Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3703
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: 135119
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:14519 original size:44 final size:44
Alignment explanation
Indices: 14452--14850 Score: 304
Period size: 44 Copynumber: 8.8 Consensus size: 44
14442 GAAAAATTTC
* * *
14452 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
14496 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
14540 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
14583 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCATATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * * ** ** **
14638 AGATCTTATCTCCCTG-AGATTACAGTGGAACAAACCGAAAAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTG--AAGCTAG
* * *
14684 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
14728 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
14772 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
14815 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
14851 CACATCAGAT
Statistics
Matches: 276, Mismatches: 58, Indels: 42
0.73 0.15 0.11
Matches are distributed among these distances:
42 2 0.01
43 8 0.03
44 192 0.70
45 3 0.01
46 33 0.12
47 3 0.01
51 1 0.00
52 1 0.00
53 3 0.01
54 26 0.09
55 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:14815 original size:232 final size:232
Alignment explanation
Indices: 14409--14886 Score: 929
Period size: 232 Copynumber: 2.1 Consensus size: 232
14399 ATTATACAGG
* *
14409 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
14474 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
14539 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
*
14604 TACAGTAGAGTAGATCATATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
14641 TCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
14706 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
14771 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
14836 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
14873 TCTTATCTCCCTGA
1 TCTTATCTCCCTGA
14887 TGTTGCAGTG
Statistics
Matches: 243, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
232 243 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAAACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:16555 original size:3 final size:3
Alignment explanation
Indices: 16547--16581 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16537 GATTTAGTCC
16547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16582 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19565 original size:22 final size:21
Alignment explanation
Indices: 19529--19569 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19519 TTTTTCTAAC
*
19529 AAAAATTTTAACAAAATTTATT
1 AAAAATTTCAAC-AAATTTATT
*
19551 AAAAATTTCATCAAATTTA
1 AAAAATTTCAACAAATTTA
19570 ACGATGGTGA
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:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTTCAACAAATTTATT
Found at i:28862 original size:53 final size:52
Alignment explanation
Indices: 28711--28862 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 52
28701 ATGTGATATA
* * * *
28711 TGATTTCGTATAAGACCATAGCCGGGCTATGGCATCGGTACAATGTGATTCG
1 TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATTCG
* * *
28763 TG-TTCTAGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGATAAT-G
1 TGATTC-CGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGAT--TCG
* * *
28816 TGATTCCGTATAAGACCATATCTGAGATATGGCATCGGTATAATATG
1 TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATG
28863 TGATCCGTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
51 2 0.02
52 39 0.47
53 38 0.46
54 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (52 bp):
TGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATTCG
Found at i:29622 original size:13 final size:13
Alignment explanation
Indices: 29606--29637 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29596 GTCACATGGG
29606 CGTGTGCCCAGGC
1 CGTGTGCCCAGGC
*
29619 CGTGTGCCTAGGC
1 CGTGTGCCCAGGC
29632 CGTGTG
1 CGTGTG
29638 GAAAAGTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.31, G:0.41, T:0.22
Consensus pattern (13 bp):
CGTGTGCCCAGGC
Found at i:34752 original size:15 final size:16
Alignment explanation
Indices: 34718--34754 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
34708 ATCCACATTT
34718 ATTTTC-AGGTACGAA
1 ATTTTCAAGGTACGAA
34733 A-TTTCAAGG-ACGAA
1 ATTTTCAAGGTACGAA
34747 ATTTTCAA
1 ATTTTCAA
34755 AGAGGGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (16 bp):
ATTTTCAAGGTACGAA
Found at i:36212 original size:52 final size:53
Alignment explanation
Indices: 36104--36255 Score: 166
Period size: 52 Copynumber: 2.9 Consensus size: 53
36094 GACGGAAAAG
* * * *
36104 ATGTGAT-ATATGATTCCGTATAAGACCATAGCCGGACTATGGCATCGGTACA
1 ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
** ***
36156 ATGTGATTCT-TG-TTCCCCTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATAATGTGATT-CCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
36208 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCG
1 ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCG
36256 ATATGATATG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
51 2 0.02
52 48 0.57
53 32 0.38
54 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGATTCCCTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:37100 original size:20 final size:20
Alignment explanation
Indices: 37049--37106 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
37039 TGCTCATGGG
*
37049 CAGGCCACACGAGCATGTTC
1 CAGGCCACACGGGCATGTTC
* **
37069 CATGCCACACGGGTGTGTTC
1 CAGGCCACACGGGCATGTTC
*
37089 CAGGCCACACGGACATGT
1 CAGGCCACACGGGCATGT
37107 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:49103 original size:9 final size:9
Alignment explanation
Indices: 49089--49114 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49079 TGATTATTAT
49089 TATTTAGTA
1 TATTTAGTA
49098 TATTTAGTA
1 TATTTAGTA
49107 TATTTAGT
1 TATTTAGT
49115 TTAGTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (9 bp):
TATTTAGTA
Found at i:51252 original size:27 final size:27
Alignment explanation
Indices: 51180--51254 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 27
51170 TGGAGGAATC
51180 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
51207 GTTTCTGGTGGCTACGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCT
*
51235 GTTCTGGTGGCTGTGCCACA
1 GTTCTGGTGGCTATGCCACA
51255 TATTCTGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 18 0.41
28 26 0.59
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:51563 original size:61 final size:60
Alignment explanation
Indices: 51467--51641 Score: 171
Period size: 61 Copynumber: 2.9 Consensus size: 60
51457 CCAACTGTGT
* * *
51467 TAATATGGGCAAGGCCCAATATA-TCTCGA-ACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTAGGCCCAGTATACTCT-GATA-TTGTAATAGGGCTA-GGCCCAGATTAATAC
* * *
51528 TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAA-GGGGTTATGGCCCAGATTAATAT
1 TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTA-GGCCCAGATTAATAC
* *
51588 TGATATGGGCTAAGGCCCAGT-TAACTCTGAT-TTCTGAATAGGGCTTAGGCCCAG
1 TAATATGGGCT-AGGCCCAGTAT-ACTCTGATATTGT-AATAGGGC-TAGGCCCAG
51642 TAAAGCTTGA
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
60 32 0.33
61 48 0.50
62 14 0.15
63 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (60 bp):
TAATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTAGGCCCAGATTAATAC
Found at i:57878 original size:8 final size:8
Alignment explanation
Indices: 57861--57898 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
57851 TTTAAAATTG
57861 ATTT-AAA
1 ATTTAAAA
57868 ATTTAAAA
1 ATTTAAAA
57876 ATTTAAAA
1 ATTTAAAA
57884 ATTT-AAA
1 ATTTAAAA
57891 ATTTAAAA
1 ATTTAAAA
57899 TTAAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.38
8 18 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTAAAA
Found at i:57881 original size:15 final size:15
Alignment explanation
Indices: 57861--57904 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
57851 TTTAAAATTG
57861 ATTTAAAATTTAAAA
1 ATTTAAAATTTAAAA
57876 ATTTAAAAATTT-AAA
1 ATTT-AAAATTTAAAA
57891 ATTTAAAA-TTAAAA
1 ATTTAAAATTTAAAA
57905 GTATTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 11 0.41
16 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAAATTTAAAA
Found at i:57904 original size:6 final size:7
Alignment explanation
Indices: 57861--57904 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
57851 TTTAAAATTG
57861 ATTTAAA
1 ATTTAAA
57868 ATTTAAAA
1 ATTT-AAA
57876 ATTTAAAA
1 ATTT-AAA
57884 ATTTAAA
1 ATTTAAA
57891 ATTTAAA
1 ATTTAAA
57898 A-TTAAA
1 ATTTAAA
57904 A
1 A
57905 GTATTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 15 0.42
8 15 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATTTAAA
Found at i:58354 original size:6 final size:6
Alignment explanation
Indices: 58343--58395 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
58333 TAATTCTATC
58343 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
58391 TATAA
1 TATAA
58396 TCACAATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TATAAA
Found at i:62281 original size:54 final size:54
Alignment explanation
Indices: 62166--62283 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
62156 GGTCACACGA
* * * * * * *
62166 CCATGTAACTTTTTATGACCGTGTGGCTCAAGGTTACACGATCGTGTCGCTAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
** * *
62220 TTATGTAACTTTTTGTGACTGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
*
62274 CCGTGTAACT
1 CCATGTAACT
62284 CTATACCCGT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (54 bp):
CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
Found at i:76080 original size:35 final size:35
Alignment explanation
Indices: 76037--76105 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
76027 ATAAGAAAGG
76037 AAATTGACTCACATTCTCAAGCAGCACAAACGAGA
1 AAATTGACTCACATTCTCAAGCAGCACAAACGAGA
76072 AAATTGACTCACATTCTCAAGCAGCACAAACGAG
1 AAATTGACTCACATTCTCAAGCAGCACAAACGAG
76106 CTATTGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.17
Consensus pattern (35 bp):
AAATTGACTCACATTCTCAAGCAGCACAAACGAGA
Found at i:81060 original size:15 final size:15
Alignment explanation
Indices: 81022--81063 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
81012 TCCAAGGAGA
81022 AAAAATGAAA-GAATG
1 AAAAA-GAAACGAATG
81037 AGGAAAAGAAACGAATG
1 A--AAAAGAAACGAATG
81054 AAAAAGAAAC
1 AAAAAGAAAC
81064 ATCATGCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 10 0.42
16 4 0.17
17 10 0.42
ACGTcount: A:0.67, C:0.05, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAAAGAAACGAATG
Found at i:84206 original size:47 final size:46
Alignment explanation
Indices: 84140--84498 Score: 200
Period size: 47 Copynumber: 7.7 Consensus size: 46
84130 ATTGTGCACC
* * *
84140 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAATGCT
* *
84186 AGTGTAAGACCATGTCTGGGACATGGCATCGG---TATTGAAAT-AAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---ATGAA-TGCT
* * * *
84234 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGATTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAATGCT
* * ** *
