Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 198 of 292
Found at i:59155458 original size:17 final size:17
Alignment explanation
Indices: 59155426--59155457 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59155416 TTTGACATAT
59155426 AAAAATCATATAAAAAG
1 AAAAATCATATAAAAAG
59155443 AAAAAT-ATATAAAAA
1 AAAAATCATATAAAAA
59155458 AAAGAGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATCATATAAAAAG
Found at i:59156785 original size:6 final size:6
Alignment explanation
Indices: 59156776--59156838 Score: 74
Period size: 6 Copynumber: 10.3 Consensus size: 6
59156766 TAATTTAGTC
* *
59156776 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTAAT ATTTCT ATTTCT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT--T ATTTTT ATTTTT ATTTTT
*
59156826 A-TTTA ATTTTT AT
1 ATTTTT ATTTTT AT
59156839 ATTCTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.08
6 41 0.82
8 5 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:59156810 original size:26 final size:25
Alignment explanation
Indices: 59156781--59156850 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
59156771 TAGTCATTTT
59156781 TATTTTTATTTTTATTTTTATTTTAA
1 TATTTTTATTTTTATTTTTA-TTTAA
* *
59156807 TATTTCTATTTCTATTTTTATTTAA
1 TATTTTTATTTTTATTTTTATTTAA
* *
59156832 T-TTTTATATTCTAATTTTT
1 TATTTT-TATTTTTATTTTT
59156851 TTCGTTTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 3 0.08
25 16 0.43
26 18 0.49
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (25 bp):
TATTTTTATTTTTATTTTTATTTAA
Found at i:59156837 original size:32 final size:31
Alignment explanation
Indices: 59156776--59156841 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
59156766 TAATTTAGTC
* * *
59156776 ATTTTTATTTTTATTTTTATTTTTATTTTAAT
1 ATTTCTATTTCTATTTTTATTTATATTTT-AT
59156808 ATTTCTATTTCTATTTTTATTTA-ATTTTTAT
1 ATTTCTATTTCTATTTTTATTTATA-TTTTAT
59156839 ATT
1 ATT
59156842 CTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (31 bp):
ATTTCTATTTCTATTTTTATTTATATTTTAT
Found at i:59158464 original size:34 final size:34
Alignment explanation
Indices: 59158425--59158494 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
59158415 CCGAGTTCAG
59158425 AATCAGATATCTCACACAACAGTTGTAACGCCCT
1 AATCAGATATCTCACACAACAGTTGTAACGCCCT
59158459 AATCAGATATCTCACACAACAGTTGTAACGCCCT
1 AATCAGATATCTCACACAACAGTTGTAACGCCCT
59158493 AA
1 AA
59158495 ATTTCTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (34 bp):
AATCAGATATCTCACACAACAGTTGTAACGCCCT
Found at i:59169790 original size:21 final size:21
Alignment explanation
Indices: 59169764--59169809 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
59169754 ACTCGAATTA
59169764 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
59169785 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
59169806 TGAA
1 TGAA
59169810 ATTTAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
TGAACCTTAAACCTTGAGCCT
Found at i:59169806 original size:7 final size:7
Alignment explanation
Indices: 59169764--59169809 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
59169754 ACTCGAATTA
59169764 TGAACCT
1 TGAACCT
*
59169771 TAAACCT
1 TGAACCT
*
59169778 TGAGCCT
1 TGAACCT
59169785 TGAACCT
1 TGAACCT
*
59169792 TAAACCT
1 TGAACCT
*
59169799 TGAGCCT
1 TGAACCT
59169806 TGAA
1 TGAA
59169810 ATTTAAGGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:59169815 original size:21 final size:21
Alignment explanation
Indices: 59169764--59169815 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
59169754 ACTCGAATTA
*
59169764 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
59169785 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
59169806 TGAAATTTAA
1 TGAAACTTAA
59169816 GGTTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (21 bp):
TGAAACTTAAACCTTGAGCCT
Found at i:59169908 original size:34 final size:34
Alignment explanation
Indices: 59169849--59169936 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
59169839 TTAGGGTTTA
**
59169849 AGGTTTAA-GTTTTGAGTTTGGGGTTTGCGATTAT
1 AGGTTTAAGGTTTTGA-TTTAAGGTTTGCGATTAT
* * * *
59169883 GGGTTTAGGGTTTTGATTTAAGGTTTGTGGTTAT
1 AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
*
59169917 AGGTTTAAGGTTTTGGTTTA
1 AGGTTTAAGGTTTTGATTTA
59169937 GGATTCAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 37 0.84
35 7 0.16
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.49
Consensus pattern (34 bp):
AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
Found at i:59169925 original size:21 final size:19
Alignment explanation
Indices: 59169899--59169938 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
59169889 AGGGTTTTGA
59169899 TTTAAGGTTTGTGGTTATAGG
1 TTTAAGGTTT-TGGTT-TAGG
59169920 TTTAAGGTTTTGGTTTAGG
1 TTTAAGGTTTTGGTTTAGG
59169939 ATTCAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (19 bp):
TTTAAGGTTTTGGTTTAGG
Found at i:59171578 original size:20 final size:19
Alignment explanation
Indices: 59171507--59171580 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
59171497 TTTGTGGTTA
*
59171507 TGGGTTTAGGGTTTTTATT
1 TGGGTTTAGGGTTTTGATT
* *
59171526 TAGAGTTT-GGGGTTTGTAGTT
1 T-GGGTTTAGGGTTTTG-A-TT
*
59171547 ATGGGTTCAGGGTTTTGATT
1 -TGGGTTTAGGGTTTTGATT
59171567 TGGGGTTTAGGGTT
1 T-GGGTTTAGGGTT
59171581 ATAAGTTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
19 8 0.19
20 19 0.45
21 7 0.17
22 8 0.19
ACGTcount: A:0.12, C:0.01, G:0.38, T:0.49
Consensus pattern (19 bp):
TGGGTTTAGGGTTTTGATT
Found at i:59171580 original size:41 final size:41
Alignment explanation
Indices: 59171483--59171580 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
59171473 AATATTTAAG
* * * * *
59171483 TTTAGATTTTAAGGTTTGTGGTTATGGGTTTAGGGTTTTTA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTCAGGGTTTTGA
*
59171524 TTTAGAGTTTGGGGTTTGTAGTTATGGGTTCAGGGTTTTGA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTCAGGGTTTTGA
* *
59171565 TTTGGGGTTTAGGGTT
1 TTTAGAGTTTAGGGTT
59171581 ATAAGTTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.50
Consensus pattern (41 bp):
TTTAGAGTTTAGGGTTTGTAGTTATGGGTTCAGGGTTTTGA
Found at i:59171701 original size:21 final size:21
Alignment explanation
Indices: 59171677--59171719 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59171667 ATGGGTTCGA
59171677 GATTTTAAATTTAAGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
* **
59171698 GATTTTAAGTTTGGGGTTCAG
1 GATTTTAAATTTAAGGTTCAG
59171719 G
1 G
59171720 GTAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.42
Consensus pattern (21 bp):
GATTTTAAATTTAAGGTTCAG
Found at i:59177150 original size:3 final size:3
Alignment explanation
Indices: 59177142--59177179 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
59177132 CACGATCCAA
59177142 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
59177180 ATAGAAACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59178369 original size:7 final size:7
Alignment explanation
Indices: 59178359--59178390 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
59178349 TTTTTTTGCC
59178359 AAAAAAT
1 AAAAAAT
59178366 AAAAAAT
1 AAAAAAT
59178373 AAAAAAT
1 AAAAAAT
59178380 AAAAAAT
1 AAAAAAT
59178387 AAAA
1 AAAA
59178391 GATCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:59179458 original size:7 final size:7
Alignment explanation
Indices: 59179446--59179471 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59179436 ATTTATCTAT
59179446 TTATTTA
1 TTATTTA
59179453 TTATTTA
1 TTATTTA
59179460 TTATTTA
1 TTATTTA
59179467 TTATT
1 TTATT
59179472 CTAATATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:59186184 original size:15 final size:15
Alignment explanation
Indices: 59186164--59186193 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59186154 GAATTTCAAA
*
59186164 TTATTTTTATTATTT
1 TTATTTTTATAATTT
59186179 TTATTTTTATAATTT
1 TTATTTTTATAATTT
59186194 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:59188091 original size:26 final size:26
Alignment explanation
Indices: 59188062--59188161 Score: 126
Period size: 26 Copynumber: 4.2 Consensus size: 26
59188052 TGGTACAAAT
59188062 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59188088 TGATAATGGATTA-G-----G-T-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
59188106 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59188132 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59188158 TGAT
1 TGAT
59188162 GGGCATTTCA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
18 14 0.22
19 2 0.03
20 1 0.02
24 1 0.02
25 2 0.03
26 43 0.68
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59188109 original size:18 final size:18
Alignment explanation
Indices: 59188086--59188121 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59188076 GTAAATGTTC
59188086 CATGATAATGGATTAGGT
1 CATGATAATGGATTAGGT
*
59188104 CATGATAATGGGTTAGGT
1 CATGATAATGGATTAGGT
59188122 AAATGTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.33
Consensus pattern (18 bp):
CATGATAATGGATTAGGT
Found at i:59188110 original size:44 final size:44
Alignment explanation
Indices: 59188062--59188147 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
59188052 TGGTACAAAT
59188062 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTCA
*
59188106 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGT
59188148 AAATGTTCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (44 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTCA
Found at i:59189804 original size:27 final size:26
