Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 13 of 425
Found at i:3629536 original size:26 final size:26
Alignment explanation
Indices: 3629507--3629616 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
3629497 TGGTACAAAT
3629507 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
3629533 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3629559 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3629585 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
3629611 TGATAA
1 TGATAA
3629617 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:3631645 original size:137 final size:136
Alignment explanation
Indices: 3631400--3631685 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 136
3631390 GAGTAGTCTC
*
3631400 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
3631465 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
3631530 CTGTTA
131 CTGTTA
3631536 CCCAAA-GGAGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATA
1 CCCAAATGG-GCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATA
3631600 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
64 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
*
3631665 CACTGTTG
129 CACTGTTA
**
3631673 CCTGAATGGGCTT
1 CCCAAATGGGCTT
3631686 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
135 2 0.01
136 17 0.12
137 122 0.85
138 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:3634367 original size:14 final size:14
Alignment explanation
Indices: 3634348--3634377 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3634338 CAGAATATAC
3634348 CAGATACAGATTTA
1 CAGATACAGATTTA
3634362 CAGATACAGATTTA
1 CAGATACAGATTTA
3634376 CA
1 CA
3634378 ATCCTACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (14 bp):
CAGATACAGATTTA
Found at i:3637101 original size:5 final size:5
Alignment explanation
Indices: 3637091--3637119 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
3637081 TTGTGTGTTC
3637091 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
3637120 CTTTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:3641459 original size:5 final size:5
Alignment explanation
Indices: 3641449--3641480 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
3641439 TTGTGTGTTC
3641449 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
3641481 TCACATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:3641463 original size:9 final size:9
Alignment explanation
Indices: 3641449--3641479 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3641439 TTGTGTGTTC
3641449 TTTATTTTA
1 TTTATTTTA
3641458 TTTATTTTA
1 TTTATTTTA
3641467 TTTTATTTTA
1 -TTTATTTTA
3641477 TTT
1 TTT
3641480 TTCACATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3642627 original size:14 final size:14
Alignment explanation
Indices: 3642608--3642635 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3642598 GGTTGCTTGT
3642608 CCTCGAACGAGTAA
1 CCTCGAACGAGTAA
3642622 CCTCGAACGAGTAA
1 CCTCGAACGAGTAA
3642636 TTTGTCACAG
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:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (14 bp):
CCTCGAACGAGTAA
Found at i:3648829 original size:17 final size:19
Alignment explanation
Indices: 3648807--3648849 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3648797 ATGGAAATAT
3648807 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
3648824 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
3648843 AATCTTA
1 AATCTTA
3648850 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:3648839 original size:19 final size:19
Alignment explanation
Indices: 3648815--3648851 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3648805 ATAATCTTCA
3648815 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3648834 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
3648852 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:3648877 original size:22 final size:22
Alignment explanation
Indices: 3648815--3648874 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
3648805 ATAATCTTCA
3648815 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
3648834 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
3648856 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
3648875 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:3649914 original size:21 final size:21
Alignment explanation
Indices: 3649854--3649905 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
3649844 TAGACATATA
3649854 AATACATATAAAAAACA-AATGT
1 AATA-ATATAAAAAA-ATAATGT
3649876 AATAATATAAAAAAATAATGT
1 AATAATATAAAAAAATAATGT
*
3649897 AGTAATATA
1 AATAATATA
3649906 TATATATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AATAATATAAAAAAATAATGT
Found at i:3663536 original size:23 final size:22
Alignment explanation
Indices: 3663493--3663546 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
3663483 TAGACATATA
3663493 AATACATAT-AAAAAACAAATGT
1 AATA-ATATAAAAAAACAAATGT
*
3663515 AATAATATAAAATAAACCAATGT
1 AATAATATAAAA-AAACAAATGT
*
3663538 AGTAATATA
1 AATAATATA
3663547 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 17 0.61
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.26
Consensus pattern (22 bp):
AATAATATAAAAAAACAAATGT
Found at i:3663549 original size:2 final size:2
Alignment explanation
Indices: 3663542--3663570 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3663532 CAATGTAGTA
3663542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3663571 AAACAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3677819 original size:220 final size:220
Alignment explanation
Indices: 3677256--3677844 Score: 928
Period size: 219 Copynumber: 2.7 Consensus size: 220
3677246 CAGGCTAAAG
* * * **
3677256 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
3677321 TTGTTAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATGTTCGACGGAGAGCAGATCAAAG
66 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
* *
3677386 ATATAGCAGATCTAACCTTTGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* *
3677451 GCGTTGATAAGGAGCAGATCGAAGA
196 GCATTGACAAGGAGCAGATCGAAGA
*
3677476 CATAGCAGATTTGACCTTCACATGTTTA-GCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * * *
3677540 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
* *
3677605 ACATAGTAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
3677670 GCATTTACAAGGAGCAGATCGAAGA
196 GCATTGACAAGGAGCAGATCGAAGA
* * * *
3677695 CATAGCAAATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
3677760 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATTTTCGATGGAGAGCAGATCAAAG
66 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
* *
3677825 ACATAACAGATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
3677845 ATTGAAGCAG
Statistics
Matches: 335, Mismatches: 33, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
219 198 0.59
220 137 0.41
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCATTGACAAGGAGCAGATCGAAGA
Found at i:3677920 original size:78 final size:78
Alignment explanation
Indices: 3677812--3678157 Score: 536
Period size: 78 Copynumber: 4.4 Consensus size: 78
3677802 TTTCGATGGA
* *
3677812 GAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTT
1 GAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
3677877 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
3677890 GAGCAGATCGAAGACACAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGGTTTGGCATCT
1 GAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
** *
3677954 CCATATTCA-ACGGA
65 CTGTATT-AGACGGG
*
3677968 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
3678033 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
3678046 GAGCAGATCGAAGACACAACAGAT-TGGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
*
3678110 CTGTATTAGACGAG
65 CTGTATTAGACGGG
*
3678124 GAGCAGATCGAAGACATAGCAGATCTGACCTTCA
1 GAGCAGATCGAAGACATAACAGATCTGACCTTCA
3678158 CGTGTTTACG
Statistics
Matches: 242, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
77 3 0.01
78 236 0.98
79 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:3678072 original size:156 final size:156
Alignment explanation
Indices: 3677786--3678157 Score: 622
Period size: 156 Copynumber: 2.4 Consensus size: 156
3677776 CGAAGAAATA
* * * * *
3677786 GATTTGGCATCTCCATTTTCGATGGAGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
3677851 GCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTG
3677916 GACCTTCATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
*
3677942 GGTTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
3678007 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTG
*
3678072 GACCTTTATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
**
3678098 GATTTGGCATCTCTGTATT-AGAC-GAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
1 GATTTGGCATCTCCATATTCA-ACGGA-GAGCAGATCGAAGACATAGCAGATCTGACCTTCA
3678158 CGTGTTTACG
Statistics
Matches: 203, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
155 3 0.01
156 200 0.99
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (156 bp):
GATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTG
GACCTTCATTGAAGCAGATCCAAGAT
Found at i:3678210 original size:443 final size:442
Alignment explanation
Indices: 3677640--3678504 Score: 1333
Period size: 443 Copynumber: 2.0 Consensus size: 442
3677630 TTTTCACATC
* *
3677640 GAAGTAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGCAGATCGAAGACATAGCAAAT
1 GAAGCAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACATAGCAAAT
* * * *
3677705 TTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 CTGACCTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGA
* * * *
3677770 ACAAATCGAAGAAATAGATTTGGCATCTCCATTTTCGATGGAGAGCAGATCAAAGACATAACAGA
131 ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCAAAGACATAACAGA
* *
3677835 TCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCG
196 TCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCG
*
3677900 AAGACACAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGGTTTGGCATCTCCATATTCA-
261 AAGACACAACAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCCATATT-AG
* * * *
3677963 ACGGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGG
324 ACAGAGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAAACAGATCCAAGATGATTTGG
3678027 CATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTGGACCTTTATT
388 CATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTGGACCTTTATT
* * *
3678082 GAAGCAGATCCAAGATGATTTGGCAT-CTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAG
1 GAAGCAGATCCAAGATGATTTGGCATCCT-TGCATT-GACAAGGAGCAGATCGAAGACATAGCAA
* ** *
3678146 ATCTGACCTTCACGTGTTTACGTTGAAGTAGATCTAAGATGATTTGGCATTTCTGTACTGTCAGA
64 ATCTGACCTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGA
* *
3678211 GAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCA
129 GAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCAAAGACATAACA
*
3678276 GATCTGACCTTCATTGAAGCAGATCCAAGTTGATTTGGCATCTCTGTATTAGACAGGGAGCAGAT
194 GATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGAT
* * * * **
3678341 TGAAGACACAGCATATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAG
259 CGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCCATATTAG
* *
3678406 ACAGTGAGTAGATCAAAGACATAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGC
324 ACAGAGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGC
*
3678471 ATCTCTGTATTAGATGGGGAGCAGATCGAAGACA
389 ATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
3678505 TAGTAGATCT
Statistics
Matches: 382, Mismatches: 36, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
441 2 0.01
442 32 0.08
443 347 0.91
444 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (442 bp):
GAAGCAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACATAGCAAAT
CTGACCTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGA
ACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCAAAGACATAACAGA
TCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCG
AAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCCATATTAGAC
AGAGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGCAT
CTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTGGACCTTTATT
Found at i:3678292 original size:365 final size:368
Alignment explanation
Indices: 3677864--3678639 Score: 1069
Period size: 365 Copynumber: 2.1 Consensus size: 368
3677854 GATCCAAGAT
*** **
3677864 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCCATATTAGACGAAGAGCAGATCGAAGACACAACAGATTGGACCTTCATTGAA
* *
3677929 GCAGATCCAAGATGGTTTGGCATCTCCATATTCA-AC-GGAGAGCAGATCGAAGACATAGCAGAT
66 GCAGATCCAAGATGATTTGGCATCTCCATATT-AGACAGG-GAGCAGATCGAAGACACAGCAGAT
* *
3677992 CTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA
129 CTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAA
* *
3678057 AGACACAACAGATTGGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
194 AGACACAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
* * * * *
3678122 AGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACGTGTTTACGTTGAAGTAGATCTAAGAT-
259 AGGAGCAGATCGAAGACATAGCAGATCTGACCTTCACATGTTTACATCGAAGCAGATCCAAGATA
* *
3678186 GATTTGGCATTTCTGTACT-GTCAGAGAACAAATCGAAGA-AACA
324 GATTTGGCATCTCTGTACTAGACAGAGAACAAATCGAAGATAACA
* * *
3678229 GATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
1 GATTTGGCATCTCCATATTAGACGAAGAGCAGATCGAAGACACAACAGAT-TGGACCTTCATTGA
* ** * *
3678293 AGCAGATCCAAGTTGATTTGGCATCTCTGTATTAGACAGGGAGCAGATTGAAGACACAGCATATC
65 AGCAGATCCAAGATGATTTGGCATCTCCATATTAGACAGGGAGCAGATCGAAGACACAGCAGATC
* * *
3678358 TGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACAGTGAGTAGATCAAA
130 TGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAA
* * *
3678423 GACATAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGATGG
195 GACACAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGA
* *
3678488 GGAGCAGATCGAAGACATAGTAGATCTGACCTTCATATGTTTACATCGAAGCAGATCCAAGATGA
260 GGAGCAGATCGAAGACATAGCAGATCTGACCTTCACATGTTTACATCGAAGCAGATCCAAGAT--
* * * *
3678553 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
323 -AGATTTGGCATCTCTGTACTAGACAGAGAACAAATCGAAGATAACA
** ** *
3678600 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA
1 GATTTGGCATCTCCATATTAGACGAAGAGCAGATCGAAGA
3678640 AGAAGATTTG
Statistics
Matches: 358, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
364 1 0.00
365 283 0.79
366 3 0.01
369 17 0.05
370 16 0.04
371 38 0.11
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (368 bp):
GATTTGGCATCTCCATATTAGACGAAGAGCAGATCGAAGACACAACAGATTGGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCCATATTAGACAGGGAGCAGATCGAAGACACAGCAGATCT
GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAG
ACACAACAGATTGGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAG
GAGCAGATCGAAGACATAGCAGATCTGACCTTCACATGTTTACATCGAAGCAGATCCAAGATAGA
TTTGGCATCTCTGTACTAGACAGAGAACAAATCGAAGATAACA
Found at i:3678359 original size:78 final size:78
Alignment explanation
Indices: 3678229--3678523 Score: 398
Period size: 78 Copynumber: 3.8 Consensus size: 78
3678219 CGAAGAAACA
** * *
3678229 GATTTGGCATCTCCATATTCGAC-GAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAG-GGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
3678293 AGCAGATCCAAGTT
65 AGCAGATCCAAGTT
* * *
3678307 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATTGAAGACACAGCATATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
3678372 GCAGATCCAA-TAT
66 GCAGATCCAAGT-T
* * * *
3678385 GATTTGGCATCTCTGTATTAGACAGTGAGTAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
* *
3678449 AACAGATCCAAGAT
65 AGCAGATCCAAGTT
** *
3678463 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
3678524 ATGTTTACAT
Statistics
Matches: 189, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
77 2 0.01
78 185 0.98
79 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGTT
Found at i:3678610 original size:45 final size:45
Alignment explanation
Indices: 3678463--3678736 Score: 279
Period size: 45 Copynumber: 6.1 Consensus size: 45
3678453 GATCCAAGAT
* **
3678463 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
3678510 GATCTGACCTTCATATGT-TTACATC--GAAGCAGATCCAAGATGACA
1 GATTTG-GCATC-TCTGTATTAGA-CGGGGAGCAGATCGAAGATAACA
*
3678555 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
3678600 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGA-A
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA-ACA
* * * *
3678644 GATTTGGCGTCTCTATATTATACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
3678689 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
3678734 GAT
1 GAT
3678737 ATCGCCTTCC
Statistics
Matches: 186, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
43 5 0.03
44 45 0.24
45 108 0.58
47 17 0.09
48 7 0.04
49 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:3678674 original size:89 final size:89
Alignment explanation
Indices: 3678554--3678722 Score: 284
Period size: 89 Copynumber: 1.9 Consensus size: 89
3678544 CCAAGATGAC
* *
3678554 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
3678619 AGACGGGGAGCAGATTGAAGAAGA
66 AGACGGGGAGCAGATTGAAGAAGA
* * * *
3678643 AGATTTGGCGTCTCTATATTATACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
3678708 AGACGGGGAGCAGAT
66 AGACGGGGAGCAGAT
3678723 CAAAGATAGC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (89 bp):
AGATTTGGCATCTCTATATTAGACGGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATTGAAGAAGA
Found at i:3678711 original size:134 final size:135
Alignment explanation
Indices: 3678463--3678736 Score: 349
Period size: 134 Copynumber: 2.0 Consensus size: 135
3678453 GATCCAAGAT
* *
3678463 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATATGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGAAGATCTGACCTTCATATGT
* * *
3678528 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAA
65 ATACA-CGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAA
3678593 GATAACA
129 GATAACA
* * * *
3678600 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGAAGATTTGGCGTCTCTATAT-
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGAAGATCTGACCT-TC-ATATG
* * * *
3678662 TATAC-GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAA
64 TATACACGA-AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAA
*
3678726 AGATAGCA
128 AGATAACA
3678734 GAT
1 GAT
3678737 ATCGCCTTCC
Statistics
Matches: 120, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
133 2 0.02
134 70 0.58
135 7 0.06
136 4 0.03
137 37 0.31
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (135 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGAAGATCTGACCTTCATATGTA
TACACGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGA
TAACA
Found at i:3678955 original size:21 final size:20
Alignment explanation
Indices: 3678929--3678967 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3678919 CGAGCCCAGA
*
3678929 AATAAATCCAAAAAGAAAAAT
1 AATAAACCCAAAAA-AAAAAT
3678950 AATAAACCCAAAAAAAAA
1 AATAAACCCAAAAAAAAA
3678968 CGAAGTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.74, C:0.13, G:0.03, T:0.10
Consensus pattern (20 bp):
AATAAACCCAAAAAAAAAAT
Found at i:3679118 original size:36 final size:35
