Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 4 of 221
Found at i:1199606 original size:78 final size:75
Alignment explanation
Indices: 1199476--1199879 Score: 321
Period size: 71 Copynumber: 5.3 Consensus size: 75
1199466 AAAACAGAAA
* * * *
1199476 TTGAAAAGCAGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AG-CGAGGCTCAACTCACCTCTCGCAATA
1199540 TGAGTTGATTTTT
64 TGAGTTGA-TTTT
* * *
1199553 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCGAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCG-AGGCTCAACTCACCTCTCGCAATA
1199618 TGAGTTGATTTT
64 TGAGTTGATTTT
*
1199630 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT---GAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCGAGGCTCAACTCACCTCTCGCAATATG
1199691 AGTTGA-TTT
66 AGTTGATTTT
* * * ** *** *
1199700 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTGAAAAACAGAAATT-----G--A---AAAACACCTCAGCATGTAGCGAGGCTCAACTCACCTC
1199765 TCGCAATATGAGTTGATTTT
56 TCGCAATATGAGTTGATTTT
** * * * *
1199785 TTG---ATGATAAATTG-AAAATACCTCA--ATGT-GACTTGAGGTTCAACTCACCTCTCACAAT
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAG-C--GAGGCTCAACTCACCTCTCGCAAT
1199843 ATGAGTTGATTTT
63 ATGAGTTGATTTT
1199856 TTGAATTAAAACAGAAATTGAAAA
1 TTG-A--AAAACAGAAATTGAAAA
1199880 TAGAAATGGA
Statistics
Matches: 272, Mismatches: 28, Indels: 53
0.77 0.08 0.15
Matches are distributed among these distances:
69 2 0.01
70 17 0.06
71 82 0.30
72 1 0.00
75 1 0.00
76 15 0.06
77 44 0.16
78 51 0.19
81 13 0.05
82 8 0.03
84 32 0.12
85 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:1199822 original size:155 final size:156
Alignment explanation
Indices: 1199593--1199950 Score: 442
Period size: 155 Copynumber: 2.3 Consensus size: 156
1199583 CGTGTAAGCG
*
1199593 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCA
1 AAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATA-AAATTGAAAACACCTCA
* * *
1199658 GCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AG
65 GCATGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAA
* * *
1199719 CAGAAATTGAAAATACCTCAACGGGTCTT
130 CAGAAATGGAAAACACCTC-A-GCGTCTT
* ** *
1199748 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAA
1 AAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A
* *
1199811 TGTGACT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATT
65 -G-CA-TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAGAAATT
*
1199875 GAAAATAGAAATGGAAAACACCTCAGCGTCTT
126 G-AAACAGAAATGGAAAACACCTCAGCGTCTT
*
1199907 AAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 AAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
1199951 CACATAAATT
Statistics
Matches: 174, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 71 0.41
156 7 0.04
157 1 0.01
159 49 0.28
160 8 0.05
161 18 0.10
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (156 bp):
AAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAG
CATGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAAC
AGAAATGGAAAACACCTCAGCGTCTT
Found at i:1200245 original size:415 final size:415
Alignment explanation
Indices: 1199597--1200350 Score: 983
Period size: 415 Copynumber: 1.8 Consensus size: 415
1199587 TAAGCGAAGG
* *
1199597 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
*
1199662 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATT--G-AGAAATT
* * **
1199727 GAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
128 GAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
1199792 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
193 AAAATTGAAAATACCTCAATGTCACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT
* * * *
1199857 TGAATTAAAACAGAAATTGAAAATA-G-AAATGGAAAACACCTCAGC-GTCTTAAGGTTCAACTC
257 T---TTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTAAGGCTCAACTC
1199919 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAG
319 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAG
1199984 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
384 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
* *
1200016 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAAAGCAAAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-CAAAAATTGAAAACACCTCAGCA
* *** * *
1200080 TGTCCCTAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATA-A-AAA-T-AGAATT
65 TGT---GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAAT
* * *
1200141 TGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACA
127 TGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---
* * *
1200205 AACAAAAATTGAAATTACCTC-A-G-CATCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
189 AACAAAAATTGAAAATACCTCAATGTCA-CTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* * * * *
1200267 TTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
253 TTTTTTTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCG-GTCCTAAGGCTCAAC
1200332 TCACCTCTCGCAATATGAG
317 TCACCTCTCGCAATATGAG
1200351 TTGAAATTAA
Statistics
Matches: 290, Mismatches: 33, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
411 17 0.06
412 1 0.00
413 17 0.06
414 12 0.04
415 120 0.41
416 1 0.00
417 17 0.06
418 5 0.02
419 58 0.20
420 3 0.01
421 1 0.00
422 38 0.13
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (415 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAATTGAA
AATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAA
ATTGAAAATACCTCAATGTCACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTA
AAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTAAGGCTCAACTCACCTCTC
GCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAGAATTTGA
AAGGACCTCGACGTGTGGCCCGAGA
Found at i:1200279 original size:71 final size:72
Alignment explanation
Indices: 1200016--1200290 Score: 338
Period size: 77 Copynumber: 3.7 Consensus size: 72
1200006 TGGCCCGAGA
*
1200016 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAGCAAAAATTGAAAATACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAA-CAAAAATTGAAAATACCTCAGCG-
1200081 GTCCCT-AGG
64 GT-CCTGAGG
* * * *
1200090 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGA-AACAA-A-AA-TTGAAAATACCTCAG
1200155 CGTGTCCTGAGG
62 CG-GTCCTGAGG
* * * *
1200167 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-AT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACAAAAATTGAAAATACCTCAGCGGT
*
1200231 CTTGAGG
66 CCTGAGG
* * * *
1200238 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACAAAAATTGAAAA
1200291 AACGAAAATT
Statistics
Matches: 175, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
71 53 0.30
73 14 0.08
74 39 0.22
75 4 0.02
76 9 0.05
77 56 0.32
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (72 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACAAAAATTGAAAATACCTCAGCGGT
CCTGAGG
Found at i:1200328 original size:159 final size:159
Alignment explanation
Indices: 1200140--1200587 Score: 533
Period size: 157 Copynumber: 2.8 Consensus size: 159
1200130 AAAATAGAAT
* ** *
1200140 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAA
* ** * *
1200205 A-ACAAAAATTGAAATTACCTCAGCAT-CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
64 ACACAAAAATTGAAAATACCTCAGCATCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1200268 TTTTTTGAAACATAAATTAAAAAAACGAAAA
129 TTTTTTGAAACATAAATTAAAAAAACGAAAA
1200299 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
* *
1200364 ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA--
66 ACAAAAATTGAAAATACCTCAGCAT-CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
* *
1200427 -TTTTGAAAAAGTAGAAATT---AAAA-G---G
130 TTTTTGAAACA-T--AAATTAAAAAAACGAAAA
* *** *
1200452 TTCAACCCACCTCTCGCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
1 TTGAAAATACCTC-AGC---GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
* *
1200517 AAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCT
62 AAACACAAAAATTGAAAATACCTCAGCAT-CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCT
1200582 GATTTT
126 GATTTT
1200588 GAAAAAGTAG
Statistics
Matches: 258, Mismatches: 18, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
153 9 0.03
154 2 0.01
156 1 0.00
157 128 0.50
158 26 0.10
159 55 0.21
160 37 0.14
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (159 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
ACAAAAATTGAAAATACCTCAGCATCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAACATAAATTAAAAAAACGAAAA
Found at i:1200399 original size:72 final size:73
Alignment explanation
Indices: 1200281--1200579 Score: 252
Period size: 72 Copynumber: 4.0 Consensus size: 73
1200271 TTTGAAACAT
* * * *
1200281 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
1200346 ATGAGTTG
66 ATGAGTTG
*
1200354 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
*
1200418 ATGAGCTG
66 ATGAGTTG
** ** * * * * *
1200426 ATTTTGAAAAA-GTAGAAATT-AAAAGGTTCAACC-CA-CCT-CTCGCAATGTGTCCTGAGGCTC
1 AAATT-AAAAACACAAAAATTGAAAA---T--ACCTCAGCGTGC-CCCGA-G-G--CT----C-A
1200486 AACTCACCTCTCGCAATATGAGTTG
50 A-CTCACCTCTCGCAATATGAGTTG
*
1200511 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
1200575 ATGAG
66 ATGAG
1200580 CTGATTTTGA
Statistics
Matches: 176, Mismatches: 27, Indels: 47
0.70 0.11 0.19
Matches are distributed among these distances:
72 87 0.49
73 12 0.07
74 6 0.03
75 6 0.03
76 3 0.02
77 4 0.02
78 2 0.01
79 2 0.01
80 4 0.02
81 3 0.02
82 6 0.03
83 6 0.03
84 7 0.04
85 28 0.16
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (73 bp):
AAATTAAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:1200509 original size:157 final size:157
Alignment explanation
Indices: 1200315--1200628 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
