Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 151 of 206
Found at i:45843617 original size:29 final size:29
Alignment explanation
Indices: 45843539--45843663 Score: 126
Period size: 30 Copynumber: 4.2 Consensus size: 29
45843529 TTTTGGGGCT
*
45843539 AAAATGTAATTTCAAGAAAA-TTTAAGGGTT
1 AAAATGTAATTT--AGAAAATTTTAAGGGTC
* *
45843569 TAAATGTAATTTTGAGAAATTTTAAGGGTC
1 AAAATGTAATTTAGA-AAATTTTAAGGGTC
* *
45843599 AAAATGTAATTTAGAAAATTTTAGGGGTT
1 AAAATGTAATTTAGAAAATTTTAAGGGTC
* * * *
45843628 GAAATGTAATTTTGAAAAAGTTTAGGGGTC
1 AAAATGTAATTTAG-AAAATTTTAAGGGTC
45843658 AAAATG
1 AAAATG
45843664 CAAATTTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.03
29 27 0.34
30 51 0.64
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTAGAAAATTTTAAGGGTC
Found at i:45843635 original size:59 final size:59
Alignment explanation
Indices: 45843539--45843663 Score: 180
Period size: 59 Copynumber: 2.1 Consensus size: 59
45843529 TTTTGGGGCT
* * *
45843539 AAAATGTAATTTCAAGAAAATTTAAGGGTTTAAATGTAATTTTGAGAAATTTTAAGGGTC
1 AAAATGTAATTT-AAGAAAATTTAAGGGTTGAAATGTAATTTTGAAAAAGTTTAAGGGTC
* *
45843599 AAAATGTAATTT-AGAAAATTTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTC
1 AAAATGTAATTTAAGAAAA-TTTAAGGGTTGAAATGTAATTTTGAAAAAGTTTAAGGGTC
45843658 AAAATG
1 AAAATG
45843664 CAAATTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
58 6 0.10
59 41 0.69
60 12 0.20
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTAAGAAAATTTAAGGGTTGAAATGTAATTTTGAAAAAGTTTAAGGGTC
Found at i:45844017 original size:78 final size:75
Alignment explanation
Indices: 45843846--45844877 Score: 1216
Period size: 76 Copynumber: 13.4 Consensus size: 75
45843836 CGTGTCACCT
*
45843846 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAAA-AGAAATTGAAAATAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAA-AATACCT
*
45843910 CGGCATGCGACCC
63 CGGCATGTGACCC
* *
45843923 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTGAAAAATATCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATT-AAAAATACCT
* * *
45843988 CAGCGTGTGACCT
63 CGGCATGTGACCC
* * * *
45844001 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATTTAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATTAAAAATACCTCG
* * *
45844066 ACGTGCGACCC
65 GCATGTGACCC
45844077 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAATTGAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAATT-AAAAATACCT
* **
45844142 CAGTGTGTGACCC
63 CGGCATGTGACCC
* * *
45844155 AAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT--AA-AAATACC
*
45844220 TTGGCATGTGACCC
62 TCGGCATGTGACCC
*
45844234 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAAATATCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-AAAAATACCTC
45844298 GGCATGTGACCC
64 GGCATGTGACCC
*
45844310 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG-AAAACAGAAATTTAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA-TT-AAAAATACCT
45844374 CGGCATGTG-CCC
63 CGGCATGTGACCC
* * *
45844386 GAGGCTCAATTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTTTAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA--TT-AAAAATACCT
*
45844451 CGGCATGTG-TCC
63 CGGCATGTGACCC
* * *
45844463 GAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAATAGAAATTTAAAAAATACATC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-AAAAATACCTC
*
45844528 GGCATGTG-TCC
64 GGCATGTGACCC
* * *
45844539 GAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAAAAAGAAATTAAAGATACCTCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTAAAAATACCTCG
* *
45844604 GTATGTGATCC
65 GCATGTGACCC
* * * *
45844615 GATGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAAAACAGAAAATAAAGATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAACAGAAATTAAAAATACCT
* * *
45844680 CAGTATGTGACCT
63 CGGCATGTGACCC
* * *
45844693 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTAAAAATACCT
* *
45844758 CAGC--GTGACTC
63 CGGCATGTGACCC
* * * *
45844769 GAGGCTCAACTCACCTCTCGCATTATTAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAATACCTC
* *
45844834 GGTAAGTGACCC
64 GGCATGTGACCC
*
45844846 GAGGCTCAACTCACCTTTCGCAATATGAGTTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG
45844878 NNNNNNNNNN
Statistics
Matches: 852, Mismatches: 83, Indels: 40
0.87 0.09 0.04
Matches are distributed among these distances:
75 50 0.06
76 298 0.35
77 214 0.25
78 214 0.25
79 69 0.08
80 7 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGG
CATGTGACCC
Found at i:45844109 original size:154 final size:152
Alignment explanation
Indices: 45843842--45844877 Score: 1165
Period size: 154 Copynumber: 6.7 Consensus size: 152
45843832 TTGGCGTGTC
* *
45843842 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTG-AAAAAAG-AAATTGAAAATAA
1 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATT--TAA-AA
* *
45843905 TACCTCGGCATGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAAC
63 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAAC
* *
45843970 AGAAATTGAAAAATATCTCAGCGTGTG
126 AGAAATTGAAAAATACCTCAGCATGTG
*
45843997 ACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATTTAAAATAC
1 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATTTAAAATAC
** * *
45844062 CTCAACGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGA
66 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGA
**
45844127 AATTGAAAAATACCTCAGTGTGTG
129 AATTGAAAAATACCTCAGCATGTG
** * * * * *
45844151 ACCCAAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAAAGAAA
1 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATT--TA-AAA
*
45844216 TACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAG
63 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
* * *
45844280 AAATTTAAAAAATATCTCGGCATGTG
128 AAA-TTGAAAAATACCTCAGCATGTG
* * *
45844306 ACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG-AAAACAG-AAATTTAAAAAA
1 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAAGAAAATTT--AAAA
* * *
45844369 TACCTCGGCATGTG-CCCGAGGCTCAATTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAG
63 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
* *
45844433 AAATTTTAAAAAATACCTCGGCATGTG
128 AAA--TTGAAAAATACCTCAGCATGTG
* * *
45844460 TCC-GAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAATAG-AAATTTAAAAAAT
1 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATTT--AAAAT
* * * *
45844523 ACATCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTGAAAAAAAAG
64 ACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAG
* * *
45844587 AAATT-AAAGATACCTCGGTATGTG
128 AAATTGAAAAATACCTCAGCATGTG
* *
45844611 ATCC-GATGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAAAACAGAAAA--TAAA
1 A-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAA-AGAAAATTTAAA
* * *
45844673 GATACCTCAGTATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA
62 -ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA
* *
45844738 AATAGAAACTG-AAAATACCTCAGC--GTG
123 AACAGAAATTGAAAAATACCTCAGCATGTG
* * *
45844765 A-CTCGAGGCTCAACTCACCTCTCGCATTATTAGTTGATTTTTTTGAAAAACA-AAAA-TTAAAG
1 ACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAAAGAAAATTTAAA-
* * *
45844827 ATACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTG
62 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
45844878 NNNNNNNNNN
Statistics
Matches: 778, Mismatches: 75, Indels: 58
0.85 0.08 0.06
Matches are distributed among these distances:
151 17 0.02
152 88 0.11
153 201 0.26
154 263 0.34
155 105 0.13
156 38 0.05
157 66 0.08
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (152 bp):
ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAAATTTAAAATAC
CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
TTGAAAAATACCTCAGCATGTG
Found at i:45845263 original size:242 final size:234
Alignment explanation
Indices: 45844978--45845476 Score: 829
Period size: 242 Copynumber: 2.1 Consensus size: 234
45844968 NNNNNNNNNN
45844978 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
45845043 AGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGGGGCTCAACTCA
66 AGTTAATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCA
45845107 CCTCTCGCATTATGAGTTGATGTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCC
131 CCTCTCGCATTATGAGTTGAT-TTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCC
* * *
45845172 GAGGCTCAACTCACCTCTCGTACTCTCGCATTATGAGTTGATTTTTTT
195 AAGCCTCAACTCA-----C---CTCTCGCAATATGAGTTGATTTTTTT
*
45845220 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
45845285 AGTTAATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCA
66 AGTTAATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCA
*
45845350 CCTCTCGCATTATGAGTTGATTTTTTGAAAAATAGAAATTGAAAAATACCTCAGGATGTGACCCA
131 CCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCA
45845415 AGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
196 AGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
45845454 GCAAAAATAGAAATTGAAAAATA
1 G-AAAAACAGAAATTGAAAAATA
45845477 AATCTTGAAA
Statistics
Matches: 247, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
234 26 0.11
235 20 0.08
237 1 0.00
242 122 0.49
243 78 0.32
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (234 bp):
GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCA
CCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCA
AGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
Found at i:45845422 original size:77 final size:78
Alignment explanation
Indices: 45844978--45845476 Score: 820
Period size: 78 Copynumber: 6.3 Consensus size: 78
45844968 NNNNNNNNNN
*
45844978 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
45845043 AGTTGATTTTTTT
66 AGTTGATTTTTTT
*
45845056 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGGGGCTCAACTCACCTCTCGCATTATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
*
45845121 AGTTGATGTTTTT
66 AGTTGATTTTTTT
45845134 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGTACTCTC
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCA-----C---CTCTC
45845199 GCATTATGAGTTGATTTTTTT
58 GCATTATGAGTTGATTTTTTT
45845220 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
*
45845285 AGTTAATTTTTTTT
66 AGTTGA-TTTTTTT
45845299 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
45845364 AGTTGA-TTTTTT
66 AGTTGATTTTTTT
* * * *
45845376 GAAAAATAGAAATTGAAAAATACCTCAGGATGTGACCCAAGCCTCAACTCACCTCTCGCAATATG
1 GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
45845441 AGTTGATTTTTTT
66 AGTTGATTTTTTT
*
45845454 GCAAAAATAGAAATTGAAAAATA
1 G-AAAAACAGAAATTGAAAAATA
45845477 AATCTTGAAA
Statistics
Matches: 399, Mismatches: 11, Indels: 21
0.93 0.03 0.05
Matches are distributed among these distances:
77 73 0.18
78 150 0.38
79 98 0.25
81 1 0.00
83 1 0.00
86 76 0.19
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (78 bp):
GAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATG
AGTTGATTTTTTT
Found at i:45846360 original size:11 final size:10
Alignment explanation
Indices: 45846337--45846392 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
45846327 TCATTTTTTG
*
45846337 TTTTTTCTAT
1 TTTTTTCTGT
*
45846347 TTTTTTCTGC
1 TTTTTTCTGT
45846357 TTTTTT-TGTT
1 TTTTTTCTG-T
*
45846367 TTTTTTTTGT
1 TTTTTTCTGT
*
45846377 TTTTTTCTAT
1 TTTTTTCTGT
45846387 TTTTTT
1 TTTTTT
45846393 AGGCATAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.04, C:0.07, G:0.05, T:0.84
Consensus pattern (10 bp):
TTTTTTCTGT
Found at i:45852077 original size:35 final size:35
Alignment explanation
Indices: 45852038--45852127 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 35
45852028 CGTGATCAGA
* * * *
45852038 TTGAAACACGGGATTTTTTTTTAAAAAATGAAA-TT