84280 AGTATAAGACCATGTCTGGGACATGGCATTGG-CACAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TTATGAATGCT
* * * *
84328 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGA-CA-GAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA-AT-GCT
* * * * * * *
84375 AGTTTAAGACGTGTTTGGGACACGCATCGGCTAAGAGT-TG--TGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACATTATGAATGCT
* * * * *
84419 AGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTATATGAGA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGA-ATGCT
*
84467 AGTGTAAGACCATGTTTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
84499 AAATATATCC
Statistics
Matches: 239, Mismatches: 47, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
44 29 0.12
45 7 0.03
46 36 0.15
47 92 0.38
48 53 0.22
49 16 0.07
50 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAATGCT
Found at i:84301 original size:94 final size:91
Alignment explanation
Indices: 84140--84498 Score: 330
Period size: 94 Copynumber: 3.8 Consensus size: 91
84130 ATTGTGCACC
* * * * * *
84140 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGATAGCCAGTGTAAGACCATGTCTGG
* *
84205 GACATGGCATCGGTATTGAAATAAGGGCT
65 GACATGGCATCGGTA-AGAAAT-AGTGCT
* *
84234 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGATTGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGATAGCCAGTGTAAGACCATGTCTGG
* * *
84299 GACATGGCATTGGCACAGAGATGAGTGCT
65 GACATGGCATCGGTA-AGAAAT-AGTGCT
* * * * * * *
84328 AGTGTAAGACATGTCTGGGACATACATCGGCC-TCGACAGAGATAGCCAGTTTAAGA-CGTGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATA-TGATAGCCAGTGTAAGACCATGTCT
* * *
84391 GGGACA-CGCATCGGCTAAG-AGTTGTGCT
63 GGGACATGGCATCGG-TAAGAAATAGTGCT
* * * *
84419 AGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGATAGCCAGTGTAAGACCATGTCT
84484 GGGACATGGCATCGG
63 GGGACATGGCATCGG
84499 AAATATATCC
Statistics
Matches: 217, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
91 32 0.15
92 15 0.07
93 24 0.11
94 130 0.60
95 16 0.07
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGATAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGTAAGAAATAGTGCT
Found at i:86475 original size:25 final size:25
Alignment explanation
Indices: 86441--86490 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
86431 TATGACAGAG
86441 TATGAGCGGGAGTTTGTGAAACTCA
1 TATGAGCGGGAGTTTGTGAAACTCA
86466 TATGAGCGGGAGTTTGTGAAACTCA
1 TATGAGCGGGAGTTTGTGAAACTCA
86491 ACAAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (25 bp):
TATGAGCGGGAGTTTGTGAAACTCA
Found at i:91348 original size:47 final size:47
Alignment explanation
Indices: 91281--91642 Score: 180
Period size: 47 Copynumber: 7.7 Consensus size: 47
91271 AAAATTGTGC
*
91281 GCCAGTGTAA-ACATGTCTGGGACAT-GCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
*
91326 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATATCCA-A--ATGA-A
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG---GCCACATTATGAGA
* * * * **
91373 GGCTAGTGTATGACATGTCTGGGACAT-GCATCAGCCATATTATGATT
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
** * ** *
91420 TTCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACA-TTATGAGA
* * * * *
91468 GCCTGTGTAAGACATGTCTGGGACAT-ACACCGGCCTTGACA-GA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCC---ACATTATGAGA
** * * * * * *
91515 GCCAGTGTAAGATGTGTCTGGGACA-CGCATCAGCTAGGAGT-T--GT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCA-CATTATGAGA
* * * * * * *
91559 GCTAGGGTAAGACGTGTCTGAGACAT-GCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGC-CACAT-TATGAGA
91607 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
91643 AATATATCCC
Statistics
Matches: 236, Mismatches: 51, Indels: 55
0.69 0.15 0.16
Matches are distributed among these distances:
43 3 0.01
44 31 0.13
45 12 0.05
