Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 155 of 214
Found at i:46084752 original size:77 final size:77
Alignment explanation
Indices: 46084593--46085014 Score: 404
Period size: 77 Copynumber: 5.5 Consensus size: 77
46084583 CGACGTGTGA
* * * * *
46084593 CCCGAGACTCAACTTACCTCTCGCAATATGAGTTAATTCTTTT-A-AAAAGCAAAAATTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
46084656 ACCTCAGCGTGT
66 ACCTCAGCGTGT
* * * * *
46084668 CCCGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
*
46084733 ATCTCAGCGTGT
66 ACCTCAGCGTGT
* * *
46084745 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG--ACAAACAAAAATTGAAATT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
46084806 ACCTCAGC--GT
66 ACCTCAGCGTGT
** * *
46084816 CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAA-AAAAACA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG----ATAAA--AACAAAAA-T
**
46084880 AAATTGAAAATACCTCAGCGTGT
59 TGA----AAATACCTCAGCGTGT
* ** *
46084903 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---AATT-A-AAACACAAAAATTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
*
46084963 ACCTCAGCGTGC
66 ACCTCAGCGTGT
* *
46084975 CCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46085015 GAAAAAGTAG
Statistics
Matches: 284, Mismatches: 40, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
71 36 0.13
72 48 0.17
73 27 0.10
75 43 0.15
76 3 0.01
77 64 0.23
78 3 0.01
79 3 0.01
80 5 0.02
81 3 0.01
84 2 0.01
85 11 0.04
87 36 0.13
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (77 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
ACCTCAGCGTGT
Found at i:46084909 original size:158 final size:158
Alignment explanation
Indices: 46084725--46085014 Score: 449
Period size: 158 Copynumber: 1.8 Consensus size: 158
46084715 AAAATAGAAT
* ** *
46084725 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAA
* ** * *
46084790 A-ACAAAAATTGAAATTACCTCAGCGT-CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
64 ACACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
46084853 TTTTTTGAAACATAAATTAAAAAAACAAAA
129 TTTTTTGAAACATAAATTAAAAAAACAAAA
46084883 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
*
46084948 ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATT
66 ACAAAAATTGAAAATACCTCAGCGT-CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
46085013 TT
130 TT
46085015 GAAAAAGTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
156 3 0.03
157 26 0.22
158 55 0.46
159 35 0.29
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (158 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
ACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAACATAAATTAAAAAAACAAAA
Found at i:46084982 original size:72 final size:72
Alignment explanation
Indices: 46084866--46085006 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
46084856 TTTGAAACAT
* *
46084866 AAATTAAAAAAACAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTAAAAAAACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
46084931 TGAGTTG
66 TGAGTTG
* *
46084938 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAAC-AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
46085002 ATGAG
65 ATGAG
46085007 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 6 0.09
72 58 0.91
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (72 bp):
AAATTAAAAAAACAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTG
Found at i:46085392 original size:72 final size:73
Alignment explanation
Indices: 46085160--46085499 Score: 405
Period size: 72 Copynumber: 4.5 Consensus size: 73
46085150 AGTGTGTAAT
* *
46085160 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT--GAAAACAGAAATTGAAAATAC
*
46085225 CTCAGCATGTGAAC
63 CTCAGC--GTG-TC
* *
46085239 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTAAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAACAGAAATTGAAAATA
*
46085303 CCTCAACGTGTC
62 CCTCAGCGTGTC
* ** * * *
46085315 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
46085379 AGCGTGTC
66 AGCGTGTC
** * * *
46085387 CTGAGGCTCAACTCATTTATCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAAATACCT
46085452 CAGCGTGTC
65 CAGCGTGTC
*
46085461 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46085500 GAAAAACAAA
Statistics
Matches: 233, Mismatches: 22, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
72 65 0.28
73 6 0.03
74 64 0.27
76 1 0.00
77 34 0.15
78 31 0.13
79 25 0.11
81 7 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:46085463 original size:74 final size:74
Alignment explanation
Indices: 46085160--46085499 Score: 416
Period size: 74 Copynumber: 4.5 Consensus size: 74
46085150 AGTGTGTAAT
*
46085160 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAAACAGAAATTGAAAATAC
*
46085225 CTCAGCATGTGAAC
64 CTCAGC--GTG-TC
* * *
46085239 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTAAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTAAAAACAGAAATTGAAAATA
*
46085303 CCTCAACGTGTC
63 CCTCAGCGTGTC
* ** * * * *
46085315 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
46085378 CAGCGTGTC
66 CAGCGTGTC
** * * *
46085387 CTGAGGCTCAACTCATTTATCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
46085452 CAGCGTGTC
66 CAGCGTGTC
*
46085461 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46085500 GAAAAACAAA
Statistics
Matches: 232, Mismatches: 23, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
72 65 0.28
74 69 0.30
76 1 0.00
77 34 0.15
78 31 0.13
79 25 0.11
81 7 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:46085474 original size:146 final size:148
Alignment explanation
Indices: 46085160--46085517 Score: 422
Period size: 146 Copynumber: 2.4 Consensus size: 148
46085150 AGTGTGTAAT
* * *
46085160 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTT--GAAAACAGAAATTGAAAATAC
*
46085225 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACA
62 CTCAGCA-GTGAACCGAGGCTCAACTCACCTATCGCAATATAAGTTGA--TTTTTTTTGAAAACA
46085290 GAAATTAAAAATACCTCAACGTGTC
124 GAAATTAAAAATACCTCAACGTGTC
* ** * *
46085315 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** *
46085380 GC-GTG-TCCTGAGGCTCAACTCATTTATCGCAATATGAGTTGA-TTTTTTT-AACAACAGAAAT
66 GCAGTGAACC-GAGGCTCAACTCACCTATCGCAATATAAGTTGATTTTTTTTGAA-AACAGAAAT
* * *
46085441 TGAAATTACCTCAGCGTGTC
129 TAAAAATACCTCAACGTGTC
* *
46085461 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
46085518 GGCTTAACTC
Statistics
Matches: 177, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
145 11 0.06
146 73 0.41
148 2 0.01
149 32 0.18
151 25 0.14
153 4 0.02
155 30 0.17
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTATCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTA
AAAATACCTCAACGTGTC
Found at i:46093992 original size:16 final size:15
Alignment explanation
Indices: 46093971--46094018 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
46093961 GATGTGAATA
46093971 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
46093987 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
46094002 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
46094018 A
1 A
46094019 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:46093994 original size:24 final size:24
Alignment explanation
Indices: 46093967--46094022 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
46093957 TAATGATGTG
*
46093967 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
46093991 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
46094015 AATAATAA
1 AATAATAA
46094023 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:46094001 original size:8 final size:8
Alignment explanation
Indices: 46093967--46094018 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
46093957 TAATGATGTG
*
46093967 AATAATAA
1 AATATTAA
46093975 AATATATAA
1 AATAT-TAA
46093984 AATA-TAA
1 AATATTAA
46093991 AATATTAA
1 AATATTAA
*
46093999 AATATCAA
1 AATATTAA
*
46094007 AATATTAG
1 AATATTAA
46094015 AATA
1 AATA
46094019 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:46094191 original size:20 final size:20
Alignment explanation
Indices: 46094139--46094195 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
46094129 ATACTACATC
*
46094139 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
46094160 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
46094179 AATATGTACATAATATA
1 AATATGTACATAATATA
46094196 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:46094237 original size:22 final size:24
Alignment explanation
Indices: 46094174--46094238 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
46094164 CGTGATAATA
*
46094174 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
46094199 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
46094222 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
46094239 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:46094267 original size:29 final size:29
Alignment explanation
Indices: 46094227--46094293 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
46094217 TATAGTTAAG
*
46094227 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* *
46094256 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
46094285 ATACATAAA
1 ATATATAAA
46094294 ATAGTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:46094268 original size:76 final size:77
Alignment explanation
Indices: 46094188--46094333 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 77
46094178 AAATATGTAC
* * *
46094188 ATAATATAGTGTTAAAAATACATACATAATATAGT-TAAGATATATACATAAGATA-ACATGTAA
1 ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGA-ATGTAA
46094251 AATATATATATAA
65 AATATATATATAA
* * * * * *
46094264 ATAATATAATATTAAAGATATATACATAAAATAGTATAATATATATACGTAATATAGAATTTAAA
1 ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGAATGTAAA
46094329 ATATA
66 ATATA
46094334 CCTAATATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
76 30 0.51
77 28 0.47
78 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (77 bp):
ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGAATGTAAA
ATATATATATAA
Found at i:46094284 original size:25 final size:25
Alignment explanation
Indices: 46094168--46094385 Score: 120
Period size: 23 Copynumber: 9.0 Consensus size: 25
46094158 AAAATACGTG
* *
46094168 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
46094193 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
46094218 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
46094240 ATAACATGTAAAATATATATATAAATAAT
1 ATAATAT-T--AA-AGATATATACATAAT
*
46094269 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
46094294 ATAGTA-T-AATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
46094317 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
46094340 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
46094362 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
46094385 A
1 A
46094386 ACAAAAAAGG
Statistics
Matches: 151, Mismatches: 27, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 45 0.30
24 10 0.07
25 43 0.28
26 2 0.01
28 2 0.01
29 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:46094284 original size:27 final size:29
Alignment explanation
Indices: 46094227--46094305 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
46094217 TATAGTTAAG
* * * *
46094227 ATATATACATAAGATAACATGTAAAATAT
1 ATATATAAATAATATAATATGTAAAAGAT
46094256 ATATATAAATAATATAATAT-T-AAAGAT
1 ATATATAAATAATATAATATGTAAAAGAT
*
46094283 ATATACATAAAATAGTATAATAT
1 ATAT--AT-AAATAATATAATAT
46094306 ATATACGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.21
28 1 0.02
29 19 0.45
30 13 0.31
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (29 bp):
ATATATAAATAATATAATATGTAAAAGAT
Found at i:46094960 original size:30 final size:30
Alignment explanation
Indices: 46094867--46095011 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
46094857 TAGGTACAAG
*
46094867 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGAG-AAGGTGTGGCTAGTGGAGT
* ** *
46094897 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGAG-AAGGTGTGGCTAGTGGAGT
46094927 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
* *
46094957 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
*
46094987 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAGAAGGTGTGGCTAGT
46095012 TGAGAAAAGT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 2 0.02
30 100 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
Found at i:46097504 original size:82 final size:80
Alignment explanation
