Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 41
Found at i:8727461 original size:43 final size:43
Alignment explanation
Indices: 8727400--8727555 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
8727390 ACCAGTGGTC
8727400 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
* * * ** ***
8727443 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTGTCGG--GA-GTCCA-ATAT
*
8727493 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
* *
8727537 CCTCCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
8727556 ATTGGCTCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
43 39 0.45
44 1 0.01
45 3 0.03
46 9 0.10
48 8 0.09
49 3 0.03
50 1 0.01
51 22 0.26
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATAT
Found at i:8727588 original size:304 final size:296
Alignment explanation
Indices: 8727043--8727763 Score: 1040
Period size: 304 Copynumber: 2.4 Consensus size: 296
8727033 TCCTTCGCCG
* *
8727043 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAACAGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* *
8727108 AGTTGAACTCT-CGTTTTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAAT
66 AGTTGAACT-TGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG---TGAAAT
8727172 TGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGT
127 T-AG--ATG--TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGT
*
8727237 CCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGT
187 CCAATATCCTCCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGT
8727302 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTA
252 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTA
*
8727347 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
8727412 AGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-GAAATT-G-
66 AGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTGAAATTAGA
* *
8727474 TCG-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
131 T-GTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATATC
8727538 CTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAGCGGTCCCT
195 CTCCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAGCGGTCCCT
*
8727602 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTG
248 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTA
8727651 TGAAGTTGAAATTGGCTCTGAAATT-----ATCG---GTTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
8727708 AAGTTGAACTTGCGTTGTCCGGG-GTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
65 AAGTTGAACTTGCGTTGT-CGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
8727764 CTCTGGGTAA
Statistics
Matches: 391, Mismatches: 10, Indels: 39
0.89 0.02 0.09
Matches are distributed among these distances:
293 81 0.21
295 1 0.00
296 1 0.00
297 84 0.21
298 5 0.01
299 3 0.01
300 7 0.02
301 1 0.00
302 1 0.00
303 1 0.00
304 206 0.53
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (296 bp):
TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTGAAATTAGA
TGTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATATCC
TCCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTA
Found at i:8739012 original size:20 final size:20
Alignment explanation
Indices: 8738987--8739046 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
8738977 TTTCCTTATC
8738987 GACCTTATGGAGATTCTTTT
1 GACCTTATGGAGATTCTTTT
8739007 GACCTTATGGA-ACTTCTTTT
1 GACCTTATGGAGA-TTCTTTT
* *
8739027 GACCTTATAGAGCTTCTTTT
1 GACCTTATGGAGATTCTTTT
8739047 AGAGGAGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (20 bp):
GACCTTATGGAGATTCTTTT
Found at i:8741107 original size:193 final size:191
Alignment explanation
Indices: 8740769--8741153 Score: 702
Period size: 193 Copynumber: 2.0 Consensus size: 191
8740759 CCTCATATTA
8740769 TACTTTTGACCATAATGGATTTTTATACTAGAAGGGTCGGTATTGTGTACCTGATTATGTAGAGT
1 TACTTTTGACCATAATGGATTTTTATACTAGAAGGGTCGGTATTGTGTACCTGATTATGTAGAGT
*
8740834 TGAGGCATGATATTCTCAGTAAGGCTTACAGTAGCCTTGTATATGCACCTCGGTAGAGTAAGATG
66 TGAGACATGATATTCTCAGTAAGGCTTACAGTAGCCTTGTATATGCACCTCGGTAGAGTAAGATG
8740899 TATCAGAATATGAGAGAGAGAGATACCATTGGGTTTGCATGAAGAAAGATATCTATGATTATG
131 TATCAGAATAT--GAGAGAGAGATACCATTGGGTTTGCATGAAGAAAGATATCTATGATTATG
8740962 TACTTTTGACCATAATGGATTTTTATACTAGAAGGGTCGGTATTGTGTACCTGATTATGTAGAGT
1 TACTTTTGACCATAATGGATTTTTATACTAGAAGGGTCGGTATTGTGTACCTGATTATGTAGAGT
8741027 TGAGACATGATATTCTCAGTAAGGCTTACAGTAGCCTTGTACTATGCACCTCGGTAGAGATAAGA
66 TGAGACATGATATTCTCAGTAAGGCTTACAGTAGCCTTGTA-TATGCACCTCGGTAGAG-TAAGA
*
8741092 TGTATCAG-A-ATGAGAGAGAGATACCATTTGGTTTGCATGAAGAAAGATATCTATGATTATG
129 TGTATCAGAATATGAGAGAGAGATACCATTGGGTTTGCATGAAGAAAGATATCTATGATTATG
8741153 T
1 T
8741154 GGCTAGATGT
Statistics
Matches: 188, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
191 50 0.27
193 107 0.57
194 18 0.10
195 13 0.07
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (191 bp):
TACTTTTGACCATAATGGATTTTTATACTAGAAGGGTCGGTATTGTGTACCTGATTATGTAGAGT
TGAGACATGATATTCTCAGTAAGGCTTACAGTAGCCTTGTATATGCACCTCGGTAGAGTAAGATG
TATCAGAATATGAGAGAGAGATACCATTGGGTTTGCATGAAGAAAGATATCTATGATTATG
Found at i:8744191 original size:23 final size:23
Alignment explanation
Indices: 8744165--8744233 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
8744155 CACCATAGCT
8744165 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
8744188 CATATAATTGCACTGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
8744211 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
8744234 TATAAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:8744807 original size:119 final size:114
Alignment explanation
Indices: 8744592--8744824 Score: 421