Alignment explanation
Indices: 59189766--59189867 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
59189756 CTAGTGACTA
* *
59189766 TGCCACAAATATCTGATCTGCTGGCTC
1 TGCCAC-ATTATCTGATCTGGTGGCTC
*
59189793 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGATCTGGTGGCTC
*
59189820 TGCCACGATTATCTGTATCTGGTGACTC
1 TGCCAC-ATTATCTG-ATCTGGTGGCTC
* *
59189848 TGTCACATTATCTGTTCTGG
1 TGCCACATTATCTGATCTGG
59189868 CAGCCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.09
27 42 0.65
28 17 0.26
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TGCCACATTATCTGATCTGGTGGCTC
Found at i:59191006 original size:10 final size:10
Alignment explanation
Indices: 59190987--59191046 Score: 95
Period size: 10 Copynumber: 6.0 Consensus size: 10
59190977 TGAAATTCTA
59190987 AAAGATAAAT
1 AAAGATAAAT
59190997 ACAA-ATAAAT
1 A-AAGATAAAT
*
59191007 AAAGATAATT
1 AAAGATAAAT
59191017 AAAGATAAAT
1 AAAGATAAAT
59191027 AAAGATAAAT
1 AAAGATAAAT
59191037 AAAGATAAAT
1 AAAGATAAAT
59191047 GAAAATGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.04
10 42 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:59191543 original size:38 final size:38
Alignment explanation
Indices: 59191501--59191626 Score: 123
Period size: 38 Copynumber: 3.3 Consensus size: 38
59191491 GAATAGTACT
59191501 GGGCACACATACATTTTTCGGATTCACCAACTAGTGCA
1 GGGCACACATACATTTTTCGGATTCACCAACTAGTGCA
* * ** * *
59191539 GGGCACACATATATTCATT-GGATAT-A-TGACCAGTGCT
1 GGGCACACATACATT-TTTCGGAT-TCACCAACTAGTGCA
* *
59191576 GGGCACACACATACATTTGTCGAATTCACCAACTAGTGCA
1 GGG--CACACATACATTTTTCGGATTCACCAACTAGTGCA
59191616 GGGCACACATA
1 GGGCACACATA
59191627 TTTGTTGGAT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
37 10 0.15
38 29 0.43
39 18 0.27
40 10 0.15
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (38 bp):
GGGCACACATACATTTTTCGGATTCACCAACTAGTGCA
Found at i:59191620 original size:40 final size:40
Alignment explanation
Indices: 59191504--59191624 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
59191494 TAGTACTGGG
* *
59191504 CACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
* * *
59191544 CACATATATTCA-TTG--GATATATGA-C--C-AGTGCTGGGCA
1 CACACATA--CATTTGTCGA-AT-TCACCAACTAGTGCAGGGCA
59191581 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
59191621 CACA
1 CACA
59191625 TATTTGTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
35 2 0.03
36 5 0.08
37 20 0.32
38 3 0.05
39 2 0.03
40 24 0.39
41 4 0.06
42 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
Found at i:59193874 original size:41 final size:41
Alignment explanation
Indices: 59193829--59193946 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59193819 TGAAAGATAA
59193829 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59193870 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59193900 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59193941 ATGTAG
1 ATGTAG
59193947 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59193885 original size:71 final size:71
Alignment explanation
Indices: 59193797--59193960 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59193787 GAGATGTATC
59193797 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59193862 AGGACA
66 AGGACA
59193868 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59193933 AGGACA
66 AGGACA
59193939 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59193961 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59201448 original size:41 final size:41
Alignment explanation
Indices: 59201403--59201520 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59201393 TGAAAGATAA
59201403 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59201444 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59201474 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59201515 ATGTAG
1 ATGTAG
59201521 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59201459 original size:71 final size:71
Alignment explanation
Indices: 59201371--59201534 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59201361 GAGATGTATC
59201371 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59201436 AGGACA
66 AGGACA
59201442 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59201507 AGGACA
66 AGGACA
59201513 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59201535 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59204207 original size:17 final size:18
Alignment explanation
Indices: 59204185--59204218 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
59204175 CCAAGCTGGG
59204185 CGTGTGGG-CCACACGGT
1 CGTGTGGGCCCACACGGT
59204202 CGTGTGGGCCCACACGG
1 CGTGTGGGCCCACACGG
59204219 GCATGTAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.32, G:0.41, T:0.15
Consensus pattern (18 bp):
CGTGTGGGCCCACACGGT
Found at i:59204229 original size:18 final size:18
Alignment explanation
Indices: 59204193--59204231 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59204183 GGCGTGTGGG
* * *
59204193 CCACACGGTCGTGTGGGC
1 CCACACGGGCATGTAGGC
59204211 CCACACGGGCATGTAGGC
1 CCACACGGGCATGTAGGC
59204229 CCA
1 CCA
59204232 TTATACTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.36, G:0.33, T:0.13
Consensus pattern (18 bp):
CCACACGGGCATGTAGGC
Found at i:59206664 original size:26 final size:25
Alignment explanation
Indices: 59206630--59206678 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
59206620 CTAATTTATA
*
59206630 TATTATTATTCTATGTGATTTATTGT
1 TATTATTATTCT-TATGATTTATTGT
*
59206656 TATTGTTATTCTTATGATTTATT
1 TATTATTATTCTTATGATTTATT
59206679 TCAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (25 bp):
TATTATTATTCTTATGATTTATTGT
Found at i:59206740 original size:27 final size:28
Alignment explanation
Indices: 59206668--59206747 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 28
59206658 TTGTTATTCT
* * *
59206668 TATG-ATTTAT-TTCAAATTTTTATATG
1 TATGAATTTATCTTTAAATGTTTATATA
59206694 TATGAA-TTA-CTTTAAA-GTTTATATA
1 TATGAATTTATCTTTAAATGTTTATATA
59206719 TAT-AATTTATCTTTAAATGTTT-TATA
1 TATGAATTTATCTTTAAATGTTTATATA
59206745 TAT
1 TAT
59206748 TATCAATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.04
25 13 0.28
26 26 0.57
27 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (28 bp):
TATGAATTTATCTTTAAATGTTTATATA
Found at i:59206756 original size:26 final size:26
Alignment explanation
Indices: 59206703--59206756 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
59206693 GTATGAATTA
**
59206703 CTTTAAAGTTTATATATATAATTTAT
1 CTTTAAAGTTTATATATATAATCAAT
*
59206729 CTTTAAATGTTT-TATATATTATCAAT
1 CTTTAAA-GTTTATATATATAATCAAT
59206755 CT
1 CT
59206757 CAAATTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
CTTTAAAGTTTATATATATAATCAAT
Found at i:59208225 original size:20 final size:21
Alignment explanation
Indices: 59208176--59208222 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
59208166 ATGTGTGACC
*
59208176 TGTTTCCAAAATTTTCAACTT
1 TGTTTCCAAAATGTTCAACTT
59208197 T-TTTCCAAAATGTTCTAA-TT
1 TGTTTCCAAAATGTTC-AACTT
59208217 TGTTTC
1 TGTTTC
59208223 AAATCGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (21 bp):
TGTTTCCAAAATGTTCAACTT
Found at i:59209389 original size:16 final size:17
Alignment explanation
Indices: 59209368--59209400 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59209358 AACCTTTGTA
59209368 ATCATC-CATAATTCAT
1 ATCATCACATAATTCAT
*
59209384 ATCATCACATATTTCAT
1 ATCATCACATAATTCAT
59209401 TTACTTGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ATCATCACATAATTCAT
Found at i:59219583 original size:16 final size:16
Alignment explanation
Indices: 59219564--59219594 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59219554 TATCATGTAA
59219564 TTTACATAATTAAAAT
1 TTTACATAATTAAAAT
*
59219580 TTTACATTATTAAAA
1 TTTACATAATTAAAA
59219595 AATTTAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTACATAATTAAAAT
Found at i:59219604 original size:16 final size:16
Alignment explanation
Indices: 59219562--59219604 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
59219552 TGTATCATGT
*
59219562 AATTTACATAATTAAA
1 AATTTACATTATTAAA
*
59219578 ATTTTACATTATTAAAA
1 AATTTACATTATT-AAA
59219595 AATTTA-ATTA
1 AATTTACATTA
59219605 ATTTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTACATTATTAAA
Found at i:59219804 original size:29 final size:30
Alignment explanation
Indices: 59219771--59219829 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
59219761 TTTAGTTTAA
*
59219771 TGTGCAATTTTATATATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
59219800 TGTGCACTTTTATACATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
59219830 GATCTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:59222404 original size:49 final size:50
Alignment explanation
Indices: 59222344--59222444 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
59222334 TTTAGTTATT
* * * *
59222344 TTAGTTTAATTAATTAAGTTG-TTTTAATTGTCTTTAGTTATTTAAATAA
1 TTAGTTGAATTAACTAAGTTGTTTTTAATTCTCTTTAGTTACTTAAATAA
* *
59222393 TTAGTTGAATTAACTAAGTTGTTTTTAGTTCTCTTTAGTTGCTTAAATAA
1 TTAGTTGAATTAACTAAGTTGTTTTTAATTCTCTTTAGTTACTTAAATAA
59222443 TT
1 TT
59222445 TCGACAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
49 19 0.42
50 26 0.58
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (50 bp):
TTAGTTGAATTAACTAAGTTGTTTTTAATTCTCTTTAGTTACTTAAATAA
Found at i:59222517 original size:16 final size:17
Alignment explanation
