Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 125 of 378
Found at i:35021668 original size:1 final size:1
Alignment explanation
Indices: 35021662--35021697 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
35021652 CCAAGTTCCG
35021662 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35021698 GGTATATCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:35025888 original size:40 final size:40
Alignment explanation
Indices: 35025814--35025959 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
35025804 CCGCATCAAG
* * * * * *
35025814 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
35025854 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
35025894 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
35025934 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
35025960 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:35025974 original size:40 final size:40
Alignment explanation
Indices: 35025846--35025997 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
35025836 ATCACGATTT
* * * * *
35025846 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
35025886 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
35025926 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
35025966 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35025998 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:35033169 original size:40 final size:40
Alignment explanation
Indices: 35033095--35033240 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
35033085 CCGCACCAAG
* * * * * *
35033095 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
35033135 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
35033175 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
35033215 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
35033241 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:35033255 original size:40 final size:40
Alignment explanation
Indices: 35033127--35033278 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
35033117 ATCACGATTT
* * * * *
35033127 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
35033167 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
35033207 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
35033247 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35033279 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:35037391 original size:40 final size:40
Alignment explanation
Indices: 35037328--35037442 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
35037318 TGCTGAAAAT
* *
35037328 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGC
* *
35037368 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAGC
* *
35037408 TAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAA
35037443 ATCATGATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.04
40 62 0.93
41 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGC
Found at i:35037455 original size:40 final size:39
Alignment explanation
Indices: 35037286--35037472 Score: 148
Period size: 40 Copynumber: 4.7 Consensus size: 39
35037276 GAGAAATTGA
* * *
35037286 ATGATATCCGGACTAAGCCCCGAAGACAATTATGCTG-AAA-
1 ATGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAAT
* * * * *
35037326 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT
1 ATGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
* *
35037365 A-GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT
1 ATG--ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
*
35037405 -TGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
1 ATG--ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
* * *
35037445 CATGATATCCGGGTTAAGTCCCGTAGGC
1 -ATGATATCCGGGCTAAGACCCGAAGGC
35037473 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 3 0.03
40 109 0.92
42 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
ATGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
Found at i:35040605 original size:9 final size:9
Alignment explanation
Indices: 35040572--35040707 Score: 54
Period size: 9 Copynumber: 15.6 Consensus size: 9
35040562 TATTTATGTA
35040572 TTATGTAAG
1 TTATGTAAG
*
35040581 TTAAGTAAG
1 TTATGTAAG
*
35040590 TTTTGTAAG
1 TTATGTAAG
*
35040599 TTATGTATG
1 TTATGTAAG
*
35040608 ATATG--A-
1 TTATGTAAG
35040614 -TATGATAA-
1 TTATG-TAAG
* *
35040622 ATATTTAAG
1 TTATGTAAG
35040631 TATTATGTAAG
1 --TTATGTAAG
35040642 TTATGTAAG
1 TTATGTAAG
* * *
35040651 TTGTAATACG
1 TTAT-GTAAG
* * *
35040661 ATATAT-AT
1 TTATGTAAG
35040669 TTATGT-A-
1 TTATGTAAG
35040676 TTATGTAAG
1 TTATGTAAG
*
35040685 TTATGTAAA
1 TTATGTAAG
*
35040694 TTACGTAAG
1 TTATGTAAG
35040703 TTATG
1 TTATG
35040708 AAATTTAAAC
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
5 4 0.04
7 6 0.06
8 10 0.11
9 62 0.66
10 5 0.05
11 7 0.07
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35040644 original size:43 final size:43
Alignment explanation
