Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 74 of 349
Found at i:21634502 original size:64 final size:61
Alignment explanation
Indices: 21634394--21634564 Score: 236
Period size: 64 Copynumber: 2.8 Consensus size: 61
21634384 AATAAATCAC
* *
21634394 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA-C-T
* * *
21634457 AACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCACT
1 -ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
* * *
21634519 -CATTTAGTTAGGAGCATTGGATTCATTTCAATCATAGCATCCTAAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAAT
21634565 CATTGGGCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 41 0.42
62 1 0.01
63 1 0.01
64 54 0.56
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (61 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
Found at i:21635024 original size:44 final size:46
Alignment explanation
Indices: 21634941--21635036 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 46
21634931 AGCCACTAGC
*** ** *
21634941 CTTATC-TCTCTGAGGTAGCAAGAAAGCAGGTTGGCGATTGTAG-T
1 CTTATCTTCTCTGAGGTAGCAAGAAAGCAAACTGAAGATTGAAGAT
*
21634985 CTTATCTTC-CTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAGAT
1 CTTATCTTCTCTGAGGTAGCAAGAAAGCAAACTGAAGATTGAAGAT
21635030 CTTATCT
1 CTTATCT
21635037 CCCTAAGCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 33 0.77
45 10 0.23
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAGAAAGCAAACTGAAGATTGAAGAT
Found at i:21635343 original size:88 final size:88
Alignment explanation
Indices: 21635249--21635525 Score: 224
Period size: 88 Copynumber: 3.1 Consensus size: 88
21635239 TACCACCAAC
*
21635249 CTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAA
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAA
21635314 AAAGCAGACTAAAAATTGAAGAT
66 AAAGCAGACTAAAAATTGAAGAT
* * * * * * * * * ** *
21635337 CTTATCTCCCTGAAGTTGC-AGCGGAGCAGATCGAAGACTGTGAATCTTATC-TCCAT-GTATCG
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGAAGA--ATGAGTCTTATCTTTC-TGGGGT-A
*** * * ** * *
21635399 GCAATGGAGCAGATTTTACCACT--AG-C
61 GCAAAAAAGCAGA-CTAAAAATTGAAGAT
* *
21635425 CTTATCTATCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAG
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAA
*
21635490 AAAGCAGACTGAAAATTGAAGAT
66 AAAGCAGACTAAAAATTGAAGAT
*
21635513 CTTATCTCCCTGA
1 CTTATCTCTCTGA
21635526 AGTTGCATCA
Statistics
Matches: 131, Mismatches: 46, Indels: 24
0.65 0.23 0.12
Matches are distributed among these distances:
85 4 0.03
86 21 0.16
87 8 0.06
88 65 0.50
89 8 0.06
90 21 0.16
91 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (88 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAA
AAAGCAGACTAAAAATTGAAGAT
Found at i:21635366 original size:176 final size:176
Alignment explanation
Indices: 21635160--21635938 Score: 917
Period size: 176 Copynumber: 4.4 Consensus size: 176
21635150 AAGTGATAGG
* * * * * **
21635160 TCTTATTTCCTTGAAGTTGTAGTAGAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGGC
* * *
21635225 AATGGAGCAGATGTTACCACCAACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
* *
21635290 GTCTTATCTTTCTGGGGTAGCAAAAAAGCAGACTAAAAATTGAAGA
131 GTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* * *
21635336 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACTGTGAATCTTATCTCCATGTATCGGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGGC
* *
21635401 AATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
* *
21635466 GTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
131 GTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* * * * *
21635512 TCTTATCTCCCTGAAGTTGCATCAGAGCAGATTAAAGATGGTGAATCTTATCTCTATGTATTGGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGGC
* * * * *
21635577 AATGGAGCAGATTTT---ACCAGTCTTATCTCCCTGAGGTAGCAAGAGAGCAAGTTAAAGATTGA
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
* * * *
21635639 GTCTTATCTTTCTGAGGTAACAAGAAAGCAGACTGGAGATTGAAGA
131 GTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
* ** * ** * * *
21635685 TCTTATCTCCC-CAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCTATGTATCGGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGGC
* * *
21635749 AATGGAACAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTG--GCAATT
66 AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG-AA-T
* * * * * *
21635812 GTAATCTTATCTTCCTGATGTAGCAAAGAAGTAGACTGAAGATTGAAGA
129 G-AGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
** * * * * * * * *
21635861 TCTTATCTCCCT-AAGCAG-ATGTAGAGAAAATTAAGGATGGCGAATCTTATCTCCATGTATTGG
1 TCTTATCTCCCTGAAGTTGCA-GCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGG
21635924 CAATGGAGCAGATTT
65 CAATGGAGCAGATTT
21635939 AAGTCACCAT
Statistics
Matches: 523, Mismatches: 72, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
172 57 0.11
173 94 0.18
174 1 0.00
175 36 0.07
176 335 0.64
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCAAAGACGGTGAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
GTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTGAAAATTGAAGA
Found at i:21635460 original size:308 final size:309
Alignment explanation
Indices: 21634875--21635460 Score: 833
Period size: 308 Copynumber: 1.9 Consensus size: 309
21634865 GGCAATTACG
* * * * * * *
21634875 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCTGATTTAAGCCACTAG
1 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
** *
21634940 CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCA
66 CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
** * * *
21635005 AGGAAGCAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGT
131 AAAAAGCAAACTAAAAATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAGATGGT
* *
21635070 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTCTCTGAAGTTG
196 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTATCTGAAGTAG
*
21635135 CAGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
261 CAGTAGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
21635184 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATGTT-A-CCACCA
1 GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGAT-TTAAGCCACCA
* * * *
21635247 ACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTTCTGGGGTAGC
65 ACCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGC
* **
21635311 AAAAAAGCAGACTAAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACT
130 AAAAAAGCAAACTAAAAATTGAAGATCTTATCTCCCT-AAGCAGCAGCGGAGCAGATCGAAGA-T
* *
21635376 -GTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACT-AGCCTTATCTATCTGAG
193 GGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGA-ACTTATCTATCTGAA
*
21635439 GTAGCAAG-AGAGCAGGTTGAAG
257 GTAGC-AGTAGAGCAAGTTGAAG
21635461 AATGAGTCTT
Statistics
Matches: 244, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
307 53 0.22
308 137 0.56
309 52 0.21
310 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (309 bp):
GAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
AAAAAGCAAACTAAAAATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAGATGGT
GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTATCTGAAGTAG
CAGTAGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTGAAGTTGTAGTA
Found at i:21635925 original size:348 final size:349
Alignment explanation
Indices: 21635193--21635939 Score: 1004
Period size: 348 Copynumber: 2.1 Consensus size: 349
21635183 AGAGCAGACC
* * * *
21635193 AAAGACGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATGTTACCACCAACCTTATCTCT
1 AAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGAT-TTA-CACCAACCTTATCTCC
* * * * *
21635258 TTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAAAAAGCAGAC
64 CTGAGGTAGCAAGAGAGCAAGTTAAAGAATGAGTCTTATCTTTCTGAGGTAACAAAAAAGCAGAC
* **
21635323 TAAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACTGTGAATCTTATC
129 TAAAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACTGTGAATCTTATC
* *
21635388 TCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGCA
194 TCCATGTATCGGCAATGGAACAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAAAGAGCA
* * *
21635453 GGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTAT
259 GGTTG-AGAATGAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTAT
** * *
21635518 CTCCCTGAAGTTGCATCAGAGCAGATT
323 CTCCCTGAAGCAGCATCAGAGAAAATT
* * * **
21635545 AAAGATGGTGAATCTTATCTCTATGTATTGGCAATGGAGCAGATTT-TACCAGTCTTATCTCCCT
1 AAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTACACCAACCTTATCTCCCT
* * *
21635609 GAGGTAGCAAGAGAGCAAGTTAAAGATTGAGTCTTATCTTTCTGAGGTAACAAGAAAGCAGACTG
66 GAGGTAGCAAGAGAGCAAGTTAAAGAATGAGTCTTATCTTTCTGAGGTAACAAAAAAGCAGACTA
* * * *
21635674 GAGATTGAAGATCTTATCTCCC-CAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTTATCT
131 AAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACT-GTGAATCTTATCT
* *
21635737 CTATGTATCGGCAATGGAACAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAG
195 CCATGTATCGGCAATGGAACAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAAAGAGCAG
* * *
21635802 GTTG-GCAATTGTAATCTTATCTTCCTGATGTAGCAA-AGAAGTAGACTGAAGATTGAAGATCTT
260 GTTGAG-AA-TG-AATCTTATCTTCCTGAGGTAGCAAGA-AAGCAGACTGAAAATTGAAGATCTT
*
21635865 ATCTCCCT-AAGCAG-ATGTAGAGAAAATT
321 ATCTCCCTGAAGCAGCAT-CAGAGAAAATT
*
21635893 AAGGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTA
1 AAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTA
21635940 AGTCACCATC
Statistics
Matches: 346, Mismatches: 42, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
346 1 0.00
347 5 0.01
348 157 0.45
349 142 0.41
351 2 0.01
352 39 0.11
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (349 bp):
AAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTACACCAACCTTATCTCCCT
GAGGTAGCAAGAGAGCAAGTTAAAGAATGAGTCTTATCTTTCTGAGGTAACAAAAAAGCAGACTA
AAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACTGTGAATCTTATCTC
CATGTATCGGCAATGGAACAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAAAGAGCAGG
TTGAGAATGAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTATCTC
CCTGAAGCAGCATCAGAGAAAATT
Found at i:21639597 original size:18 final size:18
Alignment explanation
Indices: 21639537--21639597 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
21639527 TGGAAGCTTT
* *
21639537 TAAAACCGTTATATTTTAA
1 TAAAAACGTTGTA-TTTAA
* * *
21639556 TAAAATCGTTTGCATTTAG
1 TAAAAACG-TTGTATTTAA
*
21639575 GAAAAACGTTGTATTTAA
1 TAAAAACGTTGTATTTAA
21639593 TAAAA
1 TAAAA
21639598 CCGAGTTTTC
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 12 0.38
19 17 0.53
20 3 0.09
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAAAACGTTGTATTTAA
Found at i:21640521 original size:17 final size:18
Alignment explanation
Indices: 21640488--21640522 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21640478 CCATGTCGCT
21640488 TGCCCGTGTGAGCCCACA
1 TGCCCGTGTGAGCCCACA
21640506 TGCCCGTGTG-GCCCACA
1 TGCCCGTGTGAGCCCACA
21640523 CGCCTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
TGCCCGTGTGAGCCCACA
Found at i:21640586 original size:54 final size:54
Alignment explanation
Indices: 21640517--21640635 Score: 220
Period size: 54 Copynumber: 2.2 Consensus size: 54
21640507 GCCCGTGTGG
*
21640517 CCCACACGCCTCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
1 CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
*
21640571 CTCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
1 CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
21640625 CCCACACGCCC
1 CCCACACGCCC
21640636 GTGTGGACTA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.20, C:0.40, G:0.21, T:0.18
Consensus pattern (54 bp):
CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
Found at i:21650031 original size:14 final size:14
Alignment explanation
Indices: 21650022--21650054 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21650012 CTAGAATATT
21650022 AAAACA-AGAATTA
1 AAAACACAGAATTA
21650035 AAAACACAGAATTA
1 AAAACACAGAATTA
*
21650049 AGAACA
1 AAAACA
21650055 AATCAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAACACAGAATTA
Found at i:21652345 original size:6 final size:6
Alignment explanation
Indices: 21652334--21652363 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
21652324 TAGCTATAAT
21652334 TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
21652364 AATAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:21655498 original size:20 final size:20
Alignment explanation
Indices: 21655473--21655510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21655463 CCAATGTGGT
* *
21655473 CCACACAGCCTCACACATAC
1 CCACACAACATCACACATAC
21655493 CCACACAACATCACACAT
1 CCACACAACATCACACAT
21655511 GCCTGTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (20 bp):
CCACACAACATCACACATAC
Found at i:21658955 original size:18 final size:18
Alignment explanation
Indices: 21658932--21658967 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21658922 ATTACTTAGC
21658932 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
21658950 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
21658968 GTCCACTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTAAGCTAGTCATTTT
Found at i:21660523 original size:40 final size:40
Alignment explanation
Indices: 21660468--21660585 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
21660458 GAAAAAAAAA
*
21660468 TATAACCGGGTTAAGTCCCGAAGGAATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
21660508 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* * *
21660548 TATAACCGGGTTAAGTCCCAAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
21660586 GTTACATCCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
Found at i:21664626 original size:15 final size:16
Alignment explanation
Indices: 21664608--21664641 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21664598 CTGTTCTCTT
*
21664608 TTTTTTGTTTC-TTTA
1 TTTTTTCTTTCTTTTA
21664623 TTTTTTCTTTCTTTTA
1 TTTTTTCTTTCTTTTA
21664639 TTT
1 TTT
21664642 CTTTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTA
Found at i:21664669 original size:8 final size:8
Alignment explanation
Indices: 21664658--21664691 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
21664648 TGTTTTATTA
21664658 TATTATAT
1 TATTATAT
21664666 TATTAT-T
1 TATTATAT
*
21664673 TAATATAT
1 TATTATAT
21664681 TATTATAT
1 TATTATAT
21664689 TAT
1 TAT
21664692 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:21665738 original size:19 final size:19
Alignment explanation
Indices: 21665714--21665776 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
21665704 AATCTTTAAG
21665714 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATGT
21665733 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATGT
*
21665752 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATGT
21665771 GATATG
1 GATATG
21665777 ATATGATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATGT
Found at i:21665776 original size:5 final size:5
Alignment explanation
Indices: 21665766--21665791 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21665756 TGCAATCTTA
21665766 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
21665792 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:21672447 original size:23 final size:23
Alignment explanation
Indices: 21672397--21672447 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
21672387 ACCTTTAATG
21672397 ATAATAATGTATAAATAAAAAAC
1 ATAATAATGTATAAATAAAAAAC
**
21672420 A-AATAATAGTATAAA-AAATGAC
1 ATAATAAT-GTATAAATAAAAAAC
21672442 ATAATA
1 ATAATA
21672448 TAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (23 bp):
ATAATAATGTATAAATAAAAAAC
Found at i:21672516 original size:22 final size:22
Alignment explanation
Indices: 21672453--21672516 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 22
21672443 TAATATAAAA
21672453 TAAT-TATAATATAT-AAT-AT
1 TAATGTATAATATATAAATAAT
* * *
21672472 GAAAGTAT-ATATGTAAA-AA-
1 TAATGTATAATATATAAATAAT
21672491 TAATGTATAATATATAAATAAT
1 TAATGTATAATATATAAATAAT
21672513 TAAT
1 TAAT
21672517 AAAGATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
19 13 0.39
20 14 0.42
21 2 0.06
22 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
TAATGTATAATATATAAATAAT
Found at i:21672526 original size:19 final size:18
Alignment explanation
Indices: 21672488--21672608 Score: 65
Period size: 19 Copynumber: 6.4 Consensus size: 18
21672478 ATATATGTAA
*
21672488 AAATAATGT-ATAATATAT
1 AAATAAT-TAATAAAATAT
21672506 AAATAATTAATAAAGATAT
1 AAATAATTAATAAA-ATAT
* *
21672525 AATACAAGTAA-AAATATAT
1 AA-ATAATTAATAAA-ATAT
21672544 AAATAA-TAATGTAAAATA-
1 AAATAATTAA--TAAAATAT
21672562 ATAATAATTTAA-AAATATAAT
1 A-AATAA-TTAATAAA-AT-AT
21672583 AAATAA-TAATAATAATAT
1 AAATAATTAATAA-AATAT
21672601 GAAATAAT
1 -AAATAAT
21672609 ATATGGTTAA
Statistics
Matches: 82, Mismatches: 5, Indels: 30
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.05
18 23 0.28
19 35 0.43
20 16 0.20
21 4 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATAATTAATAAAATAT
Found at i:21672546 original size:38 final size:36
Alignment explanation
Indices: 21672499--21672599 Score: 114
Period size: 38 Copynumber: 2.6 Consensus size: 36
21672489 AATAATGTAT
21672499 AATATATAAATAATTAATAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAATAAA-ATAATAATA-AAGTAAA
**
21672537 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA--TAAAATAATAATAAAGTAAA
21672575 AATATAATAAATAATAATAATAATA
1 AATAT-ATAAATAATAATAA-AATA
21672600 TGAAATAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
37 6 0.11
38 29 0.52
39 21 0.38
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATATAAATAATAATAAAATAATAATAAAGTAAA
Found at i:21672566 original size:16 final size:16
Alignment explanation
Indices: 21672545--21672609 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
21672535 AAAATATATA
*
21672545 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
*
21672561 AATAATAAT-TTAAA-
1 AATAATAATATAAAAT
21672575 AAT-ATAATA-AATAAT
1 AATAATAATATAA-AAT
*
21672590 AATAATAATATGAAAT
1 AATAATAATATAAAAT
21672606 AATA
1 AATA
21672610 TATGGTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
13 6 0.15
14 5 0.12
15 7 0.17
16 22 0.54
17 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:21672745 original size:20 final size:19
Alignment explanation
Indices: 21672717--21672758 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
21672707 AGGAAGATAT
21672717 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
21672736 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
21672756 TAA
1 TAA
21672759 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:21674608 original size:23 final size:20
Alignment explanation
Indices: 21674570--21674621 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 20
21674560 TGATAATAGA
21674570 AAAATATGAAGTAATAATATAAT
1 AAAATAT-AAGTAATAAT-T-AT
21674593 AAAATATAAGTAAATAATTAT
1 AAAATATAAGT-AATAATTAT
21674614 AAAATATA
1 AAAATATA
21674622 TATAATACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.36
22 5 0.18
23 13 0.46
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAATATAAGTAATAATTAT
Found at i:21674622 original size:23 final size:20
Alignment explanation
Indices: 21674562--21674623 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 20
21674552 TATTAATATG
*
21674562 ATAATAGAAAAATATGAAGTA
1 ATAATATAAAAATAT-AAGTA
21674583 ATAATATAATAAAATATAAGTAA