Period size: 119 Copynumber: 2.0 Consensus size: 114
8744582 TTCTTATTTC
8744592 TCATAACTGCTAATCTTTGAGTTTTAAGCCACCTAAAGCTTCCTTAATCTTTCTTAACCCCAAGA
1 TCATAACTGCTAATCTTTGAGTTTTAAGCCACCTAAAGCTTCCTTAATCTTTCTTAACCCCAAGA
8744657 ATCAAAACAAGCTTTAAAATGAAAGAATTAACCAACTGGAAGACCCACTT
66 ATCAAAACAAGCTTTAAAATGAAAGAATTAACCAACT-GAAGACCCACTT
8744707 TCATAACTTGCTAATCTTTGAGTTTTAAGCCACCTAAAGCTTTCCTTAATCTTTCTTAACATCCC
1 TCATAAC-TGCTAATCTTTGAGTTTTAAGCCACCTAAAGC-TTCCTTAATCTTTCTTAAC--CCC
8744772 AAGAATCAAAACAAGCTTTAAAATGAAAGAATTAACCAACTGAAGACCCACTT
62 AAGAATCAAAACAAGCTTTAAAATGAAAGAATTAACCAACTGAAGACCCACTT
8744825 ACCTTATACA
Statistics
Matches: 114, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
115 7 0.06
116 32 0.28
117 19 0.17
118 12 0.11
119 44 0.39
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (114 bp):
TCATAACTGCTAATCTTTGAGTTTTAAGCCACCTAAAGCTTCCTTAATCTTTCTTAACCCCAAGA
ATCAAAACAAGCTTTAAAATGAAAGAATTAACCAACTGAAGACCCACTT
Found at i:8750917 original size:15 final size:16
Alignment explanation
Indices: 8750897--8750937 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8750887 GTTTACTTCA
*
8750897 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
8750912 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
8750928 GAATGATTCA
1 GAATGATTCA
8750938 GAGGTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:8752203 original size:343 final size:356
Alignment explanation
Indices: 8751685--8752388 Score: 1256
Period size: 343 Copynumber: 2.0 Consensus size: 356
8751675 TTAAAAAACA
8751685 ATTCTAAATTACTAACATAAACAATAAACGGAGATAGAAATTAAATTATTAAGATCGTTTTGGCA
1 ATTCTAAATTACTAACA-AAACAATAAACGGAGATAGAAATTAAATTATTAAGATCGTTTTGGCA
8751750 TTACTTTTAAAAATTAAGATAAATAAGTACTTTTCAAAAATGGTCTTAATTTTTTTTAGATTGTT
65 TTACTTTTAAAAATTAAGATAAATAAGTACTTTTCAAAAATGGTCTTAATTTTTTTTAGATTGTT
8751815 CAGTTTAAAATTTAAAAAATTTAATCATTATCAAAAAAATATTTTTAAATAGATAGAATATTTAA
130 CAGTTTAAAATTTAAAAAATTTAATCATTATCAAAAAAATATTTTTAAATAGATAGAATATTTAA
8751880 TTTTTTCATTG-TTTTT-AAA-ATTAAAAAATTGATAATATAAATAGAAGAAAATG-A-A-TA-T
195 TTTTTTCATTGTTTTTTAAAATATTAAAAAATTGATAATATAAATAGAAGAAAATGAATATTATT
*
8751938 TTTTTT-TTAGTATAGAGTGATTATAATGT-ATATTATTTAAAAGATTAATAATAAATATTCAAA
260 TTTTTTATTAGTATAGAGTGATTATAATATAATATTATTTAAAAGATTAATAAT-AATATTCAAA
8752001 GATTCTTATAGACGATATACTCAATCGAAACCT
324 GATTCTTATAGACGATATACTCAATCGAAACCT
8752034 ATTCTAAATTACTAAC-AAACAATAAACGGAGATAGAAATTAAATTATTAAGATCGTTTTGGCAT
1 ATTCTAAATTACTAACAAAACAATAAACGGAGATAGAAATTAAATTATTAAGATCGTTTTGGCAT
*
8752098 TAC-TTTAAAAATTAAGA-AAATAAGTAC-TTTCAAAAATGGTTTTAA-TTTTTTTAGATTGTTC
66 TACTTTTAAAAATTAAGATAAATAAGTACTTTTCAAAAATGGTCTTAATTTTTTTTAGATTGTTC
8752159 AGTTTAAAATTTAAAAAATTTAATCATTATCAAAAAAATATTTTTAAATAGATAGAATATTTAAT
131 AGTTTAAAATTTAAAAAATTTAATCATTATCAAAAAAATATTTTTAAATAGATAGAATATTTAAT
8752224 TTTTTCATTGTTTTTTAAAATATTAAAAAATTGATAATATAAATAGAAGAAAATGAATATTATCT
196 TTTTTCATTGTTTTTTAAAATATTAAAAAATTGATAATATAAATAGAAGAAAATGAATATTA--T
8752289 TTTTTTTATTAGTATAGAGTGATTATAATATAATATTATTTAAAAGATTAATAATAATATTCAAA
259 TTTTTTTATTAGTATAGAGTGATTATAATATAATATTATTTAAAAGATTAATAATAATATTCAAA
8752354 GATTCTTATAGACGATATACTCAATCGAAACCT
324 GATTCTTATAGACGATATACTCAATCGAAACCT
8752387 AT
1 AT
8752389 AGAGATTTCT
Statistics
Matches: 342, Mismatches: 2, Indels: 18
0.94 0.01 0.05
Matches are distributed among these distances:
343 91 0.27
344 22 0.06
345 13 0.04
346 48 0.14
347 52 0.15
348 1 0.00
349 18 0.05
352 7 0.02
353 67 0.20
354 23 0.07
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (356 bp):
ATTCTAAATTACTAACAAAACAATAAACGGAGATAGAAATTAAATTATTAAGATCGTTTTGGCAT
TACTTTTAAAAATTAAGATAAATAAGTACTTTTCAAAAATGGTCTTAATTTTTTTTAGATTGTTC
AGTTTAAAATTTAAAAAATTTAATCATTATCAAAAAAATATTTTTAAATAGATAGAATATTTAAT
TTTTTCATTGTTTTTTAAAATATTAAAAAATTGATAATATAAATAGAAGAAAATGAATATTATTT
TTTTTATTAGTATAGAGTGATTATAATATAATATTATTTAAAAGATTAATAATAATATTCAAAGA
TTCTTATAGACGATATACTCAATCGAAACCT
Found at i:8752343 original size:21 final size:20
Alignment explanation
Indices: 8752318--8752357 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8752308 TGATTATAAT
*
8752318 ATAATATTATTTAAAAGATTA
1 ATAATAATA-TTAAAAGATTA
*
8752339 ATAATAATATTCAAAGATT
1 ATAATAATATTAAAAGATT
8752358 CTTATAGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATAATATTAAAAGATTA
Found at i:8752728 original size:20 final size:20
Alignment explanation
Indices: 8752703--8752746 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8752693 AAATGATCCA
*
8752703 TCGCAACGA-GATACTTACTT
1 TCGCAAC-ACGATACTGACTT
8752723 TCGCAACACGATACTGACTT
1 TCGCAACACGATACTGACTT
8752743 TCGC
1 TCGC
8752747 GCGATTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (20 bp):
TCGCAACACGATACTGACTT
Found at i:8753341 original size:19 final size:17
Alignment explanation
Indices: 8753302--8753344 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
8753292 GCAACGAGAT
*
8753302 AATCGCAACGCGAATAA
1 AATCGCAACGCGAACAA
8753319 AATCGCAACGCGAAACCAA
1 AATCGCAACGCG-AA-CAA
8753338 AATCGCA
1 AATCGCA
8753345 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (17 bp):
AATCGCAACGCGAACAA
Found at i:8753362 original size:19 final size:19
Alignment explanation
Indices: 8753340--8753425 Score: 133
Period size: 19 Copynumber: 4.7 Consensus size: 19
8753330 GAAACCAAAA
*
8753340 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
8753359 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8753378 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
8753397 TCG-GTTGCGA-TTTCA-T
1 TCGCGTTGCGATTTTCATT
8753413 TCGCGTTGCGATT
1 TCGCGTTGCGATT
8753426 GTCTGGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.06
17 11 0.18