Alignment explanation
Indices: 3679078--3679155 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
3679068 ATGGAAATAT
3679078 AATCTTCA-ATGATATGCAATCTTAGATATGATATGA
1 AATCTTCATATGATA--CAATCTTAGATATGATATGA
* *
3679114 AATCTTTGATATGATACAATCTTAGATATGATATGC
1 AATC-TTCATATGATACAATCTTAGATATGATATGA
3679150 AATCTT
1 AATCTT
3679156 AGAAGATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
35 2 0.05
36 27 0.71
37 3 0.08
38 6 0.16
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (35 bp):
AATCTTCATATGATACAATCTTAGATATGATATGA
Found at i:3679148 original size:22 final size:20
Alignment explanation
Indices: 3679085--3679167 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 20
3679075 TATAATCTTC
3679085 AATGATATG--CAATCTTAG
1 AATGATATGATCAATCTTAG
3679103 ATATGATATGA--AATCTT--
1 A-ATGATATGATCAATCTTAG
3679120 --TGATATGATACAATCTTAG
1 AATGATATGAT-CAATCTTAG
3679139 ATATGATATG--CAATCTTAG
1 A-ATGATATGATCAATCTTAG
3679158 AA-GATATGAT
1 AATGATATGAT
3679168 TTTGTAATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 23
0.70 0.00 0.30
Matches are distributed among these distances:
14 8 0.15
17 12 0.23
18 2 0.04
19 24 0.45
22 7 0.13
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (20 bp):
AATGATATGATCAATCTTAG
Found at i:3679165 original size:17 final size:19
Alignment explanation
Indices: 3679086--3679158 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
3679076 ATAATCTTCA
3679086 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
3679105 ATGATATGAAATCTTTGAT
1 ATGATATGCAATCTTAGAT
3679124 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3679141 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
3679159 AGATATGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.31
19 33 0.69
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:3679471 original size:19 final size:17
Alignment explanation
Indices: 3679447--3679482 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
3679437 TGTATCCCGG
3679447 ATTTTTTATATATATTTTA
1 ATTTTTTA-ATA-ATTTTA
3679466 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
3679483 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:3682297 original size:15 final size:16
Alignment explanation
Indices: 3682256--3682290 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3682246 GTATATTTAC
*
3682256 TTATTATATAAGTATA
1 TTATTAAATAAGTATA
3682272 TTATTAAATAA-TATA
1 TTATTAAATAAGTATA
3682287 TTAT
1 TTAT
3682291 ATAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTATTAAATAAGTATA
Found at i:3682405 original size:2 final size:2
Alignment explanation
Indices: 3682398--3682437 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3682388 ATTAAGTTAT
3682398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3682438 ATGGTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3683161 original size:2 final size:2
Alignment explanation
Indices: 3683154--3683186 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3683144 TTATTATTTA
3683154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3683187 GTAGGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3683596 original size:6 final size:6
Alignment explanation
Indices: 3683585--3683611 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3683575 ATGTGCCGAC
3683585 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
3683612 CGATTCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:3683883 original size:18 final size:19
Alignment explanation
Indices: 3683843--3683908 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 19
3683833 AGATCGACTA
3683843 TTACTGAATAATTTAATTG
1 TTACTGAATAATTTAATTG
* * *
3683862 TTACTGTAT-ATTTGATTT
1 TTACTGAATAATTTAATTG
*
3683880 TTACTGAATAA-TTAACTG
1 TTACTGAATAATTTAATTG
3683898 TTACTGAATAA
1 TTACTGAATAA
3683909 CCGATCAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 30 0.77
19 9 0.23
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (19 bp):
TTACTGAATAATTTAATTG
Found at i:3685820 original size:36 final size:36
Alignment explanation
Indices: 3685780--3685852 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3685770 TATTGAGTGA
3685780 ATGAATTTAACTCAAAGGAATCAATGATATCATATG
1 ATGAATTTAACTCAAAGGAATCAATGATATCATATG
3685816 ATGAATTTAACTCAAAGGAATCAATGATATCATATG
1 ATGAATTTAACTCAAAGGAATCAATGATATCATATG
3685852 A
1 A
3685853 GGGTAACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (36 bp):
ATGAATTTAACTCAAAGGAATCAATGATATCATATG
Found at i:3686716 original size:26 final size:26
Alignment explanation
Indices: 3686680--3686815 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
3686670 TGATACAAAT
3686680 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3686706 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3686732 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3686758 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3686784 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
3686810 TGATAA
1 TGATAA
3686816 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:3688847 original size:138 final size:137
Alignment explanation
Indices: 3688599--3688886 Score: 522
Period size: 138 Copynumber: 2.1 Consensus size: 137
3688589 GAGTAGTCTC
3688599 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
3688664 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-AAAAGGGCTCTGGCCCAGTAC
3688729 CACTGTTA
130 CACTGTTA
*
3688737 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATGC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
3688802 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
3688867 ACTGTTA
131 ACTGTTA
**
3688874 CCTGAATGGGCTT
1 CCCAAATGGGCTT
3688887 AGGCCCAATA
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
137 38 0.26
138 107 0.74
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:3701219 original size:16 final size:17
Alignment explanation
Indices: 3701188--3701220 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3701178 TTCATAAGTA
3701188 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
3701205 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
3701221 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:3701566 original size:46 final size:45
Alignment explanation
Indices: 3701501--3701960 Score: 479
Period size: 46 Copynumber: 9.9 Consensus size: 45
3701491 TTATCTTTGA
* * * * ** *
3701501 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
* *** *
3701547 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
* ** * ** * **
3701593 TACATTGCCATGGTATTTTTCAACCATGGTCTTATTCATTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
* *
3701638 CATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
*
3701684 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
* * *
3701730 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACATATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
* *
3701776 CCTGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
* *
3701822 CATGTTGCCATGGTGTCTTTCAACCATTGTCTTATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAA-C-----C--ATGGTCTTACACA-TTTCTAT
* *
3701876 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
3701922 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
3701961 ATCATTTCAG
Statistics
Matches: 353, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
45 46 0.13
46 260 0.74
47 4 0.01
48 1 0.00
52 1 0.00
53 1 0.00
54 37 0.10
55 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
Found at i:3701771 original size:92 final size:92
Alignment explanation
Indices: 3701506--3701960 Score: 547
Period size: 92 Copynumber: 4.9 Consensus size: 92
3701496 TTTGACATGA
* * * ** * *
3701506 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
*** * * * *
3701570 CCATGGTCTTGTTCATTTCATGTTAC-AT
65 CCATGGTCTTACACATTTTAT-ATCCTGT
* ** *** *
3701598 TGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
3701662 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
3701689 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* *
3701754 CATAGTCTTACATATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
* *
3701781 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAA-
*
3701846 CATTGTCTTATGGTCTTACACATTTTATATCATGT
65 C-----C--ATGGTCTTACACATTTTATATCCTGT
* *
3701881 TGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
3701946 CATGGTCTTACACAT
66 CATGGTCTTACACAT
3701961 ATCATTTCAG
Statistics
Matches: 318, Mismatches: 34, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
90 5 0.02
91 71 0.22
92 155 0.49
93 1 0.00
94 1 0.00
98 1 0.00
99 1 0.00
100 83 0.26
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCCTGT
Found at i:3701910 original size:192 final size:184
Alignment explanation
Indices: 3701501--3701965 Score: 555
Period size: 192 Copynumber: 2.5 Consensus size: 184
3701491 TTATCTTTGA
* * ** * *
3701501 CATGATGCCAT-AGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCAGGTTGCCATGGTATC
1 CATGTTGCCATGA-TGTCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATC
** * * * *
3701564 TTTCAACCATGGTCTT-GTTCATTTCATGTTACATTGCCATGGTATTTTTCAACCATGGTCTTAT
64 TTTCAACCATGGTCTTACATCATTTCATGATACATTGCCATGGTATCTTTCAACCACGGTCTTAC
* * *
3701628 TCATTCCCGTCATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
129 ACATTCACATCATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
* * *
3701684 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
* * * *
3701749 TCAACCATAGTCTTACAT-ATTTTAT-ATCCTGTTGCCATGGTATCTTTCAACCACGGTCTTACA
66 TCAACCATGGTCTTACATCATTTCATGATAC-ATTGCCATGGTATCTTTCAACCACGGTCTTACA
* *