Indices: 46097402--46097565 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 80
46097392 TTAGGATGTT
* *
46097402 TGCCAATTAAGACCCACACAATAAAAACACTTGAGCTGGTAAAACACAACGAATTGCTCACAAGT
1 TGCCAATTAACACCCACACAATAAAAACACTTGAGCTAGTAAAACACAACGAATTGCTCACAAGT
46097467 GCTTGTAGGAAAAAGA
66 GCTTGTAGG-AAAAGA
46097483 TGCCAATTAAACACCCACACAATAAAAACACTTGAGCTAGTAAAACACAACGAATTGCTCACAAG
1 TGCCAATT-AACACCCACACAATAAAAACACTTGAGCTAGTAAAACACAACGAATTGCTCACAAG
46097548 TGCTTGTAGGAAAAGA
65 TGCTTGTAGGAAAAGA
46097564 TG
1 TG
46097566 AAGAATTGAA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
81 16 0.20
82 64 0.80
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (80 bp):
TGCCAATTAACACCCACACAATAAAAACACTTGAGCTAGTAAAACACAACGAATTGCTCACAAGT
GCTTGTAGGAAAAGA
Found at i:46098387 original size:17 final size:18
Alignment explanation
Indices: 46098355--46098389 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46098345 TGAAATTTAT
*
46098355 CAAGTTTTATTTCAAAAA
1 CAAGCTTTATTTCAAAAA
46098373 CAAGCTTTA-TTCAAAAA
1 CAAGCTTTATTTCAAAAA
46098390 TATTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (18 bp):
CAAGCTTTATTTCAAAAA
Found at i:46099063 original size:37 final size:35
Alignment explanation
Indices: 46099022--46099106 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
46099012 AGTTTTTATG
* *
46099022 ATTTAGTCCCTGAAATCTAAATTTTCATTATTCTACA
1 ATTTAGTCCCTAAAAGC-AAATTTTC-TTATTCTACA
* * *
46099059 ATTTAATCCTTAAAAGCATATTTTCTTATTCTACA
1 ATTTAGTCCCTAAAAGCAAATTTTCTTATTCTACA
*
46099094 ATTCAGT-CCTAAA
1 ATTTAGTCCCTAAA
46099107 TCCCATTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 5 0.12
35 15 0.38
36 7 0.17
37 13 0.32
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (35 bp):
ATTTAGTCCCTAAAAGCAAATTTTCTTATTCTACA
Found at i:46103120 original size:22 final size:22
Alignment explanation
Indices: 46103093--46103138 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
46103083 ATAATGTATT
*
46103093 TTTTAAA-AAAGATATTTAAAAA
1 TTTTAAAGAAA-ATATATAAAAA
46103115 TTTTAAAGAAAATATATAAAAA
1 TTTTAAAGAAAATATATAAAAA
46103137 TT
1 TT
46103139 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTTAAAGAAAATATATAAAAA
Found at i:46103170 original size:17 final size:17
Alignment explanation
Indices: 46103150--46103199 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
46103140 TATATTTTTA
46103150 AATTTAAAAGAAATTAT-
1 AATTTAAAA-AAATTATG
46103167 AATTTAAAAAAATATATG
1 AATTTAAAAAAAT-TATG
*
46103185 TATTTAAAAAAATTA
1 AATTTAAAAAAATTA
46103200 AAAAAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 4 0.13
17 14 0.47
18 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTTAAAAAAATTATG
Found at i:46105918 original size:14 final size:14
Alignment explanation
Indices: 46105865--46105938 Score: 69
Period size: 14 Copynumber: 5.2 Consensus size: 14
46105855 TTTCTTCTTA
* *
46105865 AATTCTCAATCTTC
1 AATTTTCAATTTTC
* * *
46105879 AATTTCCAGTTTTT
1 AATTTTCAATTTTC
46105893 AATTTT-ATATTTTC
1 AATTTTCA-ATTTTC
46105907 AATTTTCAATTTTC
1 AATTTTCAATTTTC
*
46105921 AAATTTTTAATTTTC
1 -AATTTTCAATTTTC
46105936 AAT
1 AAT
46105939 CCTCAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.02
14 33 0.69
15 14 0.29
ACGTcount: A:0.30, C:0.14, G:0.01, T:0.55
Consensus pattern (14 bp):
AATTTTCAATTTTC
Found at i:46105926 original size:29 final size:29
Alignment explanation
Indices: 46105895--46105958 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
46105885 CAGTTTTTAA
46105895 TTTTATATTTTCAATTTTCAATTTTCAAAT
1 TTTTA-ATTTTCAATTTTCAATTTTCAAAT
** *
46105925 TTTTAATTTTCAATCCTCAATTCTCAAAT
1 TTTTAATTTTCAATTTTCAATTTTCAAAT
46105954 ATTTT
1 -TTTT
46105959 TTTAAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTAATTTTCAATTTTCAATTTTCAAAT
Found at i:46105927 original size:15 final size:15
Alignment explanation
Indices: 46105901--46105937 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
46105891 TTAATTTTAT
46105901 ATTTTC-AATTTTCA
1 ATTTTCAAATTTTCA
*
46105915 ATTTTCAAATTTTTA
1 ATTTTCAAATTTTCA
46105930 ATTTTCAA
1 ATTTTCAA
46105938 TCCTCAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTCAAATTTTCA
Found at i:46105944 original size:22 final size:22
Alignment explanation
Indices: 46105901--46105944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46105891 TTAATTTTAT
**
46105901 ATTTTCAATTTTCAATTTTCAA
1 ATTTTCAATTTTCAATCCTCAA
*
46105923 ATTTTTAATTTTCAATCCTCAA
1 ATTTTCAATTTTCAATCCTCAA
46105945 TTCTCAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTCAATTTTCAATCCTCAA
Found at i:46112834 original size:24 final size:24
Alignment explanation
Indices: 46112807--46112882 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 24
46112797 TGCTTTCTGT
46112807 TTAAGTGCTCTTCGGAGCTTCCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
*
46112831 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
* *
46112855 ATATAG-GCTCTTTGTGAGCTTCCCG
1 TTA-AGTGCTCTTCG-GAGCTTCCCG
46112880 TTA
1 TTA
46112883 CATGGCTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 32 0.71
25 13 0.29
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTTCCCG
Found at i:46115795 original size:36 final size:36
Alignment explanation
Indices: 46115755--46115829 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
46115745 ACCTGATGTG
46115755 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
46115791 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
46115827 ATT
1 ATT
46115830 GCTTTGATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.51
Consensus pattern (36 bp):
ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
Found at i:46117398 original size:158 final size:158
Alignment explanation
Indices: 46117169--46117491 Score: 549
Period size: 158 Copynumber: 2.0 Consensus size: 158
46117159 AAATGACCAA
*
46117169 AAAAAAATCAATTATTTACATAAATGATCCTGGTTCAAAAACAATAACTTAAATGACCTGAAATG
1 AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
*
46117234 ACCAGTAAAATTAGG-TAAGAGAGACTAAATGGTTGGCACCAATATTTTTTTCTAACACAATCAT
66 ACCAGTAAAATT-GGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCAT
46117298 TGTTTTGTGTGATGATTGTGTCAGTGGTT
130 TGTTTTGTGTGATGATTGTGTCAGTGGTT
* ** *
46117327 AAAAAAATTAATTATTTGTATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACTTGAAATG
1 AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
* *
46117392 ATCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCGTT
66 ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
*
46117457 GTTTTGTTTGATGATTGTGTCAGTGGTT
131 GTTTTGTGTGATGATTGTGTCAGTGGTT
46117485 AAAAAAA
1 AAAAAAA
46117492 ATTTGGGTGC
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
157 2 0.01
158 153 0.99
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (158 bp):
AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
GTTTTGTGTGATGATTGTGTCAGTGGTT
Found at i:46118501 original size:75 final size:75
Alignment explanation
Indices: 46118413--46118560 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
46118403 CCACTTCTCC
* * * * *
46118413 AATTTTATTATTATTGTTTTTGAATCAGGGTCAGTTATGTAAATAATTAATTTTTTG-GATCATT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAG-TCATT
46118477 TGGGTAAAACT
65 TGGGTAAAACT
*
46118488 AATTTTACTATTATTGTTTTTAAACCAAGATCATTTATGTAAATAATTAATTTTTTGAGTCATTT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
46118553 GGGTAAAA
66 GGGTAAAA
46118561 TAGCCATTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (75 bp):
AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
GGGTAAAACT
Found at i:46120825 original size:4 final size:4
Alignment explanation
Indices: 46120818--46120870 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
46120808 TTTACTTTTC
* * * *
46120818 TATG TATG TATG TATG TATG TACG TACG TATG TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
46120866 TATG T
1 TATG T
46120871 GTTGTGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:46121287 original size:31 final size:31
Alignment explanation
Indices: 46121228--46121288 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46121218 TACAATTTAG
*
46121228 TTATTAAACTATTCAAAAGTTTTCATTTAAA
1 TTATTAAACTATTCAAAAATTTTCATTTAAA
* *
46121259 TTATTGAATTATTCAAAAAATTTT-ATTTAA
1 TTATTAAACTATTC-AAAAATTTTCATTTAA
46121289 GTTAATGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTAAACTATTCAAAAATTTTCATTTAAA
Found at i:46124256 original size:8 final size:9
Alignment explanation
Indices: 46124229--46124254 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46124219 CACGTTCACC
46124229 GGGTAAAAA
1 GGGTAAAAA
46124238 GGGTAAAAA
1 GGGTAAAAA
46124247 GGGTAAAA
1 GGGTAAAA
46124255 GGAAGAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (9 bp):
GGGTAAAAA
Found at i:46124589 original size:6 final size:6
Alignment explanation
Indices: 46124578--46124616 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
46124568 TGCAAGATCC
46124578 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
1 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
46124617 ATACTAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.18, T:0.49
Consensus pattern (6 bp):
CTGCTT
Found at i:46124733 original size:15 final size:15
Alignment explanation
Indices: 46124724--46124758 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46124714 ACCAGCTCCT
46124724 CCTCCTCCAGCACCA
1 CCTCCTCCAGCACCA
* *
46124739 CCTCCTGCGGCACCA
1 CCTCCTCCAGCACCA
46124754 CCTCC
1 CCTCC
46124759 CAAAGCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.60, G:0.11, T:0.14
Consensus pattern (15 bp):
CCTCCTCCAGCACCA
Found at i:46128787 original size:95 final size:93
Alignment explanation
Indices: 46128624--46128798 Score: 205
Period size: 95 Copynumber: 1.9 Consensus size: 93
46128614 CTAAAATAGT
** *
46128624 TTTTTAATTAATAACTATTTTATTTATATAAATAAAACAATAAATATGTAATTATATAATAAAAA
1 TTTTTAATTAATAACTACCTTATTTATATAAATAAAACAATAAATATGTAATTAAATAATAAAAA
46128689 TATATTATATACATTATTATGTTAAAACAA
66 TATATT-TAT-CATTATTATGTTAAAACAA
*
46128719 TTTTTAATTAATAACT-CCTT-TTTATAT-AATAAAATAATAATATGAATGTAA-TAAATACATA
1 TTTTTAATTAATAACTACCTTATTTATATAAATAAAACAATAA-AT--ATGTAATTAAATA-ATA
***
46128780 TTTATATATTTATCATTAT
62 AAAATATATTTATCATTAT
46128799 GTTAAATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
92 12 0.17
93 15 0.22
94 10 0.14
95 32 0.46
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (93 bp):
TTTTTAATTAATAACTACCTTATTTATATAAATAAAACAATAAATATGTAATTAAATAATAAAAA
TATATTTATCATTATTATGTTAAAACAA
Found at i:46129176 original size:15 final size:16
Alignment explanation
Indices: 46129151--46129180 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46129141 TTAATGTTTA
46129151 TAATGTTTTTATATAT
1 TAATGTTTTTATATAT
46129167 TAAT-TTTTTATATA
1 TAATGTTTTTATATA
46129181 AAAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TAATGTTTTTATATAT
Found at i:46129542 original size:35 final size:35
Alignment explanation
Indices: 46129494--46129562 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
46129484 TAATTTGAAT
* *
46129494 ATTTTATATTTATC-TCAAATAATATTAATGTTATA
1 ATTTTAGAATTATCTTCAAATAAT-TTAATGTTATA
* *
46129529 ATTTTAGAATTATCTTCAATTTATTTAATGTTAT
1 ATTTTAGAATTATCTTCAAATAATTTAATGTTAT
46129563 TGTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (35 bp):
ATTTTAGAATTATCTTCAAATAATTTAATGTTATA
Found at i:46130892 original size:3 final size:3
Alignment explanation
Indices: 46130884--46130922 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
46130874 AAATTTGATG
* *
46130884 TTA TTA TTA TATA TAA TTA TTA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
46130923 TTCCCTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46131221 original size:16 final size:16
Alignment explanation
Indices: 46131185--46131223 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46131175 TCTTTTTGTA
46131185 TATATATACATACTTT
1 TATATATACATACTTT
* **
46131201 CATATATACATGTTTT
1 TATATATACATACTTT
46131217 TATATAT
1 TATATAT
46131224 TTCTATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:46143176 original size:24 final size:24
Alignment explanation
Indices: 46143144--46143217 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
46143134 NNNNNNNNNN
46143144 TAAGTGCTCTTCGGAGCTTCCCGT
1 TAAGTGCTCTTCGGAGCTTCCCGT
* *
46143168 TAAGTGCTCTTCGGAGCTACCCGA
1 TAAGTGCTCTTCGGAGCTTCCCGT
*
46143192 TATAG-GCTCTTTGTGAGCTT-CCGT
1 TA-AGTGCTCTTCG-GAGCTTCCCGT
46143216 TA
1 TA
46143218 CATGGCTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (24 bp):
TAAGTGCTCTTCGGAGCTTCCCGT