1 TTGAAACACGAGA-ATTTTTTGAAAAAATAAAATTT
*
45852073 TTGAAACACGAGAATTTTTTGAAAACATAAAATTTT
1 TTGAAACACGAGAATTTTTTGAAAAAATAAAA-TTT
*
45852109 TTGAAACACGAAAATTTTT
1 TTGAAACACGAGAATTTTT
45852128 AAACACGAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 15 0.32
35 12 0.26
36 20 0.43
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (35 bp):
TTGAAACACGAGAATTTTTTGAAAAAATAAAATTT
Found at i:45852092 original size:18 final size:18
Alignment explanation
Indices: 45852071--45852214 Score: 109
Period size: 17 Copynumber: 7.9 Consensus size: 18
45852061 AAAAATGAAA
45852071 TTTTGAAACACGAGAATT
1 TTTTGAAACACGAGAATT
* *
45852089 TTTTGAAA-ACATAAAATT
1 TTTTGAAACAC-GAGAATT
*
45852107 TTTTGAAACACGA-AAAT
1 TTTTGAAACACGAGAATT
45852124 TTTT-AAACACGAGAATT
1 TTTTGAAACACGAGAATT
*
45852141 TTTTGAAAACAC-AAAATT
1 TTTTG-AAACACGAGAATT
* *
45852159 TTTTTAAACACAAGAAAGTTTT
1 TTTTGAAACACGAG-AA---TT
* *
45852181 TTTTGAAAACGCGAAAATT
1 TTTTG-AAACACGAGAATT
*
45852200 TTTT-AAACGCGAGAA
1 TTTTGAAACACGAGAA
45852215 AGTTTTTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.08
17 32 0.31
18 32 0.31
19 16 0.16
22 8 0.08
23 6 0.06
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTGAAACACGAGAATT
Found at i:45852125 original size:52 final size:52
Alignment explanation
Indices: 45852068--45852169 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
45852058 TTAAAAAATG
*
45852068 AAATTTTGAAACACGAGAATTTTTTGAAAACATAAAATTTTTTGAAACACGA
1 AAATTTTGAAACACGAGAATTTTTTGAAAACACAAAATTTTTTGAAACACGA
* *
45852120 AAATTTTTAAACACGAGAATTTTTTGAAAACACAAAATTTTTTTAAACAC
1 AAATTTTGAAACACGAGAATTTTTTGAAAACACAAAATTTTTTGAAACAC
45852170 AAGAAAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (52 bp):
AAATTTTGAAACACGAGAATTTTTTGAAAACACAAAATTTTTTGAAACACGA
Found at i:45852181 original size:21 final size:21
Alignment explanation
Indices: 45852123--45852227 Score: 84
Period size: 19 Copynumber: 5.4 Consensus size: 21
45852113 AACACGAAAA
45852123 TTTTTAAACACGAG-AA-TTT
1 TTTTTAAACACGAGAAAGTTT
**
45852142 TTTGAAAACAC-A-AAA--TT
1 TTTTTAAACACGAGAAAGTTT
*
45852159 TTTTTAAACACAAGAAAGTTT
1 TTTTTAAACACGAGAAAGTTT
* *
45852180 TTTTTGAAA-ACGCGAAA--AT
1 TTTTT-AAACACGAGAAAGTTT
*
45852199 TTTTTAAACGCGAGAAAGTTT
1 TTTTTAAACACGAGAAAGTTT
45852220 TTTTTAAA
1 TTTTTAAA
45852228 AATGAAATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
17 11 0.16
18 7 0.10
19 24 0.36
21 22 0.33
22 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (21 bp):
TTTTTAAACACGAGAAAGTTT
Found at i:45852189 original size:40 final size:40
Alignment explanation
Indices: 45852105--45852229 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
45852095 AAACATAAAA
45852105 TTTTTTG-AAACACGAAAA-TTTTTAAACACGAG-AA---
1 TTTTTTGAAAACACGAAAATTTTTTAAACACGAGAAAGTT
*
45852139 TTTTTTGAAAACAC-AAAATTTTTTTAAACACAAGAAAGTT
1 TTTTTTGAAAACACGAAAA-TTTTTTAAACACGAGAAAGTT
* *
45852179 TTTTTTGAAAACGCGAAAATTTTTTAAACGCGAGAAAGTT
1 TTTTTTGAAAACACGAAAATTTTTTAAACACGAGAAAGTT
*
45852219 TTTTTTAAAAA
1 TTTTTTGAAAA
45852230 TGAAATTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
34 11 0.14
35 6 0.08
36 13 0.17
37 2 0.03
40 42 0.54
41 4 0.05
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (40 bp):
TTTTTTGAAAACACGAAAATTTTTTAAACACGAGAAAGTT
Found at i:45852201 original size:19 final size:18
Alignment explanation
Indices: 45852071--45852222 Score: 125
Period size: 18 Copynumber: 8.2 Consensus size: 18
45852061 AAAAATGAAA
*
45852071 TTTTGAAACACGAGAATT
1 TTTTGAAACACGAAAATT
*
45852089 TTTTGAAA-ACATAAAATT
1 TTTTGAAACAC-GAAAATT
45852107 TTTTGAAACACGAAAA-T
1 TTTTGAAACACGAAAATT
*
45852124 TTTT-AAACACGAGAATT
1 TTTTGAAACACGAAAATT
45852141 TTTTGAAAACAC-AAAATT
1 TTTTG-AAACACGAAAATT
* *
45852159 TTTTTAAACACAAGAAAGTTTT
1 TTTTGAAACAC--GAAA--ATT
*
45852181 TTTTGAAAACGCGAAAATT
1 TTTTG-AAACACGAAAATT
*
45852200 TTTT-AAACGCGAGAAAGTT
1 TTTTGAAACACGA-AAA-TT
45852219 TTTT
1 TTTT
45852223 TTAAAAATGA
Statistics
Matches: 111, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
16 10 0.09
17 26 0.23
18 37 0.33
19 20 0.18
20 3 0.03
21 4 0.04
22 6 0.05
23 5 0.05
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (18 bp):
TTTTGAAACACGAAAATT
Found at i:45852383 original size:18 final size:18
Alignment explanation
Indices: 45852356--45852392 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45852346 CGTGATTCTA
* *
45852356 TTAAAGCACGATAATTTT
1 TTAAAACACGAAAATTTT
45852374 TTAAAACACGAAAATTTT
1 TTAAAACACGAAAATTTT
45852392 T
1 T
45852393 GAATATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (18 bp):
TTAAAACACGAAAATTTT
Found at i:45853044 original size:4 final size:4
Alignment explanation
Indices: 45853032--45853128 Score: 62
Period size: 4 Copynumber: 24.5 Consensus size: 4
45853022 TTTAATTTTT
* *
45853032 TTTC CTTC TTTC TCTTT TTTC TTTCCC TTTC -TTC TTTC TTTC -TTC TTTCC
1 TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC TTTC TTT-C
* * *
45853082 TTT- TTT- TTTC -TTC TTTC TTTC TTCC CTT- TTTC TTTTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
45853127 TT
1 TT
45853129 CTCCATTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
3 17 0.23
4 42 0.58
5 10 0.14
6 4 0.05
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:45853065 original size:26 final size:25
Alignment explanation
Indices: 45853037--45853116 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 25
45853027 TTTTTTTTCC
45853037 TTCTTTCTCTTTTTTCTTTCCCTTT
1 TTCTTTCTCTTTTTTCTTTCCCTTT
*
45853062 CTTC-TT-TCTTTCTTCTTT-CCTTT
1 -TTCTTTCTCTTTTTTCTTTCCCTTT
*
45853085 TTTTTTCTTCTTTCTTTC-TTCCCTTT
1 TTCTTTC-TCTTT-TTTCTTTCCCTTT
45853111 TTCTTT
1 TTCTTT
45853117 TTTTTCTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.04
23 7 0.16
24 11 0.24
25 9 0.20
26 16 0.36
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (25 bp):
TTCTTTCTCTTTTTTCTTTCCCTTT
Found at i:45853068 original size:7 final size:7
Alignment explanation
Indices: 45853036--45853130 Score: 58
Period size: 7 Copynumber: 13.7 Consensus size: 7
45853026 ATTTTTTTTC
45853036 CTTCTTT
1 CTTCTTT
45853043 C-TCTTT
1 CTTCTTT
*
45853049 TTTCTTT
1 CTTCTTT
*
45853056 C-CCTTT
1 CTTCTTT
45853062 CTTCTTT
1 CTTCTTT
45853069 CTT-TCTT
1 CTTCT-TT
45853076 CTTTCCTTT
1 C-TT-CTTT
*
45853085 -TTTTTT
1 CTTCTTT
45853091 CTTCTTT
1 CTTCTTT
*
45853098 CTTTCTTCC
1 C-TTCTT-T
45853107 CTT-TTT
1 CTTCTTT
45853113 CTT-TTT
1 CTTCTTT
*
45853119 TTTCTTT
1 CTTCTTT
45853126 CTTCT
1 CTTCT
45853131 CCATTCACCC
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
6 22 0.32
7 33 0.49
8 9 0.13
9 3 0.04
10 1 0.01
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
CTTCTTT
Found at i:45853613 original size:30 final size:29
Alignment explanation
Indices: 45853577--45853745 Score: 139
Period size: 30 Copynumber: 5.7 Consensus size: 29
45853567 AAACGTAGTA
45853577 AAAGTTTTAGGGCTAAAACT-TAATTTCAAG
1 AAAG-TTTAGGGCTAAAA-TGTAATTTCAAG
* *
45853607 AAAGTTTAGGGGTTAAAATGTAATTTTAAG
1 AAAGTTTA-GGGCTAAAATGTAATTTCAAG
* *
45853637 AATGTTTAGGGGTTAAAATGTAATTT--AG
1 AAAGTTTA-GGGCTAAAATGTAATTTCAAG
* * *
45853665 AAAAGTTTAGGGGTTGAAATGTAATTTTAAG
1 -AAAGTTTA-GGGCTAAAATGTAATTTCAAG
* *
45853696 AAAGTTTAGGGGTTAAAATGTAATTT-TAG
1 AAAGTTTA-GGGCTAAAATGTAATTTCAAG
*
45853725 AAAAGTTTAGGGGTCAAAATG
1 -AAAGTTTAGGGCT-AAAATG
45853746 AAAATTTTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.02
29 35 0.28
30 85 0.69
31 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAGTTTAGGGCTAAAATGTAATTTCAAG
Found at i:45853670 original size:59 final size:60
Alignment explanation
Indices: 45853607--45853745 Score: 244
Period size: 59 Copynumber: 2.3 Consensus size: 60
45853597 TAATTTCAAG
*
45853607 AAAGTTTAGGGGTTAAAATGTAATTTTAAGAATGTTTAGGGGTTAAAATGTAA-TTTAGA
1 AAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGTAATTTTAGA
*
45853666 AAAGTTTAGGGGTTGAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGTAATTTTAGA
1 AAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGTAATTTTAGA
*
45853726 AAAGTTTAGGGGTCAAAATG
1 AAAGTTTAGGGGTTAAAATG
45853746 AAAATTTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 51 0.68
60 24 0.32
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (60 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGTAATTTTAGA
Found at i:45856852 original size:14 final size:14
Alignment explanation
Indices: 45856830--45857097 Score: 100
Period size: 14 Copynumber: 18.8 Consensus size: 14
45856820 TTAATTATCA
*
45856830 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
45856844 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
45856858 ATATGATTTAGAGT
1 TTATGGTTTAGGGT
*
45856872 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
45856887 TACTAT--TTTCA-GGT
1 T--TATGGTTT-AGGGT
45856901 TTATGGATTATA-GGT
1 TTATGG-TT-TAGGGT
* * *
45856916 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
*
45856930 TTAGGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
45856944 TTAAGATTTAAGAGT
1 TTATGGTTT-AGGGT
*
45856959 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
45856973 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
45856988 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
45857002 TTATGGTTTATGAT
1 TTATGGTTTAGGGT
* * *
45857016 CTAAGG-TTGGGGT
1 TTATGGTTTAGGGT
**
45857029 TTAAAGTTTAGGGGT
1 TTATGGTTTA-GGGT
* *
45857044 TTATGGTTTATGTT
1 TTATGGTTTAGGGT
*
45857058 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
* **
45857072 TTAAGGGATAGGGGT
1 TTATGGTTTA-GGGT
*
45857087 TTAGGGTTTAG
1 TTATGGTTTAG
45857098 ATTAATTAGT
Statistics
Matches: 188, Mismatches: 48, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
12 6 0.03
13 10 0.05
14 105 0.56
15 61 0.32
16 2 0.01
17 4 0.02
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45856939 original size:7 final size:7
Alignment explanation
Indices: 45856913--45857097 Score: 54
Period size: 7 Copynumber: 26.0 Consensus size: 7
45856903 ATGGATTATA
45856913 GGTTTAG
1 GGTTTAG
* *
45856920 GGATTAT
1 GGTTTAG
45856927 GGTTTAG
1 GGTTTAG
45856934 GGTTTAG
1 GGTTTAG
*
45856941 GGTTTAA
1 GGTTTAG
*
45856948 GATTTAAG
1 GGTTT-AG
*
45856956 AGTTACTA-
1 GGTT--TAG
* *
45856964 -TTTTAA
1 GGTTTAG
*
45856970 GGTTTAT
1 GGTTTAG
*
45856977 GGATTATG
1 GGTTTA-G
45856985 GGTTTAG
1 GGTTTAG
* *
45856992 GGATTAT
1 GGTTTAG
*
45856999 GGTTTAT
1 GGTTTAG
*
45857006 GGTTTAT
1 GGTTTAG
* * *
45857013 GATCTAA
1 GGTTTAG
*
45857020 GG-TTGG
1 GGTTTAG
*
45857026 GGTTTAA
1 GGTTTAG
*
45857033 AGTTTAGG
1 GGTTTA-G
*
45857041 GGTTTAT
1 GGTTTAG
*
45857048 GGTTTAT
1 GGTTTAG
* *
45857055 GTTTTAT
1 GGTTTAG
*
45857062 GATTTAG
1 GGTTTAG
45857069 GGTTTAAG
1 GGTTT-AG
*
45857077 GG-ATAGG
1 GGTTTA-G
45857084 GGTTTAG
1 GGTTTAG
45857091 GGTTTAG
1 GGTTTAG
45857098 ATTAATTAGT
Statistics
Matches: 130, Mismatches: 37, Indels: 22
0.69 0.20 0.12
Matches are distributed among these distances:
5 2 0.02
6 4 0.03
7 103 0.79
8 19 0.15
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:45856959 original size:72 final size:72
Alignment explanation
Indices: 45856864--45857011 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 72
45856854 GGGTATATGA
* * *
45856864 TTTAGAGTTTAAGGTTTAGGAGTTACTATTTTCAGGTTTATGGATTATAGGTTTAGGGATTATGG
1 TTTAGAGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
45856929 TTTAGGG
66 TTTAGGG
* *
45856936 TTTAGGGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTATGG
1 TTTAGAGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
*
45857001 TTTATGG
66 TTTAGGG
45857008 TTTA
1 TTTA
45857012 TGATCTAAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (72 bp):
TTTAGAGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATTATAGGTTTAGGGATTATGG
TTTAGGG
Found at i:45856990 original size:22 final size:21
Alignment explanation
Indices: 45856965--45857011 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
45856955 GAGTTACTAT
*
45856965 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
45856987 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
45857008 TTTA
1 TTTA
45857012 TGATCTAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:45857052 original size:15 final size:15
Alignment explanation
Indices: 45857024--45857097 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 15
45857014 ATCTAAGGTT
*
45857024 GGGGTTTAAAGTTTA
1 GGGGTTTAAGGTTTA
*
45857039 GGGGTTTATGGTTTA
1 GGGGTTTAAGGTTTA
* * * *
45857054 -TGTTTTATGATTTA
1 GGGGTTTAAGGTTTA
**
45857068 -GGGTTTAAGGGATA
1 GGGGTTTAAGGTTTA
*
45857082 GGGGTTTAGGGTTTA
1 GGGGTTTAAGGTTTA
45857097 G
1 G
45857098 ATTAATTAGT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
14 19 0.43
15 25 0.57
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.43
Consensus pattern (15 bp):
GGGGTTTAAGGTTTA
Found at i:45857822 original size:115 final size:114
Alignment explanation
Indices: 45857609--45858043 Score: 401
Period size: 115 Copynumber: 3.8 Consensus size: 114
45857599 CAAAAATCAT
* * * * * **
45857609 TTTGTTTTAATAAAAATGGCGCCGTTTTATTGGATTTCTTAGTGGTGTTTTTGGTGAAACGCTAC
1 TTTGTTTTAATAAAAACGGCGCCGTTTTATTTGATTTTTTAGTGGCGTTTTTGGTAAAACGCCGC
* **
45857674 AATATGTCGGGCTATAGCGGCGCTATCCTAAAAATGCCGCAAAAAGTTA
66 AATATGTCGGGCTTTAGCGGCGCTATCCTAAAAACACCGCAAAAAGTTA
* * * *
45857723 TTCTGTTTTTATTAAAACGGCGTCTTTTTATTTGATTTTTTAGTGGCGTTTTTGGTAAAACGCCG
1 TT-TGTTTTAATAAAAACGGCGCCGTTTTATTTGATTTTTTAGTGGCGTTTTTGGTAAAACGCCG
* ** * *
45857788 CAACATGTCGGGCTTTAGCGGCGCTA-GGTGAAAAACACCACAAAAGGTTAA
65 CAATATGTCGGGCTTTAGCGGCGCTATCCT-AAAAACACCGCAAAAAGTT-A
* ** * * * *
45857839 TTTGTTTTAATCAAAACGAAGCCGTTTTATTTTATTTTTTAGTGGC-ATTTTCGTCAAAATGCCG
1 TTTGTTTTAATAAAAACGGCGCCGTTTTATTTGATTTTTTAGTGGCGTTTTTGGT-AAAACGCCG
* * * *
45857903 CAATAGGTAGGGCTTTAGCGGCGCTA-CCAAAAAACACCGCAAAATGTTA
65 CAATATGTCGGGCTTTAGCGGCGCTATCCTAAAAACACCGCAAAAAGTTA
* * * * * * ** * **
45857952 TTTTGTTTTAATCAAAATGGCGCCATTTT-TGTAGGTTTTTTAGTGGTGTTTTCAGTTAAACGAT
1 -TTTGTTTTAATAAAAACGGCGCCGTTTTAT-TTGATTTTTTAGTGGCGTTTTTGGTAAAACGCC
* *
45858016 GCAATATGTAGGGATTTAGCGGCGCTAT
64 GCAATATGTCGGGCTTTAGCGGCGCTAT
45858044 GGATAAACGC
Statistics
Matches: 259, Mismatches: 54, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
113 2 0.01
114 91 0.35
115 163 0.63
116 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (114 bp):
TTTGTTTTAATAAAAACGGCGCCGTTTTATTTGATTTTTTAGTGGCGTTTTTGGTAAAACGCCGC
AATATGTCGGGCTTTAGCGGCGCTATCCTAAAAACACCGCAAAAAGTTA
Found at i:45858534 original size:20 final size:20
Alignment explanation
Indices: 45858497--45858535 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45858487 AAAAATGGAT
* *
45858497 ATGGGTGTTCATGGTTGTTC
1 ATGGCTGTTCATCGTTGTTC
*
45858517 ATGGCTGTTCATCTTTGTT
1 ATGGCTGTTCATCGTTGTT
45858536 TCCATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.49
Consensus pattern (20 bp):
ATGGCTGTTCATCGTTGTTC
Found at i:45860218 original size:9 final size:9
Alignment explanation
Indices: 45860204--45860451 Score: 171
Period size: 9 Copynumber: 26.7 Consensus size: 9
45860194 ATCACATCAA
45860204 AACTTACAT
1 AACTTACAT
45860213 AACTTACAT
1 AACTTACAT
*
45860222 AATTTACAT
1 AACTTACAT
45860231 AACTTA-AT
1 AACTTACAT
*
45860239 AACTTTTATAT
1 AAC--TTACAT
* *
45860250 ATCATATCAT
1 AACTTA-CAT
*
45860260 AACTTACTT
1 AACTTACAT
*
45860269 AACTCACAT
1 AACTTACAT
*
45860278 AATTTACAT
1 AACTTACAT
45860287 AACTTA-AT
1 AACTTACAT
* *
45860295 AATTTTTATAT
1 AA--CTTACAT
* *
45860306 ATCATATCAT
1 AACTTA-CAT
45860316 AACTTACAT
1 AACTTACAT
*
45860325 AACTCACAT
1 AACTTACAT
*
45860334 AACTTACAG
1 AACTTACAT
*
45860343 AAATTA-AT
1 AACTTACAT
*
45860351 AACTTATAT
1 AACTTACAT
*
45860360 ATATCATATCAT
1 A-A-CTTA-CAT
*
45860372 AACTTACCT
1 AACTTACAT
*
45860381 AACTCACAT
1 AACTTACAT
45860390 AACTTACAT
1 AACTTACAT
45860399 AACTTA-AT
1 AACTTACAT
*
45860407 AACTTTTATAT
1 AAC--TTACAT
* *
45860418 ATCATATCAT
1 AACTTA-CAT
45860428 AACTTACAT
1 AACTTACAT
45860437 AACTTACAT
1 AACTTACAT
45860446 AACTTA
1 AACTTA
45860452 ATTATACTTG
Statistics
Matches: 185, Mismatches: 38, Indels: 32
0.73 0.15 0.13
Matches are distributed among these distances:
8 20 0.11
9 116 0.63
10 31 0.17
11 15 0.08
12 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.38
Consensus pattern (9 bp):
AACTTACAT
Found at i:45860266 original size:56 final size:56
Alignment explanation
Indices: 45860189--45860451 Score: 418
Period size: 56 Copynumber: 4.7 Consensus size: 56
45860179 CTTACATAAA
* * * *
45860189 TATATATCACATCAAAACTTACATAACTTACATAATTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
* * *
45860245 TATATATCATATCATAACTTACTTAACTCACATAATTTACATAACTTAATAATTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
* * *
45860301 TATATATCATATCATAACTTACATAACTCACATAACTTACAGAAATTAATAACTTA
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
*
45860357 TATATATCATATCATAACTTACCTAACTCACATAACTTACATAACTTAATAACTTT
1 TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
*
45860413 TATATATCATATCATAACTTACATAACTTACATAACTTA
1 TATATATCATATCATAACTTACATAACTCACATAACTTA
45860452 ATTATACTTG
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 190 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.38
Consensus pattern (56 bp):
TATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAATAACTTT
Found at i:45866328 original size:43 final size:43
Alignment explanation
Indices: 45866280--45866422 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
45866270 TGTTAAAACC
* *
45866280 CCGCTAAAGGTCATGTTCTTTATCAGCGTTTGTGACAAAAGCG
1 CCGCTAAAGGTCATGATCTTTATCAGCGTTTGTGATAAAAGCG
** * * * ** *
45866323 CCGCTAAAGAACATGACCTTTAGT-AGCGCTTCTCTTTAAAG-G
1 CCGCTAAAGGTCATGATCTTTA-TCAGCGTTTGTGATAAAAGCG
* *
45866365 CCACTAAAGGTCATGATCTTTAGCAGCGTTTGTGATAAAAGCG
1 CCGCTAAAGGTCATGATCTTTATCAGCGTTTGTGATAAAAGCG
*
45866408 CCGCTAAAAGTCATG
1 CCGCTAAAGGTCATG
45866423 TTTTTTAGCG
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
42 31 0.41
43 43 0.57
44 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
CCGCTAAAGGTCATGATCTTTATCAGCGTTTGTGATAAAAGCG
Found at i:45873089 original size:39 final size:39
Alignment explanation
Indices: 45873045--45873119 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
45873035 AAATTCGATT
*
45873045 TCATGTTGCATGAATCCTTCTCCAATTAATTTGAGTAAC
1 TCATGTTGCATGAATCATTCTCCAATTAATTTGAGTAAC
45873084 TCATGTTGCATGAATCATTCTCCAATTAATTTGAGT
1 TCATGTTGCATGAATCATTCTCCAATTAATTTGAGT
45873120 CGATTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (39 bp):
TCATGTTGCATGAATCATTCTCCAATTAATTTGAGTAAC
Found at i:45874082 original size:21 final size:21
Alignment explanation
Indices: 45874034--45874109 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
45874024 AACTTCAAGG
45874034 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
45874053 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
45874074 ATATTCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
45874095 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
45874110 AAATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 19 0.37
21 33 0.63
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:45874454 original size:3 final size:3
Alignment explanation
Indices: 45874446--45874487 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
45874436 TGTTATTAAG
* *
45874446 TTA TTA TTA TTG TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45874488 CTATATATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:45874596 original size:23 final size:23
Alignment explanation
Indices: 45874570--45874662 Score: 72
Period size: 23 Copynumber: 4.2 Consensus size: 23
45874560 CACATGCACA
*
45874570 TATTATATATATATATATTTTAT
1 TATTATATATATATACATTTTAT
*
45874593 TATTTTATATGCATA-AC-TTTTA-
1 TATTATATAT--ATATACATTTTAT
* *
45874615 TA-TACATATATATACATTTACAT
1 TATTATATATATATACATTT-TAT
*
45874638 T-TTATATACATATACATTTT-T
1 TATTATATATATATACATTTTAT
45874659 TATT
1 TATT
45874663 TCCTAACTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
19 3 0.06
20 2 0.04
21 10 0.19
22 5 0.09
23 30 0.56
24 1 0.02
25 3 0.06
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTATATATATATACATTTTAT
Found at i:45874626 original size:25 final size:27
Alignment explanation
Indices: 45874598--45874651 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
45874588 TTTATTATTT
*
45874598 TATATGCA-TAAC-TTTTATATACATA
1 TATATACATTAACATTTTATATACATA
*
45874623 TATATACATTTACATTTTATATACATA
1 TATATACATTAACATTTTATATACATA
45874650 TA
1 TA
45874652 CATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 3 0.12
27 15 0.60
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (27 bp):
TATATACATTAACATTTTATATACATA
Found at i:45874645 original size:17 final size:17
Alignment explanation
Indices: 45874614--45874657 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45874604 CATAACTTTT
*
45874614 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
45874630 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
45874647 ATATACATTTT
1 ATATACATTTT
45874658 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:45874763 original size:24 final size:24
Alignment explanation
Indices: 45874736--45874785 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
45874726 TATACGTATG
45874736 TTTTCTTATAT-TATTCTTCATAAA
1 TTTTCTTATATATATTCTTC-TAAA
* *
45874760 TTTTTTTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
45874784 TT
1 TT
45874786 AATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTCTTATATATATTCTTCTAAA
Found at i:45874860 original size:30 final size:31
Alignment explanation
Indices: 45874826--45874883 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
45874816 TTTGTTTATA
*
45874826 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
45874856 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
45874884 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:45874876 original size:28 final size:27
Alignment explanation
Indices: 45874823--45874903 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
45874813 TTATTTGTTT
*
45874823 ATATATATATATGTAATTATCTTTTTTATA
1 ATATATATATATGT-A-TAT-ATTTTTATA
* * *
45874853 ATCTATATATATGTATATAATTTTTTTT
1 ATATATATATATGTATAT-ATTTTTATA
* *
45874881 ATATATGTACATGTATATATTTT
1 ATATATATATATGTATATATTTT
45874904 GTACCCTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.56
29 1 0.02
30 13 0.30
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
ATATATATATATGTATATATTTTTATA
Found at i:45880282 original size:49 final size:49
Alignment explanation
Indices: 45880228--45880325 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
45880218 AGCAGATATT
*
45880228 GCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACTAGCCTTGCCTC
1 GCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTC
** *
45880277 GCCTTCCTGCACCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCTC
1 GCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTC
45880326 CCTGGGTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (49 bp):
GCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTGCCTC
Found at i:45880392 original size:137 final size:137
Alignment explanation
Indices: 45880140--45880413 Score: 397
Period size: 137 Copynumber: 2.0 Consensus size: 137
45880130 AACAGATCTT
45880140 GCCTTCCTGCACCGACAGCGAAGCAGAACGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGGA
1 GCCTTCCTGCACCGACAGCGAAGCAGAACGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGGA
* * *
45880205 GCAGGTTAAAAATAGCAGATATTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACTAGCC
66 GCAGGTTAAAAATAGCAAATATTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACC
45880270 TTGCCTC
131 TTGCCTC
* * * * *
45880277 GCCTTCCTGCACCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGTGGA
1 GCCTTCCTGCACCGACAGCGAAGCAGAACGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGGA
* * ** ** *
45880342 GCAGGTTAAAAATAGCAAATCTTGCCTTCCTGTATTGATTGCGGAA-CAGATCGAAGACACCAAC
66 GCAGGTTAAAAATAGCAAATATTGCCTTCCTGCACCGACAGC-AAAGCAGATCGAAGACACCAAC
45880406 CTTGCCTC
130 CTTGCCTC
45880414 CCTGGGTTGT
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 119 0.98
138 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.20
Consensus pattern (137 bp):
GCCTTCCTGCACCGACAGCGAAGCAGAACGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGGA
GCAGGTTAAAAATAGCAAATATTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACCAACC
TTGCCTC
Found at i:45880607 original size:43 final size:43
Alignment explanation
Indices: 45880559--45880697 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 43
45880549 GCACCGACAA
*
45880559 CGAAGCAGATCGAAGACACCAGCTTTGCCTCCCTGGGTTGCAG
1 CGAAGCAGATAGAAGACACCAGCTTTGCCTCCCTGGGTTGCAG
* * * * * * ****
45880602 CGAAGCAGGTTA-AAAATAGCAGATCTTGCCTTCCTGTACCGACAG
1 CGAAGCA-GATAGAAGACACCAGCT-TTGCCTCCCTGGGTTG-CAG
* * *
45880647 CGAAGCAGATAGAAGACACCAACCTTGCCTCTCTGGGTTGCAG
1 CGAAGCAGATAGAAGACACCAGCTTTGCCTCCCTGGGTTGCAG
*
45880690 TGAAGCAG
1 CGAAGCAG
45880698 GTTAAAAATA
Statistics
Matches: 67, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 25 0.37
44 26 0.39
45 16 0.24
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (43 bp):
CGAAGCAGATAGAAGACACCAGCTTTGCCTCCCTGGGTTGCAG
Found at i:45880734 original size:88 final size:88
Alignment explanation
Indices: 45880277--45880734 Score: 648
Period size: 88 Copynumber: 5.2 Consensus size: 88
45880267 GCCTTGCCTC
* * * *
45880277 GCCTTCCTGCACCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGTGGA
1 GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
*
45880342 GCAGGTTAAAAATAGCAAATCTT
66 GCAGGTTAAAAATAGCAGATCTT
* ** ** * *
45880365 GCCTTCCTGTATTGATTGCGGAA-CAGATCGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGG
1 GCCTTCCTGCACCGACAGC-GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGG
45880429 AGCAGGTTAAAAATAGCAGATCTT
65 AGCAGGTTAAAAATAGCAGATCTT
* ** * *
45880453 ACCTTCCTGCACCGACAATGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGG
1 GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
**
45880518 GCAGGTTAAAAATAATAGATCTT
66 GCAGGTTAAAAATAGCAGATCTT
* * *
45880541 GCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGCTTTGCCTCCCTGGGTTGCAGCGAA
1 GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
45880606 GCAGGTTAAAAATAGCAGATCTT
66 GCAGGTTAAAAATAGCAGATCTT
* * * * * *
45880629 GCCTTCCTGTACCGACAGCGAAGCAGATAGAAGACACCAACCTTGCCTCTCTGGGTTGCAGTGAA
1 GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
45880694 GCAGGTTAAAAATAGCAGATCTT
66 GCAGGTTAAAAATAGCAGATCTT
45880717 GCCTTCCTGCACCGACAG
1 GCCTTCCTGCACCGACAG
45880735 TAAAGCAAAT
Statistics
Matches: 328, Mismatches: 40, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 3 0.01
88 322 0.98
89 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.22
Consensus pattern (88 bp):
GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
GCAGGTTAAAAATAGCAGATCTT
Found at i:45880788 original size:88 final size:88
Alignment explanation
Indices: 45880429--45880779 Score: 254
Period size: 88 Copynumber: 4.0 Consensus size: 88
45880419 GTTGTAGCGG
* *** * * *
45880429 AGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAATGAAGCAGATCGAAGACACCAGC
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAAATAGAAGACACCAAC
*** *** * *
45880494 CTTGCCTCCCTAGG-TTGCAGCGG
66 CCAACCTCCCT-GGACAACAGTGA
* ** * * * * *
45880517 GGCAGGTTAAAAATAATAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAGC
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAAATAGAAGACACCAAC
**** **** *
45880582 TTTGCCTCCCTGGGTTGCAGCGA
66 CCAACCTCCCTGGACAACAGTGA
* * *
45880605 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATAGAAGACACCAAC
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAAATAGAAGACACCAAC
*** * ****
45880670 CTTGCCTCTCTGGGTTGCAGTGA
66 CCAACCTCCCTGGACAACAGTGA
* * * *
45880693 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTAAAGCAAATCGATGACCCCAAC
1 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAAATAGAAGACACCAAC
*
45880758 CCAATCTCCCTGGACAACAGTG
66 CCAACCTCCCTGGACAACAGTG
45880780 GAATAGGTTG
Statistics
Matches: 229, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 2 0.01
88 227 0.99
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (88 bp):
AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGCAAATAGAAGACACCAAC
CCAACCTCCCTGGACAACAGTGA
Found at i:45881357 original size:41 final size:42
Alignment explanation
Indices: 45881204--45881359 Score: 124
Period size: 44 Copynumber: 3.7 Consensus size: 42
45881194 TGGCGAATCT
* * * *
45881204 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGGCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA-CCACA-GAT-C
*
45881248 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAACCACAGATC
* * * * *
45881291 TATCTCTCTGAAGTTGAAG-GAGAGTAGA-T-CA-CATCGGGTC
1 TATCTCCCTGAAGTTGCAGTG-GAGTAGATTAAACCA-CAGATC
45881331 TTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 -TATCTCCCTGAAGTTGCAGTGGAGTAGA
45881360 CTCAAGAAAG
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 24 0.25
42 3 0.03
43 24 0.25
44 33 0.35
45 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAACCACAGATC
Found at i:45881798 original size:40 final size:42
Alignment explanation
Indices: 45881753--45881852 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 42
45881743 AATGTTCAAG
45881753 GATATGTAATCTTAGATATGA-TATGCAATCTTAG-ATATGAT
1 GATATGTAATCTTAGATATGATTATGCAATCTTAGAATAT-AT
45881794 -ATATGTAATCTTAGATATGATTTATGCAATCTTAGAATATAT
1 GATATGTAATCTTAGATATGA-TTATGCAATCTTAGAATATAT
*
45881836 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
45881853 GATTTAATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
40 20 0.38
42 15 0.28
43 5 0.09
44 13 0.25
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (42 bp):
GATATGTAATCTTAGATATGATTATGCAATCTTAGAATATAT
Found at i:45881803 original size:21 final size:21
Alignment explanation
Indices: 45881754--45881852 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
45881744 ATGTTCAAGG
45881754 ATATGTAATCTTAGATATG--
1 ATATGTAATCTTAGATATGAT
*
45881773 ATATGCAATCTTAGATATGAT
1 ATATGTAATCTTAGATATGAT
45881794 ATATGTAATCTTAGATATGAT
1 ATATGTAATCTTAGATATGAT
* *
45881815 TTATGCAATCTTAGAATAT-AT
1 ATATGTAATCTTAG-ATATGAT
*
45881836 GATTTTGTAATCTTAGA
1 -A-TATGTAATCTTAGA
45881853 GATTTAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
19 18 0.26
21 34 0.50
22 5 0.07
23 11 0.16
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
ATATGTAATCTTAGATATGAT
Found at i:45882176 original size:3 final size:3
Alignment explanation
Indices: 45882168--45882212 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
45882158 TGTTATTAAG
* * * *
45882168 TTA TTA TTA TTG TTA TTA TTA TCA TCA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45882213 CTATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:45882182 original size:20 final size:20
Alignment explanation
Indices: 45882126--45882185 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
45882116 TTTTTTTTAT
* *
45882126 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
45882148 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
45882168 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
45882186 TTATCATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:45882334 original size:17 final size:17
Alignment explanation
Indices: 45882303--45882346 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45882293 CATAACTTTT
*
45882303 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
45882319 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
45882336 ATATACATTTT
1 ATATACATTTT
45882347 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:45882448 original size:24 final size:24
Alignment explanation
Indices: 45882421--45882470 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
45882411 TATACGTATG
45882421 TTTTCTTATAT-TATTCTTCATAAA
1 TTTTCTTATATATATTCTTC-TAAA
* *
45882445 TTTTTTTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
45882469 TT
1 TT
45882471 AATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTCTTATATATATTCTTCTAAA
Found at i:45882494 original size:23 final size:24
Alignment explanation
Indices: 45882467--45882512 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
45882457 TATTTTTCTA
45882467 AATTAATTA-ATTTTA-ATATATGT
1 AATT-ATTATATTTTATATATATGT
45882490 AATTATTATTATTTTATATATAT
1 AATTATTA-TATTTTATATATAT
45882513 ATATGCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 6 0.30
25 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTATTATATTTTATATATATGT
Found at i:45882514 original size:29 final size:30
Alignment explanation
Indices: 45882482--45882550 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
45882472 ATTAATTTTA
45882482 ATATATGTAATTAT-TATTATTTTAT-A-TAT
1 ATATATGTAATTATCT-TT-TTTTATAACTAT
*
45882511 ATATATGCAATTATCTTTTTTTATAATCTAT
1 ATATATGTAATTATCTTTTTTTATAA-CTAT
45882542 ATATATGTA
1 ATATATGTA
45882551 TATAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 6 0.18
29 16 0.47
30 1 0.03
31 11 0.32
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (30 bp):
ATATATGTAATTATCTTTTTTTATAACTAT
Found at i:45883033 original size:2 final size:2
Alignment explanation
Indices: 45883028--45883072 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
45883018 ATTTTTTTAA
45883028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45883070 AT A
1 AT A
45883073 AAGGAAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45884657 original size:70 final size:70
Alignment explanation
Indices: 45884539--45885460 Score: 680
Period size: 70 Copynumber: 13.2 Consensus size: 70
45884529 ATTAAACTAA
* * * * ** *
45884539 CGAGCCTTTAGATTCCAGCTGGGAGTGTAAGCTCATGCTAACTGTTTTGGAGGCTCTAGTATTGA
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTGA
*
45884604 ACTTG
66 ACCTG
* * * * * * *
45884609 TGAGCCTTTAGATTCTAGCTGGGTGCATAGGCTCGAGCTAACTATTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTGA
* *
45884674 CCCTA
66 ACCTG
* * * * * * * * *
45884679 CGGGGCTTAAGATCCCAGTTGGGAGCATAGGCTCGCCCTAACTATTTTGGAGGTTGC-GGTATTG
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTAGTATTG
* *
45884743 AACATA
65 AACCTG
* * * * *
45884749 CGAGCCTTAAGATTCTAGCTAGGAGCGTAAGCTCGAGCTAATTATTTTGGAGGCTGC-ATTATTG
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTAGTATTG
*
45884813 AACTTG
65 AACCTG
* * * * * * * ** ** * *
45884819 CGAGACTTAAGATTCCAACTTGAAGCGTAAGCTTGCGCTAGTTATTTTATAGGCTGC-AGTGTTA
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTAGTATTG
*
45884883 AACCTA
65 AACCTG
** * * * * * ** * *
45884889 TAAGCCCTAAGATTCTAGATAGGAGCATAGGCCCGCATTAACTATTTTAGAGGCTAT-GATATTG
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAG-TATTG
45884953 AACCTG
65 AACCTG
* * * * * *
45884959 CGAGCCTTAAGATTAC-AGCTAGGAGTGTAGGCTTGCGCTAACTCTTTTGGAGGCTGTGGTATTG
1 CGAGCCTTAAGATT-CTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTG
45885023 AACCTG
65 AACCTG
* * * * * * * *
45885029 TGAACCTTAAGATTCTAGTTGGGAGTGTAAGCTCGCGTTAACTATTTTTGA-G-TTTACGATATT
