Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
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: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 26 of 26
Found at i:4460201 original size:160 final size:157
Alignment explanation
Indices: 4459716--4460416 Score: 498
Period size: 160 Copynumber: 4.5 Consensus size: 157
4459706 CTTAAAAAGA
*
4459716 AAAAAGTGCTACAGAGTTGTGGAC-TT----AAAAAGGTGCCAC-AGAGTTGTGGACTT-AAAAA
1 AAAAAGTGCCACAGAGTTGTGGACTTTAAAGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAAA
* * ** * * * *
4459774 AAAAGTTGCTACGGAGTTGGGGACCT---AAA-AAGA--GTGCCACAGAGTTGTGGACTTAAAA-
65 AAAAGGTGCCACGGAGTTGTAGACTTAAAAAATAAAATGGTGCCACGGAATTGTGGACTTAAAAG
* *
4459832 AAAATGGTGCCACAGAGTTATGGATTTAA
130 AAAAAGGTGCCACAGAGTTATGGATTT-G
* * * *
4459861 AAGGGAAAGGTGCCATAAAGTTGTGGAC-TT-----AAAAGGATGCCACGGAGTCGTGGACTTTA
1 AA---AAA-GTGCCACAGAGTTGTGGACTTTAAAGAAAAAGG-TGCCACGAAGTTGTGGAC-TTA
** * ** * * *
4459920 AAAGAAAAAA-GTGCCACAAAGTTGTGGACTTAAAAGGGT---ATGAT----C-GAGTTATGGAC
60 AAA-AAAAAAGGTGCCACGGAGTTGTAGACTTAAAA-AATAAAATGGTGCCACGGAATTGTGGAC
* *
4459976 ATAAAAAGAAAAAGGTGCCACAGAGTTATGAATTTTG
123 -TTAAAAGAAAAAGGTGCCACAGAGTTATGGA-TTTG
** * * *
4460013 AAAGGGTGCCACAGAGTTGTGAACTTTAAAGAAAAAGGTGTCACAAAGTTGTGGACTTAAAAAGA
1 AAAAAGTGCCACAGAGTTGTGGACTTTAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAA-A
*
4460078 AAAAGGGTGCCACGGAGTTGTAGACTTCAAAAAA-AAAA-GTTGCCACGGAATTGTGGACTTAAA
65 AAAA-GGTGCCACGGAGTTGTAGACTT-AAAAAATAAAATGGTGCCACGGAATTGTGGACTTAAA
* *
4460141 AGGAAAAAGGTGCCACGGAGTTGTGGACTTTG
128 A-GAAAAAGGTGCCACAGAGTTATGGA-TTTG
* ** * * * **
4460173 AAAATGTGCCATGGAGTTATGGACTTTAAAGAAAAAGGTGCCACGGAGTTGTGAACTTTGAAAAA
1 AAAAAGTGCCACAGAGTTGTGGACTTTAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAAA
** * * * *
4460238 AAAGGCACCACAGAGTTGTGGACTTAAAAAATAAAATGGTGCCACGGAGTTGTGAACTTCAAAAG
66 AAAGGTGCCACGGAGTTGTAGACTTAAAAAATAAAATGGTGCCACGGAATTGTGGACTT-AAAAG
4460303 AAAAAGGGTGCCACAGAGTTATGGATTTAAAAAG
130 AAAAA-GGTGCCACAGAGTTATGGATTT-----G
*
4460337 AAAAAAGTGCCACAAAGTTGTGGAC-TT-AA-AAAAAGGTGCCACGAAGTTGTGGACTTAAAAAA
1 -AAAAAGTGCCACAGAGTTGTGGACTTTAAAGAAAAAGGTGCCACGAAGTTGTGGACTT-AAAAA
4460399 AAAAAGGTGCCACGGAGT
64 AAAAAGGTGCCACGGAGT
4460417 CGTGAACTTT
Statistics
Matches: 433, Mismatches: 74, Indels: 80
0.74 0.13 0.14
Matches are distributed among these distances:
145 2 0.00
148 25 0.06
149 36 0.08
150 12 0.03
151 25 0.06
152 41 0.09
153 18 0.04
154 25 0.06
155 7 0.02
156 1 0.00
157 6 0.01
158 22 0.05
159 39 0.09
160 107 0.25
162 25 0.06
163 20 0.05
164 3 0.01
165 19 0.04
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (157 bp):
AAAAAGTGCCACAGAGTTGTGGACTTTAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAAA
AAAGGTGCCACGGAGTTGTAGACTTAAAAAATAAAATGGTGCCACGGAATTGTGGACTTAAAAGA
AAAAGGTGCCACAGAGTTATGGATTTG
Found at i:4460242 original size:192 final size:196
Alignment explanation
Indices: 4460017--4460433 Score: 533
Period size: 192 Copynumber: 2.1 Consensus size: 196
4460007 ATTTTGAAAG
* ***
4460017 GGTGCCACAGAGTTGTGAACTTT-AAAGAAAAAGGTGTCACAAAGTTGTGGACTTAAAAAGA-AA
1 GGTGCCACGGAGTTGTGAACTTTGAAAGAAAAAGGCACCACAAAGTTGTGGACTTAAAAA-ATAA
* * * *
4460080 AAGGGTGCCACGGAGTTGT-AGACTTCAAAA-AAAAAAGTTGCCACGGAATTGTGGACTTAAAAG
65 AAGGGTGCCACGGAGTTGTGA-ACTTCAAAAGAAAAAAGGTGCCACAGAATTATGGACTTAAAAA
* ** ** * * * * *
4460143 GAAAAAGGTGCCACGGAGTTGTGGACTT-TGAAAATGTGCCATGGAGTTATGGACTT-TAAAGAA
129 GAAAAAAGTGCCACAAAGTTGTGGACTTAAAAAAAGGTGCCACGAAGTTATGGACTTAAAAAAAA
4460206 AAA
194 AAA
*
4460209 GGTGCCACGGAGTTGTGAACTTTGAAA-AAAAAGGCACCACAGAGTTGTGGACTTAAAAAATAAA
1 GGTGCCACGGAGTTGTGAACTTTGAAAGAAAAAGGCACCACAAAGTTGTGGACTTAAAAAATAAA
* * * *
4460273 ATGGTGCCACGGAGTTGTGAACTTCAAAAGAAAAAGGGTGCCACAGAGTTATGGATTTAAAAAGA
66 AGGGTGCCACGGAGTTGTGAACTTCAAAAGAAAAAAGGTGCCACAGAATTATGGACTTAAAAAGA
*
4460338 AAAAAGTGCCACAAAGTTGTGGACTTAAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAAAAAA
131 AAAAAGTGCCACAAAGTTGTGGACTTAAAAAAAGGTGCCACGAAGTTATGGACTTAAAAAAAAAA
4460403 A
196 A
*
4460404 GGTGCCACGGAGTCGTGAACTTTGAGAAGA
1 GGTGCCACGGAGTTGTGAACTTTGA-AAGA
4460434 GATGCCACTA
Statistics
Matches: 192, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
191 1 0.01
192 79 0.41
193 55 0.29
194 22 0.11
195 32 0.17
196 2 0.01
197 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.21
Consensus pattern (196 bp):
GGTGCCACGGAGTTGTGAACTTTGAAAGAAAAAGGCACCACAAAGTTGTGGACTTAAAAAATAAA
AGGGTGCCACGGAGTTGTGAACTTCAAAAGAAAAAAGGTGCCACAGAATTATGGACTTAAAAAGA
AAAAAGTGCCACAAAGTTGTGGACTTAAAAAAAGGTGCCACGAAGTTATGGACTTAAAAAAAAAA
A
Found at i:4460450 original size:30 final size:29
Alignment explanation
Indices: 4460416--4460473 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
4460406 TGCCACGGAG
*
4460416 TCGTGAACTTTGAGAAGAGATGCCACTAAT
1 TCGTGAACTTTAAGAAGAG-TGCCACTAAT
*
4460446 TCGTGGACTTTAAGAAGAGTGCCACTAA
1 TCGTGAACTTTAAGAAGAGTGCCACTAA
4460474 GTCATGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (29 bp):
TCGTGAACTTTAAGAAGAGTGCCACTAAT
Found at i:4460481 original size:29 final size:30
Alignment explanation
Indices: 4460422--4460485 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
4460412 GGAGTCGTGA
* * *
4460422 ACTTTGAGAAGAGATGCCACTAATTCGTGG
1 ACTTTAAGAAGAGATGCCACTAAGTCATGG
4460452 ACTTTAAGAAGAG-TGCCACTAAGTCATGG
1 ACTTTAAGAAGAGATGCCACTAAGTCATGG
4460481 ACTTT
1 ACTTT
4460486 TGGAAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (30 bp):
ACTTTAAGAAGAGATGCCACTAAGTCATGG
Found at i:4461500 original size:11 final size:11
Alignment explanation
Indices: 4461482--4461510 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4461472 GTCTCACTAA
4461482 GGTTTTTTTTT
1 GGTTTTTTTTT
4461493 -GTTTTTTTTT
1 GGTTTTTTTTT
4461503 GGTTTTTT
1 GGTTTTTT
4461511 GCTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
GGTTTTTTTTT
Found at i:4471272 original size:16 final size:16
Alignment explanation
Indices: 4471248--4471286 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4471238 GTCCTAAGAT
4471248 ATAAAAAAAAAACAAA
1 ATAAAAAAAAAACAAA
*
4471264 ATAATAAAAAAACAAA
1 ATAAAAAAAAAACAAA
4471280 A-AAAAAA
1 ATAAAAAA
4471287 GGAATAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (16 bp):
ATAAAAAAAAAACAAA
Found at i:4472651 original size:28 final size:28
Alignment explanation
Indices: 4472614--4472786 Score: 97
Period size: 28 Copynumber: 6.2 Consensus size: 28
4472604 CTTCGCATTA
*
4472614 AAGCCTACATTAGTTGGCACATGAATCG
1 AAGCCCACATTAGTTGGCACATGAATCG
*
4472642 AAGCCCACATTA-TCTAGCATC-T-AAGTCG
1 AAGCCCACATTAGT-TGGCA-CATGAA-TCG
** * *
4472670 AAGCCCACACCAGTTGGCAC-TTAAGC-
1 AAGCCCACATTAGTTGGCACATGAATCG
* * * * *
4472696 AAGCCCACACTAGCTGACACACGAGTCG
1 AAGCCCACATTAGTTGGCACATGAATCG
* * * **
4472724 AAGCCCACATTAGTTCGCA-TTCACATTA
1 AAGCCCACATTAGTTGGCACATGA-ATCG
* *
4472752 AAGCCCACATTAGTTAGCATATGAATCG
1 AAGCCCACATTAGTTGGCACATGAATCG
*
4472780 AAACCCA
1 AAGCCCA
4472787 AATAGCTGGT
Statistics
Matches: 107, Mismatches: 29, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
26 17 0.16
27 9 0.08
28 77 0.72
29 4 0.04
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.21
Consensus pattern (28 bp):
AAGCCCACATTAGTTGGCACATGAATCG
Found at i:4472901 original size:50 final size:50
Alignment explanation
Indices: 4472838--4472939 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
4472828 TAAGTAAGCT
4472838 AAACTAGCTGGCATAAAAGTTGAAGCCCACATTAGCTGGCATTCGCATTA
1 AAACTAGCTGGCATAAAAGTTGAAGCCCACATTAGCTGGCATTCGCATTA
*
4472888 AAACTAGCTGGCATAAAAGTTGAAGCCCACATTAGTTGGCATTCGCATTA
1 AAACTAGCTGGCATAAAAGTTGAAGCCCACATTAGCTGGCATTCGCATTA
4472938 AA
1 AA
4472940 GCCCACTTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
AAACTAGCTGGCATAAAAGTTGAAGCCCACATTAGCTGGCATTCGCATTA
Found at i:4472941 original size:28 final size:28
Alignment explanation
Indices: 4472910--4473068 Score: 117
Period size: 28 Copynumber: 5.7 Consensus size: 28
4472900 ATAAAAGTTG
*
4472910 AAGCCCACATTAGTTGGCAT-TCGCA-TTA
1 AAGCCCACATTAGTTGGCATAT-G-AGTCA
* *
4472938 AAGCCCACTTTAATTGGCATATGAGTCA
1 AAGCCCACATTAGTTGGCATATGAGTCA
* * * *
4472966 AAGCCCACACTAGTTGGCACT-TTACTCC
1 AAGCCCACATTAGTTGGCA-TATGAGTCA
* * ** *
4472994 AAGCCCACACTAGCTGGCACCTAAGTCA
1 AAGCCCACATTAGTTGGCATATGAGTCA
* * ** *
4473022 AAGCCCATACTAGTTGGCACCTAAGTCA
1 AAGCCCACATTAGTTGGCATATGAGTCA
4473050 AAGCCCACATTAGTTGGCA
1 AAGCCCACATTAGTTGGCA
4473069 CTTAAGTCAA
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 106 0.97
29 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (28 bp):
AAGCCCACATTAGTTGGCATATGAGTCA