Indices: 35040586--35040692 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
35040576 GTAAGTTAAG
* * *
35040586 TAAGT-TT-TGTAAGTTATGTATGATATGATATGATAAATATT
1 TAAGTATTATGTAAGTTATGTAAGATATAATACGATAAATATT
* * *
35040627 TAAGTATTATGTAAGTTATGTAAGTTGTAATACGATATATATT
1 TAAGTATTATGTAAGTTATGTAAGATATAATACGATAAATATT
*
35040670 TATGTATTATGTAAGTTATGTAA
1 TAAGTATTATGTAAGTTATGTAA
35040693 ATTACGTAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 5 0.09
42 2 0.04
43 50 0.88
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (43 bp):
TAAGTATTATGTAAGTTATGTAAGATATAATACGATAAATATT
Found at i:35040690 original size:16 final size:17
Alignment explanation
Indices: 35040669--35040712 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
35040659 CGATATATAT
*
35040669 TTATGT-ATTATGTAAG
1 TTATGTAATTACGTAAG
35040685 TTATGTAAATTACGTAAG
1 TTATGT-AATTACGTAAG
*
35040703 TTATGAAATT
1 TTATGTAATT
35040713 TAAACTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 4 0.17
18 14 0.58
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (17 bp):
TTATGTAATTACGTAAG
Found at i:35040701 original size:18 final size:17
Alignment explanation
Indices: 35040675--35040712 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
35040665 ATATTTATGT
*
35040675 ATTATGTAAGTTATGTAA
1 ATTACGTAAGTTATG-AA
35040693 ATTACGTAAGTTATGAA
1 ATTACGTAAGTTATGAA
35040710 ATT
1 ATT
35040713 TAAACTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (17 bp):
ATTACGTAAGTTATGAA
Found at i:35044817 original size:40 final size:40
Alignment explanation
Indices: 35044762--35044845 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
35044752 GTTTTTTGAG
35044762 TAATACTCAATCTATAGCGGCATTTTTCAAAAAGCGCCGC
1 TAATACTCAATCTATAGCGGCATTTTTCAAAAAGCGCCGC
** * * *
35044802 TAATACTTGATCTATAGCGGCGTTTTTCTAAAAGTGCCGC
1 TAATACTCAATCTATAGCGGCATTTTTCAAAAAGCGCCGC
35044842 TAAT
1 TAAT
35044846 GCCACTGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (40 bp):
TAATACTCAATCTATAGCGGCATTTTTCAAAAAGCGCCGC
Found at i:35045846 original size:7 final size:7
Alignment explanation
Indices: 35045836--35045897 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
35045826 CCCATGGCCA
35045836 TTAAACC
1 TTAAACC
35045843 TTAAACC
1 TTAAACC
*
35045850 ATAGAACC
1 TTA-AACC
*
35045858 CTAAACC
1 TTAAACC
* *
35045865 ATAGACC
1 TTAAACC
35045872 TTAAACC
1 TTAAACC
**
35045879 TTAAATA
1 TTAAACC
35045886 TTAAACC
1 TTAAACC
*
35045893 CTAAA
1 TTAAA
35045898 TCCAAAAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (7 bp):
TTAAACC
Found at i:35045857 original size:15 final size:15
Alignment explanation
Indices: 35045839--35045878 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
35045829 ATGGCCATTA
35045839 AACCTTAAACCATAG
1 AACCTTAAACCATAG
*
35045854 AACCCTAAACCATAG
1 AACCTTAAACCATAG
35045869 -ACCTTAAACC
1 AACCTTAAACC
35045879 TTAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (15 bp):
AACCTTAAACCATAG
Found at i:35046065 original size:7 final size:7
Alignment explanation
Indices: 35046011--35046075 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 7
35046001 AATTTTTTTG
35046011 GGGTTTA
1 GGGTTTA
35046018 GGGTCTTA
1 GGGT-TTA
35046026 GGGTTTA
1 GGGTTTA
* *
35046033 TGGATTA
1 GGGTTTA
*
35046040 GTGTTTA
1 GGGTTTA
*
35046047 GGGTCTA
1 GGGTTTA
*
35046054 -TGTTTA
1 GGGTTTA
35046060 GGGTTTAA
1 GGGTTT-A
35046068 GGGTTTA
1 GGGTTTA
35046075 G
1 G
35046076 AGAAAGCCAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
6 4 0.09
7 27 0.60
8 14 0.31
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:35046259 original size:18 final size:17
Alignment explanation
Indices: 35046236--35046270 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35046226 AAAGTCAGTT
*
35046236 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
35046254 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
35046271 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:35046466 original size:41 final size:41
Alignment explanation
Indices: 35046413--35046529 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
35046403 TTTTGAGCAG
* *
35046413 AAACGCCACTATTGCTTAGTTTTTA-TCGGCGTTTTCACTAA
1 AAACGCCGCTATTGCTCAGTTTTTAGT-GGCGTTTTCACTAA
* ** *
35046454 AAATGCCGCTATTGCTCAGTTTTTAGTGGCGTTTGGACTAG
1 AAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTCACTAA
*
35046495 AAACGCCGCTATTTCTCAGTTTTTAGTGGCGTTTT
1 AAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTT
35046530 ATTGAAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 65 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (41 bp):
AAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTCACTAA
Found at i:35081426 original size:41 final size:41
Alignment explanation
Indices: 35081381--35081498 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35081371 TGAAAGATAA
35081381 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35081422 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35081452 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35081493 ATGTAG
