Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 122 of 141
Found at i:36192382 original size:39 final size:40
Alignment explanation
Indices: 36192287--36192509 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
36192277 TTGGATGATG
*
36192287 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
36192325 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
36192366 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
36192405 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
36192444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
36192483 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36192510 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36192473 original size:79 final size:81
Alignment explanation
Indices: 36192287--36192509 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
36192277 TTGGATGATG
* * *
36192287 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36192349 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
36192366 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36192427 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
36192444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
36192508 TG
66 TG
36192510 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:36192531 original size:79 final size:79
Alignment explanation
Indices: 36192287--36192542 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
36192277 TTGGATGATG
* * * *
36192287 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
36192348 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
36192366 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
36192430 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
36192444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
36192507 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
36192524 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36192543 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:36200468 original size:12 final size:12
Alignment explanation
Indices: 36200451--36200485 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
36200441 CATGTCACCT
*
36200451 CCAAACTGATGG
1 CCAAACTGAAGG
36200463 CCAAACTGAAGG
1 CCAAACTGAAGG
36200475 CCAAACTGAAG
1 CCAAACTGAAG
36200486 TAGTTAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (12 bp):
CCAAACTGAAGG
Found at i:36203971 original size:23 final size:24
Alignment explanation
Indices: 36203945--36203992 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
36203935 TCCTTTCCAC
36203945 TCGATTTC-TTTTCAAGCTCTTTT
1 TCGATTTCTTTTTCAAGCTCTTTT
*
36203968 TCGATTTCTTTTTCAATCTCTTTT
1 TCGATTTCTTTTTCAAGCTCTTTT
36203992 T
1 T
36203993 GTTTTTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.60
Consensus pattern (24 bp):
TCGATTTCTTTTTCAAGCTCTTTT
Found at i:36203991 original size:11 final size:12
Alignment explanation
Indices: 36203953--36203992 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
36203943 ACTCGATTTC
*
36203953 TTTTCAAGCTCT
1 TTTTCAATCTCT
* *
36203965 TTTTCGATTTCT
1 TTTTCAATCTCT
36203977 TTTTCAATCTCT
1 TTTTCAATCTCT
36203989 TTTT
1 TTTT
36203993 GTTTTTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.05, T:0.62
Consensus pattern (12 bp):
TTTTCAATCTCT
Found at i:36204014 original size:16 final size:18
Alignment explanation
Indices: 36203976--36204015 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
36203966 TTTCGATTTC
36203976 TTTTTCAATCTCTTTTTG
1 TTTTTCAATCTCTTTTTG
*
36203994 TTTTTCACTCTC-TTTTG
1 TTTTTCAATCTCTTTTTG
36204011 TTTTT
1 TTTTT
36204016 GAAATCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTCAATCTCTTTTTG
Found at i:36204023 original size:18 final size:18
Alignment explanation
Indices: 36203976--36204028 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
36203966 TTTCGATTTC
* *
36203976 TTTTTCAATCTCTTTTTG
1 TTTTTAAATCTCATTTTG
* *
36203994 TTTTTCACTCTC-TTTTG
1 TTTTTAAATCTCATTTTG
36204011 TTTTTGAAATCTCATTTT
1 TTTTT-AAATCTCATTTT
36204029 CATATTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.33
18 16 0.53
19 4 0.13
ACGTcount: A:0.13, C:0.17, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTAAATCTCATTTTG
Found at i:36204053 original size:15 final size:15
Alignment explanation
Indices: 36204022--36204068 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
36204012 TTTTGAAATC
36204022 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
36204037 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
*
36204052 TCATTGTCATTTTCTT
1 TCATTTTCA-TTTCTT
36204068 T
1 T
36204069 GTTCTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.68
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:36208975 original size:21 final size:21
Alignment explanation
Indices: 36208936--36208975 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36208926 GAAATTATGT
*
36208936 AAGAAACGAGTGTAATTGAAA
1 AAGAAACGAGAGTAATTGAAA
* *
36208957 AAGAAATGAGAGTAGTTGA
1 AAGAAACGAGAGTAATTGA
36208976 GTTTTCTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.20
Consensus pattern (21 bp):
AAGAAACGAGAGTAATTGAAA
Found at i:36210727 original size:27 final size:27
Alignment explanation
Indices: 36210695--36210746 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
36210685 CATGCGGTTT
36210695 AGCTCACTT-GAGCTCAAGTCAGCTCTC
1 AGCTCA-TTCGAGCTCAAGTCAGCTCTC
*
36210722 AGCTCATTCGAGCTCAATTCAGCTC
1 AGCTCATTCGAGCTCAAGTCAGCTC
36210747 GTTCGAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (27 bp):
AGCTCATTCGAGCTCAAGTCAGCTCTC
Found at i:36210735 original size:10 final size:10
Alignment explanation
Indices: 36210722--36210778 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
36210712 GTCAGCTCTC
36210722 AGCTCATTCG
1 AGCTCATTCG
36210732 AGCTCAATTC-
1 AGCTC-ATTCG
*
36210742 AGCTCGTTCG
1 AGCTCATTCG
*
36210752 AGCTCAATT-T
1 AGCTC-ATTCG
36210762 AGCTCATT-G
1 AGCTCATTCG
36210771 AGCTCATT
1 AGCTCATT
36210779 ATTAGCACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.35
10 20 0.50
11 6 0.15
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (10 bp):
AGCTCATTCG
Found at i:36210745 original size:20 final size:20
Alignment explanation
Indices: 36210720--36210776 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
36210710 AAGTCAGCTC
36210720 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAT
*
36210740 TCAGCTCGTTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAT
*
36210760 TTAGCTCATT-GAGCTCA
1 TCAGCTCATTCGAGCTCA
36210777 TTATTAGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 7 0.21
20 27 0.79
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAT
Found at i:36210783 original size:20 final size:21
Alignment explanation
Indices: 36210722--36210797 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 21
36210712 GTCAGCTCTC
36210722 AGCTCATTCGAGCTCA--ATT
1 AGCTCATTCGAGCTCATTATT
* *
36210741 CAGCTCGTTCGAGCTCAAT-TT
1 -AGCTCATTCGAGCTCATTATT
36210762 AGCTCATT-GAGCTCATTATT
1 AGCTCATTCGAGCTCATTATT
*
36210782 AGCAC-TTC-AGCTCATT
1 AGCTCATTCGAGCTCATT
36210798 GAATTTATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
19 18 0.38
20 28 0.58
21 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (21 bp):
AGCTCATTCGAGCTCATTATT
Found at i:36211594 original size:67 final size:67
Alignment explanation
Indices: 36211486--36211614 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
36211476 TAGGAAAATA
36211486 GTTAGAAGGCCTATATGTATGGCTTGGCCAGCCACCCTTATACACATTACACTTGAAGAATAGAT
1 GTTAGAAGGCCTATATGTATGGCTTGGCCAGCCACCCTTATACACATTACACTTGAAGAATAGAT
36211551 CG
66 CG
36211553 GTTAGAAGGCCTATATGTATGGCTTGGCCAGCCACCCTTATACACATTACACTTGAAGAATA
1 GTTAGAAGGCCTATATGTATGGCTTGGCCAGCCACCCTTATACACATTACACTTGAAGAATA
36211615 CATTGAAATC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (67 bp):
GTTAGAAGGCCTATATGTATGGCTTGGCCAGCCACCCTTATACACATTACACTTGAAGAATAGAT
CG
Found at i:36223882 original size:19 final size:20
Alignment explanation
Indices: 36223850--36223887 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
36223840 CAAGCTGATT
36223850 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
36223870 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
36223888 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:36223895 original size:20 final size:19
Alignment explanation
Indices: 36223852--36223897 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
36223842 AGCTGATTTT
* *
36223852 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCCATC
36223872 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTCAGCTCC-ATC
36223892 AGCTCA
1 AGCTCA
36223898 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
AGCTCATTTCAGCTCCATC
Found at i:36228877 original size:96 final size:97
Alignment explanation
Indices: 36228712--36228903 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 97
36228702 CAAATCAATG
36228712 TAAGTTTGTAGCCTCAATGTATTAGCTATCGGCCTGTTCAAACCATCAATAAATCGAACCATAGT
1 TAAGTTTGTAGCCTCAATGTATTAGCTATCGGCCTGTTCAAACCATCAATAAATCGAACCATAGT
*
36228777 TGTTTCTTCATCCTCCTCCACATTAGCTCTCA
66 TGTTTCCTCATCCTCCTCCACATTAGCTCTCA
*
36228809 TAAGTTTGTAG-CTCAATGTATTAGTTATCGGCCTGTTCAAACCATCAATAAATCGAACCATAGT
1 TAAGTTTGTAGCCTCAATGTATTAGCTATCGGCCTGTTCAAACCATCAATAAATCGAACCATAGT
36228873 TGTTTCCTCATCCTCCTCCACATTAGCTCTC