Found at i:4472998 original size:56 final size:56
Alignment explanation
Indices: 4472937--4473079 Score: 169
Period size: 56 Copynumber: 2.6 Consensus size: 56
4472927 CATTCGCATT
* * * * * *
4472937 AAAGCCCACTTTAATTGGCATATGAGTCAAAGCCCACACTAGTTGGCACTTTACTC
1 AAAGCCCACATTAGTTGGCACATAAGTCAAAGCCCACACTAGTTGGCACCTAACTC
* * * * * *
4472993 CAAGCCCACACTAGCTGGCACCTAAGTCAAAGCCCATACTAGTTGGCACCTAAGTC
1 AAAGCCCACATTAGTTGGCACATAAGTCAAAGCCCACACTAGTTGGCACCTAACTC
*
4473049 AAAGCCCACATTAGTTGGCACTTAAGTCAAA
1 AAAGCCCACATTAGTTGGCACATAAGTCAAA
4473080 ATGTACACTA
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (56 bp):
AAAGCCCACATTAGTTGGCACATAAGTCAAAGCCCACACTAGTTGGCACCTAACTC
Found at i:4473069 original size:28 final size:28
Alignment explanation
Indices: 4472961--4473079 Score: 166
Period size: 28 Copynumber: 4.2 Consensus size: 28
4472951 TTGGCATATG
* *
4472961 AGTCAAAGCCCACACTAGTTGGCACTTT
1 AGTCAAAGCCCACACTAGTTGGCACCTA
* * *
4472989 ACTCCAAGCCCACACTAGCTGGCACCTA
1 AGTCAAAGCCCACACTAGTTGGCACCTA
*
4473017 AGTCAAAGCCCATACTAGTTGGCACCTA
1 AGTCAAAGCCCACACTAGTTGGCACCTA
* *
4473045 AGTCAAAGCCCACATTAGTTGGCACTTA
1 AGTCAAAGCCCACACTAGTTGGCACCTA
4473073 AGTCAAA
1 AGTCAAA
4473080 ATGTACACTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (28 bp):
AGTCAAAGCCCACACTAGTTGGCACCTA
Found at i:4473088 original size:84 final size:84
Alignment explanation
Indices: 4472961--4473116 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
4472951 TTGGCATATG
* * * * *
4472961 AGTCAAAGCCCACACTAGTTGGCACTTTACTCCAAGCCCACACTAGCTGGCACCTAAGTCAAAGC
1 AGTCAAAGCCCACACTAGTTGGCACTTAACTCAAAACCCACACTAGCTAGCAACTAAGTCAAAGC
4473026 CCATACTAGTTGGCACCTA
66 CCATACTAGTTGGCACCTA
* * *** * *
4473045 AGTCAAAGCCCACATTAGTTGGCACTTAAGTCAAAATGTACACTAGTTAGCAACTAGGTCAAAGC
1 AGTCAAAGCCCACACTAGTTGGCACTTAACTCAAAACCCACACTAGCTAGCAACTAAGTCAAAGC
*
4473110 CTATACT
66 CCATACT
4473117 GACTAGCACC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 59 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (84 bp):
AGTCAAAGCCCACACTAGTTGGCACTTAACTCAAAACCCACACTAGCTAGCAACTAAGTCAAAGC
CCATACTAGTTGGCACCTA
Found at i:4473090 original size:56 final size:56
Alignment explanation
Indices: 4472961--4473110 Score: 156
Period size: 56 Copynumber: 2.7 Consensus size: 56
4472951 TTGGCATATG
* * * * *
4472961 AGTCAAAGCCCACACTAGTTGGCACTTTACTCCAAGCCCACACTAGCTGGCACCTA
1 AGTCAAAACCCACACTAGTTGGCACCTAAGTCAAAGCCCACACTAGCTGGCACCTA
* * * * *
4473017 AGTCAAAGCCCATACTAGTTGGCACCTAAGTCAAAGCCCACATTAGTTGGCACTTA
1 AGTCAAAACCCACACTAGTTGGCACCTAAGTCAAAGCCCACACTAGCTGGCACCTA
*** * * *
4473073 AGTCAAAATGTACACTAGTTAGCAACTAGGTCAAAGCC
1 AGTCAAAACCCACACTAGTTGGCACCTAAGTCAAAGCC
4473111 TATACTGACT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (56 bp):
AGTCAAAACCCACACTAGTTGGCACCTAAGTCAAAGCCCACACTAGCTGGCACCTA
Found at i:4473091 original size:28 final size:28
Alignment explanation
Indices: 4472961--4473107 Score: 132
Period size: 28 Copynumber: 5.2 Consensus size: 28
4472951 TTGGCATATG
* * *
4472961 AGTCAAAGCCCACACTAGTTGGCACTTT
1 AGTCAAAACCCACACTAGTTGGCACCTA
* * * *
4472989 ACTCCAAGCCCACACTAGCTGGCACCTA
1 AGTCAAAACCCACACTAGTTGGCACCTA
* *
4473017 AGTCAAAGCCCATACTAGTTGGCACCTA
1 AGTCAAAACCCACACTAGTTGGCACCTA
* * *
4473045 AGTCAAAGCCCACATTAGTTGGCACTTA
1 AGTCAAAACCCACACTAGTTGGCACCTA
*** * *
4473073 AGTCAAAATGTACACTAGTTAGCAACTA
1 AGTCAAAACCCACACTAGTTGGCACCTA
*
4473101 GGTCAAA
1 AGTCAAA
4473108 GCCTATACTG
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 98 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (28 bp):
AGTCAAAACCCACACTAGTTGGCACCTA
Found at i:4474042 original size:6 final size:6
Alignment explanation
Indices: 4474031--4474105 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
4474021 TTAAACCAGT
* **
4474031 AAAGAA AAAG-A AAATAA AGGGAAA AAAGAA AAA-AA AAAGGAA AGAAGAA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA AAA-GAA A-AAGAA
* *
4474080 GAAG-G AAAGAA AAA-AA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG
4474106 GGTCGCTTCG
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
5 17 0.33
6 23 0.44
7 10 0.19
8 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:4474063 original size:19 final size:19
Alignment explanation
Indices: 4474035--4474106 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
4474025 ACCAGTAAAG
* *
4474035 AAAAAG-AAAATAAAGGGA
1 AAAAAGAAAAAAAAAAGGA
4474053 AAAAAGAAAAAAAAAAGGA
1 AAAAAGAAAAAAAAAAGGA
* * **
4474072 AAGAAGAAGAAGGAAA-GA
1 AAAAAGAAAAAAAAAAGGA
*
4474090 AAAAA-AAAAGAAAAAGG
1 AAAAAGAAAAAAAAAAGG
4474107 GTCGCTTCGG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 6 0.15
18 13 0.32
19 22 0.54
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAGGA
Found at i:4482174 original size:13 final size:13
Alignment explanation
Indices: 4482156--4482181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4482146 TACACCAAGT
4482156 ATGTATCGATACA
1 ATGTATCGATACA
4482169 ATGTATCGATACA
1 ATGTATCGATACA
4482182 TCAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4488377 original size:13 final size:13
Alignment explanation
Indices: 4488359--4488397 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
4488349 ACATTTTTCT
4488359 TTGTATCAATACA
1 TTGTATCAATACA
*
4488372 TTGTATCGATACA
1 TTGTATCAATACA
*
4488385 CTGTATCAATACA
1 TTGTATCAATACA
4488398 GGGGGATTAT
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:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:4488543 original size:21 final size:20
Alignment explanation
Indices: 4488519--4488565 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
4488509 AAATATTTTG
*
4488519 CAAAATAC-TTGTTTTTCACTT
1 CAAAATACATCGTTTTTCA--T
*
4488540 CAAATTACATCGTTTTTCAT
1 CAAAATACATCGTTTTTCAT
4488560 CAAAAT
1 CAAAAT
4488566 CAGCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACATCGTTTTTCAT
Found at i:4490989 original size:13 final size:13
Alignment explanation
Indices: 4490971--4490996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4490961 TACACCAAGT
4490971 ATGTATCGATACA
1 ATGTATCGATACA
4490984 ATGTATCGATACA
1 ATGTATCGATACA
4490997 TCAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4491082 original size:20 final size:20
Alignment explanation
Indices: 4491052--4491109 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
4491042 CTATATTTTC
4491052 AAATATGTATCGATACATAAA
1 AAAT-TGTATCGATACATAAA
4491073 AAATTGTATCGATACATAAA
1 AAATTGTATCGATACATAAA
4491093 AAATTGTATCGATACAT
1 AAATTGTATCGATACAT
4491110 TCACACGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATTGTATCGATACATAAA
Found at i:4493925 original size:17 final size:17
Alignment explanation
Indices: 4493903--4493937 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4493893 CTTCATTTTT
*
4493903 TCTACATGAATGCAATA
1 TCTACAAGAATGCAATA
4493920 TCTACAAGAATGCAATA
1 TCTACAAGAATGCAATA
4493937 T
1 T
4493938 ATTTTCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (17 bp):
TCTACAAGAATGCAATA
Found at i:4494673 original size:20 final size:20
Alignment explanation
Indices: 4494628--4494683 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
4494618 TGTATCGATA
*
4494628 CATTGTATCAATACAT-GAT
1 CATTGTATCGATACATAGAT
4494647 CATTGTATCGATACATAGA-
1 CATTGTATCGATACATAGAT
4494666 CAATTGTATCGATACATA
1 C-ATTGTATCGATACATA
4494684 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATAGAT
Found at i:4494737 original size:20 final size:20
Alignment explanation
Indices: 4494712--4494750 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4494702 CTACCACTGT
4494712 TTGTATCGATACATGGTATA
1 TTGTATCGATACATGGTATA
*
4494732 TTGTATCGATACATTGTAT
1 TTGTATCGATACATGGTAT
4494751 CGATACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATGGTATA
Found at i:4494747 original size:13 final size:13
Alignment explanation
Indices: 4494731--4494758 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4494721 TACATGGTAT
4494731 ATTGTATCGATAC
1 ATTGTATCGATAC
4494744 ATTGTATCGATAC
1 ATTGTATCGATAC
4494757 AT
1 AT
4494759 GATGAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:4494754 original size:33 final size:33
Alignment explanation
Indices: 4494712--4494780 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4494702 CTACCACTGT
* *
4494712 TTGTATCGATACATGGT-ATATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTATATCGATACA
4494745 TTGTATCGATACATGATGAATTATATCGATACA
1 TTGTATCGATACATGATGAATTATATCGATACA
4494778 TTG
1 TTG
4494781 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTATATCGATACA
Found at i:4496213 original size:13 final size:13
Alignment explanation
Indices: 4496195--4496220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4496185 TACACCAAGT
4496195 ATGTATCGATACA
1 ATGTATCGATACA
4496208 ATGTATCGATACA
1 ATGTATCGATACA
4496221 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4496218 original size:32 final size:33
Alignment explanation
Indices: 4496177--4496240 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4496167 TAGCCAAACT
**
4496177 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
4496209 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
4496241 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:4498472 original size:21 final size:21
Alignment explanation
Indices: 4498439--4498488 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
4498429 TTGCAAGTTG
*
4498439 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4498461 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
4498482 AAATAAA
1 AAATAAA
4498489 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4502413 original size:13 final size:13
Alignment explanation
Indices: 4502395--4502459 Score: 130
Period size: 13 Copynumber: 5.0 Consensus size: 13
4502385 ACATTTTTCT
4502395 TTGTATCGATACA
1 TTGTATCGATACA
4502408 TTGTATCGATACA
1 TTGTATCGATACA
4502421 TTGTATCGATACA
1 TTGTATCGATACA
4502434 TTGTATCGATACA
1 TTGTATCGATACA
4502447 TTGTATCGATACA
1 TTGTATCGATACA
4502460 GGGTGATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4502623 original size:20 final size:20
Alignment explanation
Indices: 4502580--4502625 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4502570 AAATCTTTTG
4502580 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
4502601 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
4502621 CAAAA
1 CAAAA
4502626 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:4505009 original size:13 final size:13
Alignment explanation
Indices: 4504991--4505016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4504981 TACACCAAGT
4504991 ATGTATCGATACA
1 ATGTATCGATACA
4505004 ATGTATCGATACA
1 ATGTATCGATACA
4505017 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4510449 original size:13 final size:13
Alignment explanation
Indices: 4510431--4510457 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4510421 ACAATATTCC
4510431 TTGTATCGATACA
1 TTGTATCGATACA
4510444 TTGTATCGATACA
1 TTGTATCGATACA
4510457 T
1 T
4510458 AGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4512996 original size:19 final size:18
Alignment explanation
Indices: 4512968--4513025 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
4512958 TTGTATCGAT
*
4512968 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
4512986 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
*
4513006 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
4513025 A
1 A
4513026 AACTGGCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:4512999 original size:32 final size:33
Alignment explanation
Indices: 4512942--4513003 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
4512932 ACCCAGATGC
* *
4512942 ATCGATACATTATGCTTTGTATCGATACATTAT
1 ATCGATACATGATGCATTGTATCGATACATTAT
4512975 ATCGATACATGAT-CATTGTATCGATACAT
1 ATCGATACATGATGCATTGTATCGATACAT
4513004 GGACAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (33 bp):
ATCGATACATGATGCATTGTATCGATACATTAT
Found at i:4513014 original size:20 final size:20
Alignment explanation
Indices: 4512969--4513024 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
4512959 TGTATCGATA
*
4512969 CATTATATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
4512988 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
*
4513007 CAATTGTATCAATACATG
1 C-ATTGTATCGATACATG
4513025 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:4513079 original size:20 final size:20
Alignment explanation
Indices: 4513054--4513120 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
4513044 CTACCACTGT
4513054 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
4513074 TTGTATCG----A---TACA
1 TTGTATCGATACATGGTACA
4513087 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
4513107 TTGTATCGATACAT
1 TTGTATCGATACAT
4513121 TGTATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
16 1 0.03
17 1 0.03
20 26 0.65
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGTACA
Found at i:4513088 original size:13 final size:13
Alignment explanation
Indices: 4513070--4513133 Score: 86
Period size: 13 Copynumber: 5.4 Consensus size: 13
4513060 CGATACATGG
4513070 TACATTGTATCGA
1 TACATTGTATCGA
4513083 TACATTGTATCGA
1 TACATTGTATCGA
4513096 TACA-TG----G-
1 TACATTGTATCGA
4513103 TACATTGTATCGA
1 TACATTGTATCGA
4513116 TACATTGTATCGA
1 TACATTGTATCGA
4513129 TACAT
1 TACAT
4513134 GATGAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
12 3 0.07
13 35 0.78
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4513096 original size:33 final size:33
Alignment explanation
Indices: 4513054--4513155 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
4513044 CTACCACTGT
4513054 TTGTATCGATACATGGTACATTGTATCGATACA
1 TTGTATCGATACATGGTACATTGTATCGATACA
4513087 TTGTATCGATACATGGTACATTGTATCGATACA
1 TTGTATCGATACATGGTACATTGTATCGATACA
* *
4513120 TTGTATCGATACATGATGA-ATTTTATCGATACA
1 TTGTATCGATACATGGT-ACATTGTATCGATACA
4513153 TTG
1 TTG
4513156 CTTATAACGG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 65 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGGTACATTGTATCGATACA
Found at i:4514813 original size:34 final size:35
Alignment explanation
Indices: 4514774--4514846 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
4514764 ATTTTCTACA
*
4514774 TTTCAAAGAGCTTTTATATT-CTTTGTTG-TTATTC
1 TTTCAAAGAGCATTTATATTCCTTTG-TGCTTATTC
** *
4514808 TTTCAAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAGAGCATTTATATTCCTTTGTGCTTATTC
4514843 TTTC
1 TTTC
4514847 CGCAAACACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (35 bp):
TTTCAAAGAGCATTTATATTCCTTTGTGCTTATTC
Found at i:4518486 original size:7 final size:7
Alignment explanation
Indices: 4518474--4518501 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4518464 ATTATTGCCC
4518474 ATCAATT
1 ATCAATT
4518481 ATCAATT
1 ATCAATT
4518488 ATCAATT
1 ATCAATT
4518495 ATCAATT
1 ATCAATT
4518502 CAATTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
ATCAATT
Found at i:4520085 original size:2 final size:2
Alignment explanation
Indices: 4520078--4520103 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4520068 AACAAATTTA
4520078 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
4520104 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4520108 original size:2 final size:2
Alignment explanation
Indices: 4520103--4520137 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4520093 TCTCTCTCTC
4520103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4520138 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4525135 original size:22 final size:21
Alignment explanation
Indices: 4525100--4525146 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4525090 ATTTAAATAA
*
4525100 AAATTTTAAATATTTAATATTT
1 AAATTATAAATATTT-ATATTT
* *
4525122 AAATTATAATTATTTTTATTT
1 AAATTATAAATATTTATATTT
4525143 AAAT
1 AAAT
4525147 AACATCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATAAATATTTATATTT
Found at i:4525323 original size:8 final size:9
Alignment explanation
Indices: 4525293--4525323 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4525283 TAAAATTGAA
4525293 TATTTAATG
1 TATTTAATG
4525302 TATTTAATG
1 TATTTAATG
4525311 TATTTAA-G
1 TATTTAATG
4525319 TATTT
1 TATTT
4525324 GATAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (9 bp):
TATTTAATG
Found at i:4528427 original size:11 final size:11
Alignment explanation
Indices: 4528411--4528443 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
4528401 AATCAACGCC
4528411 TCTCTTCCCTT
1 TCTCTTCCCTT
4528422 TCTCTT-CCTT
1 TCTCTTCCCTT
4528432 TC-CTTCCCTT
1 TCTCTTCCCTT
4528442 TC
1 TC
4528444 CTTTTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 12 0.57
11 6 0.29
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (11 bp):
TCTCTTCCCTT
Found at i:4530004 original size:79 final size:79
Alignment explanation
Indices: 4529887--4530650 Score: 712
Period size: 79 Copynumber: 9.7 Consensus size: 79
4529877 GTACCTCATA
* * * * * * * *
4529887 AGAAATAACGGGGTTGGAGTATCCCCAATGGGGGAAAATTGATATTTTGGAAATAAAACCGGGGT