1 ATGTAG
35081499 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:35081437 original size:71 final size:71
Alignment explanation
Indices: 35081349--35081512 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35081339 GAGATGTATC
35081349 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35081414 AGGACA
66 AGGACA
35081420 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35081485 AGGACA
66 AGGACA
35081491 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35081513 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:35088995 original size:41 final size:41
Alignment explanation
Indices: 35088950--35089067 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35088940 TGAAAGATAA
35088950 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35088991 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35089021 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35089062 ATGTAG
1 ATGTAG
35089068 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:35089006 original size:71 final size:71
Alignment explanation
Indices: 35088918--35089081 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35088908 GAGATGTATC
35088918 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35088983 AGGACA
66 AGGACA
35088989 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35089054 AGGACA
66 AGGACA
35089060 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35089082 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:35096566 original size:41 final size:41
Alignment explanation
Indices: 35096521--35096638 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35096511 TGAAAGATAA
35096521 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35096562 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35096592 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35096633 ATGTAG
1 ATGTAG
35096639 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:35096577 original size:71 final size:71
Alignment explanation
Indices: 35096489--35096652 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35096479 GAGATGTATC
35096489 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35096554 AGGACA
66 AGGACA
35096560 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35096625 AGGACA
66 AGGACA
35096631 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35096653 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:35099668 original size:40 final size:40
Alignment explanation
Indices: 35099583--35099732 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
35099573 AATTGAATGA
* * *
35099583 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
35099623 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
35099664 -ATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
35099702 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
35099733 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
37 3 0.03
38 5 0.06
39 25 0.28
40 52 0.58
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:35099746 original size:40 final size:40
Alignment explanation
Indices: 35099620--35099748 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
35099610 ATGCTGGAAA
* * * *
35099620 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
35099660 CTACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
35099699 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
35099739 TTATATCCGG
1 TTATATCCGG
35099749 TTATTCCGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
39 31 0.45
40 38 0.55
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:35107667 original size:40 final size:40
Alignment explanation
Indices: 35107608--35107709 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
35107598 AAATTGAATG
* * * *
35107608 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
* * ***
35107648 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
35107688 ATATCCGGGTTAAGACCCGAAG
1 ATATCCGGGTTAAGACCCGAAG
35107710 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35107710 original size:40 final size:40
Alignment explanation
Indices: 35107647--35107775 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
35107637 TGCTGGAAAT
* *
35107647 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
35107687 TATATCCGGGTTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * * *
35107727 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGA-GTGAC
35107767 TATATCCGG
1 TATATCCGG
35107776 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:35111585 original size:30 final size:30
Alignment explanation
Indices: 35111549--35111617 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
35111539 CCCGGCCAGA
* *
35111549 CACACGGTCGTGTCATTGGCCTGTGTTCCT
1 CACACGGCCGTGTCATTGGCCCGTGTTCCT
35111579 CACACGGCCGTGTCATTGGCCCGTGTTCCT
1 CACACGGCCGTGTCATTGGCCCGTGTTCCT
35111609 CACACGGCC
1 CACACGGCC