1 ATAATAT-A-AAAATATAAGT-A
21674606 ATAATTATAAAATATATA
1 ATAA-TATAAAA-ATATA
21674624 TAATACGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 6 0.17
22 8 0.23
23 18 0.51
24 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
ATAATATAAAAATATAAGTA
Found at i:21676426 original size:7 final size:7
Alignment explanation
Indices: 21676411--21676478 Score: 68
Period size: 7 Copynumber: 9.6 Consensus size: 7
21676401 CTTCTATTTC
21676411 AAAAA-A
1 AAAAAGA
21676417 AAAAAGA
1 AAAAAGA
21676424 AAAAGAGA
1 AAAA-AGA
21676432 AAAAA-A
1 AAAAAGA
*
21676438 TAAAAAAA
1 -AAAAAGA
*
21676446 TAAAAAGG
1 -AAAAAGA
21676454 AAAAAGA
1 AAAAAGA
21676461 AAAAAGA
1 AAAAAGA
*
21676468 AAAGAGA
1 AAAAAGA
21676475 AAAA
1 AAAA
21676479 TGGAGAGGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
6 6 0.11
7 33 0.62
8 14 0.26
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:21676432 original size:8 final size:8
Alignment explanation
Indices: 21676411--21676478 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
21676401 CTTCTATTTC
21676411 AAAA-AAA
1 AAAAGAAA
21676418 AAAAGAAA
1 AAAAGAAA
*
21676426 AAGAGAAA
1 AAAAGAAA
*
21676434 AAAATAAA
1 AAAAGAAA
*
21676442 AAAA-TAA
1 AAAAGAAA
*
21676449 AAAGGAAA
1 AAAAGAAA
*
21676457 AAGAAAAAA
1 AA-AAGAAA
21676466 GAAAAGAGAA
1 -AAAAGA-AA
21676476 AAA
1 AAA
21676479 TGGAGAGGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
7 9 0.19
8 24 0.51
9 10 0.21
10 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAGAAA
Found at i:21676450 original size:24 final size:22
Alignment explanation
Indices: 21676411--21676465 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
21676401 CTTCTATTTC
21676411 AAAAAAAAAAAGAAAAAGAGAAA
1 AAAAAAAAAAAGAAAAAG-GAAA
*
21676434 AAAATAAAAAAATAAAAAGGAAA
1 AAAA-AAAAAAAGAAAAAGGAAA
*
21676457 AAGAAAAAA
1 AAAAAAAAA
21676466 GAAAAGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 11 0.38
24 13 0.45
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAGGAAA
Found at i:21677578 original size:79 final size:79
Alignment explanation
Indices: 21677425--21678026 Score: 742
Period size: 79 Copynumber: 7.4 Consensus size: 79
21677415 CAAAATTCAA
*
21677425 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
*
21677490 GTGGAGCAGATCGAAGACT
61 GCGGAGCAGATCGAAGACT
* *
21677509 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCTCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
21677574 GCAGATCGAAGACT
66 GCAGATCGAAGACT
* * *
21677588 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTCGCAGATCTTATCGCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
21677653 GCAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* * * *
21677670 CACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
** * *
21677735 GTAGAGTAGATTGAAGACT
61 GCGGAGCAGATCGAAGACT
*
21677754 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
21677819 GTAGATCGAAGACT
66 GCAGATCGAAGACT
*
21677833 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
21677898 ACAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* *
21677915 CGCCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
*
21677978 GCAGAGCAGATCGAAGACGAT
61 GCGGAGCAGATCGAAGAC--T
* * *
21677999 GCACCTTAA-CCCCTAAGTAGTAGCGTAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAA
21678027 TAGACCAAAG
Statistics
Matches: 460, Mismatches: 39, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
79 221 0.48
81 2 0.00
82 75 0.16
83 2 0.00
84 86 0.19
85 33 0.07
87 41 0.09
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (79 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGAAGACT
Found at i:21677640 original size:38 final size:37
Alignment explanation
Indices: 21677432--21677901 Score: 190
Period size: 38 Copynumber: 11.6 Consensus size: 37
21677422 CAACGCCTTA
*
21677432 ATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
1 ATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTT
* * *
21677474 ATCTCCCTAAGCAGTAGTGG-AGCA-GATCGAAGACTCACCTT
1 ATC-CCCTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT
*
21677515 AATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTT
1 -ATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
* * * *
21677553 ATCTCTCTAAGCAGTAGCGG-AGCA-GATCGAAGACTCGCCTT
1 ATC-CCCTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT
*
21677594 AATCCCCTAAGTAGTAGGGTAACAGGTTCGCAGATCTT
1 -ATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
* * *
21677632 ATCGCCCTAAGCAGTAGCGG-AGCA-GATCGATGACGACTCACCTT
1 ATC-CCCTAAGCAGTAG-GGTAACAGGTTCG--CA-GA-T---CTT
* * *
21677676 AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTT
1 -ATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTT
* * *
21677719 ATCTCCCTAAGCAGTA--GTAGAGTAGATT-GAAGACTCGCCTT
1 ATC-CCCTAAGCAGTAGGGTA-A-CAGGTTCGCAGA-T---CTT
21677760 AATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
1 -ATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
** * *
21677798 ATCTCCCTAAGCAGTAGCGG-AGTA-GATCGAAGACTCGCCTT
1 ATC-CCCTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT
21677839 AATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
1 -ATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
21677877 ATCTCCCTAAGCAGTAGCGG-AACAG
1 ATC-CCCTAAGCAGTAG-GGTAACAG
21677902 ATCGATGACG
Statistics
Matches: 329, Mismatches: 42, Indels: 118
0.67 0.09 0.24
Matches are distributed among these distances:
37 38 0.12
38 81 0.25
39 9 0.03
40 8 0.02
41 81 0.25
42 45 0.14
43 37 0.11
44 20 0.06
45 4 0.01
46 1 0.00
47 2 0.01
48 1 0.00
50 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (37 bp):
ATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTT
Found at i:21677760 original size:166 final size:161
Alignment explanation
Indices: 21677425--21678026 Score: 756
Period size: 166 Copynumber: 3.7 Consensus size: 161
21677415 CAAAATTCAA
*
21677425 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGTA
*
21677490 GTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCA---CAGATCT
62 GCGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-ATTGCAGATCT
* *
21677552 TATCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACT
126 TATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
* *
21677588 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGG-TTCGCAGATCTTATCGCCCTAAGCAGTAGCGG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
* *
21677652 AGCAGATCGATGACGACTCACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATC
66 AGCAGATCGA--A-GACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT--A-TTGCAGATC
** *
21677717 TTATCTCCCTAAGCAGTAGTAGAGTAGATTGAAGACT
125 TTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
21677754 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
* * *
21677818 AGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-T-TCGCAGATCTTATCT
66 AGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCT
* *
21677881 CCCTAAGCAGTAGCGGAACAGATCGATGACGACT
131 CCCTAAGCAGTAGCGGAGCAGAT---TGAAGACT
* *
21677915 CGCCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGTA
* * *
21677978 GCAGAGCAGATCGAAGACGATGCACCTTAA-CCCCTAAGTAGTAGCGTAA
62 GCGGAGCAGATCGAAGAC--T-CACCTTAATCCCCTAAGCAGTAGGGTAA
21678027 TAGACCAAAG
Statistics
Matches: 389, Mismatches: 31, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
158 71 0.18
160 1 0.00
161 75 0.19
162 2 0.01
163 65 0.17
164 30 0.08
166 138 0.35
167 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (161 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
AGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATTGAAGACT
Found at i:21677857 original size:245 final size:245
Alignment explanation
Indices: 21677427--21678026 Score: 999
Period size: 245 Copynumber: 2.4 Consensus size: 245
21677417 AAATTCAACG
21677427 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
21677492 GGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
66 AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
* *
21677557 CTCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
*
21677622 CGCAGATCTTATCGCCCTAAGCAGTAGCGGAGCAGATCGATGACGACTCA
196 CGCAGATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* *
21677672 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
21677737 AGAGTAGATTGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
66 AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
*
21677802 CCCTAAGCAGTAGCGGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
* *
21677867 CGCAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCG
196 CGCAGATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* *
21677917 CCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
21677980 AGAGCAGATCGAAGACGATGCACCTTAA-CCCCTAAGTAGTAGCGTAA
66 AGAGCAGATCGAAGAC--T-CACCTTAATCCCCTAAGCAGTAGGGTAA
21678027 TAGACCAAAG
Statistics
Matches: 330, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
243 28 0.08
245 295 0.89
246 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (245 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
CGCAGATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
Found at i:21678204 original size:93 final size:93
Alignment explanation
Indices: 21678070--21678388 Score: 267
Period size: 93 Copynumber: 3.5 Consensus size: 93
21678060 GTTTGCACTG
* * *
21678070 AAGCAGATCCAAGATAACAAGATTTGGCTTCTCTATCTTTGACGGAGAGCAAATCGAAGACATAG
1 AAGCAGATCCAAGATAAC-AGATCTGGCATCTCCATCTTTGACGGAGAGCAAATCGAAGACATAG
*
21678135 CAGATTTGACTTCCGGATGTTCTCACACCA
65 CAGATTTGACTT-CAGATGTTCTCACACCA
* * *
21678165 AAGCAGATCCAAGATAACAGATCTGGAATCTCCAT-TTTGACGGAGAGC--A--G-ATACATGGC
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATCTTTGACGGAGAGCAAATCGAAGACATAGC