1200305 ATACCTCAGC
1200315 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
1 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
1200380 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
66 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
1200445 TAAAAGGTTCAACCCACCTCTCGCAAT
131 TAAAAGGTTCAACCCACCTCTCGCAAT
1200472 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
1 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
1200537 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
66 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
1200602 TAAAAGGTTCAACCCACCTCTCGCAAT
131 TAAAAGGTTCAACCCACCTCTCGCAAT
1200629 ATGAGTTGAT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (157 bp):
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATA
CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
TAAAAGGTTCAACCCACCTCTCGCAAT
Found at i:1200913 original size:76 final size:76
Alignment explanation
Indices: 1200733--1201072 Score: 424
Period size: 76 Copynumber: 4.5 Consensus size: 76
1200723 AGTGTGTAAT
* *
1200733 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
* *
1200797 CTCAGCATGTGAAC
66 CTCA--ACGTG-TC
* *
1200811 C-GAGGCTCAACTCACCTCTTGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1200875 CTCAACGTGTC
66 CTCAACGTGTC
* ** * * *
1200886 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
*
1200947 CTCAGCGTGTC
66 CTCAACGTGTC
** * *
1200958 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT-AGCAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGA-AAACAGAAATTGAAAATA
*
1201022 CCTCAGCGTGTC
65 CCTCAACGTGTC
*
1201034 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1201073 GAAAAACAAA
Statistics
Matches: 235, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
72 67 0.29
75 2 0.01
76 103 0.44
77 30 0.13
78 33 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTC
Found at i:1200997 original size:148 final size:149
Alignment explanation
Indices: 1200733--1201090 Score: 456
Period size: 148 Copynumber: 2.4 Consensus size: 149
1200723 AGTGTGTAAT
* * *
1200733 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAAATACC
*
1200798 TCAGCATGTGAACCGAGGCTCAACTCACCTCTTGCAATATAAGTTGATTTTTTTTT-GAAAACAG
63 TCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTAG-AAACAG
1200862 AAATTGAAAATACCTCAACGTGTC
126 AAATTGAAAATACCTCAACGTGTC
* ** * *
1200886 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
1200951 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAGCAACAGAAAT
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTAGAAACAGAAAT
* *
1201014 TGAAATTACCTCAGCGTGTC
130 TGAAAATACCTCAACGTGTC
* *
1201034 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
1201091 GGCTTAACTC
Statistics
Matches: 179, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
147 11 0.06
148 108 0.60
149 1 0.01
150 29 0.16
153 30 0.17
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (149 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTAGAAACAGAAATT
GAAAATACCTCAACGTGTC
Found at i:1201240 original size:71 final size:70
Alignment explanation
Indices: 1201090--1201265 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 70
1201080 AAAAATTAAA
* * * * **
1201090 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTAAAACAAAAACTAAAAATACCTCAACGTG
1201154 CCCCG
66 CCCCG
*
1201159 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTGAAAA-AAAAATTTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTT-AAAACAAAAA-CTAAAAATACCTCAACG
* **
1201223 TGTCTTG
64 TGCCCCG
1201230 AGGCTCAACTCA-TCTCTCGCAATATGAGTTAATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTAATTTT
1201266 CCTTGGAAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
69 29 0.31
70 8 0.09
71 56 0.60
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:1209578 original size:16 final size:15
Alignment explanation
Indices: 1209557--1209604 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
1209547 GATGGGAATA
1209557 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
1209573 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
1209588 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
1209604 A
1 A
1209605 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:1209587 original size:8 final size:8
Alignment explanation
Indices: 1209553--1209604 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
1209543 CAATGATGGG
*
1209553 AATAATAA
1 AATATTAA
1209561 AATATATAA
1 AATAT-TAA
1209570 AATA-TAA
1 AATATTAA
1209577 AATATTAA
1 AATATTAA
*
1209585 AATATCAA
1 AATATTAA
*
1209593 AATATTAG
1 AATATTAA
1209601 AATA
1 AATA
1209605 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:1209604 original size:24 final size:24
Alignment explanation
Indices: 1209552--1209608 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1209542 ACAATGATGG
*
1209552 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
1209576 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
1209600 GAATAATAA
1 GAATAATAA
1209609 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:1209766 original size:23 final size:22
Alignment explanation
Indices: 1209715--1209768 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1209705 ATACTACATC
1209715 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
1209734 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
1209757 AATATGTACATA
1 AATATGTACATA
1209769 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:1209815 original size:22 final size:24
Alignment explanation
Indices: 1209731--1209816 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
1209721 TACATATATA
* *
1209731 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
1209754 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
1209779 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
1209802 -AAGATATATACATAA
1 AAAAATATATACATAA
1209817 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:1209864 original size:25 final size:25
Alignment explanation
Indices: 1209836--1209966 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 25
1209826 TAGAAAAAAA
1209836 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
1209861 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
** *
1209886 ATATATACGTAATATAA-ATTTAA-
1 ATATATAAATAATATAATATTAAAG
** *
1209909 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
1209931 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
1209954 AAATAT-AATAATA
1 ATATATAAATAATA
1209967 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
21 4 0.05
22 24 0.29
23 13 0.15
24 9 0.11
25 34 0.40
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:1209873 original size:14 final size:13
Alignment explanation
Indices: 1209833--1209883 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
1209823 ATGTAGAAAA
1209833 AAAATATATAAAT
1 AAAATATATAAAT
* *
1209846 AATATA-AT-ATT
1 AAAATATATAAAT
1209857 AAAGATATATAAAT
1 AAA-ATATATAAAT
1209871 AAAATAGTATAAA
1 AAAATA-TATAAA
1209884 ATATATATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 10 0.33
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:1209959 original size:22 final size:21
Alignment explanation
Indices: 1209844--1209966 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 21
1209834 AAATATATAA
*
1209844 ATAATATAATATTAAAGATAT
1 ATAATATAATATTAAAAATAT
*
1209865 ATAAATAAAATAGTATAAAATATATAT
1 AT-AATATAATA-T-T-AAA-A-ATAT
*
1209892 ACGTAATATAA-ATTTAAAATAT
1 A--TAATATAATATTAAAAATAT
* *
1209914 ACCTAATATATTA-AAAGAATATAT
1 A--TAATATAATATTAA-AA-ATAT
1209938 ATAATATAATATTAAGAAATAT
1 ATAATATAATATTAA-AAATAT
1209960 AATAATA
1 -ATAATA
1209967 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
21 2 0.03
22 35 0.44
23 16 0.20
24 8 0.10
25 4 0.05
26 1 0.01
27 6 0.08
28 6 0.08
29 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATATAATATTAAAAATAT
Found at i:1210516 original size:30 final size:30
Alignment explanation
Indices: 1210490--1210620 Score: 217
Period size: 30 Copynumber: 4.4 Consensus size: 30
1210480 AATGGAGCAA
* *
1210490 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1210520 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* * *
1210550 GAGTAGCTAGTGGAGTTTGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1210580 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1210610 GTGTGGCTAGT
1 GTGTGGCTAGT
1210621 TGAGAAAAGT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.28
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:1217603 original size:24 final size:24
Alignment explanation
Indices: 1217576--1217627 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1217566 TTAGTAAGTC
*
1217576 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1217600 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1217624 AAAT
1 AAAT
1217628 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:1237673 original size:75 final size:74
Alignment explanation
Indices: 1237454--1237786 Score: 418
Period size: 74 Copynumber: 4.5 Consensus size: 74
1237444 CATGTGAACC
* * * *
1237454 GAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCG
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
* *
1237519 GCGTGTCCC
66 ACGTGTCCT
* * *
1237528 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAAGTAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACCTC
*
1237591 AACGTGTCTT
65 AACGTGTCCT
* * *
1237601 GAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACCTC
* *
1237666 AATGTGTCTT
65 AACGTGTCCT
* * * * *
1237676 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTGACAACAGAAATTGAAATTACTTCA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