35111618 AAGACACGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.12, C:0.36, G:0.26, T:0.26
Consensus pattern (30 bp):
CACACGGCCGTGTCATTGGCCCGTGTTCCT
Found at i:35112439 original size:13 final size:13
Alignment explanation
Indices: 35112417--35112449 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35112407 AAGGGTTTGT
35112417 TTAT-TAAACTAA
1 TTATCTAAACTAA
35112429 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35112442 TTAACTAA
1 TTATCTAA
35112450 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35115370 original size:6 final size:5
Alignment explanation
Indices: 35115341--35115413 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
35115331 TATGTCTTTC
*
35115341 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT AAAAT AAAAT
*
35115387 -AAAT -AAAT AAAA- ATAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
35115414 AGGTAGGAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
3 3 0.05
4 11 0.20
5 24 0.43
6 18 0.32
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:35120264 original size:27 final size:27
Alignment explanation
Indices: 35120234--35120423 Score: 191
Period size: 27 Copynumber: 7.3 Consensus size: 27
35120224 TACTGAAATG
*
35120234 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
35120261 CCCTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35120288 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
35120315 CCCTCAATTTATAGAATTACCA---T-
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35120338 ---T-GATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35120361 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
35120388 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
35120415 CCCTCGATT
1 CCCTCGATT
35120424 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 15, Indels: 20
0.80 0.09 0.12
Matches are distributed among these distances:
19 14 0.10
20 1 0.01
22 1 0.01
24 1 0.01
26 2 0.01
27 118 0.86
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:35120350 original size:46 final size:46
Alignment explanation
Indices: 35120293--35120384 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
35120283 TTTCACCCTC
* *
35120293 GATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACCATT
1 GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCATT
* * *
35120339 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
1 GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCATT
35120385 TTACCCTCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (46 bp):
GATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCATT
Found at i:35120406 original size:73 final size:73
Alignment explanation
Indices: 35120266--35120406 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
35120256 TTTTACCCTC
* * *
35120266 GATTTATAGAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAA
1 GATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAA
35120331 TTACCATT
66 TTACCATT
* * *
35120339 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAA
1 GATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAA
35120404 TTA
66 TTA
35120407 TCGTTTTACC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (73 bp):
GATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAA
TTACCATT
Found at i:35120414 original size:100 final size:100
Alignment explanation
Indices: 35120239--35120419 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 100
35120229 AAATGCCCTC
* * * *
35120239 GATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTACAAAA
1 GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
35120304 TTACCATTTTACCCTCAATTTATAGAATTACCATT
66 TTACCATTTTACCCTCAATTTATAGAATTACCATT
* *
35120339 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAAA
1 GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGA-TTTACAAA
* *
35120403 ATTATCGTTTTACCCTC
65 ATTACCATTTTACCCTC
35120420 GATTGTGAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 71 0.99
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (100 bp):
GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
TTACCATTTTACCCTCAATTTATAGAATTACCATT
Found at i:35120485 original size:27 final size:27
Alignment explanation
Indices: 35120455--35120578 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
35120445 TGTAGGATAG
35120455 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
35120482 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
35120509 AATTACCGAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
35120536 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
35120563 AATTACCAAAATACCC
1 AATTACCAAAATACCC
35120579 TTGATCTACA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.03
27 83 0.94
28 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:35120496 original size:54 final size:54
Alignment explanation
Indices: 35120422--35120577 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
35120412 TTACCCTCGA
* * * *