Indices: 59222487--59222518 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59222477 TTGCTACAGC
59222487 CATTTAACTTGTTTAAA
1 CATTTAACTTGTTTAAA
59222504 CATTTAAC-TGTTTAA
1 CATTTAACTTGTTTAA
59222519 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATTTAACTTGTTTAAA
Found at i:59224619 original size:18 final size:18
Alignment explanation
Indices: 59224563--59224636 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 18
59224553 AGGAAGCGAG
59224563 AAAAAGAAATTGATAGAAGAA
1 AAAAAGAAATTG--A-AAGAA
**
59224584 AAAAAGAAA-TG--ATTA
1 AAAAAGAAATTGAAAGAA
59224599 AAAAAGAAATTGAAAGAA
1 AAAAAGAAATTGAAAGAA
* **
59224617 AAATAGAGCTTGAAAGAA
1 AAAAAGAAATTGAAAGAA
59224635 AA
1 AA
59224637 GAGAAAGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 11 0.26
16 2 0.05
18 19 0.44
20 2 0.05
21 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAGAAATTGAAAGAA
Found at i:59224664 original size:18 final size:16
Alignment explanation
Indices: 59224643--59224708 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 16
59224633 AAAAGAGAAA
59224643 GAAAAAGAAAAATAATGT
1 GAAAAAGAAAAA-AAT-T
59224661 GAAAAAGAAAAGAAAATT
1 GAAAAAG-AAA-AAAATT
59224679 GAAAAAGAGAAAAAGATT
1 GAAAAAGA-AAAAA-ATT
59224697 GAAGAAAGAAAA
1 GAA-AAAGAAAA
59224709 GAAAGAGTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.09
18 26 0.60
19 11 0.26
20 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (16 bp):
GAAAAAGAAAAAAATT
Found at i:59226450 original size:47 final size:48
Alignment explanation
Indices: 59226391--59226483 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 48
59226381 TTTAGTTATT
* * *
59226391 TTAGTTTAATTAATTAAGTTG-TTTAATTGTCTTTAGTTGTTTAAGTA
1 TTAGTTTAATTAATCAAGTTGTTTTAATTCTCTTTAGTTGCTTAAGTA
59226438 TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAA
1 TTAGTTTAATTAATCAAGTTG-TTTTAATTCTCTTTAGTTGCTTAA
59226484 ATAATTTCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 20 0.49
49 21 0.51
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (48 bp):
TTAGTTTAATTAATCAAGTTGTTTTAATTCTCTTTAGTTGCTTAAGTA
Found at i:59230919 original size:26 final size:26
Alignment explanation
Indices: 59230882--59230939 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
59230872 TGATACAAAT
59230882 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59230908 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59230934 TGATAA
1 TGATAA
59230940 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59232600 original size:27 final size:27
Alignment explanation
Indices: 59232559--59232685 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
59232549 GAGGAAGCGT
*
59232559 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
59232586 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
59232613 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
59232640 TTTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* *
59232668 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
59232686 TTATCTATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 73 0.84
28 14 0.16
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:59234789 original size:19 final size:20
Alignment explanation
Indices: 59234762--59234801 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59234752 GGGAGAAAAG
*
59234762 GAAATAAAAA-GGAAAGAAA
1 GAAAGAAAAAGGGAAAGAAA
59234781 GAAAGAAAAAGGGAAAGAAA
1 GAAAGAAAAAGGGAAAGAAA
59234801 G
1 G
59234802 GGGAGGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (20 bp):
GAAAGAAAAAGGGAAAGAAA
Found at i:59235165 original size:2 final size:2
Alignment explanation
Indices: 59235158--59235196 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
59235148 ATCAACCATA
59235158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59235197 ACAACTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59238908 original size:30 final size:30
Alignment explanation
Indices: 59238874--59238932 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
59238864 AACAATCGAA
* *
59238874 GGTAAATGGCATTGTTAGAAATGCCATTAG
1 GGTAAATGGCATCGTCAGAAATGCCATTAG
59238904 GGTAAATGGCATCGTCAGAAATGCCATTA
1 GGTAAATGGCATCGTCAGAAATGCCATTA
59238933 ATCTTAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
GGTAAATGGCATCGTCAGAAATGCCATTAG
Found at i:59259525 original size:3 final size:3
Alignment explanation
Indices: 59259517--59259542 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59259507 TCCTTCTCTA
59259517 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
59259543 CCATCTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:59261050 original size:38 final size:38
Alignment explanation
Indices: 59261008--59261095 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
59260998 CGTTCTAATT
* **
59261008 TTCTTGAGGAACTAGTAGTGATATTGGACATCTCATGG
1 TTCTTGAAGAACTAGTAGTGATATTCAACATCTCATGG
*
59261046 TTCTTGAAGAACTAGTAGTGATATTCAACATTTCATGG
1 TTCTTGAAGAACTAGTAGTGATATTCAACATCTCATGG
59261084 TTCTTGAAGAAC
1 TTCTTGAAGAAC
59261096 CACTGCATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (38 bp):
TTCTTGAAGAACTAGTAGTGATATTCAACATCTCATGG
Found at i:59263969 original size:30 final size:30
Alignment explanation
Indices: 59263912--59263969 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
59263902 TGAGCATTTT
* * * *
59263912 CCACACGAGCTAGGCACACGCCTATGTGAG
1 CCACACAAGCAAGCCACACGCCCATGTGAG
*
59263942 CCACACAAGCAAGCCACATGCCCATGTG
1 CCACACAAGCAAGCCACACGCCCATGTG
59263970 CCAGCCCGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.36, G:0.22, T:0.12
Consensus pattern (30 bp):
CCACACAAGCAAGCCACACGCCCATGTGAG
Found at i:59268600 original size:28 final size:27
Alignment explanation
Indices: 59268568--59268700 Score: 76
Period size: 28 Copynumber: 5.2 Consensus size: 27
59268558 AACTGTGATC
59268568 ACGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
59268596 ACGTGTATCAG-A-T-GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
59268618 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
59268646 ACGTGTACT-GGA-TAA-T--TGGT-C-
1 ACGTGT-GTAGTACTAAGTGCAGGTACT
59268667 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
59268695 ACGTGT
1 ACGTGT
59268701 ACCGGATAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 34
0.62 0.10 0.28
Matches are distributed among these distances:
20 1 0.01
21 10 0.13
22 12 0.16
23 4 0.05
24 5 0.07
25 8 0.11
26 5 0.07
27 6 0.08
28 22 0.29
29 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:59268686 original size:49 final size:49
Alignment explanation
Indices: 59268520--59268744 Score: 283
Period size: 49 Copynumber: 4.5 Consensus size: 49
59268510 TGAGGTCGCA
* * * *
59268520 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATAA-T-TGGTCACG
* * **
59268571 TGTGTAGTACTAAGTGCAGGTTACTACGTGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATT-GGTCACG
59268621 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
* * *
59268670 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
*
59268719 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
59268745 TGCATACCAG
Statistics
Matches: 155, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
49 80 0.52
50 43 0.28
51 32 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
Found at i:59268696 original size:99 final size:100
Alignment explanation
Indices: 59268513--59268744 Score: 308
Period size: 99 Copynumber: 2.3 Consensus size: 100
59268503 TCTATTGTGA
* *
59268513 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGTGATCACGTGTGTAG
* * **
59268578 TACTAAGTGCAGGTTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59268613 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCT-GAAAACTGTGATCACGTGTGT
*
59268675 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59268712 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
59268745 TGCATACCAG
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
98 30 0.26
99 44 0.38
100 3 0.03
101 39 0.34
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59272264 original size:22 final size:21
Alignment explanation
Indices: 59272226--59272266 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
59272216 CTTTTTATTT
* *
59272226 TACTATTTTATTCTTCTTAAA
1 TACTATTCTATTATTCTTAAA
59272247 TACTATTGCTATTATTCTTA
1 TACTATT-CTATTATTCTTA
59272267 TTTAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
TACTATTCTATTATTCTTAAA
Found at i:59273721 original size:6 final size:6
Alignment explanation
Indices: 59273706--59273784 Score: 97
Period size: 6 Copynumber: 12.5 Consensus size: 6
59273696 AGTCTAATTG
59273706 TTTTATT TTTTATTT TTTTAT TTTTCATT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTA-T TTTTA--T TTTTAT TTTT-A-T TTTTAT TTTTAT TTTTAT TTTTAT
*
59273759 TTTTA- TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
59273785 CTTAGACTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
5 5 0.08
6 42 0.64
7 7 0.11
8 12 0.18
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:59273750 original size:29 final size:26
Alignment explanation
Indices: 59273706--59273784 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 26
59273696 AGTCTAATTG
*
59273706 TTTTATTTTTTATTTTTTTATTTTTCATT
1 TTTTA-TTTTTATTTTTTT-TTTTTTA-T
*
59273735 TTTTATTTTTATTTTTATTTTTATTTTT
1 TTTTATTTTTATTTTT-TTTTT-TTTAT
* *
59273763 ATTTTATGTTTATTTTTATTTT
1 -TTTTATTTTTATTTTTTTTTT
59273785 CTTAGACTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (26 bp):
TTTTATTTTTATTTTTTTTTTTTTAT
Found at i:59277109 original size:24 final size:24
Alignment explanation