* * * **
21678224 AGATCTAACCTTCAGATGATT-T--TACTG
66 AGATTTGA-CTTCAGATG-TTCTCACACCA
* * * * * *
21678251 AAGCTGATCCAAGAT----GATTTGGCA--TCCTTGTGTTCAC-AAGGAGCAAATCGAAGACATA
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATCT-TTGACGGA-GAGCAAATCGAAGACATA
*
21678309 GCAGATTTGACTTTCAAATGTTCTCACACCA
64 GCAGATTTGAC-TTCAGATGTTCTCACACCA
* *
21678340 AAGCAGATCCAAGATAATAGATCTGGCATCTCCAT-TTCGACGGAGAGCA
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATCTTTGACGGAGAGCA
21678389 GATACATAGC
Statistics
Matches: 171, Mismatches: 32, Indels: 44
0.69 0.13 0.18
Matches are distributed among these distances:
80 4 0.02
81 2 0.01
82 15 0.09
84 1 0.01
86 20 0.12
87 21 0.12
88 19 0.11
89 22 0.13
91 1 0.01
93 29 0.17
94 15 0.09
95 22 0.13
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (93 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATCTTTGACGGAGAGCAAATCGAAGACATAGC
AGATTTGACTTCAGATGTTCTCACACCA
Found at i:21678338 original size:175 final size:175
Alignment explanation
Indices: 21678116--21678499 Score: 626
Period size: 175 Copynumber: 2.2 Consensus size: 175
21678106 CTTTGACGGA
* **
21678116 GAGCAAATCGAAGACATAGCAGATTTGACTTCCGGATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
* * *
21678181 ACAGATCTGGAATCTCCATTTTGACGGAGAGCAGATACATGGCAGATCTAACCTTCAGATGATTT
66 ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
* * * *
21678246 TACTGAAGCTGATCCA-AGATGATTTGGCATCCTTGTGTTCACAAG
131 TAATGAAGCAGAT-CATAGATGATTCGGCATCCTTATGTTCACAAG
21678291 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
* *
21678356 ATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
66 ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
*
21678421 TAATGAAGCAGATCATAGATGATTCGGCATCTTTATGTTCACAAG
131 TAATGAAGCAGATCATAGATGATTCGGCATCCTTATGTTCACAAG
*
21678466 GAGCAAATCGAAGACATAGCAGATTTGGCTTTCA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCA
21678500 CGTGTTTACG
Statistics
Matches: 194, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
174 2 0.01
175 192 0.99
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (175 bp):
GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
TAATGAAGCAGATCATAGATGATTCGGCATCCTTATGTTCACAAG
Found at i:21678980 original size:19 final size:19
Alignment explanation
Indices: 21678956--21679033 Score: 124
Period size: 19 Copynumber: 4.2 Consensus size: 19
21678946 AATCTTTAAG
*
21678956 GATATGCAATCTTCGATAT
1 GATATGCAATCTTAGATAT
*
21678975 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
21678994 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21679013 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21679030 GATA
1 GATA
21679034 CGATATGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21678986 original size:36 final size:35
Alignment explanation
Indices: 21678946--21679052 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 35
21678936 ATGGAAATAT
21678946 AATCTTTAAGGATATGCAATCTTCGATATGATATGC
1 AATC-TTAAGGATATGCAATCTTCGATATGATATGC
*
21678982 AATCTTAGATGTGATATGCAATCTTAGATATGATA--C
1 AATCTTA-A-G-GATATGCAATCTTCGATATGATATGC
*
21679018 AATCTT-A-GATATG--A--TACGATATGATATGC
1 AATCTTAAGGATATGCAATCTTCGATATGATATGC
21679047 AATCTT
1 AATCTT
21679053 GACGATATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
27 10 0.16
29 8 0.13
31 6 0.10
34 1 0.02
35 3 0.05
36 12 0.19
37 1 0.02
38 22 0.35
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTAAGGATATGCAATCTTCGATATGATATGC
Found at i:21679013 original size:14 final size:15
Alignment explanation
Indices: 21678994--21679031 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
21678984 TCTTAGATGT
21678994 GATATG-CAATCTTA
1 GATATGACAATCTTA
21679008 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
21679025 GATATGA
1 GATATGA
21679032 TACGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:21679090 original size:21 final size:22
Alignment explanation
Indices: 21679047--21679090 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
21679037 TATGATATGC
*
21679047 AATCTTGACGATATTATTTTGT
1 AATCTTGACGATATTAATTTGT
21679069 AATCTTGGA-GAT-TTAATTTGT
1 AATCTT-GACGATATTAATTTGT
21679090 A
1 A
21679091 GATATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 9 0.45
23 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (22 bp):
AATCTTGACGATATTAATTTGT
Found at i:21690656 original size:2 final size:2
Alignment explanation
Indices: 21690649--21690677 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21690639 TTTGATGTAC
21690649 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21690678 TTAAAAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21691562 original size:9 final size:9
Alignment explanation
Indices: 21691530--21691598 Score: 68
Period size: 10 Copynumber: 7.4 Consensus size: 9
21691520 CCGTCATGGT
21691530 AATTTTTTGA
1 AATTTTTT-A
*
21691540 AATTTTGTGA
1 AATTTT-TTA
*
21691550 AATTTTTTT
1 AATTTTTTA
*
21691559 AATTTATTTT
1 AATTT-TTTA
*
21691569 TATTTTTTA
1 AATTTTTTA
21691578 AATTTTTTA
1 AATTTTTTA
21691587 AA-TTTTTA
1 AATTTTTTA
21691595 AATT
1 AATT
21691599 ATTCATTGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
8 8 0.16
9 20 0.40
10 21 0.42
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
AATTTTTTA
Found at i:21691574 original size:18 final size:18
Alignment explanation
Indices: 21691553--21691601 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
21691543 TTTGTGAAAT
* *
21691553 TTTTTTAATTTATTTTTA
1 TTTTTTAAATTATTTTAA
21691571 TTTTTTAAATT-TTTTAA
1 TTTTTTAAATTATTTTAA
*
21691588 ATTTTTAAATTATT
1 TTTTTTAAATTATT
21691602 CATTGAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTAAATTATTTTAA
Found at i:21691951 original size:3 final size:3
Alignment explanation
Indices: 21691943--21691977 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21691933 TCAAGTCCAA
21691943 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21691978 ACCCAATACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21693637 original size:19 final size:21
Alignment explanation
Indices: 21693613--21693668 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
21693603 AGCTGCCGAA
21693613 CTTCTTTTCTTTTTT-TTC-C
1 CTTCTTTTCTTTTTTCTTCTC
*
21693632 CTTCTTATCTGTTTTTCTTCTC
1 CTTCTTTTCT-TTTTTCTTCTC
21693654 CTTCATTTT-TTTTTT
1 CTTC-TTTTCTTTTTT
21693669 GATTAGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 8 0.26
22 6 0.19
23 3 0.10
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.71
Consensus pattern (21 bp):
CTTCTTTTCTTTTTTCTTCTC
Found at i:21694321 original size:31 final size:31
Alignment explanation
Indices: 21694283--21694357 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
21694273 CGTGTAACCT
21694283 ACACGGGCGTGT-GAGCCCACACAGGCAAGGC
1 ACACGGGCGTGTAG-GCCCACACAGGCAAGGC
21694314 ACACGGGCGTGTAGGCCCACACAGGCAAGGC
1 ACACGGGCGTGTAGGCCCACACAGGCAAGGC
*
21694345 ACACGGGCATGTA
1 ACACGGGCGTGTA
21694358 AGCTCCTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.35, T:0.08
Consensus pattern (31 bp):
ACACGGGCGTGTAGGCCCACACAGGCAAGGC
Found at i:21696082 original size:23 final size:23
Alignment explanation
Indices: 21696052--21696098 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21696042 CCTCAAAGTT
21696052 TGAAAACCCTAGCTATTTAGTCC
1 TGAAAACCCTAGCTATTTAGTCC
21696075 TGAAAACCCTAGCTATTTAGTCC
1 TGAAAACCCTAGCTATTTAGTCC
21696098 T
1 T
21696099 TCCTAGTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (23 bp):
TGAAAACCCTAGCTATTTAGTCC
Found at i:21697349 original size:85 final size:85
Alignment explanation
Indices: 21697253--21697484 Score: 315
Period size: 85 Copynumber: 2.7 Consensus size: 85
21697243 AAAAACCCAG
* *
21697253 TGGCAGTTTGTTTAAATTGCTAA-TATGTTGTGCACTCACAACAAGTGGCAGTAATTGCAAATAT
1 TGGCAGTTTGTTTAAATTGC-AACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATAT
21697317 GTGACTCGTCCACAAACCAAA
65 GTGACTCGTCCACAAACCAAA
* * *
21697338 TGGCAGTTTGTTTAATTTGCAACCACGTTATGCACTCACAACAAGTGGCAGTAACTGCAAATATG
1 TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
* * * *
21697403 TGGCTCGTCCCCAAACCCAG
66 TGACTCGTCCACAAACCAAA
* * * *
21697423 TGGTAGATTGTTT-AATCTGCAACCATGTTGTGCACTCACAACAAGTGACAGTAACTGGAAAT
1 TGGCAGTTTGTTTAAAT-TGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAAT
21697485 GTTTTTATCT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
84 4 0.03
85 125 0.97
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
TGACTCGTCCACAAACCAAA
Found at i:21700287 original size:17 final size:16
Alignment explanation
Indices: 21700261--21700295 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21700251 CCACACGGGC
*
21700261 TGAGCACACGCCCGTG
1 TGAGCACACGCCCATG
21700277 TGAGCCACACGCCCATG
1 TGAG-CACACGCCCATG
21700294 TG
1 TG
21700296 GCAGCCCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.14
Consensus pattern (16 bp):
TGAGCACACGCCCATG
Found at i:21702383 original size:24 final size:25
Alignment explanation
Indices: 21702330--21702377 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
21702320 TTGGCCATCT
21702330 CGAGCTTCCTGTTATATAGTTCTTG
1 CGAGCTTCCTGTTATATAGTTCTTG
21702355 CGAGCTTCCTGTTA-ATAGTTCTT
1 CGAGCTTCCTGTTATATAGTTCTT
21702378 CGGAGCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.44
Consensus pattern (25 bp):
CGAGCTTCCTGTTATATAGTTCTTG
Found at i:21703245 original size:61 final size:61
Alignment explanation
Indices: 21703150--21703272 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
21703140 GCCAAAATAG
21703150 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
21703211 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
21703272 G
1 G
21703273 CTCATATCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (61 bp):
GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
Found at i:21704934 original size:28 final size:28
Alignment explanation
Indices: 21704902--21704956 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21704892 CACGGGCTGT
21704902 TCACACAAGTTGTCAGGTATCTAAACCC
1 TCACACAAGTTGTCAGGTATCTAAACCC
21704930 TCACACAAGTTGTCAGGTATCTAAACC
1 TCACACAAGTTGTCAGGTATCTAAACC
21704957 ACTCTGGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (28 bp):
TCACACAAGTTGTCAGGTATCTAAACCC
Found at i:21706937 original size:13 final size:13
Alignment explanation
Indices: 21706919--21706943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21706909 GTCTAACACA
21706919 TGGCCGTGTGACT
1 TGGCCGTGTGACT
21706932 TGGCCGTGTGAC
1 TGGCCGTGTGAC
21706944 CCCTTCACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (13 bp):
TGGCCGTGTGACT
Found at i:21708424 original size:30 final size:30
Alignment explanation
Indices: 21708390--21708453 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
21708380 AATGACCGAA
*
21708390 GAATGTGAACTTTCTACTTACGACCGTCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
21708420 GAATGTGAACTTTCTACTTACGACCATCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
21708450 GAAT
1 GAAT
21708454 TAAATTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (30 bp):
GAATGTGAACTTTCTACTTACGACCATCAC
Found at i:21716309 original size:18 final size:18
Alignment explanation
Indices: 21716272--21716311 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21716262 ATCATGTGGT
* **
21716272 AGGCCGTGTAACAGTTTG
1 AGGCCATGTAACAGGATG
21716290 AGGCCATGTAACAGGATG
1 AGGCCATGTAACAGGATG
21716308 AGGC
1 AGGC
21716312 TGTGTGGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (18 bp):
AGGCCATGTAACAGGATG
Found at i:21725910 original size:29 final size:30
Alignment explanation
Indices: 21725875--21725940 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
21725865 TAAGAATTAG
* *
21725875 ATTAAATTAGTTCTTCTATTATTAAATA-A
1 ATTAAATTAATTCTTCTACTATTAAATAGA
* * *
21725904 TTTAAATTAATTTTTGTACTATTAAATAGA
1 ATTAAATTAATTCTTCTACTATTAAATAGA
21725934 ATTAAAT
1 ATTAAAT
21725941 AAATCTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (30 bp):
ATTAAATTAATTCTTCTACTATTAAATAGA
Found at i:21732633 original size:84 final size:84
Alignment explanation
Indices: 21732488--21732650 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 84
21732478 TTCTGCACCA
* * * * * *
21732488 ATGCCATATCCCAAATATGGTCTTACATGTAACTCGTATCGATGCCAATAGCCCAGCTATGGTCT
1 ATGCCATATCCCAAATATGGTCTTACACGAAACTCATATCAATGCCAATAGCCAAGATATGGTCT
*
21732553 TACACGAAGTCTCATACCG
66 TACACGAAATCTCATACCG
* * *
21732572 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTAATGCC-ATATCCAAGATATGGTC
1 ATGCCATATCCCAAATATGGTCTTACACGAAA-CTCATATCAATGCCAATAGCCAAGATATGGTC
21732636 TTACACGAAATCTCA
65 TTACACGAAATCTCA
21732651 AAAACCCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 57 0.84
85 11 0.16
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (84 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAACTCATATCAATGCCAATAGCCAAGATATGGTCT
TACACGAAATCTCATACCG
Found at i:21732645 original size:42 final size:42
Alignment explanation
Indices: 21732486--21732650 Score: 190
Period size: 42 Copynumber: 3.9 Consensus size: 42
21732476 AGTTCTGCAC
* * *
21732486 CAATGCCATATCCCAA-ATATGGTCTTACATGTAA-CTCGTAT
1 CAATGCCATAT-CCAAGATATGGTCTTACACGAAATCTCATAT
* * * * * *
21732527 CGATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATAC
1 CAATGCC-ATATCCAAGATATGGTCTTACACGAAATCTCATAT
* *
21732570 CGATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
1 CAATGCCATATCCAAGATATGGTCTTACACGAAATCTCATAT
*
21732612 TAATGCCATATCCAAGATATGGTCTTACACGAAATCTCA
1 CAATGCCATATCCAAGATATGGTCTTACACGAAATCTCA
21732651 AAAACCCTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 9 0.09
42 84 0.80
43 12 0.11
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCAAGATATGGTCTTACACGAAATCTCATAT
Found at i:21736604 original size:22 final size:23
Alignment explanation
Indices: 21736578--21736623 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21736568 CAACCAAACC
21736578 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21736600 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21736623 A
1 A
21736624 CGTCATCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21736629 original size:23 final size:23
Alignment explanation
Indices: 21736585--21736629 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21736575 ACCAATTCAA
*
21736585 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
21736608 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
21736630 CTCATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:21740497 original size:2 final size:2
Alignment explanation
Indices: 21740490--21740522 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21740480 TCTTTTGGGG
21740490 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21740523 GCTACTCAAA
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21740654 original size:23 final size:24
Alignment explanation
Indices: 21740626--21740670 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21740616 AGAAAAGATC
21740626 TTTCTTTCCA-GTGTTTGTTCCCT
1 TTTCTTTCCAGGTGTTTGTTCCCT
* *
21740649 TTTCTTTGCAGGTTTTTGTTCC
1 TTTCTTTCCAGGTGTTTGTTCC
21740671 TTGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (24 bp):
TTTCTTTCCAGGTGTTTGTTCCCT
Found at i:21748321 original size:15 final size:16
Alignment explanation
Indices: 21748278--21748322 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
21748268 GCTCTTTTAG
21748278 ATAATTTTAAAT-TTT
1 ATAATTTTAAATATTT
*
21748293 ATAAGTTATAAATATTT
1 ATAA-TTTTAAATATTT
21748310 A-AATTTTAAATAT
1 ATAATTTTAAATAT
21748323 AATAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 9 0.35
17 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATAATTTTAAATATTT
Found at i:21748662 original size:27 final size:28
Alignment explanation
Indices: 21748623--21748677 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
21748613 AAATTCAAAT
* * *
21748623 AATAAACTCATTATTGTCC-AAACTCAA
1 AATAAACTAATTATAGCCCAAAACTCAA
21748650 AATAAACTAATTATAGCCCAAAACTCAA
1 AATAAACTAATTATAGCCCAAAACTCAA
21748678 GTCCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (28 bp):
AATAAACTAATTATAGCCCAAAACTCAA
Found at i:21748898 original size:23 final size:24
Alignment explanation
Indices: 21748843--21748900 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 24
21748833 ACTATTGGTG
21748843 CTATATC-TTTTATTATAATAATA
1 CTATATCATTTTATTATAATAATA
21748866 CTTAATATATCATTTTATTAT-ATAATA
1 C----TATATCATTTTATTATAATAATA
21748893 CTATATCA
1 CTATATCA
21748901 CATACTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
23 8 0.27
27 13 0.43
28 9 0.30
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (24 bp):
CTATATCATTTTATTATAATAATA
Found at i:21749147 original size:18 final size:20
Alignment explanation
Indices: 21749124--21749164 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21749114 TATCATAATC
21749124 TATAATA-TAATA-ATTATA
1 TATAATAGTAATACATTATA
*
21749142 TATAATAGTACTACATTATA
1 TATAATAGTAATACATTATA
21749162 TAT
1 TAT
21749165 TACTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
TATAATAGTAATACATTATA
Found at i:21752476 original size:18 final size:18
Alignment explanation
Indices: 21752455--21752489 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21752445 AATAAATTAA
*
21752455 AGTATAATAATAAAAGTT
1 AGTATAATAAAAAAAGTT
21752473 AGTATAATAAAAAAAGT
1 AGTATAATAAAAAAAGT
21752490 AAAGAAATAA
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:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AGTATAATAAAAAAAGTT
Found at i:21752498 original size:17 final size:18
Alignment explanation
Indices: 21752478--21752511 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21752468 AAGTTAGTAT
21752478 AATAAAAAAAG-TAAAGA
1 AATAAAAAAAGATAAAGA
*
21752495 AATAAAGAAAGATAAAG
1 AATAAAAAAAGATAAAG
21752512 CCATACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AATAAAAAAAGATAAAGA
Found at i:21752554 original size:12 final size:13
Alignment explanation
Indices: 21752525--21752564 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
21752515 TACAAATTAG
*
21752525 AAAGAAAAGAAAAA
1 AAAG-AAAGAAGAA
21752539 AAAGAAA-AAGAA
1 AAAGAAAGAAGAA
21752551 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
21752564 A
1 A
21752565 GGAGAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 9 0.38
14 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:21768134 original size:46 final size:46
Alignment explanation
Indices: 21768084--21768259 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 46
21768074 TGGTTGAGCA
*
21768084 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
21768130 TCCGAACTCATTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
21768175 CATCCGAGCTCATTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
21768223 -CTTGAGCTCGTTGATTTGAGTCTGAGTTCACTTATGG
1 TC-CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
21768260 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 2 0.02
46 59 0.55
47 28 0.26
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21769903 original size:37 final size:37
Alignment explanation
Indices: 21769853--21769924 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
21769843 CGCATTATAT
21769853 GTACAAACTTGTTGTACACAAACAAAGAACATAGTAC
1 GTACAAACTTGTTGTACACAAACAAAGAACATAGTAC
* * *
21769890 GTACAAACTTGTTGTATACAAATAGAGAACATAGT
1 GTACAAACTTGTTGTACACAAACAAAGAACATAGT
21769925 TAAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (37 bp):
GTACAAACTTGTTGTACACAAACAAAGAACATAGTAC
