Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006932.1 Hibiscus syriacus cultivar Beakdansim tig00017792_pilon, whole genome shotgun sequence
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: 664293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:200378 original size:20 final size:21
Alignment explanation
Indices: 200353--200404 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
200343 TTTTCCCAAT
*
200353 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
200373 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
200394 TCGCAATGCGA
1 TCGCAATGCGA
200405 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:200418 original size:20 final size:20
Alignment explanation
Indices: 200393--200546 Score: 175
Period size: 20 Copynumber: 7.7 Consensus size: 20
200383 AATTGGGAAA
200393 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
200413 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
*
200433 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
*
200453 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
200473 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
200494 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
200514 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
200534 TTCGCAACGCGAT
1 ATCGCAATGCGAT
200547 TTACATAGTG
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
19 2 0.02
20 104 0.86
21 13 0.11
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:200732 original size:12 final size:12
Alignment explanation
Indices: 200715--200741 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
200705 ACGGCGAAAT
200715 CCGTCCCCATCG
1 CCGTCCCCATCG
200727 CCGTCCCCATCG
1 CCGTCCCCATCG
200739 CCG
1 CCG
200742 GCGAAATCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.59, G:0.19, T:0.15
Consensus pattern (12 bp):
CCGTCCCCATCG
Found at i:200767 original size:14 final size:14
Alignment explanation
Indices: 200748--200777 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
200738 GCCGGCGAAA
200748 TCCCTCACAATCAT
1 TCCCTCACAATCAT
200762 TCCCTCACAATCAT
1 TCCCTCACAATCAT
200776 TC
1 TC
200778 AGAAATGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (14 bp):
TCCCTCACAATCAT
Found at i:201111 original size:19 final size:19
Alignment explanation
Indices: 201072--201116 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
201062 GCAACGAGAG
*
201072 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
* *
201091 AATCGTAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
201110 AATCGCA
1 AATCGCA
201117 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:201134 original size:19 final size:19
Alignment explanation
Indices: 201112--201161 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 19
201102 GAAACCAAAA
*
201112 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
201131 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
201149 TCGCGTTGCGATT
1 TCGCGTTGCGATT
201162 CTCGCGTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:201168 original size:14 final size:14
Alignment explanation
Indices: 201149--201206 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
201139 CGATTTCATT
201149 TCGCGTTGCGATTC
1 TCGCGTTGCGATTC
201163 TCGCGTTGCGATTC
1 TCGCGTTGCGATTC
*
201177 GTCGCGATAGTC-ATT-
1 -TCGCG-TTG-CGATTC
201192 TCGCGTTGCGATTC
1 TCGCGTTGCGATTC
201206 T
1 T
201207 TGCGATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 20 0.54
15 5 0.14
16 5 0.14
17 1 0.03
ACGTcount: A:0.10, C:0.26, G:0.28, T:0.36
Consensus pattern (14 bp):
TCGCGTTGCGATTC
Found at i:203402 original size:21 final size:21
Alignment explanation
Indices: 203378--203444 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
203368 TCATTCCTCG
203378 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
203399 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
203420 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
203441 AGAG
1 AGAG
203445 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:203402 original size:41 final size:42
Alignment explanation
Indices: 203327--203444 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 42
203317 GACTCGCCTG
* * * * * *
203327 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC-CTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
203368 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
203410 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
203445 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 36 0.56
42 26 0.41
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:204977 original size:19 final size:19
Alignment explanation
Indices: 204918--204980 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
204908 AAAAAGTACT
*
204918 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
204937 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
204951 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
204970 ATCGCAACGCG
1 ATCGCAACGCG
204981 CAACGCGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:205018 original size:19 final size:19
Alignment explanation
Indices: 204996--205126 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
204986 CGAAATTAAA
*
204996 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
205015 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
205031 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
205048 TTCGCATTGCGAAATTCA-
1 TTCGCATTGCGATTTTCAT
205066 --CG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
205081 TTCGCATTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
205096 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
205114 TTCGCATTGCGAT
1 TTCGCATTGCGAT
205127 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 26 0.30
16 11 0.13
17 11 0.13
19 38 0.44
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:205042 original size:33 final size:32
Alignment explanation
Indices: 205000--205126 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
204990 ATTAAATTCG
205000 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
205033 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CA
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
205066 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
205099 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
205127 AGTAATTTCC
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
31 3 0.03
33 81 0.93
35 3 0.03
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:205076 original size:66 final size:66
Alignment explanation
Indices: 204993--205125 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
204983 ACGCGAAATT
* *
204993 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
205058 G
66 G
*
205059 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
205124 G
66 G
205125 A
1 A
205126 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (66 bp):
AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:207434 original size:12 final size:12
Alignment explanation
Indices: 207417--207441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
207407 TCTTCGGGGA
207417 CTTTTTCTTCTT
1 CTTTTTCTTCTT
207429 CTTTTTCTTCTT
1 CTTTTTCTTCTT
207441 C
1 C
207442 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:207650 original size:24 final size:24
Alignment explanation
Indices: 207616--207669 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
207606 CTGAAACATC
*
207616 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
207640 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
207664 ATCAAA
1 ATCAAA
207670 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:208441 original size:20 final size:20
Alignment explanation
Indices: 208416--208463 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
208406 TGTATTATCT
208416 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
208436 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
208456 CGTTGCGA
1 CGTTGCGA
208464 TTTTGTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:208522 original size:41 final size:41
Alignment explanation
Indices: 208432--208526 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
208422 GAAAGTCAGA
* * ** *
208432 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
* *
208473 ATCACGTTGCGATAGTCAGTATCGTATTGCGATTTTACCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
208515 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
208527 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:208536 original size:20 final size:21
Alignment explanation
Indices: 208498--208545 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
208488 TCAGTATCGT
208498 ATTGCGATTTTACCAATTCGC
1 ATTGCGATTTTACCAATTCGC
* **
208519 GTTGCGA-TTTACTTATTCGC
1 ATTGCGATTTTACCAATTCGC
208539 ATTGCGA
1 ATTGCGA
208546 ATTGGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
ATTGCGATTTTACCAATTCGC
Found at i:209054 original size:31 final size:31
Alignment explanation
Indices: 209019--209117 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
209009 AAATGGTCCT
209019 TCGATTATAGAGTACTACTTTATTAAGTTCA
1 TCGATTATAGAGTACTACTTTATTAAGTTCA
* * *
209050 TCGATTATTAAAAGT--TAC---A-AAATGATCA
1 TCGATTA-T-AGAGTACTACTTTATTAA-GTTCA
*
209078 TTCGACTATAGAGTACTACTTTATTAAGTTCA
1 -TCGATTATAGAGTACTACTTTATTAAGTTCA
209110 TCGATTAT
1 TCGATTAT
209118 TAAAAGTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
27 6 0.12
28 6 0.12
29 9 0.18
31 17 0.34
32 6 0.12
33 6 0.12
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (31 bp):
TCGATTATAGAGTACTACTTTATTAAGTTCA
Found at i:209088 original size:60 final size:60
Alignment explanation
Indices: 209009--209206 Score: 270
Period size: 60 Copynumber: 3.3 Consensus size: 60
208999 TGAAGTATAG
* * *
209009 AAATGGTCCTTCGATTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
1 AAATGATCATTCGACTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
209069 AAATGATCATTCGACTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
1 AAATGATCATTCGACTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
* * *** * * * *
209129 AAATGATCCTTCGACTATAGGGCGTTACTTTGTTGAGTCCCTCGATTATTAAAAGTTACA