1 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
*
4529952 TAGAGTATCCCCTT
66 TGGAGTATCCCCTT
*
4529966 AGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
1 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
* * *
4530031 TGGAGTATTCTCTC
66 TGGAGTATCCCCTT
* * * *
4530045 GGAAATAACGGGATTGGAGTATCCCCGATTGTG-AAAATTGATGTTTTAGAAATAAAGCCTG-GG
1 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACC-GAGG
4530108 TTGGAGTAT-CCCTT
65 TTGGAGTATCCCCTT
* * *
4530122 CGAAAATAACGGGATTGAAGTATCCCCGATTGTG-AAAATCGATGTTTT-GAAAATAAAACCGAG
1 AG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAG-AAATAAAACCGAG
*
4530185 GTTGAAGTATCCCC-T
64 GTTGGAGTATCCCCTT
* * * * * * * * *
4530200 CGAAAATAATGGGGTTGGAGTATCCCTGATTATGAAAATTTGGTATTTTAAAAATAAAACCGAGG
1 AG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGG
4530265 TTGGAGTAT-CCCTT
65 TTGGAGTATCCCCTT
* * * * * * * * *
4530279 TGAAAACAATGAGGTTGGAGTATTCCCGGTTGTGAAAAATTGGTGTTTT-GAAAATAAAACAG-G
1 AG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAG-AAATAAAACCGAG
*
4530342 GATTGGAGTATCCCCTA
64 G-TTGGAGTATCCCCTT
* * * * * * *
4530359 AAAAATAACAGGGTTTGAGTATCCTCGGTTATGAAAAATCGATGTTTT-GAAA-AAAA-CTAGGT
1 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
4530421 TGGAGTAT-CCCTT
66 TGGAGTATCCCCTT
* * * * * *
4530434 TGAAAATAACGGGGTTGGAGTATCTCCGGTTGTGAAAAATCGGTGTTTTAGAAATAAAACTGGGG
1 AG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGG
* * *
4530499 TTAGAGTATCTCCTC
65 TTGGAGTATCCCCTT
* ** * * *
4530514 AGAAATAACGGGATTGGAGTATCCTTGATTATGGAAAATCGATGTTTTAGAAATAAAATCGAGGT
1 AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
**
4530579 TGGAGTATCTTC-T
66 TGGAGTATCCCCTT
* * * * *
4530592 CGAAAATGACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT-GAAAATAAAA
1 AG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAG-AAATAAAA
4530651 ACATAAATGA
Statistics
Matches: 566, Mismatches: 100, Indels: 38
0.80 0.14 0.05
Matches are distributed among these distances:
75 4 0.01
76 49 0.09
77 16 0.03
78 141 0.25
79 348 0.61
80 8 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGT
TGGAGTATCCCCTT
Found at i:4530449 original size:28 final size:28
Alignment explanation
Indices: 4530404--4530457 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
4530394 AAATCGATGT
*
4530404 TTTGAAAAAAACTAGGTTGGAGTATCCC
1 TTTGAAAAAAACGAGGTTGGAGTATCCC
* *
4530432 TTTGAAAATAACGGGGTTGGAGTATC
1 TTTGAAAAAAACGAGGTTGGAGTATC
4530458 TCCGGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (28 bp):
TTTGAAAAAAACGAGGTTGGAGTATCCC
Found at i:4530615 original size:234 final size:230
Alignment explanation
Indices: 4529889--4530645 Score: 785
Period size: 234 Copynumber: 3.2 Consensus size: 230
4529879 ACCTCATAAG
* * * * * * *
4529889 AAATAACGGGGTTGGAGTATCCCCAATGGGGGAAAATTGATATTTTGGAAATAAAACCGGGGTTA
1 AAATAACGGGGTTGGAGTATCCCCGAT-TGTGAAAATCGATGTTTT-GAAA-AAAACCGAGGTTG
* *
4529954 GAGTATCCCCTT-AGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAA
63 GAGTATCCCCTTGA-AAATAACGGGGTTGGAGTAT-CCCGATTGTGAAAAATCGGTGTTTTAGAA
*
4530018 ATAAAACCGAGGTTGGAGTAT-TCTCTCGGAAATAACGGGATTGGAGTATCCCCGATTGT-GAAA
126 ATAAAACCGAGGTTGGAGTATCTC-CTCAGAAATAACGGGATTGGAGTAT-CCCGATTGTGGAAA
*
4530081 ATTGATGTTTTAGAAATAAAGCCTG-GGTTGGAGTATCCCTTCGA
189 ATTGATGTTTTAGAAATAAA-AC-GAGGTTGGAGTATCCC-TCGA
* * *
4530125 AAATAACGGGATTGAAGTATCCCCGATTGTGAAAATCGATGTTTTGAAAATAAAACCGAGGTTGA
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATCGATGTTTTG-AAA-AAAACCGAGGTTGG
* * * * * * *
4530190 AGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCTGATTATGAAAATTTGGTATTTTAAAAAT
64 AGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCC-GATTGTGAAAAATCGGTGTTTTAGAAAT
** * * * *
4530255 AAAACCGAGGTTGGAGTATC-CCTTTGAAAACAATGAGG-TTGGAGTATTCCCGGTTGTGAAAAA
128 AAAACCGAGGTTGGAGTATCTCCTCAG-AAATAACG-GGATTGGAGTA-TCCCGATTGTGGAAAA
* **
4530318 TTGGTGTTTT-GAAAATAAAAC-AGGGATTGGAGTATCCCCTAAA
190 TTGATGTTTTAG-AAATAAAACGA-GG-TTGGAGTAT-CCCTCGA
* * * * * *
4530361 AAATAACAGGGTTTGAGTATCCTCGGTTATGAAAAATCGATGTTTTGAAAAAAA-CTAGGTTGGA
1 AAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAATCGATGTTTTGAAAAAAACCGAGGTTGGA
* *
4530425 GTATCCCTTTGAAAATAACGGGGTTGGAGTATCTCCGGTTGTGAAAAATCGGTGTTTTAGAAATA
65 GTATCCCCTTGAAAATAACGGGGTTGGAGTATC-CCGATTGTGAAAAATCGGTGTTTTAGAAATA
* * * * * *
4530490 AAACTGGGGTTAGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCCTTGATTATGGAAAATCG
129 AAACCGAGGTTGGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCC-CGATTGTGGAAAATTG
*
4530555 ATGTTTTAGAAATAAAATCGAGGTTGGAGTATCTTCTCGA
193 ATGTTTTAGAAATAAAA-CGAGGTTGGAGTATC-CCTCGA
* * *
4530595 AAATGACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAAA
1 AAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAATCGATGTTTTGAAAA
4530646 TAAAAACATA
Statistics
Matches: 427, Mismatches: 71, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
233 6 0.01
234 176 0.41
235 140 0.33
236 87 0.20
237 18 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (230 bp):
AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATCGATGTTTTGAAAAAAACCGAGGTTGGAG
TATCCCCTTGAAAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAA
ACCGAGGTTGGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCCCGATTGTGGAAAATTGATG
TTTTAGAAATAAAACGAGGTTGGAGTATCCCTCGA
Found at i:4532917 original size:21 final size:21
Alignment explanation
Indices: 4532884--4532924 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4532874 CTAAGTAAAA
4532884 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
4532905 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
4532925 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:4536698 original size:14 final size:13
Alignment explanation
Indices: 4536663--4536703 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 13
4536653 TTTTTTTAGT
4536663 AAAAAGAGAGAAAAG
1 AAAAA-AGA-AAAAG
4536678 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
4536691 AAAGAAAGAAAAA
1 AAA-AAAGAAAAA
4536704 TGTAAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 12 0.48
15 5 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:4536698 original size:21 final size:22
Alignment explanation
Indices: 4536663--4536703 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4536653 TTTTTTTAGT
*
4536663 AAAAAGAGAGAAAAGAAAAAAG
1 AAAAAGAAAGAAAAGAAAAAAG
4536685 AAAAAGAAAG-AAAGAAAAA
1 AAAAAGAAAGAAAAGAAAAA
4536704 TGTAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAGAAAAGAAAAAAG
Found at i:4537382 original size:22 final size:21
Alignment explanation
Indices: 4537354--4537404 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
4537344 TGTTCATGTA
4537354 TTTATATTATGTTTATGTTATT
1 TTTATATTATGTTTATGTTA-T
*
4537376 TTTATATTATTTTTATGTTAT
1 TTTATATTATGTTTATGTTAT
4537397 TTTATATT
1 TTTATATT
4537405 GTAATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTATATTATGTTTATGTTAT
Found at i:4537396 original size:27 final size:28
Alignment explanation
Indices: 4537360--4537416 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
4537350 TGTATTTATA
*
4537360 TTATGTTTATGTTAT-TTTTATATTATTT
1 TTATGTTTATGTTATATTGTA-ATTATTT
*
4537388 TTATG-TTATTTTATATTGTAATTATTT
1 TTATGTTTATGTTATATTGTAATTATTT
4537415 TT
1 TT
4537417 TCATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (28 bp):
TTATGTTTATGTTATATTGTAATTATTT
Found at i:4537435 original size:11 final size:11
Alignment explanation
Indices: 4537352--4537440 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 11
4537342 CATGTTCATG
4537352 TATTTATATTA
1 TATTTATATTA
* *
4537363 TGTTTATGTTA
1 TATTTATATTA
*
4537374 TTTTTATATTA
1 TATTTATATTA
* *
4537385 TTTTTATGTTA
1 TATTTATATTA
*
4537396 T-TTTATATTG
1 TATTTATATTA
*
4537406 TAATTAT-TT-
1 TATTTATATTA
*
4537415 T-TTCATATTA
1 TATTTATATTA
4537425 TATTTATATTA
1 TATTTATATTA
*
4537436 AATTT
1 TATTT
4537441 CAATTTTATT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 11 0.18
11 45 0.73
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (11 bp):
TATTTATATTA
Found at i:4537507 original size:32 final size:33
Alignment explanation
Indices: 4537435--4537507 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
4537425 TATTTATATT
* * *
4537435 AAATTTCAATTTTATTTTATATTTTTATTATAA
1 AAATTTTAATTTTATTTTATAATTTAATTATAA
*
4537468 TAA-TTTAATTTTAATTTTA-AATTTAATTA-AA
1 AAATTTTAATTTT-ATTTTATAATTTAATTATAA
4537499 AAATTTTAA
1 AAATTTTAA
4537508 ATTACAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
31 4 0.12
32 21 0.64
33 8 0.24
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (33 bp):