1237741 GCGTGTCCT
66 ACGTGTCCT
* * *
1237750 GAGGCTCAACTCATTTCTTGCAATATGAGCTGATTTT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1237787 GGAAAAGTAG
Statistics
Matches: 225, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
72 8 0.04
73 53 0.24
74 87 0.39
75 77 0.34
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (74 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
ACGTGTCCT
Found at i:1238205 original size:72 final size:73
Alignment explanation
Indices: 1238083--1238759 Score: 328
Period size: 73 Copynumber: 8.9 Consensus size: 73
1238073 ATAAGTTAAA
** *
1238083 AAACAGAAATGGAAAATACCTCAGCTTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGG
1 AAACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
1238148 TTTTTGCC
66 TTTTTGCC
* *
1238156 AAACAGTAATTGAAAATACCTCAG--TGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AAACAGAAATGGAAAATACCTCAGCTTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
1238218 GATTTAGAAAACAAAC
65 GTTTTTG----C---C
* * * * ** * * * *
1238234 ATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCCAAGGTTCAACTCACCTTTTGCAATAT
1 ----AAACAGAAATGGAAAAT-ACCTC-A-GCTTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
* **
1238298 GAGTTGATTTTTGTGG
59 GAGTTGGTTTTTG-CC
** * * * * *
1238314 AAGTAGAATTTGAAAATACCTCGGCGTG-CCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATGGAAAATACCTCAGCTTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* **
1238378 ATTTTTGAA
65 GTTTTTGCC
* * * * *
1238387 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTT-G
1 AAACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
* *
1238451 ATTTTGAAAAACATAA
66 TTTTTG-----C---C
* * * * **
1238467 ATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A---AACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
1238532 TGATTTTCTTG-A
63 TG-GTTT-TTGCC
* * **
1238544 AAAGCAGAAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-CAGAAATGGAAAATACCTCAGCT-TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
1238608 GATTTTTTGAC
64 G-GTTTTTGCC
* * * * ** * *
1238619 -AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA
1 AAACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
** **
1238683 AATTTGGA
66 TTTTTGCC
* * * * * * ** * * *
1238691 AAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTATCACAATATGAGTTGA
1 AAACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
1238756 TTTT
66 TTTT
1238760 GAAAAACAAA
Statistics
Matches: 489, Mismatches: 75, Indels: 80
0.76 0.12 0.12
Matches are distributed among these distances:
71 8 0.02
72 40 0.08
73 192 0.39
74 47 0.10
75 64 0.13
76 16 0.03
77 2 0.00
78 1 0.00
80 2 0.00
82 18 0.04
83 59 0.12
85 31 0.06
86 9 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (73 bp):
AAACAGAAATGGAAAATACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
TTTTTGCC
Found at i:1238427 original size:73 final size:73
Alignment explanation
Indices: 1238277--1238777 Score: 533
Period size: 73 Copynumber: 6.7 Consensus size: 73
1238267 GAGCCAAGGT
* * ** ** * **
1238277 TCAACTCACCTTTTGCAATATGAGTTGATTTTTGTGGAAGTAGAATTTGAAAATACCTCGGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAACGTG
*
1238342 CCCTGAGGC
65 TCCTGAGGC
* * *
1238351 TTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT
1238416 CCTGAGGC
66 CCTGAGGC
*
1238424 TTAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACATAAATTGAACAGGAATTGAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAAAATA
*
1238488 CCTCAACGTGTCTTGAGGC
55 CCTCAACGTGTCCTGAGGC
* *
1238507 TCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCAACGT
*
1238572 GTCTTGAGGC
64 GTCCTGAGGC
* * *
1238582 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1238646 TCCTGAGGC
65 TCCTGAGGC
** * ** * * *
1238655 TCAACTCATTTCTCGTAATATGAGTTGAAATTTGGAAAACAAAAATTGAAATTACCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT
1238720 CCTGAGGC
66 CCTGAGGC
** * * *
1238728 TCAACTCATTTATCACAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
1238778 GGCTTAACTC
Statistics
Matches: 375, Mismatches: 37, Indels: 33
0.84 0.08 0.07
Matches are distributed among these distances:
71 3 0.01
72 31 0.08
73 176 0.47
74 34 0.09
75 61 0.16
76 1 0.00
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
82 1 0.00
83 54 0.14
85 2 0.01
86 8 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT
CCTGAGGC
Found at i:1238560 original size:231 final size:232
Alignment explanation
Indices: 1238081--1238704 Score: 764
Period size: 231 Copynumber: 2.7 Consensus size: 232
1238071 ACATAAGTTA
* * * *
1238081 AAAAACAGAAATGGAAAATACCTCAGCTTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * *
1238146 GGTTTTTGCCAAACAGTAATTGAAAATACCTCAGTGTG-CCCGAGGCTCAACTCACCTCTCGCAA
66 GATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* *
1238210 TATGAGTTGATTTAGAAAACAAACATAAA---AACAGAAATTGAAAGTGACTCAACACGTGAGCC
130 TATGAGTTGATTTTG--AA-AAACATAAATTGAACAGAAATTGAAAATGACTCAACACGTGAGCC
* * *
1238272 AAGGTTCAACTCACCTTTTGCAATATGAGTTGATTTTTGTG
192 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTG
* * * * * * *
1238313 -GAAGTAGAATTTGAAAATACCTCGGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
1238377 GATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAA
66 GATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* * **
1238442 TATGAGTTGATTTTGAAAAACATAAATTGAACAGGAATTGAAAAT-ACCTC-A-ACGTG-TCTTG
130 TATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAAATGA-CTCAACACGTGAGC-CA
1238503 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCT-TG
193 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGTG
**
1238543 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** *
1238608 GATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAA
66 GA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* * *
1238673 TATGAGTTGAAATTTGGAAAACAAAAATTGAA
130 TATGAGTTG-ATTTTGAAAAACATAAATTGAA
1238705 ATTACCTCAA
Statistics
Matches: 337, Mismatches: 45, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
229 10 0.03
230 42 0.12
231 205 0.61
232 80 0.24
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (232 bp):
AAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAAATGACTCAACACGTGAGCCAAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTG
Found at i:1238932 original size:68 final size:69
Alignment explanation
Indices: 1238777--1238949 Score: 181
Period size: 68 Copynumber: 2.5 Consensus size: 69
1238767 AAAAATTAAA
* ***
1238777 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTTAAAACATAAACTAAAAATACCTTGGCGTG
1 AGGCTTAACTCA-CTCTCGCAATATGAGTTAATTTTAAAACATAAACTAAAAATACCTCAACGTG
1238841 CCCCG
65 CCCCG
* * ** *
1238846 AGGCTCAACTCACTTCTCGCAATATGAATTAATTTTTTAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTTAACTCAC-TCTCGCAATATGAGTTAATTTTAAAACATAAACTAAAAATACCTCAACGTG
* **
1238909 TCTTG
65 CCCCG
*
1238914 AGGCTTAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGGCTTAACTCA-CTCTCGCAATATGAGTTAATTTT
1238950 CCTTGGAAAG
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
68 52 0.60
69 29 0.34
70 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (69 bp):
AGGCTTAACTCACTCTCGCAATATGAGTTAATTTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCG
Found at i:1247225 original size:16 final size:15
Alignment explanation
Indices: 1247204--1247277 Score: 76
Period size: 16 Copynumber: 4.5 Consensus size: 15
1247194 GATGTGAATA
1247204 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
1247220 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
1247235 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
1247251 AATAATTAATATTGAAAAT
1 -ATAA--AATATT-AAAAT
*
1247270 AAAAAATA
1 ATAAAATA
1247278 AAATAGAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 8 0.16
16 27 0.54
17 2 0.04
18 9 0.18
19 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:1247234 original size:8 final size:8
Alignment explanation
Indices: 1247200--1247270 Score: 63
Period size: 8 Copynumber: 8.5 Consensus size: 8
1247190 CAATGATGTG
*
1247200 AATAATAA
1 AATATTAA
1247208 AATATATAA
1 AATAT-TAA
1247217 AATA-TAA
1 AATATTAA
1247224 AATATTAA
1 AATATTAA
*
1247232 AATATCAA
1 AATATTAA
*
1247240 AATATTAG
1 AATATTAA
*
1247248 AATAATAA
1 AATATTAA
1247256 TTAATATTGAA
1 --AATATT-AA
1247267 AATA
1 AATA
1247271 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
7 7 0.14
8 26 0.51
9 11 0.22
10 5 0.10
11 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:1247251 original size:24 final size:24
Alignment explanation
Indices: 1247199--1247255 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1247189 ACAATGATGT
*
1247199 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
1247223 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
1247247 GAATAATAA
1 GAATAATAA
1247256 TTAATATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:1247423 original size:25 final size:24
Alignment explanation
Indices: 1247395--1247442 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1247385 CGTGATAATA
*
1247395 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATA-ATACATAATATAGTG
1247420 TTAAAAATAATACATAATATAGT
1 TTAAAAATAATACATAATATAGT
1247443 TAAGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (24 bp):
TTAAAAATAATACATAATATAGTG
Found at i:1247433 original size:24 final size:25
Alignment explanation
Indices: 1247395--1247458 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 25
1247385 CGTGATAATA
*
1247395 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
1247420 TTAAAAATA-ATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
1247442 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