1 AAATGATCATTCGACTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
* *
209189 AAATGGTCATTCAACTAT
1 AAATGATCATTCGACTAT
209207 TCATATGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 123 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (60 bp):
AAATGATCATTCGACTATAGAGTACTACTTTATTAAGTTCATCGATTATTAAAAGTTACA
Found at i:209888 original size:17 final size:17
Alignment explanation
Indices: 209866--209901 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
209856 TTTATAATAT
209866 TTTTA-TTAAATCATTTA
1 TTTTATTTAAAT-ATTTA
209883 TTTTATTTAAATATTTA
1 TTTTATTTAAATATTTA
209900 TT
1 TT
209902 AACAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTTAAATATTTA
Found at i:226800 original size:42 final size:42
Alignment explanation
Indices: 226736--227110 Score: 192
Period size: 44 Copynumber: 8.6 Consensus size: 42
226726 TATTTTTTCT
* * *
226736 CTTTGTAATTGA-AGTCCTTAATTTTTGTAATCTCA-ATTTTAC
1 CTTTATAATTGAGACTCC-TAATTTTT-TAATCTCACCTTTTAC
* *** * **
226778 CTTTATAATTGAGACTCGTAATTTTTCGGTGTCATTTTTTTTAC
1 CTTTATAATTGAGACTCCTAATTTTTTAATCTCA--CCTTTTAC
* ** *
226822 CTTTGTGCTTGAGACTCCTAA-TTTTTAAGTCTCATTTCTTTTAC
1 CTTTATAATTGAGACTCCTAATTTTTTAA-TCTCA--CCTTTTAC
* *
226866 CTTTATAATTGAGAC-CCATAATTTTTAAATC-CTACATTTTAC
1 CTTTATAATTGAGACTCC-TAATTTTTTAATCTC-ACCTTTTAC
* * *
226908 ATTTATAATCGAGATTCGAGACCCCTAATTTTTTCAATAC-CACTTTTTAC
1 -CTT-T-AT--A-ATT-GAGACTCCTAATTTTTT-AAT-CTCACCTTTTAC
* * *
226958 TTTTATAATTGAGACCCCTAATTTTTTTCAATCTCA-CTTTCTAG
1 CTTTATAATTGAGACTCCTAA-TTTTTT-AATCTCACCTTT-TAC
* * *
227002 CTTTATAATTGA-AGTCTCTAATTTTTTTAAGCTCACTTTTTAC
1 CTTTATAATTGAGACTC-CTAA-TTTTTTAATCTCACCTTTTAC
* *
227045 GTTTATAATTGA-TCTCCTAATTTTTTCAATCTCACCTTTTAC
1 CTTTATAATTGAGACTCCTAATTTTTT-AATCTCACCTTTTAC
* * * *
227087 TTTTATAATTTATACACCTAATTT
1 CTTTATAATTGAGACTCCTAATTT
227111 AATTATTTTT
Statistics
Matches: 265, Mismatches: 43, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
41 10 0.04
42 52 0.20
43 59 0.22
44 97 0.37
45 9 0.03
47 3 0.01
48 4 0.02
49 16 0.06
50 13 0.05
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (42 bp):
CTTTATAATTGAGACTCCTAATTTTTTAATCTCACCTTTTAC
Found at i:226937 original size:49 final size:50
Alignment explanation
Indices: 226876--226971 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
226866 CTTTATAATT
226876 GAGACCCATAA-TTTTTAAAT-CCTACATTTTACATTTATAATCGAGATTC
1 GAGACCCATAATTTTTTAAATACC-ACATTTTACATTTATAATCGAGATTC
* * * * *
226925 GAGACCCCTAATTTTTTCAATACCACTTTTTACTTTTATAATTGAGA
1 GAGACCCATAATTTTTTAAATACCACATTTTACATTTATAATCGAGA
226972 CCCCTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
49 10 0.25
50 28 0.70
51 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (50 bp):
GAGACCCATAATTTTTTAAATACCACATTTTACATTTATAATCGAGATTC
Found at i:227007 original size:44 final size:43
Alignment explanation
Indices: 226928--227110 Score: 196
Period size: 44 Copynumber: 4.3 Consensus size: 43
226918 GAGATTCGAG
226928 ACCCCTAA-TTTTTTCAATAC-CACTTTTTACTTTTATAATTGA
1 ACCCCTAATTTTTTTCAAT-CTCACTTTTTACTTTTATAATTGA
*
226970 GACCCCTAATTTTTTTCAATCTCACTTTCTAGC-TTTATAATTGA
1 -ACCCCTAATTTTTTTCAATCTCACTTTTTA-CTTTTATAATTGA
* * * *
227014 AGTCTCTAATTTTTTT-AAGCTCACTTTTTACGTTTATAATTGA
1 A-CCCCTAATTTTTTTCAATCTCACTTTTTACTTTTATAATTGA
* * * *
227057 TCTCCTAA-TTTTTTCAATCTCACCTTTTACTTTTATAATTTA
1 ACCCCTAATTTTTTTCAATCTCACTTTTTACTTTTATAATTGA
*
227099 TACACCTAATTT
1 -ACCCCTAATTT
227111 AATTATTTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
41 6 0.05
42 28 0.24
43 39 0.33
44 43 0.37
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.49
Consensus pattern (43 bp):
ACCCCTAATTTTTTTCAATCTCACTTTTTACTTTTATAATTGA
Found at i:227107 original size:43 final size:43
Alignment explanation
Indices: 226931--227110 Score: 190
Period size: 43 Copynumber: 4.2 Consensus size: 43
226921 ATTCGAGACC
* * *
226931 CCTAATTTTTTCAATAC-CACTTTTTACTTTTATAATTGAGACC
1 CCTAATTTTTTCAAT-CTCACCTTTTACTTTTATAATTGATACT
*
226974 CCTAATTTTTTTCAATCTCA-CTTTCTAGC-TTTATAATTGA-AGT
1 CCTAA-TTTTTTCAATCTCACCTTT-TA-CTTTTATAATTGATACT
* * * *
227017 CTCTAATTTTTTTAAGCTCACTTTTTACGTTTATAATTGAT-CT
1 C-CTAATTTTTTCAATCTCACCTTTTACTTTTATAATTGATACT
* *
227060 CCTAATTTTTTCAATCTCACCTTTTACTTTTATAATTTATACA
1 CCTAATTTTTTCAATCTCACCTTTTACTTTTATAATTGATACT
227103 CCTAATTT
1 CCTAATTT
227111 AATTATTTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
42 35 0.30
43 47 0.41
44 32 0.28
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.50
Consensus pattern (43 bp):
CCTAATTTTTTCAATCTCACCTTTTACTTTTATAATTGATACT
Found at i:230290 original size:20 final size:20
Alignment explanation
Indices: 230265--230302 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
230255 CATTGCAACT
*
230265 AGGGTGCATGGATGCACTGC
1 AGGGTGCATCGATGCACTGC
*
230285 AGGGTGTATCGATGCACT
1 AGGGTGCATCGATGCACT
230303 AGTGCATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (20 bp):
AGGGTGCATCGATGCACTGC
Found at i:230390 original size:20 final size:20
Alignment explanation
Indices: 230365--230441 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
230355 GAGCAGTCAC
230365 AGGTGCATGGATACACTGCA
1 AGGTGCATGGATACACTGCA
230385 AGGTGCATGGATACACTGCA
1 AGGTGCATGGATACACTGCA
* *
230405 GGGTGTATGGATACACTGCA
1 AGGTGCATGGATACACTGCA
* *
230425 GGGTGTATGGATACACT
1 AGGTGCATGGATACACT
230442 TTGACACCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.23
Consensus pattern (20 bp):
AGGTGCATGGATACACTGCA
Found at i:231180 original size:55 final size:55
Alignment explanation
Indices: 231114--231428 Score: 506
Period size: 55 Copynumber: 5.7 Consensus size: 55
231104 CCCACTACCA
* * * * *
231114 ATACGGAAATTCATATACTTATTATTAATTTCTTAGTTTTATAGACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
* * * *
231169 ATACGAAAATTCATAATCTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
*
231224 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACAGACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
*
231279 ATACGGAAATTCATAAACTTATTATGAATTTATTAGTTTTGA-ACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTT-ACACACAAAGTGCCC
*
231334 ATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
231389 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTT
231429 GATCCTATTT
Statistics
Matches: 239, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
54 1 0.00
55 237 0.99
56 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
Found at i:232220 original size:35 final size:34
Alignment explanation
Indices: 232144--232221 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
232134 TTTTAAACCC
*
232144 TAAATTAAAGTATTTTAGAATTTAGGGTTTAAAA
1 TAAATTGAAGTATTTTAGAATTTAGGGTTTAAAA
* * * *
232178 TATAATTGAATTATTTTGGATTTTAGGGTTTATAA
1 TA-AATTGAAGTATTTTAGAATTTAGGGTTTAAAA
232213 TGAAATTGA
1 T-AAATTGA
232222 GGATTGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 2 0.05
35 34 0.92
36 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (34 bp):
TAAATTGAAGTATTTTAGAATTTAGGGTTTAAAA
Found at i:235275 original size:46 final size:45
Alignment explanation
Indices: 235197--235367 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 45
235187 GATAAAATCT
* *
235197 CTTACCATTTATCTCATAAGCTCATAAACTTATTTTACCAATATA
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAATATA
*
235242 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATCCCATAAGCTCATAAGCTTATTTTACCAATATA
* * **
235288 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTTTCAATATA
1 CTTACCATTT-ATCCCATAAGCTCATAAGCTTATTTTACCAATATA
** * *
235334 CTTGTCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTT
235368 GCATGGTTAC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.19
45 12 0.11
46 80 0.70
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAATATA
Found at i:235598 original size:61 final size:61
Alignment explanation
Indices: 235477--235598 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
235467 GTAGTGCTAA
*
235477 ACCTACACTAAGCTTACACTATAGTGCTAATCCGGACAATACACATAAGGTCATGCCCACC
1 ACCTACACTAAGCTTACACTATAGTGCTAATCCGGACAATACACATAAGGTCATACCCACC
* * * * * * *
235538 ACCTATACTAAGTTTACGCTATAGTGCTAATTCGGAC-ATGATACATAAGGTCGTATCCACC
1 ACCTACACTAAGCTTACACTATAGTGCTAATCCGGACAAT-ACACATAAGGTCATACCCACC
235599 TTCCCGTACT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 2 0.04
61 50 0.96
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACTATAGTGCTAATCCGGACAATACACATAAGGTCATACCCACC
Found at i:237082 original size:19 final size:21
Alignment explanation
Indices: 237042--237082 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
237032 TAATATTCTA
237042 ATGCTATAATAGATATAACAT
1 ATGCTATAATAGATATAACAT
*
237063 ATGCT-TAATA-ATATATCAT
1 ATGCTATAATAGATATAACAT
237082 A
1 A
237083 GAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (21 bp):
ATGCTATAATAGATATAACAT
Found at i:250210 original size:19 final size:19
Alignment explanation
Indices: 250186--250223 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
250176 TGGCTAAGTT
250186 AGCATCTACATAGCCTGTC
1 AGCATCTACATAGCCTGTC
250205 AGCATCTACATAGCCTGTC
1 AGCATCTACATAGCCTGTC
250224 TGTATGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCATCTACATAGCCTGTC
Found at i:256655 original size:20 final size:20
Alignment explanation
Indices: 256630--256685 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
256620 CTAAGAGTCC
256630 ATTTAGGACCATATAGATGA
1 ATTTAGGACCATATAGATGA
* *
256650 ATTTAGGACCATATATATGC
1 ATTTAGGACCATATAGATGA
* *
256670 ATTTATGAGCATATAG
1 ATTTAGGACCATATAG
256686 TTGCATGTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTTAGGACCATATAGATGA
Found at i:256690 original size:20 final size:20
Alignment explanation
Indices: 256629--256691 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
256619 TCTAAGAGTC
*
256629 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGTTG
*
256649 AATTTAGGACCATATA-TATG
1 CATTTAGGACCATATAGT-TG
* *
256669 CATTTATGAGCATATAGTTG
1 CATTTAGGACCATATAGTTG
256689 CAT
1 CAT
256692 GTGGTGGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGTTG
Found at i:268281 original size:60 final size:59
Alignment explanation