AAATTTTAATTTTATTTTATAATTTAATTATAA
Found at i:4537510 original size:7 final size:6
Alignment explanation
Indices: 4537436--4537495 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
4537426 ATTTATATTA
* * *
4537436 AATTTC AATTTT -ATTTT ATATTTT TATTAT AATAATTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT A-ATTTT AATTTT AAT--TTT AATTTT AATTTT
*
4537486 AAATTT AATT
1 AATTTT AATT
4537496 AAAAAATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 5 0.12
6 28 0.65
7 5 0.12
8 5 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:4537593 original size:26 final size:27
Alignment explanation
Indices: 4537546--4537600 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
4537536 TTACTTAATA
* *
4537546 TAATTTAATTTAAATTTATATAATTAT
1 TAATTTAATCTAAATTTATATAACTAT
4537573 TAATTTAA-CTAAATATT-TATAACTAT
1 TAATTTAATCTAAAT-TTATATAACTAT
4537599 TA
1 TA
4537601 GCAACCTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATTTAATCTAAATTTATATAACTAT
Found at i:4550348 original size:105 final size:105
Alignment explanation
Indices: 4550166--4550372 Score: 369
Period size: 105 Copynumber: 2.0 Consensus size: 105
4550156 AATTGTGTCT
* *
4550166 GTGTTTGATCATCCAGGGTTGGATCTGAAAGCTCTGATGATGAATCAAGTGTAGCTAGTCCTCAT
1 GTGTTTGATCATCCAGAGTTGGATCTGAAAGATCTGATGATGAATCAAGTGTAGCTAGTCCTCAT
*
4550231 GAACTGACTGAGATTTCACCTTGTCATGATGATCGTGGCC
66 GAACTGAATGAGATTTCACCTTGTCATGATGATCGTGGCC
* *
4550271 GTGTTTGATCATCCAGAGTTTGATCTGAAAGATCTGATGATGAATCAAGTGTAGCTATTCCTCAT
1 GTGTTTGATCATCCAGAGTTGGATCTGAAAGATCTGATGATGAATCAAGTGTAGCTAGTCCTCAT
4550336 GAACTGAATGAGATTTCACCTTGTCATGATGATCGTG
66 GAACTGAATGAGATTTCACCTTGTCATGATGATCGTG
4550373 TTGAAAGTGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (105 bp):
GTGTTTGATCATCCAGAGTTGGATCTGAAAGATCTGATGATGAATCAAGTGTAGCTAGTCCTCAT
GAACTGAATGAGATTTCACCTTGTCATGATGATCGTGGCC
Found at i:4555679 original size:23 final size:23
Alignment explanation
Indices: 4555647--4555698 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4555637 TATAATTATA
* *
4555647 AAATAT-AAAAAAATTAAAATAT
1 AAATATAAAAAAAACTAAAACAT
*
4555669 AAATATAAAAAAAACTAAGACAT
1 AAATATAAAAAAAACTAAAACAT
4555692 AAATATA
1 AAATATA
4555699 TAATTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (23 bp):
AAATATAAAAAAAACTAAAACAT
Found at i:4555890 original size:13 final size:13
Alignment explanation
Indices: 4555872--4555902 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4555862 AGATTAGATA
4555872 AAAATTAAAAATT
1 AAAATTAAAAATT
*
4555885 AAAATTAAATATT
1 AAAATTAAAAATT
4555898 AAAAT
1 AAAAT
4555903 CAACAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:4559196 original size:13 final size:13
Alignment explanation
Indices: 4559178--4559203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4559168 ACATAAGTGT
4559178 TGTATCGATACAA
1 TGTATCGATACAA
4559191 TGTATCGATACAA
1 TGTATCGATACAA
4559204 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4560394 original size:61 final size:61
Alignment explanation
Indices: 4560299--4560425 Score: 254
Period size: 61 Copynumber: 2.1 Consensus size: 61
4560289 CCTCAAAATA
4560299 GATTTTCAAACACCTCCCCAAGTTAAGTTCAAGCTAACCTTAAGCAATGAGGATTAGCATG
1 GATTTTCAAACACCTCCCCAAGTTAAGTTCAAGCTAACCTTAAGCAATGAGGATTAGCATG
4560360 GATTTTCAAACACCTCCCCAAGTTAAGTTCAAGCTAACCTTAAGCAATGAGGATTAGCATG
1 GATTTTCAAACACCTCCCCAAGTTAAGTTCAAGCTAACCTTAAGCAATGAGGATTAGCATG
4560421 GATTT
1 GATTT
4560426 AAGGTTTAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (61 bp):
GATTTTCAAACACCTCCCCAAGTTAAGTTCAAGCTAACCTTAAGCAATGAGGATTAGCATG
Found at i:4560783 original size:220 final size:220
Alignment explanation
Indices: 4560401--4561014 Score: 1219
Period size: 220 Copynumber: 2.8 Consensus size: 220
4560391 AGCTAACCTT
4560401 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
1 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
4560466 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
66 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
4560531 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAGCAATGCATGCTTGTTTGCCTC
131 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAGCAATGCATGCTTGTTTGCCTC
4560596 AAAATAGATTTTCAAACACCTCCTC
196 AAAATAGATTTTCAAACACCTCCTC
4560621 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
1 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
4560686 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
66 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
4560751 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAGCAATGCATGCTTGTTTGCCTC
131 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAGCAATGCATGCTTGTTTGCCTC
4560816 AAAATAGATTTTCAAACACCTCCTC
196 AAAATAGATTTTCAAACACCTCCTC
4560841 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
1 AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
4560906 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
66 GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
*
4560971 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTTAAACCTTGAG
131 CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAG
4561015 TGGTATTGGT
Statistics
Matches: 393, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 393 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (220 bp):
AAGCAATGAGGATTAGCATGGATTTAAGGTTTAATTAAGCAACCATCACTCTTGGGGTAAATTTA
GTTTTCAGGTTTGGAATCATGATTAAGTCCAAGACTCTGATTTTTAAACCAAAATGGCCTTCCAT
CATTCTTAAAATGTTTCTGCCTTAGTTTTGTGTCAAACCTTGAGCAATGCATGCTTGTTTGCCTC
AAAATAGATTTTCAAACACCTCCTC
Found at i:4566080 original size:52 final size:52
Alignment explanation
Indices: 4565880--4566060 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
4565870 CGAAATATGA
* *
4565880 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
4565932 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
4565984 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
4566036 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4566061 AAGATCAGTG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:4566159 original size:19 final size:19
Alignment explanation
Indices: 4566131--4566206 Score: 109
Period size: 19 Copynumber: 4.0 Consensus size: 19
4566121 GCAGTAGCTT
4566131 ACTT-TGTATCGATACAAA
1 ACTTATGTATCGATACAAA
*
4566149 ACTTATGTATCGATACAAC
1 ACTTATGTATCGATACAAA
*
4566168 ACTTATGTATCGATACAAT
1 ACTTATGTATCGATACAAA
*
4566187 ACTTTATGTATCAATACAAA
1 AC-TTATGTATCGATACAAA
4566207 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.08
19 33 0.63
20 15 0.29
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (19 bp):
ACTTATGTATCGATACAAA
Found at i:4577575 original size:17 final size:18
Alignment explanation
Indices: 4577549--4577588 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
4577539 TCCACAAAAA
4577549 AAAAAGACAAAAAGAAAC
1 AAAAAGACAAAAAGAAAC
*
4577567 AAAAA-ACAAAAAGAAAG
1 AAAAAGACAAAAAGAAAC
4577584 AAAAA
1 AAAAA
4577589 CAACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAGACAAAAAGAAAC
Found at i:4578640 original size:37 final size:37
Alignment explanation
Indices: 4578599--4578689 Score: 150
Period size: 37 Copynumber: 2.5 Consensus size: 37
4578589 TGCCACAATC
*
4578599 ATGCATTTGTGACATTCATAACCTTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACCTTTCATTTTCCATG
*
4578636 ATGCATTTGTGACATTCATAACTTTTCATTTTCCATG
1 ATGCATTTGTGACATTCATAACCTTTCATTTTCCATG
4578673 ATGCATTTGT-AC-TTCAT
1 ATGCATTTGTGACATTCAT
4578690 CTTTTCTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
35 5 0.10
36 2 0.04
37 45 0.87
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACCTTTCATTTTCCATG
Found at i:4579143 original size:28 final size:28
Alignment explanation
Indices: 4579049--4579312 Score: 259
Period size: 28 Copynumber: 9.4 Consensus size: 28
4579039 TTCACCTTCA
* * *
4579049 AAAGCCCACAAGTCAATGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
4579077 AAAAGCCCACAAGCCAGTGGCACCCTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCC-TTTC
4579107 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
**
4579135 AAAGCCCACAAGTCAGTGGCAATC-TTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
4579162 AAAAGCCCACAAGTCAGTGGCATCTTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * **
4579191 AAAGCTCACAAGTTAGTGGGACTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
4579219 AAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
4579246 AAAGCCCACAAGGT-AGTGGCAACC-TTC
1 AAAGCCCACAA-GTCAGTGGCACCCTTTC
* **
4579273 AAAAGCACACAAGTTGGT-GCAACCCTTTC
1 -AAAGCCCACAAGTCAGTGGC-ACCCTTTC