Indices: 59277081--59277129 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59277071 TAATTGAATG
59277081 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
59277105 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
59277129 T
1 T
59277130 GTTAATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (24 bp):
TTGTATTGTATGTAATGTGATTTA
Found at i:59277917 original size:96 final size:96
Alignment explanation
Indices: 59277753--59277945 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
59277743 TAGGCCATTT
59277753 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
*
59277818 GTTTCTGTTATACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
59277849 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
59277914 GTTTCTGTTACACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
59277945 A
1 A
59277946 TACTTACTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (96 bp):
AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
GTTTCTGTTACACGAACTTACTAAGCATGTA
Found at i:59280520 original size:30 final size:30
Alignment explanation
Indices: 59280469--59280529 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
59280459 GATTCATCTA
59280469 TGGAAAATAAAATAAAGAAAAGGATGA-AAT
1 TGGAAAATAAAATAAAGAAAA-GATGATAAT
* *
59280499 TGGAAAGTGAAAA-AAATAAAAGATGATAAT
1 TGGAAAAT-AAAATAAAGAAAAGATGATAAT
59280529 T
1 T
59280530 AATTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 18 0.67
31 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (30 bp):
TGGAAAATAAAATAAAGAAAAGATGATAAT
Found at i:59281638 original size:27 final size:26
Alignment explanation
Indices: 59281607--59281673 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 26
59281597 CCGAAGCTCT
*
59281607 TGATTAAAGGCTCTTTCTTAAGCTTCC
1 TGATTAAAGGCTCTTTCTGAA-CTTCC
* * *
59281634 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAGGCTCTTTCTGAACTTCC
*
59281660 TGATT-ATGGCTCTT
1 TGATTAAAGGCTCTT
59281674 ATGAGCTTCC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
25 6 0.18
26 10 0.30
27 17 0.52
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (26 bp):
TGATTAAAGGCTCTTTCTGAACTTCC
Found at i:59281766 original size:26 final size:25
Alignment explanation
Indices: 59281648--59281766 Score: 74
Period size: 25 Copynumber: 4.9 Consensus size: 25
59281638 TAAAAGTTCT
*
59281648 TTGTGAACTTCCTGA-T-TATGGCTC
1 TTGTGAGCTTCCT-ATTATATGGCTC
* *
59281672 TTATGAGCTTCCTATTATATAGC-C
1 TTGTGAGCTTCCTATTATATGGCTC
** *
59281696 CGGATAAGCTTCC-A--ATA-GGCTCC
1 TTG-TGAGCTTCCTATTATATGGCT-C
*
59281719 TTGTGAGCTTCCCAATTA-ATGGCTC
1 TTGTGAGCTT-CCTATTATATGGCTC
59281744 TTTGTGAGCTTCCTATTATATGG
1 -TTGTGAGCTTCCTATTATATGG
59281767 TTCGAGAGAG
Statistics
Matches: 71, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
21 2 0.03
22 9 0.13
23 5 0.07
24 15 0.21
25 21 0.30
26 19 0.27
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (25 bp):
TTGTGAGCTTCCTATTATATGGCTC
Found at i:59296533 original size:18 final size:19
Alignment explanation
Indices: 59296496--59296533 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
59296486 TAGATGTTTG
*
59296496 GAGCCATTAGAAGTGAATTA
1 GAGCCATTACAAG-GAATTA
59296516 GAGCCATTACAA-GAATTA
1 GAGCCATTACAAGGAATTA
59296534 ATTTTGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
GAGCCATTACAAGGAATTA
Found at i:59298318 original size:2 final size:2
Alignment explanation
Indices: 59298313--59298342 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
59298303 CATCTTTTTA
59298313 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59298343 CTCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59298413 original size:15 final size:16
Alignment explanation
Indices: 59298383--59298416 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59298373 ATATCATGTA
*
59298383 TATATTTTTTTAATAT
1 TATATTTTTATAATAT
59298399 TATATTTTTAT-ATAT
1 TATATTTTTATAATAT
59298414 TAT
1 TAT
59298417 GTATATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTTATAATAT
Found at i:59298423 original size:13 final size:13
Alignment explanation
Indices: 59298407--59298553 Score: 51
Period size: 13 Copynumber: 11.4 Consensus size: 13
59298397 ATTATATTTT
59298407 TATATATTATGTA
1 TATATATTATGTA
*
59298420 TATAT-TGT-T-AA
1 TATATAT-TATGTA
59298431 TATCATATTAT-TCA
1 TAT-ATATTATGT-A
*
59298445 TATATTTTAT-TA
1 TATATATTATGTA
* * *
59298457 TGTATATTTTTTA
1 TATATATTATGTA
59298470 TAACTATATTATGTA
1 T-A-TATATTATGTA
*
59298485 -A-ATATT-TCATA
1 TATATATTAT-GTA
*
59298496 TATATATCATGTA
1 TATATATTATGTA
*
59298509 TATATATT-TTTAA
1 TATATATTATGT-A
* *
59298522 TATTATATTTTTTA
1 TA-TATATTATGTA
**
59298536 CGTATATTATGTA
1 TATATATTATGTA
59298549 TATAT
1 TATAT
59298554 CTTTAATATC
Statistics
Matches: 99, Mismatches: 20, Indels: 30
0.66 0.13 0.20
Matches are distributed among these distances:
10 1 0.01
11 11 0.11
12 16 0.16
13 47 0.47
14 12 0.12
15 12 0.12
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:59298480 original size:24 final size:24
Alignment explanation
Indices: 59298441--59298513 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
59298431 TATCATATTA
* *
59298441 TTCATATATTTTATTATGTATATTT
1 TTCATATA-TATATTATGTATATAT
* *
59298466 TTTATA-ACTATATTATGTAAATAT
1 TTCATATA-TATATTATGTATATAT
*
59298490 TTCATATATATATCATGTATATAT
1 TTCATATATATATTATGTATATAT
59298514 ATTTTTAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 33 0.85
25 6 0.15
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (24 bp):
TTCATATATATATTATGTATATAT
Found at i:59298524 original size:24 final size:24
Alignment explanation
Indices: 59298456--59298524 Score: 56
Period size: 24 Copynumber: 2.9 Consensus size: 24
59298446 ATATTTTATT
*
59298456 ATGTATAT-T-TTTTATAACTATATT
1 ATGTATATATATTTT-TAA-TATATC
*
59298480 ATGTA-A-ATATTTCATATATATATC
1 ATGTATATATATTT-TTA-ATATATC
59298504 ATGTATATATATTTTTAATAT
1 ATGTATATATATTTTTAATAT
59298525 TATATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
23 2 0.06
24 24 0.67
25 4 0.11
26 6 0.17
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATGTATATATATTTTTAATATATC
Found at i:59298627 original size:129 final size:126
Alignment explanation
Indices: 59298368--59298597 Score: 315
Period size: 129 Copynumber: 1.8 Consensus size: 126
59298358 ATGTATATTA
*
59298368 ATAT-TATATCATGTATATATTTTTTTAATATTATATTTTTATATATTATGTATATATTGTTAAT
1 ATATATATATCATGTATATATATTTTTAATATTATATTTTTATATATTATGTATATATTGTTAAT
* *** * *
59298432 ATCATATTATTCATATATTTTATTATGTATATTTTTTATAACTATATTATGTAAATATTTC
66 ATCATATTATTCATACATTTTATTATGTATACCATGTATAACTATATTATATAAATATTTC
59298493 ATATATATATCATGTATATATATTTTTAATATTATATTTTTTACGTATATTATGTATATATCT-T
1 ATATATATATCATGTATATATATTTTTAATATTATA-TTTTTA--TATATTATGTATATAT-TGT
*
59298557 TAATATCATATTATTCATACATTTT-TATAT-TATCCCATGTA
62 TAATATCATATTATTCATACATTTTAT-TATGTATACCATGTA
59298598 AATACTTTCA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
125 4 0.04
126 30 0.33
127 6 0.07
128 7 0.08
129 44 0.48
130 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (126 bp):
ATATATATATCATGTATATATATTTTTAATATTATATTTTTATATATTATGTATATATTGTTAAT
ATCATATTATTCATACATTTTATTATGTATACCATGTATAACTATATTATATAAATATTTC
Found at i:59298731 original size:26 final size:26
Alignment explanation
Indices: 59298701--59298752 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
59298691 ATTATGTATA
*
59298701 TATTTTTAATACTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
* * *
59298727 TATTTCTATTATTACTTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
59298753 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTCTAATACTACGTATATATTTT
Found at i:59298909 original size:3 final size:3
Alignment explanation
Indices: 59298895--59298978 Score: 52
Period size: 3 Copynumber: 28.7 Consensus size: 3
59298885 TCATATTTAC
* * * *
59298895 ATT ATT ACT ATT ATT ATC ATGT -TT AAT ATC A-T ATGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* *
59298940 GTT -TT A-T ACT ATT ATT ATT -TAT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT
59298979 CGTTTTCGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
2 7 0.11
3 52 0.83
4 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:59312798 original size:27 final size:27
Alignment explanation
Indices: 59312734--59312787 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
59312724 TTAGTTGACA
59312734 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
59312761 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
59312788 CATTTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
ACTTGAACTTGTGTTATTCCAAATATT
Found at i:59316475 original size:22 final size:23
Alignment explanation
Indices: 59316450--59316499 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
59316440 ATTTTGGGCC
* *
59316450 GTTTATT-TTTTTTTTAATTTTG
1 GTTTATTATATTTATTAATTTTG
*
59316472 GTTT-TTATATTTATTATTTTTG
1 GTTTATTATATTTATTAATTTTG
59316494 GTTTAT
1 GTTTAT
59316500 AATGGGCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (23 bp):
GTTTATTATATTTATTAATTTTG
Found at i:59317422 original size:18 final size:18
Alignment explanation
Indices: 59317401--59317492 Score: 105
Period size: 18 Copynumber: 5.1 Consensus size: 18
59317391 AGTCACTCTT
59317401 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
59317419 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
* *
59317437 TAACAGTCAATTATTCAT
1 TAACAGTCAGTTATTCAG
* *
59317455 TAGCAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAG
*