66 TGTTTCCTCATCCTCCTCCACATTAGCTCTC
36228904 TGAACGACCA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 82 0.88
97 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (97 bp):
TAAGTTTGTAGCCTCAATGTATTAGCTATCGGCCTGTTCAAACCATCAATAAATCGAACCATAGT
TGTTTCCTCATCCTCCTCCACATTAGCTCTCA
Found at i:36233814 original size:15 final size:15
Alignment explanation
Indices: 36233787--36233826 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
36233777 CAGTTTTTCA
*
36233787 CTCACTTTTTCTTTT
1 CTCACTTTCTCTTTT
36233802 -TCATCTTTCTCTTTT
1 CTCA-CTTTCTCTTTT
36233817 CTCACTTTCT
1 CTCACTTTCT
36233827 TTTCACTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.62
Consensus pattern (15 bp):
CTCACTTTCTCTTTT
Found at i:36233859 original size:19 final size:20
Alignment explanation
Indices: 36233835--36233878 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
36233825 CTTTTCACTC
36233835 TCTTTTT-TCAGATTTTC-TT
1 TCTTTTTCTCA-ATTTTCTTT
*
36233854 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTCTCAATTTTCTTT
36233874 TCTTT
1 TCTTT
36233879 ATTTTCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (20 bp):
TCTTTTTCTCAATTTTCTTT
Found at i:36233892 original size:23 final size:20
Alignment explanation
Indices: 36233847--36233897 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
36233837 TTTTTTCAGA
36233847 TTTTC-TTTCTTTTTCTCAT
1 TTTTCTTTTCTTTTTCTCAT
*
36233866 TTTTCTTTTCTTTATTTTCACT
1 TTTTCTTTTCTTT-TTCTCA-T
36233888 CTTTTCTTTT
1 -TTTTCTTTT
36233898 TCTCTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 7 0.26
21 5 0.19
22 1 0.04
23 9 0.33
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTCTCAT
Found at i:36233892 original size:24 final size:23
Alignment explanation
Indices: 36233847--36233897 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
36233837 TTTTTTCAGA
* *
36233847 TTTTCTTTCTTTTTCTCATTTTTC
1 TTTTCTTTATTTTACTCA-TTTTC
36233871 TTTTCTTTATTTTCACTC-TTTTC
1 TTTTCTTTATTTT-ACTCATTTTC
36233894 TTTT
1 TTTT
36233898 TCTCTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCTTTATTTTACTCATTTTC
Found at i:36235617 original size:14 final size:14
Alignment explanation
Indices: 36235598--36235624 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36235588 CATAAAAAAT
36235598 AAAAACCTCACAAC
1 AAAAACCTCACAAC
36235612 AAAAACCTCACAA
1 AAAAACCTCACAA
36235625 ATCTCTCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAACCTCACAAC
Found at i:36254173 original size:21 final size:22
Alignment explanation
Indices: 36254128--36254173 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
36254118 AGAGAAAAAT
*
36254128 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
36254150 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
36254171 AAA
1 AAA
36254174 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:36258542 original size:28 final size:27
Alignment explanation
Indices: 36258506--36258559 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
36258496 CTTCTTAGGA
* *
36258506 CTTTATCTTTACTATTTTCTTGTTGTT
1 CTTTATCTTTACTAATTTCTGGTTGTT
*
36258533 CTTTCATCTTTATTAATTTCTGGTTGT
1 CTTT-ATCTTTACTAATTTCTGGTTGT
36258560 GCTGATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (27 bp):
CTTTATCTTTACTAATTTCTGGTTGTT
Found at i:36260541 original size:30 final size:28
Alignment explanation
Indices: 36260494--36260575 Score: 112
Period size: 30 Copynumber: 2.9 Consensus size: 28
36260484 ATTCGGCATT
* *
36260494 GACTAAGACACATTAAAAACATGCAATA
1 GACTTAGACAAATTAAAAACATGCAATA
*
36260522 GACTTAGAAACATATTAAAAACATGCAATA
1 GACTTAG--ACAAATTAAAAACATGCAATA
36260552 GACTTAGACAAATT-AAAACATGCA
1 GACTTAGACAAATTAAAAACATGCA
36260576 TTAAGAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 10 0.20
28 12 0.24
30 27 0.55
ACGTcount: A:0.52, C:0.16, G:0.11, T:0.21
Consensus pattern (28 bp):
GACTTAGACAAATTAAAAACATGCAATA
Found at i:36260735 original size:20 final size:20
Alignment explanation
Indices: 36260710--36260757 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
36260700 AACTAAAGGA
*
36260710 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAACGAGCTCATTG
*
36260730 AGCTAAGAACGAGCTCATTG
1 AGCTAAAAACGAGCTCATTG
36260750 AGCTAAAA
1 AGCTAAAA
36260758 TTAGCTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
AGCTAAAAACGAGCTCATTG
Found at i:36265211 original size:20 final size:20
Alignment explanation
Indices: 36265186--36265240 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
36265176 AACTAAAGTA
36265186 AGCTAAAAATAAGCTCATTG
1 AGCTAAAAATAAGCTCATTG
* **
36265206 AGCTAAGAACGAGCTCATTG
1 AGCTAAAAATAAGCTCATTG
*
36265226 AGCTAAAATTAAGCT
1 AGCTAAAAATAAGCT
36265241 GAATTGAACT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (20 bp):
AGCTAAAAATAAGCTCATTG
Found at i:36265454 original size:12 final size:12
Alignment explanation
Indices: 36265437--36265467 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
36265427 AATTTGATTT
36265437 AATGTGTAATTC
1 AATGTGTAATTC
36265449 AATGTGTAATTC
1 AATGTGTAATTC
36265461 AATGTGT
1 AATGTGT
36265468 TTAAGGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (12 bp):
AATGTGTAATTC
Found at i:36271823 original size:21 final size:21
Alignment explanation
Indices: 36271789--36271829 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36271779 AAAATACAAG
*
36271789 TGAAAAAGAAGAAAATGAAAA
1 TGAAAAAGAAGAAAAGGAAAA
**
36271810 TGAAAAAGGTGAAAAGGAAA
1 TGAAAAAGAAGAAAAGGAAA
36271830 GCAAGAGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (21 bp):
TGAAAAAGAAGAAAAGGAAAA
Found at i:36278691 original size:20 final size:20
Alignment explanation
Indices: 36278663--36278707 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
36278653 GCTGATAAAA
* *
36278663 AGCTAAATTGAGCTTAAATG
1 AGCTGAATTGAGCTCAAATG
36278683 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
36278703 AGCTG
1 AGCTG
36278708 GTTGGAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAATG
Found at i:36278715 original size:20 final size:20
Alignment explanation
Indices: 36278663--36278726 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
36278653 GCTGATAAAA
* *
36278663 AGCTAAATTGAGCTTAAATG
1 AGCTGAATTGAGCTAAAATG
*
36278683 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTAAAATG
* *
36278703 AGCTG-GTTGGAGCTAAAAAG
1 AGCTGAATT-GAGCTAAAATG
36278723 AGCT
1 AGCT
36278727 AGGGAAGCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 2 0.05
20 36 0.95
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (20 bp):
AGCTGAATTGAGCTAAAATG
Found at i:36279790 original size:216 final size:216
Alignment explanation
Indices: 36279416--36279847 Score: 864
Period size: 216 Copynumber: 2.0 Consensus size: 216
36279406 TTTATATTCG
36279416 CGCCTTAAACAGTTTAGGTGGTTGTACATGAAGCTTGAGTTCCATTTGACAAAGGTTAACTCAAA
1 CGCCTTAAACAGTTTAGGTGGTTGTACATGAAGCTTGAGTTCCATTTGACAAAGGTTAACTCAAA
36279481 AACAAAGCTTCGACTACACTATGCCCCCGATGAGCGAAGGTTTGTATTAAATGGAAAAGGTAAAA
66 AACAAAGCTTCGACTACACTATGCCCCCGATGAGCGAAGGTTTGTATTAAATGGAAAAGGTAAAA
36279546 TCGACCCTTCTTCTTCTGCTCATAAAGGTACGATGCTTGAAACTTTTGAAACACTTTTCTACTCC
131 TCGACCCTTCTTCTTCTGCTCATAAAGGTACGATGCTTGAAACTTTTGAAACACTTTTCTACTCC
36279611 TCGGATAGTGACAAAGATCGT
196 TCGGATAGTGACAAAGATCGT
36279632 CGCCTTAAACAGTTTAGGTGGTTGTACATGAAGCTTGAGTTCCATTTGACAAAGGTTAACTCAAA
1 CGCCTTAAACAGTTTAGGTGGTTGTACATGAAGCTTGAGTTCCATTTGACAAAGGTTAACTCAAA
36279697 AACAAAGCTTCGACTACACTATGCCCCCGATGAGCGAAGGTTTGTATTAAATGGAAAAGGTAAAA
66 AACAAAGCTTCGACTACACTATGCCCCCGATGAGCGAAGGTTTGTATTAAATGGAAAAGGTAAAA
36279762 TCGACCCTTCTTCTTCTGCTCATAAAGGTACGATGCTTGAAACTTTTGAAACACTTTTCTACTCC
131 TCGACCCTTCTTCTTCTGCTCATAAAGGTACGATGCTTGAAACTTTTGAAACACTTTTCTACTCC
36279827 TCGGATAGTGACAAAGATCGT
196 TCGGATAGTGACAAAGATCGT
36279848 GTTGATGATT
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 216 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (216 bp):
CGCCTTAAACAGTTTAGGTGGTTGTACATGAAGCTTGAGTTCCATTTGACAAAGGTTAACTCAAA
AACAAAGCTTCGACTACACTATGCCCCCGATGAGCGAAGGTTTGTATTAAATGGAAAAGGTAAAA
TCGACCCTTCTTCTTCTGCTCATAAAGGTACGATGCTTGAAACTTTTGAAACACTTTTCTACTCC
TCGGATAGTGACAAAGATCGT
Found at i:36285470 original size:18 final size:20
Alignment explanation
Indices: 36285449--36285498 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
36285439 AAAAGAAGAC
36285449 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
36285467 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
36285487 AGAAAAAAGAGA
1 AG-AAAAAGAGA
36285499 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:36293878 original size:231 final size:232
Alignment explanation
Indices: 36293461--36293883 Score: 509
Period size: 231 Copynumber: 1.8 Consensus size: 232
36293451 CTAGACGCTT
* * * * *
36293461 GGATCTGAAACGAAAGTAGAAAATCAATCTTAGCAGCAATAGATCTATAAAGAAACGCCACAAAA
1 GGATCTGAAACGAAAGCAGAAAATCAAACTTAGAAGCAACAGATCTATAAAGAAACACCACAAAA
* * * * *
36293526 CAAGAATGAATCAGACAATAATCAAAATACTTATTAATAGGGTTGTTTGGACGCAACGAAAACAA
66 CAAGAAAGAATCAAACAAGAATCAAAATACTTATTAATAGGGTTGCTTGGAAGCAACGAAAACAA
* * * * *
36293591 AATTTAACTTCAATAAAAGAATCCCCAAGCCGAATCTGACAAGGAGAACCCAAAACAGAAAATTA
131 AATTGAACTTCAAGAAAAG-ATCCCAAAGCCGAATCTGACAAGGAGAACACAAAACAAAAAATTA
36293656 AACTAAAAAATCCAGCAAAACAAATTGAATCTGAATTA
195 AACTAAAAAATCCAGCAAAACAAATTGAATCTGAATTA