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTA-G-TATT
*
45885092 GAACTTG
64 GAACCTG
* * * * * * * * *
45885099 CGAGCCTTAAGATTCTAGTTGGGAGCATAGGCTTGCACTAACTGTTTTAGAGGTTGTGGTATTGA
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTGA
*
45885164 ACCTA
66 ACCTG
* ** * *
45885169 CGAACCTTAAGATTAAAGCTGGGAGCGTAGGCTCGCGTTAACTATTTTGGAGGCTGT-GATATTG
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAG-TATTG
45885233 AACCTG
65 AACCTG
** * *
45885239 CGAGCCTTAAGATTAGAGCTGGGAGCGTAGGCTCTCGTTAACTATTTTGGAGG-T-TATGATATT
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTA-G-TATT
45885302 GAACCTG
64 GAACCTG
* * * * * * ***
45885309 CGAGCCTTAAGATTAC-AGTTGGGAGTGTAGACTTGCGCTAACTGTTTTGAAGGCTGGGGTATTG
1 CGAGCCTTAAGATT-CTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTG
45885373 AACCTG
65 AACCTG
* * * *
45885379 CGAGCCTTAAGATTGTAGCTGGGAGCATAAGCTCGCGTTAACTATTTTGGAGGCTGC-AGTATTG
1 CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT-CTAGTATTG
*
45885443 AACCTA
65 AACCTG
*
45885449 CAAGCCTTAAGA
1 CGAGCCTTAAGA
45885461 ATGCCTTGTC
Statistics
Matches: 674, Mismatches: 160, Indels: 36
0.77 0.18 0.04
Matches are distributed among these distances:
68 3 0.00
69 6 0.01
70 657 0.97
71 6 0.01
72 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (70 bp):
CGAGCCTTAAGATTCTAGCTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTCTAGTATTGA
ACCTG
Found at i:45884783 original size:140 final size:140
Alignment explanation
Indices: 45884539--45885460 Score: 756
Period size: 140 Copynumber: 6.6 Consensus size: 140
45884529 ATTAAACTAA
* ** * ** * *
45884539 CGAGCCTTTAGATTCCAGCTGGGAGTGTAAGCTCATGCTAACTGTTTTGGAGGCT-CTAGTATTG
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGC-GGTATTG
* ** * * * * *
45884603 AACTTGTGAGCCTTTAGATTCTAGCTGGGTGCATAGGCTCGAGCTAACTATTTTGGAGGCTGTGG
65 AACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCGAGCTAACTATTTTGGAGGCTGTGA
* *
45884668 TATTGACCCTA
130 TATTGAACCTG
* * * * * *
45884679 CGGGGCTTAAGATCCCAGTTGGGAGCATAGGCTCGCCCTAACTATTTTGGAGGTTGCGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
* * * *
45884744 ACATACGAGCCTTAAGATTCTAGCTAGGAGCGTAAGCTCGAGCTAATTATTTTGGAGGCTG-CAT
66 ACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCGAGCTAACTATTTTGGAGGCTGTGA-
*
45884808 TATTGAACTTG
130 TATTGAACCTG
* * * * * * * ** ** * * *
45884819 CGAGACTTAAGATTCCAACTTGAAGCGTAAGCTTGCGCTAGTTATTTTATAGGCTGCAGTGTTAA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
** * * * * * * * * *
45884884 ACCTATAAGCCCTAAGATTCTAGATAGGAGCATAGGCCCGCA-TTAACTATTTTAGAGGCTATGA
66 ACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCG-AGCTAACTATTTTGGAGGCTGTGA
45884948 TATTGAACCTG
130 TATTGAACCTG
* * ** * * *
45884959 CGAGCCTTAAGATTACAGCTAGGAGTGTAGGCTTGCGCTAACTCTTTTGGAGGCTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
** * * * * * * ** **
45885024 ACCTGTGAACCTTAAGATTCTAGTTGGGAGTGTAAGCTCGCGTTAACTATTTTTGAGTTTACGAT
66 ACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCGAGCTAACTATTTTGGAGGCTGTGAT
*
45885089 ATTGAACTTG
131 ATTGAACCTG
* * * * * * * *
45885099 CGAGCCTTAAGATTCTAGTTGGGAGCATAGGCTTGCACTAACTGTTTTAGAGGTTGTGGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
* ** * * *
45885164 ACCTACGAACCTTAAGATTAAAGCTGGGAGCGTAGGCTCGCGTTAACTATTTTGGAGGCTGTGAT
66 ACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCGAGCTAACTATTTTGGAGGCTGTGAT
45885229 ATTGAACCTG
131 ATTGAACCTG
** * * * * ** *
45885239 CGAGCCTTAAGATTAGAGCTGGGAGCGTAGGCTCTCGTTAACTATTTTGGAGGTTATGATATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
* * * * * * * *
45885304 ACCTGCGAGCCTTAAGATTAC-AGTTGGGAGTGT-AGACTTGCGCTAACTGTTTTGAAGGCTGGG
66 ACCTACGAGCCTTAAGATT-CTAGCTGGGAGCGTAAG-CTCGAGCTAACTATTTTGGAGGCTGTG
*
45885367 GTATTGAACCTG
129 ATATTGAACCTG
** * * *
45885379 CGAGCCTTAAGATTGTAGCTGGGAGCATAAGCTCGCGTTAACTATTTTGGAGGCTGCAGTATTGA
1 CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
*
45885444 ACCTACAAGCCTTAAGA
66 ACCTACGAGCCTTAAGA
45885461 ATGCCTTGTC
Statistics
Matches: 623, Mismatches: 152, Indels: 14
0.79 0.19 0.02
Matches are distributed among these distances:
139 1 0.00
140 619 0.99
141 3 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (140 bp):
CGAGCCTTAAGATTCCAGCTGGGAGCATAGGCTCGCGCTAACTATTTTGGAGGCTGCGGTATTGA
ACCTACGAGCCTTAAGATTCTAGCTGGGAGCGTAAGCTCGAGCTAACTATTTTGGAGGCTGTGAT
ATTGAACCTG
Found at i:45885641 original size:14 final size:14
Alignment explanation
Indices: 45885622--45885651 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45885612 CCTTGAAGAC
*
45885622 TGAGCTCACATGGT
1 TGAGCTCACACGGT
45885636 TGAGCTCACACGGT
1 TGAGCTCACACGGT
45885650 TG
1 TG
45885652 TAATTGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (14 bp):
TGAGCTCACACGGT
Found at i:45891200 original size:29 final size:29
Alignment explanation
Indices: 45891167--45891226 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
45891157 GATATCAGAA
45891167 AAACTAAAATGGATGTTATATTCGACAAG
1 AAACTAAAATGGATGTTATATTCGACAAG
*
45891196 AAACTAAAATGGATGTTTTATTCGACAAG
1 AAACTAAAATGGATGTTATATTCGACAAG
45891225 AA
1 AA
45891227 CTAGGAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (29 bp):
AAACTAAAATGGATGTTATATTCGACAAG
Found at i:45895273 original size:13 final size:13
Alignment explanation
Indices: 45895251--45895291 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45895241 GGACTAAATT
45895251 AAAA-TTTTAGTA
1 AAAATTTTTAGTA
45895263 AAAATTTTTAGTA
1 AAAATTTTTAGTA
*
45895276 AAACCTTTTT-GTA
1 AAA-ATTTTTAGTA
45895289 AAA
1 AAA
45895292 TTGAGAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 17 0.65
14 5 0.19
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (13 bp):
AAAATTTTTAGTA
Found at i:45898373 original size:26 final size:26
Alignment explanation
Indices: 45898310--45898366 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
45898300 ACACACCTTA
*
45898310 GCTCTT-ATGAGCATCCCGATATATG
1 GCTCTTCATGAGCATCCCGATATAAG
*
45898335 GCTCTTCATGAGCTTCCCGAT-TAAAG
1 GCTCTTCATGAGCATCCCGATAT-AAG
45898361 GCTCTT
1 GCTCTT
45898367 TGTGAGCGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (26 bp):
GCTCTTCATGAGCATCCCGATATAAG
Found at i:45898480 original size:25 final size:26
Alignment explanation
Indices: 45898422--45898480 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
45898412 TATCCGGAGC
*
45898422 TCCTGATTAAAGGTTCTTTGTAAGCT
1 TCCTGATTAAAAGTTCTTTGTAAGCT
*
45898448 TCCTGATTAAAAGTT-TTTATGAA-CT
1 TCCTGATTAAAAGTTCTTTGT-AAGCT
45898473 TCCTGATT
1 TCCTGATT
45898481 TTGACTCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (26 bp):
TCCTGATTAAAAGTTCTTTGTAAGCT
Found at i:45901313 original size:205 final size:205
Alignment explanation
Indices: 45900961--45901348 Score: 749
Period size: 205 Copynumber: 1.9 Consensus size: 205
45900951 TTAAACACAA
*
45900961 CACAATAGCACAATACTCATATATATATACTAACCATAGAGAGTTTGAGTTTAGAAACTCACCAG
1 CACAATAGCACAATACTCATATATATATACTAACCATAAAGAGTTTGAGTTTAGAAACTCACCAG
45901026 CAAAATACCTAAAAGCTAGTACTGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACTGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
*
45901091 TTCTCAGTTTAGTAAATCCTCAACCACTTAAGTTGATACATTATTTTCTCCCCAAAATAATGTAT
131 TTCTCAGTTTAGTAAATCCTCAACCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
45901156 ATAGACTAAC
196 ATAGACTAAC
45901166 CACAATAGCACAATACTCATATATATATACTAACCATAAAGAGTTTGAGTTTAGAAACTCACCAG
1 CACAATAGCACAATACTCATATATATATACTAACCATAAAGAGTTTGAGTTTAGAAACTCACCAG
45901231 CAAAATACCTAAAAGCTAGTACTGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
66 CAAAATACCTAAAAGCTAGTACTGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
*
45901296 TTCTCAGTTTAGTAAATCCTCAATCACTTAAGCTGATACATTATTTTCTCCCC
131 TTCTCAGTTTAGTAAATCCTCAACCACTTAAGCTGATACATTATTTTCTCCCC
45901349 TTATGCAGAT
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
205 180 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (205 bp):
CACAATAGCACAATACTCATATATATATACTAACCATAAAGAGTTTGAGTTTAGAAACTCACCAG
CAAAATACCTAAAAGCTAGTACTGATTACACCTGCTTAGACTTTCGTATCACCTGAGCCTCCTCC
TTCTCAGTTTAGTAAATCCTCAACCACTTAAGCTGATACATTATTTTCTCCCCAAAATAATGTAT
ATAGACTAAC
Found at i:45902045 original size:23 final size:24
Alignment explanation
Indices: 45902008--45902054 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
45901998 CATTTCTCAA
* *
45902008 CTCAAAATTTTATC-ATATCAAAG
1 CTCAAAACTTAATCAATATCAAAG
45902031 CTCAAAACTTAATCAAATATCAAA
1 CTCAAAACTTAATC-AATATCAAA
45902055 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (24 bp):
CTCAAAACTTAATCAATATCAAAG
Found at i:45903617 original size:43 final size:44
Alignment explanation
Indices: 45903551--45903667 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
45903541 AGCTCATACA
* *
45903551 ATGCCAACGTCCCAGAC-GTGGTCTTACACGT-AATTACATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAAATCACAAATCG
*
45903594 ATGCC-ACTGTCCCAGACAGGGTCTTACACATAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCACAAATCG
*
45903638 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG
45903668 ATAACACACA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
42 2 0.03
43 25 0.38
44 36 0.55
45 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCACAAATCG
Found at i:45904438 original size:17 final size:17
Alignment explanation
Indices: 45904405--45904438 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45904395 CAAAGCAACG
45904405 ATTACAAAAACGAAAAA
1 ATTACAAAAACGAAAAA
*
45904422 ATTATCAAAAACCAAAA
1 ATTA-CAAAAACGAAAA
45904439 TAAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (17 bp):
ATTACAAAAACGAAAAA
Found at i:45911831 original size:15 final size:15
Alignment explanation
Indices: 45911811--45911844 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45911801 TTTCTATGCC
45911811 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
45911826 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
45911841 ATTG
1 ATTG
45911845 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:45923951 original size:88 final size:88
Alignment explanation
Indices: 45923840--45924012 Score: 240
Period size: 88 Copynumber: 2.0 Consensus size: 88
45923830 GGTGAAACTT
* * * *
45923840 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA-ATAGCAGATCTTGTCTTCCTGTATT
1 CAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTT-AAAGATAGCAGATCTCGCCTTCCTGTACT
* *
45923904 GGCAGTGAAGTAGATCGAAGATAC
65 AGCAGTGAAGCAGATCGAAGATAC
* * * *
45923928 CAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATAGCATATCTCGCCTTTCTGTGCTA
1 CAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATAGCAGATCTCGCCTTCCTGTACTA
45923993 GCAGTGAAGCAGATCGAAGA
66 GCAGTGAAGCAGATCGAAGA
45924013 CATTAGTCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 3 0.04
88 71 0.96
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (88 bp):
CAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATAGCAGATCTCGCCTTCCTGTACTA
GCAGTGAAGCAGATCGAAGATAC
Found at i:45923968 original size:43 final size:43
Alignment explanation
Indices: 45923840--45923969 Score: 109
Period size: 43 Copynumber: 3.0 Consensus size: 43
45923830 GGTGAAACTT
* * *
45923840 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA-ATAG
1 CAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTT-AAAGATAC
* * * *** * * **
45923883 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAC
1 CAG-CCTTGTCTCCCT-AAGCAGCAGTGGAGTAGGTTAAAGATAC
45923928 CAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATA
1 CAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATA
45923970 GCATATCTCG
Statistics
Matches: 62, Mismatches: 22, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