18 8 0.13
19 39 0.63
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8753434 original size:31 final size:33
Alignment explanation
Indices: 8753363--8753490 Score: 120
Period size: 31 Copynumber: 3.8 Consensus size: 33
8753353 TTCATTTCGC
** *
8753363 GTTGCGATTTTCATTTCGCGTTGCGATTTTAATTTCG
1 GTTGCGATAGTCATTTCGCGTTGCGA--TT-ATCT-G
* *
8753400 GTTGCGAT-TTCA-TTCGCGTTGCGATTGTCTG
1 GTTGCGATAGTCATTTCGCGTTGCGATTATCTG
* *
8753431 GTTGCGATAGTCA-TTCGCG-TGCGATTCTCTC
1 GTTGCGATAGTCATTTCGCGTTGCGATTATCTG
8753462 GTTGCGATAGTCATTTCCGCGTTGCGATT
1 GTTGCGATAGTCATTT-CGCGTTGCGATT
8753491 CTATTATCGT
Statistics
Matches: 82, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
31 32 0.39
32 13 0.16
33 6 0.07
34 7 0.09
35 12 0.15
36 4 0.05
37 8 0.10
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.41
Consensus pattern (33 bp):
GTTGCGATAGTCATTTCGCGTTGCGATTATCTG
Found at i:8753646 original size:105 final size:104
Alignment explanation
Indices: 8753458--8753666 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 104
8753448 CGTGCGATTC
8753458 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTATTATCGTTTGCGATTTTCATTTCAACCAA
1 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTATTATCGTTTGCGATTTTCATTTCAACCAA
8753523 AAGACAGAAACAGTGTTGCAAATTTTAGTTTCAAGAATA
66 AAGACAGAAACAGTGTTGCAAATTTTAGTTTCAAGAATA
8753562 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTATTATC-TCGTTGCGATTTTCATTTCAACC
1 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTATTATCGT--TTGCGATTTTCATTTCAACC
8753626 AAAAGACAGAAACAGTGTTGCAAATTTTAGTTTCAAGAATA
64 AAAAGACAGAAACAGTGTTGCAAATTTTAGTTTCAAGAATA
8753667 AACTACTATT
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
103 1 0.01
104 41 0.40
105 61 0.59
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (104 bp):
TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTATTATCGTTTGCGATTTTCATTTCAACCAA
AAGACAGAAACAGTGTTGCAAATTTTAGTTTCAAGAATA
Found at i:8755641 original size:41 final size:40
Alignment explanation
Indices: 8755563--8755653 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
8755553 GCCCGACTCG
* * *
8755563 CCTATCATCCTCAAGAGTCAACTCCTATCGTTGAAGAGGC
1 CCTATCATCCTCAAGAGTCAACTCCCACCGTTCAAGAGGC
* **
8755603 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGC
1 CCTATCA-TCCTCAAGAGTCAACTCCCACCGTTCAAGAGGC
*
8755644 CACTGTCATC
1 C-CTATCATC
8755654 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 7 0.17
41 30 0.71
42 5 0.12
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.24
Consensus pattern (40 bp):
CCTATCATCCTCAAGAGTCAACTCCCACCGTTCAAGAGGC
Found at i:8757024 original size:13 final size:15
Alignment explanation
Indices: 8757007--8757043 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
8756997 GATTGTTTAA
8757007 TTGATTTGT-AAAAG
1 TTGATTTGTAAAAAG
8757021 -TGATTTGTAAAAAG
1 TTGATTTGTAAAAAG
8757035 TTGATTTGT
1 TTGATTTGT
8757044 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (15 bp):
TTGATTTGTAAAAAG
Found at i:8758091 original size:22 final size:22
Alignment explanation
Indices: 8758066--8758109 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8758056 GATTTAGATA
8758066 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
8758088 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
8758110 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:8758324 original size:19 final size:19
Alignment explanation
Indices: 8758300--8758337 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8758290 ATGTATTATC
*
8758300 GCGTTGCGAAAGTCAGTAT
1 GCGTTGCGAAAGTAAGTAT
8758319 GCGTTGCGAAAGTAAGTAT
1 GCGTTGCGAAAGTAAGTAT
8758338 CTCGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (19 bp):
GCGTTGCGAAAGTAAGTAT
Found at i:8758380 original size:20 final size:20
Alignment explanation
Indices: 8758276--8758388 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
8758266 CGCTTTGAAA
*
8758276 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
8758297 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
8758317 AT-GCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * ** *
8758336 ATCTCGTTGGGATTTTTTA-T
1 ATCGCATTGCGA-TAGTCAGT
8758356 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
8758376 ATCGCATTGCGAT
1 ATCGCATTGCGAT
8758389 TTTCCCAATT
Statistics
Matches: 72, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
19 23 0.32
20 36 0.50
21 13 0.18
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:8758421 original size:20 final size:20
Alignment explanation
Indices: 8758377--8758469 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
8758367 ATAGTCAGTA
* **
8758377 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
8758398 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
8758418 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
**
8758439 TCGTGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
8758459 TCGCATTGCGA
1 TCGCATTGCGA
8758470 ATGGGAAAAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:8758422 original size:41 final size:41
Alignment explanation
Indices: 8758377--8758471 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
8758367 ATAGTCAGTA
*
8758377 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
*
8758418 TCGCATTGCGAATTTCCCAATTCGTGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
8758459 TCGCATTGCGAAT
1 TCGCATTGCGAAT
8758472 GGGAAAATCG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:8759371 original size:222 final size:222
Alignment explanation
Indices: 8758977--8759420 Score: 815
Period size: 219 Copynumber: 2.0 Consensus size: 222
8758967 TCCGTACGTC