Found at i:46145865 original size:36 final size:36
Alignment explanation
Indices: 46145825--46145899 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
46145815 ACCTGATGTG
46145825 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
46145861 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
46145897 ATT
1 ATT
46145900 GCTTTGATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.51
Consensus pattern (36 bp):
ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
Found at i:46147465 original size:158 final size:158
Alignment explanation
Indices: 46147236--46147560 Score: 553
Period size: 158 Copynumber: 2.1 Consensus size: 158
46147226 AAATGACCAA
* *
46147236 AAAAAAATCAATTATTTACATAAATGATCCTGGTTCAAAAACAATAACTTAAATGACCTGAAATG
1 AAAAAAATTAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
*
46147301 ACCAGTAAAATTAGG-TAAGAGAGACTAAATGGTTGGCACCAATATTTTTTTCTAACACAATCAT
66 ACCAGTAAAATT-GGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCAT
46147365 TGTTTTGTGTGATGATTGTGTCAGTGGTT
130 TGTTTTGTGTGATGATTGTGTCAGTGGTT
** *
46147394 AAAAAAATTAATTATTTGTATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACTTGAAATG
1 AAAAAAATTAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
* *
46147459 ATCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCGTT
66 ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
*
46147524 GTTTTGTTTGATGATTGTGTCAGTGGTT
131 GTTTTGTGTGATGATTGTGTCAGTGGTT
46147552 AAAAAAATT
1 AAAAAAATT
46147561 TGGGTGCTGG
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
157 2 0.01
158 155 0.99
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (158 bp):
AAAAAAATTAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
GTTTTGTGTGATGATTGTGTCAGTGGTT
Found at i:46148566 original size:75 final size:75
Alignment explanation
Indices: 46148478--46148625 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
46148468 CCACTTCTCC
* * * * *
46148478 AATTTTATTATTATTGTTTTTGAATCAGGGTCAGTTATGTAAATAATTAATTTTTTG-GATCATT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAG-TCATT
46148542 TGGGTAAAACT
65 TGGGTAAAACT
*
46148553 AATTTTACTATTATTGTTTTTAAACCAAGATCATTTATGTAAATAATTAATTTTTTGAGTCATTT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
46148618 GGGTAAAA
66 GGGTAAAA
46148626 TAGCCATTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (75 bp):
AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
GGGTAAAACT
Found at i:46150892 original size:4 final size:4
Alignment explanation
Indices: 46150885--46150937 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
46150875 TTTACTTTTC
* * * *
46150885 TATG TATG TATG TATG TATG TACG TACG TATG TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
46150933 TATG T
1 TATG T
46150938 GTTGTGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:46151355 original size:31 final size:31
Alignment explanation
Indices: 46151296--46151356 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46151286 TACAATTTAG
*
46151296 TTATTAAACTATTCAAAAGTTTTCATTTAAA
1 TTATTAAACTATTCAAAAATTTTCATTTAAA
* *
46151327 TTATTGAATTATTCAAAAAATTTT-ATTTAA
1 TTATTAAACTATTC-AAAAATTTTCATTTAA
46151357 GTTAATGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTAAACTATTCAAAAATTTTCATTTAAA
Found at i:46154333 original size:8 final size:9
Alignment explanation
Indices: 46154306--46154331 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46154296 CACGTTCACC
46154306 GGGTAAAAA
1 GGGTAAAAA
46154315 GGGTAAAAA
1 GGGTAAAAA
46154324 GGGTAAAA
1 GGGTAAAA
46154332 GGAAGAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (9 bp):
GGGTAAAAA
Found at i:46154666 original size:6 final size:6
Alignment explanation
Indices: 46154655--46154693 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
46154645 TGCAAGATCC
46154655 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
1 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
46154694 ATACTAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.18, T:0.49
Consensus pattern (6 bp):
CTGCTT
Found at i:46154810 original size:15 final size:15
Alignment explanation
Indices: 46154801--46154835 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46154791 ACCAGCTCCT
46154801 CCTCCTCCAGCACCA
1 CCTCCTCCAGCACCA
* *
46154816 CCTCCTGCGGCACCA
1 CCTCCTCCAGCACCA
46154831 CCTCC
1 CCTCC
46154836 CAAAGCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.60, G:0.11, T:0.14
Consensus pattern (15 bp):
CCTCCTCCAGCACCA
Found at i:46159058 original size:24 final size:23
Alignment explanation
Indices: 46158991--46159058 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
46158981 AATTTATTTT
46158991 ATATATTTTTC-TTTATA-TATA
1 ATATATTTTTCTTTTATAGTATA
* **
46159012 ATATTTATTTTTGTAGTATTAGTATA
1 ATA--TATTTTTCTTTTA-TAGTATA
46159038 ATATATTTTTCTTTCTATAGT
1 ATATATTTTTCTTT-TATAGT
46159059 TGCTACTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
21 3 0.09
23 7 0.20
24 14 0.40
25 4 0.11
26 7 0.20
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (23 bp):
ATATATTTTTCTTTTATAGTATA
Found at i:46159779 original size:35 final size:35
Alignment explanation
Indices: 46159731--46159799 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
46159721 TAATTTGAAT
* *
46159731 ATTTTATATTTATC-TCAAATAATATTAATGTTATA
1 ATTTTAGAATTATCTTCAAATAAT-TTAATGTTATA
* *
46159766 ATTTTAGAATTATCTTCAATTTATTTAATGTTAT
1 ATTTTAGAATTATCTTCAAATAATTTAATGTTAT
46159800 TGTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (35 bp):
ATTTTAGAATTATCTTCAAATAATTTAATGTTATA
Found at i:46161139 original size:3 final size:3
Alignment explanation
Indices: 46161131--46161167 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
46161121 AAATTTGATG
* *
46161131 TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46161168 ATTTTCCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46161364 original size:26 final size:26
Alignment explanation
Indices: 46161321--46161373 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46161311 ATATCTTTGC
** *
46161321 ACCTTATTATATTTATATGTTTTCTAT
1 ACCTTATTATATACATATATTTT-TAT
46161348 ACCTTA-TATATACATATATTTTTAT
1 ACCTTATTATATACATATATTTTTAT
46161373 A
1 A
46161374 TACATATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 13 0.57
27 6 0.26
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (26 bp):
ACCTTATTATATACATATATTTTTAT
Found at i:46161370 original size:27 final size:27
Alignment explanation
Indices: 46161321--46161376 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
46161311 ATATCTTTGC
** *
46161321 ACCTTATTATATTTATATGTTTTCTAT
1 ACCTTATTATACATATATGTTTTATAT
46161348 ACCTTATATATACATATAT-TTTTATAT
1 ACCTTAT-TATACATATATGTTTTATAT
46161375 AC
1 AC
46161377 ATATTCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (27 bp):
ACCTTATTATACATATATGTTTTATAT
Found at i:46161480 original size:16 final size:16
Alignment explanation
Indices: 46161444--46161482 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46161434 TTAATTTGTA
46161444 TATATATACATACTTT
1 TATATATACATACTTT
* **
46161460 CATATATACATGTTTT
1 TATATATACATACTTT
46161476 TATATAT
1 TATATAT
46161483 TTCTATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:46165555 original size:17 final size:18
Alignment explanation
Indices: 46165533--46165569 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46165523 TTATTCTTTT
46165533 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
46165550 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
46165568 AT
1 AT
46165570 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:46170394 original size:46 final size:46
Alignment explanation
Indices: 46170325--46170574 Score: 394
Period size: 46 Copynumber: 5.4 Consensus size: 46
46170315 TATCAATGAG
* *
46170325 GATAGCAGATCTTATCTTTCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
46170371 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
46170417 GATAGCGGATCTTATTTTCCTGTATTTGGCAGCGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
46170463 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
46170509 GATAGTAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
**
46170555 GAT-GGTGAATCTTATCTTCC
1 GATAGCAG-ATCTTATCTTCC
46170575 CAATACAATG
Statistics
Matches: 191, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 189 0.99
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:46170663 original size:44 final size:44
Alignment explanation
Indices: 46170610--46171217 Score: 180
Period size: 44 Copynumber: 13.8 Consensus size: 44
46170600 GCCATTAGTC
* *
46170610 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * ** *
46170654 CTGTCACCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * *
46170697 CTTATCTTCCC-AATACAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
*
46170742 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * **
46170786 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTG-A-ATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT--TGCAGATT
* ** * * * * * * *
46170830 TTATCTTTCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 CTATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* *
46170874 CTATCACCCTAAGCAGTAGTGGAGTA-ATTTGAAGCTTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGA-TTGAAGATTGCAGATT
* * * ** ** *
46170918 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * * *
46170961 CTTATCTTCAC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* * * * *
46171006 CTATCCCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAAATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * ** * ** *
46171050 TTGTCACCCTAATCAGTAGTGGAACAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * *
46171093 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* *
46171138 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * *
46171182 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT
46171218 GGTGAATCTT
Statistics
Matches: 395, Mismatches: 126, Indels: 86
0.65 0.21 0.14
Matches are distributed among these distances:
41 11 0.03
42 1 0.00
43 91 0.23
44 200 0.51
45 79 0.20
46 5 0.01
47 5 0.01
48 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
Found at i:46171391 original size:132 final size:132
Alignment explanation
Indices: 46170547--46171369 Score: 1360
Period size: 132 Copynumber: 6.2 Consensus size: 132
46170537 GCAGCAGAGG
* *
46170547 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTCAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
*
46170612 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
46170677 GC
131 GC
* *
46170679 AGATTGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
*
46170744 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
46170809 GC
131 GC
* * *
46170811 AGATCAAAGATGGTGAATTTTATCTTTCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
** * * *
46170876 ATCACCCTAAGCAGTAGTGGAGTAATTTGAAGCTTGTAGATTCTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
46170941 GC
131 GC
* *
46170943 AGATCAAAGATGGTGAATCTTATCTTCACAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* ** * * *
46171008 ATCCCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAAATTTTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
*
46171073 AC
131 GC
46171075 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
*
46171140 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
46171205 GC
131 GC
* *
46171207 AGATCGAAGATGGTGAATCTTATCTTCACAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * *
46171272 ATCACCCTAAGCAGTAGTGGAATAGGTCGAAGATTACAGATTCTGTCACCCTAAACAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
46171337 GC
131 GC
*
46171339 AGATCAAAGATGCG-GAATCTTATCTTCCCAA
1 AGATCGAAGATG-GTGAATCTTATCTTCCCAA
46171370 GGTAGTAGGG
Statistics
Matches: 645, Mismatches: 45, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 644 1.00
133 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
GC
Found at i:46172826 original size:3 final size:3
Alignment explanation
Indices: 46172818--46172851 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
46172808 AAATTTGATG
* *
46172818 TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46172852 ATTTTCCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46173050 original size:28 final size:27
Alignment explanation
Indices: 46173005--46173061 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
46172995 ATATCTTTGC
** * *
46173005 ACCTTATTATATTTATATGTTTTCTAT
1 ACCTTATTATACATATATATTTTATAT
46173032 ACCTTATATATACATATATATTTTATAT
1 ACCTTAT-TATACATATATATTTTATAT
