTTTAAT-ATCTTAT
10836546 ATGTA
1 ATGTA
10836551 TATATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 8 0.30
25 2 0.07
26 17 0.63
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (25 bp):
ATGTAATTATTTTTTAATATCTTAT
Found at i:10840723 original size:24 final size:24
Alignment explanation
Indices: 10840696--10840750 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
10840686 GGAAAGGCTA
* *
10840696 GAGCAG-TCCCAAAAGGAAATGCAT
1 GAGCAGCT-CCAAAAGCAAATGAAT
*
10840720 GAGCAGCTTCAAAAGCAAATGAAT
1 GAGCAGCTCCAAAAGCAAATGAAT
10840744 GAGCAGC
1 GAGCAGC
10840751 AAAAAATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (24 bp):
GAGCAGCTCCAAAAGCAAATGAAT
Found at i:10848961 original size:44 final size:46
Alignment explanation
Indices: 10848906--10849016 Score: 142
Period size: 45 Copynumber: 2.5 Consensus size: 46
10848896 ACATCTAGTT
* *
10848906 TTATCTCCCTGAAGTTACAGTGGA-GCAGACT-AAG-TAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGGCAGACTGAAGAT-AGCAAATC
*
10848950 TTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGGAGGCAGACTGAAGATAGCAAATC
10848995 TTATCTCCCTGAAGTTGCAGTG
1 TTATCTCCCTGAAGTTGCAGTG
10849017 AAGACGGTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
43 3 0.05
44 25 0.43
45 28 0.48
46 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (46 bp):
TTATCTCCCTGAAGTTGCAGTGGAGGCAGACTGAAGATAGCAAATC
Found at i:10849009 original size:45 final size:45
Alignment explanation
Indices: 10848906--10849975 Score: 289
Period size: 44 Copynumber: 24.6 Consensus size: 45
10848896 ACATCTAGTT
* *
10848906 TTATCTCCCTGAAGTTACAGTG-GAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
*
10848950 TTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
** *
10848995 TTATCTCCCTGAAGTTGCAGTGA-AG-ACGGTTAA--AA-CTGATGATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCA-GACTAAGTAAGC--A-AATC
* ** * ** * * **
10849039 CTATCTTTCTGAAGTTGTAGTG-GAGTGGATTAA--AACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC--AAATC
* * * * * * *
10849083 TTATCTCTCTGAAGTT--A-TAGAGAGTAGAC--CG-CATCTAGTC
1 TTATCTCCCTGAAGTTGCAGT-GAGAGCAGACTAAGTAAGCAAATC
*
10849123 TTATCTCCCTGAAGTTGCAGT-AGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* *
10849167 TTATGCT-CCTGAAGTTACAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTAT-CTCCCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
* ** *
10849212 TTATCTCTCTGAAGTTGCAGTG-GAGCAGGTTAA--AACCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC-A-AATC
* * * * ** * * **
10849256 ATATTTTCCC-AAAATTGCAGTG-GAGTGGATTAA--AACCTTGGATC
1 TTA-TCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC--AAATC
* * * * * * *
10849300 TTATCTCTCTGAAGTTGCA--AAGAGCAGA-T-CG-CATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* * *
10849340 CTATCTCCCTGAAGTTGCAGTGA-AGCAGACTAAGTAAGCAAGTT
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
*
10849384 TTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
* * ** *
10849429 TTATCTCCCTGAAGTTGTAATG-GAGCAGGTTAA--AACCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC-A-AATC
* * ** * * **
10849473 CTATCTTCCC-AAAGTTGCAGTG-GAGTGGATTAA--AACCTTGGATC
1 TTATC-TCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC--AAATC
* * * * * *
10849517 TTATCTCTCTGAAGTTGCA--GAGAGCAGA-T-CG-CATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* * *
10849557 CTATCTCCCTGAAGTTGCAGTGA-AGCAGACTAAGTAAGCAAGTT
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
*
10849601 TTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
* ** *
10849646 TTATCTCCCTGAAGTTACAGT-AGAGCAGGTTAAAGT-CG-ATAATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACT-AAGTAAGCA-AATC
* * ** * * **
10849690 TTATCTTCCTGAAGTTGCAATG-GAGTGGATTAA--AACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGC--AAATC
* * * *
10849734 TTATCTCCCTGAAGTTGCA--GAGAACAGA-T-CG-CATCAAATC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* *
10849774 TTATC-CTCCTGAAGTTCCAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
* * * * * * *
10849819 TTATCTCTCTGAAGTTGCA--GAGAGCACA-T-CG-CATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* * * *
10849859 TTATCTCCCAGAAGTTGCAGTGA-AGCAGACTAAGAAAACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
* *
10849903 TTATC-CTCCTAAAGTTGCAGTGAG-GCAGACTGAAG-ATGGCAAATC
1 TTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGCAAATC
*
10849948 TTATCTCCCTGAAGTTGTAGTG-GAGCAG
1 TTATCTCCCTGAAGTTGCAGTGAGAGCAG
10849976 GTTAAAGCCG
Statistics
Matches: 765, Mismatches: 168, Indels: 185
0.68 0.15 0.17
Matches are distributed among these distances:
39 1 0.00
40 95 0.12
41 32 0.04
42 30 0.04
43 49 0.06
44 358 0.47
45 195 0.25
46 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCAAATC
Found at i:10849170 original size:44 final size:42
Alignment explanation
Indices: 10849119--10849975 Score: 327
Period size: 44 Copynumber: 19.7 Consensus size: 42
10849109 GACCGCATCT
10849119 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAG-AAGCA
* *
10849163 AGTCTTATGCT-CCTGAAGTTACAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCCTGAAGTTGCAGTGA-GCAGACT-AAGA-AGCA
* * ** *
10849208 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAA-AACCGA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGAAGC-A
* * * * * ** * * *
10849251 TAATCATATTTTCCC-AAAATTGCAGTGGAGTGGATTAA-AACCTT
1 -AGTCTTA-TCTCCCTGAAGTTGCAGT-GAGCAGACTAAGAAGC-A
* * ** * * * *
10849295 GGATCTTATCTCTCTGAAGTTGCAAAGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGAAGCA
*
10849336 AGTCCTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTG-AGCAGACTAAG-AAGCA
* *
10849380 AGTTTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGA-GCAGACT-AAGA-AGCA
* * * ** *
10849425 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGGTTAA-AACCGA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGAAGC-A
* * * ** * * *
10849468 TAATCCTATCTTCCC-AAAGTTGCAGTGGAGTGGATTAA-AACCTT
1 -AGTCTTATC-TCCCTGAAGTTGCAGT-GAGCAGACTAAGAAGC-A
* * * * * * *
10849512 GGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGAAGCA
*
10849553 AGTCCTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTG-AGCAGACTAAG-AAGCA
* *
10849597 AGTTTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGA-GCAGACT-AAGA-AGCA
* * * *
10849642 AATCTTATCTCCCTGAAGTTACAGTAGAGCAG-GTTA-AAGTCGA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGAAG-C-A
* * * ** * * *
10849685 TAATCTTATCTTCCTGAAGTTGCAATGGAGTGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGAAGC-A
* * * * * *
10849729 GGATCTTATCTCCCTGAAGTTGCAGAGAACAGA-T-CGCATCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGAAGCA
* * *
10849770 AATCTTATC-CTCCTGAAGTTCCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGA-GCAGACT-AAGA-AGCA
* * * * * * * *
10849815 AATCTTATCTCTCTGAAGTTGCAGAGAGCACA-T-CGCATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGAAGCA
* *
10849855 AGTCTTATCTCCCAGAAGTTGCAGTGAAGCAGACTAAGAAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTG-AGCAGACTAAG-AAGCA
* *
10849899 AGTCTTATC-CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGA-GCAGACT-AAGA-AGCA
* *
10849944 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGCAG
10849976 GTTAAAGCCG
Statistics
Matches: 605, Mismatches: 147, Indels: 121
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 85 0.14
41 27 0.04
42 17 0.03
43 39 0.06
44 267 0.44
45 157 0.26
46 12 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGAAGCA
Found at i:10849194 original size:217 final size:216
Alignment explanation
Indices: 10848817--10849838 Score: 1539
Period size: 217 Copynumber: 4.7 Consensus size: 216
10848807 CGGTAGCCAG
*
10848817 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
* * *
10848882 GCAGAGAGCAGATCACATCTAGTTTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGTAAGCAA
10848947 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
130 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
* *
10849012 CAGTGAAG-ACGGTTAAAACTGA
195 CAGTGGAGCA-GGTTAAAACCGA
* * *
10849034 TGATCCTATCTTTCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
** * *
10849099 ATAGAGAGTAGACCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGACTAAGTAAGCAA
* * *
10849164 GTCTTATGCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCTCTGAAGTTG
130 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
10849229 CAGTGGAGCAGGTTAAAACCGA
195 CAGTGGAGCAGGTTAAAACCGA
* * ** *
10849251 TAATCATATTTTCCCAAAATTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
* *
10849316 GCAAAGAGCAGATCGCATCTAGTCCTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG-AGCAGACTAAGTAAGCAA
*
10849381 GTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
130 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
* *
10849446 TAATGGAGCAGGTTAAAACCGA
195 CAGTGGAGCAGGTTAAAACCGA
**
10849468 TAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
*
10849533 GCAGAGAGCAGATCGCATCTAGTCCTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG-AGCAGACTAAGTAAGCAA
* *
10849598 GTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTA
130 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
* **
10849663 CAGTAGAGCAGGTTAAAGTCGA
195 CAGTGGAGCAGGTTAAAACCGA
* * *
10849685 TAATCTTATCTTCCTGAAGTTGCAATGGAGTGGATTAAAACCTTGGATCTTATCTCCCTGAAGTT
1 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
* * * * *
10849750 GCAGAGAACAGATCGCATCAAATCTTATC-CTCCTGAAGTTCCAGTGAGGCAGACTGAAG-ATGG
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTGA-GCAGACT-AAGTA-AG
*
10849813 CAAATCTTAT-CTCTCTGAAGTTGCAG
127 CAAGTCTTATCCTC-CTGAAGTTGCAG
10849839 AGAGCACATC
Statistics
Matches: 738, Mismatches: 60, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.00
217 710 0.96
218 25 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (216 bp):
TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAGCAGACTAAGTAAGCAAG
TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGGTTAAAACCGA
Found at i:10849786 original size:40 final size:40
Alignment explanation
Indices: 10849731--10849887 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 40
10849721 AAAACCTTGG
10849731 ATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAA
1 ATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAA
* * * *
10849771 ATCTTATC-CTCCTGAAGTTCCAGTGAGGCAGA-CTGAAGATGGCAA
1 ATCTTATCTC-CCTGAAGTTGCAGAGA-ACAGATC-G--CAT--CAA
* * * *
10849816 ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTA
1 ATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAA
* * *
10849856 GTCTTATCTCCCAGAAGTTGCAGTGAAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGAGAA-CAGA
10849888 CTAAGAAAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
39 1 0.01
40 47 0.52
41 8 0.09
42 2 0.02
43 2 0.02
44 5 0.05
45 25 0.27
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (40 bp):
ATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAA
Found at i:10849835 original size:85 final size:84
Alignment explanation
Indices: 10849731--10849893 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 84
10849721 AAAACCTTGG
* *
10849731 ATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAAATCTTATC-CTCCTGAAGTTCCAGT
1 ATCTTATCTCCCTGAAGTTGCAGAGAACACATCGCATCAAATCTTATCTC-CCAGAAGTTCCAGT
*
10849795 GAGGCAGACTGAAGATGGCAA
65 GAAGCAGACT-AAGATGGCAA
* * * * *
10849816 ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTAGTCTTATCTCCCAGAAGTTGCAGTG
1 ATCTTATCTCCCTGAAGTTGCAGAGAACACATCGCATCAAATCTTATCTCCCAGAAGTTCCAGTG
10849881 AAGCAGACTAAGA
66 AAGCAGACTAAGA
10849894 AAACAAGTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 4 0.06
85 64 0.93
86 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (84 bp):
ATCTTATCTCCCTGAAGTTGCAGAGAACACATCGCATCAAATCTTATCTCCCAGAAGTTCCAGTG
AAGCAGACTAAGATGGCAA
Found at i:10850041 original size:44 final size:44
Alignment explanation
Indices: 10849944--10850051 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
10849934 GAAGATGGCA
** *
10849944 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAACCGAT
* *
10849988 AATCCTATCTCCCTGAAGTTACAGTGGAGC-GGATTAAAACC-TT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGG-TTAAAACCGAT
* *
10850031 GGATCTTATCTCTCTGAAGTT
1 -AATCTTATCTCCCTGAAGTT
10850052 GTAGAGAGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 3 0.06
44 51 0.94
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAACCGAT
Found at i:10850091 original size:302 final size:302
Alignment explanation
Indices: 10849514--10850070 Score: 934
Period size: 302 Copynumber: 1.8 Consensus size: 302
10849504 AAAACCTTGG
* *
10849514 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCCTATCTCCCTGAAGTTGCAGTG
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTAGTCCTATCTCCCAGAAGTTGCAGTG
* * * *
10849579 AAGCAGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
66 AAGCAGACTAAGAAAACAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
* * * *
10849644 TCTTATCTCCCTGAAGTTACAGTAGAGCAGGTTAAAGTCGATAATCTTATCTTCCTGAAGTTGCA
131 TCTTATCTCCCTGAAGTTACAGTAGAGCAGGTTAAAGCCGATAATCCTATCTCCCTGAAGTTACA
* *
10849709 ATGGAGTGGATTAAAACCTTGGATCTTATCTCCCTGAAGTTGCAGAGAACAGATCGCATCAAATC
196 ATGGAGCGGATTAAAACCTTGGATCTTATCTCCCTGAAGTTGCAGAGAACAGATCACATCAAATC
10849774 TTATCCTCCTGAAGTTCCAGTGAGGCAGACTGAAGATGGCAA
261 TTATCCTCCTGAAGTTCCAGTGAGGCAGACTGAAGATGGCAA
*
10849816 ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTAGTCTTATCTCCCAGAAGTTGCAGTG
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTAGTCCTATCTCCCAGAAGTTGCAGTG
10849881 AAGCAGACTAAGAAAACAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
66 AAGCAGACTAAGAAAACAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
** *
10849946 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGATAATCCTATCTCCCTGAAGTTACA
131 TCTTATCTCCCTGAAGTTACAGTAGAGCAGGTTAAAGCCGATAATCCTATCTCCCTGAAGTTACA
* * * *
10850011 GTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCACATC
196 ATGGAGCGGATTAAAACCTTGGATCTTATCTCCCTGAAGTTGCAGAGAACAGATCACATC
10850071 TAGTTTTATC
Statistics
Matches: 235, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
302 235 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (302 bp):
ATCTTATCTCTCTGAAGTTGCAGAGAGCACATCGCATCTAGTCCTATCTCCCAGAAGTTGCAGTG
AAGCAGACTAAGAAAACAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
TCTTATCTCCCTGAAGTTACAGTAGAGCAGGTTAAAGCCGATAATCCTATCTCCCTGAAGTTACA
ATGGAGCGGATTAAAACCTTGGATCTTATCTCCCTGAAGTTGCAGAGAACAGATCACATCAAATC
TTATCCTCCTGAAGTTCCAGTGAGGCAGACTGAAGATGGCAA
Found at i:10850512 original size:5 final size:5
Alignment explanation
Indices: 10850503--10850534 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10850493 AAAGGAAAGA
*
10850503 AAATC GAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
10850535 GCAGATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.19, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:10851311 original size:24 final size:24