Indices: 268155--268281 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 59
268145 GATCATTTTC
* * * **
268155 TAACTTTTAATAGTTGAGGGACTCAACAAAGCAACACCCTATAGTCAAGAGACATTTTTT
1 TAACTTTTAATAGATAAGGGACTAAACAAAGCAACACCCTATAGTCAAGAGA-ATTTTGG
*
268215 TAACTTTTAATAGATAAGGTACTAAACAAAGCAACACCCTATAGTCGAAG-G-ATTATTGG
1 TAACTTTTAATAGATAAGGGACTAAACAAAGCAACACCCTATAGTC-AAGAGAATT-TTGG
268274 TATACTTT
1 TA-ACTTT
268282 ATCCTCAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
58 3 0.05
59 4 0.07
60 48 0.83
61 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (59 bp):
TAACTTTTAATAGATAAGGGACTAAACAAAGCAACACCCTATAGTCAAGAGAATTTTGG
Found at i:274611 original size:64 final size:64
Alignment explanation
Indices: 274492--274681 Score: 192
Period size: 64 Copynumber: 3.0 Consensus size: 64
274482 ATGTACCAAT
* ** * * *
274492 CCATGCATCGATGCACCATGAATTAAATTGAAA-ATCGAATGCATTTCATGCATCGATGCACTTA
1 CCATGCACCGATGCACC-TGAA-TATTTTGAAACATCGAATGCACTTGATGCATCGATGCACTCA
274556 -
64 G
* *
274556 CCATGCACCGATGCA-CTGAATATTTTATGAAAACATTGAATGCA-TTGATGTATCGATGCAC-C
1 CCATGCACCGATGCACCTGAATA-TTT-TG-AAACATCGAATGCACTTGATGCATCGATGCACTC
274618 AG
63 AG
* **
274620 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATCGATGCACT
1 CCATGCACCGATGCAC-CTGAATATTTTGAAACATCGAATGCACTTGATGCATCGATGCACT
274682 AAGGGTCCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
61 2 0.02
62 5 0.05
63 17 0.16
64 64 0.61
65 12 0.11
66 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
CCATGCACCGATGCACCTGAATATTTTGAAACATCGAATGCACTTGATGCATCGATGCACTCAG
Found at i:284109 original size:15 final size:16
Alignment explanation
Indices: 284085--284131 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 16
284075 ACTTAAGAAC
*
284085 AGTATCGATACCAAGG
1 AGTATTGATACCAAGG
284101 -GTATTGATACCTTAAGG
1 AGTATTGATACC--AAGG
284118 AAGTATTGATACCA
1 -AGTATTGATACCA
284132 TATTTGAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 10 0.38
17 5 0.19
19 11 0.42
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (16 bp):
AGTATTGATACCAAGG
Found at i:284110 original size:34 final size:34
Alignment explanation
Indices: 284062--284131 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
284052 GAAGGGAATT
284062 CAAGGGTATAGATA-CTTAAGAACAGTATCGATAC
1 CAAGGGTATAGATACCTTAAGAA-AGTATCGATAC
* * *
284096 CAAGGGTATTGATACCTTAAGGAAGTATTGATAC
1 CAAGGGTATAGATACCTTAAGAAAGTATCGATAC
284130 CA
1 CA
284132 TATTTGAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (34 bp):
CAAGGGTATAGATACCTTAAGAAAGTATCGATAC
Found at i:292405 original size:29 final size:29
Alignment explanation
Indices: 292309--292405 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
292299 TTTAAATTGG
* *
292309 TCCCTAAACTTTT-AAATATTTTAATTTTA
1 TCCCCAAACTTTTGAAA-ATTTTAATTTAA
* * * *
292338 TCCCTAAAC-TATGACTATAAATTTAAATTAA
1 TCCCCAAACTTTTGA--A-AATTTTAATTTAA
* *
292369 TCCTCAAACTTTTGAAAATTTTAATTTCA
1 TCCCCAAACTTTTGAAAATTTTAATTTAA
292398 TCCCCAAA
1 TCCCCAAA
292406 GTATGATCCC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
28 2 0.04
29 27 0.52
30 1 0.02
31 17 0.33
32 5 0.10
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (29 bp):
TCCCCAAACTTTTGAAAATTTTAATTTAA
Found at i:292425 original size:60 final size:59
Alignment explanation
Indices: 292299--292441 Score: 137
Period size: 60 Copynumber: 2.4 Consensus size: 59
292289 CGAGATGGAT
** * * * *
292299 TTTAAATTGGTCCCTAAACTTTTAAATATTTTAATTTTATCCCTAAACTATGACTATAAA
1 TTTAAATTAATCCCCAAACTTTTAAATATTTTAATTTCATCCCCAAACTATGACCAT-AA
* * *
292359 TTTAAATTAATCCTCAAACTTTTGAAA-ATTTTAATTTCATCCCCAAAGTATGATCCCT-A
1 TTTAAATTAATCCCCAAACTTTT-AAATATTTTAATTTCATCCCCAAACTATGA-CCATAA
**
292418 TTCTAAATTGGTCCCCAAACTTTT
1 TT-TAAATTAATCCCCAAACTTTT
292442 TGATCATTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 3 0.04
60 60 0.88
61 5 0.07
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (59 bp):
TTTAAATTAATCCCCAAACTTTTAAATATTTTAATTTCATCCCCAAACTATGACCATAA
Found at i:297343 original size:2 final size:2
Alignment explanation
Indices: 297336--297370 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
297326 TCACTAAAAT
297336 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
297371 GATTTTCAAT
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:301741 original size:19 final size:19
Alignment explanation
Indices: 301717--301776 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
301707 GTTTCGCTAC
301717 TGGGTATCGGTACTCAAGA
1 TGGGTATCGGTACTCAAGA
*
301736 TGGGTATC-G--CT--A-C
1 TGGGTATCGGTACTCAAGA
*
301749 TGGGTATCGGTACTCAAGG
1 TGGGTATCGGTACTCAAGA
301768 TGGGTATCG
1 TGGGTATCG
301777 ATGCTAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
16 4 0.12
18 2 0.06
19 17 0.52
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (19 bp):
TGGGTATCGGTACTCAAGA
Found at i:301751 original size:32 final size:32
Alignment explanation
Indices: 301710--301776 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
301700 TCACCAAGTT
301710 TCGCTACTGGGTATCGGTACTCAAGATGGGTA
1 TCGCTACTGGGTATCGGTACTCAAGATGGGTA
*
301742 TCGCTACTGGGTATCGGTACTCAAGGTGGGTA
1 TCGCTACTGGGTATCGGTACTCAAGATGGGTA
301774 TCG
1 TCG
301777 ATGCTAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (32 bp):
TCGCTACTGGGTATCGGTACTCAAGATGGGTA
Found at i:305087 original size:31 final size:31
Alignment explanation
Indices: 305049--305113 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
305039 GGATTCCTTT
* *
305049 CGGTCTCACACATATGGCAACAATAATCTCC
1 CGGTCTCACACATATCGCAACAATAATATCC
305080 CGGTCTCACACATATCGCAACAATAATATCC
1 CGGTCTCACACATATCGCAACAATAATATCC
305111 CGG
1 CGG
305114 GTCATCTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (31 bp):
CGGTCTCACACATATCGCAACAATAATATCC
Found at i:305651 original size:16 final size:17
Alignment explanation
Indices: 305622--305655 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
305612 CAAATGATGT
305622 TCGAGAAACAAAAAAGG
1 TCGAGAAACAAAAAAGG
*
305639 TCGA-AAACGAAAAAGG
1 TCGAGAAACAAAAAAGG
305655 T
1 T
305656 GCAGCGTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.12, G:0.24, T:0.09
Consensus pattern (17 bp):
TCGAGAAACAAAAAAGG
Found at i:307155 original size:8 final size:8
Alignment explanation
Indices: 307140--307179 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
307130 TAGTATTATT
307140 ATTAAATA
1 ATTAAATA
*
307148 AATAAATA
1 ATTAAATA
307156 ATTAAATA
1 ATTAAATA
307164 ATTAAA-A
1 ATTAAATA
307171 ATTACAATA
1 ATTA-AATA
307180 GACCCGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 5 0.18
8 22 0.79
9 1 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
ATTAAATA
Found at i:310758 original size:13 final size:13
Alignment explanation
Indices: 310740--310768 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
310730 TTAATATTTT
310740 ATTATTATTATTA
1 ATTATTATTATTA
310753 ATTATTATTATTA
1 ATTATTATTATTA
310766 ATT
1 ATT
310769 TACATACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:311265 original size:273 final size:273
Alignment explanation
Indices: 310778--311309 Score: 1055
Period size: 273 Copynumber: 1.9 Consensus size: 273
310768 TTACATACAT
310778 GCCAAATACAAATAAATTCCAGAGCCCATTACAAAGCTTAACATCAACCCAATTACATGACCCAG
1 GCCAAATACAAATAAATTCCAGAGCCCATTACAAAGCTTAACATCAACCCAATTACATGACCCAG
*
310843 CTTGAAGCCCAAGTACCACACCCTTGCAGCACCATTACGTGAAGCACCCAAATCTTCAGAGAACG
66 CTTGAAGCCCAAGTACCACACCCTTGCAGCACCATCACGTGAAGCACCCAAATCTTCAGAGAACG
310908 TCATTGCATAAGCCCAAATATTCACCTGCTCCAATCAAAGTCTCACTAAAAAGAAAGAAATTATC
131 TCATTGCATAAGCCCAAATATTCACCTGCTCCAATCAAAGTCTCACTAAAAAGAAAGAAATTATC
310973 ATGCAACGACAAAGGAATTTGGTAAAGAAAATGGAGATAAAAAACTGGGGGCAGTTAACGAAAGC
196 ATGCAACGACAAAGGAATTTGGTAAAGAAAATGGAGATAAAAAACTGGGGGCAGTTAACGAAAGC
311038 TTAACATTACAAA
261 TTAACATTACAAA
311051 GCCAAATACAAATAAATTCCAGAGCCCATTACAAAGCTTAACATCAACCCAATTACATGACCCAG
1 GCCAAATACAAATAAATTCCAGAGCCCATTACAAAGCTTAACATCAACCCAATTACATGACCCAG
311116 CTTGAAGCCCAAGTACCACACCCTTGCAGCACCATCACGTGAAGCACCCAAATCTTCAGAGAACG
66 CTTGAAGCCCAAGTACCACACCCTTGCAGCACCATCACGTGAAGCACCCAAATCTTCAGAGAACG
311181 TCATTGCATAAGCCCAAATATTCACCTGCTCCAATCAAAGTCTCACTAAAAAGAAAGAAATTATC
131 TCATTGCATAAGCCCAAATATTCACCTGCTCCAATCAAAGTCTCACTAAAAAGAAAGAAATTATC
311246 ATGCAACGACAAAGGAATTTGGTAAAGAAAATGGAGATAAAAAACTGGGGGCAGTTAACGAAAG
196 ATGCAACGACAAAGGAATTTGGTAAAGAAAATGGAGATAAAAAACTGGGGGCAGTTAACGAAAG
311310 GAGTGGAGGG
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
273 258 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.19
Consensus pattern (273 bp):
GCCAAATACAAATAAATTCCAGAGCCCATTACAAAGCTTAACATCAACCCAATTACATGACCCAG
CTTGAAGCCCAAGTACCACACCCTTGCAGCACCATCACGTGAAGCACCCAAATCTTCAGAGAACG
TCATTGCATAAGCCCAAATATTCACCTGCTCCAATCAAAGTCTCACTAAAAAGAAAGAAATTATC
ATGCAACGACAAAGGAATTTGGTAAAGAAAATGGAGATAAAAAACTGGGGGCAGTTAACGAAAGC
TTAACATTACAAA
Found at i:318881 original size:5 final size:5
Alignment explanation
Indices: 318871--318895 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
318861 CTCATGTTTA
318871 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
318896 GTGTGCCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:320484 original size:79 final size:79
Alignment explanation
Indices: 320349--320512 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 79
320339 GCATGATGAT
* * * * **
320349 CAAATCCATCTGTAAGTCTTTCGAGCATGATGCTTAAATCATTTGGGCCATCTTAAGCCTTCACC
1 CAAATTCATCAGTAAGCCTTTCGAGCATGATGATTAAATCATCCGGGCCATCTTAAGCCTTCACC
*
320414 GAAGTATAGTGAAG
66 GAAGAATAGTGAAG
* * *
320428 CAAATTCATCAGTAAGCC-TTCTGAGCATGATGATTAAGTCCTCCGGGCCATTTTAAGCCTTCAC
1 CAAATTCATCAGTAAGCCTTTC-GAGCATGATGATTAAATCATCCGGGCCATCTTAAGCCTTCAC
*
320492 GGAAGAATAGTGAAG
65 CGAAGAATAGTGAAG
320507 CAAATT
1 CAAATT
320513 TATCTATCTG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 3 0.04
79 70 0.96
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (79 bp):
CAAATTCATCAGTAAGCCTTTCGAGCATGATGATTAAATCATCCGGGCCATCTTAAGCCTTCACC
GAAGAATAGTGAAG
Found at i:320726 original size:111 final size:111
Alignment explanation
Indices: 320518--321057 Score: 801
Period size: 111 Copynumber: 4.9 Consensus size: 111
320508 AAATTTATCT