* *
36293694 GGATCTGAAACGAAA-CAGAAAATTAAACTTAGAATCAACAGATCTA-AAACGAAACACC-CAAA
1 GGATCTGAAACGAAAGCAGAAAATCAAACTTAGAAGCAACAGATCTATAAA-GAAACACCACAAA
* ** *
36293756 ACAATAAAGAATCAAACAAGAATTGAAATACTTATTAATAGGGATT-CTTGGAAGCCAA-GAACA
65 ACAAGAAAGAATCAAACAAGAATCAAAATACTTATTAATAGGG-TTGCTTGGAAG-CAACGAAAA
* * * *
36293819 CGAAATTGAACTTCGAGGAAAG-TCTCCAATTAGCCGAATCTGACAAGTA-AACACAAAACAAAA
128 CAAAATTGAACTTCAAGAAAAGATC-CCAA--AGCCGAATCTGACAAGGAGAACACAAAACAAAA
36293882 AA
190 AA
36293884 ATAGACTGAA
Statistics
Matches: 159, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
229 2 0.01
230 3 0.02
231 85 0.53
232 54 0.34
233 15 0.09
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (232 bp):
GGATCTGAAACGAAAGCAGAAAATCAAACTTAGAAGCAACAGATCTATAAAGAAACACCACAAAA
CAAGAAAGAATCAAACAAGAATCAAAATACTTATTAATAGGGTTGCTTGGAAGCAACGAAAACAA
AATTGAACTTCAAGAAAAGATCCCAAAGCCGAATCTGACAAGGAGAACACAAAACAAAAAATTAA
ACTAAAAAATCCAGCAAAACAAATTGAATCTGAATTA
Found at i:36298811 original size:749 final size:749
Alignment explanation
Indices: 36297373--36298871 Score: 2998
Period size: 749 Copynumber: 2.0 Consensus size: 749
36297363 GATCTCAGTT
36297373 AAGGCACAGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGATACGACCCAATAAGATGTTCCAA
1 AAGGCACAGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGATACGACCCAATAAGATGTTCCAA
36297438 GCCCAACCAAGAAGTTTAAATTAGACTTAGTTGAAACTCAGGCCAAATTGTCAAAGTGGCCCAAT
66 GCCCAACCAAGAAGTTTAAATTAGACTTAGTTGAAACTCAGGCCAAATTGTCAAAGTGGCCCAAT
36297503 TTGTTAAATTTTAATTCTTTAAATATTTAGTTTTAATTTTTAGACCTTATGAATAAATTTCTATG
131 TTGTTAAATTTTAATTCTTTAAATATTTAGTTTTAATTTTTAGACCTTATGAATAAATTTCTATG
36297568 TAAAAATTCAGTCCAAGATGCCCATTTAAAGGCCTTGGACCAAATTTTGTTTTCCTAGTAGGGCT
196 TAAAAATTCAGTCCAAGATGCCCATTTAAAGGCCTTGGACCAAATTTTGTTTTCCTAGTAGGGCT
36297633 AGGAAAGTAGTTAGAAGGCTTATATGTATGGCTTGGCCAGCCACCCTTAGGAGATTACATTGAAT
261 AGGAAAGTAGTTAGAAGGCTTATATGTATGGCTTGGCCAGCCACCCTTAGGAGATTACATTGAAT
36297698 ATCACATTGGATTCAGATTTTTGTTGAGTGAAAATTCTCTTTGAGTTTCTCCAAGAATTTTCTCT
326 ATCACATTGGATTCAGATTTTTGTTGAGTGAAAATTCTCTTTGAGTTTCTCCAAGAATTTTCTCT
36297763 TGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCTGCCTTCTTC
391 TGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCTGCCTTCTTC
36297828 TTGCCGTGTTTTTACATTGGAGGGTAGATTCGAGCCGGTTGAAGAGAGTTGTGAAATATTTATTG
456 TTGCCGTGTTTTTACATTGGAGGGTAGATTCGAGCCGGTTGAAGAGAGTTGTGAAATATTTATTG
36297893 ATTTCAAGGCTTCTTAGGACTTAATTATCTTTCTTGCTGTTTGTTCTTCTTTAATTATTTTTTTA
521 ATTTCAAGGCTTCTTAGGACTTAATTATCTTTCTTGCTGTTTGTTCTTCTTTAATTATTTTTTTA
36297958 TTTGTGTTGAATTGTTGATTAACTTGGCGTGATTGTTCTTGTTGCGTTTCCAGCCATTCCAAGCT
586 TTTGTGTTGAATTGTTGATTAACTTGGCGTGATTGTTCTTGTTGCGTTTCCAGCCATTCCAAGCT
36298023 TCAAGAGTTTGTTTTGGCAACATTCTTTGGCGTTAATAAACATTAAGTTTTTGGGAGTCTTTCTG
651 TCAAGAGTTTGTTTTGGCAACATTCTTTGGCGTTAATAAACATTAAGTTTTTGGGAGTCTTTCTG
36298088 AGTTAAATTTCGGTTTCTTTGCTTCCAAGAAACC
716 AGTTAAATTTCGGTTTCTTTGCTTCCAAGAAACC
36298122 AAGGCACAGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGATACGACCCAATAAGATGTTCCAA
1 AAGGCACAGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGATACGACCCAATAAGATGTTCCAA
36298187 GCCCAACCAAGAAGTTTAAATTAGACTTAGTTGAAACTCAGGCCAAATTGTCAAAGTGGCCCAAT
66 GCCCAACCAAGAAGTTTAAATTAGACTTAGTTGAAACTCAGGCCAAATTGTCAAAGTGGCCCAAT
36298252 TTGTTAAATTTTAATTCTTTAAATATTTAGTTTTAATTTTTAGACCTTATGAATAAATTTCTATG
131 TTGTTAAATTTTAATTCTTTAAATATTTAGTTTTAATTTTTAGACCTTATGAATAAATTTCTATG
36298317 TAAAAATTCAGTCCAAGATGCCCATTTAAAGGCCTTGGACCAAATTTTGTTTTCCTAGTAGGGCT
196 TAAAAATTCAGTCCAAGATGCCCATTTAAAGGCCTTGGACCAAATTTTGTTTTCCTAGTAGGGCT
36298382 AGGAAAGTAGTTAGAAGGCTTATATGTATGGCTTGGCCAGCCACCCTTAGGAGATTACATTGAAT
261 AGGAAAGTAGTTAGAAGGCTTATATGTATGGCTTGGCCAGCCACCCTTAGGAGATTACATTGAAT
36298447 ATCACATTGGATTCAGATTTTTGTTGAGTGAAAATTCTCTTTGAGTTTCTCCAAGAATTTTCTCT
326 ATCACATTGGATTCAGATTTTTGTTGAGTGAAAATTCTCTTTGAGTTTCTCCAAGAATTTTCTCT
36298512 TGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCTGCCTTCTTC
391 TGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCTGCCTTCTTC
36298577 TTGCCGTGTTTTTACATTGGAGGGTAGATTCGAGCCGGTTGAAGAGAGTTGTGAAATATTTATTG
456 TTGCCGTGTTTTTACATTGGAGGGTAGATTCGAGCCGGTTGAAGAGAGTTGTGAAATATTTATTG
36298642 ATTTCAAGGCTTCTTAGGACTTAATTATCTTTCTTGCTGTTTGTTCTTCTTTAATTATTTTTTTA
521 ATTTCAAGGCTTCTTAGGACTTAATTATCTTTCTTGCTGTTTGTTCTTCTTTAATTATTTTTTTA
36298707 TTTGTGTTGAATTGTTGATTAACTTGGCGTGATTGTTCTTGTTGCGTTTCCAGCCATTCCAAGCT
586 TTTGTGTTGAATTGTTGATTAACTTGGCGTGATTGTTCTTGTTGCGTTTCCAGCCATTCCAAGCT
36298772 TCAAGAGTTTGTTTTGGCAACATTCTTTGGCGTTAATAAACATTAAGTTTTTGGGAGTCTTTCTG
651 TCAAGAGTTTGTTTTGGCAACATTCTTTGGCGTTAATAAACATTAAGTTTTTGGGAGTCTTTCTG
36298837 AGTTAAATTTCGGTTTCTTTGCTTCCAAGAAACC
716 AGTTAAATTTCGGTTTCTTTGCTTCCAAGAAACC
36298871 A
1 A
36298872 TATTAATAAG
Statistics
Matches: 750, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
749 750 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (749 bp):
AAGGCACAGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGATACGACCCAATAAGATGTTCCAA
GCCCAACCAAGAAGTTTAAATTAGACTTAGTTGAAACTCAGGCCAAATTGTCAAAGTGGCCCAAT
TTGTTAAATTTTAATTCTTTAAATATTTAGTTTTAATTTTTAGACCTTATGAATAAATTTCTATG
TAAAAATTCAGTCCAAGATGCCCATTTAAAGGCCTTGGACCAAATTTTGTTTTCCTAGTAGGGCT
AGGAAAGTAGTTAGAAGGCTTATATGTATGGCTTGGCCAGCCACCCTTAGGAGATTACATTGAAT
ATCACATTGGATTCAGATTTTTGTTGAGTGAAAATTCTCTTTGAGTTTCTCCAAGAATTTTCTCT
TGAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCTGCCTTCTTC
TTGCCGTGTTTTTACATTGGAGGGTAGATTCGAGCCGGTTGAAGAGAGTTGTGAAATATTTATTG
ATTTCAAGGCTTCTTAGGACTTAATTATCTTTCTTGCTGTTTGTTCTTCTTTAATTATTTTTTTA
TTTGTGTTGAATTGTTGATTAACTTGGCGTGATTGTTCTTGTTGCGTTTCCAGCCATTCCAAGCT
TCAAGAGTTTGTTTTGGCAACATTCTTTGGCGTTAATAAACATTAAGTTTTTGGGAGTCTTTCTG
AGTTAAATTTCGGTTTCTTTGCTTCCAAGAAACC
Found at i:36302005 original size:16 final size:15
Alignment explanation
Indices: 36301979--36302008 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36301969 GCCATCAATT
36301979 ACCTTTTTCTATCCC
1 ACCTTTTTCTATCCC
36301994 ACCTTGTTTCTATCC
1 ACCTT-TTTCTATCC
36302009 TTAACCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.37, G:0.03, T:0.47
Consensus pattern (15 bp):
ACCTTTTTCTATCCC
Found at i:36304512 original size:18 final size:16
Alignment explanation
Indices: 36304486--36304525 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
36304476 ATTTTCTCTC
*
36304486 TTTTATTTTTCAACATCT
1 TTTTCTTTTTCAA-AT-T
36304504 TTTTCTTTTTCAAATT
1 TTTTCTTTTTCAAATT
36304520 TTTTCT
1 TTTTCT
36304526 CAATCTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTCTTTTTCAAATT
Found at i:36304544 original size:6 final size:6
Alignment explanation
Indices: 36304535--36304654 Score: 60
Period size: 6 Copynumber: 19.5 Consensus size: 6
36304525 TCAATCTCAA
* * * * ** **
36304535 TTTCTT TTTCAATT TTTGTT TCTTCGT TTTATT TTTCTC TCACTT TTTCAA
1 TTTCTT TTTC--TT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * * *
36304586 TTTCTT TTTCTT TTGCAA TTTCTT TTTATT TTTCAT TTTCAT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* **
36304634 CTTCAC TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTT
36304655 ATTCTTTTTC
Statistics
Matches: 79, Mismatches: 32, Indels: 6
0.68 0.27 0.05
Matches are distributed among these distances:
6 70 0.89
7 4 0.05
8 5 0.06
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTCTT
Found at i:36304592 original size:12 final size:12
Alignment explanation
Indices: 36304586--36304669 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
36304576 ACTTTTTCAA
*
36304586 TTTCTTTTTCTT
1 TTTCATTTTCTT
* *
36304598 TTGCAATTTCTT
1 TTTCATTTTCTT
*
36304610 TTT-ATTTTTCAT
1 TTTCA-TTTTCTT
36304622 TTTCATTTTCTT
1 TTTCATTTTCTT
* *
36304634 CTTCACTTTCTT
1 TTTCATTTTCTT
*
36304646 TTTCTTTTTATTCTT
1 TTTC--ATT-TTCTT
36304661 TTTCATTTT
1 TTTCATTTT
36304670 TATTACAATG
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
11 1 0.02
12 40 0.74
13 3 0.06
14 1 0.02
15 9 0.17
ACGTcount: A:0.10, C:0.17, G:0.01, T:0.73
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:36304598 original size:18 final size:18
Alignment explanation
Indices: 36304577--36304670 Score: 104
Period size: 18 Copynumber: 5.3 Consensus size: 18
36304567 TTTTCTCTCA
36304577 CTTTTTCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
36304595 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
* * *
36304613 ATTTTTCATTTTCATTTT
1 CTTTTTCAATTTCTTTTT
* *
36304631 CTTCTTCACTTTCTTTTT
1 CTTTTTCAATTTCTTTTT
36304649 CTTTTT--A-TTCTTTTT
1 CTTTTTCAATTTCTTTTT
36304664 CATTTTT
1 C-TTTTT
36304671 ATTACAATGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
15 9 0.14
16 5 0.08
18 50 0.78
ACGTcount: A:0.11, C:0.17, G:0.01, T:0.71
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:36304659 original size:15 final size:16
Alignment explanation
Indices: 36304641--36304673 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
36304631 CTTCTTCACT
36304641 TTCTTTTTC-TTTTTA
1 TTCTTTTTCATTTTTA
36304656 TTCTTTTTCATTTTTA
1 TTCTTTTTCATTTTTA
36304672 TT
1 TT
36304674 ACAATGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
TTCTTTTTCATTTTTA
Found at i:36306327 original size:11 final size:11
Alignment explanation
Indices: 36306297--36306330 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
36306287 GAAGAGCCAT
36306297 ATGGTGTGAAC
1 ATGGTGTGAAC