8758977 CAAAATTGATTGGATGATTCCGCCGGTTTTCGCGGCCGTATTGTTACTGGGTCGGCTTGGTGGTC
1 CAAAATTGATTGGATGATTCCGCCGGTTTTCGCGGCCGTATTGTTACTGGGTCGGCTTGGTGGTC
*
8759042 CGTGGCATGGGCTTGTGGGAATTCGACGAGTCCCATGATTTTCTGCTGAAACTATAGTTTAGTTT
66 CGTGGCATGGGCTTGTGGGAATTCGACGAGGCCCATGATTTTCTGCTGAAACTATAGTTTAGTTT
8759107 TTAATGGTTTTTTTGTCTACATAATTTATACTTTATAGAG-AAA-ATAGTATAACAAATGAATCG
131 TTAATGGTTTTTTTGTCTACATAATTTATACTTTATAGAGAAAATATAGTATAACAAATGAATCG
8759170 AAACGTAATTAA-TGATATATTTATTG
196 AAACGTAATTAATTGATATATTTATTG
8759196 CAAAATTGATTGGATGATTCCGCCGGTTTTCGCGGCCGTTATTG-TACTGGGTCGGCTTGGGTGG
1 CAAAATTGATTGGATGATTCCGCCGGTTTTCGCGGCCG-TATTGTTACTGGGTCGGCTT-GGTGG
8759260 TCCGTGGCATGGGCTTGTGGGAATTCGACGAGGCCCACTGATTTTCTGCTGAAACTAATAGTTTA
64 TCCGTGGCATGGGCTTGTGGGAATTCGACGAGGCCCA-TGATTTTCTGCTGAAACT-ATAGTTTA
8759325 GTTTTTAATGGTTTTTTTGTCTACATAATTTATACTTTATAGAGAAAATATAGTATAACAAATGA
127 GTTTTTAATGGTTTTTTTGTCTACATAATTTATACTTTATAGAGAAAATATAGTATAACAAATGA
8759390 ATCGAAACGTAATTAATTGATATATTTATTG
192 ATCGAAACGTAATTAATTGATATATTTATTG
8759421 TTAAAAAGTG
Statistics
Matches: 217, Mismatches: 1, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
219 52 0.24
220 46 0.21
221 18 0.08
222 52 0.24
223 3 0.01
224 32 0.15
225 14 0.06
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (222 bp):
CAAAATTGATTGGATGATTCCGCCGGTTTTCGCGGCCGTATTGTTACTGGGTCGGCTTGGTGGTC
CGTGGCATGGGCTTGTGGGAATTCGACGAGGCCCATGATTTTCTGCTGAAACTATAGTTTAGTTT
TTAATGGTTTTTTTGTCTACATAATTTATACTTTATAGAGAAAATATAGTATAACAAATGAATCG
AAACGTAATTAATTGATATATTTATTG
Found at i:8760084 original size:35 final size:35
Alignment explanation
Indices: 8760007--8760086 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
8759997 GTATTCTAAG
* * * *
8760007 CCCCAAAATCCAAAATACTTCAATTACATTATAAA
1 CCCCAAATTCCAAAACACTTCAATTACATGACAAA
* * * *
8760042 CCTCAAATTCCAAAACACTTCAATTATATGCCCAA
1 CCCCAAATTCCAAAACACTTCAATTACATGACAAA
8760077 CCCCAAATTC
1 CCCCAAATTC
8760087 ACAATCTATT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.25
Consensus pattern (35 bp):
CCCCAAATTCCAAAACACTTCAATTACATGACAAA
Found at i:8762966 original size:129 final size:125
Alignment explanation
Indices: 8762689--8762942 Score: 323
Period size: 124 Copynumber: 2.0 Consensus size: 125
8762679 CCAGTATAAG
* * ** *
8762689 TAGGATAAAAGTCGTGATGATATAATTTACAGAGGAGATCCGAAAGAGATGCAACAAATTAAAAT
1 TAGGATAAAAGACGCGAACATATAATTTACAGAAGAGATCCGAAAGAGATGCAACAAATTAAAAT
* * * *
8762754 AAACACTACCGATCAATTTAACCCAAAAAATCTTTACAGACCAAAGTAAAAAAATGAGAT
66 AAACACAAACAATCAATTTAACCCAAAAAATCTTTACAGACCAAAATAAAAAAATGAGAT
* *
8762814 TAGGATAAAAGTCGCGAAGATATAA-TTACAGAAGAGATCCGAAAGAGATGCAACAAATTCAAAA
1 TAGGATAAAAGACGCGAACATATAATTTACAGAAGAGATCCGAAAGAGATGCAACAAATT--AAA
* *
8762878 ATCAACTAACAAAATAATCAATTTAACCC-AAAAATCTTTACAGACCAAAATAAAAAAAATGAGA
64 ATAAAC--AC-AAACAATCAATTTAACCCAAAAAATCTTTACAGACCAAAAT-AAAAAAATGAGA
8762942 T
125 T
8762943 GTATGTTAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
124 33 0.29
125 23 0.20
126 8 0.07
128 23 0.20
129 27 0.24
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (125 bp):
TAGGATAAAAGACGCGAACATATAATTTACAGAAGAGATCCGAAAGAGATGCAACAAATTAAAAT
AAACACAAACAATCAATTTAACCCAAAAAATCTTTACAGACCAAAATAAAAAAATGAGAT
Found at i:8765172 original size:28 final size:29
Alignment explanation
Indices: 8765132--8765194 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
8765122 TGGCCCTCTC
* *
8765132 TTTGA-ATTTCAATGTTTT-TTTTAATAG
1 TTTGAGATCTCAATGTTTTCTTTGAATAG
8765159 TTTGAGATCTCAATGTTTTCTTTGAATAG
1 TTTGAGATCTCAATGTTTTCTTTGAATAG
8765188 TTTGAGA
1 TTTGAGA
8765195 ACGCACATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 12 0.38
29 15 0.47
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.52
Consensus pattern (29 bp):
TTTGAGATCTCAATGTTTTCTTTGAATAG
Found at i:8767201 original size:20 final size:21
Alignment explanation
Indices: 8767176--8767220 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8767166 TTCAGTGTTT
*
8767176 TTTAG-AAATTATTTTTAAAA
1 TTTAGAAAATTATTTTCAAAA
*
8767196 TTTAGAAAATTGTTTTCAAAA
1 TTTAGAAAATTATTTTCAAAA
8767217 TTTA
1 TTTA
8767221 AAAGAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTAGAAAATTATTTTCAAAA
Found at i:8767932 original size:27 final size:28
Alignment explanation
Indices: 8767902--8767964 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
8767892 TATTGTTGTT
8767902 TTTATTTTTTCTAA-TATTATAT-TTTAC
1 TTTATTTTTT-TAATTATTATATGTTTAC
* * * *
8767929 TTTAATTATTTAATTATTATTTGTTTAT
1 TTTATTTTTTTAATTATTATATGTTTAC
8767957 TTTATTTT
1 TTTATTTT
8767965 AGAAAATTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.11
27 15 0.54
28 10 0.36
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTATTTTTTTAATTATTATATGTTTAC
Found at i:8781284 original size:14 final size:13
Alignment explanation
Indices: 8781251--8781297 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
8781241 AATTAATGAC
8781251 ATTATTTTATAAT
1 ATTATTTTATAAT
*
8781264 ATAATTTTATGAAT
1 ATTATTTTAT-AAT
8781278 ATTA-TTTATAAT
1 ATTATTTTATAAT
8781290 -TTATTTTA
1 ATTATTTTA
8781298 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.10
12 7 0.23
13 14 0.47
14 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATTATTTTATAAT
Found at i:8783011 original size:26 final size:26
Alignment explanation
Indices: 8782971--8783025 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
8782961 GGGGACGGAA
*
8782971 GTGGAGGTCGGAGGAGTAGGAAGATATG
1 GTGGAGGTCGGAGGAGGAGG-AGA-ATG
8782999 GTGGA-GT-GGAGGAGGAGGAGAATG
1 GTGGAGGTCGGAGGAGGAGGAGAATG
8783023 GTG
1 GTG
8783026 ATGCTAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 3 0.12
26 10 0.38
27 2 0.08