59317473 TAGCAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
59317491 TA
1 TA
59317493 TCTTTATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.02
18 61 0.97
19 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:59318874 original size:3 final size:3
Alignment explanation
Indices: 59318866--59318900 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
59318856 ATATATATAT
*
59318866 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59318901 TCTATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:59320304 original size:16 final size:16
Alignment explanation
Indices: 59320283--59320315 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59320273 GTTTTCCCAC
59320283 TTTCTTTAT-TTTCTTT
1 TTTCTTT-TCTTTCTTT
59320299 TTTCTTTTCTTTCTTT
1 TTTCTTTTCTTTCTTT
59320315 T
1 T
59320316 GTTTCGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTT
Found at i:59322230 original size:718 final size:719
Alignment explanation
Indices: 59320303--59323898 Score: 7068
Period size: 719 Copynumber: 5.0 Consensus size: 719
59320293 TTCTTTTTTC
59320303 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
1 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
59320368 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
66 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
59320433 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
131 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
59320498 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
196 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
59320563 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
261 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
59320628 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
326 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
*
59320693 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCACATCCGCACAACGTGGGTGACGCGAA
391 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
*
59320758 ATGTTCGAACTGGTCGGGCCTATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
456 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
59320823 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
521 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
59320888 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
586 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
*
59320953 AGGAAACTTTCGACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
651 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
59321018 GTGT
716 GTGT
59321022 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
1 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
59321087 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
66 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
59321152 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
131 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
59321217 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
196 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
59321282 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
261 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
*
59321347 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAAAATTACTTTTTGTGCA
326 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
59321412 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
391 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
59321477 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
456 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
59321542 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
521 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
59321607 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
586 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
59321672 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
651 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
59321737 GTGT
716 GTGT
59321741 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
1 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
59321806 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTC-ATAGGTG
66 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
59321870 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
131 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
* *
59321935 ATCATATGCTCAAAATGGTTGAGTAATGAATGAGAAATTGATACCCAAAGAAAGCTATTTGAAAA
196 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
59322000 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
261 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
59322065 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
326 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
59322130 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
391 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
59322195 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
456 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
59322260 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
521 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
59322325 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
586 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
59322390 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
651 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
59322455 GTGT
716 GTGT
59322459 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
1 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
59322524 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
66 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
59322589 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
131 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
59322654 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
196 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
59322719 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
261 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
*
59322784 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTCGTGCA
326 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
59322849 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
391 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
*
59322914 ATGTTCGAATTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
456 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
59322979 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
521 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
59323044 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
586 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
59323109 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
651 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
59323174 GTGT
716 GTGT
59323178 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
1 TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
59323243 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
66 TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
59323308 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
131 AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
59323373 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
196 ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
59323438 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
261 TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
* *
59323503 TTATATAAGTGAACTCTCTTAAAAGACAATTGAATGACTAAACTTCTAACATTACTTTTCGTGCA
326 TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
*
59323568 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCTGCACAACGTGGGTGACGCGAA
391 AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
*
59323633 ATGTTCGAACTGGTCGGGCCCATATAGGGCTTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
456 ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
59323698 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
521 TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
59323763 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
586 ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
*
59323828 AGGAAACTTTCGACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
651 AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
59323893 GTGT
716 GTGT
59323897 TT
1 TT
59323899 CACGGGTCTC
Statistics
Matches: 2860, Mismatches: 16, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
718 715 0.25
719 2145 0.75
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (719 bp):
TTTTCTTTCTTTTGTTTCGGTTCTTGCGGCTCCATTCTACTATATTGTTTTTCTTCTTTCTAAGA
TAATTCATGTTACTGTTGGAAAAATTACATTTTTTGGTAACTTTGAGGCATATTCTCAATAGGTG
AAGGTGGAGAGTTGAATCATAATTTTATGGTTCATATTCTACTCATAAGACCTTTACAACGGTAT
ATCATATGCTCAAAATGGTTGAGTGATGAATGAGAAATTGATACTCAAAGAAAGCTATTTGAAAA
TATTGTTGAGGAAAAATAAAAGGCTTAGATCCCACATTGGTTAAATACCAAAGTGTGGGATGTGT
TTATATAAGTGAACTCTCTTAAAAGGCAATTGAATGACTAAACTTCTAACATTACTTTTTGTGCA
AGAGGGTGCAGGTCCACCCAACCTTGACGGGGTAGGGCGCATCCGCACAACGTGGGTGACGCGAA
ATGTTCGAACTGGTCGGGCCCATATAGGGCCTATGGATATTTTAGCTTAAAACGAATTTCTCAAA
TACGAAATTTTGTTGTTCTAAAAAATCTCTTTTTTCATATTTCGTGTTTTCTAAATATTCCGGTC
ACAGAAAAAAGGCATTGGTCGTGGTAGAGGTGCTACTACTTTGACCACTGCTTTTGCCGTATCCT
AGGAAACTTTCAACCAACGTTACTCCAAGTATCGTAGGAGCGGCCAAATCTATCTTAAGGAAACC
GTGT
Found at i:59326139 original size:18 final size:18
Alignment explanation
Indices: 59326118--59326153 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59326108 AATAAATTTT
59326118 AAAA-TTCAAATATTTATA