46173060 AC
1 AC
46173062 ATATTCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
ACCTTATTATACATATATATTTTATAT
Found at i:46174877 original size:19 final size:19
Alignment explanation
Indices: 46174840--46174881 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
46174830 ATGTTATAAT
46174840 TATAGGAAATCTAAAATTA
1 TATAGGAAATCTAAAATTA
*
46174859 CTATAGTAAATCT-AAATTA
1 -TATAGGAAATCTAAAATTA
46174878 TATA
1 TATA
46174882 ATTTAGTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (19 bp):
TATAGGAAATCTAAAATTA
Found at i:46178568 original size:12 final size:12
Alignment explanation
Indices: 46178547--46178581 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46178537 GTGAAAAACA
46178547 TACATAAAAATG
1 TACATAAAAATG
* *
46178559 TCCATCAAAATG
1 TACATAAAAATG
46178571 TACATAAAAAT
1 TACATAAAAAT
46178582 ACATATGGCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (12 bp):
TACATAAAAATG
Found at i:46181723 original size:3 final size:3
Alignment explanation
Indices: 46181715--46181752 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46181705 ATCACATGTT
46181715 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46181753 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46186089 original size:3 final size:3
Alignment explanation
Indices: 46186081--46186109 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46186071 ATCACATGTT
46186081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46186110 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:46186229 original size:73 final size:73
Alignment explanation
Indices: 46186110--46186295 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
46186100 TATTATTATT
*
46186110 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
46186175 ATTTTAAG
66 ATTTTAAG
46186183 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
46186248 ATTTTAAG
66 ATTTTAAG
46186256 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
46186296 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:46192035 original size:5 final size:5
Alignment explanation
Indices: 46192025--46192052 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
46192015 ACAATATCAC
46192025 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
46192053 TCGAGACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:46194209 original size:24 final size:24
Alignment explanation
Indices: 46194182--46194233 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46194172 TTAGTAAGTC
*
46194182 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46194206 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46194230 AAAT
1 AAAT
46194234 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46196179 original size:24 final size:24
Alignment explanation
Indices: 46196152--46196203 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46196142 TTAGTAAGTC
*
46196152 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46196176 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46196200 AAAT
1 AAAT
46196204 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46199506 original size:18 final size:18
Alignment explanation
Indices: 46199479--46199571 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
46199469 TACGACCGTT
46199479 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
46199497 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
46199515 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
46199533 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
46199551 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
46199569 TAC
1 TAC
46199572 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:46199526 original size:36 final size:36
Alignment explanation
Indices: 46199479--46199571 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
46199469 TACGACCGTT
46199479 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
46199515 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
46199551 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
46199572 AGTAGTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:46220515 original size:18 final size:17
Alignment explanation
Indices: 46220473--46220515 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
46220463 TTTTTAAGTT
*
46220473 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
46220490 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
46220508 TATAATTT
1 TATAATTT
46220516 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:46221627 original size:183 final size:183
Alignment explanation
Indices: 46221397--46221766 Score: 704
Period size: 183 Copynumber: 2.0 Consensus size: 183
46221387 CATAGAGACT
**
46221397 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTTGGTATCGAGTTTAGGGACTAAATTGAATAAA
1 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
46221462 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
66 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
46221527 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
131 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
*
46221580 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTGTCGAGTTTAGGGACTAAATTGAATAAA
1 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
*
46221645 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATGA
66 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
46221710 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
131 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
46221763 TATT
1 TATT
46221767 TTTATTAATA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (183 bp):
TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
Found at i:46223096 original size:3 final size:3
Alignment explanation
Indices: 46223083--46223122 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
46223073 TAAAGTAAAG
46223083 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46223123 GAGATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:46224432 original size:75 final size:75
Alignment explanation
Indices: 46224264--46224446 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 75
46224254 TGGGCACACA
* * * *
46224264 ATCGTCAGTTAATCCGACTAGCGCTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCT
1 ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
*
46224329 CACAATTATT
66 CACAATTAAT
* * * ** *
46224339 ATCGTCAGTATACCCGACTAGCACTGGGTGCAAATAGTGTTAGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
46224404 CAC-ATTCAAT
66 CACAATT-AAT
* **
46224414 A-CTGTCGGTAAATTCGACTAGCGCTGGGTGCAA
1 ATC-GTCAGTAAACCCGACTAGCGCTGGGTGCAA
46224447 TCTTCTTTGC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
74 4 0.04
75 86 0.96
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (75 bp):
ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
CACAATTAAT
Found at i:46229301 original size:39 final size:41
Alignment explanation
Indices: 46229228--46229317 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
46229218 TAAAAAATAT
* * *
46229228 TTATATTAAAAAACATTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
46229269 TTATATTAAAAAACA-CA-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
*
46229308 TTGTATTAAA
1 TTATATTAAA
46229318 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
40 1 0.02
41 15 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
Found at i:46230875 original size:31 final size:31
Alignment explanation
Indices: 46230840--46230898 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
46230830 TAAAATATAT
46230840 ATTTTTA-ATAATTTT-AATGATTTTTAAAATA
1 ATTTTTATATAATTTTGAA--ATTTTTAAAATA
*
46230871 ATTTTTATATATTTTTGAAATTTTTAAA
1 ATTTTTATATAATTTTGAAATTTTTAAA
46230899 TTTTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 16 0.64
32 7 0.28
33 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
ATTTTTATATAATTTTGAAATTTTTAAAATA
Found at i:46230885 original size:21 final size:20
Alignment explanation
Indices: 46230835--46230905 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
46230825 AATATTAAAA
*
46230835 TATATATTTTTAATAATTTT
1 TATATATTTTAAATAATTTT
*
46230855 AATGAT-TTTTAAAATAATTTT
1 TAT-ATATTTT-AAATAATTTT
**
46230876 TATATATTTTTGA-AATTTT
1 TATATATTTTAAATAATTTT
46230895 TA-A-ATTTTAAA
1 TATATATTTTAAA
46230906 AAGTTAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.15
18 1 0.02
19 8 0.20
20 9 0.22
21 17 0.41
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATATATTTTAAATAATTTT
Found at i:46232027 original size:21 final size:21
Alignment explanation
Indices: 46232003--46232052 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
46231993 AATTAGATTA
46232003 AATTATATATAAAAATTAAAT
1 AATTATATATAAAAATTAAAT
** *
46232024 AATTATAT-TCCATATTAAAT
1 AATTATATATAAAAATTAAAT
46232044 AA-TATATAT
1 AATTATATAT
46232053 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTATATATAAAAATTAAAT
Found at i:46238801 original size:42 final size:44
Alignment explanation
Indices: 46238742--46238839 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 44
46238732 CAAGTCAACA
* *
46238742 TAAAATGGCTTACAGGTCAACCGAAAATAAG-C-CATTTTTCAG
1 TAAAATGACTTACAGGTCAACAGAAAATAAGCCTCATTTTTCAG
* * *
46238784 TAAAATGACTTATAGGTCAACAGAAAATAAGCTCTCTTTTTTTAG
1 TAAAATGACTTACAGGTCAACAGAAAATAAGC-CTCATTTTTCAG
46238829 TAAAATGACTT
1 TAAAATGACTT
46238840 GTCATTTTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.58
44 1 0.02
45 19 0.40
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (44 bp):
TAAAATGACTTACAGGTCAACAGAAAATAAGCCTCATTTTTCAG
Found at i:46239004 original size:13 final size:14
Alignment explanation
Indices: 46238981--46239012 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
46238971 AATATTTAAA
46238981 AATATTAAAATATT
1 AATATTAAAATATT
46238995 AATA-TAAAATATT
1 AATATTAAAATATT
46239008 -ATATT
1 AATATT
46239013 TTTGAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAAATATT
Found at i:46239095 original size:25 final size:22
Alignment explanation
Indices: 46239058--46239123 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 22
46239048 ATATTTAGTC
*
46239058 ATATAATAAATTATATTAATTA
1 ATATAATTAATTATATTAATTA
*
46239080 TATTCATAATTTATTATA-TAATTA
1 -A-T-ATAATTAATTATATTAATTA
*
46239104 ATATAATTAATTATTTTAAT
1 ATATAATTAATTATATTAAT
46239124 AAATTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 11 0.31
22 5 0.14
23 2 0.06
24 7 0.19
25 11 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATAATTAATTATATTAATTA
Found at i:46239099 original size:37 final size:37
Alignment explanation
Indices: 46239058--46239131 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
46239048 ATATTTAGTC
* *
46239058 ATATAATAAAT-TATATTAATTATATTCATAATTTATT
1 ATATAATAAATATA-ATTAATTATATTAATAAATTATT
* *
46239095 ATATAATTAATATAATTAATTATTTTAATAAATTATT
1 ATATAATAAATATAATTAATTATATTAATAAATTATT
46239132 TAATATTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (37 bp):
ATATAATAAATATAATTAATTATATTAATAAATTATT
Found at i:46239173 original size:16 final size:16
Alignment explanation
Indices: 46239141--46239187 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
46239131 TTAATATTTC
*
46239141 AATTTTAATTTAATAAT
1 AATTTTAA-ATAATAAT
46239158 AAATTTTAAA-AATAAT
1 -AATTTTAAATAATAAT
46239174 AATTTTAAATAATA
1 AATTTTAAATAATA
46239188 TTCTTCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 9 0.33
16 10 0.37
18 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTTAAATAATAAT
Found at i:46239238 original size:15 final size:15
Alignment explanation
Indices: 46239220--46239276 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
46239210 ATTCAATATT
46239220 AATATTTTAACAATA
1 AATATTTTAACAATA
*
46239235 AATATTTATTACAATTATA
1 AATATTT-TAAC-A--ATA
* *
46239254 AATATATTAATAATA
1 AATATTTTAACAATA
46239269 AATATTTT
1 AATATTTT
46239277 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 3 0.09
17 2 0.06
18 2 0.06
19 9 0.27
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAACAATA
Found at i:46243948 original size:44 final size:44
Alignment explanation
Indices: 46243887--46245987 Score: 296
Period size: 44 Copynumber: 47.6 Consensus size: 44
46243877 GATGCGATCT
* *
46243887 ACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * * * *
46243931 ACTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTCAATCTGATGTGATCT
1 ACTCCACTGTAACTTCAGAGAGAT--AA-GATCTG--T-AAT-T--T-TAATCC
* *
46243985 ACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTGTAATTTTAATCC
* * * ** * *