28 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.55, T:0.16
Consensus pattern (26 bp):
GTGGAGGTCGGAGGAGGAGGAGAATG
Found at i:8783078 original size:20 final size:20
Alignment explanation
Indices: 8783042--8783081 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8783032 GTGGGGTGAC
*
8783042 CAGTCAACGGGTCAGGTAAG
1 CAGTCAACGAGTCAGGTAAG
8783062 CAGTCAAC-AGTCTAGGTAAG
1 CAGTCAACGAGTC-AGGTAAG
8783082 TATTTAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (20 bp):
CAGTCAACGAGTCAGGTAAG
Found at i:8793957 original size:37 final size:37
Alignment explanation
Indices: 8793907--8793982 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
8793897 AAAAGTCATA
* *
8793907 ATCTGGGCAAGTAAAATCCAACCAGCATATGTACCAG
1 ATCTGGGAAAGTAAAATCCAACCAGCATATGTAACAG
8793944 ATCTGGGAAAGTAAAATCCAACCAGCATATGTAACAG
1 ATCTGGGAAAGTAAAATCCAACCAGCATATGTAACAG
8793981 AT
1 AT
8793983 AGAGTCATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (37 bp):
ATCTGGGAAAGTAAAATCCAACCAGCATATGTAACAG
Found at i:8796159 original size:28 final size:28
Alignment explanation
Indices: 8796127--8796188 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
8796117 CGTTTGGTAA
8796127 TATGTTCGTTCATTTATCT-TAGTTCATT
1 TATGTTCGTTCATTTATCTGT-GTTCATT
* * *
8796155 TATGTTCGTTCGTTTATGTGTGTTTATT
1 TATGTTCGTTCATTTATCTGTGTTCATT
8796183 TATGTT
1 TATGTT
8796189 TAGCTCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.60
Consensus pattern (28 bp):
TATGTTCGTTCATTTATCTGTGTTCATT
Found at i:8796172 original size:14 final size:14
Alignment explanation
Indices: 8796127--8796188 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
8796117 CGTTTGGTAA
8796127 TATGTTCGTTCATT
1 TATGTTCGTTCATT
* *
8796141 TATCTTAGTTCATT
1 TATGTTCGTTCATT
*
8796155 TATGTTCGTTCGTT
1 TATGTTCGTTCATT
*
8796169 TATGTGT-GTTTATT
1 TATGT-TCGTTCATT
8796183 TATGTT
1 TATGTT
8796189 TAGCTCAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
13 1 0.03
14 38 0.95
15 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.60
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:8796428 original size:24 final size:24
Alignment explanation
Indices: 8796401--8796476 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
8796391 CGTTTACGTT
8796401 TGTTCGTTTACAATCGTTTGTTTG
1 TGTTCGTTTACAATCGTTTGTTTG
8796425 TGTTCGTTTACAATCGTTTGTTTG
1 TGTTCGTTTACAATCGTTTGTTTG
* * *
8796449 TGTTCGTTTACATTCATTTGTTTA
1 TGTTCGTTTACAATCGTTTGTTTG
8796473 TGTT
1 TGTT
8796477 TGTTCATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.13, C:0.12, G:0.18, T:0.57
Consensus pattern (24 bp):
TGTTCGTTTACAATCGTTTGTTTG
Found at i:8796495 original size:18 final size:19
Alignment explanation
Indices: 8796445--8796496 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
8796435 CAATCGTTTG
8796445 TTTGTGTTCGTTTACATTCA
1 TTTGTGTTCGTTTA-ATTCA
* *
8796465 TTTGT-TTATGTTT-GTTCA
1 TTTGTGTT-CGTTTAATTCA
8796483 TTTGTGTTCGTTTA
1 TTTGTGTTCGTTTA
8796497 TCATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
18 13 0.50
19 4 0.15
20 9 0.35
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.62
Consensus pattern (19 bp):
TTTGTGTTCGTTTAATTCA
Found at i:8797414 original size:22 final size:22
Alignment explanation
Indices: 8797383--8797469 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 22
8797373 ACATATAAAC
*
8797383 ATAAATAAACGAATTACCGAAT
1 ATAAACAAACGAATTACCGAAT
8797405 ATAAACAAACGAATTACCGAAT
1 ATAAACAAACGAATTACCGAAT
* * * *
8797427 ATAAACGAATGAATTATCGAAC
1 ATAAACAAACGAATTACCGAAT
* * *
8797449 ATAAACGAATGGATTACCGAA
1 ATAAACAAACGAATTACCGAA
8797470 CAATCACGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.21
Consensus pattern (22 bp):
ATAAACAAACGAATTACCGAAT
Found at i:8797479 original size:22 final size:22
Alignment explanation
Indices: 8797393--8797471 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
8797383 ATAAATAAAC
* * *
8797393 GAATTACCGAATATAAACAAAC
1 GAATTACCGAACATAAACGAAT
*
8797415 GAATTACCGAATATAAACGAAT
1 GAATTACCGAACATAAACGAAT
*
8797437 GAATTATCGAACATAAACGAAT
1 GAATTACCGAACATAAACGAAT
*
8797459 GGATTACCGAACA
1 GAATTACCGAACA
8797472 ATCACGAACG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (22 bp):
GAATTACCGAACATAAACGAAT
Found at i:8798373 original size:25 final size:25
Alignment explanation
Indices: 8798326--8798373 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8798316 TGAATGAATG
**
8798326 AACTTCTAAAATTTTAGGGATAATA
1 AACTTCTAAAATTTTAGAAATAATA
* *
8798351 AACTTGTAAAATTTTATAAATAA
1 AACTTCTAAAATTTTAGAAATAA
8798374 AAATGATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
AACTTCTAAAATTTTAGAAATAATA
Found at i:8802500 original size:47 final size:47
Alignment explanation
Indices: 8802413--8802512 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
8802403 TATACCCAAT
* * * * * * *
8802413 ATTAAAATAAAGAAATTATATAAACAATCTCTTGATTGATCTTAATG
1 ATTAAAATAAAAAAATTATATAAAAAATCTATTAAGTGATCGTAATA
*
8802460 ATTAAAATAAAAAAATTATATAAAAAATTTATTAAGTGATCGTAATA
1 ATTAAAATAAAAAAATTATATAAAAAATCTATTAAGTGATCGTAATA
8802507 ATTAAA
1 ATTAAA
8802513 GATTAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (47 bp):
ATTAAAATAAAAAAATTATATAAAAAATCTATTAAGTGATCGTAATA
Found at i:8804533 original size:80 final size:80
Alignment explanation
Indices: 8804395--8804564 Score: 315
Period size: 80 Copynumber: 2.1 Consensus size: 80
8804385 GGCGAGAATG
8804395 TCCAT-TCATGTAACGTCTAAGCTGCATTTTACCCAATGCATTCTCGGGTCTCTCCTTGAAAACC
1 TCCATATCATGTAACGTCTAAGCTGCATTTTACCCAATGCATTCTCGGGTCTCTCCTTGAAAACC
8804459 CACATATACATATTC
66 CACATATACATATTC
* *
8804474 TCCGTATCATGTAACTTCTAAGCTGCATTTTACCCAATGCATTCTCGGGTCTCTCCTTGAAAACC