Alignment explanation
Indices: 10851284--10851329 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10851274 TGTAATCAAG
*
10851284 TTTATTTTATTTTTTAAATTCACC
1 TTTAATTTATTTTTTAAATTCACC
*
10851308 TTTAATTTATTTTTTAATTTCA
1 TTTAATTTATTTTTTAAATTCA
10851330 ATTTGGTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTAATTTATTTTTTAAATTCACC
Found at i:10851522 original size:18 final size:18
Alignment explanation
Indices: 10851499--10851533 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10851489 ATCTTAAAAT
10851499 TAATTAATTTTAATAATG
1 TAATTAATTTTAATAATG
* *
10851517 TAATTATTTTTTATAAT
1 TAATTAATTTTAATAAT
10851534 CTATATGTAT
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATTAATTTTAATAATG
Found at i:10853414 original size:28 final size:28
Alignment explanation
Indices: 10853382--10853438 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
10853372 GTCTGAATAC
10853382 TGTTTTAGCTTTCGACATTTTCATTTCT
1 TGTTTTAGCTTTCGACATTTTCATTTCT
*
10853410 TGTTTTAGCTTTTGACATTTTCATTTCT
1 TGTTTTAGCTTTCGACATTTTCATTTCT
10853438 T
1 T
10853439 CCTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.60
Consensus pattern (28 bp):
TGTTTTAGCTTTCGACATTTTCATTTCT
Found at i:10853450 original size:28 final size:28
Alignment explanation
Indices: 10853384--10853445 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
10853374 CTGAATACTG
* *
10853384 TTTTAGCTTTCGACATTTTCATTTCTTG
1 TTTTAGCTTTTGACATTTTCATTTCTTC
10853412 TTTTAGCTTTTGACATTTTCATTTCTTCC
1 TTTTAGCTTTTGACATTTTCATTTCTT-C
10853441 TTTTA
1 TTTTA
10853446 TTTTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.15, C:0.18, G:0.08, T:0.60
Consensus pattern (28 bp):
TTTTAGCTTTTGACATTTTCATTTCTTC
Found at i:10854397 original size:19 final size:19
Alignment explanation
Indices: 10854373--10854410 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10854363 TCATTCCTAA
10854373 TAAAAA-AAAGAAAAAATAG
1 TAAAAATAAA-AAAAAATAG
*
10854392 TAAAAATAAAATAAAATAG
1 TAAAAATAAAAAAAAATAG
10854411 AGTGATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (19 bp):
TAAAAATAAAAAAAAATAG
Found at i:10854694 original size:39 final size:40
Alignment explanation
Indices: 10854650--10854742 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
10854640 CAAACAAAAA
* *
10854650 CGCCGCTAAAGACCT-TCTTTAGCGGCGTTTTTT-TCTAAG
1 CGCCGCTAAAGACATATCTTTAGCGGAGTTTTTTAT-TAAG
* *
10854689 CGCCGCTGAAGAACATGATCTTTAGTGGAGTTTTTTATTAAG
1 CGCCGCTAAAG-ACAT-ATCTTTAGCGGAGTTTTTTATTAAG
*
10854731 CGCCGCGAAAGA
1 CGCCGCTAAAGA
10854743 AGATGTTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
39 10 0.23
40 3 0.07
41 1 0.02
42 29 0.66
43 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (40 bp):
CGCCGCTAAAGACATATCTTTAGCGGAGTTTTTTATTAAG
Found at i:10854713 original size:42 final size:42
Alignment explanation
Indices: 10854665--10854850 Score: 135
Period size: 42 Copynumber: 4.4 Consensus size: 42
10854655 CTAAAGACCT
* *
10854665 TCTTTAGCGGCG-TTTTTTTCTAAGCGCCGCTGAAGAACATGA
1 TCTTTAGCGGCGCTTTTTTTATAAACGCCGCT-AAGAACATGA
* * * * * *
10854707 TCTTTAGTGGAG--TTTTTTATTAAGCGCCGCGAAAGAAGATGT
1 TCTTTAGCGGCGCTTTTTTTA-TAAACGCCGC-TAAGAACATGA
* * * * * * * *
10854749 TCTTTAACAGCGCTTTGTATAAAAATGCCGCTAGAGATCATAA
1 TCTTTAGCGGCGCTTTTTTTATAAACGCCGCTA-AGAACATGA
* * *
10854792 TCTTTCGCGGCGCTTTTTTTATAAACGCCGCTAATAACATGT
1 TCTTTAGCGGCGCTTTTTTTATAAACGCCGCTAAGAACATGA
*
10854834 TCTTTAGCGACGCTTTT
1 TCTTTAGCGGCGCTTTT
10854851 GTACAAAAAC
Statistics
Matches: 106, Mismatches: 33, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
41 6 0.06
42 57 0.54
43 38 0.36
44 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTTTTTTATAAACGCCGCTAAGAACATGA
Found at i:10855258 original size:21 final size:21
Alignment explanation
Indices: 10855232--10855282 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10855222 TTCTTTTGAA
* *
10855232 CCTCTGTTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
10855253 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
10855274 CCTCTGCTT
1 CCTCTGCTT
10855283 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:10860775 original size:7 final size:7
Alignment explanation
Indices: 10860765--10860890 Score: 99
Period size: 7 Copynumber: 16.0 Consensus size: 7
10860755 TGATATATTT
10860765 TTATGTA
1 TTATGTA
10860772 TTATGTAA
1 TTATGT-A
10860780 GTTATGTAA
1 -TTATGT-A
10860789 GTTATGTA
1 -TTATGTA
10860797 TTATGTA
1 TTATGTA
*
10860804 CTATGTAA
1 TTATGT-A
*
10860812 GTACTGTAA
1 TTA-TGT-A
*
10860821 GTAATGTAA
1 -TTATGT-A
10860830 GTTATGTA
1 -TTATGTA
10860838 TTATGTA
1 TTATGTA
10860845 TTATGTAA
1 TTATGT-A
10860853 GTTATGTAA
1 -TTATGT-A
10860862 GTTATGTA
1 -TTATGTA
10860870 TTATGTA
1 TTATGTA
10860877 TTATGTA
1 TTATGTA
10860884 TTATGTA
1 TTATGTA
10860891 AGTACTGTAA
Statistics
Matches: 107, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
7 52 0.49
8 8 0.07
9 46 0.43
10 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (7 bp):
TTATGTA
Found at i:10860786 original size:9 final size:9
Alignment explanation
Indices: 10860772--10861322 Score: 507
Period size: 9 Copynumber: 63.4 Consensus size: 9
10860762 TTTTTATGTA
10860772 TTATGTAAG
1 TTATGTAAG
10860781 TTATGTAAG
1 TTATGTAAG
10860790 TTATGT-A-
1 TTATGTAAG
10860797 TTATGT-A-
1 TTATGTAAG
*
10860804 CTATGTAAG
1 TTATGTAAG
10860813 -TACTGTAAG
1 TTA-TGTAAG
*
10860822 TAATGTAAG
1 TTATGTAAG
10860831 TTATGT-A-
1 TTATGTAAG
10860838 TTATGT-A-
1 TTATGTAAG
10860845 TTATGTAAG
1 TTATGTAAG
10860854 TTATGTAAG
1 TTATGTAAG
10860863 TTATGT-A-
1 TTATGTAAG
10860870 TTATGT-A-
1 TTATGTAAG
10860877 TTATGT-A-
1 TTATGTAAG
10860884 TTATGTAAG
1 TTATGTAAG
10860893 -TACTGTAAG
1 TTA-TGTAAG
*
10860902 TAATGTAAG
1 TTATGTAAG
10860911 TTATGTAAG
1 TTATGTAAG
*
10860920 TAATGT-A-
1 TTATGTAAG
10860927 TTATGTAAG
1 TTATGTAAG
* *
10860936 TTGTGTATAATA
1 TTATG--TAA-G
10860948 TTAATGTAAG
1 TT-ATGTAAG
10860958 TTATGTAAG
1 TTATGTAAG
* *
10860967 TTATTTAAT
1 TTATGTAAG
*
10860976 TTTTGTAAG
1 TTATGTAAG
10860985 TTATGTAA-
1 TTATGTAAG
10860993 TTAATGTAAG
1 TT-ATGTAAG
* *
10861003 TTATTTAAT
1 TTATGTAAG
*
10861012 TTTTGTAAG
1 TTATGTAAG
10861021 TTATGTAA-
1 TTATGTAAG
10861029 TTAATGTAAG
1 TT-ATGTAAG
* *
10861039 TTATTTAAT
1 TTATGTAAG
10861048 TTATGTAAG
1 TTATGTAAG
10861057 TTATGTAAG
1 TTATGTAAG
10861066 TTATGTAAG
1 TTATGTAAG
*
10861075 ---T-TAAT
1 TTATGTAAG
10861080 TTATGTAAG
1 TTATGTAAG
10861089 TTATGTAAG
1 TTATGTAAG
* *
10861098 TTATTTAAT
1 TTATGTAAG
10861107 TTATGTAAG
1 TTATGTAAG
*
10861116 TTATGTAAA
1 TTATGTAAG
* *
10861125 TTATTTAAT
1 TTATGTAAG
10861134 TTATGTAAG
1 TTATGTAAG
10861143 TTATGTAAG
1 TTATGTAAG
* *
10861152 TTATTTAAT
1 TTATGTAAG
*
10861161 TTTTGTAAG
1 TTATGTAAG
10861170 TTATGTAA-
1 TTATGTAAG
10861178 TTAATGTAAG
1 TT-ATGTAAG
* *
10861188 TTATTTAAT
1 TTATGTAAG
10861197 TTATGTAAG
1 TTATGTAAG
10861206 TTATGTAAG
1 TTATGTAAG
10861215 TTATGTAAG
1 TTATGTAAG
*
10861224 TTACT-TAAT
1 TTA-TGTAAG
10861233 TTATGTAAG
1 TTATGTAAG
10861242 TTATGTAAG
1 TTATGTAAG
10861251 TTATGTAAG
1 TTATGTAAG
*
10861260 ---T-TAAT
1 TTATGTAAG
10861265 TTATGTAAG
1 TTATGTAAG
10861274 TTATGTAAG
1 TTATGTAAG
* *
10861283 TTATTTAAT
1 TTATGTAAG
* *
10861292 TTTTGTAAT
1 TTATGTAAG
10861301 TTATGTAA-
1 TTATGTAAG
10861309 TTAATGTAAG
1 TT-ATGTAAG
10861319 TTAT
1 TTAT
10861323 TTAATTTGTG
Statistics
Matches: 451, Mismatches: 57, Indels: 68
0.78 0.10 0.12
Matches are distributed among these distances:
5 6 0.01
6 2 0.00
7 50 0.11