3701812 CATTTCATATCATGTTGCCATGGTGTCTTTCAACCATTGTCTTATGGTCTTACACATTTTATAT
130 CA-TTCACATCATGTTGCCATGGTATCTTTC-A--A---TC--ATGGTCTTACACATTTTATAT
3701876 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
*
3701941 TCAACCATGGTCTTACA-CATATCAT
66 TCAACCATGGTCTTACATCATTTCAT
3701966 TTCAGAAAGC
Statistics
Matches: 238, Mismatches: 30, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
182 6 0.03
183 99 0.42
184 25 0.11
185 1 0.00
187 1 0.00
190 2 0.01
192 104 0.44
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (184 bp):
CATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTACATCATTTCATGATACATTGCCATGGTATCTTTCAACCACGGTCTTACAC
ATTCACATCATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
Found at i:3701931 original size:100 final size:100
Alignment explanation
Indices: 3701758--3701955 Score: 333
Period size: 100 Copynumber: 2.0 Consensus size: 100
3701748 TTCAACCATA
* * *
3701758 GTCTTACATATTTTATATCCTGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATC
1 GTCTTACACATTTTATATCATGTTGCCATGATATCTTTCAACCACGGTCTTACACATTTCATATC
* *
3701823 ATGTTGCCATGGTGTCTTTCAACCATTGTCTTATG
66 ATGTTGCCATGGTATCTTTCAACCATGGTCTTATG
* *
3701858 GTCTTACACATTTTATATCATGTTGCCATGATGTCTTTCAACCATGGTCTTACACATTTCATATC
1 GTCTTACACATTTTATATCATGTTGCCATGATATCTTTCAACCACGGTCTTACACATTTCATATC
3701923 ATGTTGCCATGGTATCTTTCAACCATGGTCTTA
66 ATGTTGCCATGGTATCTTTCAACCATGGTCTTA
3701956 CACATATCAT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (100 bp):
GTCTTACACATTTTATATCATGTTGCCATGATATCTTTCAACCACGGTCTTACACATTTCATATC
ATGTTGCCATGGTATCTTTCAACCATGGTCTTATG
Found at i:3704331 original size:30 final size:29
Alignment explanation
Indices: 3704297--3704364 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
3704287 CACGCTTAAA
* * *
3704297 ATATTTTCACTATTAGTCCTTCAAATTTTT
1 ATATTTACA-TATTAATCCCTCAAATTTTT
* *
3704327 ATATTTACATTTTAATCCCTCAAATTTTG
1 ATATTTACATATTAATCCCTCAAATTTTT
3704356 AGTATTTAC
1 A-TATTTAC
3704365 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.50
Consensus pattern (29 bp):
ATATTTACATATTAATCCCTCAAATTTTT
Found at i:3704751 original size:39 final size:39
Alignment explanation
Indices: 3704692--3704792 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
3704682 GCTCTGATGA
* *
3704692 GCTTCAGTTAACCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
3704731 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGTACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
3704770 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
3704793 AAATCATGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:3705835 original size:18 final size:18
Alignment explanation
Indices: 3705812--3705846 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3705802 TAGTAACAAA
*
3705812 AGTAAATAAAAGAAACAG
1 AGTAAAGAAAAGAAACAG
3705830 AGTAAAGAAAAGAAACA
1 AGTAAAGAAAAGAAACA
3705847 AAAAGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.09
Consensus pattern (18 bp):
AGTAAAGAAAAGAAACAG
Found at i:3705858 original size:27 final size:30
Alignment explanation
Indices: 3705819--3705873 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
3705809 AAAAGTAAAT
*
3705819 AAAAGAAACAGAGTAAAGA-AA-AGAAACA
1 AAAAGAAACAGAGAAAAGAGAACAGAAACA
*
3705847 AAAAG-AATAGAGAAAAGAGAACAGAAA
1 AAAAGAAACAGAGAAAAGAGAACAGAAA
3705874 GCATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.04
Consensus pattern (30 bp):
AAAAGAAACAGAGAAAAGAGAACAGAAACA
Found at i:3707427 original size:23 final size:21
Alignment explanation
Indices: 3707396--3707483 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
3707386 GGCTTTATCG
* *
3707396 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
3707417 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
3707440 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
3707461 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
3707482 AT
1 AT
3707484 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
21 41 0.69
23 18 0.31
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:3707444 original size:21 final size:21
Alignment explanation
Indices: 3707409--3707483 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
3707399 AGGCACTTTA
3707409 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
3707432 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
3707453 TGTGTCGTATCAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
3707474 TGTGTCGTAT
1 TGTGTCGTAT
3707484 ACTGATCAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 40 0.82
23 9 0.18
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:3708639 original size:13 final size:14
Alignment explanation
Indices: 3708616--3708649 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3708606 AGTTTTTTTT
*
3708616 AAATAATAATAATA
1 AAATAATAATAAAA
3708630 AAATAA-AATAAAA
1 AAATAATAATAAAA
3708643 AAATAAT
1 AAATAAT
3708650 TCTAGAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAATAAAA
Found at i:3709116 original size:45 final size:45
Alignment explanation
Indices: 3709065--3709153 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
3709055 GACAAGTAGT
3709065 GATGTTCCAATTTCCTTGATACGAGAACAAGAACTTAGAAACATA
1 GATGTTCCAATTTCCTTGATACGAGAACAAGAACTTAGAAACATA
3709110 GATGTTCCAATTTCCTTGATACGAGAACAAGAACTTAGAAACAT
1 GATGTTCCAATTTCCTTGATACGAGAACAAGAACTTAGAAACAT
3709154 GGTTATTGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (45 bp):
GATGTTCCAATTTCCTTGATACGAGAACAAGAACTTAGAAACATA
Found at i:3727352 original size:6 final size:6
Alignment explanation
Indices: 3727343--3727408 Score: 98
Period size: 6 Copynumber: 11.0 Consensus size: 6
3727333 GATGATGATG
* *
3727343 TTTAAT TTTA-T TTTATT TTTATT TTTATT TTTATT TTCATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
3727390 TTTATT TTATATT TTTATT
1 TTTATT TT-TATT TTTATT
3727409 AGTTTCACAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.09
6 45 0.80
7 6 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:3728988 original size:112 final size:112
Alignment explanation
Indices: 3728791--3729017 Score: 445
Period size: 112 Copynumber: 2.0 Consensus size: 112
3728781 GAGTGCTTCA
3728791 TTTATTGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTAAGGATGTGAAACTCTATGA
1 TTTATTGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTAAGGATGTGAAACTCTATGA
3728856 CATTTTGAATCAAAGGTAATTACTTAAACAAGGGGAGACACCTATGT
66 CATTTTGAATCAAAGGTAATTACTTAAACAAGGGGAGACACCTATGT
*
3728903 TTTATTGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTAAGGATGTGAAACTCTGTGA
1 TTTATTGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTAAGGATGTGAAACTCTATGA
3728968 CATTTTGAATCAAAGGTAATTACTTAAACAAGGGGAGACACCTATGT
66 CATTTTGAATCAAAGGTAATTACTTAAACAAGGGGAGACACCTATGT
3729015 TTT
1 TTT
3729018 CTTGATAAAA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (112 bp):
TTTATTGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTAAGGATGTGAAACTCTATGA
CATTTTGAATCAAAGGTAATTACTTAAACAAGGGGAGACACCTATGT
Found at i:3733425 original size:14 final size:14
Alignment explanation
Indices: 3733406--3733432 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3733396 TATCAAAACG
3733406 ATAATTAAGAACAC
1 ATAATTAAGAACAC
3733420 ATAATTAAGAACA
1 ATAATTAAGAACA
3733433 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:3736477 original size:39 final size:39
Alignment explanation
Indices: 3736418--3736518 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
3736408 AGCTCGATGA
*
3736418 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
3736457 GCTTTAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
3736496 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
3736519 AAATCACGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:3736500 original size:21 final size:20
Alignment explanation
Indices: 3736436--3736500 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
3736426 TAGCCTTCGG
*
3736436 GCTTCCGTTTAGCACTTGTGT
1 GCTTCTGTTTAGCACTT-TGT
* *
3736457 GCTT-TAG-TTAGC-CTTCGG
1 GCTTCT-GTTTAGCACTTTGT
3736475 GCTTCTGTTTAGCACTTATGT
1 GCTTCTGTTTAGCACTT-TGT
3736496 GCTTC
1 GCTTC
3736501 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 8 0.24
21 11 0.32
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (20 bp):
GCTTCTGTTTAGCACTTTGT
Found at i:3739726 original size:26 final size:26
Alignment explanation
Indices: 3739697--3739806 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
3739687 TGATACAAAT
3739697 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
3739723 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3739749 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3739775 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3739801 AGATAA
1 TGATAA
3739807 GAATATCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:3743408 original size:14 final size:14
Alignment explanation
Indices: 3743389--3743428 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3743379 CTAAAAGCTT
3743389 TGTATGCAGATGTA
1 TGTATGCAGATGTA
* *
3743403 TGTATGCAAACGTA
1 TGTATGCAGATGTA
*
3743417 TGTATGCGGATG
1 TGTATGCAGATG
3743429 CCCTAACTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (14 bp):
TGTATGCAGATGTA
Found at i:3744484 original size:19 final size:17
Alignment explanation
Indices: 3744454--3744496 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
3744444 AAAAAACAGA
3744454 AAAAACAAAATAAAAAC
1 AAAAACAAAATAAAAAC
*
3744471 AAAAACATATAATAATAAC
1 AAAAACA-A-AATAAAAAC
3744490 AATAAAC
1 AA-AAAC
3744497 CCATAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 10 0.45
20 4 0.18
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAACAAAATAAAAAC
Found at i:3749095 original size:26 final size:26
Alignment explanation
Indices: 3749056--3749165 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
3749046 TGATACAAAT
3749056 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
3749082 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3749108 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3749134 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3749160 TGATAA
1 TGATAA
3749166 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3754835 original size:26 final size:26
Alignment explanation
Indices: 3754796--3754904 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
3754786 TGATACAAAT
3754796 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
3754822 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
3754848 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3754873 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3754899 TGATAA
1 TGATAA
3754905 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 23 0.29
26 56 0.71
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3754861 original size:51 final size:52
Alignment explanation
Indices: 3754796--3754904 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
3754786 TGATACAAAT
3754796 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATGTTCCA
* * * *
3754848 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATGTTCCA
3754899 TGATAA
1 TGATAA
3754905 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATGTTCCA
Found at i:3756436 original size:26 final size:25
Alignment explanation
Indices: 3756384--3756436 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
3756374 TTTACAGTTT
3756384 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
3756410 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
3756436 T
1 T
3756437 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:3762918 original size:27 final size:27
Alignment explanation
Indices: 3762873--3762947 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
3762863 GGGTAATTTT
3762873 TTTTTAATATGAATATTAATATAAAAATA
1 TTTTTAAT-T-AATATTAATATAAAAATA
3762902 TTTTTAATTAATATTAATATAAAAATA
1 TTTTTAATTAATATTAATATAAAAATA
*
3762929 TTTTTAATTTAATTTTAAT
1 TTTTTAA-TTAATATTAAT
3762948 GAGGTGGTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 25 0.57
28 11 0.25
29 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (27 bp):
TTTTTAATTAATATTAATATAAAAATA
Found at i:3771105 original size:2 final size:2
Alignment explanation
Indices: 3771098--3771122 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3771088 CACCTATCTC
3771098 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3771123 ATACAAGTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3772094 original size:19 final size:19
Alignment explanation
Indices: 3772070--3772109 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3772060 CTTTTTATCT
3772070 TTGTATCATAATTAATTAA
1 TTGTATCATAATTAATTAA
3772089 TTGTATCATAATTAATTAA
1 TTGTATCATAATTAATTAA
3772108 TT
1 TT
3772110 ACGATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
TTGTATCATAATTAATTAA
Found at i:3774819 original size:24 final size:24
Alignment explanation
Indices: 3774774--3774824 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
3774764 TTTGGAATTT
*
3774774 AATTTATGTATTTTTCTTTTTATA
1 AATTTATGTATTTTTATTTTTATA
* *
3774798 AATTTAT-TTTTTTTATTGTT-TA
1 AATTTATGTATTTTTATTTTTATA
3774820 AATTT
1 AATTT
3774825 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 10 0.42
24 7 0.29
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (24 bp):
AATTTATGTATTTTTATTTTTATA
Found at i:3775424 original size:21 final size:24
Alignment explanation
Indices: 3775400--3775448 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 24
3775390 AATTTTCTTG
*
3775400 TTTTATT-TTAAAA-TTTAATT-A
1 TTTTATTATGAAAATTTTAATTAA
3775421 TTTT-TTATGAAAATTTTAATTAA
1 TTTTATTATGAAAATTTTAATTAA
3775444 TTTTA
1 TTTTA
3775449 AACATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 9 0.39
22 7 0.30
23 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTATTATGAAAATTTTAATTAA
Found at i:3782891 original size:93 final size:93
Alignment explanation
Indices: 3782784--3782954 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
3782774 GCCCATAAGT
* *
3782784 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
3782849 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
3782877 GAACTCGGACTCAACTCAACGAGTTCGGACATTGGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
3782942 CGAGTTCGGATGC
66 CGAGTTCGGATGC
3782955 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:3782951 original size:46 final size:45
Alignment explanation
Indices: 3782776--3782951 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
3782766 TGTAACCCGC
* * *
3782776 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
* *
3782822 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
* *
3782872 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
3782915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
3782952 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Found at i:3783410 original size:30 final size:30
Alignment explanation
Indices: 3783376--3783435 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3783366 ATTTAATACG
3783376 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
3783406 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
3783436 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:3785514 original size:30 final size:29
Alignment explanation
Indices: 3785478--3785536 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
3785468 AAATAGAAGT
3785478 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
3785508 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
3785537 ATCGGCTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:3792895 original size:30 final size:29
Alignment explanation
Indices: 3792859--3792926 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
3792849 AAACGGAAGT
*
3792859 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTT-AACTAGC
3792889 TTTGGCACTAAGTGTGAGATTTAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAACTAGC
*
3792918 TTCGGCACT
1 TTTGGCACT
3792927 TGAGGCACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGAGATTTAACTAGC
Found at i:3796087 original size:20 final size:20
Alignment explanation
Indices: 3796036--3796089 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
3796026 GACATTGAAC
* * *
3796036 TTAAATAACTTATATTTATT
1 TTAAATAATTTAAATATATT
*
3796056 TTATAA-ATTTTAAATATATT
1 TTA-AATAATTTAAATATATT
3796076 TTAAATAATTTAAA
1 TTAAATAATTTAAA
3796090 AAATATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAATAATTTAAATATATT
Found at i:3796095 original size:21 final size:20
Alignment explanation
Indices: 3796052--3796096 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
3796042 AACTTATATT
* * *
3796052 TATTTTATAAATTTTAAATA
1 TATTTTAAAAATTTAAAAAA
3796072 TATTTTAAATAATTTAAAAAA
1 TATTTTAAA-AATTTAAAAAA
3796093 TATT
1 TATT
3796097 AAATTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTAAAAATTTAAAAAA
Found at i:3796912 original size:21 final size:20
Alignment explanation
Indices: 3796865--3796918 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3796855 ACCACTTCGT
* *
3796865 AATAAAATAATAACATAAATA
1 AATAAAAT-ATAACAGAAACA
*
3796886 ATTAAAATATAATCAGAAACA
1 AATAAAATATAA-CAGAAACA
3796907 AATAAAA-ATAAC
1 AATAAAATATAAC
3796919 TATTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 19 0.68
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (20 bp):
AATAAAATATAACAGAAACA
Found at i:3799651 original size:19 final size:18
Alignment explanation
Indices: 3799619--3799654 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3799609 ATTTGCAATA
3799619 ATATTTTTTAATTTTTAT
1 ATATTTTTTAATTTTTAT
*
3799637 ATATTATTTTTATTTTTA
1 ATATT-TTTTAATTTTTA
3799655 AAATTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATATTTTTTAATTTTTAT
Found at i:3799832 original size:21 final size:22
Alignment explanation
Indices: 3799806--3799846 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3799796 GGCCATGTGG
*
3799806 TCGCTCAAC-ATTGGTCAACCC
1 TCGCTCAACGACTGGTCAACCC
3799827 TCGCTCAACGACTGGTCAAC
1 TCGCTCAACGACTGGTCAAC
3799847 AATCGGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (22 bp):
TCGCTCAACGACTGGTCAACCC
Found at i:3799883 original size:8 final size:8
Alignment explanation
Indices: 3799870--3799902 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
3799860 GAAATGTTTT
3799870 TTTAAATA
1 TTTAAATA
3799878 TTTAAATA
1 TTTAAATA
3799886 TTTAAATA
1 TTTAAATA
3799894 TTT-AATA
1 TTTAAATA
3799901 TT
1 TT
3799903 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTTAAATA
Found at i:3800467 original size:40 final size:40
Alignment explanation
Indices: 3800410--3800486 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
3800400 TTGATAATGG
*
3800410 GTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATT
1 GTTAGGTAAATGATTCATGACAATGGATTAGGTAAATATT
* *
3800450 GTTAGGTAAATGATTCATGATAATGGTTTAGGTAAAT
1 GTTAGGTAAATGATTCATGACAATGGATTAGGTAAAT
3800487 GTTCCATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (40 bp):
GTTAGGTAAATGATTCATGACAATGGATTAGGTAAATATT
Found at i:3807436 original size:39 final size:40
Alignment explanation
Indices: 3807366--3807441 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
3807356 TTGATAATGG
3807366 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
*
3807406 GTTAGGTAAATGTT-CATGATAATGGTTTAGGTAAAT