1 AAAATTTCAAA-ATTTATA
59326136 AAAATTTCAAAATTTATA
1 AAAATTTCAAAATTTATA
59326154 TTTTCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTCAAAATTTATA
Found at i:59326207 original size:19 final size:21
Alignment explanation
Indices: 59326159--59326211 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
59326149 TTATATTTTC
*
59326159 AAAAATTCTAAAATACATATA
1 AAAAATTTTAAAATACATATA
*
59326180 AAAAA--TTAAAATTC-TA-A
1 AAAAATTTTAAAATACATATA
59326197 AAAAATTTTAAAATA
1 AAAAATTTTAAAATA
59326212 ATAATTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 6 0.22
18 2 0.07
19 14 0.52
21 5 0.19
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTTTAAAATACATATA
Found at i:59327219 original size:31 final size:34
Alignment explanation
Indices: 59327163--59327226 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
59327153 ATTAATTATT
59327163 ATTATTATAATTATAATACAATTACTT-TTAATGA
1 ATTATTATAATTATAATA-AATTACTTCTTAATGA
*
59327197 ATTATTATAATTAT-AT-ATTTACTTCTTAAT
1 ATTATTATAATTATAATAAATTACTTCTTAAT
59327227 ATATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 7 0.25
32 5 0.18
33 2 0.07
34 14 0.50
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (34 bp):
ATTATTATAATTATAATAAATTACTTCTTAATGA
Found at i:59332400 original size:17 final size:19
Alignment explanation
Indices: 59332362--59332411 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
59332352 TAAGATTCAA
59332362 AAAAGTTATAAAAATAATTT
1 AAAA-TTATAAAAATAATTT
*
59332382 AAAATT-TAAAAATTA-TT
1 AAAATTATAAAAATAATTT
59332399 AAAATTATAAAAA
1 AAAATTATAAAAA
59332412 AATATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 14 0.50
19 2 0.07
20 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAAATAATTT
Found at i:59332412 original size:10 final size:9
Alignment explanation
Indices: 59332361--59332411 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
59332351 TTAAGATTCA
59332361 AAAAAGTTAT
1 AAAAA-TTAT
*
59332371 AAAAATAATT
1 AAAAATTA-T
*
59332381 TAAAATT-T
1 AAAAATTAT
59332389 AAAAATTAT
1 AAAAATTAT
*
59332398 TAAAATTAT
1 AAAAATTAT
59332407 AAAAA
1 AAAAA
59332412 AATATATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 7 0.21
9 15 0.45
10 11 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:59337736 original size:3 final size:3
Alignment explanation
Indices: 59337730--59337773 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
59337720 CATCAATTTG
59337730 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
59337774 AGCTAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:59344643 original size:18 final size:18
Alignment explanation
Indices: 59344620--59344676 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
59344610 AAAAACGATA
59344620 ATAAATATATTATAAAAT
1 ATAAATATATTATAAAAT
* *
59344638 ATAAATACATTAAAATAAT
1 ATAAATATATTATAA-AAT
* *
59344657 A-AAAAATATATATTAAAT
1 ATAAATATAT-TATAAAAT
59344675 AT
1 AT
59344677 TAAGACGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATATATTATAAAAT
Found at i:59344691 original size:37 final size:38
Alignment explanation
Indices: 59344617--59344689 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
59344607 TAAAAAAACG
* *
59344617 ATAATAAATATATTATAAAATATAAATACATTAAAATA
1 ATAAAAAATATATTATAAAATATAAAGACATTAAAATA
* *
59344655 ATAAAAAATATA-TATTAAATATTAAGACGATTAAA
1 ATAAAAAATATATTATAAAATATAAAGAC-ATTAAA
59344690 TAGTTCAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 13 0.43
38 17 0.57
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (38 bp):
ATAAAAAATATATTATAAAATATAAAGACATTAAAATA
Found at i:59347504 original size:3 final size:3
Alignment explanation
Indices: 59347496--59347534 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
59347486 TTCTATCCCC
59347496 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59347535 GTTTATTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:59349523 original size:42 final size:43
Alignment explanation
Indices: 59349462--59349579 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 43
59349452 AATTTGAGAT
*
59349462 TTACATGTAAGATCATGTCTGGGACATCGGCATC-ATATCTG-A
1 TTACATGTAAGACCATGTCTGGGACATCGGCATCGATA-CTGAA
* * * **
59349504 TTTCGTGTAAGACCTTGTCTGGGACAGAGGCATCGATACTGAA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATCGATACTGAA
* * *
59349547 TTACATGTAAGACCACGTCCGGGACGTCGGCAT
1 TTACATGTAAGACCATGTCTGGGACATCGGCAT
59349580 TTTATGAGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACATCGGCATCGATACTGAA
Found at i:59351390 original size:23 final size:23
Alignment explanation
Indices: 59351364--59351407 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
59351354 ACCCTGTGAC
59351364 ATGTTAACTATACCCATAACTCT
1 ATGTTAACTATACCCATAACTCT
* *
59351387 ATGTTAATTGTACCCATAACT
1 ATGTTAACTATACCCATAACT
59351408 TTATCCGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGTTAACTATACCCATAACTCT
Found at i:59354441 original size:20 final size:20
Alignment explanation
Indices: 59354418--59354460 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
59354408 TTTTTTTTCA
*
59354418 TTTACATTAG-TTTTATAATT
1 TTTA-ATTAGATTTTAGAATT
*
59354438 TTTAATTTGATTTTAGAATT
1 TTTAATTAGATTTTAGAATT
59354458 TTT
1 TTT
59354461 TGTAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTAATTAGATTTTAGAATT
Found at i:59359660 original size:73 final size:73
Alignment explanation
Indices: 59359443--59359794 Score: 331
Period size: 73 Copynumber: 4.8 Consensus size: 73
59359433 TTTGGGTACT
* * * ** ** ** **
59359443 CTGAGGTATATTTAATTCATGTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAGTTTATGTTTT-AAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
59359508 GGTCACACG
65 GGTCACACG
* * *
59359517 CTGAGGTATTTTTAATTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTAAGTCAAGCCTCA
1 CTGAGGTATTTTTAGTTTATGTTT-TAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
59359582 GGTCACACG
65 GGTCACACG
* *
59359591 CTGAGGTGTTTTTAGTTTATGTTTTAAAAATTGACTCATAGTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTTAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
59359656 GT--CACG
66 GTCACACG
* * * * * * **
59359662 CTGAGGTATTTTAATTCATTTTGTTTCAAAAA-TCAGCTCATATTGCGAGGGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAGT--TTATGTTTTAAAAATTGA-CTCATATTGCGAGAGGTGAGTCAAGCCT
**
59359726 C-GG-GGCACG
63 CAGGTCACACG
* * * * *
59359735 CCGGGGTATTCTTAGTTTATGTTTT--AAATTGACTCATATTGTGAGAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAGTTTATGTTTTAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCT
59359795 TTTAATTTTT
Statistics
Matches: 233, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
69 28 0.12
70 2 0.01
71 24 0.10
72 4 0.02
73 92 0.39
74 83 0.36
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (73 bp):
CTGAGGTATTTTTAGTTTATGTTTTAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
GTCACACG
Found at i:59359990 original size:75 final size:71
Alignment explanation
Indices: 59359794--59359990 Score: 243
Period size: 72 Copynumber: 2.7 Consensus size: 71
59359784 GAGTTAAGCC
* * * *
59359794 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
59359859 GAGGTA
66 GAGGTA
* * **
59359865 TTTTCAGTTTTTGGGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTT-AATTTTT-GTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
59359929 ATGAGGTAA
64 ATGAGGT-A
* *
59359938 TTTTAATTTCTGTTTTTCAAAAAAGTCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTAATTTTTGTTTTTC--AAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
59359991 ACCTTTTAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
71 9 0.09
72 57 0.54
73 10 0.10
74 2 0.02
75 27 0.26
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (71 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:59360044 original size:54 final size:55
Alignment explanation
Indices: 59359938--59360049 Score: 138
Period size: 54 Copynumber: 2.0 Consensus size: 55
59359928 GATGAGGTAA
* * * *
59359938 TTTTAATTTCTGTTTTTCAAAAAAGTCAACTCATATTGCGAGAGGTGGGTTGAACC
1 TTTTAATTTCTCTTTTTC-AAAAAGTCAACTCATATTGCGAAAAGTGAGTTGAACC
* *
59359994 TTTTAATTTCTACTTTTTC-AAAA-TCAGCTCATATTGCGAAAAGTGAGTTGAGCC
1 TTTTAATTTCT-CTTTTTCAAAAAGTCAACTCATATTGCGAAAAGTGAGTTGAACC
59360048 TT
1 TT
59360050 AGGTCACGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 28 0.57
55 4 0.08
56 11 0.22
57 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (55 bp):
TTTTAATTTCTCTTTTTCAAAAAGTCAACTCATATTGCGAAAAGTGAGTTGAACC
Found at i:59360247 original size:149 final size:140
Alignment explanation
Indices: 59359938--59360269 Score: 328
Period size: 149 Copynumber: 2.3 Consensus size: 140
59359928 GATGAGGTAA
* * * *
59359938 TTTTAATTTCTGTTTTTCAAAAAAGTCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTT
1 TTTTAATTTCTGTTTTTC-AAAAA-TCAACTCATATTGCGAAAGGTGAGTTGAACCTCTCAATTT
* * * *
59360003 CTACTTTTTCAAAATCAGCTCATATTGCGAAAAGTGAGTTGAGCCTTAGGTCACGCCGAGGTATT
64 ATACTTTTTCAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACGCCGAGATATT
59360068 TTCAATTTCTGT
129 TTCAATTTCTGT
* * * *
59360080 TTTCATTATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCTCAATTT
1 TTT--TAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCTCAATTT
*
59360145 ATA-TTTTTCAAAAAAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGTTCACATG
64 ATACTTTTTC--------AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCAC--G
* *
59360209 CTGAGATATTTTCAGTCTT-TGT
119 CCGAGATATTTTCAAT-TTCTGT
* * * *
59360231 TTTTAATGTCTGTTTTT-AAAGAGTTAATTCATATTGCGA