1 TCCATATCATGTAACGTCTAAGCTGCATTTTACCCAATGCATTCTCGGGTCTCTCCTTGAAAACC
8804539 CACATATACATATTC
66 CACATATACATATTC
8804554 TCCATATCATG
1 TCCATATCATG
8804565 CTGAACCATG
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 4 0.05
80 83 0.95
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (80 bp):
TCCATATCATGTAACGTCTAAGCTGCATTTTACCCAATGCATTCTCGGGTCTCTCCTTGAAAACC
CACATATACATATTC
Found at i:8816230 original size:23 final size:23
Alignment explanation
Indices: 8816195--8816242 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8816185 ATCAAGTACA
*
8816195 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
8816218 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
8816241 AT
1 AT
8816243 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:8816563 original size:20 final size:20
Alignment explanation
Indices: 8816513--8816564 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8816503 TGGGTAGCGC
8816513 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTTGTCATTTA
** * *
8816533 TAGACCGGTTTTGTCATTTT
1 TTTACCTGTTTTGTCATTTA
8816553 TTTACCTGTTTT
1 TTTACCTGTTTT
8816565 ATTGTTATGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATTTA
Found at i:8816755 original size:182 final size:182
Alignment explanation
Indices: 8816505--8817334 Score: 1327
Period size: 182 Copynumber: 4.6 Consensus size: 182
8816495 CATGTTTCTG
*
8816505 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTTTATTGT
1 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
* *
8816570 TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAA
66 TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
* *
8816635 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAATATATCC
131 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
* * ** * * *
8816687 GGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGTTTTTGTCATATTTTTAACTGTTATATTGT
1 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
*
8816752 TATGGATCGATACATTTTTATAAAGTATCGTCACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
66 TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
8816817 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
131 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
*
8816869 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGT
1 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
* * *
8816934 TATGGATCGATACATTTTTATAAAGTATCGACATTTTATTAGCACTATAACTTCTTTTCTTTTAA
66 TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
* * *
8816999 ATTCCAAAAGTGTCTATACTTATAATAAAATATCGACACTTTCAACATATCC
131 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
* * * ** * *
8817051 GATAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
1 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
** * *
8817116 TATGGATTAATACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTATTCTCTTTTAA
66 TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
* * *
8817181 ATTCTAAAAGTGTCGATAGTTATAATAAAGTATCGACACTATCAACATATTC
131 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
* *
8817233 GATAGCGCTTTACCTGTTTTATCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
1 GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
*
8817298 TATGGATCAATACATTTTTATAAAGTATCGACACTTT
66 TATGGATCGATACATTTTTATAAAGTATCGACACTTT
8817335 CAATATATCC
Statistics
Matches: 591, Mismatches: 57, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
182 591 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGT
TATGGATCGATACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAA
ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCC
Found at i:8817515 original size:20 final size:20
Alignment explanation
Indices: 8817464--8817515 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
8817454 CCGGTAGCGC
*
8817464 TTTACTTGTTTTGTCATTTA
1 TTTACCTGTTTTGTCATTTA
** *
8817484 TAGACC-GATTTTGTCATTTT
1 TTTACCTG-TTTTGTCATTTA
8817504 TTTACCTGTTTT
1 TTTACCTGTTTT
8817516 ATTGTTATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.15, C:0.13, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATTTA
Found at i:8817563 original size:112 final size:112
Alignment explanation
Indices: 8817205--8817666 Score: 746
Period size: 112 Copynumber: 4.1 Consensus size: 112
8817195 GATAGTTATA
* * * *
8817205 ATAAAGTATCGACACTATCAACATATTCGATAGCGCTTTACCTGTTTTATCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
8817270 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* *
8817317 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
8817382 TTTGTCA-TTGTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * * *
8817428 ATAAAGTATCGACACTTTTAATATATCCGGTAGCGCTTTACTTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
8817493 TTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
**
8817540 ATAAAGTATCGACACTTTCAATATATCTAATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
8817605 TTTGTCATTTTTTTAACTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
8817652 ATAGAGTATCGACAC
1 ATAAAGTATCGACAC
8817667 AAACCGACAA
Statistics
Matches: 324, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
111 105 0.32
112 219 0.68
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:8817593 original size:223 final size:224
Alignment explanation
Indices: 8817205--8817666 Score: 746
Period size: 223 Copynumber: 2.1 Consensus size: 224
8817195 GATAGTTATA
* *
8817205 ATAAAGTATCGACACTATCAACATATTCGATAGCGCTTTACCTGTTTTATCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTACCTGTTTTATCATTTATAGACCGAT
8817270 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