35120422 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * *
35120476 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
35120530 TTGTAAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTAAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
35120578 CTTGATCTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:35120592 original size:54 final size:54
Alignment explanation
Indices: 35120455--35120691 Score: 178
Period size: 54 Copynumber: 4.4 Consensus size: 54
35120445 TGTAGGATAG
* **
35120455 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTACAAAATTACCAAAATACCCTC-AGTTTGTAA
* * ** * *
35120509 AATTACCGAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACC-CTTGATTTACAAAATTACCAAAATACCCTCAGTTTGTAA
* * * *
35120563 AATTACCAAAATACCCTTGATCTACAAAATTACAAAAATACCCTTCATTTTCTAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCC-TCAGTTTGT-AA
* * ** ** *
35120619 AATTA-TAGAAATACCATT-AGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCTTGA-TTTACAAAATTACCAAAATACCCTCAGTTTGTAA
* *
35120673 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
35120692 TAGGATGAAA
Statistics
Matches: 146, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
53 1 0.01
54 92 0.63
55 17 0.12
56 36 0.25
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAGTTTGTAA
Found at i:35120592 original size:81 final size:81
Alignment explanation
Indices: 35120455--35120604 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
35120445 TGTAGGATAG
* * ** **
35120455 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTCTACAAAATTACAAAAA
35120520 TACCACTGGTTTGTAA
66 TACCACTGGTTTGTAA
* *
35120536 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATCTACAAAATTACAAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TCTACAAAATTACAAA
35120599 AATACC
64 AATACC
35120605 CTTCATTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 9 0.15
81 50 0.85
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTCTACAAAATTACAAAAA
TACCACTGGTTTGTAA
Found at i:35120661 original size:110 final size:108
Alignment explanation
Indices: 35120480--35120691 Score: 253
Period size: 110 Copynumber: 1.9 Consensus size: 108
35120470 CCTAGTTTGT
* * * * **
35120480 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTAAAATTACCGA
1 AAAATTACAAAAATACCCCTAGTTTCTAAAATTACAGAAATACCACTAGTTTACAAAATTACCGA
*
35120545 AATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATCTAC
66 AATACCCTCAATTTGTAAAATTACCAAAACACCCTTGATCTAC
* * * * *
35120588 AAAATTACAAAAATACCCTTCATTTTCTAAAAATTATAGAAATACCATTAGTTTACAAAATTACT
1 AAAATTACAAAAATACCCCT-AGTTTCT-AAAATTACAGAAATACCACTAGTTTACAAAATTACC
*** * *
35120653 GAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
64 GAAATACCCTCAATTTGTAAAATTACCAAAACACCCTTG
35120692 TAGGATGAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 18 0.21
109 5 0.06
110 62 0.73
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AAAATTACAAAAATACCCCTAGTTTCTAAAATTACAGAAATACCACTAGTTTACAAAATTACCGA
AATACCCTCAATTTGTAAAATTACCAAAACACCCTTGATCTAC
Found at i:35120668 original size:27 final size:27
Alignment explanation
Indices: 35120455--35120669 Score: 157
Period size: 27 Copynumber: 7.9 Consensus size: 27
35120445 TGTAGGATAG
* * *
35120455 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* * *
35120482 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* *
35120509 AATTACCGAAATACCAC-TGGTTTGTAA
1 AATTACCGAAATACC-CTTAGTTTGCAA
* * *
35120536 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* * *
35120563 AATTACCAAAATACCCTT-GATCTACAA
1 AATTACCGAAATACCCTTAG-TTTGCAA
** *
35120590 AATTACAAAAATACCCTTCA-TTTTCTAAA
1 AATTACCGAAATACCCTT-AGTTTGC--AA
** * *
35120619 AATTATAGAAATACCATTAGTTTACAA
1 AATTACCGAAATACCCTTAGTTTGCAA
* *
35120646 AATTACTGAAATACCCTTGGTTTG
1 AATTACCGAAATACCCTTAGTTTG
35120670 TAGATTTACC
Statistics
Matches: 157, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 133 0.85
28 2 0.01
29 21 0.13
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTAGTTTGCAA
Found at i:35120786 original size:27 final size:27
Alignment explanation
Indices: 35120722--35120786 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35120712 ACCCCTAATA
*
35120722 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
35120749 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
35120776 GGTAAAATGAC
1 GGTAAAATGAC
35120787 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:35121635 original size:25 final size:25
Alignment explanation
Indices: 35121597--35121666 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
35121587 AGGAAGTGCT
* *
35121597 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
35121622 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
35121647 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35121667 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:35121679 original size:24 final size:24
Alignment explanation
Indices: 35121596--35121679 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