* * * * * * * *
320518 ATCTGATATTCCCTTCAGAAGAAGTGAAACAGATCACTCTCTTGCAATATTTGATATTACATGAG
1 ATCTGATATTCCC-TCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAG
320583 TGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
65 TGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
320630 ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
1 ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
*
320695 GACAGCGGAACAAGTCTACCCTGATTTAATGAATCAACTTTCCCAG
66 GACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
* * *
320741 ATCTGATATTCCCTCAGAGAAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCTCTGAGT
1 ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
*
320806 GACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCTAG
66 GACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
* * * *
320852 ATATGATATTCCCACAGAGAAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTAAGT
1 ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
* *
320917 GACAACGGAACAAGTCTACCCTGATTCAATGGATCAACTTTCCCAG
66 GACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
* * * * * * * *
320963 ATCCGATATTCCCTCAAAAGAAGTGGAACAGATCCATCTCTTTTAAGATTTGATATTACATGAGT
1 ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
* **
321028 GATAATGGAACAAGTCTACCCTGATTCAAT
66 GACAGCGGAACAAGTCTACCCTGATTCAAT
321058 CTTCCCTGCA
Statistics
Matches: 392, Mismatches: 36, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
111 379 0.97
112 13 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (111 bp):
ATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
GACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAG
Found at i:321289 original size:13 final size:13
Alignment explanation
Indices: 321271--321299 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
321261 TTAATATTTT
321271 ATTATTATTATTA
1 ATTATTATTATTA
321284 ATTATTATTATTA
1 ATTATTATTATTA
321297 ATT
1 ATT
321300 TACATGCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:321986 original size:18 final size:17
Alignment explanation
Indices: 321949--321996 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
321939 ATACAACCCA
*
321949 AAATAA-AAAATCCATC
1 AAATAAGAAAATCCAGC
321965 -AATAAGAAAATCGCAGC
1 AAATAAGAAAATC-CAGC
321982 AAATAATGAAAATCC
1 AAATAA-GAAAATCC
321997 TTTCTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 3 0.11
18 6 0.22
19 7 0.26
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (17 bp):
AAATAAGAAAATCCAGC
Found at i:324798 original size:42 final size:41
Alignment explanation
Indices: 324716--324799 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 41
324706 AGATATGATT
* * * *
324716 GATCAAGTAAAAAAGTTCCAGGGTGATTAAAATGAACAAATG
1 GATCAAGCAAAAAAATTCCAAGATGATTAAAA-GAACAAATG
324758 GATCAAGCAAAAAAATTCCAAGATGATTCAAAA-AAGCAAATG
1 GATCAAGCAAAAAAATTCCAAGATGATT-AAAAGAA-CAAATG
324800 ACAAAACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.06
42 30 0.83
43 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (41 bp):
GATCAAGCAAAAAAATTCCAAGATGATTAAAAGAACAAATG
Found at i:328972 original size:34 final size:36
Alignment explanation
Indices: 328929--329026 Score: 155
Period size: 37 Copynumber: 2.8 Consensus size: 36
328919 GTCTTACTAA
*
328929 GATTCAAACTCCTAAAAATATGATAGAA-TTT-TAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
*
328963 GATTCAAACTCCTAAAAATAGGATAAAATTTTGCTAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTT-CTAG
329000 GATTCAAACTCCTAAAAATAGGATAGA
1 GATTCAAACTCCTAAAAATAGGATAGA
329027 GTTCTACTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
34 26 0.45
35 3 0.05
37 29 0.50
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (36 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
Found at i:329052 original size:37 final size:37
Alignment explanation
Indices: 328923--329035 Score: 142
Period size: 37 Copynumber: 3.1 Consensus size: 37
328913 TTTTTCGTCT
* * *
328923 TACTAAGATTCAAACTCCTAAAAATATGATAGAATT-
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
*
328959 T--TAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * *
328994 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
329031 TACTA
1 TACTA
329036 TTATTTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
34 30 0.45
35 1 0.01
36 1 0.01
37 35 0.52
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:329439 original size:15 final size:15
Alignment explanation
Indices: 329417--329455 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
329407 ATTATATGGA
*
329417 TATT-TTATTCATTT
1 TATTATTATTCATGT
*
329431 TTTTATTATTCATGT
1 TATTATTATTCATGT
329446 TATTATTATT
1 TATTATTATT
329456 ATATGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTATTATTCATGT
Found at i:329757 original size:24 final size:24
Alignment explanation
Indices: 329720--329787 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
329710 TATAACTTTA
329720 TATATT-TATATTATTTTTTATTAT
1 TATATTAT-TATTATTTTTTATTAT
* * **
329744 TTTCATT-TTTTTATTCATTATTAT
1 TAT-ATTATTATTATTTTTTATTAT
329768 TATATTATTATTATTTTTTA
1 TATATTATTATTATTTTTTA
329788 AAAAAACCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.79
25 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (24 bp):
TATATTATTATTATTTTTTATTAT
Found at i:329778 original size:21 final size:20
Alignment explanation
Indices: 329724--329787 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
329714 ACTTTATATA
* *
329724 TTTATATTATTTTTTATTAT
1 TTTATATTATTATTCATTAT
* *
329744 TTTCATTTTTTTATTCATTAT
1 TTT-ATATTATTATTCATTAT
329765 TATTATATTATTATT-ATT-T
1 T-TTATATTATTATTCATTAT
329784 TTTA
1 TTTA
329788 AAAAAACCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 3 0.08
19 2 0.06
20 6 0.17
21 23 0.64
22 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATATTATTATTCATTAT
Found at i:333732 original size:16 final size:16
Alignment explanation
Indices: 333706--333758 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
333696 AGATCCAATC
333706 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
333721 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* * *
333738 AAAAAAAAACAAAGAAA
1 AAGAACAAA-AAAGCAA
333755 AAGA
1 AAGA
333759 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 15 0.48
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:333755 original size:24 final size:24
Alignment explanation
Indices: 333711--333782 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
333701 CAATCAAGAA
* *
333711 CAAAAAAGAAAAGAAGCAAAAAAG
1 CAAAAAAAAAAAAAAGCAAAAAAG
333735 CAAAAAAAAAAACAAAG-AAAAAGAG
1 CAAAAAAAAAAA-AAAGCAAAAA-AG
* * * *
333760 -AAACAAGAACAAAAGGAAAAAAG
1 CAAAAAAAAAAAAAAGCAAAAAAG
333783 AGCAAAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.15
24 29 0.73
25 5 0.12
ACGTcount: A:0.76, C:0.08, G:0.15, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAAAAAAGCAAAAAAG
Found at i:334465 original size:22 final size:22
Alignment explanation
Indices: 334434--334488 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
334424 ACTGTCCCAT
334434 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
334456 CAAACATTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
334478 CAAACCTTTGA
1 CAAACCTTTGA
334489 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:334927 original size:18 final size:18
Alignment explanation
Indices: 334904--334939 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
334894 TCAACATCAA
* *
334904 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
334922 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
334940 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:335462 original size:36 final size:36
Alignment explanation
Indices: 335419--335700 Score: 321
Period size: 36 Copynumber: 8.0 Consensus size: 36
335409 ACTATAAGAG
335419 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
335455 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
335491 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
335527 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
335563 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
* * ** * *
335592 TTCTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
335629 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
335664 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
335701 ACCTTTGAAT
Statistics
Matches: 206, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 142 0.69
37 35 0.17
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:335462 original size:71 final size:72
Alignment explanation
Indices: 335377--335700 Score: 239
Period size: 72 Copynumber: 4.6 Consensus size: 72
335367 GTTTTTCTTA
* * * * * *
335377 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCAC-TATAA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTTA-AACAAATTTCGTCTATCTTGAGACAG
335439 TTTCCCTTG
64 TTTCCCTTG
*
335448 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTT-AAACAAATTTCGTCTATCTTGAGACAGT
335512 TTCCCTTG
65 TTCCCTTG
* * * *
335520 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTT-AAACAAATTTCGTCTATCTTGAGACA-G
* *
335576 TTTTCTTTG
64 TTTCCCTTG
* * ** * * * *
335585 AAACAAATTCTGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTT-AAAC-AAATTTCGTCTATCTTGAGACAG
*
335649 TTTCTCTTG
64 TTTCCCTTG
* *
335658 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTT-AAACAAA
335701 ACCTTTGAAT
Statistics
Matches: 205, Mismatches: 33, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
64 2 0.01
65 46 0.22
66 5 0.02
70 6 0.03
71 26 0.13
72 79 0.39
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTTAAACAAATTTCGTCTATCTTGAGACAGTT
TCCCTTG
Found at i:335660 original size:102 final size:102
Alignment explanation
Indices: 335475--335663 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 102
335465 CTTGAGACAG
*
335475 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
335540 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
335577 TTTCT-TTGAAACAAA-TTCTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTCTCTTGAAACAAATTTC-GTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTC
*