46244029 ACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCC
** * * * *** * *
46244073 ACTCCGTTATAATCTT-AGGGAGATAAGATCTCTGGCTTCAATCT
1 ACTCCACTGTAA-CTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * ** *
46244117 GCTCCACTGTAACCTCA-ATGAGATAAGATCTGAAATTCTTCGGTCT
1 ACTCCACTGTAACTTCAGA-GAGATAAGATCTGTAATT-TT-AATCC
* * *** *
46244163 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TGCGATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* ** * * *
46244204 GCTCTGCTGTAACTTCAGAGAGATAAGATATTTTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * ** * *
46244248 GCTCCACTGTAA-TCTCAGAGAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * * ***
46244292 GCTCCGCTGTAA-TCTCAGGGAGATAAGA-CT-TGATACGATAT--
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTA-ATCC
** *
46244333 ACTTTACTGTAACTTCAGAGAGATAAGATCAT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATC-TGTAATTTTAATCC
* * * * ** * *
46244377 GCTCCACTGCAA-TCTCAGGGAGATAAGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
** * * *** *
46244421 ACTCTGCTGTAA-TCTCAGGGAGATAAGA-CT-TGA-TACGATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTAATCC
* * *
46244462 ACTCTACTGTAACTTCAGAGAGATAAGATTCT-TTATTTTAATTC
1 ACTCCACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCC
* * * * ** * *
46244506 GCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * * *** *
46244550 GCTCCGCTGTAA-TCTCAGGGAGATAAGACCTG--A-TACGATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTAATCC
* * *
46244591 ACTCTACTGTAACTTCAGAGAGATAAGAT-TATTTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * ** * *
46244635 GCTCCACTGTAA-TCTCAG-GAAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAG-AGATAAGATCT-GTAATTTTAATCC
* * * *
46244679 GCTCCGCTGTAA-TCTCAGGGAGATAAGA-CTTGTGATTTTAATCC
1 ACTCCACTGTAACT-TCAGAGAGATAAGATC-TGTAATTTTAATCC
* * * * * *
46244723 ACTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTCAATCTGATGTGATCT
1 ACTCCACTGTAACTTCAGAGAGAT--AA-GATCTG--T-AAT-T--T-TAATCC
* *
46244777 ACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTGTAATTTTAATCC
* * * ** * *
46244821 ACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCC
** * * * *** * *
46244865 ACTCCGTTATAATCTT-AGGGAGATAAGATCTCTGGCTTCAATCT
1 ACTCCACTGTAA-CTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * ** *
46244909 GCTCCACTGTAACCTCA-AGGAGATAAGATCTGAAATTCTTCGGTCT
1 ACTCCACTGTAACTTCAGA-GAGATAAGATCTGTAATT-TT-AATCC
* * *** *
46244955 ACTCCACTGTAACCTCAGGGAGATAAGATCTG--A-TGCGATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* ** * * *
46244996 GCTCTGCTGTAACTTCAGAGAGATAAGATATTTTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * ** * *
46245040 GCTCCACTGTAA-TCTCAGAGAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * * ***
46245084 GCTCCGCTGTAA-TCTCAGGGAGATAAGA-CT-TGATACGATAT--
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTA-ATCC
** *
46245125 ACTTTACTGTAACTTCAGAGAGATAAGATCAT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATC-TGTAATTTTAATCC
* * * * ** * *
46245169 GCTCCACTGCAA-TCTCAGGGAGATAAGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * *** *
46245213 ACTCCGCTGTAA-TCTCAGGGAGATAAGA-CT-TGA-TACGATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTAATCC
* * *
46245254 ACTCTACTGTAACTTCAGAGAGATAAGATTCT-TTATTTTAATTC
1 ACTCCACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCC
* * * * ** * *
46245298 GCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * * *** *
46245342 GCTCCGCTGTAA-TCTCAGGGAGATAAGACCTG--A-TACGATCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATTTTAATCC
* * *
46245383 ACTCTACTGTAACTTCAGAGAGATAAGAT-TATTTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCC
* * * ** * *
46245427 GCTCCACTGTAA-TCTCAG-GAAGATAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGAG-AGATAAGATCT-GTAATTTTAATCC
* * * *
46245471 GCTCCGCTGTAA-TCTCAGGGAGATAAGA-CTTGTGATTTTAATCC
1 ACTCCACTGTAACT-TCAGAGAGATAAGATC-TGTAATTTTAATCC
* * * * * *
46245515 ACTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTCAATCTGATGTGATCT
1 ACTCCACTGTAACTTCAGAGAGAT--AA-GATCTG--T-AAT-T--T-TAATCC
* *
46245569 ACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTGTAATTTTAATCC
* * * ** * *
46245613 ACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTAGCTTCAATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCC
* ** * * * * *
46245657 ACTTCGTTATAA-TCTCAGGGAGATAAGATCTGAAATTCTTCAGTCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAATT-TT-AATCC
* * * *** *
46245703 ACTCCACTGTAACCTCAGGGAGATAAGA-CT-TGA-TGCGATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
* * * * *
46245744 ACTCTACCGTAACTTCAGAGAGATAAGATCATTTATTTTTAATAC
1 ACTCCACTGTAACTTCAGAGAGATAAGATC-TGTAATTTTAATCC
* * * * * ** *
46245789 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGT--CTTCGATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTGTAATTTTAATCC
* * * ** * *
46245832 GCTCCGCTGTAA-TCTCAGGGAGATAAGATCTAAAATTTTTCAGTCT
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCTGTAA-TTTT-AATCC
* * * *** *
46245878 ACTCCACTGTAACCTCAGGGAGATAAGACCTG--A-TGCGATCT
1 ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
** * *
46245919 ACTCTGCTGTAACTTCAGAGAGGTAAGATCCT-TTATTTTAATCC
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CTGTAATTTTAATCC
* *
46245963 GCTCCACTGTAACTTCAGGGAGATA
1 ACTCCACTGTAACTTCAGAGAGATA
46245988 GGATAGTGTC
Statistics
Matches: 1492, Mismatches: 420, Indels: 290
0.68 0.19 0.13
Matches are distributed among these distances:
40 2 0.00
41 268 0.18
42 31 0.02
43 79 0.05
44 804 0.54
45 56 0.04
46 125 0.08
47 11 0.01
48 8 0.01
49 6 0.00
50 6 0.00
51 9 0.01
52 9 0.01
53 3 0.00
54 75 0.05
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ACTCCACTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCC
Found at i:46244044 original size:98 final size:98
Alignment explanation
Indices: 46243875--46244072 Score: 301
Period size: 98 Copynumber: 2.0 Consensus size: 98
46243865 AAGATAAGAC
46243875 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTG
* *
46243940 CAACTTCAGGGAGATAGAATTA-TCGGCTTCAAT
66 CAACTTCAGAGAGATAGAATTACT-AGCTTCAAT
* *
46243973 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCACTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCACTCCACT
* * *
46244037 GTAACTTCAGAGAGTTAGGATTACTAGCTTCAAT
65 GCAACTTCAGAGAGATAGAATTACTAGCTTCAAT
46244071 CT
1 CT
46244073 ACTCCGTTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
98 88 0.97
99 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTG
CAACTTCAGAGAGATAGAATTACTAGCTTCAAT
Found at i:46244342 original size:85 final size:85
Alignment explanation
Indices: 46244253--46244659 Score: 292
Period size: 85 Copynumber: 4.8 Consensus size: 85
46244243 AATCCGCTCC
* *
46244253 ACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
1 ACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
*
46244318 GACTTGATACGATATACTTT
66 GACTTGATACGATATACTCT
* * * * * *
46244338 ACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTTAATCCGCTCCACTGCAATCTCAGGGAGAT
1 ACTGTAATC-TCAGAGAGATAAGATTA-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
* * * * *
46244401 AAGATTACTAGCTTCAATCTACTCT
64 AAG---ACTTGATACGATATACTCT
* * * * * * * * *
46244426 GCTGTAATCTCAGGGAGATAAG---ACTTGATACGATCTACTCTACTGTAA-CTTCAGAGAGATA
1 ACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATA
* *** * *
46244487 AGATTCTTTATTTTA-ATTCGCTCC
65 AGA--CTTGATACGATA-T-ACTCT
* * *
46244511 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
1 ACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
* *
46244576 GACCTGATACGATCTACTCT
66 GACTTGATACGATATACTCT
* * * * *
46244596 ACTGTAA-CTTCAGAGAGATAAGATTATTTA-TTTTAATCCGCTCCACTGTAATCTCAGGAAGAT
1 ACTGTAATC-TCAGAGAGATAAGATTA-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
46244659 A
64 A
46244660 GGATTACTAG
Statistics
Matches: 242, Mismatches: 61, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
82 1 0.00
84 10 0.04
85 156 0.64
86 10 0.04
88 63 0.26
89 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (85 bp):
ACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
GACTTGATACGATATACTCT
Found at i:46244345 original size:129 final size:130
Alignment explanation
Indices: 46244164--46245502 Score: 1563
Period size: 129 Copynumber: 10.2 Consensus size: 130
46244154 CTTCGGTCTA
* * * * *
46244164 CTCCACTGTAACCTCAGGGAGATAAGA-TCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
1 CTCCGCTGTAATCTCAGGGAGATAAGACT-TGATACGATCTACTCTACTGTAACTTCAGAGAGAT
46244228 AAGATAT-TTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
65 AAGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
46244292 G
130 G
* *
46244293 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* * *
46244358 AG--ATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
66 AGATATC-TTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
*
46244421 A
130 G
*
46244422 CTCTGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* *
46244487 AGAT-TCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
66 AGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTG
*
46244551 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
*
46244616 AGAT-TATTTATTTTAATCCGCTCCACTGTAATCTCAG-GAAGATAGGATTACTAGCTTCAATCT
66 AGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAG-AGATAGGATTACTAGCTTCAATCT
46244679 G
130 G
*** * * * *
46244680 CTCCGCTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAG
1 CTCCGCTGTAATCTCAGGGAGATAAGAC-T-TGA-TACGATCTACTCTACTGTAACTTCAGAGAG
* * ** * *
46244745 AT-AGAATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCC
63 ATAAG-A-TAT---CTT-TAT-T--T-TAATCCGCTCCACTGTAATC-TCAGAGAGATAGGAT--
* * * **
46244808 T-TTA-TTTTAATCCA
115 TACTAGCTTCAATCTG
* * * * * * * * *** * *
46244822 CTCCACTGTAA-CTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTT-AGGG
1 CTCCGCTGTAATC-TCAGGGAGATA--A-GACTTGATACGATCTACTCTACTGTAA-CTTCAGAG
* *** * * * * * *
46244885 AGATAAGATCTC-TGGCTTCAATCTGCTCCACTGTAACCTCA-AGGAGATAAGATCTGA-AATTC
61 AGATAAGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGA-GAGATAGGAT-T-ACTA-GC
** *
46244947 TTCGGTCTA
122 TTCAATCTG
* * * * *
46244956 CTCCACTGTAACCTCAGGGAGATAAGA-TCTGATGCGATCTGCTCTGCTGTAACTTCAGAGAGAT
1 CTCCGCTGTAATCTCAGGGAGATAAGACT-TGATACGATCTACTCTACTGTAACTTCAGAGAGAT
46245020 AAGATAT-TTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
65 AAGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
46245084 G
130 G
* *
46245085 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* * *
46245150 AG--ATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
66 AGATATC-TTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCT
*
46245213 A
130 G
46245214 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* *
46245279 AGAT-TCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
66 AGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTG
*
46245343 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
*
46245408 AGAT-TATTTATTTTAATCCGCTCCACTGTAATCTCAG-GAAGATAGGATTACTAGCTTCAATCT
66 AGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAG-AGATAGGATTACTAGCTTCAATCT
46245471 G
130 G
46245472 CTCCGCTGTAATCTCAGGGAGATAAGACTTG
1 CTCCGCTGTAATCTCAGGGAGATAAGACTTG
46245503 TGATTTTAAT
Statistics
Matches: 1048, Mismatches: 114, Indels: 96
0.83 0.09 0.08
Matches are distributed among these distances:
127 4 0.00
128 2 0.00
129 774 0.74
130 12 0.01
131 69 0.07
132 56 0.05
133 3 0.00
134 26 0.02
135 2 0.00
137 3 0.00
138 3 0.00
139 1 0.00
141 5 0.00
142 74 0.07
143 9 0.01
144 3 0.00
145 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (130 bp):
CTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATATCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTG
Found at i:46244916 original size:186 final size:186
Alignment explanation
Indices: 46244586--46244933 Score: 497
Period size: 186 Copynumber: 1.9 Consensus size: 186
46244576 GACCTGATAC
* *
46244586 GATCTACTCTACTGTAACTTCAGAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTGTAATCTC
* * *
46244651 AGGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGTGATT
66 AGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTATAATCTCAGGGAGATAAGACTTGTGACT
* * *
46244716 TTAATCCACTCCACTGCAACTTCAGGGAGATAGAATTATCGGCTTCAATCTGATGT
131 TCAATCCACTCCACTGCAACCTCAAGGAGATAGAATTATCGGCTTCAATCTGATGT
*
46244772 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA-CTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTGTAATC-T
* * *