8 23 0.05
9 347 0.77
10 13 0.03
11 6 0.01
12 2 0.00
13 2 0.00
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10864740 original size:14 final size:13
Alignment explanation
Indices: 10864710--10864744 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
10864700 ATTATACTAT
*
10864710 ATATATATCATCT
1 ATATATATCATCC
10864723 ATATATATCCATCC
1 ATATATAT-CATCC
10864737 ATATATAT
1 ATATATAT
10864745 ATATCAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATATATCATCC
Found at i:10864748 original size:2 final size:2
Alignment explanation
Indices: 10864662--10864730 Score: 65
Period size: 2 Copynumber: 35.5 Consensus size: 2
10864652 AATTTGGTCC
* *
10864662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA AA TA -A T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
10864701 T- TA TA CTA TA TA TA TA TCA TC TA TA TA TA T
1 TA TA TA -TA TA TA TA TA T-A TA TA TA TA TA T
10864731 CCATCCATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
1 4 0.07
2 48 0.86
3 4 0.07
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10864975 original size:14 final size:14
Alignment explanation
Indices: 10864951--10864984 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10864941 TCTGACCCCA
*
10864951 AAATCCTCAAACCTT
1 AAAT-CTCAAACCCT
10864966 AAATCTCAAACCCT
1 AAATCTCAAACCCT
10864980 AAATC
1 AAATC
10864985 CATACAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATCTCAAACCCT
Found at i:10865704 original size:16 final size:16
Alignment explanation
Indices: 10865676--10865708 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10865666 TCTCTTTTAC
10865676 AATTATATAATAAATT
1 AATTATATAATAAATT
10865692 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
10865708 A
1 A
10865709 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:10865749 original size:21 final size:21
Alignment explanation
Indices: 10865725--10865809 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
10865715 ACTAGTTAAT
*
10865725 CTAAACTGTAAACCATAAACC
1 CTAAACTATAAACCATAAACC
* * *
10865746 CTAAAATATAAACCCTTAACAC
1 CTAAACTATAAACCATAAAC-C
* * * *
10865768 ATAACCTCTAAACCTTAAACC
1 CTAAACTATAAACCATAAACC
* * *
10865789 CCAACCTTTAAACCATAAACC
1 CTAAACTATAAACCATAAACC
10865810 ATAGACCAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 34 0.69
22 15 0.31
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (21 bp):
CTAAACTATAAACCATAAACC
Found at i:10865750 original size:14 final size:14
Alignment explanation
Indices: 10865733--10865812 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
10865723 ATCTAAACTG
10865733 TAAACCATAAACCC
1 TAAACCATAAACCC
**
10865747 TAAAATATAAACCC
1 TAAACCATAAACCC
*
10865761 TTAACACAT-AACCTC
1 TAAAC-CATAAACC-C
*
10865776 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
10865790 -CAACCTTTAAACCA
1 TAAACC-ATAAACCC
10865804 TAAACCATA
1 TAAACCATA
10865813 GACCAAATAC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 4 0.08
14 31 0.62
15 15 0.30
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:10866081 original size:115 final size:112
Alignment explanation
Indices: 10865867--10866424 Score: 418
Period size: 115 Copynumber: 4.9 Consensus size: 112
10865857 ATGCATGGTT
* * * *
10865867 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCTCTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAG
* *
10865932 TATGATTTAGCGGCGATTTCTCGTGGAT--GCCACTAATTCCAGTATACATC
65 TATGCTTTAGCGGCG-TTTC-CCT--ATGCGCCACTAATTCCAGTATACATC
* * *
10865982 AAGACTTAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAG
1 AAGAC-AAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAG
* * * * * *
10866047 TATGCTTTAGCAGCGTTCTCCCATAAGCGTCACTAATTCTAATATACCTC
65 TATGCTTTAGCGGCGTT-TCCC-TATGCGCCACTAATTCCAGTATACATC
* * *
10866097 AAGACAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGC-T-T----ATGCGCCACTAATTA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAA-TA
* ** ** * ** * *
10866155 CTGTATACATCAAGACAAAAACGTTGCAGTATGCGCCACTAATTACTGTATACATC
64 --GTATGC-TTTAG-C---GGCGTTTCCCTATGCGCCACTAATTCCAGTATACATC
* * * * *
10866211 AAGACAAAAACGT-TGCGTTTTGGTTACGAAATTTTGCGGTGCTTCTCCAAACGCGCCTCTAATA
1 AAGAC-AAAAC-TCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATA
* * * * *
10866275 GTATGCCTTAGCGGCGTGTTCCCTTTGTGCCACTAATTCTAGTATACCTC
64 GTATGCTTTAGCGGCGT-TTCCCTATGCGCCACTAATTCCAGTATACATC
* * * * * *
10866325 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTACGGCGCTTCTCACAAA-ACGCCGCTCATAT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCA-AAACGCGCCGCTAATAG
* *
10866389 TATGCTTTGGCGGCGTTTTCCCTAAAGCGCCACTAA
65 TATGCTTTAGCGGCG-TTTCCCT-ATGCGCCACTAA
10866425 CTGTAACATA
Statistics
Matches: 343, Mismatches: 72, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
108 10 0.03
109 2 0.01
111 5 0.01
112 5 0.01
113 69 0.20
114 99 0.29
115 123 0.36
116 10 0.03
117 3 0.01
118 5 0.01
120 2 0.01
121 10 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (112 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAACGCGCCGCTAATAGT
ATGCTTTAGCGGCGTTTCCCTATGCGCCACTAATTCCAGTATACATC
Found at i:10866203 original size:45 final size:45
Alignment explanation
Indices: 10866139--10866226 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
10866129 TTGCGGCGCT
10866139 TATGCGCCACTAATTACTGTATACATCAAGACAAAAACGTTGCAG
1 TATGCGCCACTAATTACTGTATACATCAAGACAAAAACGTTGCAG
10866184 TATGCGCCACTAATTACTGTATACATCAAGACAAAAACGTTGC
1 TATGCGCCACTAATTACTGTATACATCAAGACAAAAACGTTGC
10866227 GTTTTGGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (45 bp):
TATGCGCCACTAATTACTGTATACATCAAGACAAAAACGTTGCAG
Found at i:10866307 original size:114 final size:113
Alignment explanation
Indices: 10866189--10866411 Score: 263
Period size: 113 Copynumber: 2.0 Consensus size: 113
10866179 TGCAGTATGC
* * * *
10866189 GCCACTAATTACT-GTATACATCAAGACAAAAACGT-TGCGTTTTGGTTACGAAATTTTGCGGTG
1 GCCACTAATT-CTAGTATACATCAAGAC-AAAAC-TCTGCATTTTGGTTAAGAAATTTTACGGCG
* *
10866252 CTTCTC-CAAACGCGCCTCTAATAGTATGCCTTAGCGGCGTGTTCCCTTTGT
63 CTTCTCACAAA-ACGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCCTTTGT
* * *
10866303 GCCACTAATTCTAGTATACCTCAAGACCAAACTCTGCATTTTGGTTAAGATATTTTACGGCGCTT
1 GCCACTAATTCTAGTATACATCAAGACAAAACTCTGCATTTTGGTTAAGAAATTTTACGGCGCTT
* * * * *
10866368 CTCACAAAACGCCGCTCATATTATGCTTTGGCGGCGTTTTCCCT
66 CTCACAAAACGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCCT
10866412 AAAGCGCCAC
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
112 1 0.01
113 64 0.70
114 27 0.29
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (113 bp):
GCCACTAATTCTAGTATACATCAAGACAAAACTCTGCATTTTGGTTAAGAAATTTTACGGCGCTT
CTCACAAAACGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCCTTTGT
Found at i:10866685 original size:112 final size:113
Alignment explanation
Indices: 10866486--10866759 Score: 317
Period size: 112 Copynumber: 2.4 Consensus size: 113
10866476 AGCGTTTACC
* * * * ** *
10866486 CATAAGCGCCACAAATTCTAATATACCTCTAGACC-AAACTCTGCGTTTTGGTTAACATATATTG
1 CATAAGCGCCACTAATGCTAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATATTG
* * *
10866550 CGGCGCTTTTCGTAAGCGTCGCTAATACTTGCTTTAGCGGCGGGTTT-T
66 CGGCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGGC-GGTTTAT
* * * *
10866598 CGTAAGCGCCACTAATGCTAATATACAGT-GAGA-CAAAACGATGCGTTTTCGTTAAGAT-TGTT
1 CATAAGCGCCACTAATGCTAATATACA-TCAAGACCAAAACGATGCGTTTTCGTTAACATATATT
*
10866660 GCGGCGC-TTTCGACAATGCGCCGCTAATACTTCCTTTAGCGGCGTTTTAT