35121586 GAGGAAGTGC
* *
35121596 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
35121621 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
35121645 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
35121669 TAAAAGAGGCT
1 TAAAAG-GGCT
35121680 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:35121690 original size:50 final size:50
Alignment explanation
Indices: 35121597--35121691 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
35121587 AGGAAGTGCT
**
35121597 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
35121647 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
35121692 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:35121872 original size:42 final size:42
Alignment explanation
Indices: 35121813--35121904 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
35121803 TAGTCTCCTC
* * ** *
35121813 AAATGGGATTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35121855 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35121897 AAATGGGC
1 AAATGGGC
35121905 CTAAAGGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:35121966 original size:31 final size:31
Alignment explanation
Indices: 35121928--35122011 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
35121918 CGTTTACAGT
35121928 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35121959 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35121990 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35122012 TCAAAACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35124351 original size:13 final size:13
Alignment explanation
Indices: 35124329--35124361 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35124319 AAGGGTTTGT
35124329 TTAT-TAAACTAA
1 TTATCTAAACTAA
35124341 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35124354 TTAACTAA
1 TTATCTAA
35124362 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35125988 original size:47 final size:45
Alignment explanation
Indices: 35125938--35126195 Score: 243
Period size: 46 Copynumber: 5.5 Consensus size: 45
35125928 GTGTCAATGC
*
35125938 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTTAAGCCGATG
**
35125984 CCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGT-AGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCT--TAAGCCGATG
* * * *
35126032 CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * * *
35126078 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAA-GCCGATG
* * * *
35126124 CCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGT-GGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CT-TAAGCCGATG
35126172 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
35126196 AGGCAACAAT
Statistics
Matches: 182, Mismatches: 19, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 73 0.40
48 30 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTTAAGCCGATG
Found at i:35126190 original size:140 final size:140
Alignment explanation
Indices: 35125938--35126195 Score: 358
Period size: 140 Copynumber: 1.8 Consensus size: 140
35125928 GTGTCAATGC
* * * * *
35125938 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTTAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGTC
*
35126003 TTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
66 TTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
35126068 AAGGCCGATG
131 AAGGCCGATG
* *
35126078 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATAGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCAGACATAGT
** * * * *
35126142 CTTACACTGGCTCTCATAAT-GTGGTCGATGCATGTCCCAGACATGTCTTACACT
65 CTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAAACATGTCTTACACT
35126196 AGGCAACAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 20 0.20
140 81 0.79
141 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATAGTC
TTACACTAACTATCATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTC
AAGGCCGATG
Found at i:35130534 original size:28 final size:28
Alignment explanation
Indices: 35130465--35130565 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35130455 GACAAGATTG
* * * *
35130465 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35130495 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35130523 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35130552 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35130566 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35130559 original size:29 final size:28
Alignment explanation
Indices: 35130494--35130565 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
35130484 AAAATTGTAC
*
35130494 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
35130522 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
35130551 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35130566 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:35133780 original size:126 final size:125
Alignment explanation