1247459 GATAACATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
24 11 0.31
25 9 0.25
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:1247513 original size:25 final size:25
Alignment explanation
Indices: 1247479--1247610 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
1247469 AGAAAAAAAT
1247479 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
1247504 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
** *
1247529 ATATATACGTAATATAGA-ATTTAA-
1 ATATATAAATAATATA-ATATTAAAG
** *
1247553 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
1247575 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
1247598 AAATAT-AATAATA
1 ATATATAAATAATA
1247611 ACAAAAAAGA
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.29
24 6 0.07
25 38 0.45
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:1247531 original size:50 final size:46
Alignment explanation
Indices: 1247474--1247605 Score: 117
Period size: 50 Copynumber: 2.8 Consensus size: 46
1247464 CATGTAGAAA
1247474 AAAATATATATAAATAATATAATATTAAAGATATATAAATAAAATAGTAT
1 AAAATATATATAAATAATATAATATT-AAGA-ATATAAATAAAATA-T-T
** ** *
1247524 AAAATATATATACGTAATATAGA-ATTTAA-AATATACCTAATATATT
1 AAAATATATATAAATAATATA-ATA-TTAAGAATATAAATAAAATATT
* *
1247570 AAAAGA-ATATATATAATATAATATTAAGAAATATAA
1 AAAATATATATAAATAATATAATATTAAG-AATATAA
1247606 TAATAACAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
44 5 0.07
45 13 0.19
46 12 0.18
47 1 0.01
48 11 0.16
49 1 0.01
50 22 0.32
51 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (46 bp):
AAAATATATATAAATAATATAATATTAAGAATATAAATAAAATATT
Found at i:1248180 original size:30 final size:30
Alignment explanation
Indices: 1248087--1248260 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
1248077 TAGGTACAAG
* *
1248087 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
1248117 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
1248147 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
1248177 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1248207 T-GTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1248236 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
1248261 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 30 0.23
30 99 0.77
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:1248229 original size:59 final size:60
Alignment explanation
Indices: 1248133--1248260 Score: 222
Period size: 59 Copynumber: 2.1 Consensus size: 60
1248123 TGGAGCAAGT
* *
1248133 GTGGCTAGTGGATTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
*
1248193 GTGGCTAGTGGAGTT-GTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1248252 GTGGCTAGT
1 GTGGCTAGT
1248261 TGAGAAAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 51 0.78
60 14 0.22
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (60 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
Found at i:1255138 original size:24 final size:24
Alignment explanation
Indices: 1255111--1255162 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1255101 TTAGTAAGTC
*
1255111 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1255135 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1255159 AAAT
1 AAAT
1255163 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:1257108 original size:24 final size:24
Alignment explanation
Indices: 1257081--1257132 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1257071 TTAGTAAGTC
*
1257081 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1257105 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1257129 AAAT
1 AAAT
1257133 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:1263837 original size:18 final size:18
Alignment explanation
Indices: 1263814--1263855 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1263804 TTCAAGGTGT
*
1263814 AATTAATTTAAAATATTC
1 AATTAATTAAAAATATTC
*
1263832 AATTAATTAAAAATATTT
1 AATTAATTAAAAATATTC
1263850 AATTAA
1 AATTAA
1263856 AAATCTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAATTAAAAATATTC
Found at i:1271065 original size:20 final size:21
Alignment explanation
Indices: 1271042--1271084 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1271032 TTTAACTTTC
*
1271042 TTTAT-ATATTTTTTAGAATT
1 TTTATAATATTTTTTAAAATT
1271062 TTTATAAATATTTTTTAAAATT
1 TTTAT-AATATTTTTTAAAATT
1271084 T
1 T
1271085 AAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
22 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATAATATTTTTTAAAATT
Found at i:1288265 original size:141 final size:141
Alignment explanation
Indices: 1288063--1288767 Score: 1040
Period size: 142 Copynumber: 5.0 Consensus size: 141
1288053 CAAAAGTCTC
*
1288063 GAAGAACGTGAA-TTTGAATTCAAATCTAGAATTACAAAAGCATTCGCATTGGAATCGGACTCAT
1 GAAGAACGT-AATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCAT
* *
1288127 GAATTCAAATTTCAACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACA
65 GAATTCAAATTTCCACGTAATTTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACA
1288192 CACAGATCAAAA
130 CACAGATCAAAA
* *
1288204 GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAATCGGACTCATG
1 GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* *
1288269 AATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAACTCAATTACA
66 AATTCAAATTTCCACGTAATTTTGAAGAACTTTG-ATGAAAAATGAGGTAAAGAACTCAATTACA
1288334 CACAGATCAAAA
130 CACAGATCAAAA
* * * * *
1288346 GAAGAACGCAATTTCGAATTCAAATCTAAAATTACAAAAGCGTTCCCATTGGAACCGGACTCATG
1 GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* * * * *
1288411 AATTCAAATTTCCACGTAAATTTGAAGAATTTTGATGAAAACTGAGGCAAAGCACTCAATTACAC
66 AATTCAAATTTCCACGTAATTTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACAC
1288476 ACAGATC--AA
131 ACAGATCAAAA
* * * * *
1288485 -AAGAACGTAATTTTGAATTCAAATCTAAACTTACAAAAGCATTCGCATTGAAACCAGACTCGTG
1 GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* * *
1288549 AATTCAAATTTCGACGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAACTCAAATTAC
66 AATTCAAATTTCCACGTAATTTTGAAGAACTTTG-ATGAAAAATGAGGTAAAGAACTC-AATTAC
1288614 ACACAGATCAAAA
129 ACACAGATCAAAA
* * * * * * *
1288627 CAAGAACGTGACTTTAAATTCAAATCTAAAGTTACAAATGCATTCGCATTGGAATCCGACTCATG
1 GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
* *
1288692 AATTCAAATTTCCACGTAATTTTGAAGAACTATAATGAAAAATGAGGTAAAGAACTCAATTACAC
66 AATTCAAATTTCCACGTAATTTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACAC
1288757 ACAGATCAAAA
131 ACAGATCAAAA
1288768 AGGAGAAAAC
Statistics
Matches: 507, Mismatches: 50, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
138 86 0.17
139 21 0.04
140 17 0.03
141 143 0.28
142 155 0.31
143 85 0.17
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (141 bp):
GAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCGCATTGGAATCGGACTCATG
AATTCAAATTTCCACGTAATTTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACAC
ACAGATCAAAA
Found at i:1288756 original size:281 final size:279
Alignment explanation
Indices: 1288064--1288767 Score: 1099
Period size: 281 Copynumber: 2.5 Consensus size: 279
1288054 AAAAGTCTCG
*
1288064 AAGAACGTGAATTTGAATTCAAATCTAGAATTACAAAAGCATTCGCATTGGAATCGGACTCATGA
1 AAGAACGTGAATTTGAATTCAAATCTA-AATTACAAAAGCATTCGCATTGGAATCCGACTCATGA
*
1288129 ATTCAAATTTCAACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
65 ATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
*
1288194 CAGATCAAAAGAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAAT
130 CAGATC--AA-AAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAAC
* *
1288259 CGGACTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAATGAGGTAAAGAA
192 CAGACTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAA
*
1288324 CTCAATTACACACAGATCAAAAG
257 CTCAATTACACACAGATCAAAAC
* * *
1288347 AAGAACG-CAATTTCGAATTCAAATCTAAAATTACAAAAGCGTTCCCATTGGAA-CCGGACTCAT
1 AAGAACGTGAATTT-GAATTCAAATCT-AAATTACAAAAGCATTCGCATTGGAATCC-GACTCAT
* * * *
1288410 GAATTCAAATTTCCACGTAAATTTGAAGAATTTTGATGAAAACTGAGGCAAAGCACTCAATTACA
63 GAATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACA
* *
1288475 CACAGATCAAAAGAACGTAATTTTGAATTCAAATCTAAACTTACAAAAGCATTCGCATTGAAACC
128 CACAGATCAAAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAACC
*
1288540 AGACTCGTGAATTCAAATTT-CGACGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAA
193 AGACTCATGAATTCAAATTTCCG-CGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAA
1288604 CTCAAATTACACACAGATCAAAAC
257 CTC-AATTACACACAGATCAAAAC
* * *
1288628 AAGAACGTGACTTTAAATTCAAATCTAAAGTTACAAATGCATTCGCATTGGAATCCGACTCATGA
1 AAGAACGTGAATTTGAATTCAAATCTAAA-TTACAAAAGCATTCGCATTGGAATCCGACTCATGA
* * *
1288693 ATTCAAATTTCCACGTAATTTTGAAGAACTATAATGAAAAATGAGGTAAAGAACTCAATTACACA
65 ATTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACA
1288758 CAGATCAAAA
130 CAGATCAAAA
1288768 AGGAGAAAAC
Statistics
Matches: 384, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
279 2 0.01
280 116 0.30
281 136 0.35
282 12 0.03
283 117 0.30
284 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (279 bp):
AAGAACGTGAATTTGAATTCAAATCTAAATTACAAAAGCATTCGCATTGGAATCCGACTCATGAA
TTCAAATTTCCACGTAAATTTGAAGAACTTTGATGAAAAATGAGGTAAAGAACTCAATTACACAC
AGATCAAAAGAACGTAATTTTGAATTCAAATCTAAAATTACAAAAGCATTCACATTGAAACCAGA
CTCATGAATTCAAATTTCCGCGTAATTTTGAAGAACTTGGAATGAAAAATGAGCTAAAGAACTCA
ATTACACACAGATCAAAAC
Found at i:1288837 original size:10 final size:10
Alignment explanation
Indices: 1288822--1288848 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1288812 AAAAAATGAG
1288822 CAGATCCGAA
1 CAGATCCGAA
1288832 CAGATCCGAA
1 CAGATCCGAA
1288842 CAGATCC
1 CAGATCC