46 24 0.10
47 88 0.37
48 52 0.22
49 12 0.05
50 11 0.05
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:91476 original size:94 final size:93
Alignment explanation
Indices: 91284--91640 Score: 293
Period size: 94 Copynumber: 3.8 Consensus size: 93
91274 ATTGTGCGCC
* *
91284 AGTGTAA-ACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
91348 GACATGGCATCGATATCCAAATGAAGGCT
66 GACATGGCATCGATA-CCAAATGAAGGCT
* * ****
91377 AGTGTATGACATGTCTGGGACATGCATCAGCCATATTATGATTTTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
91442 GACATGGCATCGGTA-CAGAGATG-AGTGCCT
66 GACATGGCATCGATACCA-A-ATGAAG-G-CT
* * * * * **
91472 -GTGTAAGACATGTCTGGGACATACACCGGCCTTGACA-GA-GATAGCCAGTGTAAGA-TGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAGAGCCAGTGTAAGACCATGTC
* * ** ** *
91533 TGGGACA-CGCATCAGCTAGGAGTTG--TGCT
63 TGGGACATGGCATC-GATACCAAATGAAGGCT
* * * * *
91562 AGGGTAAGACGTGTCTGAGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCT
91627 GGGACATGGCATCG
64 GGGACATGGCATCG
91641 GCAATATATC
Statistics
Matches: 208, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
89 1 0.00
90 2 0.01
91 26 0.12
92 18 0.09
93 28 0.13
94 114 0.55
95 16 0.08
96 1 0.00
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGATACCAAATGAAGGCT
Found at i:99049 original size:17 final size:16
Alignment explanation
Indices: 99027--99060 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99017 GGGGATGGAG
99027 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
99044 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
99060 T
1 T
99061 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:101640 original size:63 final size:63
Alignment explanation
Indices: 101564--101689 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
101554 AAGAAGAATG
*
101564 ACATACTATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
101627 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
101690 TTCTGAGGAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (63 bp):
ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
Found at i:114057 original size:15 final size:16
Alignment explanation
Indices: 114037--114070 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
114027 ATATCACGTT
*
114037 AATAAATAATTA-AAA
1 AATAAAAAATTATAAA
114052 AATAAAAAATTATAAA
1 AATAAAAAATTATAAA
114068 AAT
1 AAT
114071 TCAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAAAAATTATAAA
Found at i:114918 original size:9 final size:10
Alignment explanation
Indices: 114894--114944 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
114884 CACAATAGTC
114894 CTCTCACAATT
1 CTCTCA-AATT
114905 CTCTCTAAATT
1 CTCTC-AAATT
114916 CTCTCCAAATT
1 CTCT-CAAATT
114927 CTCTCAAATTT
1 CTCTCAAA-TT
114938 CTCTCAA
1 CTCTCAA
114945 TTTTTGTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 31 0.84
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:114954 original size:21 final size:22
Alignment explanation
Indices: 114937--114976 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
114927 CTCTCAAATT
114937 TCTCTC-AATTTTTGTCAAAGC
1 TCTCTCTAATTTTTGTCAAAGC
114958 TCTCTCTAATTTTTG-CAAA
1 TCTCTCTAATTTTTGTCAAA
114977 AAAAGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (22 bp):
TCTCTCTAATTTTTGTCAAAGC
Found at i:116130 original size:7 final size:7
Alignment explanation
Indices: 116118--116227 Score: 220
Period size: 7 Copynumber: 15.7 Consensus size: 7
116108 TAGTCGTTTC
116118 GTATTTA
1 GTATTTA
116125 GTATTTA
1 GTATTTA
116132 GTATTTA
1 GTATTTA
116139 GTATTTA
1 GTATTTA
116146 GTATTTA
1 GTATTTA
116153 GTATTTA
1 GTATTTA
116160 GTATTTA
1 GTATTTA
116167 GTATTTA
1 GTATTTA
116174 GTATTTA
1 GTATTTA
116181 GTATTTA
1 GTATTTA
116188 GTATTTA
1 GTATTTA
116195 GTATTTA
1 GTATTTA