335640 TTGAGACAGTTTCTCTTGAAACAA
64 TTGAGACAGTTTCCCTTGAAACAA
335664 TTTTCGTCTA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 3 0.04
101 30 0.38
102 45 0.58
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTTCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:335692 original size:138 final size:137
Alignment explanation
Indices: 335439--335763 Score: 445
Period size: 138 Copynumber: 2.4 Consensus size: 137
335429 CTTGAGACAG
*
335439 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
335504 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
*
335569 GAATATG
131 GAATATA
* * * * * * * *
335576 TTTTCTTTGAAACAAATTCTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
335641 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
335705 TTGAATTTA
129 TTGAATATA
* * * *
335714 TTTCCCCTAAAACAAATTTTTTCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
335764 CAAAATCTTC
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
137 50 0.31
138 111 0.69
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
GAATATA
Found at i:335793 original size:67 final size:68
Alignment explanation
Indices: 335675--335831 Score: 205
Period size: 68 Copynumber: 2.4 Consensus size: 68
335665 TTTCGTCTAT
* **
335675 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTT-TT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
335736 CTCC
66 -TCC
* * *
335740 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
335805 TCC
66 TCC
* *
335808 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
335832 ACAGATATCT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 28 0.35
68 30 0.38
69 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
TCC
Found at i:336654 original size:105 final size:105
Alignment explanation
Indices: 336475--337408 Score: 1470
Period size: 105 Copynumber: 9.0 Consensus size: 105
336465 GCACTCGAGG
* * * ** *
336475 CAACACAAGTTCAACTTCACAACGAATGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
336540 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
336581 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
336646 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
336686 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
336748 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
336788 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
336853 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
336893 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
336958 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
336998 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
337063 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
337103 AAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
337168 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
337208 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
337268 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * * ** *
337308 CAACACAAGTTCAACGTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* * *
337373 AGCCAATTTCAGCTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
337409 TGGAACAATG
Statistics
Matches: 779, Mismatches: 40, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
100 82 0.11
101 3 0.00
102 103 0.13
103 4 0.01
104 3 0.00
105 511 0.66
106 73 0.09
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:337150 original size:312 final size:312
Alignment explanation
Indices: 336480--337408 Score: 1426
Period size: 312 Copynumber: 3.0 Consensus size: 312
336470 CGAGGCAACA
* * ** *
336480 CAAGTTCAACTTCACAACGAATGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--AC-AACAACTTCTCAATTTCAGAGCCA
336545 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
63 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
336610 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATAT
128 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
336675 TGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTC
193 TGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTC
* * * * *
336737 TCAATTTCAGAACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACG
258 CCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACG
336793 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGAGCCAA
336858 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
64 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
336923 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
129 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
336988 GGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCC
194 GGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCC
*
337053 CAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAATG
259 CAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACG
* *
337108 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGAGCCAA
337173 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
64 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
**
337238 CCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCAATTTCAACTTCACAACGAAGGATATT
129 CCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * * * *
337298 GGAC-TCGAGACAACACAAGTTCAACGTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT
194 GGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTT
** * * *
337362 CCCGGTTCCAGAGCCAATTTCAGCTTCACGACGGAGGATATTGGACT
257 CCCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
337409 TGGAACAATG
Statistics
Matches: 580, Mismatches: 29, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
309 2 0.00
310 82 0.14
311 48 0.08
312 205 0.35
313 37 0.06
314 3 0.01
315 203 0.35
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (312 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGCCAATT
TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
GCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACG
Found at i:337998 original size:34 final size:36
Alignment explanation
Indices: 337954--338055 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
337944 TTTCGTCCTA
337954 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
* *
337989 -TAGGATTCAAACTCCTAAAAAGAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
338024 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
338056 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:338468 original size:15 final size:15
Alignment explanation
Indices: 338446--338484 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
338436 ATTATATGGA
*
338446 TATT-TTATTCATTT
1 TATTATTATTCATGT
*
338460 TTTTATTATTCATGT
1 TATTATTATTCATGT
338475 TATTATTATT
1 TATTATTATT
338485 ATATGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTATTATTCATGT
Found at i:338775 original size:24 final size:24
Alignment explanation
Indices: 338738--338803 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
338728 TATAACTTTA
338738 TATATT-TATATTATTTTTTATTAT
1 TATATTAT-TATTATTTTTTATTAT
* * **
338762 TTTCATT-TTTTTATTCATTATTAT
1 TAT-ATTATTATTATTTTTTATTAT
338786 TATATTATTATTATTTTT
1 TATATTATTATTATTTTT
338804 AAAAAAACCT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 25 0.78
25 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (24 bp):
TATATTATTATTATTTTTTATTAT
Found at i:338796 original size:21 final size:20
Alignment explanation
Indices: 338742--338797 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
338732 ACTTTATATA
* *
338742 TTTATATTATTTTTTATTAT
1 TTTATATTATTATTCATTAT
* *
338762 TTTCATTTTTTTATTCATTAT
1 TTT-ATATTATTATTCATTAT
338783 TATTATATTATTATT
1 T-TTATATTATTATT
338798 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATATTATTATTCATTAT
Found at i:345520 original size:19 final size:19
Alignment explanation
Indices: 345496--345538 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
345486 CGATTATGGA
345496 GAGAAGAGAAACCAGAAAG
1 GAGAAGAGAAACCAGAAAG
*
345515 GAGAAGAGAAATCAGAAAG
1 GAGAAGAGAAACCAGAAAG
345534 GAGAA
1 GAGAA
345539 ATGAAGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.07, G:0.33, T:0.02
Consensus pattern (19 bp):
GAGAAGAGAAACCAGAAAG
Found at i:348343 original size:28 final size:28
Alignment explanation
Indices: 348286--348360 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
348276 TTTTTGAACA
348286 TTGAAGTATTGAAGTTACTGAATGAAAT
1 TTGAAGTATTGAAGTTACTGAATGAAAT
* *
348314 TT-ATAGTATTGAAGTTACTCTAA-GATAT
1 TTGA-AGTATTGAAGTTACT-GAATGAAAT
*
348342 TTGAAGTCTTGAAGTTACT
1 TTGAAGTATTGAAGTTACT
348361 TATAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.02
28 37 0.90
29 3 0.07
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (28 bp):
TTGAAGTATTGAAGTTACTGAATGAAAT
Found at i:349928 original size:17 final size:16
Alignment explanation
Indices: 349907--349937 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
349897 CTTCTAATTT
*
349907 TTTTTTTAGTTCAAGC
1 TTTTTTGAGTTCAAGC
349923 TTTTTTGAGTTCAAG
1 TTTTTTGAGTTCAAG
349938 TTTCAATATT
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:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTTTGAGTTCAAGC
Found at i:350527 original size:21 final size:21
Alignment explanation
Indices: 350488--350541 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
350478 ATCGTGGACT
* *
350488 ACCACGTCAGCATTGTGAAAC
1 ACCACATCAACATTGTGAAAC
* * *
350509 ATCACATCAACATTTTGAATC
1 ACCACATCAACATTGTGAAAC
*
350530 ACCATATCAACA
1 ACCACATCAACA
350542 GTGTAATGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (21 bp):
ACCACATCAACATTGTGAAAC
Found at i:356816 original size:4 final size:4
Alignment explanation
Indices: 356807--356845 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
356797 TTAAGTCTTG
*
356807 ATGT ATGT ATAT ATGGT -TGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATG
356846 ATGCAATAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 28 0.90
5 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:360402 original size:3 final size:3
Alignment explanation
Indices: 360394--360447 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
360384 TGAAACTATA
* * * *
360394 TAT TAT TAT TAT TA- TAT TAC AAT TAA TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