4579302 AAAAGCCCACA
1 -AAAGCCCACA
4579313 CAAGTTGGTG
Statistics
Matches: 200, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
27 34 0.17
28 104 0.52
29 58 0.29
30 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTC
Found at i:4579219 original size:84 final size:85
Alignment explanation
Indices: 4579049--4579312 Score: 299
Period size: 84 Copynumber: 3.1 Consensus size: 85
4579039 TTCACCTTCA
* *
4579049 AAAGCCCACAAGTCAATGGC-ATCTTTTCAAAAGCCCACAAGCCAGTGGCACCCTTTTCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAATC--TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCC
4579113 CACAAGTCAGTGGCACCCTTTC
64 CACAAGTCAGTGGCACCCTTTC
* * *
4579135 AAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTTAAAGCTCA
1 AAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCA
* * **
4579199 CAAGTTAGTGGGACTTTTTC
66 CAAGTCAGTGGCACCCTTTC
* * *
4579219 AAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGGT-AGTGGCAACC--TTCAAAAGCA
1 AAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAA-GTCAGTGGCACCCTTTTC-AAAGCC
**
4579280 CACAAGTTGGT-GCAACCCTTTC
64 CACAAGTCAGTGGC-ACCCTTTC
4579302 AAAAGCCCACA
1 -AAAGCCCACA
4579313 CAAGTTGGTG
Statistics
Matches: 155, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
82 3 0.02
83 39 0.25
84 67 0.43
85 24 0.15
86 19 0.12
87 3 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (85 bp):
AAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCA
CAAGTCAGTGGCACCCTTTC
Found at i:4579386 original size:43 final size:43
Alignment explanation
Indices: 4579334--4579614 Score: 148
Period size: 49 Copynumber: 5.9 Consensus size: 43
4579324 CATCTTCTTC
* *
4579334 TAAGTCCAATATCGCTGGTCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
4579377 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
*** * * *
4579426 TAAGTCCAATATTATTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* * *
4579478 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-----GCACCTT
* * *
4579527 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-----GCACCTT
* * *
4579576 TAAGTCCAAAATCACTGGCCTTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
4579615 TCTGTAGCAT
Statistics
Matches: 192, Mismatches: 31, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
43 37 0.19
47 1 0.01
48 1 0.01
49 115 0.60
50 3 0.02
52 32 0.17
57 1 0.01
58 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:4579446 original size:49 final size:49
Alignment explanation
Indices: 4579371--4579614 Score: 299
Period size: 49 Copynumber: 4.9 Consensus size: 49
4579361 AGCATATTGG
*
4579371 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTT
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
* * ** * * *
4579420 CATCTTTAAGTCCAATATTATTGGCCTTGAATCAACATATTGGCGCCTTTGT
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC--T-T
* * * *
4579472 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTAGCACCTT
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
*
4579521 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTT
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
** ** *
4579570 CACCTTTAAGTCCAAAATCACTGGCCTTGAATCAGCATATTGGCA
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
4579615 TCTGTAGCAT
Statistics
Matches: 166, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 125 0.75
50 1 0.01
51 1 0.01
52 39 0.23
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:4579549 original size:101 final size:98
Alignment explanation
Indices: 4579371--4579606 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 98
4579361 AGCATATTGG
* * * *
4579371 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAT
* * * *
4579436 ATTATTGGCCTTGAATCAACATATTGGCGCCTTTGT
66 ATTACTGGCCTTGAATCAACACATTAGCACC--T-T
* *
4579472 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTAGCACCTTCACCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAT
* * *
4579537 GTTGCTGGCCTTGAATCAGCACATTAGCACCTT
66 ATTACTGGCCTTGAATCAACACATTAGCACCTT
** *
4579570 CACCTTTAAGTCCAAAATCACTGGCCTTGAATCAGCA
1 CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
4579607 TATTGGCATC
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 33 0.28
99 1 0.01
101 83 0.71
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (98 bp):
CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAT
ATTACTGGCCTTGAATCAACACATTAGCACCTT
Found at i:4579649 original size:150 final size:151
Alignment explanation
Indices: 4579371--4579774 Score: 447
Period size: 150 Copynumber: 2.6 Consensus size: 151
4579361 AGCATATTGG
4579371 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATT-GCACTTTCATCTTTAAGTCCAAT
* * * * * * ** * *
4579436 ATTATTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTG
65 ATCACTGGCCTTGAATCAGCATATTGGCACCTTAGTCATCTCTAAACCCAATGTCACTAGCCTTG
*
4579501 AATTAGCACATTAGCA-CCT-T
130 AATCAGCACATTAGCATCCTCT
* * *
4579521 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAA
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATT-GCACTTTCATCTTTAAGTCCAAT
*
4579586 ATCACTGGCCTTGAATCAGCATATTGGCATCTGTAG-CAT-TCCTAAACCCAATGTCACTAGCCT
65 ATCACTGGCCTTGAATCAGCATATTGGCACCT-TAGTCATCT-CTAAACCCAATGTCACTAGCCT
* * *
4579649 TGAATCAGTATATTAGCATTCTTCT
128 TGAATCAGCACATTAGCA-TCCTCT
* * * ** * * * *
4579674 CATCTTCAAGTCTAATGTCACTGACCGTGAATCAACACATTGACATTCTTTACATCTTTAAGCCC
1 CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTG-CA--CTTT-CATCTTTAAGTCC
*
4579739 AATATCACTGGTCTTGAATCAGCATATTGGCACCTT
62 AATATCACTGGCCTTGAATCAGCATATTGGCACCTT
4579775 TATCACTCTT
Statistics
Matches: 212, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
149 1 0.00
150 123 0.58
151 2 0.01
152 3 0.01
153 36 0.17
155 4 0.02
156 43 0.20
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (151 bp):
CACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGCACTTTCATCTTTAAGTCCAATA
TCACTGGCCTTGAATCAGCATATTGGCACCTTAGTCATCTCTAAACCCAATGTCACTAGCCTTGA
ATCAGCACATTAGCATCCTCT
Found at i:4580309 original size:19 final size:18
Alignment explanation
Indices: 4580263--4580316 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
4580253 TTTTAACAAT
4580263 TTGTATCGATACAAACTG
1 TTGTATCGATACAAACTG
*
4580281 TAAATGTATCGATACATAAGTG
1 T---TGTATCGATACA-AACTG
4580303 TTGTATCGATACAA
1 TTGTATCGATACAA
4580317 TGTATCGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
21 12 0.39
22 5 0.16
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (18 bp):
TTGTATCGATACAAACTG
Found at i:4580322 original size:13 final size:13
Alignment explanation
Indices: 4580304--4580329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4580294 ACATAAGTGT
4580304 TGTATCGATACAA
1 TGTATCGATACAA
4580317 TGTATCGATACAA
1 TGTATCGATACAA
4580330 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4580394 original size:13 final size:13
Alignment explanation
Indices: 4580376--4580403 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4580366 CATTATTCAA
4580376 TGTATCGATACAT
1 TGTATCGATACAT
4580389 TGTATCGATACAT
1 TGTATCGATACAT
4580402 TG
1 TG
4580404 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4580400 original size:33 final size:33
Alignment explanation
Indices: 4580358--4580421 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
4580348 CAAGGAAATA
4580358 TATCGATACATT-ATTCAATGTATCGATACATTG
1 TATCGATACATTGA-TCAATGTATCGATACATTG
**
4580391 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
4580422 CTGGGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTG
Found at i:4582156 original size:121 final size:121
Alignment explanation
Indices: 4581942--4582187 Score: 465
Period size: 121 Copynumber: 2.0 Consensus size: 121
4581932 CATAAATTGT
*
4581942 GTCAAAATATCTTTCCAACGGTGTCTTATTTGCCCCCGGACCAGTCCGGATAAGGGAGTTATGAT
1 GTCAAAATATCTTTCCAACGGTGTCTTATTTGCCCCCAGACCAGTCCGGATAAGGGAGTTATGAT
* *
4582007 TTTTCGAACCCAAGCTGTCTAGAACCCCTGGAATCAGCAAAATGCATTCTGTTTGG
66 TTTTCGAACCCAAGCTGTCTAGAACCCCTAGAATCAGCAAAATGCATTCTATTTGG
4582063 GTCAAAATATCTTTCCAACGGTGTCTTATTTGCCCCCAGACCAGTCCGGATAAGGGAGTTATGAT
1 GTCAAAATATCTTTCCAACGGTGTCTTATTTGCCCCCAGACCAGTCCGGATAAGGGAGTTATGAT
4582128 TTTTCGAACCCAAGCTGTCTAGAACCCCTAGAATCAGCAAAATGCATTCTATTTGG
66 TTTTCGAACCCAAGCTGTCTAGAACCCCTAGAATCAGCAAAATGCATTCTATTTGG
4582184 GTCA
1 GTCA
4582188 CTCAGGCCTA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (121 bp):
GTCAAAATATCTTTCCAACGGTGTCTTATTTGCCCCCAGACCAGTCCGGATAAGGGAGTTATGAT
TTTTCGAACCCAAGCTGTCTAGAACCCCTAGAATCAGCAAAATGCATTCTATTTGG
Found at i:4583022 original size:31 final size:31