43 22 0.35
44 21 0.34
45 19 0.31
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
CAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATAC
Found at i:45924388 original size:44 final size:44
Alignment explanation
Indices: 45924329--45924489 Score: 174
Period size: 44 Copynumber: 3.8 Consensus size: 44
45924319 GAAGATGGCG
45924329 AATCTTA-CTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CAAT
1 AATCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAC-AT
* * * *
45924373 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCACAT
* * * *
45924417 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT---GCATAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACAT
45924457 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
45924490 CTCAAGAAAG
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.03
40 22 0.23
41 7 0.07
43 7 0.07
44 51 0.53
45 6 0.06
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCACAT
Found at i:45926905 original size:15 final size:15
Alignment explanation
Indices: 45926885--45926918 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45926875 TTTCTATGCC
45926885 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
45926900 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
45926915 ATTG
1 ATTG
45926919 CGATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:45936034 original size:14 final size:15
Alignment explanation
Indices: 45936008--45936040 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45935998 TGCCAAATAG
45936008 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
45936023 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
45936037 GGAA
1 GGAA
45936041 AAGCTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:45936129 original size:1 final size:1
Alignment explanation
Indices: 45936120--45936209 Score: 54
Period size: 1 Copynumber: 90.0 Consensus size: 1
45936110 AATATTTCAT
* * * * * ** * *
45936120 AAAAGAAAAAAAAGAAAAAAAACAAAAAGAAAAGAAAATGAAAAAAAAAATAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
45936185 GGAAAATAAAAGAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
45936210 TGAGAGGCCA
Statistics
Matches: 64, Mismatches: 25, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:45936137 original size:5 final size:5
Alignment explanation
Indices: 45936120--45936206 Score: 69
Period size: 5 Copynumber: 17.8 Consensus size: 5
45936110 AATATTTCAT
*
45936120 AAAAG AAAA- AAAAG AAAA- AAAACA AAAAG AAAAG AAAATG AAAA- AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAA-G AAAAG AAAAG
* *
45936168 AATA- AAAAG AAAA- AAAAGG AAAAT AAAAG AAAAAG AAAA
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG -AAAAG AAAA
45936207 AAATGAGAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
4 22 0.32
5 29 0.42
6 18 0.26
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:45936137 original size:6 final size:6
Alignment explanation
Indices: 45936120--45936207 Score: 67
Period size: 6 Copynumber: 14.7 Consensus size: 6
45936110 AATATTTCAT
* * *
45936120 AAAAGA AAAA-A AAGAAAA AAAACA AAAAG- AAAAGA AAATGA AAAA-A
1 AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
45936166 AAAATA AAAAGA AAAA-A AAGGAAAA TAAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AA--AAGA -AAAAGA AAAAGA AAAA
45936208 AATGAGAGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 16 0.24
6 41 0.60
7 8 0.12
8 1 0.01
9 2 0.03
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:45936166 original size:37 final size:37
Alignment explanation
Indices: 45936125--45936207 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 37
45936115 TTCATAAAAG
45936125 AAAAAAAAGAAAAA-AAACAAAAA-GAAAAGAAAATGAA
1 AAAAAAAAGAAAAAGAAA-AAAAAGGAAAAGAAAA-GAA
* *
45936162 AAAAAAAATAAAAAGAAAAAAAAGGAAAATAAAAGAA
1 AAAAAAAAGAAAAAGAAAAAAAAGGAAAAGAAAAGAA
45936199 AAAGAAAAA
1 AAA-AAAAA
45936208 AATGAGAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
37 24 0.59
38 17 0.41
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.04
Consensus pattern (37 bp):
AAAAAAAAGAAAAAGAAAAAAAAGGAAAAGAAAAGAA
Found at i:45936180 original size:43 final size:42
Alignment explanation
Indices: 45936120--45936209 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 42
45936110 AATATTTCAT
* *
45936120 AAAAGAAAAAAAAGAAAAAAAACAAAAAGAAAAGAAAATGAA
1 AAAAAAAAAAAAAGAAAAAAAACAAAAAGAAAAGAAAAAGAA
** *
45936162 AAAAAAAATAAAAAGAAAAAAAAGGAAAATAAAAGAAAAAGAA
1 AAAAAAAA-AAAAAGAAAAAAAACAAAAAGAAAAGAAAAAGAA
45936205 AAAAA
1 AAAAA
45936210 TGAGAGGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.84, C:0.01, G:0.11, T:0.03
Consensus pattern (42 bp):
AAAAAAAAAAAAAGAAAAAAAACAAAAAGAAAAGAAAAAGAA
Found at i:45937214 original size:46 final size:44
Alignment explanation
Indices: 45937101--45937222 Score: 122
Period size: 46 Copynumber: 2.7 Consensus size: 44
45937091 CATAGCAAAC
* * * * *
45937101 CTTATC-TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
1 CTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAATAACGAAT
**
45937145 CTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAAAATAAGCGAAT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTG-AAATAA-CGAAT
*
45937191 CTTAT-TTCTCTGAAGTTGCAGTGGAACAGATT
1 CTTATCTTC-CTGAAGTTGCAGTGGAGCAGATT
45937223 AAAGCTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
44 26 0.41
45 10 0.16
46 28 0.44
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGAAT
Found at i:45937746 original size:145 final size:145
Alignment explanation
Indices: 45937374--45937735 Score: 431
Period size: 145 Copynumber: 2.5 Consensus size: 145
45937364 GTTGAAGTTA
* ** *
45937374 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAAGCGAATCTTATTTCCCTGAA
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAAACCA-CAAATCTTATTTCCCTGAA
* * *
45937439 GTTGCAGTGGAACAGATTAAAGTTATAAGTCAAAAATCCTATACCCTTGAAATTGCAGTGGGACG
64 GTTGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCCAATACCCTTGAAATTGCAGTAGGACG
* * *
45937504 GATTAAAGTTATCTTGG
129 GATTAAAGTTACCATAG
* * * * * * *
45937521 TAAATCTTATCTCCCTAAAGTTGTAGTAGAGAAGATTAAAACCACAAATCTTATTTCCTTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAACCACAAATCTTATTTCCCTGAAGT
* * ** * *
45937586 TGCAGTGGAACAGATTAGAGCTATAAGTTACTAATCCAATA-CCTCTGAAGTTGCAGTAGGTCGG
66 TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCCAATACCCT-TGAAATTGCAGTAGGACGG
45937650 ATTAAA-TCTACCATAG
130 ATTAAAGT-TACCATAG
* * * *
45937666 CAAGTCTTATCTCTCTGACGTTGTAGTGGAGCAGACTAAAACCACAAATCTCATTTCCCTGAAAT
1 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAACCACAAATCTTATTTCCCTGAAGT
45937731 TGCAG
66 TGCAG
45937736 CGGAGTAGAT
Statistics
Matches: 179, Mismatches: 34, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
144 4 0.02
145 140 0.78
146 5 0.03
147 30 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (145 bp):
CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAACCACAAATCTTATTTCCCTGAAGT
TGCAGTGGAACAGATTAAAGCTATAAGTCAAAAATCCAATACCCTTGAAATTGCAGTAGGACGGA
TTAAAGTTACCATAG
Found at i:45937795 original size:46 final size:45
Alignment explanation
Indices: 45937666--45937795 Score: 113
Period size: 44 Copynumber: 2.9 Consensus size: 45
45937656 TCTACCATAG
* * * * * *
45937666 CAAGTCTTATCTCT-CTGACGTTGTAGTGGAGCAGACTAAAACCA
1 CAAGTCTTATTTCTCCTGAAGTTGTAGCGGATCAGATTGAAACCA
* * * * *
45937710 CAAATCTCATTTC-CCTGAAATTGCAGCGGAGT-AGATTGAAACTA
1 CAAGTCTTATTTCTCCTGAAGTTGTAGCGGA-TCAGATTGAAACCA
*
45937754 CAAGTCTTATTTCTCCTTGAAGTTGTAGGGGATCAGATTGAA
1 CAAGTCTTATTTCTCC-TGAAGTTGTAGCGGATCAGATTGAA
45937796 GCAACACTTC
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
44 42 0.65
45 3 0.05
46 20 0.31
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
CAAGTCTTATTTCTCCTGAAGTTGTAGCGGATCAGATTGAAACCA
Found at i:45940529 original size:32 final size:32
Alignment explanation
Indices: 45940488--45940550 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
45940478 GTTGATTGAT
*
45940488 TAATTGTATAATTCATTTAATTCGACCAATGG
1 TAATTGTATAATTCATTAAATTCGACCAATGG
* *
45940520 TAATTGTATAATTTATTAAATTGGACCAATG
1 TAATTGTATAATTCATTAAATTCGACCAATG
45940551 ATTGTACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (32 bp):
TAATTGTATAATTCATTAAATTCGACCAATGG
Found at i:45941697 original size:13 final size:14
Alignment explanation
Indices: 45941679--45941710 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
45941669 GCACTTGTTC
45941679 AGAATTTTGGTT-A
1 AGAATTTTGGTTAA
45941692 AGAATTTTGGTTAA
1 AGAATTTTGGTTAA
45941706 AGAAT
1 AGAAT
45941711 ATGTTAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (14 bp):
AGAATTTTGGTTAA
Found at i:45944205 original size:20 final size:21
Alignment explanation
Indices: 45944180--45944220 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45944170 TTAGAAAAAT
45944180 ATTATTAT-GTAT-AATTTATA
1 ATTATTATAGT-TGAATTTATA
45944200 ATTATTATAGTTGAATTTATA
1 ATTATTATAGTTGAATTTATA
45944221 GTTTCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
ATTATTATAGTTGAATTTATA
Found at i:45946321 original size:11 final size:10
Alignment explanation
Indices: 45946303--45946354 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
45946293 TTTTTTTAAA
45946303 ATTTAAAAAT
1 ATTTAAAAAT
45946313 ATTTAAAAAT
1 ATTTAAAAAT
*
45946323 A-TTAAAAAA
1 ATTTAAAAAT
* *
45946332 ATATGAAAAT
1 ATTTAAAAAT
*
45946342 A-TAAAAAAT
1 ATTTAAAAAT
45946351 ATTT
1 ATTT
45946355 TTAATATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:45946329 original size:19 final size:19
Alignment explanation
Indices: 45946300--45946354 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
45946290 TAATTTTTTT
45946300 AAAAT-TTAAAAATATTTA
1 AAAATATTAAAAATATTTA
* * *
45946318 AAAATATTAAAAAAATATG
1 AAAATATTAAAAATATTTA
*
45946337 AAAATATAAAAAATATTT
1 AAAATATTAAAAATATTT
45946355 TTAATATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTAAAAATATTTA
Found at i:45953154 original size:30 final size:32
Alignment explanation
Indices: 45953120--45953180 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
45953110 ATTAATTTAA
45953120 AATATCCCAT-AAA-ATCCTAATCAATCCCTT
1 AATATCCCATAAAATATCCTAATCAATCCCTT
*
45953150 AATATCCCATAAAATATTCTAATCAATCCCT
1 AATATCCCATAAAATATCCTAATCAATCCCT
45953181 GAAAATTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 10 0.36
31 3 0.11
32 15 0.54
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (32 bp):
AATATCCCATAAAATATCCTAATCAATCCCTT
Found at i:45963330 original size:3 final size:3
Alignment explanation
Indices: 45963322--45963357 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45963312 TAGTTTAGTC
45963322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45963358 CGTTTGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45964638 original size:19 final size:18
Alignment explanation
Indices: 45964603--45964674 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 18
45964593 TTTGTTTTCC
*
45964603 TTTTTAGTTTTCT-TTTTG
1 TTTTT-GTTTTTTATTTTG
45964621 TTTTTGTTTTTCTATTTTTG
1 TTTTTGTTTTT-TA-TTTTG
45964641 TTTATT-TTTTTTATTTT-
1 TTT-TTGTTTTTTATTTTG
**
45964658 TAATTGTTTTTTATTTT
1 TTTTTGTTTTTTATTTT
45964675 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 2 0.04
17 17 0.37
18 10 0.22
19 2 0.04
20 13 0.28
21 2 0.04
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.81
Consensus pattern (18 bp):
TTTTTGTTTTTTATTTTG
Found at i:45964640 original size:20 final size:19
Alignment explanation
Indices: 45964610--45964658 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
45964600 TCCTTTTTAG
*
45964610 TTTTCTTTTTGTTT-TTGTT
1 TTTTATTTTTGTTTATT-TT
45964629 TTTCTATTTTTGTTTATTTT