46244836 CA-GAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTTAGGGAGATAAGATCTCTG-
65 CAGGA-AGATAGGATTACTAGCTTCAATCTACTCCGCTATAATCTCAGGGAGATAAGA-CT-TGT
** *
46244899 G-CTTCAATCTGCTCCACTGTAACCTCAAGGAGATA
127 GACTTCAATCCACTCCACTGCAACCTCAAGGAGATA
46244934 AGATCTGAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
185 3 0.02
186 135 0.94
187 3 0.02
188 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (186 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTGTAATCTC
AGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTATAATCTCAGGGAGATAAGACTTGTGACT
TCAATCCACTCCACTGCAACCTCAAGGAGATAGAATTATCGGCTTCAATCTGATGT
Found at i:46245134 original size:85 final size:85
Alignment explanation
Indices: 46245041--46245451 Score: 291
Period size: 85 Copynumber: 4.8 Consensus size: 85
46245031 TTTTAATCCG
* *
46245041 CTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
46245106 ATAAGACTTGATACGATATA
66 ATAAGACTTGATACGATATA
** * * * * * *
46245126 CTTTACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTTAATCCGCTCCACTGCAATCTCAGGG
1 CTCCACTGTAATC-TCAGAGAGATAAGATTA-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGG
* * * * *
46245189 AGATAAGATTACTAGCTTCAATCTA
64 AGATAAG---ACTTGATACGATATA
* * * * * * * * *
46245214 CTCCGCTGTAATCTCAGGGAGATAAG---ACTTGATACGATCTACTCTACTGTAA-CTTCAGAGA
1 CTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATC-TCAGGGA
* *** *
46245275 GATAAGATTCTTTATTTTA-ATTCG
65 GATAAGA--CTTGATACGATA-T-A
* * *
46245299 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
* *
46245364 ATAAGACCTGATACGATCTA
66 ATAAGACTTGATACGATATA
* * * * * *
46245384 CTCTACTGTAA-CTTCAGAGAGATAAGATTATTTA-TTTTAATCCGCTCCACTGTAATCTCAGGA
1 CTCCACTGTAATC-TCAGAGAGATAAGATTA-CTAGCTTCAATCTGCTCCACTGTAATCTCAGGG
46245447 AGATA
64 AGATA
46245452 GGATTACTAG
Statistics
Matches: 244, Mismatches: 63, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
82 1 0.00
84 10 0.04
85 159 0.65
86 10 0.04
88 62 0.25
89 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
ATAAGACTTGATACGATATA
Found at i:46245431 original size:792 final size:792
Alignment explanation
Indices: 46243893--46246033 Score: 3581
Period size: 792 Copynumber: 2.7 Consensus size: 792
46243883 ATCTACTCTA
*
46243893 CTGTAA-CTTCAGAGAGATAAGA-TCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
1 CTGTAATC-TCAGGGAGATAAGACT-TGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
46243956 GAATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
64 GAATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
46244021 TTTAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAAT
129 TTTAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAAT
*
46244086 CTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAATGAGATAAGATCTGAA
194 CTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAA
46244151 ATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTGCTCTGCTGTAA
259 ATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTGCTCTGCTGTAA
46244216 CTTCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACT
324 CTTCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACT
46244281 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAAC
389 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAAC
46244346 TTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTA
454 TTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTA
*
46244411 GCTTCAATCTACTCTGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACT
519 GCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACT
46244476 TCAGAGAGATAAGATTCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAG
584 TCAGAGAGATAAGATTCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAG
46244541 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTT
649 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTT
46244606 CAGAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGC
714 CAGAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGC
46244671 TTCAATCTGCTCCG
779 TTCAATCTGCTCCG
46244685 CTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGA
1 CTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGA
46244750 ATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 ATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
46244815 TAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCT
131 TAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCT
46244880 TAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT
196 TAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT
46244945 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTGCTCTGCTGTAACT
261 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTGCTCTGCTGTAACT
46245010 TCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAG
326 TCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAG
46245075 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAACTT
391 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAACTT
46245140 CAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTAGC
456 CAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTAGC
46245205 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTC
521 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTC
46245270 AGAGAGATAAGATTCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCT
586 AGAGAGATAAGATTCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCT
46245335 TCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCA
651 TCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCA
46245400 GAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGCTT
716 GAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGCTT
46245465 CAATCTGCTCCG
781 CAATCTGCTCCG
46245477 CTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGA
1 CTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGA
46245542 ATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 ATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
46245607 TAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTTCGTTATAATCT
131 TAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCT
* * * * * *
46245672 CAGGGAGATAAGATCTGAAAT-TCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTG
196 TAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATC-TG
* * * * * * * *** *
46245735 --A---TGCGATCTACTCTACCGTAACTTCAGAGAGATAAGATCATTTATTTTTAATAC-GCTCC
257 AAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATC--TGA--TGCGAT-CTGCTCT
* * * * * * ** * * * *
46245794 ACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAA
317 GCTGTAACTTCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAG
** ** * * * * * * * *
46245858 GATCTAAAATTTTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTC
382 GAT-TACTA-GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTT
* * * *
46245923 TGCTGTAACTTCAGAGAGGTAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGAT
445 TACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATC-TCAGGGAGAT
* * *
46245987 AGGA-TAGT-GTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGA
509 AAGATTACTAG-CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGA
46246034 TCTCTAATAT
Statistics
Matches: 1282, Mismatches: 52, Indels: 29
0.94 0.04 0.02
Matches are distributed among these distances:
789 32 0.02
791 2 0.00
792 1027 0.80
793 77 0.06
794 143 0.11
795 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (792 bp):
CTGTAATCTCAGGGAGATAAGACTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGA
ATTATCGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCACTCCACTGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCT
TAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTGCTCTGCTGTAACT
TCAGAGAGATAAGATATTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAG
CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATATACTTTACTGTAACTT
CAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGCAATCTCAGGGAGATAAGATTACTAGC
TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGACTTGATACGATCTACTCTACTGTAACTTC
AGAGAGATAAGATTCTTTATTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCT
TCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCA
GAGAGATAAGATTATTTATTTTAATCCGCTCCACTGTAATCTCAGGAAGATAGGATTACTAGCTT
CAATCTGCTCCG
Found at i:46245720 original size:46 final size:46
Alignment explanation
Indices: 46245670--46245910 Score: 159
Period size: 46 Copynumber: 5.4 Consensus size: 46
46245660 TCGTTATAAT
46245670 CTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAAC
1 CTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAAC
* * * *
46245716 CTCAGGGAGATAAGA-CTTG--ATGC--GA-TCTACTCTACCGTAAC
1 CTCAGGGAGATAAGATC-TGAAATTCTTCAGTCTACTCCACTGTAAC
* * ** * * *
46245757 TTCAGAGAGATAAGATCAT-TTATT-TTTAATAC-GCTCCACTGTAAC
1 CTCAGGGAGATAAGATC-TGAAATTCTTCAGT-CTACTCCACTGTAAC
* * * * * *
46245802 TTCAGGGAGATAGGA--T--AGTGTCTTC-GATCTGCTCCGCTGTAAT
1 CTCAGGGAGATAAGATCTGAAAT-TCTTCAG-TCTACTCCACTGTAAC
* *
46245845 CTCAGGGAGATAAGATCTAAAATTTTTCAGTCTACTCCACTGTAAC
1 CTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAAC
*
46245891 CTCAGGGAGATAAGACCTGA
1 CTCAGGGAGATAAGATCTGA
46245911 TGCGATCTAC
Statistics
Matches: 149, Mismatches: 29, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
41 28 0.19
42 6 0.04
43 29 0.19
44 4 0.03
45 26 0.17
46 53 0.36
47 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
CTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAAC
Found at i:46245855 original size:175 final size:174
Alignment explanation
Indices: 46245557--46246036 Score: 764
Period size: 175 Copynumber: 2.7 Consensus size: 174
46245547 CGGCTTCAAT
* *
46245557 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * * * * * *
46245622 TAACTTCAGAGAGTTAGGATTACTAG-CTTCAATCTACTTCGTTATAATCTCAGGGAGATAAGAT
66 TAACTTCAGGGAGATAGGA-TAGT-GTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
*
46245686 CTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
129 CTAAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
* * * *
46245732 TTGATGCGATCTACTCTACCGTAACTTCAGAGAGATAAGATCATTTATTTTTAATACGCTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCCACT
*
46245797 GTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
65 GTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGATC
*
46245862 TAAAATTTTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
130 TAAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
* *
46245907 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGGTAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
46245972 TAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
66 TAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
46246037 CTAATATTTA
Statistics
Matches: 280, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
174 82 0.29
175 165 0.59
176 33 0.12
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (174 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
AAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
Found at i:46246004 original size:87 final size:86
Alignment explanation
Indices: 46245564--46246035 Score: 395
Period size: 87 Copynumber: 5.4 Consensus size: 86
46245554 AATCTGATGT
*
46245564 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTT
1 GATCTACTCTGCTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTT
* *
46245628 CAGAGAGTTAGGATTACTAGCTTC
65 CAGGGAGATAGGA-TACT-GCTTC
* * * * ** * *
46245652 AATCTACT-TCGTTATAATCTCAGGGAGATAAGAT-CTGAAATTCTTCAGTCTACTCCACTGTAA
1 GATCTACTCT-GCTGTAATCTCAGAGAGATAAGATCCT-TTATT-TT-AATCCACTCCACTGTAA
* * * *
46245715 CCTCAGGGAGATA--AGACTTGATGC
62 CTTCAGGGAGATAGGATAC-TGCTTC
* * * * *
46245739 GATCTACTCTACCGTAA-CTTCAGAGAGATAAGATCATTTATTTTTAATACGCTCCACTGTAACT
1 GATCTACTCTGCTGTAATC-TCAGAGAGATAAGATCCTTTA-TTTTAATCCACTCCACTGTAACT
*
46245803 TCAGGGAGATAGGATAGTGTCTTC
64 TCAGGGAGATAGGATACTG-CTTC
* * * ** * *
46245827 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTAAAATTTTTCAGTCTACTCCACTGTAAC
1 GATCTACTCTGCTGTAATCTCAGAGAGATAAGATCCT-TTA-TTTT-AATCCACTCCACTGTAAC
* * * * *
46245891 CTCAGGGAGATAAGA-CCTGATGC
63 TTCAGGGAGATAGGATACTGCTTC
* *
46245914 GATCTACTCTGCTGTAA-CTTCAGAGAGGTAAGATCCTTTATTTTAATCCGCTCCACTGTAACTT
1 GATCTACTCTGCTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTT
*
46245978 CAGGGAGATAGGATAGTGTCTTC
65 CAGGGAGATAGGATACTG-CTTC
* *
46246001 GATCTACTCCGCTGTAATCTCAGGGAGATAAGATC
1 GATCTACTCTGCTGTAATCTCAGAGAGATAAGATC
46246036 TCTAATATTT
Statistics
Matches: 294, Mismatches: 69, Indels: 43
0.72 0.17 0.11