36306308 ATGGT-TGAAC
1 ATGGTGTGAAC
36306318 ATGGTGTGAAC
1 ATGGTGTGAAC
36306329 AT
1 AT
36306331 CTTTATGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:36310527 original size:17 final size:17
Alignment explanation
Indices: 36310469--36310527 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
36310459 GGAAATTACG
*
36310469 AAAAAAAAGAGTACGAAGT
1 AAAAAAAA-A-TAAGAAGT
**
36310488 AAAAAAAAATTTGAAGT
1 AAAAAAAAATAAGAAGT
36310505 ATAAAAAAAATAAGAAGT
1 A-AAAAAAAATAAGAAGT
36310523 GAAAA
1 -AAAA
36310528 TCTTGTGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.21
18 18 0.53
19 9 0.26
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAAAAAAATAAGAAGT
Found at i:36313270 original size:21 final size:22
Alignment explanation
Indices: 36313241--36313291 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
36313231 TCTCTCTCGC
*
36313241 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
36313262 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
36313284 TTT-ATTTT
1 TTTCATTTT
36313292 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:36339747 original size:91 final size:90
Alignment explanation
Indices: 36339592--36339773 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 90
36339582 GCTATCTGAT
*
36339592 CACAAATGAAGTAGCTGTTACAAAGGGAGTTAATTCACCATTGAAGGACGTTTTAAAGGGCATTT
1 CACAAATGAAGTAGCTGTTACAAAGGGAGTTAATTCACCATTGAAGGACGTCTTAAAGGGCATTT
36339657 TATACCCTTTAAATTCGGCAGCAACC
66 TATA-CCTTTAAATTCGGCAGCAACC
* *
36339683 CACAAATTAAGTAGCTGTTACAAAGGGAGTTACTTCACCATTGAAGGACGTCTTAAAGGGCATTT
1 CACAAATGAAGTAGCTGTTACAAAGGGAGTTAATTCACCATTGAAGGACGTCTTAAAGGGCATTT
36339748 TATACCTTTAAATTCGGCAGCAACC
66 TATACCTTTAAATTCGGCAGCAACC
36339773 C
1 C
36339774 TTTACCTTGC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 22 0.25
91 66 0.75
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (90 bp):
CACAAATGAAGTAGCTGTTACAAAGGGAGTTAATTCACCATTGAAGGACGTCTTAAAGGGCATTT
TATACCTTTAAATTCGGCAGCAACC
Found at i:36341888 original size:11 final size:11
Alignment explanation
Indices: 36341858--36341891 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
36341848 GAAGAGCCAT
36341858 ATGGTGTGAAC
1 ATGGTGTGAAC
*
36341869 ATGG-CTGAAC
1 ATGGTGTGAAC
36341879 ATGGTGTGAAC
1 ATGGTGTGAAC
36341890 AT
1 AT
36341892 CTTTATGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:36348403 original size:23 final size:22
Alignment explanation
Indices: 36348351--36348403 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36348341 TCCACGTCTT
*
36348351 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36348373 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36348396 TTTCTTTT
1 TTTCTTTT
36348404 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36352617 original size:13 final size:12
Alignment explanation
Indices: 36352598--36352648 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 12
36352588 CTTTCTCTTC
36352598 TTTTTTTTCGAA
1 TTTTTTTTCGAA
36352610 TATTTTTTTCGAA
1 T-TTTTTTTCGAA
36352623 TTTGTTTTTTC-AA
1 -TT-TTTTTTCGAA
36352636 TTTTTTTCTCGAA
1 TTTTTTT-TCGAA
36352649 ACTACAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 16 0.47
14 8 0.24
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.65
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:36353458 original size:11 final size:11
Alignment explanation
Indices: 36353428--36353461 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
36353418 GAAGAGCCAT
36353428 ATGGTGTGAAC
1 ATGGTGTGAAC
*
36353439 ATGG-CTGAAC
1 ATGGTGTGAAC
36353449 ATGGTGTGAAC
1 ATGGTGTGAAC
36353460 AT
1 AT
36353462 CTTTATGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:36356608 original size:23 final size:23
Alignment explanation
Indices: 36356566--36356611 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36356556 AGGTCGTGTA
*
36356566 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
* *
36356589 TGTAATACCCCGAAATTTACTAC
1 TGTAATACCCCAAAAATTACTAC
36356612 AATAAGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:36359721 original size:50 final size:50
Alignment explanation
Indices: 36359661--36359765 Score: 174
Period size: 50 Copynumber: 2.1 Consensus size: 50
36359651 TGTGAGGCAG
* **
36359661 TGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTTTAGGACATAACGTTGGCACCGAGATGAGAGGTCCCA
*
36359711 TGTAAGACCATGTTTAGGACGTAACGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTTTAGGACATAACGTTGGCACCGAGATGAGAGGTCCCA
36359761 TGTAA
1 TGTAA
36359766 AACCGAGATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTTTAGGACATAACGTTGGCACCGAGATGAGAGGTCCCA
Found at i:36359776 original size:25 final size:25
Alignment explanation
Indices: 36359742--36359790 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
36359732 TAACGTTGGC
36359742 ACCGAGATGAGAGGTCCCATGTAAA
1 ACCGAGATGAGAGGTCCCATGTAAA
36359767 ACCGAGATGAGAGGTCCCATGTAA
1 ACCGAGATGAGAGGTCCCATGTAA
36359791 GACCATGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (25 bp):
ACCGAGATGAGAGGTCCCATGTAAA
Found at i:36359815 original size:75 final size:75
Alignment explanation
Indices: 36359692--36359840 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
36359682 TGGCGTTGGC
* *
36359692 ACCGAGATGAGAGGTCCCATGTAAGACCATGTTTAGGACGTAACGTTGGCACCGAGATGAGAGGT
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAACGTTGGCACCGAGATGAGAGGT
36359757 CCCATGTAAA
66 CCCATGTAAA
* *
36359767 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAGCGTTGGCACCGAGATGGGAGGT
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAACGTTGGCACCGAGATGAGAGGT
36359832 CCCATGTAA
66 CCCATGTAA
36359841 GACCATGTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (75 bp):
ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAACGTTGGCACCGAGATGAGAGGT
CCCATGTAAA
Found at i:36359842 original size:50 final size:50
Alignment explanation
Indices: 36359767--36360115 Score: 434
Period size: 50 Copynumber: 7.0 Consensus size: 50
36359757 CCCATGTAAA
* *
36359767 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAGCGTTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
*
36359817 ACCGAGATGGGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
* *
36359867 ACCGAGATGAGA-GTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
* * * *
36359916 ACCAAGATGAGAGGTCCCATGTAAAACCATGTTTGGGACAAGGCGTTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
* ** * * *
36359966 ATCGAGATGAGAGGTCCCCCGAAAGACCATGTCTGGGACATGGCATGGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
* * * *
36360016 ACCGAGATGAGAGGTCCCATGTAAGACCATATTTGGGATATGGCATTGGC
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
* * * ** * *
36360066 A--GTACAGGAAACATCACATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 ACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
36360115 A
1 A
36360116 TGTTATTATT
Statistics
Matches: 257, Mismatches: 40, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
48 1 0.00
49 83 0.32
50 173 0.67
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
Found at i:36359939 original size:99 final size:100
Alignment explanation
Indices: 36359767--36360115 Score: 443
Period size: 99 Copynumber: 3.5 Consensus size: 100
36359757 CCCATGTAAA
* *
36359767 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATAGCGTTGGCACCGAGATGGGAGGT
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGT
*
36359832 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
66 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGC
* *
36359867 ACCGAGATGAGA-GTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCAAGATGAGAGGT
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGT
* *
36359931 CCCATGTAAAACCATGTTTGGGACAAGGCGTTGGC
66 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGC
* ** * * * *
36359966 ATCGAGATGAGAGGTCCCCCGAAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGT
1 ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGT
* * *
36360031 CCCATGTAAGACCATATTTGGGATATGGCATTGGC
66 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGC
* * * ** * * *
36360066 A--GTACAGGAAACATCACATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCA
36360116 TGTTATTATT
Statistics
Matches: 215, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
98 1 0.00
99 127 0.59
100 87 0.40
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (100 bp):
ACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGT
CCCATGTAAGACCATGTTTGGGACATGGCGTTGGC
Found at i:36360086 original size:149 final size:148
Alignment explanation
Indices: 36359784--36360116 Score: 400
Period size: 149 Copynumber: 2.2 Consensus size: 148
36359774 TGAGAGGTCC
* * * * *
36359784 CATGTAAGACCATGTCTAGGACATA-GCGTTGGCACCGAGATGGGAGGTCCCATGTAAGACCATG
1 CATGTAAGACCATGTCTGGGACA-AGGCGTTGGCATCGAGATGAGAGGTCCCACGAAAGACCATG
* * * **
36359848 TCTGGGACATGGCGTTGGCACCGAGATGAGAGTCCCATGTAAGACCATGTCTAGGACATGGTGTT
65 TCTGGGACATGGCATGGGCACCGAGATGAGAGTCCCATGTAAGACCATATCTAGGACATGGCATT
* ** *
36359913 GGCACCAAGATGAGAGGTCC
130 GGCACCAAGA-GAAACATCA
* * *
36359933 CATGTAAAACCATGTTTGGGACAAGGCGTTGGCATCGAGATGAGAGGTCCCCCGAAAGACCATGT
1 CATGTAAGACCATGTCTGGGACAAGGCGTTGGCATCGAGATGAGAGGTCCCACGAAAGACCATGT
* * *
36359998 CTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGTAAGACCATATTTGGGATATGGCATT