116202 GTATTTA
1 GTATTTA
116209 GTATTTA
1 GTATTTA
116216 GTATTTA
1 GTATTTA
116223 GTATT
1 GTATT
116228 ACCTATATAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 103 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:116779 original size:30 final size:30
Alignment explanation
Indices: 116726--116783 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
116716 TGACGATAAA
*
116726 GGCCCACCAGCAGCGCCCACACAACCACCG
1 GGCCCACCAACAGCGCCCACACAACCACCG
* * *
116756 GGCCCATCAACAGTGCCCGCACAACCAC
1 GGCCCACCAACAGCGCCCACACAACCAC
116784 TTGGCCGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.50, G:0.19, T:0.03
Consensus pattern (30 bp):
GGCCCACCAACAGCGCCCACACAACCACCG
Found at i:116868 original size:18 final size:18
Alignment explanation
Indices: 116845--116887 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
116835 TGCCAGGTGC
*
116845 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
116863 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
116881 GTTTCCT
1 GTATCCT
116888 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:118867 original size:27 final size:27
Alignment explanation
Indices: 118833--119006 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
118823 TAAATTGTAC
118833 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
118860 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
118886 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
118914 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
118942 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
118969 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
118996 AGCACTGAGTG
1 AGCACTAAGTG
119007 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:118947 original size:82 final size:81
Alignment explanation
Indices: 118834--118989 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
118824 AAATTGTACA
* *
118834 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
118898 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
118915 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
118980 TGCGAGTTGA
65 TGCGAATTGA
118990 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:129028 original size:133 final size:137
Alignment explanation
Indices: 128788--129042 Score: 357
Period size: 133 Copynumber: 1.9 Consensus size: 137
128778 TTTTTTATTA
128788 TTTTTATATAGATTTTAATTAATAAATAAAAGTTCTGTTATTTAAAATAATTTTAATTGTACTTT
1 TTTTTATATAGATTTTAATTAATAAATAAAAGTTCTGTTATTTAAAATAATTTTAATTGTACTTT
*
128853 ACTTTTTTTAATTTTATTAAAAATAAATGTTATTTTAATAGCCAAT-ATTTTTATTATTTTTTTA
66 ACTTTTTTTAATTTTA-TAAAAATAAACGTTATTTTAATAGCCAATAATTTTTATTATTTTTTTA
128917 TATTTTAT
130 TATTTTAT
128925 TTTTTATATTAG-TTTTAATTAATAAA-ATAAAG-T-TGTT-TTTAAAAT-ATTTTAATTGTACT
1 TTTTTATA-TAGATTTTAATTAATAAATA-AAAGTTCTGTTATTTAAAATAATTTTAATTGTACT
** *
128984 TTACTTTTTTTAAATTTTA-ATCAA-CAACGTTATTTTAAATTAGCCAATAATTTTTATTA
64 TTACTTTTTTT-AATTTTATAAAAATAAACGTTATTTT-AA-TAGCCAATAATTTTTATTA
129043 AAATAAATGT
Statistics
Matches: 108, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
131 10 0.09
132 5 0.05
133 33 0.31
134 25 0.23
135 4 0.04
136 2 0.02
137 26 0.24
138 3 0.03
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (137 bp):
TTTTTATATAGATTTTAATTAATAAATAAAAGTTCTGTTATTTAAAATAATTTTAATTGTACTTT
ACTTTTTTTAATTTTATAAAAATAAACGTTATTTTAATAGCCAATAATTTTTATTATTTTTTTAT
ATTTTAT
Found at i:130668 original size:41 final size:40
Alignment explanation
Indices: 130596--130686 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 40
130586 AGCGTTTTTG
* *
130596 AAAAACGCCACTATAGATGAGCATTCCAGCGGCGTTTTTTCA
1 AAAAACGCCACTATAGATGAGCATT-CAGCGGCGCTTTCT-A
*
130638 AAAAACGCCACTATAGGTTGA-CTATT-AGCGGCGCTTTCTA
1 AAAAACGCCACTATA-GATGAGC-ATTCAGCGGCGCTTTCTA