65 GCGGCGCTTTTCG-CAA-GCGCCGCTAATACTTCCTTTAGCGGCGGTTTAT
* *
10866710 CATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTT
1 CATAAGCGCCACTAATGCTAATATACATCAAGACCAAAACGATGCGTTTT
10866760 GGTCTTGAGA
Statistics
Matches: 137, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
110 5 0.04
111 18 0.13
112 97 0.71
113 17 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (113 bp):
CATAAGCGCCACTAATGCTAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATATTG
CGGCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGGCGGTTTAT
Found at i:10871130 original size:110 final size:110
Alignment explanation
Indices: 10870967--10871383 Score: 583
Period size: 110 Copynumber: 3.8 Consensus size: 110
10870957 GGATTAAGAT
* * *
10870967 TTAAGAGGATATTT-GCTATTTGGTCGAACGAG--AAGTCGAAACCCAGCACATTAGGGCGCG-T
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
10871028 TTCTCAAATTTCCAAATGTAGAACATTGCCTTATTTTGAAATTT-
66 TTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAAATTTC
* *
10871072 TTAAAAAGGATGTTTGGCTATTTGGTCGAATGAGAAAAAATCGAAACCCAGCACATTAGGGCACG
1 TT-AAAAGGATATTTGGCTATTTGGTCGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACG
**
10871137 TTTTCTCGAATTTCCAAATGCAAAACATCACCTTATTTTGAAATTTTC
64 TTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAAA-TTTC
**
10871185 TTTAAAAGGATATTTGGCTATTTGGTCGAACTTGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 -TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
10871250 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTC
65 TTTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAAATTTC
* * *
10871296 TTAAAAGAATGTTTGGCGATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
10871361 CTCTCGAATTTACAAACGCAAAA
66 TTCTCGAATTTCCAAATGCAAAA
10871384 TATTACCTCA
Statistics
Matches: 278, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
105 2 0.01
106 10 0.04
107 17 0.06
110 107 0.38
111 41 0.15
112 72 0.26
113 27 0.10
114 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (110 bp):
TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAAATTTC
Found at i:10871930 original size:23 final size:23
Alignment explanation
Indices: 10871904--10871998 Score: 63
Period size: 23 Copynumber: 4.2 Consensus size: 23
10871894 TATAAAAATG
*
10871904 TATATAATGTATATATATATATA
1 TATATAAAGTATATATATATATA
* * *
10871927 TATATGAATTATAAAGTATATA-A
1 TATATAAAGTATATA-TATATATA
**
10871950 GGTATA-AAAGTATGCATATATATA
1 --TATATAAAGTATATATATATATA
* *
10871974 AAT-TAAAG-ATATGTATATATA
1 TATATAAAGTATATATATATATA
10871995 TATA
1 TATA
10871999 ATTAAATCTA
Statistics
Matches: 53, Mismatches: 13, Indels: 13
0.67 0.16 0.16
Matches are distributed among these distances:
21 12 0.23
22 6 0.11
23 18 0.34
24 13 0.25
25 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (23 bp):
TATATAAAGTATATATATATATA
Found at i:10871948 original size:2 final size:2
Alignment explanation
Indices: 10871871--10871931 Score: 52
Period size: 2 Copynumber: 30.5 Consensus size: 2
10871861 CATGTACACG
* * * * * *
10871871 TA TA TG TA TA TA TG TA TA TA TA CTA TA AA AA TG TA TA TA -A TG
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
10871913 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
10871932 GAATTATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
1 1 0.02
2 44 0.94
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10872055 original size:18 final size:18
Alignment explanation
Indices: 10872034--10872080 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10872024 TAAATAAGCA
10872034 AATAATGATAACAATAAT
1 AATAATGATAACAATAAT
* *
10872052 AATAATGACAACAATGAT
1 AATAATGATAACAATAAT
*
10872070 AATAATAATAA
1 AATAATGATAA
10872081 AGATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AATAATGATAACAATAAT
Found at i:10873942 original size:104 final size:104
Alignment explanation
Indices: 10873798--10873991 Score: 307
Period size: 104 Copynumber: 1.9 Consensus size: 104
10873788 GTAGCTACAG
* * * * *
10873798 TAAAGTCTGATGCGATCTATTTTATTGCAATTTTAGAGAGATAAAATCCATCATTTTGACCCGCT
1 TAAAGTCTGATGCGATCCATTTTACTGCAACTTCAAAGAGATAAAATCCATCATTTTGACCCGCT
10873863 CCACTGTAACTTCAGGGAGATAGGACTTGTAATTTTCAA
66 CCACTGTAACTTCAGGGAGATAGGACTTGTAATTTTCAA
* * * *
10873902 TAAAGTCTGATGTGATCCGTTTTACTGCAACTTCAAAGAGATAAGATCTATCATTTTGACCCGCT
1 TAAAGTCTGATGCGATCCATTTTACTGCAACTTCAAAGAGATAAAATCCATCATTTTGACCCGCT
10873967 CCACTGTAACTTCAGGGAGATAGGA
66 CCACTGTAACTTCAGGGAGATAGGA
10873992 TTAGTAACTT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (104 bp):
TAAAGTCTGATGCGATCCATTTTACTGCAACTTCAAAGAGATAAAATCCATCATTTTGACCCGCT
CCACTGTAACTTCAGGGAGATAGGACTTGTAATTTTCAA
Found at i:10884053 original size:16 final size:16
Alignment explanation
Indices: 10884032--10884066 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10884022 ACTTTTAATG
*
10884032 AAATGCCATGTAGTCA
1 AAATGCCATGCAGTCA
10884048 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
10884064 AAA
1 AAA
10884067 CAGAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:10885403 original size:110 final size:110
Alignment explanation
Indices: 10884982--10885399 Score: 540
Period size: 110 Copynumber: 3.8 Consensus size: 110
10884972 GAATTAAGAT
* * * * *
10884982 TTAAGAGGATATTTGGCTATTTGGTCAAACGAG--AAGTCGAAACCCAACACATTAGGGCGC-AT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTT
* * *
10885044 TTCTCGAATTTCCAAACGTAGAACATTGCCTTATTTTG-AATTTT
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTC
* ** * *
10885088 TTAAAAAGGATGTTTGGCTATTTGGTCGAACGAGAAAAAATATAAACCCAGCACATTAGGGCACA
1 TT-AAAAGGATATTTGGCTATTTGGTCGAACGAG-AAAAATCGAAACCCAACACATTAGGGCACG
**
10885153 TTTTCTCGAATTTCCAAACGCAAAACATCACCTTATTTTGAAATTTTC
64 TTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA-TTTC
* *
10885201 TTTAAAATGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
1 -TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* *
10885266 TTTCTCGAATTTCCAAACGTAAAATATTGCCTTATTTTGAAATTTC
65 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTC
* * *
10885312 TTAAAAGGATATTTGGCGATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATT-GGTGCATGT
1 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGG-GCACGT
* *
10885376 TCTCTCGAATTTACAAACGCAAAA
65 TTTCTCGAATTTCCAAACGCAAAA
10885400 TATTACCTCG
Statistics
Matches: 270, Mismatches: 33, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
106 2 0.01
107 28 0.10
109 2 0.01
110 99 0.37
111 39 0.14
112 67 0.25
113 31 0.11
114 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (110 bp):
TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTC
Found at i:10885880 original size:8 final size:8
Alignment explanation
Indices: 10885867--10885895 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10885857 CATGTACACG
10885867 TATATGTA
1 TATATGTA
10885875 TATATGTA
1 TATATGTA
10885883 TATATGTA
1 TATATGTA
10885891 TATAT
1 TATAT
10885896 ACTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATGTA
Found at i:10886063 original size:18 final size:18
Alignment explanation
Indices: 10886042--10886083 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10886032 TAAATAAGCA
*
10886042 AATAATGATAACAATAAT
1 AATAATGACAACAATAAT
* *
10886060 AATAAAGACAACAATGAT
1 AATAATGACAACAATAAT
10886078 AATAAT
1 AATAAT
10886084 AAAAAAGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (18 bp):
AATAATGACAACAATAAT
Found at i:10886555 original size:22 final size:23
Alignment explanation