Alignment explanation
Indices: 4582980--4583058 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
4582970 TGAATAGTAC
* * *
4582980 ATGTATTGATACATTCTT-TTTTTTTACCGAA
1 ATGTATCGATACATT-TTGTTGTTTTACCCAA
*
4583011 ATGTATCGATACATTTTGTTGTTTTACCCAT
1 ATGTATCGATACATTTTGTTGTTTTACCCAA
*
4583042 ATATATCGATACATTTT
1 ATGTATCGATACATTTT
4583059 CAATGTATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (31 bp):
ATGTATCGATACATTTTGTTGTTTTACCCAA
Found at i:4583069 original size:50 final size:51
Alignment explanation
Indices: 4583008--4583125 Score: 166
Period size: 50 Copynumber: 2.3 Consensus size: 51
4582998 TTTTTTTACC
* * *
4583008 GAAATGTATCGATACATTTTGTTGTTTTACCCATATATATCGATACATT-T
1 GAAATGTATCGATACATTCTGTTGTTTTACCCAGATATATCGATACATTGA
** * *
4583058 TCAATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTGA
1 GAAATGTATCGATACATTCTGTTGTTTTACCCAGATATATCGATACATTGA
4583109 GAAATGTATCGATACAT
1 GAAATGTATCGATACAT
4583126 CTAGTTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 43 0.74
51 15 0.26
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (51 bp):
GAAATGTATCGATACATTCTGTTGTTTTACCCAGATATATCGATACATTGA
Found at i:4584055 original size:20 final size:20
Alignment explanation
Indices: 4584017--4584056 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4584007 TAGCCTTTGA
*
4584017 TCATGCATTTTCACTATGTC
1 TCATGCATTTTAACTATGTC
4584037 TCATGCATTTTTAAC-ATGTC
1 TCATGCA-TTTTAACTATGTC
4584057 CGGCATCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
TCATGCATTTTAACTATGTC
Found at i:4585267 original size:28 final size:28
Alignment explanation
Indices: 4585227--4585298 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
4585217 GGAATAAAGC
*
4585227 CGGGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
4585255 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
4585283 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
4585299 TCGACTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 33 0.85
29 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:4585290 original size:107 final size:108
Alignment explanation
Indices: 4585148--4585352 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 108
4585138 AAAAAAAAAT
* * *
4585148 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAATAT
* * *
4585212 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
* * * ***
4585255 CGGGGTTGGAGTAT-CCCT-GATGAAATAACGAGGTTGGAGTATCCTCGACTATGAAAAATTGGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAAT
*
4585318 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
4585353 GATTAAAGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 2 0.02
106 4 0.05
107 47 0.57
108 29 0.35
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
Found at i:4585496 original size:51 final size:51
Alignment explanation
Indices: 4585286--4585671 Score: 271
Period size: 52 Copynumber: 7.4 Consensus size: 51
4585276 GAAATAACGA
* * *
4585286 GGTTGGAGTATCCTCGACTATGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAATCGG
* * * * * *
4585338 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGG
* * * * * *
4585390 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAATCGG
* * * *
4585442 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
** **** * *
4585493 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTATTTTGGA-AATAAAATCGG
* * *
4585548 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT--AGTATTTTGGAAATAAAATCGG
* * *
4585602 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTATTTTGGAAATAAAATCGG
* *
4585653 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
4585672 GTAGAGAATT
Statistics
Matches: 261, Mismatches: 55, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 74 0.28
52 95 0.36
53 28 0.11
54 24 0.09
55 17 0.07
56 7 0.03
57 2 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
Found at i:4585504 original size:263 final size:263
Alignment explanation
Indices: 4585176--4585673 Score: 802
Period size: 263 Copynumber: 1.9 Consensus size: 263
4585166 TCGAAAATAA
* * *
4585176 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
* * *
4585241 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGACTA
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTA
*
4585306 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
130 TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATTA
* *
4585369 GTGTTTTGAAAATAAAATCGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
194 GTGTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
4585434 AAAAC
259 AAAAC
* *
4585439 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
* * * *
4585504 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTAT
* *
4585569 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
*
4585634 GTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGT
196 GTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGATTGT
4585674 AGAGAATTGA
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
262 27 0.13
263 148 0.69
264 40 0.19
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTAT
GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:4585553 original size:27 final size:28
Alignment explanation
Indices: 4585492--4585565 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
4585482 AATAAAGTCA
***
4585492 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
*
4585520 GGGTTGGAGTATCCCCGATG-ATTAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
4585547 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
4585566 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:4588057 original size:13 final size:13
Alignment explanation
Indices: 4588039--4588064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4588029 ACAAAGATCC
4588039 ATGTATCGATACA
1 ATGTATCGATACA
4588052 ATGTATCGATACA
1 ATGTATCGATACA
4588065 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4588060 original size:33 final size:33
Alignment explanation
Indices: 4588018--4588084 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4588008 AAAATTTCCA
***
4588018 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4588051 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4588084 A
1 A
4588085 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4588128 original size:19 final size:18
Alignment explanation
Indices: 4588104--4588173 Score: 87
Period size: 19 Copynumber: 4.1 Consensus size: 18
4588094 CAGTAGCTAA
4588104 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4588123 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4588138 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4588155 TTATGTATCGATACAAAC
1 TTATGTATCGATACAAAC
4588173 T
1 T
4588174 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 6 0.13
19 25 0.56
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4588144 original size:13 final size:13
Alignment explanation
Indices: 4588126--4588150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4588116 ACAATACTTA
4588126 TGTATCGATACAT
1 TGTATCGATACAT
4588139 TGTATCGATACA
1 TGTATCGATACA
4588151 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4588148 original size:32 final size:32
Alignment explanation
Indices: 4588107--4588169 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4588097 TAGCTAATTA
*
4588107 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4588139 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4588170 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4595333 original size:15 final size:15
Alignment explanation
Indices: 4595313--4595357 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4595303 ATTTCGCCAA
4595313 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
4595328 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
4595343 ACCCACCACAAAATC
1 ATCCACCACAAAATC
4595358 GTTGATACAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:4602685 original size:28 final size:28
Alignment explanation
Indices: 4602645--4603022 Score: 420
Period size: 28 Copynumber: 13.4 Consensus size: 28
4602635 ACGACCTTTT
* **
4602645 TCAAAACCCACAAGTCAACGGCACCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* *
4602673 TCAAAGCCTACAACTCAGTGGCACCCATT-
1 TCAAAGCCCACAAGTCAGTGGCA-CC-TTC
* * *
4602702 TCAAAGCCCACAAGTTAATGGAACCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
4602730 TCAAAGCCCACAAGTCAGTGGCACCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* * *
4602758 TTAAGGCCCACAAGTTAGTGGCACCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* *