66 CTGGGACATGGCATGGGCACCGAGATGAGA-GTCCCATGTAAGACCATATCTAGGACATGGCATT
**
36360063 GGCAGTACAG-GAAACATCA
130 GGCACCA-AGAGAAACATCA
* *
36360082 CATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 CATGTAAGACCATGTCTGGGACAAGGCGTTGGCAT
36360117 GTTATTATTA
Statistics
Matches: 155, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
148 1 0.01
149 119 0.77
150 33 0.21
151 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (148 bp):
CATGTAAGACCATGTCTGGGACAAGGCGTTGGCATCGAGATGAGAGGTCCCACGAAAGACCATGT
CTGGGACATGGCATGGGCACCGAGATGAGAGTCCCATGTAAGACCATATCTAGGACATGGCATTG
GCACCAAGAGAAACATCA
Found at i:36361645 original size:23 final size:23
Alignment explanation
Indices: 36361607--36361657 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
36361597 GGGAGAGAAA
* *
36361607 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
36361630 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
36361653 AGTAA
1 TGTAA
36361658 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:36368246 original size:29 final size:29
Alignment explanation
Indices: 36368183--36368250 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
36368173 TAATCAACCG
*
36368183 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36368212 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36368241 CGCACACTTA
1 CGCACACTTA
36368251 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36368363 original size:174 final size:174
Alignment explanation
Indices: 36368072--36368399 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
36368062 AACTCAAGGT
* *
36368072 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36368137 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
36368202 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
36368246 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
36368311 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
36368376 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36368400 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36368391 original size:29 final size:30
Alignment explanation
Indices: 36368352--36368430 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
36368342 CTTAATAATC
36368352 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
36368382 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36368411 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36368431 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36374709 original size:22 final size:23
Alignment explanation
Indices: 36374693--36374737 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
36374683 AATTCATGCC
36374693 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
36374717 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
36374738 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Found at i:36374737 original size:21 final size:21
Alignment explanation
Indices: 36374683--36374739 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
36374673 ATTATCATAT
*
36374683 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
36374705 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
36374729 AATTCATCAAC
1 AATTCATCAAC
36374740 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:36375680 original size:42 final size:42
Alignment explanation
Indices: 36375648--36375751 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
36375638 TAGCTTAGCT
36375648 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
* * *
36375690 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
*
36375732 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
36375752 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:36377218 original size:40 final size:40
Alignment explanation
Indices: 36377174--36377435 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
36377164 GCTCCTCGTT
* *
36377174 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
36377214 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36377254 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36377293 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36377332 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
36377371 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
36377412 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36377436 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:36383387 original size:5 final size:5
Alignment explanation
Indices: 36383379--36383404 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36383369 ACAATAAAAT
36383379 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
36383405 TATGACAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:36387670 original size:23 final size:23
Alignment explanation
Indices: 36387644--36387688 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
36387634 TTTCTTACTG
*
36387644 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
36387667 TAGTACTTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
36387689 GAGAGGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:36392502 original size:21 final size:20
Alignment explanation
Indices: 36392453--36392503 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
36392443 CATTTTCAGA
36392453 AACCTCTTCTTCTTCAGCAAC
1 AACCTCTTC-TCTTCAGCAAC
*
36392474 AA-CT-TTCTCTTCTGCAAC
1 AACCTCTTCTCTTCAGCAAC
36392492 AACCTCCTTCTC
1 AACCT-CTTCTC
36392504 AATAACAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 12 0.46
19 5 0.19
20 2 0.08
21 7 0.27
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (20 bp):
AACCTCTTCTCTTCAGCAAC
Found at i:36394474 original size:184 final size:184
Alignment explanation
Indices: 36394159--36394525 Score: 707
Period size: 184 Copynumber: 2.0 Consensus size: 184
36394149 TATGGAATTA
36394159 TATAGACACTAGGAATATTCGGCCATAGGAGTGTAGTTAAATTTTGTGTATTTTGTGTTTTGAGC
1 TATAGACACTAGGAATATTCGGCCATAGGAGTGTAGTTAAATTTTGTGTATTTTGTGTTTTGAGC
36394224 AAAAAGGATTAAATTGTAAAAAGTGTGAAATGTTAGGGGCAAAATTGTAATTTGCCCATTCATGT
66 AAAAAGGATTAAATTGTAAAAAGTGTGAAATGTTAGGGGCAAAATTGTAATTTGCCCATTCATGT
36394289 ATTTTTAGGCTAAATTGAATAGAATGGTGTTTAAATAAGCTTAATTTGAATATC
131 ATTTTTAGGCTAAATTGAATAGAATGGTGTTTAAATAAGCTTAATTTGAATATC
*
36394343 TATAGGCACTAGGAATATTCGGCCATAGGAGTGTAGTTAAATTTTGTGTATTTTGTGTTTTGAGC
1 TATAGACACTAGGAATATTCGGCCATAGGAGTGTAGTTAAATTTTGTGTATTTTGTGTTTTGAGC
*
36394408 AAAAAGGATTAAATTGTAAAAAGTGTGAAATGTTAGGGGTAAAATTGTAATTTGCCCATTCATGT
66 AAAAAGGATTAAATTGTAAAAAGTGTGAAATGTTAGGGGCAAAATTGTAATTTGCCCATTCATGT
*
36394473 ATTTTTAGGCTAACTTGAATAGAATGGTGTTTAAATAAGCTTAATTTGAATAT
131 ATTTTTAGGCTAAATTGAATAGAATGGTGTTTAAATAAGCTTAATTTGAATAT
36394526 GATTTAGATC
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 180 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (184 bp):
TATAGACACTAGGAATATTCGGCCATAGGAGTGTAGTTAAATTTTGTGTATTTTGTGTTTTGAGC
AAAAAGGATTAAATTGTAAAAAGTGTGAAATGTTAGGGGCAAAATTGTAATTTGCCCATTCATGT
ATTTTTAGGCTAAATTGAATAGAATGGTGTTTAAATAAGCTTAATTTGAATATC
Found at i:36395717 original size:41 final size:41
Alignment explanation
Indices: 36395680--36395866 Score: 295
Period size: 41 Copynumber: 4.6 Consensus size: 41
36395670 GACTATACGT
36395680 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
36395721 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
36395762 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
* * ** *
36395803 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
* *
36395844 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
36395867 TCTGTTTAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 1 0.01
41 137 0.99
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
Found at i:36403105 original size:41 final size:41
Alignment explanation
Indices: 36402973--36403116 Score: 207
Period size: 41 Copynumber: 3.5 Consensus size: 41
36402963 GTGAAATTAT
* *
36402973 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
36403014 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* *
36403055 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
36403096 TTAAACTATAAGCCTATCAGG
1 TCAGACTATAGGCCTAGCAGG
36403117 TGAAGTGTCA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (41 bp):
TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:36403123 original size:41 final size:41
Alignment explanation
Indices: 36402986--36403096 Score: 213
Period size: 41 Copynumber: 2.7 Consensus size: 41
36402976 GACTATACGT
36402986 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
36403027 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
*
36403068 CTAGCAGGCTAAGTGCCGGTGAACGGAAT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
36403097 TAAACTATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
Found at i:36425434 original size:50 final size:50
Alignment explanation
Indices: 36425361--36425548 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 50
36425351 TCCTTTACTA
* * * * **
36425361 CCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTCTCATATCGGTG
* ** * *
36425411 TCC-ATGCCATGTC-CTAGCCATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 -CCAATGCCATGTCTC-AGACATGGTCTTACATGAGACCTCTCATATCGGTG
* *
36425461 CCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---GGTG
* *
36425517 CCAATGCCATGTCCCAGACATGGCCTTACATG
1 CCAATGCCATGTCTCAGACATGGTCTTACATG