Matches are distributed among these distances:
85 28 0.10
86 33 0.11
87 101 0.34
88 76 0.26
89 31 0.11
90 25 0.09
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (86 bp):
GATCTACTCTGCTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTC
AGGGAGATAGGATACTGCTTC
Found at i:46247277 original size:7 final size:7
Alignment explanation
Indices: 46247265--46247311 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
46247255 TTAGCCTCTC
46247265 CATTTTT
1 CATTTTT
46247272 CA-TTTT
1 CATTTTT
46247278 CATTTTT
1 CATTTTT
*
46247285 CATGTTT
1 CATTTTT
*
46247292 CA-TTCT
1 CATTTTT
46247298 CATTTTT
1 CATTTTT
46247305 CATTTTT
1 CATTTTT
46247312 TTGACTTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:46247283 original size:13 final size:13
Alignment explanation
Indices: 46247265--46247311 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
46247255 TTAGCCTCTC
46247265 CATTTTTCATTTT
1 CATTTTTCATTTT
46247278 CATTTTTCATGTTT
1 CATTTTTCAT-TTT
*
46247292 CA-TTCTCATTTTT
1 CATTTTTCA-TTTT
46247305 CATTTTT
1 CATTTTT
46247312 TTGACTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:46247294 original size:20 final size:20
Alignment explanation
Indices: 46247269--46247307 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46247259 CCTCTCCATT
*
46247269 TTTCATTTTCATTTTTCATG
1 TTTCATTCTCATTTTTCATG
46247289 TTTCATTCTCATTTTTCAT
1 TTTCATTCTCATTTTTCAT
46247308 TTTTTTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTCATTCTCATTTTTCATG
Found at i:46256568 original size:37 final size:35
Alignment explanation
Indices: 46256499--46256594 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 35
46256489 AAAAAGGGAA
*
46256499 GAAAATGAAAAAAATCAAAATCAAAGTAAAAAAAC
1 GAAAATGAAAAAAATCAAAATCAAAGAAAAAAAAC
*
46256534 GAAAATGAAAAATCAATCAAAATCAAA-AACAAAAAGAA
1 GAAAATGAAAAA--AATCAAAATCAAAGAA-AAAAA-AC
* * *
46256572 GAAAAAG-TAAAAATTAAAATCAA
1 GAAAATGAAAAAAATCAAAATCAA
46256595 GGTCAAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
35 23 0.44
36 1 0.02
37 21 0.40
38 7 0.13
ACGTcount: A:0.71, C:0.08, G:0.08, T:0.12
Consensus pattern (35 bp):
GAAAATGAAAAAAATCAAAATCAAAGAAAAAAAAC
Found at i:46257472 original size:14 final size:15
Alignment explanation
Indices: 46257447--46257475 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46257437 ACCAATTCAA
46257447 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
46257462 AAAAAAT-AAAAATG
1 AAAAAATGAAAAATG
46257476 GAGAGCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:46259672 original size:128 final size:128
Alignment explanation
Indices: 46258668--46259653 Score: 1621
Period size: 128 Copynumber: 7.7 Consensus size: 128
46258658 ATTAGTGAAT
* * * *
46258668 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTC
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC-T--TC
* * * * *
46258733 AGGAGTAGGGAAACAGATTTAAGCCACAAGTTCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
63 AAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
46258798 A
128 A
* *
46258799 ATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
*
46258864 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
46258927 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
*
46258992 TGCAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* * *
46259055 ATTACAGATCTTGCCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
*
46259120 TGTAAGGAAGCATATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* **
46259183 ATTACAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
* *
46259248 TGTAATGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* *
46259311 ATTGCAGATCTTGTCTTCTTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
* *
46259376 TGTAAGGAAGAAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGAAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* * * **
46259439 ATTGTAGATCTTGTCTCCCTAAGAAGTAGCGGAGCAGATCAAAGACGAAGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
* *
46259504 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAATGAAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
*
46259567 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGAAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
* *
46259632 TGTAAGGAAGCAAATTGAAGCC
66 TGTAAGGAAGCAGATTTAAGCC
46259654 GATAATCCTG
Statistics
Matches: 805, Mismatches: 50, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
128 747 0.93
130 1 0.00
131 57 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
ATTGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
Found at i:46259817 original size:44 final size:44
Alignment explanation
Indices: 46259747--46259905 Score: 119
Period size: 44 Copynumber: 3.6 Consensus size: 44
46259737 TATCAAGTCT
** * *
46259747 TATC-CCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCA-AATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAG-ATAATCC
* **
46259790 TATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAGTCGATAATCC
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGACTGAAGAAGATAATCC
* * * * * *
46259834 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTA-ATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGATA-ATCC
* * *
46259878 TATCTCTCTGAAGTAGCAGTAGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
46259906 ACGCATCAAG
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
43 10 0.11
44 82 0.87
45 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGATAATCC
Found at i:46271827 original size:20 final size:20
Alignment explanation
Indices: 46271778--46271835 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
46271768 CATTGATTTA
* *
46271778 TTTTTTTTTTATTTCTAGTTG
1 TTTTTATTTT-TTGCTAGTTG
46271799 TACTTTTATTTTTTGCTAGTTG
1 T--TTTTATTTTTTGCTAGTTG
*
46271821 TTTTTATTTTATGCT
1 TTTTTATTTTTTGCT
46271836 GAGACTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 13 0.41
21 1 0.03
22 10 0.31
23 8 0.25
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTATTTTTTGCTAGTTG
Found at i:46275428 original size:30 final size:30
Alignment explanation
Indices: 46275394--46275450 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46275384 ACACTTATCA
*
46275394 TATTTCATATGT-TTTTAGAACTTTTTTTTT
1 TATTTCATAT-TCTTTTAGAACTCTTTTTTT
*
46275424 TATTTCATGTTCTTTTAGAACTCTTTT
1 TATTTCATATTCTTTTAGAACTCTTTT
46275451 ATAAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.63
Consensus pattern (30 bp):
TATTTCATATTCTTTTAGAACTCTTTTTTT
Found at i:46283274 original size:41 final size:41
Alignment explanation
Indices: 46283217--46283302 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
46283207 TTATCCTAAA
46283217 AAGTGAAGAGAAAAATCATCAGTAGTTCAAACTTAATCAAG
1 AAGTGAAGAGAAAAATCATCAGTAGTTCAAACTTAATCAAG
46283258 AAGTGAAGAGAAAAATCATCAGTAGTTCAAACTTAATCAAG
1 AAGTGAAGAGAAAAATCATCAGTAGTTCAAACTTAATCAAG
46283299 AAGT
1 AAGT
46283303 CACATTCTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (41 bp):
AAGTGAAGAGAAAAATCATCAGTAGTTCAAACTTAATCAAG
Found at i:46288528 original size:21 final size:21
Alignment explanation
Indices: 46288504--46289036 Score: 175
Period size: 22 Copynumber: 24.6 Consensus size: 21
46288494 TAACCCTAAT
*
46288504 CCTAACACTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
*
46288525 CCTAACCCTTCAA-TTAAAAAT
1 CCTAACCCTT-AACTTAAAAAC
*
46288546 ACTAACCCTTAACTTAAAAATC
1 CCTAACCCTTAACTTAAAAA-C
* *
46288568 CCAAACCCTAAACTTAAAAACCATAAAC
1 CCTAACCCTTAACTT----A--A-AAAC
* *
46288596 CCTAAACCTTAAACCTAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
* *
46288618 CATAACCTTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
46288639 CTCAAACCCTAAACCTAAAAA-
1 C-CTAACCCTTAACTTAAAAAC
* * *
46288660 CATAACCCTTAACCTAAAACC
1 CCTAACCCTTAACTTAAAAAC
*
46288681 CCTAAACCCTAAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
46288703 CTTAAACCCTAAAACTTTAGCTTTCAAAAC
1 CCT-AACCCT-TAAC-TTA------AAAAC
*
46288733 CCTAA-CCTTAATCCT---AAC
1 CCTAACCCTTAA-CTTAAAAAC
46288751 CCTTAA--C-T----TAAAAAC
1 CC-TAACCCTTAACTTAAAAAC
46288766 CCTAACCCTTAAAC-TAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
**
46288787 GTTAACCCTTAAC-TAAAAACC
1 CCTAACCCTTAACTTAAAAA-C
* *
46288808 CCAAACCCTAAAC-TAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
46288828 CATAAACCATAAACTTAAAAATC
1 CCT-AACCCTTAACTTAAAAA-C
* * * *
46288851 CCAAACTCTAAACTAAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
46288872 CTTAAACTCTAAACTTAAAAACC
1 CCT-AACCCTTAACTTAAAAA-C
* * * *
46288895 CCAAACACTAAACCTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
*
46288916 ACTAA-CCTTAAACTTAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
* * *
46288937 CCTAAACCCTAAAC-CATAAAAT
1 CCT-AACCCTTAACTTA-AAAAC
*
46288959 CCTAAACCTTAAACTTAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
* * *
46288981 CATGAACCCTAAACCTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* * * *
46289003 CTTAAACCTTAAACTTTAAAAT
1 CCTAACCCTT-AACTTAAAAAC
*
46289025 CCTAAACCTTAA
1 CCTAACCCTTAA
46289037 AACCTTAACT
Statistics
Matches: 387, Mismatches: 77, Indels: 96
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.00
14 3 0.01
15 5 0.01
16 1 0.00
17 2 0.01
18 6 0.02
19 3 0.01
20 30 0.08
21 117 0.30
22 164 0.42
23 18 0.05
24 3 0.01
25 1 0.00
26 1 0.00
27 3 0.01
28 13 0.03
29 9 0.02
30 7 0.02
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (21 bp):
CCTAACCCTTAACTTAAAAAC
Found at i:46288708 original size:22 final size:22
Alignment explanation
Indices: 46288592--46289037 Score: 312
Period size: 22 Copynumber: 20.8 Consensus size: 22
46288582 TAAAAACCAT
* *
46288592 AAACCCTAAACCTTAAACCTAA
1 AAACCCTAAACCCTAAACTTAA
* * *
46288614 AAACCAT-AACCTTTAACTTAA
1 AAACCCTAAACCCTAAACTTAA
*
46288635 AAA-CCTCAAACCCTAAACCTAA
1 AAACCCT-AAACCCTAAACTTAA
* * *
46288657 AAA-CAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTAAACTTAA
*
46288677 AACCCCTAAACCCTAAACTTAA
1 AAACCCTAAACCCTAAACTTAA
* *
46288699 AAACCTTAAACCCTAAAACTTTA
1 AAACCCTAAACCCT-AAACTTAA
***** * *
46288722 GCTTTCAAAACCCTAACCTTAA
1 AAACCCTAAACCCTAAACTTAA
* *
46288744 T---CCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTAAACTTAA
46288762 AAACCCT-AACCCTTAAAC-TAA
1 AAACCCTAAACCC-TAAACTTAA
* * *
46288783 AAA-CGTTAACCCTTAAC-TAA
1 AAACCCTAAACCCTAAACTTAA
*
46288803 AAACCCCAAACCCTAAAC-TAA
1 AAACCCTAAACCCTAAACTTAA
* *
46288824 AAACCATAAACCATAAACTTAA
1 AAACCCTAAACCCTAAACTTAA
* *
46288846 AAATCCC-AAACTCTAAACTAAA
1 AAA-CCCTAAACCCTAAACTTAA
* *
46288868 AAACCTTAAACTCTAAACTTAA
1 AAACCCTAAACCCTAAACTTAA
* * *
46288890 AAACCCCAAACACTAAACCTAA
1 AAACCCTAAACCCTAAACTTAA
* *
46288912 AAACACT-AACCTTAAACTTAA
1 AAACCCTAAACCCTAAACTTAA
*
46288933 AAACCCTAAACCCTAAAC-CATA
1 AAACCCTAAACCCTAAACTTA-A
* *
46288955 AAATCCTAAACCTTAAACTTAA
1 AAACCCTAAACCCTAAACTTAA
* * *
46288977 AAACCATGAACCCTAAACCTAA
1 AAACCCTAAACCCTAAACTTAA
* * *
46288999 AAACCTTAAACCTTAAACTTTA
1 AAACCCTAAACCCTAAACTTAA
* *
46289021 AAATCCTAAACCTTAAA
1 AAACCCTAAACCCTAAA
46289038 ACCTTAACTT
Statistics
Matches: 333, Mismatches: 74, Indels: 34
0.76 0.17 0.08
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
20 29 0.09
21 84 0.25
22 190 0.57
23 17 0.05
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACTTAA
Found at i:46288977 original size:6 final size:7
Alignment explanation
Indices: 46288919--46289044 Score: 62
Period size: 7 Copynumber: 17.1 Consensus size: 7
46288909 TAAAAACACT
46288919 AACCTTA
1 AACCTTA
46288926 AA-CTTAAA
1 AACCTT--A
*
46288934 AACCCTA
1 AACCTTA
*
46288941 AACCCTA
1 AACCTTA
*
46288948 AACCATAA
1 AACC-TTA
46288956 AATCC-TA
1 AA-CCTTA
46288963 AACCTTA
1 AACCTTA
46288970 AA-CTTAAA
1 AACCTT--A
* *
46288978 AACCATG
1 AACCTTA
*
46288985 AACCCTA
1 AACCTTA
*
46288992 AACCTAAA
1 AACCT-TA
46289000 AACCTTA
1 AACCTTA
46289007 AACCTTA
1 AACCTTA
*
46289014 AACTTTAA
1 AACCTT-A
46289022 AATCC-TA
1 AA-CCTTA
46289029 AACCTTAA
1 AACCTT-A
46289037 AACCTTA
1 AACCTTA
46289044 A
1 A
46289045 CTTAAAAACC
Statistics
Matches: 92, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
6 10 0.11
7 49 0.53
8 26 0.28
9 7 0.08
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (7 bp):
AACCTTA
Found at i:46289039 original size:8 final size:8
Alignment explanation
Indices: 46288991--46289044 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
46288981 CATGAACCCT
*
46288991 AAACCTAA
1 AAACCTTA
46288999 AAACCTT-
1 AAACCTTA
46289006 AAACCTT-
1 AAACCTTA
*
46289013 AAACTTTA
1 AAACCTTA
46289021 AAATCC-T-
1 AAA-CCTTA
46289028 AAACCTTA
1 AAACCTTA
46289036 AAACCTTA
1 AAACCTTA