4602786 TCAAAGCCCACAAGTTAGTGGCATCCTTT
1 TCAAAGCCCACAAGTCAGTGGCA-CCTTC
* *
4602815 TCAAAGCCCACAAGTCAATGGCACCTTT
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* * *
4602843 TCAAAGCCCACAGGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* *
4602871 TCAAAGCCCACAAGTTAGTGGCATCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* * *
4602899 TTAAAGCCCATAAGTCAATGGCACCTTC
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
*
4602927 TCAAAGCCCACAAGTTAGTGGCATCCTT-
1 TCAAAGCCCACAAGTCAGTGGCA-CCTTC
* * *
4602955 TCAAACCCCACAAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCACCTTC
* * *
4602983 TCAAAGTCCACAAGTCAATAGCATCCTT-
1 TCAAAGCCCACAAGTCAGTGGCA-CCTTC
4603011 TCAAAGCCCACA
1 TCAAAGCCCACA
4603023 CAAATCGGTG
Statistics
Matches: 298, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.02
28 239 0.80
29 52 0.17
30 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (28 bp):
TCAAAGCCCACAAGTCAGTGGCACCTTC
Found at i:4602849 original size:113 final size:112
Alignment explanation
Indices: 4602642--4603022 Score: 471
Period size: 113 Copynumber: 3.4 Consensus size: 112
4602632 AATACGACCT
* * ** * * *
4602642 TTTTCAAAACCCACAAGTCAACGGCACCTTCTCAAAGCCTACAACTCAGTGGCACCCATTTCAAA
1 TTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAA
* * *
4602707 GCCCACAAGTTAATGGAACCTTCTCAAAGCCCACAAGTCAGTGGCACC
65 GCCCACAAGTTAATGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
4602755 TTCTT-AAGGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTTCAA
1 TT-TTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* *
4602819 AGCCCACAAGTCAATGGCACCTTTTCAAAGCCCACAGGTCAGTGGCATC
64 AGCCCACAAGTTAATGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * *
4602868 TTTTCAAAGCCCACAAGTTAGTGGCATCTTCTTAAAGCCCATAAGTCAATGGCACCTTCTCAAAG
1 TTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAG
* *
4602933 CCCACAAGTTAGTGGCATCC-TTTCAAACCCCACAAGTCAGTGGCATC
66 CCCACAAGTTAATGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
4602980 TTTTCAAAGTCCACAAGTCAATAGCATCCTT-TCAAAGCCCACA
1 TTTTCAAAGCCCACAAGTTAGTGGCA-CCTTCTCAAAGCCCACA
4603023 CAAATCGGTG
Statistics
Matches: 231, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
112 84 0.36
113 145 0.63
114 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.23
Consensus pattern (112 bp):
TTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAG
CCCACAAGTTAATGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:4604184 original size:51 final size:51
Alignment explanation
Indices: 4604103--4604247 Score: 211
Period size: 51 Copynumber: 2.8 Consensus size: 51
4604093 TACAGTACAT
* *
4604103 GTATCGATACATTCT-TTGTTTTACCCAGATGTATCGATACATCTTTCCAC
1 GTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATCTTTCAAC
* * * * *
4604153 GTATCGATACATTTTATTTTTTTACCCAGATGTATCAATATATTTTTCAAT
1 GTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATCTTTCAAC
4604204 GTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACAT
1 GTATCGATACATTCTA-TTTTTTTACCCAGATGTATCGATACAT
4604248 TAAAAAATGT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 14 0.17
51 44 0.53
52 25 0.30
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (51 bp):
GTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACATCTTTCAAC
Found at i:4604257 original size:52 final size:51
Alignment explanation
Indices: 4604101--4604280 Score: 206
Period size: 51 Copynumber: 3.5 Consensus size: 51
4604091 ATTACAGTAC
* *
4604101 ATGTATCGATACATTC--TTTGTTTTACCCAGATGTATCGATACATCTTTCC
1 ATGTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACAT-TTTCA
* * * *
4604151 ACGTATCGATACATTTTA-TTTTTTTACCCAGATGTATCAATATATTTTTCA
1 ATGTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACA-TTTTCA
***
4604202 ATGTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACATTAAAAA
1 ATGTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACATT-TTCA
*
4604254 ATGTATCGATACA-TCTAGTTTATTTTA
1 ATGTATCGATACATTCTA-TTTTTTTTA
4604281 AGCATTTCGG
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
50 14 0.13
51 49 0.45
52 47 0.43
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (51 bp):
ATGTATCGATACATTCTATTTTTTTTACCCAGATGTATCGATACATTTTCA
Found at i:4605196 original size:20 final size:20
Alignment explanation
Indices: 4605158--4605196 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4605148 TAGCCTTTGA
**
4605158 TCATGCATTTTTACTATGTT
1 TCATGCATTTTTAAGATGTT
4605178 TCATGCATTTTTAAGATGT
1 TCATGCATTTTTAAGATGT
4605197 CTGGCATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TCATGCATTTTTAAGATGTT
Found at i:4609361 original size:21 final size:20
Alignment explanation
Indices: 4609331--4609369 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
4609321 CACATTTTTG
4609331 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
4609351 TCCATAATGTATCGATACA
1 TCCA-AATGTATCGATACA
4609370 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:4609528 original size:13 final size:13
Alignment explanation
Indices: 4609510--4609537 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4609500 CAAAGATTAA
4609510 TGTATCGATACAT
1 TGTATCGATACAT
4609523 TGTATCGATACAT
1 TGTATCGATACAT
4609536 TG
1 TG
4609538 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4622187 original size:6 final size:6
Alignment explanation
Indices: 4622145--4622246 Score: 63
Period size: 6 Copynumber: 17.0 Consensus size: 6
4622135 GGCATCCTCC
* * *
4622145 ACAAAA A-AAAA AGAACAA ACAAACAA AAAAAA ACAAAA GCAAAA ACCAAAA
1 ACAAAA ACAAAA ACAA-AA AC-AA-AA ACAAAA ACAAAA ACAAAA A-CAAAA
* *
4622196 ACAAAACA ACAAAA GC-AAA A-AAAA AC-AAA A-AAAA ACAAAA GCAAAA
1 AC-AAA-A ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
4622242 A-AAAA
1 ACAAAA
4622247 GGGTCCGAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
5 24 0.31
6 27 0.35
7 17 0.22
8 9 0.12
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:4622194 original size:13 final size:13
Alignment explanation
Indices: 4622146--4622243 Score: 85
Period size: 13 Copynumber: 7.5 Consensus size: 13
4622136 GCATCCTCCA
4622146 CAAAAAA-AAAAG
1 CAAAAAACAAAAG
* *
4622158 -AACAAACAAACAA
1 CAAAAAACAAA-AG
*
4622171 AAAAAAACAAAAG
1 CAAAAAACAAAAG
* *
4622184 CAAAAACCAAAAA
1 CAAAAAACAAAAG
4622197 CAAAACAACAAAAG
1 CAAAA-AACAAAAG
*
4622211 CAAAAAA-AAACAA
1 CAAAAAACAAA-AG
*
4622224 AAAAAAACAAAAG
1 CAAAAAACAAAAG
4622237 CAAAAAA
1 CAAAAAA
4622244 AAAGGGTCCG
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
11 5 0.07
12 6 0.09
13 33 0.49
14 23 0.34
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (13 bp):
CAAAAAACAAAAG
Found at i:4622237 original size:26 final size:26
Alignment explanation
Indices: 4622147--4622246 Score: 125
Period size: 26 Copynumber: 3.8 Consensus size: 26
4622137 CATCCTCCAC
*
4622147 AAAAAA-AAAAG-AACAAACAAACAAA
1 AAAAAACAAAAGCAA-AAAAAAACAAA
*
4622172 AAAAAACAAAAGCAAAAACCAAAA-ACA
1 AAAAAACAAAAGCAAAAA--AAAACAAA
*
4622199 AAACAACAAAAGCAAAAAAAAACAAA
1 AAAAAACAAAAGCAAAAAAAAACAAA
4622225 AAAAAACAAAAGCAAAAAAAAA
1 AAAAAACAAAAGCAAAAAAAAA
4622247 GGGTCCGAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
25 10 0.15
26 31 0.48
27 21 0.32
28 3 0.05
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (26 bp):
AAAAAACAAAAGCAAAAAAAAACAAA
Found at i:4622242 original size:27 final size:27
Alignment explanation
Indices: 4622147--4622246 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 27
4622137 CATCCTCCAC
* *
4622147 AAAAAA-AAAAG-AACAAACAAACAAA
1 AAAAAACAAAAGCAAAAAAAAAACAAA
4622172 AAAAAACAAAAGCAAAAACCAAAAAC--A
1 AAAAAACAAAAGCAAAAA--AAAAACAAA
*
4622199 AAACAACAAAAGC-AAAAAAAAACAAA
1 AAAAAACAAAAGCAAAAAAAAAACAAA
4622225 AAAAAACAAAAGCAAAAAAAAA
1 AAAAAACAAAAGCAAAAAAAAA
4622247 GGGTCCGAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
24 6 0.09
25 6 0.09
26 22 0.34
27 25 0.39
29 5 0.08
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAAGCAAAAAAAAAACAAA
Found at i:4623702 original size:29 final size:31
Alignment explanation
Indices: 4623660--4623734 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
4623650 TCACCCTTCA
*
4623660 AAAGCCCAC-AGTCAGTGGC-A-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACTCGTTTCC
*
4623688 AAAGCCCACAAGTCAGTGGCAACTCGTTTCT
1 AAAGCCCACAAGTCAGTGGCAACTCGTTTCC
4623719 AAAGCCCACAAGTCAG
1 AAAGCCCACAAGTCAG
4623735 GGTACCTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 9 0.21
29 10 0.24
30 1 0.02
31 22 0.52
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (31 bp):
AAAGCCCACAAGTCAGTGGCAACTCGTTTCC
Done.