1 TTTTAATTTCTGTTTTTCAAA-AATCAACTCATATTGCGA
59360270 GAAATGAGTT
Statistics
Matches: 154, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
141 6 0.04
142 40 0.26
143 5 0.03
144 12 0.08
148 3 0.02
149 66 0.43
151 20 0.13
152 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (140 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCTCAATTTAT
ACTTTTTCAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACGCCGAGATATTTT
CAATTTCTGT
Found at i:59361822 original size:3 final size:3
Alignment explanation
Indices: 59361816--59361865 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
59361806 TTATTTTTGA
* * * * *
59361816 ATT ATT AAT ATC ATT AAT ATT GTT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59361864 AT
1 AT
59361866 GTGTTAATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:59362328 original size:45 final size:44
Alignment explanation
Indices: 59362278--59362368 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
59362268 TTAAATATTA
* * *
59362278 TATTTTATATATATTATTATGTATAT-TTTAATATTATTAGGTTTC
1 TATTTT-TATATACTATTATGTATATCTCTAATATTA-TACGTTTC
* * *
59362323 TATTTTTCTTTACTATTATGTGTATCTCTAATATTATACGTTTC
1 TATTTTTATATACTATTATGTATATCTCTAATATTATACGTTTC
59362367 TA
1 TA
59362369 ATACTATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 24 0.62
45 15 0.38
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (44 bp):
TATTTTTATATACTATTATGTATATCTCTAATATTATACGTTTC
Found at i:59366773 original size:29 final size:29
Alignment explanation
Indices: 59366711--59366773 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
59366701 ATGAATTTTA
* **
59366711 AAAAATAGAAAGACTAAATTCCTAAAAAT
1 AAAAATACAAAGACTAAATTCCTAAATTT
*
59366740 AAAAATACAAAGACTAAATT-TTAAATTT
1 AAAAATACAAAGACTAAATTCCTAAATTT
59366768 ACAAAA
1 A-AAAA
59366774 AGCATCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAATACAAAGACTAAATTCCTAAATTT
Found at i:59368792 original size:30 final size:30
Alignment explanation
Indices: 59368748--59368810 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
59368738 ACTTAACAAG
59368748 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* * *
59368778 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
59368808 CAA
1 CAA
59368811 TAAAACTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:59374165 original size:2 final size:2
Alignment explanation
Indices: 59374158--59374188 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59374148 ATTATTACAA
59374158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59374189 GTACAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59378207 original size:51 final size:51
Alignment explanation
Indices: 59378152--59378252 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
59378142 GATGAAGAAA
*
59378152 AAGAAAAGAAAGAGGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
59378203 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
59378253 TCCATTGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.24
Consensus pattern (51 bp):
AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
Found at i:59379316 original size:15 final size:16
Alignment explanation
Indices: 59379290--59379322 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
59379280 ATTAAAAGTT
59379290 TTTTGAATTTGGGTTA
1 TTTTGAATTTGGGTTA
*
59379306 TTTTG-ATTTGGTTTA
1 TTTTGAATTTGGGTTA
59379321 TT
1 TT
59379323 ATAAGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGAATTTGGGTTA
Found at i:59382474 original size:62 final size:62
Alignment explanation
Indices: 59382377--59382500 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
59382367 AGGTGAGCAA
59382377 AGTATACTTTTCTTTAGGGGTTAGATTACCCATTTAATTTGACTTATCTGATTTATTTTGTT
1 AGTATACTTTTCTTTAGGGGTTAGATTACCCATTTAATTTGACTTATCTGATTTATTTTGTT
59382439 AGTATACTTTTCTTTAGGGGTTAGATTACCCATTTAATTTGACTTATCTGATTTATTTTGTT
1 AGTATACTTTTCTTTAGGGGTTAGATTACCCATTTAATTTGACTTATCTGATTTATTTTGTT
59382501 CATTTATCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.52
Consensus pattern (62 bp):
AGTATACTTTTCTTTAGGGGTTAGATTACCCATTTAATTTGACTTATCTGATTTATTTTGTT
Found at i:59390741 original size:43 final size:43
Alignment explanation
Indices: 59390676--59391088 Score: 449
Period size: 43 Copynumber: 9.8 Consensus size: 43
59390666 GGCGCTTTCT
59390676 AAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
** * *
59390718 AAAAGCGCCATTAAAGGTTAAGGCTTTTAGCGGCG---CT---
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
59390755 -AAA-TGCCGCTAACGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
59390796 AGAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTG-GGAT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG-G
* * ***
59390839 AAAAGCGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTTTCCC
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
59390882 ACAAA-CGTCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 A-AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * * * *
59390925 AGACGCGCCGCTAAAGGTCAATGCTTTTAGCGGCATTTGTAGTG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGG
* ** ***
59390969 -AAAGCGCCGCTAAAGATTGAGGCTTTTAGCGGCGCTTT-TCCC
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGG
59391011 ACAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 A-AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
59391054 AGAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
59391089 CTTTTTTTAC
Statistics
Matches: 303, Mismatches: 49, Indels: 37
0.78 0.13 0.10
Matches are distributed among these distances:
35 25 0.08
36 3 0.01
38 1 0.00
40 1 0.00
42 14 0.05
43 248 0.82
44 11 0.04
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:59390955 original size:129 final size:129
Alignment explanation
Indices: 59390759--59391088 Score: 554
Period size: 129 Copynumber: 2.6 Consensus size: 129
59390749 GGCGCTAAAT
*
59390759 GCCGCTAACGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
* *
59390824 AGCGGCGTTTGG-GATAAAAGCGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTTTCCCACAAAC
66 AGCGGCGTTTGGAG-TAAAAGCGCCGCTAAAGATTAAGGCTTTTAGCGGCGCTTTTCCCACAAAC
* * *
59390888 GTCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGACGCGCCGCTAAAGGTCAATGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
* * * *
59390953 AGCGGCATTTGTAGTGAAAGCGCCGCTAAAGATTGAGGCTTTTAGCGGCGCTTTTCCCACAAAC
66 AGCGGCGTTTGGAGTAAAAGCGCCGCTAAAGATTAAGGCTTTTAGCGGCGCTTTTCCCACAAAC
59391017 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
59391082 AGCGGCG
66 AGCGGCG
59391089 CTTTTTTTAC
Statistics
Matches: 186, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
129 185 0.99
130 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (129 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGCTTTT
AGCGGCGTTTGGAGTAAAAGCGCCGCTAAAGATTAAGGCTTTTAGCGGCGCTTTTCCCACAAAC
Found at i:59391240 original size:32 final size:31
Alignment explanation
Indices: 59391163--59391242 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
59391153 CTTCCTGCAT
* * *
59391163 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
* * ** *
59391194 TAAAATGCAGCCAAAAACAGTAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
59391225 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
59391243 TATTAATTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.17
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Found at i:59391512 original size:21 final size:21
Alignment explanation
Indices: 59391488--59391533 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
59391478 GCTCGTGCCT
*
59391488 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
59391509 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
59391530 CTGC
1 CTGC
59391534 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:59397190 original size:9 final size:9
Alignment explanation
Indices: 59397176--59397401 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
59397166 TATTTAAGTA
59397176 TTATGTAAG
1 TTATGTAAG
*
59397185 TTATGTAAT
1 TTATGTAAG
*
59397194 TTATGATATG
1 TTATG-TAAG
* * *
59397204 ATATAT-AT
1 TTATGTAAG
*
59397212 TTATGTAAA
1 TTATGTAAG
* *
59397221 TTATAT-AT
1 TTATGTAAG
*
59397229 TTATCTAAG
1 TTATGTAAG
*
59397238 TTATATAAG
1 TTATGTAAG
59397247 TTATGTAAG
1 TTATGTAAG
*
59397256 TTATGTAAA
1 TTATGTAAG
*
59397265 TTATGATATAAAA
1 TTATG---T-AAG
*
59397278 TATATTTAAG
1 T-TATGTAAG
59397288 TATTATGTAAG
1 --TTATGTAAG
59397299 TTATGTAAG
1 TTATGTAAG
* *
59397308 TTATAT-AT
1 TTATGTAAG
*
59397316 TTATCTAAG
1 TTATGTAAG
*
59397325 TTATATAAG
1 TTATGTAAG
*
59397334 TTATATAAG
1 TTATGTAAG
*
59397343 TTATGTATG
1 TTATGTAAG
*
59397352 TTATATAAG
1 TTATGTAAG
59397361 TTATGTAAG
1 TTATGTAAG
* *
59397370 TTATATATG
1 TTATGTAAG
*
59397379 TTATATAAG
1 TTATGTAAG
*
59397388 TTATGTAAA
1 TTATGTAAG
59397397 TTATG
1 TTATG
59397402 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:59397255 original size:18 final size:18
Alignment explanation
Indices: 59397176--59397401 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
59397166 TATTTAAGTA
* *
59397176 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
59397194 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
59397212 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
59397229 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
59397247 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
59397265 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
59397288 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