1 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT
3807442 GTTCCATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 21 0.60
40 14 0.40
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
Found at i:3813668 original size:74 final size:73
Alignment explanation
Indices: 3813428--3813795 Score: 526
Period size: 73 Copynumber: 5.0 Consensus size: 73
3813418 CTTTTCAAGG
* * * * *
3813428 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
*
3813492 TTTTTTTC-
65 TGTTTTTCA
* *
3813500 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
3813565 GTTTGTCA
66 GTTTTTCA
* *
3813573 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
3813638 TGTTTTTCA
65 TGTTTTTCA
* *
3813647 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
3813712 GTTTGTCA
66 GTTTTTCA
* *
3813720 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
3813784 TCTGTTTTTCA
63 TCTGTTTTTCA
3813795 A
1 A
3813796 TTTCTGTTCG
Statistics
Matches: 266, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
71 3 0.01
72 60 0.23
73 105 0.39
74 68 0.26
75 30 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTCA
Found at i:3813693 original size:147 final size:146
Alignment explanation
Indices: 3813428--3813795 Score: 571
Period size: 147 Copynumber: 2.5 Consensus size: 146
3813418 CTTTTCAAGG
* * * * *
3813428 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTACTTTTAATTTCT
* * *
3813493 TTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
3813557 CAATTTCTGTTTGTCA
131 CAATTTCTGTTTGTCA
* *
3813573 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTACTTTT-AATTTC
3813638 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
65 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
3813703 TCAATTTCTGTTTGTCA
130 TCAATTTCTGTTTGTCA
*
3813720 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT-CTTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTACTTTT-AAT
3813783 TTCTGTTTTTCAA
62 TTCTGTTTTTCAA
3813796 TTTCTGTTCG
Statistics
Matches: 204, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
145 52 0.25
146 14 0.07
147 107 0.52
148 20 0.10
149 11 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (146 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTACTTTTAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTGTTTGTCA
Found at i:3813794 original size:14 final size:14
Alignment explanation
Indices: 3813775--3813803 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3813765 TGCTGAGGTC
3813775 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3813789 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3813803 T
1 T
3813804 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3813913 original size:74 final size:72
Alignment explanation
Indices: 3813812--3814035 Score: 322
Period size: 74 Copynumber: 3.0 Consensus size: 72
3813802 TTCGTAAAAA
*
3813812 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
*
3813877 TTGTTTTTC
64 CTGTTTTTC
* *
3813886 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
*
3813951 TGTTTGTC
65 TGTTTTTC
* * *
3813959 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
3814024 TCTGTTTTTC
63 TCTGTTTTTC
3814034 AA
1 AA
3814036 TTTCTGTTCG
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
72 2 0.01
73 51 0.38
74 52 0.39
75 30 0.22
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTC
Found at i:3813983 original size:73 final size:73
Alignment explanation
Indices: 3813812--3814035 Score: 331
Period size: 73 Copynumber: 3.0 Consensus size: 73
3813802 TTCGTAAAAA
* *
3813812 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTT
*
3813877 TTGTTTTTC
65 CTGTTTTTC
* *
3813886 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
*
3813951 TGTTTGTC
66 TGTTTTTC
* * * *
3813959 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
3814024 TCTGTTTTTC
64 TCTGTTTTTC
3814034 AA
1 AA
3814036 TTTCTGTTCG
Statistics
Matches: 135, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 53 0.39
74 52 0.39
75 30 0.22
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:3814034 original size:14 final size:14
Alignment explanation
Indices: 3814015--3814043 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3814005 TGCTGAGGTC
3814015 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3814029 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3814043 T
1 T
3814044 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3814078 original size:168 final size:167
Alignment explanation
Indices: 3813886--3814202 Score: 492
Period size: 169 Copynumber: 1.9 Consensus size: 167
3813876 TTTGTTTTTC
* *
3813886 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* * * *
3813950 CTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC
66 CTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
* *
3814015 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAA
129 ATTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAAA
* *
3814054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* *
3814119 CTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
*
3814184 TTCAATTTTTGTTTGTCAA
131 TTCAATTTCTGTTTGTCAA
3814203 AAATCAACTC
Statistics
Matches: 135, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
167 29 0.21
168 52 0.39
169 54 0.40
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (167 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
CTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAAA
Found at i:3814182 original size:242 final size:240
Alignment explanation
Indices: 3813572--3814517 Score: 1263
Period size: 240 Copynumber: 3.9 Consensus size: 240
3813562 TCTGTTTGTC
*
3813572 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
**
3813637 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
3813702 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
3813767 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
196 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
3813812 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
* *
3813877 TTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
3813942 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
3814007 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAA
196 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGT--AAAAA
3814054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
*
3814119 CTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
* * *
3814184 TTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACG
131 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
* *
3814247 CTGAGG-----T-AA--------TTTCAATTTCTGTTTGT----C
196 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
* * *
3814274 AAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGG-----T--A-
* *
3814338 TTTTGTTCTTCAATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
55 ---T-TT-TTAAATTTCTGTTTTT----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * * *
3814403 TCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGG
111 TCGGGACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGG
* * * *
3814468 TGAGTTGAGCCTCGG--GACACGCTGAGGTCATTTCAATTTCTGTTTGTCAA
173 TGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTTTTCAA
3814518 AAATTAACTC
Statistics
Matches: 638, Mismatches: 29, Indels: 62
0.88 0.04 0.09
Matches are distributed among these distances:
219 2 0.00
220 36 0.06
222 10 0.02
226 16 0.03
227 1 0.00
229 1 0.00
233 1 0.00
234 4 0.01
235 15 0.02
239 53 0.08
240 254 0.40
242 237 0.37
247 1 0.00
248 2 0.00
256 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (240 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
Found at i:3814225 original size:315 final size:314
Alignment explanation
Indices: 3813811--3814555 Score: 1294
Period size: 315 Copynumber: 2.4 Consensus size: 314
3813801 GTTCGTAAAA
* * *
3813811 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATT
* *
3813876 TTTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
65 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
*
3813941 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
130 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACAT
*
3814006 GCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAAAAATCAACTCATATT
195 GCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTT--TAAAAAAAAAAAATCAACTCATATT
3814071 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTC
258 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTC
3814128 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
3814192 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
3814257 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATG
* **
3814322 CTGAGGTCTTTTCAATTTTTGTTCTTCAATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCG
196 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTAAAAAAAAAAAATCAACTCATATTGCG
*
3814387 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
261 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTC
* * *
3814441 AAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTCATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* * *
3814506 TCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
65 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
3814556 CTCACATGCT
Statistics
Matches: 409, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
313 79 0.19
315 277 0.68
316 53 0.13
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (314 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATG
CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTAAAAAAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTATTTTTC
Found at i:3814233 original size:73 final size:73
Alignment explanation
Indices: 3814054--3814313 Score: 439
Period size: 73 Copynumber: 3.5 Consensus size: 73
3814044 CGTAAAAAAA
* * *
3814054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
* *
3814119 CTATTTTTC
65 CTGTTTGTC
*
3814128 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
3814193 TGTTTGTC
66 TGTTTGTC
3814201 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
3814266 TGTTTGTC
66 TGTTTGTC
* *
3814274 AAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
3814314 CTCACATGCT
Statistics
Matches: 177, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
73 124 0.70
74 53 0.30
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:3814477 original size:76 final size:74
Alignment explanation
Indices: 3814349--3814588 Score: 288
Period size: 76 Copynumber: 3.2 Consensus size: 74
3814339 TTTGTTCTTC
*
3814349 AATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 AATTTCTGTTTTT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
3814414 TGAGGTATTTTT
63 TGAGGTATTTTT
* *
3814426 AAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCT
1 -AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT
*
3814491 GAGGTCA-TTTC
64 GAGGT-ATTTTT
* * * *
3814502 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGC
*
3814565 TGAGGTCTTTTT
63 TGAGGTATTTTT
*
3814577 AATTTCTCTTTT
1 AATTTCTGTTTT
3814589 CAATTTCTGT
Statistics
Matches: 142, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
72 2 0.01
73 34 0.24
75 37 0.26
76 55 0.39
77 1 0.01
78 13 0.09
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGA
GGTATTTTT
Found at i:3814557 original size:242 final size:238
Alignment explanation
Indices: 3814128--3814602 Score: 797
Period size: 242 Copynumber: 2.0 Consensus size: 238
3814118 TCTATTTTTC
* * *
3814128 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
* *
3814193 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTGTCAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
3814258 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGC
* *
3814323 TGAGGTCTTTTCAATTTTTGTTCTTCAATTTCTGTTTTTAAAAA
196 TGAGGTCTTTTCAATTTCTCTT-TTCAATTTCTGTTTTTAAAAA
*
3814367 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTAAATTT
* *
3814432 CTGTTTTTCAAAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTC
65 CTGTTTGTC--AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
* *
3814497 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACA
128 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACA
*
3814562 TGCTGAGGTCTTTTTAATTTCTCTTTTCAATTTCTGTTTTT
193 TGCTGAGGTCTTTTCAATTTCTCTTTTCAATTTCTGTTTTT
3814603 TCAATTTATA
Statistics
Matches: 220, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
239 53 0.24
240 15 0.07
241 16 0.07
242 136 0.62
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (238 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
TGTTTGTCAAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGC
TGAGGTCTTTTCAATTTCTCTTTTCAATTTCTGTTTTTAAAAA
Found at i:3815404 original size:30 final size:30
Alignment explanation
Indices: 3815368--3815541 Score: 278
Period size: 30 Copynumber: 5.8 Consensus size: 30
3815358 ACTTTTCTCA
* *
3815368 ACTAGCCACTCCTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3815398 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3815428 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3815457 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3815487 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3815517 ACTAGCCACACCTTCTCCACTACCA
1 ACTAGCCACACCTTTTCCACCACCA
3815542 CTTGTACCTA
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
29 28 0.21
30 105 0.79
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3815448 original size:59 final size:59
Alignment explanation
Indices: 3815368--3815541 Score: 303
Period size: 59 Copynumber: 2.9 Consensus size: 59
3815358 ACTTTTCTCA
*
3815368 ACTAGCCACTCCTTTTCCACCACCAACTCTACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
3815428 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* *
3815487 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACTACCA
1 ACTAGCCACTC-TTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
3815542 CTTGTACCTA
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
59 59 0.54
60 51 0.46
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (59 bp):
ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3816160 original size:25 final size:25
Alignment explanation
Indices: 3816112--3816170 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
3816102 ATTACGTATA
* *
3816112 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
3816137 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
3816162 TATATATAT
1 TATATATAT
3816171 ATATATTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:3816241 original size:25 final size:25
Alignment explanation
Indices: 3816208--3816256 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3816198 ATATATCTTA
**
3816208 ACTACATTATGTATGTATTTTTAAC
1 ACTACATTATGTACATATTTTTAAC
*
3816233 ACTATATTATGTACATATTTTTAA
1 ACTACATTATGTACATATTTTTAA
3816257 TATTATCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (25 bp):
ACTACATTATGTACATATTTTTAAC
Found at i:3816437 original size:16 final size:15
Alignment explanation
Indices: 3816413--3816460 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3816403 TAATTATTAT
*
3816413 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3816429 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3816444 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3816460 T
1 T
3816461 TATTCACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3816448 original size:7 final size:8
Alignment explanation
Indices: 3816413--3816464 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3816403 TAATTATTAT
*
3816413 TATTCTAA
1 TATTTTAA
*
3816421 TATTTTGA
1 TATTTTAA
3816429 TATTTTAA
1 TATTTTAA
3816437 TATTTT-A
1 TATTTTAA
3816444 TATTTTATA
1 TATTTTA-A
*
3816453 TATTTTAT
1 TATTTTAA
3816461 TATT
1 TATT
3816465 CACATTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3821133 original size:40 final size:40
Alignment explanation
Indices: 3821082--3821206 Score: 191
Period size: 39 Copynumber: 3.1 Consensus size: 40
3821072 GCAAAAATTG
***
3821082 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
3821123 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
3821163 T-AAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
3821202 TAAAA
1 TAAAA
3821207 GTCATATAAC
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
39 39 0.49
40 31 0.39
41 9 0.11
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:3821298 original size:37 final size:37
Alignment explanation
Indices: 3821248--3821319 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
3821238 AAAAATCATG
* *
3821248 AACACTAATCTATAAC-TCTTAAAATACTAAACCCTTA
1 AACACTAAACTATAACTTC-TAAAACACTAAACCCTTA
*
3821285 AACACTAAACTATAACTTCTAAAACCCTAAACCCT
1 AACACTAAACTATAACTTCTAAAACACTAAACCCT
3821320 AAAAAATGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 29 0.94
38 2 0.06
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (37 bp):
AACACTAAACTATAACTTCTAAAACACTAAACCCTTA
Found at i:3821444 original size:7 final size:7
Alignment explanation
Indices: 3821432--3821495 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
3821422 TTTATTTTTT
*
3821432 GGTTTAC
1 GGTTTAA
3821439 GGTTTAA
1 GGTTTAA
**
3821446 TATTTAA
1 GGTTTAA
3821453 GGTTTAA
1 GGTTTAA
* *
3821460 GGTCTAT
1 GGTTTAA
*
3821467 GGTTTAG
1 GGTTTAA
*
3821474 GGTTTTAT
1 GG-TTTAA
3821482 GGTTTAA
1 GGTTTAA
3821489 GGTTTAA
1 GGTTTAA
3821496 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:3821484 original size:15 final size:15
Alignment explanation
Indices: 3821448--3821498 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
3821438 CGGTTTAATA
*
3821448 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
3821462 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
3821477 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
3821492 TTAATGG
1 TTTATGG
3821499 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:3822094 original size:7 final size:7
Alignment explanation
Indices: 3822084--3822108 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3822074 AAATAAACTC
3822084 AAAATTT
1 AAAATTT
3822091 AAAATTT
1 AAAATTT
3822098 AAAATTT
1 AAAATTT
3822105 AAAA
1 AAAA
3822109 ATAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:3822116 original size:15 final size:15
Alignment explanation
Indices: 3822084--3822140 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
3822074 AAATAAACTC
**
3822084 AAAATTT-AAAATTT
1 AAAATTTAAAAATAA
3822098 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
**
3822113 AAAATAAAAAAATAA
1 AAAATTTAAAAATAA
*
3822128 AAAACTTAAAAAT
1 AAAATTTAAAAAT
3822141 TTAATATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 7 0.20
15 28 0.80
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAATAA
Found at i:3822236 original size:18 final size:18
Alignment explanation
Indices: 3822213--3822254 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
3822203 ATTCCAAAAG
*
3822213 AAAAAAAAAAAAAATATGTT
1 AAAAATAAAAAAAA-AT-TT
3822233 AAAAATAAAAAAAAATTT
1 AAAAATAAAAAAAAATTT
3822251 AAAA
1 AAAA
3822255 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:3822424 original size:14 final size:15
Alignment explanation