Indices: 10886502--10886557 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
10886492 TTTAATTAAA
* * *
10886502 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
10886525 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
10886547 ATTAAAATTAA
1 ATTAAAATTAA
10886558 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:10886570 original size:16 final size:16
Alignment explanation
Indices: 10886533--10886572 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10886523 TTAATAAAAT
* *
10886533 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
10886549 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
10886565 TAAAATTA
1 TAAAATTA
10886573 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:10886642 original size:66 final size:67
Alignment explanation
Indices: 10886561--10886703 Score: 261
Period size: 68 Copynumber: 2.1 Consensus size: 67
10886551 AAATTAATTG
10886561 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
10886625 GA
66 GA
*
10886627 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
10886692 TGA
65 TGA
10886695 TTAGTAAAA
1 TTAGTAAAA
10886704 CGAACTTGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 26 0.36
68 47 0.64
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GA
Found at i:10886678 original size:9 final size:9
Alignment explanation
Indices: 10886645--10886672 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10886635 TTTATCAAAT
10886645 TATTAATTG
1 TATTAATTG
10886654 TATTAATTG
1 TATTAATTG
10886663 TATTAATTG
1 TATTAATTG
10886672 T
1 T
10886673 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:10886798 original size:24 final size:25
Alignment explanation
Indices: 10886769--10886815 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
10886759 AAATAAACTT
*
10886769 AAAATAAAAAATTAT-TATATTTTA
1 AAAATAAAAAAATATATATATTTTA
10886793 AAAATAAAAAAATATATATATTT
1 AAAATAAAAAAATATATATATTT
10886816 AATATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAAAAAAATATATATATTTTA
Found at i:10889015 original size:7 final size:7
Alignment explanation
Indices: 10889005--10889148 Score: 62
Period size: 7 Copynumber: 20.4 Consensus size: 7
10888995 GATTATGGGC
10889005 TTAGGGT
1 TTAGGGT
10889012 TTAGGGT
1 TTAGGGT
10889019 TTAAGGG-
1 TT-AGGGT
*
10889026 TTGGGGT
1 TTAGGGT
*
10889033 TTAAGGT
1 TTAGGGT
10889040 TTAAGGG-
1 TT-AGGGT
*
10889047 TTAGGGG
1 TTAGGGT
10889054 TTAGGGGT
1 TTA-GGGT
* *
10889062 TAAAGG-
1 TTAGGGT
*
10889068 TTATGAGT
1 TTA-GGGT
*
10889076 TTAGGGC
1 TTAGGGT
* *
10889083 TTATGAT
1 TTAGGGT
*
10889090 TTATGGT
1 TTAGGGT
* *
10889097 TTATGTT
1 TTAGGGT
*
10889104 TTA-GAT
1 TTAGGGT
10889110 TTAGGGT
1 TTAGGGT
*
10889117 TTAGGGG
1 TTAGGGT
* *
10889124 ATAGGGGA
1 TTA-GGGT
*
10889132 TAAGGGT
1 TTAGGGT
10889139 TTAGGGT
1 TTAGGGT
10889146 TTA
1 TTA
10889149 AATTAATTAG
Statistics
Matches: 102, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
6 14 0.14
7 69 0.68
8 19 0.19
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:10889032 original size:21 final size:22
Alignment explanation
Indices: 10889008--10889081 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 22
10888998 TATGGGCTTA
10889008 GGGTTTAGGGTTTAAGGGTT-G
1 GGGTTTAGGGTTTAAGGGTTAG
*
10889029 GGGTTTAAGGTTTAAGGGTTAG
1 GGGTTTAGGGTTTAAGGGTTAG
* * *
10889051 GGG-TTAGGGGTTAAAGGTTAT
1 GGGTTTAGGGTTTAAGGGTTAG
*
10889072 GAGTTTAGGG
1 GGGTTTAGGG
10889082 CTTATGATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 35 0.78
22 10 0.22
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (22 bp):
GGGTTTAGGGTTTAAGGGTTAG
Found at i:10889974 original size:14 final size:14
Alignment explanation
Indices: 10889955--10889982 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10889945 CCAACTGATT
10889955 CTTCGTTTCCTTTC
1 CTTCGTTTCCTTTC
10889969 CTTCGTTTCCTTTC
1 CTTCGTTTCCTTTC
10889983 TTGTCCATAG
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:0.00, C:0.36, G:0.07, T:0.57
Consensus pattern (14 bp):
CTTCGTTTCCTTTC
Found at i:10893055 original size:9 final size:9
Alignment explanation
Indices: 10893043--10893159 Score: 107
Period size: 9 Copynumber: 13.0 Consensus size: 9
10893033 TATATCATAT
*
10893043 CATAATTTA
1 CATAACTTA
10893052 CATAACTTA
1 CATAACTTA
10893061 CATAACTTA
1 CATAACTTA
10893070 -ATAACTTA
1 CATAACTTA
* *
10893078 TATATATCATA
1 CATA-A-CTTA
10893089 TCATAACTTA
1 -CATAACTTA
10893099 CATAACTTA
1 CATAACTTA
10893108 CATAACTTA
1 CATAACTTA
10893117 CATAA--TA
1 CATAACTTA
*
10893124 CATAA-ATA
1 CATAACTTA
* * *
10893132 TATATCATA
1 CATAACTTA
10893141 TCATAACTTA
1 -CATAACTTA
10893151 CATAACTTA
1 CATAACTTA
10893160 ATTATACTTG
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
7 7 0.08
8 13 0.14
9 55 0.60
10 10 0.11
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:10893080 original size:47 final size:52
Alignment explanation
Indices: 10893027--10893159 Score: 213
Period size: 47 Copynumber: 2.7 Consensus size: 52
10893017 TAAGTAAAAT
*
10893027 TATATATATATCATATCATAATTTACATAACTTACATAACTTA-AT-A-AC-
1 TATATATATATCATATCATAACTTACATAACTTACATAACTTACATAATACA
10893075 T-TATATATATCATATCATAACTTACATAACTTACATAACTTACATAATACA
1 TATATATATATCATATCATAACTTACATAACTTACATAACTTACATAATACA
*
10893126 TAAATATATATCATATCATAACTTACATAACTTA
1 TATATATATATCATATCATAACTTACATAACTTA
10893160 ATTATACTTG
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
47 40 0.51
48 3 0.04
49 1 0.01
50 2 0.03
51 1 0.01
52 31 0.40
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (52 bp):
TATATATATATCATATCATAACTTACATAACTTACATAACTTACATAATACA
Found at i:10893136 original size:52 final size:47
Alignment explanation
Indices: 10893053--10893159 Score: 160
Period size: 52 Copynumber: 2.2 Consensus size: 47
10893043 CATAATTTAC
*
10893053 ATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTAC
1 ATAACTTACATAACTTAATAACTAATATATATCATATCATAACTTAC
10893100 ATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTAC
1 ATAACTTACATAACTTA-AT-A-AC-T-AATATATATCATATCATAACTTAC
10893152 ATAACTTA
1 ATAACTTA
10893160 ATTATACTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
47 17 0.31
48 2 0.04
49 1 0.02
50 2 0.04
51 1 0.02
52 31 0.57
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (47 bp):
ATAACTTACATAACTTAATAACTAATATATATCATATCATAACTTAC
Found at i:10897402 original size:43 final size:43
Alignment explanation
Indices: 10897297--10897407 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
10897287 ATTTGTAAAA
* *
10897297 AAAAGCGTCGCTAAAGGT-ATGTTCTTTAGTGGAGATTGTGAT
1 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
* * *
10897339 AAAAGCGTCGTTAAATGTCATGTTCTTTAGCGGCGATTGCGAT
1 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
* *
10897382 AAAAGCGTCACTAAAGGTCATCTTCT
1 AAAAGCGTCGCTAAAGGTCATGTTCT
10897408 CTTTAAACGC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 16 0.27
43 43 0.73
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
Found at i:10903730 original size:22 final size:22
Alignment explanation
Indices: 10903700--10903741 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10903690 TGAATAAACC
* * *
10903700 AAATGAACTTTATTTTTGTAGA
1 AAATAAACTTAATATTTGTAGA
10903722 AAATAAACTTAATATTTGTA
1 AAATAAACTTAATATTTGTA
10903742 AACTAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (22 bp):
AAATAAACTTAATATTTGTAGA
Found at i:10908284 original size:2 final size:2
Alignment explanation
Indices: 10908277--10908301 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10908267 CTAGAGTATT