360440 TAT TAT TA
1 TAT TAT TA
360448 CACAAATCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.07
3 38 0.93
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:360423 original size:20 final size:20
Alignment explanation
Indices: 360395--360447 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
360385 GAAACTATAT
360395 ATTATTATTATTATATTACA
1 ATTATTATTATTATATTACA
* * **
360415 ATTAATATTATCATATTATT
1 ATTATTATTATTATATTACA
360435 ATTATTATTATTA
1 ATTATTATTATTA
360448 CACAAATCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATTATTATTATATTACA
Found at i:361537 original size:15 final size:15
Alignment explanation
Indices: 361512--361555 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
361502 AGGATAAATA
361512 TTAGA-TTTAATCCT
1 TTAGATTTTAATCCT
**
361526 TTAGATTTTAATAAT
1 TTAGATTTTAATCCT
*
361541 TTATATTTTAATCCT
1 TTAGATTTTAATCCT
361556 AATAGTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (15 bp):
TTAGATTTTAATCCT
Found at i:362518 original size:55 final size:54
Alignment explanation
Indices: 362434--362594 Score: 186
Period size: 55 Copynumber: 3.0 Consensus size: 54
362424 TTTGACTAAG
* * *
362434 CAATTAATTGTAAATATTAT-ATGGGGATTTGAGTGGGTTCATGCAATGAAATAAA
1 CAATTAATTTTAAATATT-TCAT-GAGATTTGCGTGGGTTCATGCAATGAAATAAA
*
362489 CAATTAATTTTAAATATTTCATGAAGATTTGCGTGGGTTCATGCAATGAAAT-AG
1 CAATTAATTTTAAATATTTCATG-AGATTTGCGTGGGTTCATGCAATGAAATAAA
* * *
362543 TAATTAATTTTAAATATTCCATTGAGA--TGCGTGGGGTTCATGCAAAGAAATA
1 CAATTAATTTTAAATATTTCA-TGAGATTTGCGT-GGGTTCATGCAATGAAATA
362595 GGAGACCATG
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
52 5 0.05
53 17 0.18
54 25 0.27
55 47 0.50
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (54 bp):
CAATTAATTTTAAATATTTCATGAGATTTGCGTGGGTTCATGCAATGAAATAAA
Found at i:365707 original size:15 final size:15
Alignment explanation
Indices: 365687--365716 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
365677 ATAATTATTA
365687 ATCAATGATTAAAAT
1 ATCAATGATTAAAAT
*
365702 ATCAATTATTAAAAT
1 ATCAATGATTAAAAT
365717 TAAGAGCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ATCAATGATTAAAAT
Found at i:367328 original size:76 final size:76
Alignment explanation
Indices: 367226--367439 Score: 347
Period size: 76 Copynumber: 2.8 Consensus size: 76
367216 AGAGGTCTTA
* * * *
367226 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCGCA
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCA
367291 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
367302 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCCG
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCA
367367 AAGGCTTTTTG
66 AAGGCTTTTTG
* * *
367378 GAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTC
1 AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTC
367440 ATGCACTGTA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 128 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (76 bp):
AAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCA
AAGGCTTTTTG
Found at i:367466 original size:54 final size:54
Alignment explanation
Indices: 367384--367493 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
367374 TTTGGAAACA
367384 TCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
367438 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
367492 TC
1 TC
367494 CCGAAGGCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (54 bp):
TCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
Found at i:367468 original size:130 final size:131
Alignment explanation
Indices: 367308--367570 Score: 492
Period size: 130 Copynumber: 2.0 Consensus size: 131
367298 TTTGAAAACA
* *
367308 TCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367373 TTTTGGAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAAG
66 TTTTGGAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAG
367437 C
131 C
367438 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
367503 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAG
66 TTTTGGAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAG
367568 C
131 C
367569 TC
1 TC
367571 CCGAAAGCTT
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
130 120 0.93
131 9 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (131 bp):
TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCAATGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAG
C
Found at i:367564 original size:76 final size:76
Alignment explanation
Indices: 367438--367767 Score: 642
Period size: 76 Copynumber: 4.3 Consensus size: 76
367428 ATCAAAAAGC
367438 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367503 TTTTGGAAACA
66 TTTTGGAAACA
*
367514 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAGCTCCCGAAAGC
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAAGCTCCCGAAGGC
367579 TTTTTGGAAACA
65 TTTTTGGAAACA
367591 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367656 TTTTGGAAACA
66 TTTTGGAAACA
367667 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367732 TTTTGGAAACA
66 TTTTGGAAACA
367743 TCATGCACTGTAGGACTTACAGATG
1 TCATGCACTGTAGGACTTACAGATG
367768 TGGGGAATAT
Statistics
Matches: 251, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
76 176 0.70
77 75 0.30
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACA
Found at i:367716 original size:153 final size:152
Alignment explanation
Indices: 367438--367767 Score: 642
Period size: 153 Copynumber: 2.2 Consensus size: 152
367428 ATCAAAAAGC
367438 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367503 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAG
66 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAAG
367568 CTCCCGAAAGCTTTTTGGAAACA
130 CTCCCGAAAGCTTTTTGGAAACA
367591 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
367656 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
66 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
367721 TCCCGAAGGCTTTTTGGAAACA
131 TCCCGAAAGCTTTTTGGAAACA
367743 TCATGCACTGTAGGACTTACAGATG
1 TCATGCACTGTAGGACTTACAGATG
367768 TGGGGAATAT
Statistics
Matches: 176, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
152 53 0.30
153 123 0.70
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (152 bp):
TCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAAGCTTTTTGGAAACA
Found at i:368502 original size:22 final size:22
Alignment explanation
Indices: 368444--368519 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
368434 AATAAAGCTT
*
368444 TCATGTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
368466 TCCTCTTT-AAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
368487 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
368509 TCATCTTTGAA
1 TCATCTTTGAA
368520 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 20 0.40
22 30 0.60
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:375303 original size:15 final size:15
Alignment explanation
Indices: 375262--375304 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
375252 TTTAACAAAT
375262 AAAAAATGTAAATGC
1 AAAAAATGTAAATGC
375277 --AAAATGCATAAATGC
1 AAAAAATG--TAAATGC
375292 AAAAAATGTAAAT
1 AAAAAATGTAAAT
375305 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.25
15 12 0.50
17 6 0.25
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (15 bp):
AAAAAATGTAAATGC
Found at i:378687 original size:15 final size:15
Alignment explanation
Indices: 378667--378696 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
378657 ATAATTATTA
378667 ATCAATGATTAAAAT
1 ATCAATGATTAAAAT
*
378682 ATCAATTATTAAAAT
1 ATCAATGATTAAAAT
378697 TAAGAGCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ATCAATGATTAAAAT
Found at i:380001 original size:3 final size:3
Alignment explanation
Indices: 379995--380050 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
379985 AATAATTATT
* * *
379995 TAA TAA TAA T-A TAA T-A TATA TAA T-A TTA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
380038 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
380051 TTAAGTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:380009 original size:11 final size:11
Alignment explanation
Indices: 379984--380050 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 11
379974 TCTGGGATTG
* *
379984 TAATAATTATT
1 TAATAATAATA
379995 TAATAATAATA
1 TAATAATAATA
380006 TAAT-AT-ATA
1 TAATAATAATA
380015 TAAT-AT--TA
1 TAATAATAATA
*
380023 TAATAATATTTA
1 TAATAATA-ATA
380035 TAATAATAATAA
1 TAATAATAAT-A
380047 TAAT
1 TAAT
380051 TTAAGTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 6 0.12
9 11 0.23
10 2 0.04
11 14 0.29
12 15 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAATAATA
Found at i:380028 original size:20 final size:19
Alignment explanation
Indices: 379997--380048 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
379987 TAATTATTTA
379997 ATAATA-AT-ATAATATAT
1 ATAATATATAATAATATAT
*
380014 ATAATATTATAATAATATTT
1 ATAATA-TATAATAATATAT
380034 ATAATA-ATAATAATA
1 ATAATATATAATAATA
380049 ATTTAAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 2 0.06
20 14 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATATATAATAATATAT
Found at i:383196 original size:26 final size:24
Alignment explanation
Indices: 383145--383204 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
383135 CTCATCTATT
* *
383145 AGAGAA-AAAAAAAGAAAAGAAGA
1 AGAGAAGAAAAAAAGAAAAAAAAA
383168 AGAAGAAGAAAAAATAGAAAAAAAAA
1 AG-AGAAGAAAAAA-AGAAAAAAAAA
383194 AGAGAAAGAAA
1 AGAG-AAGAAA
383205 TTGAATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 4 0.13
25 8 0.26
26 17 0.55
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (24 bp):
AGAGAAGAAAAAAAGAAAAAAAAA
Found at i:386509 original size:489 final size:490
Alignment explanation
Indices: 385591--386573 Score: 1797
Period size: 489 Copynumber: 2.0 Consensus size: 490
385581 AAGGATATAA
*
385591 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAATGCACAA
1 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
* * *
385656 ATATGTAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACTTTGAT
66 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
* * * *
385721 ATTTGAAGTAAAACCTTGGAAAGGAATAATCAGGTGGAAAAATACCAAGTTAGCCATTTTGAAGT
131 ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
385786 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
196 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
385851 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
261 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
*
385916 ACCTTACAAATGGGAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
326 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
* *
385981 CTGAAGAATAGATGAACACAATCCAGAGAGGAAGCATTATTTTGGAGCCTGTTA-CCAACCAACA
391 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
*
386045 AGTTGTTTTGAAAATGATAGAACGATTTTCAAAGT
456 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
*
386080 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGTAAAGAAGGCACAA
1 TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
*
386145 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGCAAGCTTGATAGCATAAGTTACTACATTGAT
66 AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
*
386210 ATTTGAAGTAAAACCCTGGAAAGGAATGATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
131 ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
386275 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
196 CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
* *
386340 TACATTGATACATTTGATTGCATTTGCATAAATACATTTTTCACATGAAGATGCAGGGACAAAAT
261 TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
386405 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
326 ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
*
386470 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGGGCATGTTACCCAACCAACA
391 CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
386535 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
456 AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
386570 TTCT
1 TTCT
386574 CATTTAATCT
Statistics
Matches: 475, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
489 427 0.90
490 48 0.10
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (490 bp):
TTCTGACAAGAGTTCCATAAATGAAACATTTCTTTTGAGACTTTAATGAAGCAAAGAAGGCACAA
AGATGCAAGTGGATTAGATGGTTCTTCACAAATGAAAGCTTGATAGCATAAGTTACTACATTGAT
ATTTGAAGTAAAACCCTGGAAAGGAATAATCAAGTGGAAAAAGACCAACTTAGCCATTTTGAAGT
CAAATGAAGATTAAATCGATATTCATGCATTCATAAGAACATCATTTGCATAAAAGATCATGCAT
TACATTGATACATTTGATTGAATTTGCATAAATACATTTTTCACATGAAGATGCAAGGACAAAAT
ACCTTACAAATGGAAGGTAGAATCCAAATCCCAAATACAAGAAGTACGTTAGGAGAGGCAGACAT
CTGAAGAATAGATGAACACAATCCAAAGAGGAAGCATTATTTTGGAGCATGTTACCCAACCAACA
AGTTGTTTTGAAAATGAGAGAACGATTTTCAAAGT
Found at i:386790 original size:20 final size:20
Alignment explanation
Indices: 386767--386820 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
386757 CGGTGATTTG
386767 TAAAACCTCCGGGTCATCTA
1 TAAAACCTCCGGGTCATCTA
* *
386787 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCATCTA
*
386807 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
386821 ATGATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTA
Found at i:386905 original size:139 final size:136
Alignment explanation
Indices: 386649--386934 Score: 428
Period size: 139 Copynumber: 2.1 Consensus size: 136
386639 TCAACATATT
* * * *
386649 TATAAAACCTCTGGGTCATCTGTAAAGCCTCAGGGTAGGATGTTTTTATGAAATGAGAAAGCGGT
1 TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCATGAAATGAGAAAGCGAT
* *
386714 TACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTCGGTGATTTGTAAAACCTCCGG
66 TACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTCCGG
386779 GTCATC
131 GTCATC
* * *
386785 TATAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGT
1 TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT--CATG-AAATGAGAAAGC
* * *
386850 GATTACTAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTTTGGGTAATTTGTAAAACCTC
63 GATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTC
386915 CGGGTCATC
128 CGGGTCATC
*
386924 TGTAAAACCTC
1 TATAAAACCTC
386935 AGAGTAGGAT
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
136 42 0.32
138 3 0.02
139 88 0.66
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (136 bp):
TATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCATGAAATGAGAAAGCGAT
TACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTCGGTAATTTGTAAAACCTCCGG
GTCATC
Found at i:386919 original size:20 final size:20
Alignment explanation
Indices: 386896--386934 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
386886 TAAATCCTTT
*
386896 GGGTAATTTGTAAAACCTCC
1 GGGTAATCTGTAAAACCTCC
*
386916 GGGTCATCTGTAAAACCTC
1 GGGTAATCTGTAAAACCTC
386935 AGAGTAGGAT
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:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (20 bp):
GGGTAATCTGTAAAACCTCC
Found at i:387034 original size:20 final size:20
Alignment explanation
Indices: 387006--387060 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
386996 TCAAGAAAAT
* * *
387006 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* *
387026 TAAAACCTCTGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
387046 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
387061 GGATGTTTTC
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:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:387133 original size:119 final size:119
Alignment explanation
Indices: 386767--387396 Score: 1019
Period size: 119 Copynumber: 5.3 Consensus size: 119
386757 CGGTGATTTG
* * * * * *
386767 TAAAACCTCCGGGTCATCTATAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
*
386832 GCATGAAAATGAGAAAGTGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
** * *
386886 TAAATCCTTTGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGAGTAGGATTTTTTT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGA-TGTTTT
*
386951 CGCACGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 CGCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
387006 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
*
387071 GCATGAAAATGAGAAAACGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
387125 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCA-CTTGTAAAACCTCAGGGTATGATGTTTT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATC-TGTAAAACCTCAGGGTAGGATGTTTT
* *
387189 TGCATGAAAATGAGAAAGCGGTTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 CGCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * * *
387244 TAAATCCTCCGGGTAAATTGTAAATCCTCCGGGTCATCTGTAAAACCTCATGGTAAGATGTTTTC
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
* *
387309 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
387363 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGT
387397 AGGATGTTTT
Statistics
Matches: 473, Mismatches: 35, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.00
119 359 0.76
120 113 0.24
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
GCATGAAAATGAGAAAGCGATTACTAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:387153 original size:20 final size:20
Alignment explanation
Indices: 387125--387179 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
387115 TCAAGAAAAT
* *
387125 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAACTTG
*
387145 TAAAACCTCCGGGTCACTTG
1 TAAAACCTCCGGGTAACTTG
*
387165 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
387180 TGATGTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAACTTG
Found at i:387467 original size:100 final size:99
Alignment explanation
Indices: 387264--387496 Score: 342
Period size: 100 Copynumber: 2.3 Consensus size: 99
387254 GGGTAAATTG
* * *
387264 TAAATCCTCCGGGTCATCTGTAAAACCTCAT-GGTAAGATGTTTTCGCATGAAAATGAGAAAGCG
1 TAAATCCTCCGGGTAATTTGTAAAACCTC-TGGGTAAGATGTTTTCGCATGAAAACGAGAAAGCG
387328 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
65 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
*
387363 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAGGATGTTTTCGCATGAAAAACGAGAAAGCG
1 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAAGATGTTTTCGCATG-AAAACGAGAAAGCG
* ** *
387428 GTTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
65 ATTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
* * *
387463 TAAATCCTTCGAGTAATTTGTAAAACCTCCGGGT
1 TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGT
387497 CATTTATAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
98 1 0.01
99 45 0.37
100 75 0.62
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTAAGATGTTTTCGCATGAAAACGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATGATCAAGAAAAT
Found at i:387501 original size:20 final size:20
Alignment explanation
Indices: 387478--387590 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
387468 CCTTCGAGTA
387478 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* * *
387498 ATTTATAAATCCTCC-GGTG
1 ATTTGTAAAACCTCCGGGTC
387517 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAACCTCCGGGTC
* * * *
387537 ATCTATAAATCCTCCGGGTA
1 ATTTGTAAAACCTCCGGGTC
*
387557 ATTTGTAAAACCTCCGAGTC
1 ATTTGTAAAACCTCCGGGTC
*
387577 ATCTGTAAAACCTC
1 ATTTGTAAAACCTC
387591 TGGTATGATG
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 16 0.21
20 60 0.79
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (20 bp):
ATTTGTAAAACCTCCGGGTC
Found at i:387572 original size:40 final size:40
Alignment explanation
Indices: 387463--387590 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
387453 TCAAGAAAAT
* * *
387463 TAAATCCTTCGAGTAATTTGTAAAACCTCCGGGTCATTTA
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
*
387503 TAAATCCTCC-GGTGATTTGTAAAACCTCCGGGTCATCTA
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
* *
387542 TAAATCCTCCGGGTAATTTGTAAAACCTCCGAGTCATCTG
1 TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
*
387582 TAAAACCTC
1 TAAATCCTC
387591 TGGTATGATG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.46
40 43 0.54
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (40 bp):
TAAATCCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTA
Found at i:387746 original size:3 final size:3
Alignment explanation