** *
8817335 CAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTGTTTACCT
131 CAATATATCCAATAGCGATTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTAACT
*
8817399 GTTATATTGTTATGGATCGATACATTTTT
196 GTTATATTGTTATGGATCAATACATTTTT
* * * * * *
8817428 ATAAAGTATCGACACTTTTAATATATCCGGTAGCGCTTTACTTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTACCTGTTTTATCATTTATAGACCGAT
* *
8817493 TTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCAATATATTTTTATAAAGTATCGACACTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
* * *
8817558 CAATATATCTAATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTAACT
131 CAATATATCCAATAGCGATTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTAACT
*
8817623 GTTATATTGTTATGGATCAATATATTTTT
196 GTTATATTGTTATGGATCAATACATTTTT
*
8817652 ATAGAGTATCGACAC
1 ATAAAGTATCGACAC
8817667 AAACCGACAA
Statistics
Matches: 219, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
223 170 0.78
224 49 0.22
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (224 bp):
ATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTACCTGTTTTATCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
CAATATATCCAATAGCGATTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTAACT
GTTATATTGTTATGGATCAATACATTTTT
Found at i:8819058 original size:83 final size:82
Alignment explanation
Indices: 8818971--8819175 Score: 234
Period size: 82 Copynumber: 2.5 Consensus size: 82
8818961 CGTAATAGAA
8818971 TGGTAATTTAGCGGCGTTTATAGCTA-AAACGCCACAATAGAT-TTGTTTATAGTGGCGTTTCTT
1 TGGTAATTTAGCGGCGTTTATA--TACAAACGCCACAATAG-TGTTGTTTATAGTGGCGTTTCTT
* *
8819034 CAACAAATGCCGCAACATAG
63 CAACAAACGACGCAACATAG
* *** * *
8819054 TGGTAATTTAGCGGCGTTTTTATACAAACGCCGTTATTGTGTTGTTTATAGTGGCGTTTGTTCAA
1 TGGTAATTTAGCGGCGTTTATATACAAACGCCACAATAGTGTTGTTTATAGTGGCGTTTCTTCAA
* *
8819119 CAAACGACGCTATATAG
66 CAAACGACGCAACATAG
** * *
8819136 AAGTAATTTAGCGGCGTTTATGAAACAAACGCCGCAATAG
1 TGGTAATTTAGCGGCGTTTAT-ATACAAACGCCACAATAG
8819176 AGTATTTATT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
81 3 0.03
82 64 0.63
83 35 0.34
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (82 bp):
TGGTAATTTAGCGGCGTTTATATACAAACGCCACAATAGTGTTGTTTATAGTGGCGTTTCTTCAA
CAAACGACGCAACATAG
Found at i:8819668 original size:22 final size:22
Alignment explanation
Indices: 8819642--8819691 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
8819632 AAGTGTTTTG
8819642 TTGCTTTCGAATAGAAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
* *
8819664 TTGCTTTCTAATAGGAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
*
8819686 TAGCTT
1 TTGCTT
8819692 CTGAAAACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (22 bp):
TTGCTTTCGAATAGAAAAATAA
Found at i:8820906 original size:42 final size:42
Alignment explanation
Indices: 8820859--8820948 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
8820849 GTTTGGTGGT
* * *
8820859 GTTTTTAAAAAAAATGTTACAATAGGGTTAATTTATAGCGGC
1 GTTTTTAAAAAAAATATCACAATAGGGTTAATTTATAGCAGC
** ** *
8820901 GTTTTTACTAAAAATATCGTAATAGGGTTAGTTTATAGCAGC
1 GTTTTTAAAAAAAATATCACAATAGGGTTAATTTATAGCAGC
*
8820943 GGTTTT
1 GTTTTT
8820949 GATTAAACGC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (42 bp):
GTTTTTAAAAAAAATATCACAATAGGGTTAATTTATAGCAGC
Found at i:8822362 original size:22 final size:22
Alignment explanation
Indices: 8822337--8822379 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8822327 ATGTATGTAT
*
8822337 ATGTAAATTAAGCTTATGATAA
1 ATGTAAATTAAGCTTAGGATAA
8822359 ATGTAAATTAAGCTTAGGATA
1 ATGTAAATTAAGCTTAGGATA
8822380 TATAATTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (22 bp):
ATGTAAATTAAGCTTAGGATAA
Found at i:8829744 original size:23 final size:23
Alignment explanation
Indices: 8829677--8829745 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
8829667 CACCACAGGT
* *
8829677 CGTATAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
8829700 CATAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
8829723 CGTAGAAATGCACCGAAATGCCA
1 CGTAGAAATGCACCGAAGTGCCA
8829746 TATAATATGT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:8834896 original size:50 final size:50
Alignment explanation
Indices: 8834837--8834937 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
8834827 AAAATCCATT
8834837 TAACTTAATTTGTTATATCGAAATATTAAAATGTTTCAACAATCTCCCCC
1 TAACTTAATTTGTTATATCGAAATATTAAAATGTTTCAACAATCTCCCCC
8834887 TAACTTAATTTGTTATATCGAAATATTAAAATGTTTCAACAATCTCCCCC
1 TAACTTAATTTGTTATATCGAAATATTAAAATGTTTCAACAATCTCCCCC
8834937 T
1 T
8834938 TTTTGATATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.39
Consensus pattern (50 bp):
TAACTTAATTTGTTATATCGAAATATTAAAATGTTTCAACAATCTCCCCC
Found at i:8837303 original size:21 final size:21
Alignment explanation
Indices: 8837277--8837316 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8837267 CAGAACCCCA
*
8837277 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
8837298 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
8837317 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:8843841 original size:19 final size:19
Alignment explanation
Indices: 8843819--8843855 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8843809 TTCATTCTTA
8843819 TGGGAATCTCACATTCCCC
1 TGGGAATCTCACATTCCCC
8843838 TGGGAATCTCACATTCCC
1 TGGGAATCTCACATTCCC
8843856 ATGACCAAAC
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:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (19 bp):
TGGGAATCTCACATTCCCC
Found at i:8846018 original size:33 final size:34
Alignment explanation
Indices: 8845976--8846057 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 34
8845966 GTCCAACACT