59397308 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
59397325 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
59397343 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
59397361 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
59397379 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
59397397 TTATG
1 TTATG
59397402 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:59397268 original size:27 final size:27
Alignment explanation
Indices: 59397229--59397401 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
59397219 AATTATATAT
*
59397229 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
59397256 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
59397288 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
59397316 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
59397343 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
59397370 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
59397397 TTATG
1 TTATG
59397402 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:59397286 original size:114 final size:114
Alignment explanation
Indices: 59397152--59397373 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
59397142 ACTAGTTATG
* * * *
59397152 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
59397216 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
59397266 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
59397331 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
59397374 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:59397526 original size:15 final size:15
Alignment explanation
Indices: 59397506--59397561 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
59397496 AAGTAGCGGG
59397506 ATTAAATAATATTTA
1 ATTAAATAATATTTA
59397521 ATTAAATAATATTT-
1 ATTAAATAATATTTA
59397535 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
59397550 ATTAAATAATAT
1 ATTAAATAATAT
59397562 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:59398434 original size:370 final size:373
Alignment explanation
Indices: 59397667--59398577 Score: 1711
Period size: 370 Copynumber: 2.5 Consensus size: 373
59397657 AATTGAAACA
* *
59397667 TTTGAATTTCTGAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
59397732 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
59397797 AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTGATAAAAAGTAGATATAACTTTTAAA
59397862 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
59397927 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTAGAAATAAATTAAGGTTAT
261 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTAGAAATAAATTAAGGTTAT
*
59397992 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAAGGAGCTCGATAGAACTTTTTTCAAGTCTT
*
59398040 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACTTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
59398105 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
59398170 AATAA-GTTGGAGAGAAGGTCAACTATTGTTGTAATTTTGATAAAAAGTAGATATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTGATAAAAAGTAGATATAACTTTTAAA
59398234 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATA
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
* * *
59398298 TAATAATATC-AAAAAGAATCGTATTTTAATTTTTATAAGTAAATTGGAAATAAATTATGGTTAT
261 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTAGAAATAAATTAAGGTTAT
59398362 ATAAATATTCAATAGTAAAGGAGCTCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAAGGAGCTCGATAGAACTTTTTTCAAGTCTT
59398410 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
59398475 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
* *
59398540 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTT
131 AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTT
59398578 AATGGACAAG
Statistics
Matches: 526, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
370 232 0.44
371 60 0.11
372 102 0.19
373 132 0.25
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (373 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTGATAAAAAGTAGATATAACTTTTAAA
GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATA
TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTAGAAATAAATTAAGGTTAT
ATAAATATTCAATAGTAAAGGAGCTCGATAGAACTTTTTTCAAGTCTT
Found at i:59401368 original size:10 final size:10
Alignment explanation
Indices: 59401353--59401383 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
59401343 TTCTGAGCAA
59401353 ACATGAATTT
1 ACATGAATTT
59401363 ACATGAATTT
1 ACATGAATTT
59401373 ACATGAATTT
1 ACATGAATTT
59401383 A
1 A
59401384 TCTAACACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (10 bp):
ACATGAATTT
Found at i:59402388 original size:14 final size:14
Alignment explanation
Indices: 59402369--59402408 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
59402359 TAAAATAATA
*
59402369 ATTTATATATATTT
1 ATTTATATACATTT
59402383 ATTTATATACATTT
1 ATTTATATACATTT
*
59402397 ATCT-TATACATT
1 ATTTATATACATT
59402409 AAAATCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTATATACATTT
Found at i:59402856 original size:18 final size:18
Alignment explanation
Indices: 59402833--59402883 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
59402823 TTACACCCTA
59402833 AATATATATTATAAACTT
1 AATATATATTATAAACTT
* **
59402851 AATATATATTAGAAGTTT
1 AATATATATTATAAACTT
59402869 AATATATATATATAA
1 AATATATAT-TATAA
59402884 CAAGGGACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
AATATATATTATAAACTT
Found at i:59403240 original size:41 final size:41
Alignment explanation
Indices: 59403188--59403451 Score: 345
Period size: 41 Copynumber: 6.4 Consensus size: 41
59403178 TTACTTTTTT
*
59403188 GCGGTGTTTTTCCAAAAGCGCCGCTAAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCT-AAAACCTCTACCTATA
* * * **
59403230 GCGGCG-TTTTCCAAAAGCTCCACTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCTACCTATA
*
59403270 GCAGCG-TTTTCACAAAAGCGCCGCTAAAAACCTCTACCTATA
1 GCGGCGTTTTTC-CAAAAGCGCCGCT-AAAACCTCTACCTATA
*
59403312 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCT-TGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCT-ACCTATA
* * *
59403353 GCGGCGTTTTTGCAAAAGCACCGTTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCTACCTATA
* * *
59403394 GCAGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCTACCTATA
59403435 GCGGCGTTTTTCCAAAA
1 GCGGCGTTTTTCCAAAA
59403452 TCATCGCTAT
Statistics
Matches: 191, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
40 24 0.13
41 126 0.66
42 36 0.19
43 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCTACCTATA
Found at i:59403413 original size:124 final size:123
Alignment explanation
Indices: 59403188--59403451 Score: 372
Period size: 124 Copynumber: 2.1 Consensus size: 123
59403178 TTACTTTTTT
* *
59403188 GCGGTGTTTTTCCAAAAGCGCCGCTAAAAACCTCTACCTATAGCGGCGTTTTCCAAAAGCTCCAC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACCTCTACCTATAGCGGCGTTTTCCAAAAGCACCAC
* *
59403253 TAAAACATCGGCCTATAGCAGCGTTTTCACAAAAGCGCCGCTAAAAACCTCTACCTATA
66 TAAAACATCGACCTATAGCAGCGTTTTCACAAAAGCGCCGCT-AAAACCTCGACCTATA
* *
59403312 GCGGCGTTTTTCCAGAAGCGCCGCT-AAAACCT-TGACCTATAGCGGCGTTTTTGCAAAAGCACC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACCTCT-ACCTATAGCGGCG-TTTTCCAAAAGCACC
** * * *
59403375 GTTAAAACCTCTACCTATAGCAGCGTTTTTC-CAGAAGCGCCGCTAAAACCTCGACCTATA
64 ACTAAAACATCGACCTATAGCAGCG-TTTTCACAAAAGCGCCGCTAAAACCTCGACCTATA
59403435 GCGGCGTTTTTCCAAAA
1 GCGGCGTTTTTCCAAAA
59403452 TCATCGCTAT
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
122 1 0.01
123 51 0.41
124 68 0.54
125 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (123 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAAACCTCTACCTATAGCGGCGTTTTCCAAAAGCACCAC
TAAAACATCGACCTATAGCAGCGTTTTCACAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:59403497 original size:37 final size:37
Alignment explanation
Indices: 59403446--59403518 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
59403436 CGGCGTTTTT
* * **
59403446 CCAAAATCATCGCTATTGTTCAGTTTTTAGCGGCGTC
1 CCAAAAACACCGCTATTGCCCAGTTTTTAGCGGCGTC
59403483 CCAAAAACACCGCTATTGCCCAGTTTTTAGCGGCGT
1 CCAAAAACACCGCTATTGCCCAGTTTTTAGCGGCGT
59403519 TTTGATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (37 bp):
CCAAAAACACCGCTATTGCCCAGTTTTTAGCGGCGTC
Found at i:59409469 original size:9 final size:10
Alignment explanation
Indices: 59409445--59409478 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
59409435 AATTATTATT
59409445 TATTTTATAA
1 TATTTTATAA
59409455 TATTTTA-AA
1 TATTTTATAA
*
59409464 TGTTTTATAA
1 TATTTTATAA
59409474 TATTT
1 TATTT
59409479 ACTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:59409571 original size:10 final size:10
Alignment explanation
Indices: 59409540--59409572 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59409530 GTTTGAATAA
59409540 AAAATATTAT
1 AAAATATTAT
*
59409550 AAAACATT-T
1 AAAATATTAT
59409559 AAAATATTAT
1 AAAATATTAT
59409569 AAAA
1 AAAA
59409573 AATAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:59409582 original size:19 final size:19
Alignment explanation
Indices: 59409535--59409593 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
59409525 AAAACGTTTG
*
59409535 AATAAAAAATATTATAAAA
1 AATAATAAATATTATAAAA
* *
59409554 CAT-TTAAAATATTATAAAA
1 AATAAT-AAATATTATAAAA
59409573 AATAATAAATAATT-TAAAA
1 AATAATAAAT-ATTATAAAA
59409592 AA
1 AA
59409594 CAAATTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAATAAATATTATAAAA
Done.