1288849 AATTCATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.19, T:0.11
Consensus pattern (10 bp):
CAGATCCGAA
Found at i:1289773 original size:22 final size:21
Alignment explanation
Indices: 1289750--1289799 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
1289740 TTAAATTTTA
1289750 AAATT-TTAAAAATAAAAAATT
1 AAATTCTT-AAAATAAAAAATT
1289771 AAATTCGTTAAAATAAAAATATAT
1 AAATTC-TTAAAATAAAAA-AT-T
1289795 AAATT
1 AAATT
1289800 AAATTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 4 0.16
24 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATTCTTAAAATAAAAAATT
Found at i:1289815 original size:28 final size:28
Alignment explanation
Indices: 1289755--1289816 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1289745 TTTTAAAATT
*
1289755 TTAAAAATAAAAAATTAAATTCGTTAAAA
1 TTAAAAATAAAAAATTAAATTCG-AAAAA
*
1289784 -TAAAAATATATAAATTAAATTC-AAAAA
1 TTAAAAATA-AAAAATTAAATTCGAAAAA
1289811 TTAAAA
1 TTAAAA
1289817 GAAAAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (28 bp):
TTAAAAATAAAAAATTAAATTCGAAAAA
Found at i:1290232 original size:24 final size:25
Alignment explanation
Indices: 1290187--1290241 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
1290177 AAATCGAAGT
1290187 ATTTTTAATATAATAATAAATTT-A
1 ATTTTTAATATAATAATAAATTTAA
** * *
1290211 ATTTTTAATATTTTTATTAATTTAA
1 ATTTTTAATATAATAATAAATTTAA
1290236 ATTTTT
1 ATTTTT
1290242 GAGCCAATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTAATATAATAATAAATTTAA
Found at i:1304370 original size:22 final size:21
Alignment explanation
Indices: 1304319--1304370 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1304309 GAGCAAGCTA
*
1304319 GTCCTTTTTATTAAAAATGTT
1 GTCCTTTTTATTAAAAATCTT
*
1304340 ATCCATTTTTATGTTAAAAA-CTT
1 GTCC-TTTTTA--TTAAAAATCTT
1304363 GTCCTTTT
1 GTCCTTTT
1304371 AAGTCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 5 0.20
24 7 0.28
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (21 bp):
GTCCTTTTTATTAAAAATCTT
Found at i:1320528 original size:14 final size:16
Alignment explanation
Indices: 1320509--1320548 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1320499 ATTAATCTTT
1320509 AAATTTAAAA-TTT-A
1 AAATTTAAAATTTTAA
1320523 AAATTTAAAATTTTAA
1 AAATTTAAAATTTTAA
1320539 AAATTTAAAA
1 AAATTTAAAA
1320549 AAGTCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTAAAATTTTAA
Found at i:1320539 original size:8 final size:7
Alignment explanation
Indices: 1320509--1320548 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
1320499 ATTAATCTTT
1320509 AAATTTA
1 AAATTTA
1320516 AAATTTA
1 AAATTTA
1320523 AAATTTA
1 AAATTTA
1320530 AAATTTTAA
1 AAA-TTT-A
1320539 AAATTTA
1 AAATTTA
1320546 AAA
1 AAA
1320549 AAGTCTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 21 0.68
8 6 0.19
9 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:1320549 original size:8 final size:8
Alignment explanation
Indices: 1320509--1320549 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
1320499 ATTAATCTTT
1320509 AAATTT-A
1 AAATTTAA
1320516 AAATTT-A
1 AAATTTAA
1320523 AAATTTAA
1 AAATTTAA
*
1320531 AATTTTAA
1 AAATTTAA
1320539 AAATTTAA
1 AAATTTAA
1320547 AAA
1 AAA
1320550 AGTCTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATTTAA
Found at i:1322002 original size:25 final size:25
Alignment explanation
Indices: 1321944--1322005 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
1321934 AAATTTCAAT
** *
1321944 AAATAAAAAAT-GTATAAAATTATT
1 AAATAAAAAATAAAATAAAATTATA
*
1321968 AAATATAAAATAAAATAAAATTA-A
1 AAATAAAAAATAAAATAAAATTATA
1321992 AAATTAAAAAATAA
1 AAA-TAAAAAATAA
1322006 TATGAGCGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATAAAAAATAAAATAAAATTATA
Found at i:1322921 original size:27 final size:27
Alignment explanation
Indices: 1322883--1322934 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1322873 TTGAAAAACA
1322883 AATTTCCTTGTAGAAGGTGTAAAGACT
1 AATTTCCTTGTAGAAGGTGTAAAGACT
*
1322910 AATTTTCTTGTAGAAGGTGTAAAGA
1 AATTTCCTTGTAGAAGGTGTAAAGA
1322935 TAAACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
AATTTCCTTGTAGAAGGTGTAAAGACT
Found at i:1323141 original size:36 final size:36
Alignment explanation
Indices: 1323093--1323165 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
1323083 AGTTTCACAA
1323093 AGATACTATTAATGATCTTGAAATATTATATCAATG
1 AGATACTATTAATGATCTTGAAATATTATATCAATG
* *
1323129 AGATACTCTTAATGATCTTGAAATATTGTATCAATG
1 AGATACTATTAATGATCTTGAAATATTATATCAATG
1323165 A
1 A
1323166 CTATGACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (36 bp):
AGATACTATTAATGATCTTGAAATATTATATCAATG
Found at i:1329239 original size:14 final size:14
Alignment explanation
Indices: 1329210--1329261 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
1329200 ATATGAGATT
* *
1329210 AGTAGAAACCAGAA
1 AGTAGAAAGCAAAA
*
1329224 AGCAGAAAGCAAAA
1 AGTAGAAAGCAAAA
* *
1329238 AGTAAAAAGTAAAA
1 AGTAGAAAGCAAAA
1329252 AGTAGAAAGC
1 AGTAGAAAGC
1329262 GGGATCAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.62, C:0.10, G:0.21, T:0.08
Consensus pattern (14 bp):
AGTAGAAAGCAAAA
Found at i:1332923 original size:14 final size:14
Alignment explanation
Indices: 1332904--1332933 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1332894 ATAAGTTTGG
1332904 AATAAATAATATAT
1 AATAAATAATATAT
1332918 AATAAATAATATAT
1 AATAAATAATATAT
1332932 AA
1 AA
1332934 ATGAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAATAATATAT
Found at i:1334214 original size:17 final size:19
Alignment explanation
Indices: 1334180--1334221 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
1334170 GATCCATACC
1334180 TTTTTTAAAAGTACATAATT
1 TTTTTTAAAAG-ACATAATT
1334200 TTTTTTAAAA-A-ATAATT
1 TTTTTTAAAAGACATAATT
1334217 TTTTT
1 TTTTT
1334222 CTTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.50
18 1 0.05
20 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAAAAGACATAATT
Found at i:1334295 original size:23 final size:24
Alignment explanation
Indices: 1334268--1334315 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1334258 AAAAATATGA
* *
1334268 AAAAAATATTTAAAATTAAAAAAT
1 AAAAAGTATTTAAAATAAAAAAAT
*
1334292 AAAAAGTTTTTAAAATAAAAAAAT
1 AAAAAGTATTTAAAATAAAAAAAT
1334316 CTAAAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAGTATTTAAAATAAAAAAAT
Found at i:1334810 original size:16 final size:17
Alignment explanation
Indices: 1334772--1334810 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
1334762 AAGAGTTTCT
1334772 ATTTTTAAAAAATTATA
1 ATTTTTAAAAAATTATA
1334789 ATTTTT-AAAAATTATA
1 ATTTTTAAAAAATTATA
*
1334805 GTTTTT
1 ATTTTT
1334811 TATTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTTAAAAAATTATA
Found at i:1338066 original size:35 final size:35
Alignment explanation
Indices: 1338004--1338089 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
1337994 TTTTATTTGT
*
1338004 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
1338037 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
1338073 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
1338090 ATAAATAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:1338075 original size:25 final size:23
Alignment explanation
Indices: 1338031--1338091 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
1338021 TGATATTTAA
*
1338031 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
1338055 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
1338080 ATATTATTAAAT
1 ATATAATTAAAT
1338092 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:1364506 original size:12 final size:12
Alignment explanation
Indices: 1364489--1364513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1364479 AACAATTGTC
1364489 ATTTGCATTAAG
1 ATTTGCATTAAG
1364501 ATTTGCATTAAG
1 ATTTGCATTAAG
1364513 A
1 A
1364514 CTTAAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTTGCATTAAG
Found at i:1368015 original size:29 final size:29
Alignment explanation
Indices: 1367983--1368054 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
1367973 AAATTAAACC
1367983 ATATAAGGAATAGGATCTAAAAGGAAATT
1 ATATAAGGAATAGGATCTAAAAGGAAATT
* * *
1368012 ATATAAAAGAATAGGATCTAAATGTAAATT
1 ATAT-AAGGAATAGGATCTAAAAGGAAATT
*
1368042 ATACAAGGAATAG
1 ATATAAGGAATAG
1368055 TTTGGCCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATAAGGAATAGGATCTAAAAGGAAATT
Found at i:1368033 original size:15 final size:16
Alignment explanation
Indices: 1367987--1368033 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
1367977 TAAACCATAT
1367987 AAGGAATAGGATCTAA
1 AAGGAATAGGATCTAA
** *
1368003 AAGGAA-ATTATATAA
1 AAGGAATAGGATCTAA
1368018 AA-GAATAGGATCTAA
1 AAGGAATAGGATCTAA
1368033 A
1 A
1368034 TGTAAATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.21
Consensus pattern (16 bp):
AAGGAATAGGATCTAA
Found at i:1368654 original size:31 final size:31
Alignment explanation
Indices: 1368596--1368660 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1368586 GAGCAATTTG
* * *
1368596 ACTCTTTTTTAAAGGTTGATGGTCAAATTCA
1 ACTCTTTCTAAAAGGTTGATGGCCAAATTCA
*
1368627 ACTCTTTCTAAAAGGTTGA-GGACCAAATTTA
1 ACTCTTTCTAAAAGGTTGATGG-CCAAATTCA
1368658 ACT
1 ACT
1368661 AAAAAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (31 bp):
ACTCTTTCTAAAAGGTTGATGGCCAAATTCA
Found at i:1370230 original size:51 final size:51
Alignment explanation
Indices: 1370112--1370223 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
1370102 TATGTAAATG
* * * * * * * *
1370112 TTGACAAAATATGTAAATTTTGTGAGTTAATTTTGTTAAATCAGGATCAAA
1 TTGACAGAATATGTAAATATAGTGAGCTAAATTTATTAAATCAAGATAAAA
**
1370163 TTGGTAGAATATGTAAATATAGTGAGCTAAATTTATTAAATCAAGATAAAA
1 TTGACAGAATATGTAAATATAGTGAGCTAAATTTATTAAATCAAGATAAAA