36425549 GGATATCTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 3 0.03
50 70 0.63
51 3 0.03
53 2 0.02
56 33 0.30
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTCTCATATCGGTG
Found at i:36433855 original size:30 final size:29
Alignment explanation
Indices: 36433812--36433869 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
36433802 TCTGAGCTTT
*
36433812 GGGGAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGAAAAATGTAAATATGCAAAAGTTTA
* * *
36433841 GGGGTAAAAATGTAATTTTGCTAAAGTTT
1 GGGG-AAAAATGTAAATATGCAAAAGTTT
36433870 GAGTCAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (29 bp):
GGGGAAAAATGTAAATATGCAAAAGTTTA
Found at i:36434273 original size:50 final size:50
Alignment explanation
Indices: 36434209--36434345 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
36434199 GGTAAAGAGA
* * * **
36434209 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
* * * * *
36434259 TCCTC-CGTAAGACCATGTCTGAGACATGGAATGGGCATCAATATGAGAAC
1 TCC-CACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
* * *
36434309 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
36434346 GTAAAGGAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 67 0.97
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
Found at i:36436634 original size:56 final size:50
Alignment explanation
Indices: 36436562--36436810 Score: 202
Period size: 50 Copynumber: 4.9 Consensus size: 50
36436552 ACATTAAGGG
* **
36436562 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTTGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA
* *
36436613 GGTTATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
*
36436666 GATGAGAGGTCCTC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * * * *
36436716 TATGAGAACTCTCATGTAAGACCATATCTGGGATATGACATTGGTA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * *
36436765 CAGGAAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36436811 TGTTATTATC
Statistics
Matches: 163, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 79 0.48
51 1 0.01
52 2 0.01
53 3 0.02
54 6 0.04
56 33 0.20
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:36441461 original size:27 final size:27
Alignment explanation
Indices: 36441431--36441493 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
36441421 AAAATGGTGG
36441431 ATGAAATTATTAGAGGTTAAATAATAT
1 ATGAAATTATTAGAGGTTAAATAATAT
36441458 ATGAAATTATTAGAGGTTAAATAATAT
1 ATGAAATTATTAGAGGTTAAATAATAT
36441485 ATGAAATTA
1 ATGAAATTA
36441494 AATCTAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (27 bp):
ATGAAATTATTAGAGGTTAAATAATAT
Found at i:36447720 original size:25 final size:25
Alignment explanation
Indices: 36447692--36447747 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
36447682 ATACACGAGT
36447692 TGTGAATAACTGTGCTCACACAAGC
1 TGTGAATAACTGTGCTCACACAAGC
*
36447717 TGTGAATAAGTGTGCTCACACAAGC
1 TGTGAATAACTGTGCTCACACAAGC
36447742 TGTGAA
1 TGTGAA
36447748 AATGGGCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
TGTGAATAACTGTGCTCACACAAGC
Found at i:36448633 original size:80 final size:80
Alignment explanation
Indices: 36448500--36448659 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
36448490 TCAAAGGTAT
*
36448500 AGGCTAGTTGGATCTAATAGCAACGATCTCAAAAACATAAAAATTACTAGAAACGGGACTAAAAC
1 AGGCTAGTTGGATCTAATAGCAACGATCTCAAAAACATAAAAAGTACTAGAAACGGGACTAAAAC
36448565 AGACTTACATACATC
66 AGACTTACATACATC
*
36448580 AGGCTAGTTGGATCTAATAGCAACGATCTCAAAAACATAAAAAGTACTTGAAACGGGACTAAAAC
1 AGGCTAGTTGGATCTAATAGCAACGATCTCAAAAACATAAAAAGTACTAGAAACGGGACTAAAAC
36448645 AGACTTACATACATC
66 AGACTTACATACATC
36448660 CTATGAATCT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (80 bp):
AGGCTAGTTGGATCTAATAGCAACGATCTCAAAAACATAAAAAGTACTAGAAACGGGACTAAAAC
AGACTTACATACATC
Found at i:36449935 original size:16 final size:17
Alignment explanation
Indices: 36449914--36449947 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36449904 AATATTAGGG
*
36449914 GTAAAAGTGT-AATTTT
1 GTAAAAGTATGAATTTT
36449930 GTAAAAGTATGAATTTT
1 GTAAAAGTATGAATTTT
36449947 G
1 G
36449948 GACTGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
GTAAAAGTATGAATTTT
Found at i:36455451 original size:18 final size:19
Alignment explanation
Indices: 36455408--36455443 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36455398 TATTTTGTAG
36455408 TTGAAAATACGTGTTTGTC
1 TTGAAAATACGTGTTTGTC
36455427 TTGAAAATA-GTGTTTGT
1 TTGAAAATACGTGTTTGT
36455444 TGTGAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (19 bp):
TTGAAAATACGTGTTTGTC
Found at i:36456044 original size:27 final size:27
Alignment explanation
Indices: 36455982--36456046 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
36455972 AGCAAAGGTG
36455982 CCAATACAGT-ATATGTGGCAAAGCCA
1 CCAATACAGTAATATGTGGCAAAGCCA
* * *
36456008 CTAGTAACAGTAAT-TGTGGCAGAGCCA
1 CCAAT-ACAGTAATATGTGGCAAAGCCA
36456035 CCAATGACAGTA
1 CCAAT-ACAGTA
36456047 CTTCCTCCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.10
27 26 0.84
28 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAATACAGTAATATGTGGCAAAGCCA
Found at i:36456185 original size:26 final size:27
Alignment explanation
Indices: 36456125--36456186 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
36456115 TCATACTCAG
36456125 TAACAGTCATATAAAAATCATAAAGCA
1 TAACAGTCATATAAAAATCATAAAGCA
* * *
36456152 T-ACGGTCATA-CAAAGT-ATAAAGCCA
1 TAACAGTCATATAAAAATCATAAAG-CA
36456177 TAACAGTCAT
1 TAACAGTCAT
36456187 CTTATCTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.21
25 7 0.24
26 15 0.52
27 1 0.03
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (27 bp):
TAACAGTCATATAAAAATCATAAAGCA
Found at i:36456245 original size:26 final size:26
Alignment explanation
Indices: 36456216--36456347 Score: 140
Period size: 26 Copynumber: 5.1 Consensus size: 26
36456206 ACGGTCGTTC
* *
36456216 TACCCTTCGGGGGTATTTCAGTAATT
1 TACCCATCGAGGGTATTTCAGTAATT
*
36456242 TACCTATCGAGGGTATTTC-GATAATT
1 TACCCATCGAGGGTATTTCAG-TAATT
* *
36456268 TACCCATCGAGGGTATTTCAATAATC
1 TACCCATCGAGGGTATTTCAGTAATT
* *
36456294 TAGCCATCGAGGGTATATCAGTAATT
1 TACCCATCGAGGGTATTTCAGTAATT
* * * * *
36456320 TATCCATCAAGGTTATTCCGGTAATT
1 TACCCATCGAGGGTATTTCAGTAATT
36456346 TA
1 TA
36456348 GGCCCATTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.01
26 87 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCAGTAATT
Found at i:36472014 original size:20 final size:20
Alignment explanation
Indices: 36471991--36472056 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
36471981 TGTGCAATTC
36471991 AGGGGTACCAAAGTACAAAT
1 AGGGGTACCAAAGTACAAAT
* *** * ** *
36472011 AGGGGCATGTATGTGGAATT
1 AGGGGTACCAAAGTACAAAT
36472031 TAGGGGTACCAAAGTACAAAT
1 -AGGGGTACCAAAGTACAAAT
36472052 AGGGG
1 AGGGG
36472057 CACGTATGTT
Statistics
Matches: 29, Mismatches: 16, Indels: 2
0.62 0.34 0.04
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.20
Consensus pattern (20 bp):
AGGGGTACCAAAGTACAAAT
Found at i:36472036 original size:41 final size:41
Alignment explanation
Indices: 36471971--36472114 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
36471961 AAGCTTAAAC
*
36471971 AGGGG-ACGTGTGTGCAATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * *
36472011 AGGGGCATGTATGTGGAATTTAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
* ** *
36472052 AGGGGCACGTATGTTCAATTCAGGGGTACTGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
*
36472093 AGTGGCACGTATGTGCAATTCA
1 AGGGGCACGTATGTGCAATTCA
36472115 TCATTTTTCC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 5 0.06
41 85 0.94
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.23
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
Found at i:36476052 original size:23 final size:23
Alignment explanation
Indices: 36476025--36476069 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
36476015 AATAAATCGC
36476025 ACATACTAAATAAATAAGATTTT
1 ACATACTAAATAAATAAGATTTT
36476048 ACATACTAAATAAATAAGATTT
1 ACATACTAAATAAATAAGATTT
36476070 AGGCATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
ACATACTAAATAAATAAGATTTT
Found at i:36485005 original size:48 final size:48
Alignment explanation
Indices: 36484930--36485065 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
36484920 AAATATTTAT
36484930 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
36484978 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
36485028 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
36485066 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:36485080 original size:50 final size:50
Alignment explanation
Indices: 36484929--36485086 Score: 200
Period size: 50 Copynumber: 3.2 Consensus size: 50
36484919 TAAATATTTA
36484929 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC-
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
*
36484978 -ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
* * * *
36485027 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
36485077 TATATTGTGG
1 TATA-TGTGG
36485087 CCGAACGACC
Statistics
Matches: 94, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 38 0.40
49 4 0.04
50 45 0.48
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
Found at i:36485261 original size:37 final size:37
Alignment explanation