Indices: 3822391--3822431 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3822381 ATTTAAAATT
3822391 TAATTTTAATCTCTA
1 TAATTTTAATCTCTA
*
3822406 T-ATTTTAAT-TTTA
1 TAATTTTAATCTCTA
*
3822419 TAATTTTATTCTC
1 TAATTTTAATCTC
3822432 CACTTTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATTTTAATCTCTA
Found at i:3822666 original size:3 final size:3
Alignment explanation
Indices: 3822658--3822688 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3822648 TAACATTTCG
3822658 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3822689 CCCTTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3827285 original size:22 final size:20
Alignment explanation
Indices: 3827219--3827274 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
3827209 CAAATTCAAA
*
3827219 AATTAAACATAATATAATATTT
1 AATTAAA-ATAA-ATATTATTT
*
3827241 AACATAGAAATAAATATTATTT
1 AA-TTA-AAATAAATATTATTT
3827263 AATTAAAATAAA
1 AATTAAAATAAA
3827275 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
AATTAAAATAAATATTATTT
Found at i:3827344 original size:42 final size:42
Alignment explanation
Indices: 3827297--3827517 Score: 259
Period size: 42 Copynumber: 5.3 Consensus size: 42
3827287 TATCATTATT
3827297 TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCATGGTC
* * *
3827339 TTTAGCGGCGTTTTTTTAAAAGCGCTGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCATGGTC
*** *
3827381 TTTAGCGGCGTTTTCGAAAAAAG-GTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTT-TTTAAAAGCGCCGCTAAAGGTCATGGTC
* *
3827423 TTTAGCGGCG-TTTTTTAAAAGCG-CGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCATGGTC
**** * *
3827463 TTTAGCGGCGTTTGCGAAAAAAGTGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTT-TTTTAAAAGCGCCGCTAAAGGTCATGGTC
*
3827506 TTTGGCGGCGTT
1 TTTAGCGGCGTT
3827518 GCATATAGCG
Statistics
Matches: 150, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.20
41 6 0.04
42 84 0.56
43 30 0.20
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:3827481 original size:82 final size:84
Alignment explanation
Indices: 3827314--3827517 Score: 340
Period size: 83 Copynumber: 2.4 Consensus size: 84
3827304 GCGTTTTTTT
*
3827314 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTTAAAAGCGCTGCTAAAAGTCCTGG
1 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCG-TTTTTTAAAAGCGCTGCTAAAAGTCCTGG
*
3827379 TCTTTAGCGGCGTTTTCGAA
65 TCTTTAGCGGCGTTTGCGAA
*
3827399 AAAAG-GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTAAAAGCGC-GCTAAAAGTCCTGGT
1 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTAAAAGCGCTGCTAAAAGTCCTGGT
3827462 CTTTAGCGGCGTTTGCGAA
66 CTTTAGCGGCGTTTGCGAA
* *
3827481 AAAAGTGCCGCTAAAGGTCATGCTCTTTGGCGGCGTT
1 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
3827518 GCATATAGCG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
82 38 0.34
83 42 0.37
84 28 0.25
85 5 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (84 bp):
AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTAAAAGCGCTGCTAAAAGTCCTGGT
CTTTAGCGGCGTTTGCGAA
Found at i:3827865 original size:54 final size:54
Alignment explanation
Indices: 3827806--3827920 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
3827796 AGCATGGCTG
*
3827806 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * * *
3827860 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
3827914 CCAGAAC
1 CCAGAAC
3827921 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:3827868 original size:27 final size:26
Alignment explanation
Indices: 3827806--3827920 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
3827796 AGCATGGCTG
* *
3827806 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
3827832 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
3827860 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
3827887 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
3827914 CCAGAAC
1 CCAGAAC
3827921 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.05
27 58 0.74
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:3829599 original size:26 final size:25
Alignment explanation
Indices: 3829530--3829637 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 25
3829520 CATGAAATTC
3829530 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
3829556 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
3829581 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
3829607 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
3829632 TTATCA
1 TTATCA
3829638 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 48 0.60
26 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:3829610 original size:51 final size:51
Alignment explanation
Indices: 3829530--3829637 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
3829520 CATGAAATTC
3829530 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
* * *
3829581 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
3829632 TTATCA
1 TTATCA
3829638 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
Found at i:3831313 original size:16 final size:16
Alignment explanation
Indices: 3831292--3831325 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3831282 ACTGGCGATA
3831292 ATCAATGCACATCCGC
1 ATCAATGCACATCCGC
3831308 ATCAATGCACATCCGC
1 ATCAATGCACATCCGC
3831324 AT
1 AT
3831326 TGTACCATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (16 bp):
ATCAATGCACATCCGC
Found at i:3833616 original size:27 final size:26
Alignment explanation
Indices: 3833579--3833693 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
3833569 AGCATGGCTG
* *
3833579 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
3833605 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
3833633 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
3833660 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
3833687 CCAGAAC
1 CCAGAAC
3833694 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:3833638 original size:54 final size:54
Alignment explanation
Indices: 3833579--3833693 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
3833569 AGCATGGCTG
*
3833579 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
3833633 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
3833687 CCAGAAC
1 CCAGAAC
3833694 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:3835402 original size:25 final size:26
Alignment explanation
Indices: 3835308--3835416 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3835298 CATGAAATTC
3835308 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3835334 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3835360 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
3835386 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3835411 TTATCA
1 TTATCA
3835417 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3838188 original size:64 final size:64
Alignment explanation
Indices: 3838115--3838324 Score: 153
Period size: 64 Copynumber: 3.2 Consensus size: 64
3838105 CTGGGCCAGA
*
3838115 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* ** * ** *
3838179 GCCCATTTCAAAATACATGCAACATCATAAACATATG-C-AAG-CCC--ATTTGGGTAACAGTGG
1 GCCCATTTC-AGAT---T---ACA--ATAAAC-TGGGCCTTAGCCCCTTATTCAGATAACA---G
* *
3838239 TACTGGGCCAGA-
53 TA-TGGCCCATAG
*
3838251 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
3838315 GCCCATTTCA
1 GCCCATTTCA
3838325 AAATACATGC
Statistics
Matches: 105, Mismatches: 21, Indels: 40
0.63 0.13 0.24
Matches are distributed among these distances:
62 2 0.02
63 14 0.13
64 22 0.21
65 9 0.09
67 9 0.09
68 2 0.02
69 9 0.09
71 9 0.09
72 13 0.12
73 14 0.13
74 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:3838325 original size:136 final size:137
Alignment explanation
Indices: 3838081--3838366 Score: 547
Period size: 136 Copynumber: 2.1 Consensus size: 137
3838071 TATTGGGCCT
**
3838081 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3838146 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCA-TAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
3838210 CATATGC
131 CATATGC
3838217 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3838282 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
3838347 CATATGC
131 CATATGC
3838354 AAGCCCATTTGGG
1 AAGCCCATTTGGG
3838367 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 123 0.84
137 24 0.16
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:3840174 original size:26 final size:26
Alignment explanation
Indices: 3840136--3840219 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
3840126 CATGAAATTC
*
3840136 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
3840162 TTATCATGGAACATTTACCCAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
3840188 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
3840214 TTATCA
1 TTATCA
3840220 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:3840951 original size:27 final size:26
Alignment explanation
Indices: 3840841--3840973 Score: 90
Period size: 27 Copynumber: 5.0 Consensus size: 26
3840831 TATAAAAAAC
* * * *
3840841 TTAAAATAGATAATACATATATAATGGT
1 TTAAAATAAATAATATAT-TAAAAT-AT
** *
3840869 TTAAAATAAATAACGTATAAAAATAT
1 TTAAAATAAATAATATATTAAAATAT
* * * *
3840895 TTCAAAATAAGTAATAT-TTATAGTAG
1 TT-AAAATAAATAATATATTAAAATAT
3840921 TTAAAATAAATAATATATGTAAAATAT
1 TTAAAATAAATAATATAT-TAAAATAT
**
3840948 TTAAAATTTATAATA-ATTTAAAATAT
1 TTAAAATAAATAATATA-TTAAAATAT
3840974 ATAAGACGTA
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
25 13 0.16
26 20 0.25
27 34 0.42
28 14 0.17
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (26 bp):
TTAAAATAAATAATATATTAAAATAT
Done.