* * *
8845976 GCCTTGGGCTGAGGC-CGCCGCACACCAAGGGTC
1 GCCTAGGGCTGAGGCTCGCCACACACCAAAGGTC
*
8846009 GCCTAGGGCTGA-GCTCGCCATACACCAAAGGTC
1 GCCTAGGGCTGAGGCTCGCCACACACCAAAGGTC
** *
8846042 ATCTAGGGCCGAGGCT
1 GCCTAGGGCTGAGGCT
8846058 GACACACTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 2 0.05
33 35 0.88
34 3 0.08
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (34 bp):
GCCTAGGGCTGAGGCTCGCCACACACCAAAGGTC
Found at i:8847491 original size:20 final size:21
Alignment explanation
Indices: 8847461--8847507 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
8847451 TCAAATGACC
*
8847461 GAAAAACGTGCCACAAAAATA
1 GAAAAACGTGCCACAAAAACA
*
8847482 GAAAAA-GTGCCACAAAGACA
1 GAAAAACGTGCCACAAAAACA
8847502 GAAAAA
1 GAAAAA
8847508 TATGTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.60, C:0.17, G:0.17, T:0.06
Consensus pattern (21 bp):
GAAAAACGTGCCACAAAAACA
Found at i:8848427 original size:14 final size:14
Alignment explanation
Indices: 8848408--8848437 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8848398 GTTCATTTAC
8848408 AGTCCTATTTCTTG
1 AGTCCTATTTCTTG
8848422 AGTCCTATTTCTTG
1 AGTCCTATTTCTTG
8848436 AG
1 AG
8848438 GTACTTTTCA
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:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (14 bp):
AGTCCTATTTCTTG
Found at i:8850371 original size:35 final size:34
Alignment explanation
Indices: 8850332--8850447 Score: 87
Period size: 35 Copynumber: 3.4 Consensus size: 34
8850322 AATATTTCAA
8850332 ATTAAAAGGTATTTATTATATATTTAACTTTGAAT
1 ATTAAAAGGTATTTATTATATATTTAA-TTTGAAT
* *
8850367 ATTAAAA--TA-TAATTATATCATTTTGAATATTTAA-
1 ATTAAAAGGTATTTATTATAT-A-TTT-AAT-TTGAAT
* * * *
8850401 GTTAAAAGATATTTATTATCTCTTTAAGTTTGAAT
1 ATTAAAAGGTATTTATTATATATTTAA-TTTGAAT
*
8850436 ATTGAAAGGTAT
1 ATTAAAAGGTAT
8850448 CTATATCTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
32 8 0.13
33 3 0.05
34 16 0.26
35 26 0.42
36 2 0.03
37 7 0.11
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (34 bp):
ATTAAAAGGTATTTATTATATATTTAATTTGAAT
Found at i:8850414 original size:69 final size:69
Alignment explanation
Indices: 8850317--8850515 Score: 233
Period size: 69 Copynumber: 2.9 Consensus size: 69
8850307 TAATTACTCT
* * * *
8850317 TTTTAAATATTTCAAATTAAAAGGTATTTATTATATATTTAACTTTGAATATTAAAATATAAT-T
1 TTTTGAATATTTCAAATTAAAAGATATTTATTATATATTTAAATTTGAATATTAAAAGAT-ATCT
8850381 ATATC
65 ATATC
* * * * * *
8850386 ATTTTGAATATTT-AAGTTAAAAGATATTTATTATCTCTTTAAGTTTGAATATTGAAAGGTATCT
1 -TTTTGAATATTTCAAATTAAAAGATATTTATTATATATTTAAATTTGAATATTAAAAGATATCT
8850450 ATATC
65 ATATC
* * * *
8850455 TTTTGAATATTTCAAATTAAAATATA-TTATTGTATGTTTAAATTTGATTATTAAAAGATAT
1 TTTTGAATATTTCAAATTAAAAGATATTTATTATATATTTAAATTTGAATATTAAAAGATAT
8850516 ATATTTTGAG
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
68 42 0.39
69 56 0.51
70 11 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (69 bp):
TTTTGAATATTTCAAATTAAAAGATATTTATTATATATTTAAATTTGAATATTAAAAGATATCTA
TATC
Found at i:8850501 original size:68 final size:69
Alignment explanation
Indices: 8850288--8850514 Score: 221
Period size: 69 Copynumber: 3.3 Consensus size: 69
8850278 TATCTTTTCT
* * * * *
8850288 AATTTGAATATTAGTAGGATAATTA-CTCTTTTTAAATATTTCAAATTAAAAGGTAT-TTATTAT
1 AATTTGAATATTA-AAAGATAATTATATCATTTTGAATATTTCAAATTAAAA--TATATTATTAT
8850351 ATATTTA
63 ATATTTA
* * * * *
8850358 ACTTTGAATATTAAAATATAATTATATCATTTTGAATATTT-AAGTTAAAAGATATTTATTATCT
1 AATTTGAATATTAAAAGATAATTATATCATTTTGAATATTTCAAATTAAAATATA-TTATTATAT
*
8850422 CTTTA
65 ATTTA
* * * *
8850427 AGTTTGAATATTGAAAGGT-ATCTATATC-TTTTGAATATTTCAAATTAAAATATATTATTGTAT
1 AATTTGAATATTAAAAGATAAT-TATATCATTTTGAATATTTCAAATTAAAATATATTATTATAT
*
8850490 GTTTA
65 ATTTA
*
8850495 AATTTGATTATTAAAAGATA
1 AATTTGAATATTAAAAGATA
8850515 TATATTTTGA
Statistics
Matches: 127, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
67 2 0.02
68 40 0.31
69 60 0.47
70 25 0.20
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (69 bp):
AATTTGAATATTAAAAGATAATTATATCATTTTGAATATTTCAAATTAAAATATATTATTATATA
TTTA
Found at i:8853723 original size:19 final size:19
Alignment explanation
Indices: 8853699--8853762 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
8853689 ATGTGGATTT
8853699 CATTCCCTTGGGTATCTCA
1 CATTCCCTTGGGTATCTCA
8853718 CATTCCCTTGGGTATCTCA
1 CATTCCCTTGGGTATCTCA
* *
8853737 CATTCCTTTGGGAATCTCA
1 CATTCCCTTGGGTATCTCA
8853756 CATTCCC
1 CATTCCC
8853763 CTGACCAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.17, C:0.33, G:0.14, T:0.36
Consensus pattern (19 bp):
CATTCCCTTGGGTATCTCA
Found at i:8857290 original size:36 final size:36
Alignment explanation
Indices: 8857250--8857455 Score: 344
Period size: 36 Copynumber: 5.8 Consensus size: 36
8857240 CAGACGTCGG
* *
8857250 CACTTCCAATTCAAGTCGAACGGAAGGAAGGATCGA
1 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
*
8857286 CACTTCCGATTCAAGTCGAACGGAAGGAAGCAACGA
1 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
*
8857322 CACTTCCGATTCAAGTCGAACGAAAGGAAGCATCGA
1 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
8857358 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
1 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
* *
8857394 CACTTCCGATTCAAGTCAAACGGAAGAAAGCATCGA
1 CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
8857430 CA-TT-CGATTCAAGTCGAACGGAAGGA
1 CACTTCCGATTCAAGTCGAACGGAAGGA
8857456 GACGACACAC
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
34 20 0.12
35 2 0.01
36 138 0.86
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (36 bp):
CACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGA
Done.