Indices: 36485211--36485296 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
36485201 GGAAATATAT
* *
36485211 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
36485248 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
36485285 TCCGGGTAAGAC
1 TCCGGGTAAGAC
36485297 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:36487879 original size:19 final size:20
Alignment explanation
Indices: 36487841--36487879 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36487831 ATGCTCCTTT
* *
36487841 GTACATTTGTTTTCTTTTAA
1 GTACATGTGCTTTCTTTTAA
36487861 GTACATGTGCTTT-TTTTAA
1 GTACATGTGCTTTCTTTTAA
36487880 CAAGCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (20 bp):
GTACATGTGCTTTCTTTTAA
Found at i:36490076 original size:25 final size:25
Alignment explanation
Indices: 36490037--36490086 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36490027 TTCTCAAAAT
*
36490037 TTTAATTAATATAAAATATTA-ATAA
1 TTTAATAAATATAAAA-ATTAGATAA
*
36490062 TTTAATAAATTTAAAAATTAGATAA
1 TTTAATAAATATAAAAATTAGATAA
36490087 GTAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTAATAAATATAAAAATTAGATAA
Found at i:36493239 original size:14 final size:14
Alignment explanation
Indices: 36493220--36493246 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36493210 CCGAAACTAG
36493220 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
36493234 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
36493247 TGCTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:36494419 original size:39 final size:40
Alignment explanation
Indices: 36494324--36494585 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
36494314 TTGAATGATG
*
36494324 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
36494362 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
36494403 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
36494442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
36494481 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
36494520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
36494559 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36494586 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36496628 original size:42 final size:42
Alignment explanation
Indices: 36496581--36496684 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
36496571 TATCGGGATG
* * *
36496581 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
36496623 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
36496665 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
36496685 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:36496698 original size:42 final size:42
Alignment explanation
Indices: 36496581--36496706 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
36496571 TATCGGGATG
* * ** *
36496581 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
36496623 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
36496665 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
36496706 T
1 T
36496707 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:36497619 original size:21 final size:21
Alignment explanation
Indices: 36497593--36497649 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
36497583 ATGGTATAAG
36497593 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
36497614 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
36497638 GTGGCATGAATT
1 GTTG-ATGAATT
36497650 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:36503939 original size:29 final size:28
Alignment explanation
Indices: 36503903--36503980 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
36503893 TCATGAGATT
36503903 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
36503933 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
36503960 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
36503981 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:36504198 original size:174 final size:174
Alignment explanation
Indices: 36503933--36504260 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
36503923 AAATTGTACA
*
36503933 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
36503998 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
36504063 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
36504107 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
36504172 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
36504237 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
36504261 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:36511507 original size:84 final size:84
Alignment explanation
Indices: 36511404--36511809 Score: 749
Period size: 84 Copynumber: 4.8 Consensus size: 84
36511394 CATTGATCAA
36511404 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
36511469 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
36511488 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
36511553 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
*
36511572 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
36511637 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
* *
36511656 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGGTAAGTGCTAATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
* **
36511721 CACCATATGATTGATTGTG
66 CACCGTATCCTTGATTGTG
*
36511740 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
36511805 CACCG
66 CACCG
36511810 GGATCCTTTG
Statistics
Matches: 311, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 311 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTGTG
Found at i:36517890 original size:30 final size:30
Alignment explanation
Indices: 36517834--36517892 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
36517824 CTTTTTAAAA
* * *
36517834 ATATTTACAAAATGAGGCATCTAATTTTTC
1 ATATTTACAAAAAGAGGCACCAAATTTTTC
36517864 ATATTTACAAAAAGA-GCAACCAAATTTTT
1 ATATTTACAAAAAGAGGC-ACCAAATTTTT
36517893 AAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (30 bp):
ATATTTACAAAAAGAGGCACCAAATTTTTC
Found at i:36529070 original size:223 final size:223
Alignment explanation
Indices: 36528675--36529110 Score: 640
Period size: 223 Copynumber: 2.0 Consensus size: 223
36528665 TAAACTGAAT
* * * * * * *
36528675 CTAATTCTGAAAAGGTTGGATTTGTTGGATTGAAATTGAATGATATAAGCGTGTATTTGACCGAA
1 CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
* * *
36528740 TACTTGCAGCAGACTCTAAACATAGAGCAGCGTTTGTATAGAACGAAGACAAAATAGTGCAGGGT
66 TACTTGCAGCAGACTCTAAACATAAAGCAGCGTTTGTATAGAACGAAGACAAAATAGTACACGGT
* * * * * * *
36528805 ATCGTGCTAAGGCCTGTAGACATAGGCCAGGTAACTTGAGATCTTGC-TCTTGAAAGAAGCAAGT
131 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACGTGAGATCTTGCTTC-CGAAAGAAGCAAGT
36528869 CACTTTAGGTCTCTTCTAAACCCTAAACC
195 CACTTTAGGTCTCTTCTAAACCCTAAACC
*
36528898 CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACTGAA
1 CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
* ** *
36528963 TACTTGCAGCAGACTCTAGACATAAAGCAGCGTTTGTATAGAATTAAGACAAAATATTACACGGT
66 TACTTGCAGCAGACTCTAAACATAAAGCAGCGTTTGTATAGAACGAAGACAAAATAGTACACGGT
* *
36529028 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACGTGAGATCTTGCTTCCGAAAGAATCAGGTC
131 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACGTGAGATCTTGCTTCCGAAAGAAGCAAGTC
36529093 ACTTTAGGTCTCTTCTAA
196 ACTTTAGGTCTCTTCTAA
36529111 GTAGTAGAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
223 186 0.99
224 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (223 bp):
CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
TACTTGCAGCAGACTCTAAACATAAAGCAGCGTTTGTATAGAACGAAGACAAAATAGTACACGGT
ACCATGCTAAGGACTATAGACACAGGCCAGGTAACGTGAGATCTTGCTTCCGAAAGAAGCAAGTC
ACTTTAGGTCTCTTCTAAACCCTAAACC
Found at i:36529616 original size:26 final size:26
Alignment explanation
Indices: 36529570--36529695 Score: 155
Period size: 26 Copynumber: 4.8 Consensus size: 26
36529560 GGCACATTCC
* *
36529570 ATCATAGTATCACAGCC-AAGTGTGTA
1 ATCACAGTATCACA-CCGAAGTGTGCA
* * * **
36529596 ATCTCAATATCACATCGAAGTACGCA
1 ATCACAGTATCACACCGAAGTGTGCA
36529622 ATCACAGTATCACACCGAAGTGTGCA
1 ATCACAGTATCACACCGAAGTGTGCA
*
36529648 ATCACAGTATCGCACCGAAGTGTGCA
1 ATCACAGTATCACACCGAAGTGTGCA
*
36529674 ATCACAGTATCGCACCGAAGTG
1 ATCACAGTATCACACCGAAGTG
36529696 CTCATCAATT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 1 0.01
26 85 0.99
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (26 bp):
ATCACAGTATCACACCGAAGTGTGCA
Found at i:36536342 original size:50 final size:50
Alignment explanation
Indices: 36536219--36536359 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
36536209 CACTATCCAA
* *
36536219 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCAAGCTATTTGG
* * * * *
36536270 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCT-TTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAGCTATT-TGG
* **
36536320 TACACGTAGTAGCTTGCACATAGTGTTACACATGTGACCA
1 TACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA
36536360 TCACTTTCAC
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.03
50 40 0.53
51 33 0.44
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAGCTATTTGG
Found at i:36552227 original size:79 final size:81
Alignment explanation
Indices: 36552118--36552300 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