1370214 TTGACAGAAT
1 TTGACAGAAT
1370224 GAGTAAACTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (51 bp):
TTGACAGAATATGTAAATATAGTGAGCTAAATTTATTAAATCAAGATAAAA
Found at i:1371115 original size:20 final size:20
Alignment explanation
Indices: 1371090--1371139 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1371080 TGGCTTAAAA
1371090 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1371110 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1371127 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1371140 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1375753 original size:20 final size:20
Alignment explanation
Indices: 1375728--1375777 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1375718 TGGCTTAAAA
1375728 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1375748 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1375765 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1375778 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1384503 original size:14 final size:14
Alignment explanation
Indices: 1384482--1384515 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1384472 TGGTATGGGT
1384482 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
1384495 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
1384509 TTATAGG
1 TTATAGG
1384516 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:1388777 original size:21 final size:21
Alignment explanation
Indices: 1388751--1388806 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1388741 AATAGCGGTG
*
1388751 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
1388772 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
1388793 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
1388807 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:1389005 original size:25 final size:26
Alignment explanation
Indices: 1388975--1389077 Score: 109
Period size: 29 Copynumber: 3.7 Consensus size: 26
1388965 ATTCATTTAA
1388975 TAAAATACACTACATATA-TATATTT
1 TAAAATACACTACATATATTATATTT
*
1389000 TAAAATACACTACATATATTTTTTTATTT
1 TAAAATACACTACATATA---TTATATTT
* *
1389029 CTAGAATACACTACATATATTTTTTATTTT
1 -TAAAATACACTACATATA--TTATA-TTT
1389059 TAAAATACACTACATATAT
1 TAAAATACACTACATATAT
1389078 ATTTTTTTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
25 18 0.26
27 1 0.01
29 30 0.43
30 20 0.29
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.45
Consensus pattern (26 bp):
TAAAATACACTACATATATTATATTT
Found at i:1389037 original size:30 final size:30
Alignment explanation
Indices: 1388975--1389157 Score: 243
Period size: 30 Copynumber: 6.2 Consensus size: 30
1388965 ATTCATTTAA
*
1388975 TAAAATACACTACATATA----TATA-TTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
1389000 TAAAATACACTACATATATTTTTTTATTTC
1 TAAAATACACTACATATATTTTTTTATTTT
*
1389030 TAGAATACACTACATATA-TTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
1389059 TAAAATACACTACATATATATTTTTTTTATTTT
1 TAAAATACACTAC--ATATA-TTTTTTTATTTT
*
1389092 TAAAATACACTACATGTATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
1389122 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
1389152 TAAAAT
1 TAAAAT
1389158 TTTAAATACA
Statistics
Matches: 140, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
25 18 0.13
29 25 0.18
30 64 0.46
31 9 0.06
33 24 0.17
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (30 bp):
TAAAATACACTACATATATTTTTTTATTTT
Found at i:1389349 original size:6 final size:6
Alignment explanation
Indices: 1389338--1389375 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
1389328 CGTTCCCTCC
1389338 TCCCAT TCCCAT TCCCATT TCCCAT TCCCAT TCCCAT T
1 TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT TCCCAT T
1389376 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:1389360 original size:19 final size:19
Alignment explanation
Indices: 1389338--1389375 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1389328 CGTTCCCTCC
1389338 TCCCATTCCCATTCCCATT
1 TCCCATTCCCATTCCCATT
1389357 TCCCATTCCCATTCCCATT
1 TCCCATTCCCATTCCCATT
1389376 ATCAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (19 bp):
TCCCATTCCCATTCCCATT
Found at i:1393582 original size:31 final size:31
Alignment explanation
Indices: 1393514--1393597 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
1393504 GGTTTGAGTG
* * *
1393514 ACTGATTTGTTACTTTCCGAAAACGTTAGTA
1 ACTGATTTGTCACTTTTCGAAAACGTTAATA
* * * *
1393545 ATTGATTTGTCACTTTTCGTAAATGTTAATT
1 ACTGATTTGTCACTTTTCGAAAACGTTAATA
1393576 ACTGATTTGTCACTTTT-GAAAA
1 ACTGATTTGTCACTTTTCGAAAA
1393598 TTTAGTGACT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 4 0.09
31 40 0.91
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (31 bp):
ACTGATTTGTCACTTTTCGAAAACGTTAATA
Found at i:1399592 original size:25 final size:26
Alignment explanation
Indices: 1399547--1399604 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
1399537 GGTCCTTCTG
1399547 TTAAAAATTTCATCCATTTTCTACTA
1 TTAAAAATTTCATCCATTTTCTACTA
* * * *
1399573 TTAAAATTTTCATTCA-TTTCTATTG
1 TTAAAAATTTCATCCATTTTCTACTA
1399598 TTAAAAA
1 TTAAAAA
1399605 CTGGTCTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (26 bp):
TTAAAAATTTCATCCATTTTCTACTA
Found at i:1416321 original size:25 final size:24
Alignment explanation
Indices: 1416293--1416352 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
1416283 CATTTTTATT
* **
1416293 AAAAAAATAATTTAATATTTTTTAA
1 AAAAAAATAA-TTAAAATTAATTAA
*
1416318 AAAATTAATAATTAAAATTAATTAA
1 AAAA-AAATAATTAAAATTAATTAA
*
1416343 AAAAATATAA
1 AAAAAAATAA
1416353 GGATTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.14
25 19 0.68
26 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAAAAATAATTAAAATTAATTAA
Found at i:1416345 original size:26 final size:26
Alignment explanation
Indices: 1416316--1416365 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1416306 AATATTTTTT
*
1416316 AAAAAAT-TAATAATTAAAATTAATTA
1 AAAAAATATAAGAATT-AAATTAATTA
*
1416342 AAAAAATATAAGGATTAAATTAAT
1 AAAAAATATAAGAATTAAATTAAT
1416366 AGAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (26 bp):
AAAAAATATAAGAATTAAATTAATTA
Found at i:1422615 original size:25 final size:24
Alignment explanation
Indices: 1422572--1422631 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
1422562 TAATGTCATT
* *
1422572 TTATTATTATGTTGTTACTATTTTG
1 TTATTATTAT-TTATTACTATCTTG
*
1422597 TTATTATTATTTATATACTGTCTTG
1 TTATTATTATTTAT-TACTATCTTG
1422622 TT-TTATTATT
1 TTATTATTATT
1422632 ATTTTTGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (24 bp):
TTATTATTATTTATTACTATCTTG
Found at i:1425984 original size:43 final size:44
Alignment explanation
Indices: 1425906--1425995 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 44
1425896 AACCACCTCC
*
1425906 GGATATGCGACAAGTATTCAAGGATTGCATTCAAGACTTTGGTG
1 GGATATGCCACAAGTATTCAAGGATTGCATTCAAGACTTTGGTG
1425950 GGATATGCCACAAGTATT-AAGGATTGCATTCAAGACTTTGGTG
1 GGATATGCCACAAGTATTCAAGGATTGCATTCAAGACTTTGGTG
1425993 GGA
1 GGA
1425996 GTGAAATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 28 0.62
44 17 0.38
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (44 bp):
GGATATGCCACAAGTATTCAAGGATTGCATTCAAGACTTTGGTG
Found at i:1426749 original size:19 final size:19
Alignment explanation
Indices: 1426722--1426758 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1426712 AGTATATTCG
* *
1426722 TTAACAATTAATTAATTTT
1 TTAAAAATTAATAAATTTT
1426741 TTAAAAATTAATAAATTT
1 TTAAAAATTAATAAATTT
1426759 AAAAAATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAAATTAATAAATTTT
Found at i:1429705 original size:22 final size:22
Alignment explanation
Indices: 1429674--1429716 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1429664 TTGTTGTTCA
*
1429674 TTGCTGCTATTTTGCTGTTATG
1 TTGCTACTATTTTGCTGTTATG
*
1429696 TTGCTACTATTTTGTTGTTAT
1 TTGCTACTATTTTGCTGTTAT
1429717 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (22 bp):
TTGCTACTATTTTGCTGTTATG
Found at i:1439528 original size:18 final size:18
Alignment explanation
Indices: 1439492--1439530 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1439482 CTTTGGACAT
*
1439492 TTTGGTTTAATTTTTGAA
1 TTTGGTTTAATTTTGGAA
1439510 TTTGGATTTAA-TTTGGAA
1 TTTGG-TTTAATTTTGGAA
1439528 TTT
1 TTT
1439531 TTGGCACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (18 bp):
TTTGGTTTAATTTTGGAA
Found at i:1456086 original size:31 final size:29
Alignment explanation
Indices: 1456051--1456120 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
1456041 ATATCAAAAT
*
1456051 TATACATGAATTATGGTTTAATGTGTAATTG
1 TATACATGAATTATGATTT--TGTGTAATTG
* * *
1456082 TATACATAAATTTTGATTTTGTGTAATTT
1 TATACATGAATTATGATTTTGTGTAATTG
1456111 TATACATGAA
1 TATACATGAA
1456121 ATTTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.47
Consensus pattern (29 bp):
TATACATGAATTATGATTTTGTGTAATTG
Found at i:1456104 original size:29 final size:30
Alignment explanation
Indices: 1456072--1456130 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
1456062 TATGGTTTAA
*
1456072 TGTGTAATTGTATACAT-AAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTAATTT
*
1456101 TGTGTAATTTTATACATGAAATTTTAATTT
1 TGTGTAATTGTATACATGAAATTTTAATTT
1456131 GATCCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAATTTTAATTT
Found at i:1456615 original size:43 final size:44
Alignment explanation
Indices: 1456568--1456651 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
1456558 ATATTATTTT
* *
1456568 ATATATTTAATG-AATTTTTAAATTCGAACAAATTAATATCCTA
1 ATATATTTAATGAAAATTTTAAATTCAAACAAATTAATATCCTA
*
1456611 ATATATTTAATGAAAATTTTAAATTTAAACAAATTAATATC