10908277 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
10908302 TTGGCCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10908827 original size:27 final size:27
Alignment explanation
Indices: 10908786--10908837 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
10908776 TGTGTCGAGG
*
10908786 TCCTAATTCAAACTTGTCATTTGACCT
1 TCCTAATTCAAACTTGTCATCTGACCT
*
10908813 TCCTAATTCAGACTTGTCATCTGAC
1 TCCTAATTCAAACTTGTCATCTGAC
10908838 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (27 bp):
TCCTAATTCAAACTTGTCATCTGACCT
Found at i:10916969 original size:30 final size:30
Alignment explanation
Indices: 10916913--10916969 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10916903 TAGTAAAAGT
*
10916913 AACAATAAAATAAGAATTATATAATATTCA
1 AACAATAAAATAAGAATAATATAATATTCA
10916943 AACAATAACAAT-A-AATAATATCAATAT
1 AACAATAA-AATAAGAATAATAT-AATAT
10916970 AATAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 7 0.29
30 14 0.58
31 3 0.12
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (30 bp):
AACAATAAAATAAGAATAATATAATATTCA
Found at i:10931152 original size:14 final size:14
Alignment explanation
Indices: 10931101--10931153 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
10931091 ATAATTAACT
*
10931101 TTTAATTAATTAGA
1 TTTAATTAATTAAA
*
10931115 TTTAATTAAATAAAA
1 TTTAATT-AATTAAA
**
10931130 GGATAATTAATTAAA
1 -TTTAATTAATTAAA
10931145 TTTAATTAA
1 TTTAATTAA
10931154 ACTATATAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 14 0.47
15 11 0.37
16 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:10942142 original size:34 final size:34
Alignment explanation
Indices: 10942104--10942175 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
10942094 CTACAGAAAG
10942104 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
*
10942138 AAAGTATTTGAAATCTTCTCCCTCTACAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
10942172 AAAG
1 AAAG
10942176 GTAATTCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.38
Consensus pattern (34 bp):
AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
Found at i:10948040 original size:18 final size:19
Alignment explanation
Indices: 10948011--10948047 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10948001 TCAACAATTA
10948011 TTTATTTGTATTTATAAAT
1 TTTATTTGTATTTATAAAT
*
10948030 TTTATTT-TATTTTTAAAT
1 TTTATTTGTATTTATAAAT
10948048 GGTAGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATTTGTATTTATAAAT
Found at i:10952958 original size:27 final size:27
Alignment explanation
Indices: 10952920--10953029 Score: 150
Period size: 27 Copynumber: 4.1 Consensus size: 27
10952910 ATACAAAATA
*
10952920 GTGGCGCCTATCTGACAGGCGCCAATG
1 GTGGTGCCTATCTGACAGGCGCCAATG
10952947 GTGGTGCCTATCTGACAGGCGCCAATG
1 GTGGTGCCTATCTGACAGGCGCCAATG
* *
10952974 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGACAGGCGCCAATG
* * *
10953001 GTTGTGCCATAT-TGAGAGGCGCTAATG
1 GTGGTGCC-TATCTGACAGGCGCCAATG
10953028 GT
1 GT
10953030 CTTATTTTTC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 71 0.96
28 3 0.04
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.25
Consensus pattern (27 bp):
GTGGTGCCTATCTGACAGGCGCCAATG
Found at i:10956540 original size:6 final size:6
Alignment explanation
Indices: 10956531--10956575 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
10956521 CTGTCTCTGC
** * *
10956531 CTCCGG CTCCGG CTCTAG CTCTGG CTCCGG CTTCGG CTCCGG CTC
1 CTCCGG CTCCGG CTCCGG CTCCGG CTCCGG CTCCGG CTCCGG CTC
10956576 TTGCTCTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.02, C:0.44, G:0.29, T:0.24
Consensus pattern (6 bp):
CTCCGG
Found at i:10956575 original size:24 final size:24
Alignment explanation
Indices: 10956525--10956581 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
10956515 GTAGTTCTGT
* *
10956525 CTCTGCCTCCGGCTCCGGCTCTAG
1 CTCTGGCTCCGGCTCCGGCTCCAG
* *
10956549 CTCTGGCTCCGGCTTCGGCTCCGG
1 CTCTGGCTCCGGCTCCGGCTCCAG
*
10956573 CTCTTGCTC
1 CTCTGGCTC
10956582 TGGTGCATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.02, C:0.44, G:0.26, T:0.28
Consensus pattern (24 bp):
CTCTGGCTCCGGCTCCGGCTCCAG
Found at i:10956581 original size:12 final size:12
Alignment explanation
Indices: 10956525--10956581 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
10956515 GTAGTTCTGT
*
10956525 CTCTGCCTCCGG
1 CTCTGGCTCCGG
* **
10956537 CTCCGGCTCTAG
1 CTCTGGCTCCGG
10956549 CTCTGGCTCCGG
1 CTCTGGCTCCGG
10956561 CT-TCGGCTCCGG
1 CTCT-GGCTCCGG
*
10956573 CTCTTGCTC
1 CTCTGGCTC
10956582 TGGTGCATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
11 1 0.03
12 33 0.94
13 1 0.03
ACGTcount: A:0.02, C:0.44, G:0.26, T:0.28
Consensus pattern (12 bp):
CTCTGGCTCCGG
Found at i:10958178 original size:16 final size:16
Alignment explanation
Indices: 10958159--10958197 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
10958149 AAAATCAAAT
10958159 AAAATTACATTATATA
1 AAAATTACATTATATA
10958175 AAAATTACATTATATA
1 AAAATTACATTATATA
10958191 AAAATTA
1 AAAATTA
10958198 AATGAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:10958394 original size:60 final size:60
Alignment explanation
Indices: 10958314--10958431 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
10958304 TAAACTAAAA
* * * * * *
10958314 ACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAATATAATTACAAAC
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAACAATTACAAAC
10958374 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAACAATTACAA
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAACAATTACAA
10958432 TGTTCATACA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (60 bp):
ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAACAATTACAAAC
Found at i:10958448 original size:19 final size:19
Alignment explanation
Indices: 10958424--10958485 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
10958414 ATTATAAAAC
*
10958424 AATTACAATGTTCATACAA
1 AATTACAATATTCATACAA
10958443 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
10958464 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
10958483 AAT
1 AAT
10958486 ACTAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 21 0.52
21 19 0.47
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:10958467 original size:21 final size:21
Alignment explanation
Indices: 10958419--10958484 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
10958409 AATTAATTAT
*
10958419 AAAACAATTACAATGTTCATAC
1 AAAA-AATTACAATATTCATAC
10958441 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
10958460 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
10958481 AAAA
1 AAAA
10958485 TACTAATCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 16 0.39
20 2 0.05
21 23 0.56
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:10958979 original size:17 final size:18
Alignment explanation
Indices: 10958957--10958994 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10958947 TTTTTAAAAA
10958957 TAAAAAA-TAA-ATTTTAT
1 TAAAAAATTAATATTTT-T
10958974 TAAAAAATTAATATTTTT
1 TAAAAAATTAATATTTTT
10958992 TAA
1 TAA
10958995 TTCATTGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAAAATTAATATTTTT
Found at i:10962306 original size:21 final size:21
Alignment explanation
Indices: 10962264--10962312 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10962254 ATAAATAAAA
10962264 TCATTCA-TGTCAGTTCCTTG
1 TCATTCACTGTCAGTTCCTTG
*