Found at i:21771794 original size:23 final size:23
Alignment explanation
Indices: 21771764--21771813 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
21771754 AGAGGTCTTC
21771764 TTAAAGACATTGGAGTTCGAAAG
1 TTAAAGACATTGGAGTTCGAAAG
21771787 TTAAAGACATTGGAGTTCGAAAG
1 TTAAAGACATTGGAGTTCGAAAG
21771810 TTAA
1 TTAA
21771814 GTTTTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (23 bp):
TTAAAGACATTGGAGTTCGAAAG
Found at i:21774734 original size:20 final size:20
Alignment explanation
Indices: 21774706--21774744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21774696 TTGTACTGGA
* * *
21774706 TTTGTACTTTGGTGTCTCTG
1 TTTGCACTTCGGTGCCTCTG
21774726 TTTGCACTTCGGTGCCTCT
1 TTTGCACTTCGGTGCCTCT
21774745 ATTATGCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:21775724 original size:24 final size:24
Alignment explanation
Indices: 21775692--21775748 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
21775682 AAAAATGATG
*
21775692 CACACGGCCTGGGACACGAGTTGT
1 CACACGGCCTAGGACACGAGTTGT
* *
21775716 CACACGGCCTAGGACATGGGTTGT
1 CACACGGCCTAGGACACGAGTTGT
*
21775740 CATACGGCC
1 CACACGGCC
21775749 GTGTACCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.18
Consensus pattern (24 bp):
CACACGGCCTAGGACACGAGTTGT
Found at i:21777121 original size:2 final size:2
Alignment explanation
Indices: 21777114--21777153 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
21777104 AGATTATAAC
*
21777114 CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21777154 TATATATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:21797515 original size:39 final size:39
Alignment explanation
Indices: 21797461--21797537 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
21797451 AATTTCACAT
*
21797461 TGGTACAGATGATAGTTTGTACTTTTGAAATAAATTATA
1 TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTATA
*
21797500 TGGTATAGATGATAGTTTGTACTTTTGAAACAAATTAT
1 TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTAT
21797538 GTATTTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (39 bp):
TGGTACAGATGATAGTTTGTACTTTTGAAACAAATTATA
Found at i:21802579 original size:42 final size:42
Alignment explanation
Indices: 21802520--21802603 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
21802510 ATTTTACATG
*
21802520 GCAAACACATACTCATGGGTTTCGAGTACGTATTTGTGCTAT
1 GCAAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
21802562 GCAAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
1 GCAAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
21802604 CTCTTAGCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GCAAACACATACTCATGGGTTTCGAGTACGTATCTGTGCTAT
Found at i:21804572 original size:44 final size:42
Alignment explanation
Indices: 21804517--21804668 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
21804507 ATGTATTATT
**
21804517 GTGTAAGACCACGTCTGGGATGTTGGCATCG-ATTTGGTATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTT-G-ATTT-C
*
21804561 GTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
* * * * *
21804603 GTGTAAGACC-CTATATGGGACAGTGGCATTGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTTC
* *
21804646 ATATAAGACCACGTCTGGGACAT
1 GTGTAAGACCACGTCTGGGACAT
21804669 CAGAATTGTA
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 30 0.33
44 30 0.33
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
Found at i:21804622 original size:42 final size:43
Alignment explanation
Indices: 21804517--21804668 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 43
21804507 ATGTATTATT
* **
21804517 GTGTAAGACCACGTCTGGGATGTTGGCATCG-ATTTGGTATTTAC
1 GTGTAAGACCACGTTTGGGACATTGGCATCGTATTT-G-ATTTAC
21804561 GTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTT-C
1 GTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTAC
* *
21804603 GTGTAAGACC-C-TATATGGGACAGTGGCATTGATATTTGA-TTAC
1 GTGTAAGACCACGT-T-TGGGACATTGGCATCG-TATTTGATTTAC
* * *
21804646 ATATAAGACCACGTCTGGGACAT
1 GTGTAAGACCACGTTTGGGACAT
21804669 CAGAATTGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 27 0.29
43 27 0.29
44 30 0.33
45 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTAC
Found at i:21808421 original size:6 final size:6
Alignment explanation
Indices: 21808401--21808444 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
21808391 GATAATACCC
*
21808401 TTTCTT TCT-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
21808445 ACATTGGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:21818052 original size:40 final size:40
Alignment explanation
Indices: 21817995--21818070 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
21817985 ACACACCATG
*
21817995 TGGGGATAAAATCGACCCACCTATCCCTACAAACCAAATA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
* * *
21818035 TGGGGATAAAATTGACCCATCTAACCCTACATACCA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCA
21818071 TAAAGTATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
Found at i:21825609 original size:20 final size:20
Alignment explanation
Indices: 21825584--21825623 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21825574 TTAAAAAATG
*
21825584 GGCTCACAGGCTCATGTGGC
1 GGCTCACAGCCTCATGTGGC
21825604 GGCTCACAGCCTCATGTGGC
1 GGCTCACAGCCTCATGTGGC
21825624 CTACCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (20 bp):
GGCTCACAGCCTCATGTGGC
Found at i:21828162 original size:17 final size:16
Alignment explanation
Indices: 21828136--21828185 Score: 75
Period size: 15 Copynumber: 3.1 Consensus size: 16
21828126 CTGTAGATGC
21828136 AACCATAGTATTGAAA
1 AACCATAGTATTGAAA
*
21828152 ATACTATAGTATTG-AA
1 A-ACCATAGTATTGAAA
21828168 AACCATAGTATTGAAA
1 AACCATAGTATTGAAA
21828184 AA
1 AA
21828186 ACTTTAACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.37
16 8 0.27
17 11 0.37
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (16 bp):
AACCATAGTATTGAAA
Found at i:21828186 original size:17 final size:17
Alignment explanation
Indices: 21828136--21828187 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
21828126 CTGTAGATGC
21828136 AACCATAGTATTGAAAA
1 AACCATAGTATTGAAAA
* *
21828153 TACTATAGTATTG--AA
1 AACCATAGTATTGAAAA
21828168 AACCATAGTATTGAAAA
1 AACCATAGTATTGAAAA
21828185 AAC
1 AAC
21828188 TTTAACCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.45
17 16 0.55
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
AACCATAGTATTGAAAA
Found at i:21836958 original size:23 final size:23
Alignment explanation
Indices: 21836923--21836997 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 23
21836913 AAAACCTAAT
21836923 AAAAATAAACTTAAAGA-AAAATA
1 AAAAATAAACTTAAA-ATAAAATA
**
21836946 AAAAATAGTCTTAAAATAAAATA
1 AAAAATAAACTTAAAATAAAATA
*
21836969 AAAGTAA-AAACATAAAATAATAAATA
1 AAA--AATAAACTTAAAAT-A-AAATA
21836995 AAA
1 AAA
21836998 GTTTTTAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 22 0.52
24 8 0.19
25 3 0.07
26 8 0.19
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAAATAAACTTAAAATAAAATA
Found at i:21846408 original size:18 final size:18
Alignment explanation
Indices: 21846382--21846422 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
21846372 GAGGTTGTCC
*
21846382 GTGGGGTGTATCGCTGTG
1 GTGGCGTGTATCGCTGTG
21846400 GTGGCGTGTATCGCTGTG
1 GTGGCGTGTATCGCTGTG
21846418 GTGGC
1 GTGGC
21846423 CTTCTTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.15, G:0.49, T:0.32
Consensus pattern (18 bp):
GTGGCGTGTATCGCTGTG
Found at i:21848782 original size:3 final size:3
Alignment explanation
Indices: 21848694--21848765 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
21848684 AACTAAAACA
*
21848694 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
21848742 AAG AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG
21848766 CAGCAGCATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21848900 original size:21 final size:21
Alignment explanation
Indices: 21848854--21848900 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
21848844 AACTCCATGT
* *
21848854 CTTTGCTCTCTTCTTCTTGTT
1 CTTTGCTCTCTTCCTCTTGTA
*
21848875 GTTTGCTCTCTTCCTC-TGTAA
1 CTTTGCTCTCTTCCTCTTGT-A
21848896 CTTTG
1 CTTTG
21848901 TAACCTTCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.04, C:0.28, G:0.13, T:0.55
Consensus pattern (21 bp):
CTTTGCTCTCTTCCTCTTGTA
Found at i:21855916 original size:70 final size:69
Alignment explanation
Indices: 21855789--21855995 Score: 290
Period size: 70 Copynumber: 3.0 Consensus size: 69
21855779 GTTCTACGAA
* * * *
21855789 TATAGCGATTGGTAGTTATTCCACATATGTTGT-GACTACCGTAGCTCTATATGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAGGT
21855853 ATAAG
65 ATAAG
* * * *
21855858 TGTGGTGATTGGTAGTAATTCTGCATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATTCT-CATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAGGT
21855923 ATAAG
65 ATAAG
* *
21855928 TATAGTGATTAGTAGTAATTCCTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAAGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAGGT
21855993 ATA
65 ATA
21855996 TGATTTTCCC
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
68 1 0.01
69 26 0.21
70 92 0.76
71 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (69 bp):
TATAGTGATTGGTAGTAATTCTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAGGTA
TAAG
Found at i:21857375 original size:10 final size:10
Alignment explanation
Indices: 21857356--21857405 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
21857346 TTAAATTCTA
21857356 AAAGATAAAT
1 AAAGATAAAT
21857366 ACAA-ATAAAT
1 A-AAGATAAAT
*
21857376 AAAGATAATT
1 AAAGATAAAT
21857386 AAAGATAAAT
1 AAAGATAAAT
*
21857396 AAAAATAAAT
1 AAAGATAAAT
21857406 CCTCAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21859240 original size:12 final size:11