1 TTT-TATTTTTGTTTATTTT
45964649 TTTTATTTTT
1 TTTTATTTTT
45964659 AATTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 15 0.56
21 2 0.07
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.84
Consensus pattern (19 bp):
TTTTATTTTTGTTTATTTT
Found at i:45964679 original size:24 final size:23
Alignment explanation
Indices: 45964638--45964682 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
45964628 TTTTCTATTT
45964638 TTGTTTATTTTTTTTATTTTTAA
1 TTGTTTATTTTTTTTATTTTTAA
*
45964661 TTGTTTTTTATTTTTTATTTTT
1 TTGTTTATT-TTTTTTATTTTT
45964683 TAGACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.82
Consensus pattern (23 bp):
TTGTTTATTTTTTTTATTTTTAA
Found at i:45966189 original size:13 final size:13
Alignment explanation
Indices: 45966171--45966203 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45966161 TTAATGTGAG
*
45966171 TTGAGGATTTTTC
1 TTGAGGATTTTGC
45966184 TTGAGGATTTTGC
1 TTGAGGATTTTGC
45966197 TTGAGGA
1 TTGAGGA
45966204 CAAGCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.45
Consensus pattern (13 bp):
TTGAGGATTTTGC
Found at i:45967133 original size:37 final size:37
Alignment explanation
Indices: 45967083--45967156 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
45967073 TAATGCAACG
45967083 ATAGGGGTTTTAATTAGAAAGAGATTTCAACATTTTT
1 ATAGGGGTTTTAATTAGAAAGAGATTTCAACATTTTT
45967120 ATAGGGGTTTTAATTAGAAAGAGATTTCAACATTTTT
1 ATAGGGGTTTTAATTAGAAAGAGATTTCAACATTTTT
45967157 TTACTCTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (37 bp):
ATAGGGGTTTTAATTAGAAAGAGATTTCAACATTTTT
Found at i:45970000 original size:15 final size:16
Alignment explanation
Indices: 45969982--45970017 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45969972 GGGTGAAATT
45969982 TAAAAAA-AAAAACCC
1 TAAAAAATAAAAACCC
*
45969997 TAAAAAATAAAAATCC
1 TAAAAAATAAAAACCC
45970013 TAAAA
1 TAAAA
45970018 TTTTGCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (16 bp):
TAAAAAATAAAAACCC
Found at i:45974520 original size:16 final size:16
Alignment explanation
Indices: 45974499--45974531 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45974489 ATAAGTCGTA
45974499 GGCATGCCTTATTTTT
1 GGCATGCCTTATTTTT
45974515 GGCATGCCTTATTTTT
1 GGCATGCCTTATTTTT
45974531 G
1 G
45974532 AGTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (16 bp):
GGCATGCCTTATTTTT
Found at i:45974715 original size:74 final size:73
Alignment explanation
Indices: 45974577--45974729 Score: 207
Period size: 74 Copynumber: 2.1 Consensus size: 73
45974567 TGTTCTTCAA
* **
45974577 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATATGGCGTGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
*
45974642 CTTCCTTAT
66 -TGCCTTAT
* * * **
45974651 TCTTGAATTTCTTCTGTGAAAAATTGTGTTACTTCTTGATATTCCGTAATAATAAGGCAAGGGCA
1 TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
45974716 TGCCTTAT
66 TGCCTTAT
*
45974724 CCTTGA
1 TCTTGA
45974730 TTCGCCTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
73 12 0.17
74 57 0.83
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (73 bp):
TCTTGAATTTCTTCTATGAAAAATTGGGTTACTTCTTAATATTCCACAATAATAAGGCAAGGGCA
TGCCTTAT
Found at i:45995547 original size:28 final size:28
Alignment explanation
Indices: 45995505--45995589 Score: 138
Period size: 27 Copynumber: 3.1 Consensus size: 28
45995495 CTATTCAGTA
*
45995505 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
45995532 ACAGTAATAATGTGGGCCTTAGCCCAA-
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
45995559 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
45995587 ACA
1 ACA
45995590 ATATCGGTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 31 0.58
28 22 0.42
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:45996081 original size:82 final size:81
Alignment explanation
Indices: 45995949--45996118 Score: 234
Period size: 82 Copynumber: 2.1 Consensus size: 81
45995939 GGGTATAACA
* * *
45995949 GTCATTTTACCCTATGGGGGTATTTCGATCTTTTTACCCTATGAGGGTAATTCAGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCAGTCATTTTACC
45996014 CTATGGGGGTAATTCG
66 CTATGGGGGTAATTCG
* * * **
45996030 GTCATTTTATCCTGTAGGGGGTAATTCGATCATTTTATCCTAT-AGGCGTAATTTGGTCATTTTA
1 GTCATTTTACCCTAT-GGGGGTAATTCGATCATTTTACCCTATGAGG-GTAATTCAGTCATTTTA
*
45996094 CCCTGTGGGGGTAATTCG
64 CCCTATGGGGGTAATTCG
45996112 GTCATTT
1 GTCATTT
45996119 ATTGACCTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 16 0.21
82 62 0.79
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCAGTCATTTTACC
CTATGGGGGTAATTCG
Found at i:45996107 original size:27 final size:27
Alignment explanation
Indices: 45995949--45996118 Score: 205
Period size: 27 Copynumber: 6.3 Consensus size: 27
45995939 GGGTATAACA
*
45995949 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * * *
45995976 ATCTTTTTACCCTATGAGGGTAATTCA
1 GTCATTTTACCCTATGGGGGTAATTCG
*
45996003 GTTATTTTACCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
45996030 GTCATTTTATCCTGTAGGGGGTAATTCG
1 GTCATTTTACCCTAT-GGGGGTAATTCG
* * * * *
45996058 ATCATTTTATCCTATAGGCGTAATTTG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
45996085 GTCATTTTACCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
45996112 GTCATTT
1 GTCATTT
45996119 ATTGACCTCT
Statistics
Matches: 118, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 93 0.79
28 25 0.21
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTAATTCG
Found at i:45998966 original size:16 final size:16
Alignment explanation
Indices: 45998945--45998975 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45998935 TTATAATAAA
45998945 ATTTTTATGTTGAAAC
1 ATTTTTATGTTGAAAC
*
45998961 ATTTTTGTGTTGAAA
1 ATTTTTATGTTGAAA
45998976 AATCAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTTTTATGTTGAAAC
Found at i:46000170 original size:22 final size:22
Alignment explanation
Indices: 46000123--46000167 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
46000113 ATGCAATCTT
*
46000123 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
46000145 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
46000168 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:46000645 original size:3 final size:3
Alignment explanation
Indices: 46000637--46000674 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
46000627 ATCTTGTATC
*
46000637 ATT ATT ATT ACT ATT ATT ATT ATTT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A
46000675 CCACGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:46001768 original size:14 final size:14
Alignment explanation
Indices: 46001749--46001775 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46001739 ATTGACTCCC
46001749 GAATCTATTTTTCT
1 GAATCTATTTTTCT
46001763 GAATCTATTTTTC
1 GAATCTATTTTTC
46001776 CAAGATACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (14 bp):
GAATCTATTTTTCT
Found at i:46002751 original size:44 final size:44
Alignment explanation
Indices: 46002683--46002930 Score: 378
Period size: 44 Copynumber: 5.7 Consensus size: 44
46002673 ATCACAAAGC
* * *
46002683 CCTATCTCCCTGGACAGCAATGGAATAGGCTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
46002727 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
46002771 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
46002815 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGA-T-T-AAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
46002856 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
46002900 CTTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
46002931 AAAAATAGTA
Statistics
Matches: 188, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
41 36 0.19
42 2 0.01
43 2 0.01
44 147 0.78
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:46002918 original size:129 final size:132
Alignment explanation
Indices: 46002683--46002930 Score: 396
Period size: 129 Copynumber: 1.9 Consensus size: 132
46002673 ATCACAAAGC
*
46002683 CCTATCTCCCTGGACAGCAATGGAATAGGCTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTAGACAGCAATGGAATAGGCTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
46002748 GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGA
66 GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGA
46002813 GT
131 GT
* * * *
46002815 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGA-T-T-AATCCTATCTCCCTGGTCAGTAGT
1 CCTATCTCCCTAGACAGCAATGGAATAGGCTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* *
46002877 GGAATAGGTTGAAGATTGTGAATCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
66 GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
46002931 AAAAATAGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
129 73 0.68
130 2 0.02
131 1 0.01
132 32 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (132 bp):
CCTATCTCCCTAGACAGCAATGGAATAGGCTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGA
GT
Found at i:46003255 original size:99 final size:100
Alignment explanation
Indices: 46003152--46003332 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 100
46003142 CCACAACAGT
* ** * *
46003152 GAATCTTACTCCCCTGGTGGTGTAGTGGAACAGATTGAAGCTATGACGGTGAATCTCGTTTCCCC
1 GAATCTTACTCACCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGATGAATCTCGTTTCCCC
46003217 -ACATTACAATTAAAAATATTGAAGCCGCAAAGGC
66 AACATTACAATTAAAAATATTGAAGCCGCAAAGGC
* *
46003251 GAATCTTACTTACCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGATGAATCTTGTTTCCCC
1 GAATCTTACTCACCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGATGAATCTCGTTTCCCC
* *
46003316 AACATTGCAATTTAAAA
66 AACATTACAATTAAAAA
46003333 GACTGAAGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 58 0.81
100 14 0.19
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (100 bp):
GAATCTTACTCACCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGATGAATCTCGTTTCCCC
AACATTACAATTAAAAATATTGAAGCCGCAAAGGC
Found at i:46003402 original size:44 final size:44
Alignment explanation
Indices: 46003347--46003856 Score: 349
Period size: 44 Copynumber: 11.8 Consensus size: 44
46003337 GAAGATGGCA
46003347 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
46003391 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * **
46003435 GATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * * * *
46003479 GATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCACA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * * * * *
46003519 AGTCTTATCTCCCTAAAGTAGTAGGGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * *
46003562 AAGTTTTATC-CTCCTGAAGTTGCAGTGG-GCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAAT
* *
46003607 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATGAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
46003651 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * *
46003695 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CG-CATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
*
46003735 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * *
46003779 AATCCTATCTCCCTGAAATTGCATTGGAG-AGGATTAAAACC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCCAAT
* * *
46003822 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
46003857 CACATCGGGT
Statistics
Matches: 368, Mismatches: 70, Indels: 56
0.74 0.14 0.11
Matches are distributed among these distances:
39 2 0.01
40 39 0.11
41 14 0.04
42 6 0.02
43 27 0.07
44 264 0.72
45 14 0.04
46 1 0.00
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:46003830 original size:216 final size:215
Alignment explanation
Indices: 46003347--46003845 Score: 600
Period size: 216 Copynumber: 2.3 Consensus size: 215
46003337 GAAGATGGCA
* *