1 ATATATTTAATGAAAATTTTAAATTCAAACAAATTAATATC
1456652 AAGTTTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 12 0.32
44 25 0.68
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (44 bp):
ATATATTTAATGAAAATTTTAAATTCAAACAAATTAATATCCTA
Found at i:1460296 original size:21 final size:22
Alignment explanation
Indices: 1460260--1460304 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
1460250 GTCACGAGTG
1460260 AATTTTATAATTTAT-ATTAGCTT
1 AATTTTAT-ATTTATAATTA-CTT
1460283 AATTTTAT-TTTATAATTACTT
1 AATTTTATATTTATAATTACTT
1460304 A
1 A
1460305 GACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTTATATTTATAATTACTT
Found at i:1463408 original size:88 final size:88
Alignment explanation
Indices: 1463259--1463419 Score: 322
Period size: 88 Copynumber: 1.8 Consensus size: 88
1463249 TGAAAAATTA
1463259 AAACATGCAAGGGAAGAGAAACAAACTTGAGTCTCAAAAACAATTTCACTAATACTTAACCAACA
1 AAACATGCAAGGGAAGAGAAACAAACTTGAGTCTCAAAAACAATTTCACTAATACTTAACCAACA
1463324 GATCAGTAACTTATTTTTTATAT
66 GATCAGTAACTTATTTTTTATAT
1463347 AAACATGCAAGGGAAGAGAAACAAACTTGAGTCTCAAAAACAATTTCACTAATACTTAACCAACA
1 AAACATGCAAGGGAAGAGAAACAAACTTGAGTCTCAAAAACAATTTCACTAATACTTAACCAACA
1463412 GATCAGTA
66 GATCAGTA
1463420 GAAATAGGTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (88 bp):
AAACATGCAAGGGAAGAGAAACAAACTTGAGTCTCAAAAACAATTTCACTAATACTTAACCAACA
GATCAGTAACTTATTTTTTATAT
Found at i:1468005 original size:11 final size:11
Alignment explanation
Indices: 1467989--1468040 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
1467979 ATTATAGCTT
*
1467989 ATTAGTGAGGG
1 ATTAGTGATGG
1468000 ATTAGTGATGG
1 ATTAGTGATGG
* *
1468011 ATTAGTGTAAGC
1 ATTAGTG-ATGG
*
1468023 ATAAGTGATGG
1 ATTAGTGATGG
1468034 ATTAGTG
1 ATTAGTG
1468041 TTTTTGTCAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
11 25 0.76
12 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.35, T:0.33
Consensus pattern (11 bp):
ATTAGTGATGG
Found at i:1468240 original size:18 final size:18
Alignment explanation
Indices: 1468219--1468272 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1468209 ACATAATTAT
1468219 TTTAAATATAATAATAAA
1 TTTAAATATAATAATAAA
* *
1468237 TTTAAAT-TTAT-ATTAA
1 TTTAAATATAATAATAAA
*
1468253 TATTAAATAAAATAA-AAA
1 T-TTAAATATAATAATAAA
1468271 TT
1 TT
1468273 GCCCACCCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 12 0.43
19 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTAAATATAATAATAAA
Found at i:1468620 original size:18 final size:18
Alignment explanation
Indices: 1468576--1468620 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1468566 GATTTTTATT
*
1468576 TTATTTAATATTATTATAA
1 TTATTAAAT-TTATTATAA
1468595 TTATTAAATTTATTATTAA
1 TTATTAAATTTATTA-TAA
1468614 TT-TTAAA
1 TTATTAAA
1468621 AAAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTAAATTTATTATAA
Found at i:1469616 original size:31 final size:31
Alignment explanation
Indices: 1469567--1469626 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1469557 ATTTGGTCAC
*
1469567 TGAACTATTTCAATGTTTTCATTCAAGTCGT
1 TGAACTATTTCAAAGTTTTCATTCAAGTCGT
* *
1469598 TGAACTA-TTCAAAAGTTTTTATTTAAGTC
1 TGAACTATTTC-AAAGTTTTCATTCAAGTC
1469627 ACTAGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (31 bp):
TGAACTATTTCAAAGTTTTCATTCAAGTCGT
Found at i:1471188 original size:31 final size:30
Alignment explanation
Indices: 1471164--1471552 Score: 466
Period size: 31 Copynumber: 12.8 Consensus size: 30
1471154 GTATATGTTT
*
1471164 TATACATTGCCGAA-TTGATTTGTATAAAGA
1 TATACATTGCCGAATTTGATTTGTAT-ATGA
* *
1471194 TATACATTGTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
1471225 TATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471255 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471286 TGTACATTGCCGAA-TTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471316 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATAT-GA
*
1471347 TATACATTACCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
1471378 TATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471408 TATACATTGCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATAT-GA
*
1471439 TATACATTGCCGAATTTTATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
*
1471470 TATACATTGCCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471500 TATTCATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATAT-GA
* *
1471531 TATATATTACCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
1471553 AGCATTGTAT
Statistics
Matches: 317, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
30 131 0.41
31 186 0.59
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTTGATTTGTATATGA
Found at i:1471239 original size:61 final size:61
Alignment explanation
Indices: 1471164--1471552 Score: 546
Period size: 61 Copynumber: 6.4 Consensus size: 61
1471154 GTATATGTTT
* * *
1471164 TATACATTGCCGAATTGATTTGTATAAAGATATACATTGTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* *
1471225 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * *
1471286 TGTACATTGCCGAATTGATTTGTTTATAGATATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* *
1471347 TATACATTACCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * *
1471408 TATACATTGCTGAATTTGATTTGTATATGGTTATACATTGCCGAATTTTATTTGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * *
1471470 TATACATTGCCGAATTGATTTGTATGTAGATATTCATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* *
1471531 TATATATTACCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
1471553 AGCATTGTAT
Statistics
Matches: 295, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
61 241 0.82
62 54 0.18
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (61 bp):
TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
Found at i:1471301 original size:92 final size:92
Alignment explanation
Indices: 1471164--1471552 Score: 559
Period size: 92 Copynumber: 4.2 Consensus size: 92
1471154 GTATATGTTT
* * *
1471164 TATACATTGCCGAA-TTGATTTGTATAAAGATATACATTGTCGAATTTGATTTGTTTATAGATAT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAA-TTGATTTGTATATAGATAT
*
1471228 ACATTGCCGAA-TTGATTTGTATATAGA
65 ACATTGCCGAATTTGATTTGTATATGGA
* * * *
1471255 TATACATTGCCGAATTTGAATTGTTTATAGATGTACATTGCCGAATTGATTTGTTTATAGATATA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATAGATATA
* *
1471320 CATTGTCGAATTTGATTTGTATATGGT
66 CATTGCCGAATTTGATTTGTATATGGA
* *
1471347 TATACATTACCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATAGATATA
* *
1471412 CATTGCTGAATTTGATTTGTATATGGT
66 CATTGCCGAATTTGATTTGTATATGGA
* * * *
1471439 TATACATTGCCGAATTTTATTTGTATATGGATATACATTGCCGAATTGATTTGTATGTAGATATT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATAGATATA
*
1471504 CATTGCCGAATTTGATTCGTATATGGA
66 CATTGCCGAATTTGATTTGTATATGGA
* *
1471531 TATATATTACCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
1471553 AGCATTGTAT
Statistics
Matches: 270, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
91 50 0.19
92 220 0.81
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (92 bp):
TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATAGATATA
CATTGCCGAATTTGATTTGTATATGGA
Found at i:1472920 original size:19 final size:19
Alignment explanation
Indices: 1472896--1472932 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1472886 TTAAAATATT
1472896 ATTTTA-ATAAAATATTTAA
1 ATTTTATATAAAA-ATTTAA
1472915 ATTTTATATAAAAATTTA
1 ATTTTATATAAAAATTTA
1472933 TTAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTATATAAAAATTTAA
Found at i:1472971 original size:20 final size:19
Alignment explanation
Indices: 1472943--1472984 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1472933 TTAATTATAT
*
1472943 TTTATTGAATGAATATAATA
1 TTTAATGAATGAA-ATAATA
*
1472963 TTTAATGAATGAAATTATA
1 TTTAATGAATGAAATAATA
1472982 TTT
1 TTT
1472985 GTAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (19 bp):
TTTAATGAATGAAATAATA
Found at i:1479198 original size:7 final size:7
Alignment explanation
Indices: 1479186--1479210 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1479176 AATTAGATAA
1479186 TAACATG
1 TAACATG
1479193 TAACATG
1 TAACATG
1479200 TAACATG
1 TAACATG
1479207 TAAC
1 TAAC
1479211 GTACGACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (7 bp):
TAACATG
Found at i:1485032 original size:19 final size:18
Alignment explanation
Indices: 1485008--1485066 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
1484998 TTTTTGTTGC
1485008 TAATTTTTATGATTTTTTA
1 TAATTTTTAT-ATTTTTTA
1485027 TAATTTATT-TA-TTTTTA
1 TAATTT-TTATATTTTTTA
*
1485044 -AATATTTTATAATTTTTA
1 TAAT-TTTTATATTTTTTA
*
1485062 AAATT
1 TAATT
1485067 ATTTGTTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.14
17 10 0.29
18 8 0.23
19 10 0.29
20 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TAATTTTTATATTTTTTA
Found at i:1485060 original size:9 final size:9
Alignment explanation
Indices: 1485008--1485066 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
1484998 TTTTTGTTGC
1485008 TAATTTTTA
1 TAATTTTTA
*
1485017 TGATTTTTTA
1 T-AATTTTTA
1485027 TAATTTATT-
1 TAATTT-TTA
1485036 T-ATTTTTA
1 TAATTTTTA
1485044 -AATATTTTA
1 TAAT-TTTTA
1485053 TAATTTTTA
1 TAATTTTTA
*
1485062 AAATT
1 TAATT
1485067 ATTTGTTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 2 0.05
8 6 0.15
9 20 0.49
10 13 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:1485503 original size:2 final size:2
Alignment explanation
Indices: 1485496--1485524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1485486 AAGTATGCTT
1485496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1485525 TTGTCAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1486246 original size:31 final size:31