Indices: 387738--387810 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
387728 TGAGACTATA
*
387738 TAT TAT TAT TAT TA- TAT TA- CAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
387784 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
387811 AAATCAAACA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 3 0.05
3 63 0.95
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:390640 original size:24 final size:23
Alignment explanation
Indices: 390558--390639 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
390548 TCTTATATGG
390558 CACTACGGTGCATTTCTACACGA
1 CACTACGGTGCATTTCTACACGA
390581 CACTACGGTGCATTTCTACACGA
1 CACTACGGTGCATTTCTACACGA
* * * *
390604 CACTTCGGTGCAAATTCTACATGG
1 CACTACGGTGC-ATTTCTACACGA
*
390628 CACTTCGGTGCA
1 CACTACGGTGCA
390640 ATTTATACGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 34 0.63
24 20 0.37
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (23 bp):
CACTACGGTGCATTTCTACACGA
Found at i:393481 original size:33 final size:31
Alignment explanation
Indices: 393442--393512 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 31
393432 TAAATTTGTT
393442 CCGACTTGAAAATATATATATCTTCCACCTGAC
1 CCGACTTGAAAATATATATA-C-TCCACCTGAC
*
393475 CCGACTTGAAAATATATATACTCCATCTGAC
1 CCGACTTGAAAATATATATACTCCACCTGAC
393506 CTCGACT
1 C-CGACT
393513 CGATCTAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 10 0.28
32 6 0.17
33 20 0.56
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (31 bp):
CCGACTTGAAAATATATATACTCCACCTGAC
Found at i:393493 original size:31 final size:33
Alignment explanation
Indices: 393442--393512 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
393432 TAAATTTGTT
393442 CCGACTTGAAAATATATATAT-CTTCCACCTGAC
1 CCGACTTGAAAATATATATATAC-TCCACCTGAC
*
393475 CCGACTTG-AAA-ATATATATACTCCATCTGAC
1 CCGACTTGAAAATATATATATACTCCACCTGAC
393506 CTCGACT
1 C-CGACT
393513 CGATCTAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 18 0.51
32 9 0.26
33 8 0.23
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (33 bp):
CCGACTTGAAAATATATATATACTCCACCTGAC
Found at i:393905 original size:18 final size:19
Alignment explanation
Indices: 393882--393917 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
393872 TAAGGACTAA
*
393882 TATAAA-TATTTTAAAATT
1 TATAAATTAATTTAAAATT
393900 TATAAATTAATTTAAAAT
1 TATAAATTAATTTAAAAT
393918 AAAGATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAATTAATTTAAAATT
Found at i:402173 original size:29 final size:29
Alignment explanation
Indices: 402122--402198 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
402112 TTCGATTCGG
* *
402122 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAACCGAACC-AAATTAATTTGAAAATTA
402152 TTAACCGAACCAAATTAATTTGAAAATTA
1 TTAACCGAACCAAATTAATTTGAAAATTA
*
402181 TTAACCGAACCGAATTAA
1 TTAACCGAACCAAATTAA
402199 CCAAAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 34 0.77
30 10 0.23
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (29 bp):
TTAACCGAACCAAATTAATTTGAAAATTA
Found at i:402206 original size:29 final size:29
Alignment explanation
Indices: 402145--402212 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
402135 AATTTATTTG
****
402145 AAAATTATTAACCGAACCAAATTAATTTG
1 AAAATTATTAACCGAACCAAATTAACCAA
*
402174 AAAATTATTAACCGAACCGAATTAACCAA
1 AAAATTATTAACCGAACCAAATTAACCAA
402203 AAAATT-TTAA
1 AAAATTATTAA
402213 ATTATTAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAATTATTAACCGAACCAAATTAACCAA
Found at i:402315 original size:29 final size:29
Alignment explanation
Indices: 402258--402338 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
402248 AAACCGATTT
*
402258 TTATTAATC-GAACCAGAATTTATTTGAAAA
1 TTATTAA-CAGAACCA-AATTAATTTGAAAA
402288 TTATTAACTA-AACCAAATTAATTTGAAAA
1 TTATTAAC-AGAACCAAATTAATTTGAAAA
402317 TTATTAACAGAACCAAATTAAT
1 TTATTAACAGAACCAAATTAAT
402339 CATTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 1 0.02
29 34 0.72
30 12 0.26
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (29 bp):
TTATTAACAGAACCAAATTAATTTGAAAA
Found at i:402452 original size:28 final size:29
Alignment explanation
Indices: 402407--402462 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
402397 ATCGAACAAA
*
402407 AATTTATTTGAAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTATTAACCGAACCG
402436 AATTAATTT-AAAATTATTAACCGAACC
1 AATTAATTTGAAAATTATTAACCGAACC
402463 AAATAAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCGAACCG
Found at i:402584 original size:29 final size:29
Alignment explanation
Indices: 402542--402605 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
402532 ATCGAACAAA
* * *
402542 AATTTATTTAAAAATTATTAACCTAACCG
1 AATTAATTTAAAAATCATTAACCGAACCG
* *
402571 AATTAATTTGAAAATCATTAACCGAACCT
1 AATTAATTTAAAAATCATTAACCGAACCG
402600 AATTAA
1 AATTAA
402606 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTAATTTAAAAATCATTAACCGAACCG
Found at i:402638 original size:272 final size:270
Alignment explanation
Indices: 402098--402735 Score: 793
Period size: 272 Copynumber: 2.3 Consensus size: 270
402088 CGATTAAAGA
*
402098 AAAAATTCGGTT-ATTTCGATTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAAC
1 AAAAATTCGGTTAATTT-GGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAAC
* * *
402162 CAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAAAAAATTTTAAATTATTAACGAATT
65 CGAATTAATTTGAAAATTATTAACCGAACCAAATAAACC--AAAATTTTAAATTATTAACGAATT
* * ** * * *
402227 AATCAAAGCAAAGATTTGGTTAAACCGATTTTTATTAATCGAACCAGAATTTATTTGAAAATTAT
128 AATCAAAGCAAAAATTCGGTTAAACCGATTTCGATTAATCGAACAAAAATTTATTTAAAAATTAT
* *
402292 TAACTAAACCAAATTAATTTGAAAATTATTAACAGAACCAAATTAATCATTTTTTTTTGAAAATT
193 TAACTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAATCATTTTTTTTTGAAAATG
* *
402357 TATTAATCGAAGC
258 AACTAATCGAAGC
* *
402370 GAAAATTCGGTTAATTTGGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCGAACC
1 AAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
* * *
402435 GAATTAATTT-AAAATTATTAACCGAACCAAATAAACC-GATTTTTTAATTATTAATCGAATTAA
66 GAATTAATTTGAAAATTATTAACCGAACCAAATAAACCAAAATTTTAAATTATTAA-CGAATTAA
* ** * *
402498 TCAAAGTAAAAATTCGGTTAATTCTA-TTCGGTTAATCGAACAAAAATTTATTTAAAAATTATTA
130 TCAAAGCAAAAATTCGGTTAAACCGATTTCGATTAATCGAACAAAAATTTATTTAAAAATTATTA
* * * * *
402562 ACCT-AACCGAATTAATTTGAAAATCATTAACCGAACCTAATTAACTGATTTTTTTAATT-ATTA
195 A-CTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAA-TCATTTTTTT--TTGA-AA
402625 ATCGAACTAATCGAAGC
255 AT-GAACTAATCGAAGC
* ** * * * *
402642 AAAAATTTGGTTAATTCAGTTCGGTTAATTGAACCAAAATTTCTTTGAAAATTATTAATCAAACC
1 AAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
* *
402707 GAATTAATTTGAAAATTAATAACCAAACC
66 GAATTAATTTGAAAATTATTAACCGAACC
402736 GAATTAACAA
Statistics
Matches: 316, Mismatches: 41, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
268 83 0.26
269 39 0.12
270 1 0.00
271 30 0.09
272 143 0.45
273 20 0.06
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.35
Consensus pattern (270 bp):
AAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
GAATTAATTTGAAAATTATTAACCGAACCAAATAAACCAAAATTTTAAATTATTAACGAATTAAT
CAAAGCAAAAATTCGGTTAAACCGATTTCGATTAATCGAACAAAAATTTATTTAAAAATTATTAA
CTAAACCAAATTAATTTGAAAATCATTAACAGAACCAAATTAATCATTTTTTTTTGAAAATGAAC
TAATCGAAGC
Found at i:402693 original size:137 final size:137
Alignment explanation
Indices: 402093--402752 Score: 739
Period size: 137 Copynumber: 4.8 Consensus size: 137
402083 ATTAACGATT
* *
402093 AAAGAAAAAATTCGGTTATTTC-GATTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
1 AAAGCAAAAATTCGGTTAATTCAG-TTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
* * ** *
402157 CGAACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAAAAAATTTTAAATTATTAA-
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAA-C-AAATTTTTTTAATTATTAAT
402221 CGAATTAATC
128 CGAATTAATC
* * ** * *** *
402231 AAAGCAAAGATTTGGTTAAACCGATTTTTATTAATCGAACCAGAATTTATTTGAAAATTATTAAC
1 AAAGCAAAAATTCGGTTAATTC-AGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
** * * *
402296 TAAACCAAATTAATTTGAAAATTATTAACAGAACCAAATTAATC--ATTTTTTT--TTGA-AAAT
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAA-CAAATTTTTTTAATT-ATTAAT
**
402356 -TTATTAATC
128 CGAATTAATC
* * ** *
402365 GAAGCGAAAATTCGGTTAATTTGGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACC
1 AAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
* **
402430 GAACCGAATTAATTT-AAAATTATTAACCGAACCAAATAAACCGA-TTTTTTAATTATTAATCGA
66 GAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAACAAATTTTTTTAATTATTAATCGA
402493 ATTAATC
131 ATTAATC
* * *
402500 AAAGTAAAAATTCGGTTAATTCTA-TTCGGTTAATCGAACAAAAATTTATTTAAAAATTATTAAC
1 AAAGCAAAAATTCGGTTAATTC-AGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
* * * **
402564 CTAACCGAATTAATTTGAAAATCATTAACCGAACCTAATTAACTGATTTTTTTAATTATTAATCG
65 CGAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAACAAATTTTTTTAATTATTAATCG
*
402629 AACTAATC
130 AATTAATC
* * * * *
402637 GAAGCAAAAATTTGGTTAATTCAGTTCGGTTAATTGAACCAAAATTTCTTTGAAAATTATTAATC
1 AAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
* * * *
402702 AAACCGAATTAATTTGAAAATTAATAACCAAACCGAATTAACAAATTTTTT
66 GAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAACAAATTTTTT
402753 CTTTAACCAT
Statistics
Matches: 437, Mismatches: 71, Indels: 29
0.81 0.13 0.05
Matches are distributed among these distances:
131 1 0.00
132 29 0.07
133 50 0.11
134 31 0.07
135 80 0.18
136 31 0.07
137 124 0.28
138 16 0.04
139 75 0.17
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (137 bp):
AAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACC
GAACCGAATTAATTTGAAAATTATTAACCGAACCAAATTAACAAATTTTTTTAATTATTAATCGA
ATTAATC
Found at i:402717 original size:29 final size:29
Alignment explanation
Indices: 402685--402742 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
402675 CCAAAATTTC
* *
402685 TTTGAAAATTATTAATCAAACCGAATTAA
1 TTTGAAAATTAATAACCAAACCGAATTAA
402714 TTTGAAAATTAATAACCAAACCGAATTAA
1 TTTGAAAATTAATAACCAAACCGAATTAA
402743 CAAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (29 bp):
TTTGAAAATTAATAACCAAACCGAATTAA
Done.