10962284 TCATTCACTGTCAATTTCC-TG
1 TCATTCACTGTC-AGTTCCTTG
10962305 TCATTCAC
1 TCATTCAC
10962313 AACTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (21 bp):
TCATTCACTGTCAGTTCCTTG
Found at i:10962540 original size:21 final size:21
Alignment explanation
Indices: 10962488--10962546 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
10962478 ATATGCCAAT
*
10962488 AGAAGCTCA-AA-AGCAGAAC
1 AGAAGCTCATAAGAGCTGAAC
*
10962507 AGAAGCTCATAAGATCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
**
10962528 AGAAGCTTGTAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
10962547 TCCACTCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 9 0.27
20 2 0.06
21 22 0.67
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:10962747 original size:39 final size:39
Alignment explanation
Indices: 10962693--10962770 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
10962683 CTTTCAATTT
*
10962693 AAACCGAATATCCAATTTAATATTATAATTCCAACAATA
1 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
10962732 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
1 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
10962771 GAATAAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (39 bp):
AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
Found at i:10966455 original size:44 final size:44
Alignment explanation
Indices: 10966392--10966508 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 44
10966382 GATGTCATAG
* *
10966392 TATCTTTCAACCATGGTATTTCCTTTTCGAATATAATGCCTTGA
1 TATCTTTCAATCATGGTATTTCCTTTTCGAATATAATGCCATGA
* ** * *
10966436 TATCTTTGAATCATGGTATTTCCTTTTTTAGTATAATGTCATGA
1 TATCTTTCAATCATGGTATTTCCTTTTCGAATATAATGCCATGA
*
10966480 TATCTTTCAATCATGGTCTTTCCCTTTTC
1 TATCTTTCAATCATGGTATTT-CCTTTTC
10966509 TCAAATCAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 56 0.90
45 6 0.10
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (44 bp):
TATCTTTCAATCATGGTATTTCCTTTTCGAATATAATGCCATGA
Found at i:10968560 original size:43 final size:43
Alignment explanation
Indices: 10968493--10968622 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 43
10968483 CATAGGATTT
* * * *
10968493 TCGATATGTGTTTTCGCGTAAGACCACGTCTGGGACTTTGGCA
1 TCGATCTGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
* *
10968536 TCGA-CTTGTGTTTACGTGTAAGACC-CTATCTGGGACAGTGAG-A
1 TCGATC-TGTGTTTACGTGTAAGACCAC-GTCTGGGACATTG-GCA
* * * *
10968579 TCGATCTGTGATTGCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATCTGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
10968622 T
1 T
10968623 TGTACAAGCC
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.03
43 64 0.93
44 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATCTGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:10972603 original size:29 final size:29
Alignment explanation
Indices: 10972539--10972604 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
10972529 TTGGGCACAC
* * * **
10972539 GCCCGTGTGCTTTACATGCTCGTGTGGTT
1 GCCCGTGTGCTTCACACGATCGTGTGGCA
*
10972568 GCTCGTGTGCTTCACACGATCGTGTGGCA
1 GCCCGTGTGCTTCACACGATCGTGTGGCA
10972597 GCCCGTGT
1 GCCCGTGT
10972605 CCCAAGCTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.09, C:0.27, G:0.32, T:0.32
Consensus pattern (29 bp):
GCCCGTGTGCTTCACACGATCGTGTGGCA
Found at i:10980827 original size:9 final size:9
Alignment explanation
Indices: 10980813--10980849 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10980803 TATAGTTTGA
10980813 TATTCGAAT
1 TATTCGAAT
10980822 TATTCGAAT
1 TATTCGAAT
*
10980831 TATTCGAGT
1 TATTCGAAT
10980840 TATTCGAAT
1 TATTCGAAT
10980849 T
1 T
10980850 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10988846 original size:17 final size:17
Alignment explanation
Indices: 10988820--10988852 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10988810 ATAGAAAGTC
10988820 AAAGACATGGGTATCAG
1 AAAGACATGGGTATCAG
*
10988837 AAAGATATGGGTATCA
1 AAAGACATGGGTATCA
10988853 AAATCTGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.21
Consensus pattern (17 bp):
AAAGACATGGGTATCAG
Found at i:11008632 original size:24 final size:24
Alignment explanation
Indices: 11008599--11008686 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
11008589 TGTAGCATTT
*
11008599 TGTTTGGCCTTTGTGGCGTACTTC
1 TGTTTGGCCTTTGTGGCGCACTTC
* * * *
11008623 TATTTGGCCTTTTTGACACACTTC
1 TGTTTGGCCTTTGTGGCGCACTTC
* * *
11008647 TGTTCGGCCTTTGTAGCGCA-TTT
1 TGTTTGGCCTTTGTGGCGCACTTC
11008670 TGTTTGGCCTTTGTGGC
1 TGTTTGGCCTTTGTGGC
11008687 ATTCTGTTAG
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
23 17 0.34
24 33 0.66
ACGTcount: A:0.08, C:0.22, G:0.25, T:0.45
Consensus pattern (24 bp):
TGTTTGGCCTTTGTGGCGCACTTC
Found at i:11008701 original size:20 final size:23
Alignment explanation
Indices: 11008584--11008704 Score: 65
Period size: 24 Copynumber: 5.4 Consensus size: 23
11008574 TTCATGGGGT
* *
11008584 GCCTTTGTA--GCATTTTGTTTG
1 GCCTTTGTAGCGCATTCTGTTTA
* * * *
11008605 GCCTTTGTGGCGTACTTCTATTTG
1 GCCTTTGTAGCGCA-TTCTGTTTA
* * **
11008629 GCCTTT-TTGACACACTTCTGTTCG
1 GCCTTTGTAG-CGCA-TTCTGTTTA
* *
11008653 GCCTTTGTAGCGCATTTTGTTTG
1 GCCTTTGTAGCGCATTCTGTTTA
11008676 GCCTTTGT-G-GCATTCTG-TTA
1 GCCTTTGTAGCGCATTCTGTTTA
11008696 GCCTTTGTA
1 GCCTTTGTA
11008705 ATGTATTTTG
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
20 10 0.13
21 15 0.19
22 1 0.01
23 19 0.24
24 32 0.41
25 2 0.03
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (23 bp):
GCCTTTGTAGCGCATTCTGTTTA
Found at i:11017734 original size:19 final size:20
Alignment explanation
Indices: 11017697--11017737 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11017687 TACAACACAA
*
11017697 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
11017717 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
11017736 TT
1 TT
11017738 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:11018174 original size:26 final size:28
Alignment explanation
Indices: 11018144--11018209 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
11018134 CCGTGTATTC
*
11018144 TTCTTTCTTTCTC-TTTTTCTTTT-TCT
1 TTCTTTCTTTCTCGTTTTGCTTTTGTCT
11018170 TTCTTTCTATT-TCGTTTTGCTTTTGTCT
1 TTCTTTCT-TTCTCGTTTTGCTTTTGTCT
*
11018198 TTCTTTATTTCT
1 TTCTTTCTTTCT
11018210 TTTATTACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 13 0.38
28 11 0.32
ACGTcount: A:0.03, C:0.20, G:0.05, T:0.73
Consensus pattern (28 bp):
TTCTTTCTTTCTCGTTTTGCTTTTGTCT
Found at i:11018306 original size:43 final size:40
Alignment explanation
Indices: 11018219--11018306 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 40
11018209 TTTTATTACT
* *
11018219 ATAATATATGTATTTACTTAATTATTAAGTAAAACATATT
1 ATAATATATATATTTACTTAATTATTAAGTAAAACATATA
* *
11018259 ATAATATATATATTTTAACTTTAATTTATTAA-TAATATATATA
1 ATAATATATATA-TTT-AC-TTAA-TTATTAAGTAAAACATATA
11018302 ATAAT
1 ATAAT
11018307 TTTACACTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.28
41 3 0.08
42 2 0.05
43 17 0.43
44 7 0.17
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (40 bp):
ATAATATATATATTTACTTAATTATTAAGTAAAACATATA
Found at i:11020465 original size:3 final size:3
Alignment explanation
Indices: 11020457--11020519 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
11020447 CTAGACTTTG
11020457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11020505 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
11020520 TCTTTGAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.