46289044 A
1 A
46289045 CTTAAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 2 0.05
7 17 0.44
8 19 0.49
9 1 0.03
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (8 bp):
AAACCTTA
Found at i:46292529 original size:126 final size:126
Alignment explanation
Indices: 46292246--46292812 Score: 698
Period size: 125 Copynumber: 4.5 Consensus size: 126
46292236 CCCAAACATG
* * *
46292246 CTACTGTAACAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
* *
46292311 TAGAAGCG-ATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTTCAGGAC
66 TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
* * *
46292371 CAACTGTAGCAAAAGCGCGTCCACGAT-GGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGCGCGATTTCACAAATTATTCTCATAA-AGCATCCT
* * * * *
46292434 GCTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTT-TTTCAGAAC
64 GCTAGAAGCG-TATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
46292497 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTAG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCT-G
* *
46292562 -TAGAAGC-AATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
* * ** * * * * * *
46292622 CAATTGTAGCAAAAGTACGTCCAGGAGAGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
* ** * * *
46292687 TTGAAGTATTTTTTATACTATTTGCTCGGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
66 TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
* * * * ** * *
46292747 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTGCAAAAATCCTTCTAATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
46292812 T
66 T
46292813 TTGATTTTAT
Statistics
Matches: 380, Mismatches: 52, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
124 42 0.11
125 186 0.49
126 110 0.29
127 42 0.11
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
Found at i:46292689 original size:251 final size:250
Alignment explanation
Indices: 46292246--46292780 Score: 849
Period size: 251 Copynumber: 2.1 Consensus size: 250
46292236 CCCAAACATG
* *
46292246 CTACTGTAACAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
* * *
46292311 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTTCAGGACCAACT
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACT
* * *
46292376 GTAGCAAAAGCGCGTCCACGATGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAA
131 GTAGCAAAAGCACGTCCACGATGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAA
*
46292441 GCGT-TTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTTTTCAGAAC
196 --GTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTTTCCAGAAC
*
46292497 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTAG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
* *
46292562 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAATT
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACT
* * *
46292627 GTAGCAAAAGTACGTCCAGGA-GAGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGA
131 GTAGCAAAAGCACGTCCACGATG-GCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGA
* * * *
46292691 AGTATTTTTTATACTATTTGCTCGGAAACGTCAACTCGAAATTATTTTTCCAGGAC
195 AGTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTTTCCAGAAC
*
46292747 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGA
46292781 CTGCAAAAAT
Statistics
Matches: 262, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
249 2 0.01
250 81 0.31
251 179 0.68
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAACT
GTAGCAAAAGCACGTCCACGATGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAA
GTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATAATTTTTCCAGAAC
Found at i:46303632 original size:17 final size:19
Alignment explanation
Indices: 46303598--46303638 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
46303588 ATATACACAT
46303598 TAAAAAATATAAATATATA
1 TAAAAAATATAAATATATA
46303617 -AAAAAAT-TCAAA-ATATA
1 TAAAAAATAT-AAATATATA
46303634 TAAAA
1 TAAAA
46303639 TCTAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAAATATAAATATATA
Found at i:46303895 original size:21 final size:20
Alignment explanation
Indices: 46303864--46303916 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
46303854 TATAAATACT
* *
46303864 TTTTTTATTTTT-TTTATAA
1 TTTTTAATTTTTATATATAA
*
46303883 TTTTTCAATTTTTATATATTA
1 TTTTT-AATTTTTATATATAA
46303904 TTTTTAATTTTTA
1 TTTTTAATTTTTA
46303917 AAATTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 14 0.48
21 10 0.34
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTAATTTTTATATATAA
Found at i:46314428 original size:18 final size:15
Alignment explanation
Indices: 46314397--46314437 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
46314387 TTGAGTAAAT
46314397 AAATATATTTTATACTA
1 AAATATATTTTATA--A
46314414 AAATATATATTTATAA
1 AAATATAT-TTTATAA
46314430 AAATATAT
1 AAATATAT
46314438 CAAAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATATTTTATAA
Found at i:46314784 original size:214 final size:213
Alignment explanation
Indices: 46314423--46314865 Score: 698
Period size: 215 Copynumber: 2.1 Consensus size: 213
46314413 AAAATATATA
* * * *
46314423 TTTATAAAAATATATCAAAAATTATTATTAGTGGAATTAAGGGTAAAGCCAAAAAATTTTTTTTG
1 TTTAT-AAATTATATCAAAAATTATTATTAGTGAAATCAAGGGTAAAGCAAAAAAATTTTTTTTG
* * * *
46314488 GGTAAAATTAATTTATGTATTTTTTACTATGTTAAAAATACAATTTCATCATTTTAATAGCCTAA
65 AGTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCCTAA
46314553 ATTTTTATAATTTTTAAATAA-TTAAATTAAAATTTTATCAT-TCTTAAGGGTTAAAGTGTAATT
130 ATTTTTATAATTTTTAAA-AATTTAAATTAAAATTTTATCATCT-TTAAGGGTTAAAGTGTAATT
46314616 TTACCAATACAAATTTAAAAT
193 TTACCAATACAAATTTAAAAT
*
46314637 TTTATAAATTATATCAACAAATTATTCTTAGTGAAATCAAGGGTAAAGACAAAAAAATTATTTTT
1 TTTATAAATTATATCAA-AAATTATTATTAGTGAAATCAAGGGTAAAG-CAAAAAAA-T-TTTTT
46314702 TTGAGTAAAATTAATTTATGTA-TTTTTACGATATTAAAAATACAAATT-ATCATTTTAATAGCC
62 TTGAGTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCC
46314765 TAAATTTTTATAA-TTTTAAAAATTTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAA
127 TAAATTTTTATAATTTTTAAAAA-TTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAA
46314829 TTTTACCAATACAAATTTAAAAT
191 TTTTACCAATACAAATTTAAAAT
46314852 TTTATAAATTATAT
1 TTTATAAATTATAT
46314866 AGGGACTTAA
Statistics
Matches: 213, Mismatches: 9, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
213 13 0.06
214 39 0.18
215 110 0.52
216 25 0.12
217 26 0.12
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (213 bp):
TTTATAAATTATATCAAAAATTATTATTAGTGAAATCAAGGGTAAAGCAAAAAAATTTTTTTTGA
GTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCCTAAA
TTTTTATAATTTTTAAAAATTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAATTTTA
CCAATACAAATTTAAAAT
Found at i:46320585 original size:17 final size:17
Alignment explanation
Indices: 46320563--46320598 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
46320553 CTAAACCATG
46320563 CTTCAAAGTTGACTCTT
1 CTTCAAAGTTGACTCTT
*
46320580 CTTCAAAGTTTACTCTT
1 CTTCAAAGTTGACTCTT
46320597 CT
1 CT
46320599 AAACCCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.44
Consensus pattern (17 bp):
CTTCAAAGTTGACTCTT
Found at i:46320881 original size:41 final size:41
Alignment explanation
Indices: 46320819--46321095 Score: 337
Period size: 41 Copynumber: 6.8 Consensus size: 41
46320809 TTTTGAGGCA
* **
46320819 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTGGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
*
46320860 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATTCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* * *
46320901 TTTAACGAG-TTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCG-GCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
*
46320942 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* * * *
46320983 TTTAGCGACGTTTTTGAGAAAGTGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
46321024 TTCAGTGGCG-TTTTGAGAATGCGCCGCTAATGCTC-GTGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG-GGC
*
46321064 TTTAGCGGCGTTTTT-GAAAATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAA-GCGCCGCTAAT
46321096 AATAAAATCT
Statistics
Matches: 204, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.00
40 35 0.17
41 167 0.82
42 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
Found at i:46326818 original size:43 final size:43
Alignment explanation
Indices: 46326789--46327073 Score: 284
Period size: 43 Copynumber: 6.7 Consensus size: 43
46326779 TTTTTGCTAG
* * ***
46326789 AAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTTGTAATAA
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * * * * *
46326832 TAGCGCCGCTAAAGGTCATGATCTTTAGCAGCGATTATGGGAG
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * *
46326875 AAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * * *
46326918 AAGTGCTGCTAAAGGTCGTGATCTATAGCGGTGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * *
46326961 AAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCG-A
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * * * **
46327003 AAGTGTCGCTAAAGGTTGTGATCTATAGTAGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
* * * *
46327046 AAGTGTCGCTAAAGGTCTTGGTCTTTAG
1 AAGCGCCGCTAAAGGTCGTGATCTTTAG
46327074 TGACGTTTTT
Statistics
Matches: 202, Mismatches: 39, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 35 0.17
43 167 0.83
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAA
Found at i:46326929 original size:86 final size:86
Alignment explanation
Indices: 46326789--46327073 Score: 324
Period size: 86 Copynumber: 3.3 Consensus size: 86
46326779 TTTTTGCTAG
* * * * * * * * * *
46326789 AAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTTGTAATAATAGCGCCGCTAAAGGTCATGAT
1 AAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGGTCGTGAT
* * * *
46326854 CTTTAGCAGCGATTATGGGAG
66 CTATAGCAGCGTTTGTGGGAA
* *
46326875 AAGCG-CTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGTGCTGCTAAAGGTCGTGA
1 AAGCGTC-GCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGGTCGTGA
* *
46326939 TCTATAGCGGTGTTTGTGGGAA
65 TCTATAGCAGCGTTTGTGGGAA
* *
46326961 AAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCG-AAAGTG-TCGCTAAAGGTTGTGA
1 AAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCT-GCTAAAGGTCGTGA
*
46327024 TCTATAGTAGCGTTTGTGGGAA
65 TCTATAGCAGCGTTTGTGGGAA
* *
46327046 AAGTGTCGCTAAAGGTCTTGGTCTTTAG
1 AAGCGTCGCTAAAGGTCGTGGTCTTTAG
46327074 TGACGTTTTT
Statistics
Matches: 171, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 65 0.38
86 104 0.61
87 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.29
Consensus pattern (86 bp):
AAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGGTCGTGAT
CTATAGCAGCGTTTGTGGGAA
Found at i:46326954 original size:129 final size:128
Alignment explanation
Indices: 46326795--46327062 Score: 315
Period size: 129 Copynumber: 2.1 Consensus size: 128
46326785 CTAGAAGCGC
* * * *
46326795 CGCTAAAGGTCATGATCTTTAGTGGCGTTTGTAATAATAGCGCCGCTAAAGGTCATGATCTTTAG
1 CGCTAAAGGTCATGATCTATAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGATCTTTAG
* * *
46326860 CAGCGATTATGGGAGAAGCG-CTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGTG-
66 CAGCGATTATGCGA-AAGCGTC-GCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGTGT
* * ** * * *
46326923 CTGCTAAAGGTCGTGATCTATAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTTTA
1 C-GCTAAAGGTCATGATCTATAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGATCTTTA
* * * * * *
46326988 GCGGCGTTTGTGCGAAAGTGTCGCTAAAGGTTGTGATCTATAGTAGCGTTTGTGGGAAAAGTGT
65 GCAGCGATTATGCGAAAGCGTCGCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGTGT
46327052 CGCTAAAGGTC
1 CGCTAAAGGTC
46327063 TTGGTCTTTA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
128 52 0.44
129 65 0.56
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (128 bp):
CGCTAAAGGTCATGATCTATAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGATCTTTAG
CAGCGATTATGCGAAAGCGTCGCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGTGT
Found at i:46329335 original size:28 final size:29
Alignment explanation
Indices: 46329284--46329341 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
46329274 GTAGCGACAT
*
46329284 AATAATGAAATGGTAACAAAATAGTGAAAA
1 AATAATGAAATGGTAAAAAAATAGT-AAAA
46329314 AATAA-GAAATGG-AAAAAAATAGTAAAA
1 AATAATGAAATGGTAAAAAAATAGTAAAA
46329341 A
1 A
46329342 CAACAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 7 0.26
30 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.17
Consensus pattern (29 bp):
AATAATGAAATGGTAAAAAAATAGTAAAA
Done.