130678 AAAAACGCC
1 AAAAACGCC
130687 GGCAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 10 0.23
41 11 0.25
42 16 0.36
43 7 0.16
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAAACGCCACTATAGATGAGCATTCAGCGGCGCTTTCTA
Found at i:131189 original size:12 final size:13
Alignment explanation
Indices: 131163--131191 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
131153 ATATTTATTC
131163 ATATAAAATTAAT
1 ATATAAAATTAAT
131176 ATATAAAA-TAAT
1 ATATAAAATTAAT
131188 ATAT
1 ATAT
131192 TGATGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAAAATTAAT
Found at i:132222 original size:41 final size:38
Alignment explanation
Indices: 132137--132226 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 38
132127 TTTAGCGGCA
132137 TTTTTCAAAAAGGCCGCTAATGCTCGATCTAATAGCGG
1 TTTTTCAAAAAGGCCGCTAATGCTCGATCTAATAGCGG
** *
132175 CGTTTCAGAAAAGTGCCGCTAATTTGCTTGATCT-ATAGCGG
1 TTTTTCA-AAAAG-GCCGCTAA--TGCTCGATCTAATAGCGG
132216 TTTTTCAAAAA
1 TTTTTCAAAAA
132227 AGATACTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 5 0.12
39 5 0.12
40 12 0.28
41 12 0.28
42 9 0.21
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (38 bp):
TTTTTCAAAAAGGCCGCTAATGCTCGATCTAATAGCGG
Found at i:132228 original size:41 final size:39
Alignment explanation
Indices: 132137--132228 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
132127 TTTAGCGGCA
132137 TTTTTC-AAAAAGGCCGCTAATGCTCGATCTAATAGCGG
1 TTTTTCAAAAAAGGCCGCTAATGCTCGATCTAATAGCGG
** * *
132175 CGTTTCAGAAAAGTGCCGCTAATTTGCTTGATCT-ATAGCGG
1 TTTTTCAAAAAAG-GCCGCTAA--TGCTCGATCTAATAGCGG
132216 TTTTTCAAAAAAG
1 TTTTTCAAAAAAG
132229 ATACTAATGC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
38 4 0.09
39 5 0.12
40 8 0.19
41 17 0.40
42 9 0.21
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (39 bp):
TTTTTCAAAAAAGGCCGCTAATGCTCGATCTAATAGCGG
Found at i:134054 original size:16 final size:17
Alignment explanation
Indices: 134016--134056 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
134006 ACTTTATTTT
*
134016 ATAATTAAAACTATATAA
1 ATAA-TAAAACTATAAAA
134034 A-AATAAAA-TATAAAA
1 ATAATAAAACTATAAAA
134049 ATAATAAA
1 ATAATAAA
134057 TAATATTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 2 0.10
18 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATAAAACTATAAAA
Found at i:134059 original size:13 final size:13
Alignment explanation
Indices: 134028--134052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134018 AATTAAAACT
134028 ATATAAAAATAAA
1 ATATAAAAATAAA
134041 ATATAAAAATAA
1 ATATAAAAATAA
134053 TAAATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:134280 original size:118 final size:113
Alignment explanation
Indices: 134041--134280 Score: 287
Period size: 118 Copynumber: 2.1 Consensus size: 113
134031 TAAAAATAAA
*
134041 ATATAAAAATAATAAATAATATTGGCTAATTTAAAATAACATTTATTTAAAAAATTAAAAAAGAA
1 ATATAAAAATAATAAATAATATTGGCTAATTTAAAAGAACATTTATTTAAAAAATTAAAAAAGAA
134106 AGTACAATTAAAATATTAAAAACAACTTTTATTTTATTATTAAAAACT
66 AGTACAATTAAAATATTAAAAACAACTTTTATTTTATTATTAAAAACT
*
134154 ATATAAAAATAATAAA-AATATT-TCTAA-TTAAAAGGAACATATT-TTTAAAATAAAATTAAAA
1 ATATAAAAATAATAAATAATATTGGCTAATTTAAAA-GAACAT-TTATTT--AA-AAAATTAAAA
* *
134215 AATGATAATAGTAGCAGTTAAAATATTAAAAA-ACAC-TTTATTTTATTA-TATGAAACT
61 AA-G--AA-AGTA-CAATTAAAATATTAAAAACA-ACTTTTATTTTATTATTA-AAAACT
134272 ATATAAAAA
1 ATATAAAAA
134281 AAGTTTCTTA
Statistics
Matches: 111, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
110 6 0.05
111 12 0.11
112 8 0.07
113 18 0.16
114 12 0.11
115 1 0.01
117 4 0.04
118 31 0.28
119 19 0.17
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (113 bp):
ATATAAAAATAATAAATAATATTGGCTAATTTAAAAGAACATTTATTTAAAAAATTAAAAAAGAA
AGTACAATTAAAATATTAAAAACAACTTTTATTTTATTATTAAAAACT
Done.