46003347 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA-ATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ATAGATCTTATCTCCCTGAAGTT
* * * * * * *
46003411 GCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATC
65 GCAATGGAGCAGATGAAAACCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATC
*
46003476 ACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTAGT
130 ACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTAGC
*
46003541 AGGGGAGCAGACTAAGTAAGC
195 AGGGGAGCAGACTAAGCAAGC
* * * * *
46003562 AAGTTTTATC-CTCCTGAAGTTGCAGTGG-GCAGACT-GAA-GATGGCGAATCTTATCTCCCTGA
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAACCAT--AG-ATCTTATCTCCCTGA
*
46003623 AGTTGCAATGGAGCAGATGAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
61 AGTTGCAATGGAGCAGATGAAAACCACA-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
* * *
46003687 AAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAA
125 AAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAA
* * * *
46003752 GTTGCAGTGGAGCAGATTAAAGCCAA-T
190 GTAGCAGGGGAGCAGACT-AAG-CAAGC
* * * *
46003779 AATCCTATCTCCCTGAAATTGCATTGGAG-AGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAACCATAGATCTTATCTCCCTGAAGTT
46003843 GCA
65 GCA
46003846 GTAGAGTAGA
Statistics
Matches: 237, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
212 2 0.01
214 1 0.00
215 10 0.04
216 207 0.87
217 11 0.05
218 4 0.02
219 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (215 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCTTATCTCCCTGAAGTTG
CAATGGAGCAGATGAAAACCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCA
CAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTAGCA
GGGGAGCAGACTAAGCAAGC
Found at i:46003841 original size:260 final size:259
Alignment explanation
Indices: 46003332--46003847 Score: 670
Period size: 260 Copynumber: 2.0 Consensus size: 259
46003322 GCAATTTAAA
* *
46003332 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATGAAAGCCAATAATCCT
*
46003397 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTGG
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAG
* * * * * *
46003462 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCTAGTCTTAT
131 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTACAGAGAGCAGATCAAACCTAATCCTAT
* * *
46003527 CTCCCTAAAGTAGTAGGGGAGCAGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTGCAGTGGGC
196 CTCCCTAAAGTAGCAGGGGAGCAGACTAAG-AACCAAGTCTTATCCTCCTGAAGTTGCAGTGGGC
*
46003592 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATGAAAGCCAATAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATGAAAGCCAATAATCCT
46003657 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AG
66 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAG
*** * * * *
46003721 AGCAGA-TCGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATC
131 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTACAG-AGAGCAGATCAAA-CC--TAATC
* ** *
46003783 CTATCTCCCTGAAA-TTGCATTGGAG-AGGATTAA-AACCATAGATCTTAT-CTCTCTGAAGTTG
192 CTATCTCCCT-AAAGTAGCAGGGGAGCA-GACTAAGAACCA-AG-TCTTATCCTC-CTGAAGTTG
46003844 CAGT
252 CAGT
46003848 AGAGTAGATC
Statistics
Matches: 223, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
256 20 0.09
257 12 0.05
258 9 0.04
259 12 0.05
260 167 0.75
261 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (259 bp):
AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATGAAAGCCAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAG
AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTACAGAGAGCAGATCAAACCTAATCCTAT
CTCCCTAAAGTAGCAGGGGAGCAGACTAAGAACCAAGTCTTATCCTCCTGAAGTTGCAGTGGGC
Found at i:46004460 original size:19 final size:19
Alignment explanation
Indices: 46004414--46004469 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
46004404 AATCGTCAAG
*
46004414 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
46004433 GATATATGCAATATTAGATAT
1 G--ATATGCAATCTTAGATAT
46004454 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46004470 AGATATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46004495 original size:22 final size:22
Alignment explanation
Indices: 46004414--46004492 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 22
46004404 AATCGTCAAG
* *
46004414 GATATGCAATCTTA-AATATGAT
1 GATATGCAATATTAGAAGAT-AT
46004436 -ATATGCAATATT---AGATAT
1 GATATGCAATATTAGAAGATAT
*
46004454 GATATGCAATCTTAGAAGATAT
1 GATATGCAATATTAGAAGATAT
* *
46004476 GATTTTGTAATATTAGA
1 GA-TATGCAATATTAGA
46004493 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.30
21 11 0.24
22 8 0.17
23 11 0.24
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (22 bp):
GATATGCAATATTAGAAGATAT
Found at i:46004983 original size:13 final size:13
Alignment explanation
Indices: 46004965--46004989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46004955 TCTTGTATCA
46004965 TTATTATTATTAT
1 TTATTATTATTAT
46004978 TTATTATTATTA
1 TTATTATTATTA
46004990 CCATGTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:46005072 original size:33 final size:32
Alignment explanation
Indices: 46005035--46005097 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
46005025 AGCATAAATA
*
46005035 CTTTATAAT-ATATATGTATATATATATTTTTCT
1 CTTTA-AATCATATATAT-TATATATATTTTTCT
*
46005068 CTTTAAATGCATATATATTTTATATATTTT
1 CTTTAAAT-CATATATATTATATATATTTT
46005098 ATTTTCATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
32 3 0.12
33 16 0.62
34 7 0.27
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (32 bp):
CTTTAAATCATATATATTATATATATTTTTCT
Found at i:46007857 original size:241 final size:241
Alignment explanation
Indices: 46007526--46008011 Score: 785
Period size: 241 Copynumber: 2.0 Consensus size: 241
46007516 AATAACATCC
* * * * *
46007526 TTTCCTTGGAAACGATGGTATTTTGTGTGGATGGCATAAGACGACTTTTTAAGAAATGATACCAT
1 TTTCCTTGGAAACGATGGTATTGTGCGTGGATGGCATAAGACGAATTTTCAAGAAATGATACCAG
* *
46007591 ACTTTTCCAATCAGTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCTTGAGTAGAGACAATCCA
66 ACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCTGAGTAGAGACAATCCA
* * *
46007656 TTGTGTGCCCTCGACAC-AAATTCTTCAAAACTTGTGTCAAACCCTCATCTGTGATGTTATAAGC
131 TTGTGTGCCCTCGACACAAAATCCTTCAAAACCTGTGTCAAACCCTCATCTGTGATGATATAAGC
* *
46007720 AAACTCATTGTGTTCATATTATACCTCTCTAAGGCTAAACTGGGTCA
196 AAACTCAGTGTGTCCATATTATACCTCTCTAAGGCTAAACTGGG-CA
*
46007767 TTTCCTTGGAAATGATGGTATTGTGCGTGGATGGCATAAGACGAATTTTCAAGAAATGATACCAG
1 TTTCCTTGGAAACGATGGTATTGTGCGTGGATGGCATAAGACGAATTTTCAAGAAATGATACCAG
*
46007832 ACTTTTCCAATCACTTTCAATGAAGCCCTTTCAATAGTGTAGCATTCCTGAGTAGAGACAATCCA
66 ACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCTGAGTAGAGACAATCCA
*
46007897 TTGTGTGCCCTCGACACATAAATCCTTCAAAACCTGTGTCAAACCCTCATCTGTGATGATATATG
131 TTGTGTGCCCTCGACACA-AAATCCTTCAAAACCTGTGTCAAACCCTCATCTGTGATGATATAAG
* * *
46007962 CAAACTCAGTGTGTCCATCTTGTACCTCTCTTAGGCTAAACTGGGCA
195 CAAACTCAGTGTGTCCATATTATACCTCTCTAAGGCTAAACTGGGCA
46008009 TTT
1 TTT
46008012 ATATAGTCCT
Statistics
Matches: 225, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
241 138 0.61
242 5 0.02
243 82 0.36
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (241 bp):
TTTCCTTGGAAACGATGGTATTGTGCGTGGATGGCATAAGACGAATTTTCAAGAAATGATACCAG
ACTTTTCCAATCACTTTCAATGAAGCCCTTTCAACAGTGTAGCATTCCTGAGTAGAGACAATCCA
TTGTGTGCCCTCGACACAAAATCCTTCAAAACCTGTGTCAAACCCTCATCTGTGATGATATAAGC
AAACTCAGTGTGTCCATATTATACCTCTCTAAGGCTAAACTGGGCA
Found at i:46017216 original size:20 final size:20
Alignment explanation
Indices: 46017163--46017217 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
46017153 TGCACAACTA
* *
46017163 TGCCCCTAAATACACTCCGG
1 TGCCCCTGAATGCACTCCGG
*
46017183 TGCCCTTGAATGCACTCCGG
1 TGCCCCTGAATGCACTCCGG
* *
46017203 TTCCCCTGATTGCAC
1 TGCCCCTGAATGCAC
46017218 ACTCGTGCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.18, T:0.25
Consensus pattern (20 bp):
TGCCCCTGAATGCACTCCGG
Found at i:46017792 original size:12 final size:12
Alignment explanation
Indices: 46017775--46017832 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 12
46017765 TAATATTAGA
46017775 AGGTTAATATAT
1 AGGTTAATATAT
46017787 AGGTTAATATAT
1 AGGTTAATATAT
* *
46017799 ATGTATGTTTATAAAT
1 A-G---GTTAATATAT
46017815 AAGGTTAATATAT
1 -AGGTTAATATAT
46017828 AGGTT
1 AGGTT
46017833 TTATTGTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
12 18 0.49
13 9 0.24
16 9 0.24
17 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (12 bp):
AGGTTAATATAT
Found at i:46027554 original size:20 final size:20
Alignment explanation
Indices: 46027531--46027596 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
46027521 TTGACCACAT
*
46027531 TACTGACAGTTTGTCTGCAA
1 TACTGGCAGTTTGTCTGCAA
** * *
46027551 TACTGGCAACTTGTCTACAC
1 TACTGGCAGTTTGTCTGCAA
* *
46027571 TACTGGCAGTTTATCTGCAT
1 TACTGGCAGTTTGTCTGCAA
46027591 TACTGG
1 TACTGG
46027597 TGGCTCAACC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TACTGGCAGTTTGTCTGCAA
Found at i:46027864 original size:13 final size:13
Alignment explanation
Indices: 46027840--46027878 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
46027830 GTTAAAAGAC
*
46027840 TAATACTGGATTT
1 TAATAATGGATTT
*
46027853 TGATAATGGATTT
1 TAATAATGGATTT
46027866 TAATAATGGATTT
1 TAATAATGGATTT
46027879 ATACACTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (13 bp):
TAATAATGGATTT
Found at i:46034925 original size:12 final size:12
Alignment explanation
Indices: 46034908--46034963 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
46034898 TATTGAGACT
* *
46034908 GAAATGATAATG
1 GAAATGAGAATA
46034920 GAAATGAGAATA
1 GAAATGAGAATA
*
46034932 GAAATGA-AATT
1 GAAATGAGAATA
*
46034943 GATATGAGAA-A
1 GAAATGAGAATA
46034954 GAAAGTGAGA
1 GAAA-TGAGA
46034964 TTGATTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 12 0.33
12 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (12 bp):
GAAATGAGAATA
Found at i:46034949 original size:23 final size:22
Alignment explanation
Indices: 46034908--46034968 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
46034898 TATTGAGACT
* *
46034908 GAAATGATAATGGAAATGAGAATA
1 GAAATGA-AATTGATATGAGAA-A
46034932 GAAATGAAATTGATATGAGAAA
1 GAAATGAAATTGATATGAGAAA
*
46034954 GAAAGTGAGATTGAT
1 GAAA-TGAAATTGAT
46034969 TATCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.15
23 21 0.64
24 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (22 bp):
GAAATGAAATTGATATGAGAAA
Found at i:46035749 original size:14 final size:13
Alignment explanation
Indices: 46035732--46035761 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
46035722 GTGATTGCGC
46035732 ACTTCGGTGCGAGT
1 ACTTCGGTGCGA-T
46035746 ACTTCGGTGCGAT
1 ACTTCGGTGCGAT
46035759 ACT
1 ACT
46035762 GTGATTGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (13 bp):
ACTTCGGTGCGAT
Found at i:46038806 original size:2 final size:2
Alignment explanation
Indices: 46038799--46038835 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
46038789 AAATATACGA
46038799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46038836 GTAGATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46044349 original size:44 final size:46
Alignment explanation
Indices: 46044282--46044374 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
46044272 TTACACCTCT
*
46044282 ATTCCATTCAACCAAACATAAGAA-TACC-ATTACGTC-TCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACG-CATCTATTCC
*
46044326 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATTTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
46044372 ATT
1 ATT
46044375 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.52
45 5 0.11
46 16 0.36
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCC
Done.