Alignment explanation
Indices: 21859232--21859292 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
21859222 AAAATAAAGT
21859232 AATAAATAATAA
1 AATAAATAAT-A
21859244 AATAAAATAATA
1 AAT-AAATAATA
*
21859256 AAT-ACTAATAA
1 AATAAATAAT-A
*
21859267 AATGAAATAAAA
1 AAT-AAATAATA
21859279 TAATAAATAATA
1 -AATAAATAATA
21859291 AA
1 AA
21859293 AATTAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 15 0.38
13 14 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:21859268 original size:23 final size:20
Alignment explanation
Indices: 21859222--21859285 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
21859212 TCAATATCCA
*
21859222 AAAATAAAGTAATAAATAAT
1 AAAATAAAATAATAAATAAT
*
21859242 AAAATAAAATAATAAATACT
1 AAAATAAAATAATAAATAAT
21859262 --AATAAAATGAAATAAAATAAT
1 AAAATAAAAT--AAT-AAATAAT
21859283 AAA
1 AAA
21859286 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.22
20 21 0.58
21 6 0.17
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAATAATAAATAAT
Found at i:21859290 original size:10 final size:10
Alignment explanation
Indices: 21859231--21859295 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
21859221 AAAAATAAAG
21859231 TAATAAATAA
1 TAATAAATAA
*
21859241 TAA-AATAAAA
1 TAATAA-ATAA
*
21859251 TAATAAATAC
1 TAATAAATAA
*
21859261 TAATAAAATGA
1 TAAT-AAATAA
21859272 -AAT-AA-AA
1 TAATAAATAA
21859279 TAATAAATAA
1 TAATAAATAA
21859289 TAA-AAAT
1 TAATAAAT
21859296 TAAGAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 8 0.19
10 23 0.53
11 6 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:21859314 original size:35 final size:35
Alignment explanation
Indices: 21859247--21859323 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
21859237 ATAATAAAAT
* * *
21859247 AAAATAATAAATACTAATAAAATGAAATAAAATAA
1 AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
* *
21859282 TAAATAATAAAAATTAAGAAAA-GTAAAAAAAATAA
1 AAAATAATAAAAACTAAGAAAATG-AAAAAAAATAA
21859317 AAAATAA
1 AAAATAA
21859324 AGGTTGGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (35 bp):
AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
Found at i:21865103 original size:33 final size:33
Alignment explanation
Indices: 21865066--21865131 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
21865056 TTGAGCCTAC
21865066 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
21865099 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
21865132 GGGACTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (33 bp):
TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
Found at i:21873231 original size:30 final size:30
Alignment explanation
Indices: 21873196--21873269 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
21873186 ATGATACATC
* *
21873196 CACACGACCATTCGAGGCGGCTGTGGGAGA
1 CACACGACCATTCAAGGCGGCCGTGGGAGA
*
21873226 CACACGGCCATTCAAGGCGGCCGTGGGAGA
1 CACACGACCATTCAAGGCGGCCGTGGGAGA
*
21873256 CACACGGCC-TTCAA
1 CACACGACCATTCAA
21873270 TATGGGCGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 5 0.12
30 36 0.88
ACGTcount: A:0.24, C:0.31, G:0.32, T:0.12
Consensus pattern (30 bp):
CACACGACCATTCAAGGCGGCCGTGGGAGA
Found at i:21873920 original size:31 final size:31
Alignment explanation
Indices: 21873854--21873945 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 31
21873844 CAGCCACCTT
21873854 TTTCT-TCTCTATT-TTTCTTTCTTTTCTTTCCCC
1 TTTCTCTCTCT-TTCTTT-TTTCTTTTC-TT-CCC
21873887 TTTCTCCTCTCTTTCTTTTTTCTTTTCTT-CC
1 TTTCT-CTCTCTTTCTTTTTTCTTTTCTTCCC
*
21873918 TTTCTCTCCTCTGTTC-TTTCTCTTTTCT
1 TTTCTCT-CTCT-TTCTTTTTTCTTTTCT
21873946 CCTCTCTTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.04
31 22 0.42
32 3 0.06
33 7 0.13
34 11 0.21
35 8 0.15
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTCTCTCTCTTTCTTTTTTCTTTTCTTCCC
Found at i:21873948 original size:21 final size:22
Alignment explanation
Indices: 21873917--21873957 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21873907 TCTTTTCTTC
*
21873917 CTTTCTCTCCTCTGTTCTTTCT
1 CTTTCTCTCCTCTCTTCTTTCT
21873939 CTTT-TCTCCTCTCTTCTTT
1 CTTTCTCTCCTCTCTTCTTT
21873958 TTTTTCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (22 bp):
CTTTCTCTCCTCTCTTCTTTCT
Found at i:21873959 original size:16 final size:17
Alignment explanation
Indices: 21873887--21873959 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
21873877 TTCTTTCCCC
21873887 TTTCTCCTCTCTTTCTT
1 TTTCTCCTCTCTTTCTT
* * *
21873904 TTT-TCTTTTCTTCCTT
1 TTTCTCCTCTCTTTCTT
*
21873920 TCTCTCCTCTGTTCTTTCTCT
1 TTTCTCCTC---TCTTTCT-T
21873941 TTTCTCCTCTC-TTCTT
1 TTTCTCCTCTCTTTCTT
21873957 TTT
1 TTT
21873960 TTTCCTCCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
16 16 0.37
17 10 0.23
18 2 0.05
20 6 0.14
21 9 0.21
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (17 bp):
TTTCTCCTCTCTTTCTT
Found at i:21878025 original size:30 final size:30
Alignment explanation
Indices: 21877990--21878079 Score: 155
Period size: 30 Copynumber: 3.0 Consensus size: 30
21877980 ACACGGCCTA
21877990 GGCAGTTCCACATGGGTAATCCACACGCCC
1 GGCAGTTCCACATGGGTAATCCACACGCCC
21878020 GGCAGTTCCACATGGGTAAT-CACACGCCC
1 GGCAGTTCCACATGGGTAATCCACACGCCC
* *
21878049 GGAAGTTCCATATGGGTAATCCACACGCCC
1 GGCAGTTCCACATGGGTAATCCACACGCCC
21878079 G
1 G
21878080 TGTGTGACAC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
29 27 0.47
30 30 0.53
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (30 bp):
GGCAGTTCCACATGGGTAATCCACACGCCC
Found at i:21878055 original size:29 final size:30
Alignment explanation
Indices: 21877993--21878079 Score: 149
Period size: 29 Copynumber: 2.9 Consensus size: 30
21877983 CGGCCTAGGC
*
21877993 AGTTCCACATGGGTAATCCACACGCCCGGC
1 AGTTCCACATGGGTAATCCACACGCCCGGA
21878023 AGTTCCACATGGGTAAT-CACACGCCCGGA
1 AGTTCCACATGGGTAATCCACACGCCCGGA
*
21878052 AGTTCCATATGGGTAATCCACACGCCCG
1 AGTTCCACATGGGTAATCCACACGCCCG
21878080 TGTGTGACAC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.18
Consensus pattern (30 bp):
AGTTCCACATGGGTAATCCACACGCCCGGA
Found at i:21879796 original size:10 final size:10
Alignment explanation
Indices: 21879777--21879826 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
21879767 TTAAATTCTA
21879777 AAAGATAAAT
1 AAAGATAAAT
21879787 ACAA-ATAAAT
1 A-AAGATAAAT
*
21879797 AAAGATAATT
1 AAAGATAAAT
21879807 AAAGATAAAT
1 AAAGATAAAT
*
21879817 AAAAATAAAT
1 AAAGATAAAT
21879827 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21883071 original size:31 final size:32
Alignment explanation
Indices: 21883036--21883104 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
21883026 TTTAACATCC
* *
21883036 CAGTGACTT-AAAT-AAAAGCTTCCGAATAGTT
1 CAGTGACTTAAAATGAAAA-CTTCCAAATAATT
*
21883067 CAGTGACTTAAAATGAAAACTTTCAAATAATT
1 CAGTGACTTAAAATGAAAACTTCCAAATAATT
21883099 CAGTGA
1 CAGTGA
21883105 TCATTTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 20 0.61
33 4 0.12
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (32 bp):
CAGTGACTTAAAATGAAAACTTCCAAATAATT
Found at i:21887455 original size:23 final size:23
Alignment explanation
Indices: 21887419--21887478 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
21887409 ACATACAATC
* * *
21887419 AATATTATATTTTAAATTATTAT
1 AATATAATAATTTAAATTAATAT
*
21887442 AATATAATAATTTAACTTAATAT
1 AATATAATAATTTAAATTAATAT
21887465 -AT-TAATAA-TTAAAT
1 AATATAATAATTTAAAT
21887479 GAAATTCACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 2 0.06
23 19 0.59
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATAATAATTTAAATTAATAT
Found at i:21889215 original size:43 final size:43
Alignment explanation
Indices: 21889152--21889430 Score: 316
Period size: 43 Copynumber: 6.6 Consensus size: 43
21889142 GTGTAAAAGG
* *
21889152 CGCCGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * *
21889195 CACCGCTAAAGAACGTGACCTTTAGCGGCACTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * *
21889238 TGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* *
21889281 CGTCGCTAAAGAATGTGACCTTTAGCGGCGCTTTTC--AC--A
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * *
21889320 CACCGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCAT-ACAAA
* *
21889363 CGCCGCTATAGAACGTGACCTTTGGCGGCGCTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * *
21889406 CGTCGCTAAAGAACCTGACATTTAG
1 CGCCGCTAAAGAACGTGACCTTTAG
21889431 AAAAGTGCCG
Statistics
Matches: 197, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
39 31 0.16
41 3 0.02
43 162 0.82
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
Found at i:21889251 original size:86 final size:85
Alignment explanation
Indices: 21889153--21889430 Score: 348
Period size: 86 Copynumber: 3.3 Consensus size: 85
21889143 TGTAAAAGGC
* * * * *
21889153 GCCGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAACACCGCTAAAGAACGTGACCTTT
1 GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTT
*
21889218 AGCGGCACTTTTCACACAAA
66 AGCGGCGCTTTTCACACAAA
* * * * *
21889238 TGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTACACAAACGTCGCTAAAGAATGTGACCTT
1 -GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTT
21889303 TAGCGGCGCTTTTCACAC--A
65 TAGCGGCGCTTTTCACACAAA
* * *
21889322 -CCGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAACGCCGCTATAGAACGTGACCTT
1 GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCAT-ACAAACGCCGCTAAAGAACGTGACCTT
* *
21889385 TGGCGGCGCTTTTCATACAAA
65 TAGCGGCGCTTTTCACACAAA
*
21889406 CGTCGCTAAAGAACCTGACATTTAG
1 -GCCGCTAAAGAACCTGACATTTAG
21889431 AAAAGTGCCG
Statistics
Matches: 166, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
82 70 0.42
84 2 0.01
86 94 0.57
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTT
AGCGGCGCTTTTCACACAAA