36552108 TACTCGTTCA
* *
36552118 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
36552181 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
36552198 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
36552261 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
36552277 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
36552301 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:36552300 original size:40 final size:40
Alignment explanation
Indices: 36552097--36552300 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
36552087 CGGAATTTAA
** *
36552097 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36552137 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36552177 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36552216 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36552256 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36552296 CCGGA
1 CCGGA
36552301 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36554257 original size:23 final size:23
Alignment explanation
Indices: 36554190--36554257 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
36554180 TTGTCGATTC
* *
36554190 TGTGGAAGCCTTTATGGCTATTA
1 TGTGGAAGCCTTTGTGGCTGTTA
* *
36554213 TGTGGAAGCCTTTGTGGTTGTTT
1 TGTGGAAGCCTTTGTGGCTGTTA
*
36554236 TGTGGAAGCCTTTGTAGCTGTT
1 TGTGGAAGCCTTTGTGGCTGTT
36554258 CTAAATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.43
Consensus pattern (23 bp):
TGTGGAAGCCTTTGTGGCTGTTA
Found at i:36554484 original size:29 final size:30
Alignment explanation
Indices: 36554424--36554485 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
36554414 CTTGTTACAC
*
36554424 GTGAGCCCTTGTGGTAGAAATCTGGTATAT
1 GTGAGCCCTTGTGGTAGAAACCTGGTATAT
* * * *
36554454 GTGAGCCTTTGTGGT-GGAACCTGTTGTAT
1 GTGAGCCCTTGTGGTAGAAACCTGGTATAT
36554483 GTG
1 GTG
36554486 GAAGCCTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.35
Consensus pattern (30 bp):
GTGAGCCCTTGTGGTAGAAACCTGGTATAT
Found at i:36554953 original size:4 final size:4
Alignment explanation
Indices: 36554912--36554981 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
36554902 AGATTTGATG
* * *
36554912 TGTA TGGA TGAA TGT- TGTGA TGT- TGTA TGTT TGTTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGT-A TGTA TGTA TGTA TG-TA TGTA TGTA TGTA
*
36554960 TATAA TGT- TGTA TGTA TGTA TG
1 TGT-A TGTA TGTA TGTA TGTA TG
36554982 ATAATGCCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
3 9 0.17
4 35 0.66
5 9 0.17
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:36554971 original size:20 final size:21
Alignment explanation
Indices: 36554948--36554987 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
36554938 ATGTTTGTTA
36554948 TGTATGTATGTAT-ATAATGT
1 TGTATGTATGTATGATAATGT
36554968 TGTATGTATGTATGATAATG
1 TGTATGTATGTATGATAATG
36554988 CCTTGCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
TGTATGTATGTATGATAATGT
Found at i:36558287 original size:30 final size:30
Alignment explanation
Indices: 36558253--36558319 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
36558243 AGAAAGATGG
*
36558253 AAAATGGCAACTCTGTTATGTCTGTAACAA
1 AAAATGGCAACTCTGTTATGTCTATAACAA
* ** * *
36558283 AAAATGGTAGTTTTGTTATGTCTATAACGA
1 AAAATGGCAACTCTGTTATGTCTATAACAA
36558313 AAAATGG
1 AAAATGG
36558320 TTAGTGTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (30 bp):
AAAATGGCAACTCTGTTATGTCTATAACAA
Found at i:36559296 original size:21 final size:21
Alignment explanation
Indices: 36559272--36559316 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36559262 AAATAAAAAC
* *
36559272 AAAATAATA-ATGACAATACTA
1 AAAATAAAATATG-CAATAATA
36559293 AAAATAAAATATGCAATAATA
1 AAAATAAAATATGCAATAATA
36559314 AAA
1 AAA
36559317 GCATGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATAAAATATGCAATAATA
Found at i:36559577 original size:61 final size:62
Alignment explanation
Indices: 36559506--36559624 Score: 177
Period size: 65 Copynumber: 1.9 Consensus size: 62
36559496 TTTAAATATT
*
36559506 AAAAGAAGCGAAGGAATAATAAATAAG-TAAATAAATAAACAAATAAAAGAATGAAAATAAG
1 AAAAGAAGCGAAGGAACAATAAATAAGATAAATAAATAAACAAATAAAAGAATGAAAATAAG
* *
36559567 AAAATAAGCGAAGGAACAATAAATAAGAAAATAAGTAAATAAACAAATAAAAGAATGA
1 AAAAGAAGCGAAGGAACAATAAATAAG---ATAAATAAATAAACAAATAAAAGAATGA
36559625 TAATGAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 25 0.49
65 26 0.51
ACGTcount: A:0.67, C:0.04, G:0.14, T:0.14
Consensus pattern (62 bp):
AAAAGAAGCGAAGGAACAATAAATAAGATAAATAAATAAACAAATAAAAGAATGAAAATAAG
Found at i:36559611 original size:27 final size:28
Alignment explanation
Indices: 36559560--36559617 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
36559550 AAAAGAATGA
* *
36559560 AAATAAGAAAATAAGCGAAGGAAC-AAT
1 AAATAAGAAAATAAGCAAAGAAACAAAT
* *
36559587 AAATAAGAAAATAAGTAAATAAACAAAT
1 AAATAAGAAAATAAGCAAAGAAACAAAT
36559615 AAA
1 AAA
36559618 AGAATGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (28 bp):
AAATAAGAAAATAAGCAAAGAAACAAAT
Found at i:36560866 original size:23 final size:23
Alignment explanation
Indices: 36560836--36560893 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
36560826 CATCTATTTT
*
36560836 TTTGTTTGGGTTGATTGGTTTGG
1 TTTGTTTGGGCTGATTGGTTTGG
36560859 TTTGTTTGGGCTGATTGGTTTGG
1 TTTGTTTGGGCTGATTGGTTTGG
36560882 TTTGTTTGGGCT
1 TTTGTTTGGGCT
36560894 CAGAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.03, C:0.03, G:0.38, T:0.55
Consensus pattern (23 bp):
TTTGTTTGGGCTGATTGGTTTGG
Found at i:36561305 original size:44 final size:44
Alignment explanation
Indices: 36561256--36561518 Score: 260
Period size: 44 Copynumber: 5.8 Consensus size: 44
36561246 AGATGTATAT
* * *
36561256 GATTTGTCGCTTCAATCTGCTCCACCT-CAACTTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCA-CTGCAACTTCAGGGAAATAA
* **
36561300 GATTTGTAAATCGTAGCTTTAATCTGTTCCACTGCAACTTTTTGGGAAATAA
1 GA--T-T---T-GTAGCTTTAATCTGCTCCACTGCAAC-TTCAGGGAAATAA
* * *
36561352 GATTTGTAGCTTTAATCTACT-CACTACAACTTTCAAGGAAATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGCAAC-TTCAGGGAAATAA
* * *
36561396 GGTTTGTAGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAA
* *
36561440 GATTTGTAGCTTTAATATGCTCCACTGTAACTTCAGGGAAATAA
1 GATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAA
* * * *
36561484 GATTCGCAACTTTAATCCGCTCCACTGCAACTTCA
1 GATTTGTAGCTTTAATCTGCTCCACTGCAACTTCA
36561519 AAGAGATAAG
Statistics
Matches: 180, Mismatches: 29, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
44 119 0.66
45 21 0.12
46 2 0.01
47 1 0.01
49 1 0.01
50 4 0.02
51 20 0.11
52 12 0.07
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
GATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAA
Found at i:36561545 original size:132 final size:137
Alignment explanation
Indices: 36561268--36561547 Score: 295
Period size: 132 Copynumber: 2.1 Consensus size: 137
36561258 TTTGTCGCTT
* * *
36561268 CAATCTGCTCCACCTCAACTTCAGGGAGATAAGATTTGTAAATCGTAGCTTTAATCTGTTCCACT
1 CAATCTGCTCCACCTCAAATTCAGGGAGATAAGA-TTGT--ATCGTAGCTTTAATATGCTCCACT
** * * * * * *
36561333 GCAACTTTTTGGGAAATAAGATTTGTAGCTTTAATCTACTCACTACAACTTTCAAGGAAATAAGG
63 GCAACTTTCAGGGAAATAAGATTCGCAACTTTAATCCACTCACTACAACTTTCAAAGAAATAAGA
* * *
36561398 TTTGTAGCTT
128 TTGGTAACTC
* *
36561408 TAATCTGCTCCA-CTGCAAATTCAGGGAGATAAGA-T-T-T-GTAGCTTTAATATGCTCCACTGT
1 CAATCTGCTCCACCT-CAAATTCAGGGAGATAAGATTGTATCGTAGCTTTAATATGCTCCACTGC
* * *
36561468 AAC-TTCAGGGAAATAAGATTCGCAACTTTAATCCGCTCCACTGCAAC-TTCAAAGAGATAAGAT
65 AACTTTCAGGGAAATAAGATTCGCAACTTTAATCCACT-CACTACAACTTTCAAAGAAATAAGAT
36561531 TGGTAACTC
129 TGGTAACTC
36561540 CAATCTGC
1 CAATCTGC
36561548 GAACCTTTCA
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
132 53 0.45
133 31 0.26
134 1 0.01
137 1 0.01
138 1 0.01
139 2 0.02
140 29 0.25
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (137 bp):
CAATCTGCTCCACCTCAAATTCAGGGAGATAAGATTGTATCGTAGCTTTAATATGCTCCACTGCA
ACTTTCAGGGAAATAAGATTCGCAACTTTAATCCACTCACTACAACTTTCAAAGAAATAAGATTG
GTAACTC
Found at i:36565391 original size:11 final size:13
Alignment explanation
Indices: 36565371--36565402 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
36565361 AATAAATTAA
36565371 TAAAATATCAT-T
1 TAAAATATCATAT
36565383 TAAAA-ATCATAT
1 TAAAATATCATAT
36565395 TAAAATAT
1 TAAAATAT
36565403 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:36569337 original size:20 final size:20
Alignment explanation
Indices: 36569286--36569342 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
36569276 AACAACATCA
36569286 AAAAAATA-AA-AATAAAAT
1 AAAAAATACAATAATAAAAT
* *
36569304 -AATAATGACGATAATAAAAT
1 AAAAAAT-ACAATAATAAAAT
36569324 AAAAAATACAATAATAAAA
1 AAAAAATACAATAATAAAA
36569343 GCATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 1 0.03
20 19 0.61
21 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAAATACAATAATAAAAT
Found at i:36580467 original size:18 final size:18
Alignment explanation
Indices: 36580441--36580482 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
36580431 GATTGGGAAA
* *
36580441 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
36580459 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
36580477 AGGATA
1 AGGATA
36580483 TTCACCTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Done.