Alignment explanation
Indices: 1486208--1486272 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
1486198 TTCCTTCAAG
1486208 TATGTTTTCAAATCAAAGTTAAAAGTATATC
1 TATGTTTTCAAATCAAAGTTAAAAGTATATC
1486239 TATGTTTTCAAATCAAAGTTAAAAGTATATC
1 TATGTTTTCAAATCAAAGTTAAAAGTATATC
1486270 TAT
1 TAT
1486273 TTTGTTGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (31 bp):
TATGTTTTCAAATCAAAGTTAAAAGTATATC
Found at i:1488317 original size:31 final size:31
Alignment explanation
Indices: 1488269--1488335 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
1488259 GAAAATCCTA
* *
1488269 AAGTTTAGGCTCTAATGTGGGAACAACTGCC
1 AAGTTCAGGCTCTAATGTAGGAACAACTGCC
* *
1488300 AAGTTCAGGACTC-AATGTAGGAGCAATTGCC
1 AAGTTCAGG-CTCTAATGTAGGAACAACTGCC
1488331 AAGTT
1 AAGTT
1488336 TAGGGACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
AAGTTCAGGCTCTAATGTAGGAACAACTGCC
Found at i:1506393 original size:20 final size:19
Alignment explanation
Indices: 1506365--1506408 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1506355 AAAAAAAAAG
*
1506365 TTTAGGTACCACCTTGATGA
1 TTTAAGTACCA-CTTGATGA
* *
1506385 TTTAAGTACCATTTTATGA
1 TTTAAGTACCACTTGATGA
1506404 TTTAA
1 TTTAA
1506409 ACCTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTAAGTACCACTTGATGA
Found at i:1513109 original size:31 final size:31
Alignment explanation
Indices: 1513074--1513160 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 31
1513064 TTGGTACGTA
1513074 AGTTTGGTTTTAATGTTCAATTTGATACTTG
1 AGTTTGGTTTTAATGTTCAATTTGATACTTG
* * * *
1513105 AGTTT-CTTTT--TGTCCCAATTTGGTACTTT
1 AGTTTGGTTTTAATGT-TCAATTTGATACTTG
* * *
1513134 AGTTTGGCTTCAATGTTTAATTTGATA
1 AGTTTGGTTTTAATGTTCAATTTGATA
1513161 TCCAGACCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
28 3 0.07
29 17 0.40
30 6 0.14
31 13 0.31
32 3 0.07
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (31 bp):
AGTTTGGTTTTAATGTTCAATTTGATACTTG
Found at i:1513397 original size:55 final size:57
Alignment explanation
Indices: 1513258--1513406 Score: 153
Period size: 58 Copynumber: 2.6 Consensus size: 57
1513248 TATCAAATTG
* * *
1513258 AAAAAATTCAGGTACCAAATTAAATATTGAAGTCAAACTCAGGTATCAGATTGGACGA
1 AAAAAACTCAGGTACCAAATTAAACATTGAAG-CCAACTCAGGTATCAGATTGGACGA
* * * * *
1513316 AAAAAACTTAGGTCCCAAATTAAACATTGAAGCCAACTCATGTA-CTA-ATTTGG-GGG
1 AAAAAACTCAGGTACCAAATTAAACATTGAAGCCAACTCAGGTATC-AGA-TTGGACGA
* *
1513372 GAAAAA-TCAGGTACCAAATTAAACATTGAAACCAA
1 AAAAAACTCAGGTACCAAATTAAACATTGAAGCCAA
1513407 AATTAGATAC
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
55 26 0.34
56 8 0.10
57 15 0.19
58 28 0.36
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (57 bp):
AAAAAACTCAGGTACCAAATTAAACATTGAAGCCAACTCAGGTATCAGATTGGACGA
Found at i:1521241 original size:25 final size:25
Alignment explanation
Indices: 1521194--1521242 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1521184 TAGGTTAATC
*
1521194 AGAGTTTAAATGGAGAACTAAAAAT
1 AGAGTTTAAATGGAGAACGAAAAAT
*
1521219 AGAGTTTAATTGGGAGAA-GAAAAA
1 AGAGTTTAAAT-GGAGAACGAAAAA
1521243 AACCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.24, T:0.22
Consensus pattern (25 bp):
AGAGTTTAAATGGAGAACGAAAAAT
Found at i:1521242 original size:26 final size:25
Alignment explanation
Indices: 1521194--1521243 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
1521184 TAGGTTAATC
*
1521194 AGAGTTTAAATGGAGAACTAAAAAT
1 AGAGTTTAAATGGAGAACAAAAAAT
* *
1521219 AGAGTTTAATTGGGAGAAGAAAAAA
1 AGAGTTTAAAT-GGAGAACAAAAAA
1521244 ACCAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (25 bp):
AGAGTTTAAATGGAGAACAAAAAAT
Found at i:1526731 original size:14 final size:13
Alignment explanation
Indices: 1526696--1526725 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1526686 ATAAGCAAAC
1526696 AAAA-ATATTTTA
1 AAAATATATTTTA
1526708 AAAATATATTTTA
1 AAAATATATTTTA
1526721 AAAAT
1 AAAAT
1526726 TGTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATATTTTA
Found at i:1529620 original size:2 final size:2
Alignment explanation
Indices: 1529615--1529642 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1529605 ATATATAAAT
1529615 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1529643 CAGAAGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1533225 original size:6 final size:6
Alignment explanation
Indices: 1533226--1533259 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1533216 TTCTTTTTCT
1533226 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1533260 ATTACATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:1533671 original size:31 final size:31
Alignment explanation
Indices: 1533626--1533699 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1533616 TGTACGTTAG
*
1533626 TTAGTT-GATGACCAAAAAGACAAAATT-TAA
1 TTAGTTGGGTGACCAAAAA-ACAAAATTATAA
* *
1533656 TTAGTTGGGTGACCAAAAAATAAATTTATAA
1 TTAGTTGGGTGACCAAAAAACAAAATTATAA
*
1533687 ATAGTTGGGTGAC
1 TTAGTTGGGTGAC
1533700 TACTAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 12 0.32
31 26 0.68
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (31 bp):
TTAGTTGGGTGACCAAAAAACAAAATTATAA
Found at i:1536948 original size:22 final size:22
Alignment explanation
Indices: 1536918--1536961 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1536908 AACACTCCTT
*
1536918 TAAATAATAAATAAGAAATAAG
1 TAAACAATAAATAAGAAATAAG
1536940 TAAACAATAAATAAGAAATAAG
1 TAAACAATAAATAAGAAATAAG
1536962 GGGTTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (22 bp):
TAAACAATAAATAAGAAATAAG
Found at i:1536959 original size:11 final size:11
Alignment explanation
Indices: 1536923--1536960 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1536913 TCCTTTAAAT
1536923 AATAAATAAGA
1 AATAAATAAGA
*
1536934 AATAAGTAA-A
1 AATAAATAAGA
1536944 CAATAAATAAGA
1 -AATAAATAAGA
1536956 AATAA
1 AATAA
1536961 GGGGTTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (11 bp):
AATAAATAAGA
Found at i:1536961 original size:7 final size:7
Alignment explanation
Indices: 1536919--1536961 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
1536909 ACACTCCTTT
*
1536919 AAATAAT
1 AAATAAG
1536926 AAATAAG
1 AAATAAG
1536933 AAATAAG
1 AAATAAG
* *
1536940 TAAACAAT
1 -AAATAAG
1536948 AAATAAG
1 AAATAAG
1536955 AAATAAG
1 AAATAAG
1536962 GGGTTCTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (7 bp):
AAATAAG
Found at i:1539536 original size:25 final size:26
Alignment explanation
Indices: 1539508--1539568 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
1539498 TACGTGTTTT
1539508 TTTAATAATTATATA-TTTTA-AAAAA
1 TTTAATAATTATA-ACTTTTACAAAAA
*
1539533 TTTAA-AATTTTAACTTTTACAAAAA
1 TTTAATAATTATAACTTTTACAAAAA
*
1539558 ATTAATTAATT
1 TTTAA-TAATT
1539569 GTTGACATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 11 0.37
25 14 0.47
27 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTAATAATTATAACTTTTACAAAAA
Found at i:1548028 original size:21 final size:21
Alignment explanation
Indices: 1548002--1548042 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1547992 AGATGAGCAA
* *
1548002 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1548023 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1548043 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1553796 original size:7 final size:7
Alignment explanation
Indices: 1553786--1553812 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1553776 CACTTAATTA
1553786 TTAAAAT
1 TTAAAAT
1553793 TTAAAAT
1 TTAAAAT
1553800 TTAAAAT
1 TTAAAAT
1553807 TTAAAA
1 TTAAAA
1553813 ATAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:1555209 original size:21 final size:22
Alignment explanation
Indices: 1555176--1555216 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1555166 TTATATTAAT
*
1555176 TTTTTAAAGATTATTTTTAAAA
1 TTTTTAAAGATTATTGTTAAAA
*
1555198 TTTTTATA-ATTATTGTTAA
1 TTTTTAAAGATTATTGTTAA
1555217 GAAAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TTTTTAAAGATTATTGTTAAAA
Found at i:1556041 original size:30 final size:30
Alignment explanation
Indices: 1556005--1556065 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
1555995 ACCTAGTGAC
1556005 TTAAAT-AAAATATTTCGAATAGTTTAATGA
1 TTAAATAAAAATA-TTCGAATAGTTTAATGA
*
1556035 TTAAATAAAAATATTCGAATAGTTTAGTGA
1 TTAAATAAAAATATTCGAATAGTTTAATGA
1556065 T
1 T
1556066 CATTTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.39
Consensus pattern (30 bp):
TTAAATAAAAATATTCGAATAGTTTAATGA
Found at i:1562961 original size:14 final size:14
Alignment explanation
Indices: 1562932--1562980 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1562922 AAAAATTAAT
*
1562932 ATTTTTAATAATTTA
1 ATTTTTAAT-ACTTA
1562947 ATTTTTAATACTTA
1 ATTTTTAATACTTA
*
1562961 ATTTTTCAACACTT-
1 ATTTTT-AATACTTA
1562975 ATTTTT
1 ATTTTT
1562981 TCAACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTAATACTTA
Found at i:1562981 original size:15 final size:15
Alignment explanation
Indices: 1562944--1562986 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1562934 TTTTAATAAT
*
1562944 TTAATTTTT-AATAC
1 TTAATTTTTCAACAC
1562958 TTAATTTTTCAACAC
1 TTAATTTTTCAACAC
*
1562973 TTATTTTTTCAACA
1 TTAATTTTTCAACA
1562987 AATAGCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:1564935 original size:30 final size:29
Alignment explanation
Indices: 1564899--1564960 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
1564889 TATTATTTTG
*
1564899 AAAAATATATAAAAGCCTATAATATATATA
1 AAAAATATATAAAAACCTATAAT-TATATA
* *
1564929 AAAAATATATAAAAACGTATAATTTTATA
1 AAAAATATATAAAAACCTATAATTATATA
1564958 AAA
1 AAA
1564961 GTATGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAATATATAAAAACCTATAATTATATA
Done.