Found at i:21889370 original size:125 final size:127
Alignment explanation
Indices: 21889155--21889430 Score: 351
Period size: 125 Copynumber: 2.2 Consensus size: 127
21889145 TAAAAGGCGC
* * *
21889155 CGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAACACCGCTAAAGAACGTGACCTTTAG
1 CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCA-AC-AACACCGCTAAAGAACCTGACATTTAG
* * *
21889220 CGGCACTTTTCACACAAATGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTTACACAAACGT
64 CGGCACTTTTCACAAAAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTCACACAAACGT
* * *
21889284 CGCTAAAGAATGTGACCTTTAGCGGCGCTTTTC-AC-ACACCGCTAAAGAACCTGACATTTAGTG
1 CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCAACAACACCGCTAAAGAACCTGACATTTAGCG
* * * * * *
21889347 GCGCTTTTCTA-AAAAACGCCGCTATAGAACGTGACCTTTGGCGGCGCTTTTCATACAAACGT
66 GCACTTTTC-ACAAAAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTCACACAAACGT
* *
21889409 CGCTAAAGAACCTGACATTTAG
1 CGCTAAAGAACGTGACCTTTAG
21889431 AAAAGTGCCG
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 95 0.74
126 1 0.01
127 2 0.02
129 30 0.23
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (127 bp):
CGCTAAAGAACGTGACCTTTAGCGGCACTTTTCAACAACACCGCTAAAGAACCTGACATTTAGCG
GCACTTTTCACAAAAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTCACACAAACGT
Found at i:21895347 original size:9 final size:9
Alignment explanation
Indices: 21895329--21895492 Score: 92
Period size: 9 Copynumber: 18.7 Consensus size: 9
21895319 GTATTACGTT
*
21895329 AGTTAAGTA
1 AGTTATGTA
*
21895338 AGTTTTGTA
1 AGTTATGTA
21895347 AGTTATGTA
1 AGTTATGTA
*
21895356 GGTTATG-A
1 AGTTATGTA
* *
21895364 TA-TGATATA
1 -AGTTATGTA
*
21895373 CATTTATGTA
1 -AGTTATGTA
*
21895383 AGGTATGTA
1 AGTTATGTA
21895392 AGTTATGATA
1 AGTTATG-TA
* * *
21895402 TGATATAT-
1 AGTTATGTA
*
21895410 ATTTATGT-
1 AGTTATGTA
21895418 A-TTATGTA
1 AGTTATGTA
21895426 AGTTATGTA
1 AGTTATGTA
21895435 AGTTATGATA
1 AGTTATG-TA
* * *
21895445 TGATATAT-
1 AGTTATGTA
*
21895453 ATTTATGT-
1 AGTTATGTA
21895461 A-TTATGTA
1 AGTTATGTA
*
21895469 AGTTTTGTA
1 AGTTATGTA
21895478 AGTTATGTA
1 AGTTATGTA
21895487 AGTTAT
1 AGTTAT
21895493 TACATAATTA
Statistics
Matches: 117, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
7 12 0.10
8 16 0.14
9 72 0.62
10 17 0.15
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
AGTTATGTA
Found at i:21895390 original size:36 final size:36
Alignment explanation
Indices: 21895343--21895461 Score: 148
Period size: 36 Copynumber: 3.1 Consensus size: 36
21895333 AAGTAAGTTT
* * *
21895343 TGTAAGTTATGTAGGTTATGATATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
21895379 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
21895415 TGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TGTA--A-G---G-TATGTAAGTTATGATATGATATATATTTA
21895458 TGTA
1 TGTA
21895462 TTATGTAAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
36 37 0.51
38 1 0.01
39 1 0.01
42 1 0.01
43 33 0.45
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATATATTTA
Found at i:21895433 original size:43 final size:43
Alignment explanation
Indices: 21895376--21895484 Score: 200
Period size: 43 Copynumber: 2.5 Consensus size: 43
21895366 TGATATACAT
*
21895376 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
21895419 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
21895462 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
21895485 TAAGTTATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:21895664 original size:15 final size:15
Alignment explanation
Indices: 21895640--21895694 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
21895630 AAAAAATTAT
21895640 TTTAATTAAATAATA
1 TTTAATTAAATAATA
* *
21895655 TTTAAATAAATTAT-
1 TTTAATTAAATAATA
*
21895669 TTTAGTTAAATAATA
1 TTTAATTAAATAATA
*
21895684 TTTAAGTAAAT
1 TTTAATTAAAT
21895695 TAATCCAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:21895667 original size:29 final size:29
Alignment explanation
Indices: 21895633--21895696 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
21895623 CACATGGAAA
21895633 AAATTATTTTAATTAAATAATATTTAAAT
1 AAATTATTTTAATTAAATAATATTTAAAT
* *
21895662 AAATTATTTTAGTTAAATAATATTTAAGT
1 AAATTATTTTAATTAAATAATATTTAAAT
21895691 AAATTA
1 AAATTA
21895697 ATCCAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATTATTTTAATTAAATAATATTTAAAT
Found at i:21895858 original size:15 final size:15
Alignment explanation
Indices: 21895834--21895885 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
21895824 AAAAAATTAT
21895834 TTTAATTAAATAATA
1 TTTAATTAAATAATA
*
21895849 TTTAAATAAACT-AT-
1 TTTAATTAAA-TAATA
21895863 TTTAATTAAATAATA
1 TTTAATTAAATAATA
21895878 TTTAATTA
1 TTTAATTA
21895886 CATTAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 11 0.34
15 19 0.59
16 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:21895915 original size:193 final size:194
Alignment explanation
Indices: 21895498--21895956 Score: 771
Period size: 194 Copynumber: 2.4 Consensus size: 194
21895488 GTTATTACAT
*
21895498 AATTAATCCAAATTATGTAATTTAAAAAATTTTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
* *
21895563 TGTCAACTTTGTTCTATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
66 TGTCAACTCTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
* *
21895628 GGAAAAAATTATTTTAATTAAATAATATTTAAATAAATTATTTTAGTTAAATAATATTTAAGTA
131 GGAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGTA
21895692 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTA-AAAAAGTTGAAAACCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
* *
21895756 TGTCAACTCTGTTCCATGAAAAAGAAATAGTAAAAATAAAATTTGACGATGTGG-AAAATCACAT
66 TGTCAACTCTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
*
21895820 GGAAAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAATT
131 GG--AAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGT
21895885 A
194 A
* * *
21895886 CATTAATTCAAATTATATAATTT-AAAAATTGTGTATAAAAAGTTAGAAAACCGTATAAGATGAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTT-GAAAACCGTATAAGATGAA
21895950 ATGTCAA
65 ATGTCAA
21895957 TATTGTTCCA
Statistics
Matches: 250, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
192 12 0.05
193 90 0.36
194 122 0.49
195 26 0.10
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (194 bp):
AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
TGTCAACTCTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
GGAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAATAATATTTAAGTA
Found at i:21896297 original size:24 final size:24
Alignment explanation
Indices: 21896255--21896300 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21896245 TAACTTAAAT
** *
21896255 GATAAAACGGATGATAATATTTGG
1 GATAAAACGGACAAGAATATTTGG
21896279 GATAAAACGGACAAGAATATTT
1 GATAAAACGGACAAGAATATTT
21896301 CAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (24 bp):
GATAAAACGGACAAGAATATTTGG
Found at i:21899100 original size:21 final size:22
Alignment explanation
Indices: 21899069--21899112 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21899059 TCTATAGTTA
21899069 AGGGTTTTATGGTTCATGATTT
1 AGGGTTTTATGGTTCATGATTT
* *
21899091 AGGG-TTTATGGTTTATGGTTT
1 AGGGTTTTATGGTTCATGATTT
21899112 A
1 A
21899113 AAGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (22 bp):
AGGGTTTTATGGTTCATGATTT
Found at i:21899103 original size:7 final size:7
Alignment explanation
Indices: 21899074--21899112 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
21899064 AGTTAAGGGT
21899074 TTTATGG
1 TTTATGG
* *
21899081 TTCATGA
1 TTTATGG
*
21899088 TTTAGGG
1 TTTATGG
21899095 TTTATGG
1 TTTATGG
21899102 TTTATGG
1 TTTATGG
21899109 TTTA
1 TTTA
21899113 AAGTTTAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:21899118 original size:21 final size:21
Alignment explanation
Indices: 21899074--21899119 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
21899064 AGTTAAGGGT
**
21899074 TTTATGGTTCATGATTTAGGG
1 TTTATGGTTCATGATTTAAAG
* *
21899095 TTTATGGTTTATGGTTTAAAG
1 TTTATGGTTCATGATTTAAAG
21899116 TTTA
1 TTTA
21899120 AAGTCTGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.52
Consensus pattern (21 bp):
TTTATGGTTCATGATTTAAAG
Found at i:21899248 original size:14 final size:14
Alignment explanation
Indices: 21899217--21899264 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
21899207 AGTGTCTATA
*
21899217 GTTTAGGATTTTATG
1 GTTTAGGA-TTTAGG
21899232 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
21899246 GTTTAGTG-TTTAGG
1 GTTTAG-GATTTAGG
21899260 GTTTA
1 GTTTA
21899265 AGGTTTATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:21899270 original size:14 final size:13
Alignment explanation
Indices: 21899193--21899271 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 13
21899183 TTGTATTTAA
21899193 AGGTTTAAGGGTTT
1 AGGTTT-AGGGTTT
* **
21899207 AGTGTCTATAGTTT
1 AG-GTTTAGGGTTT
*
21899221 AGGATTTTATGGTTT
1 AGG--TTTAGGGTTT
21899236 AGGATTTAGGGTTT
1 AGG-TTTAGGGTTT
21899250 AGTGTTTAGGGTTT
1 AG-GTTTAGGGTTT
21899264 AAGGTTTA
1 -AGGTTTA
21899272 TAGTTTTAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 1 0.02
14 35 0.66
15 17 0.32
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (13 bp):
AGGTTTAGGGTTT
Found at i:21899359 original size:22 final size:23
Alignment explanation
Indices: 21899333--21899390 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
21899323 GTGATTCGGG
21899333 TTTAGGGTTTAAGG-TTTAG-ATT
1 TTTAGGGTTTAAGGATTTAGTA-T
* *
21899355 TTTAGGATTT-AGGATTTTGTAT
1 TTTAGGGTTTAAGGATTTAGTAT
*
21899377 TTAAGGGTTTAAGG
1 TTTAGGGTTTAAGG
21899391 GACTGTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (23 bp):
TTTAGGGTTTAAGGATTTAGTAT
Done.