Indices: 35133564--35133839 Score: 437
Period size: 126 Copynumber: 2.2 Consensus size: 125
35133554 GAACATAGAC
*
35133564 ATAATTAATATATGAATTTGATTCATACAAAATATTATTATATATATTTGACTGAAATTAATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTATTATATATATTTGACCGAAATTAATTAA
* * *
35133629 TATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATT-TTTTGGAAAGAAT
66 TAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
* *
35133688 ATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTGATTCATACAAAATATT-ATTATATATA-TTTGACCGAAATTAATT
* * * *
35133753 AATAAAATTAATTTTGGTCGAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
64 AATAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
35133815 ATAATTAATATATGAATTTGATTCA
1 ATAATTAATATATGAATTTGATTCA
35133840 AATATATTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 35 0.25
125 9 0.07
126 57 0.41
127 37 0.27
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.41
Consensus pattern (125 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTATTATATATATTTGACCGAAATTAATTAA
TAAAATTAATTTTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAAT
Found at i:35133882 original size:127 final size:126
Alignment explanation
Indices: 35133564--35133942 Score: 363
Period size: 122 Copynumber: 3.0 Consensus size: 126
35133554 GAACATAGAC
* * *
35133564 ATAATTAATATATGAATTTGATTCATACAAAATATT-A-T-TATATATATTT-GACTGAAATTAA
1 ATAATTAATATATGAATTTCATTCATACAAAATATTAACTGTATATAT-TTTAAAC-AAAATTAA
* * * *
35133625 TTAATATAATTAATTTTAGTCAAAATATAAAATACATGAAAATTTATATT-TTTTGGAAAGAAT
64 TTAATA-AATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
* * * *
35133688 ATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTATATATTTTGACCGAAATTAATT
1 ATAATTAATATATGAATTTCATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
* *
35133753 AATAAAATTAATTTTGGTCGAAATATAAAAGAGATGGAAATTAATATTCTTTTGGAAAGAAT
66 AAT-AAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
* * * *
35133815 ATAATTAATATATGAATTTGATTC--A-AATATATTTTACTG-A-AT-TTGTTAATATAAACAGT
1 ATAATTAATATATGAATTTCATTCATACAAAATA-TTAACTGTATATATT-TTAA-ACAAA-A-T
* * * * * *
35133874 T-A-T-ATTAATTAATTTCGATCAAAATATAGAAGACATAGAAATTAGTATTCTTTTGGAAAGAA
61 TAATTAATAAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAA
35133936 T
126 T
*
35133937 GTAATT
1 ATAATT
35133943 TATTTTTCTA
Statistics
Matches: 218, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
122 57 0.26
123 7 0.03
124 44 0.20
125 9 0.04
126 56 0.26
127 45 0.21
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (126 bp):
ATAATTAATATATGAATTTCATTCATACAAAATATTAACTGTATATATTTTAAACAAAATTAATT
AATAAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAAT
Found at i:35135186 original size:40 final size:40
Alignment explanation
Indices: 35135014--35135179 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
35135004 AACCCAAGTA
* *
35135014 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35135053 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35135093 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35135133 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35135173 CCTTCGG
1 CCTTCGG
35135180 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.11
40 103 0.89
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35136643 original size:14 final size:14
Alignment explanation
Indices: 35136621--35136663 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
35136611 TTTCATTTTG
35136621 TAACATAAAATTAT
1 TAACATAAAATTAT
*
35136635 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
35136648 TAACACAAAATAAT
1 TAACATAAAATTAT
35136662 TA
1 TA
35136664 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:35136657 original size:13 final size:13
Alignment explanation
Indices: 35136621--35136659 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
35136611 TTTCATTTTG
35136621 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
35136635 TAGCATAAAATAT
1 TAACATAAAATAT
*
35136648 TAACACAAAATA
1 TAACATAAAATA
35136660 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:35140853 original size:33 final size:33
Alignment explanation
Indices: 35140814--35140903 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
35140804 TCAGTAATGA
* *
35140814 TCTGGGCCTGAGCCCTATTCAGTATCAGTACAG
1 TCTGGGCCTTAGCCCTATACAGTATCAGTACAG
*
35140847 TCTGGGCCTTAGCCCTATACAGTATCAGTGCAG
1 TCTGGGCCTTAGCCCTATACAGTATCAGTACAG
*
35140880 TTTGGGCCTTAGCCCTATACAGTA
1 TCTGGGCCTTAGCCCTATACAGTA
35140904 GTAGTGTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (33 bp):
TCTGGGCCTTAGCCCTATACAGTATCAGTACAG
Found at i:35140914 original size:28 final size:31
Alignment explanation
Indices: 35140816--35140916 Score: 109
Period size: 33 Copynumber: 3.2 Consensus size: 31
35140806 AGTAATGATC
* * *
35140816 TGGGCCTGAGCCCTATTCAGTATCAGTACAGTC
1 TGGGCCTTAGCCCTATACAG-ATCAGT-CAGTG
*
35140849 TGGGCCTTAGCCCTATACAGTATCAGTGCAGTT
1 TGGGCCTTAGCCCTATACAG-ATCAGT-CAGTG
35140882 TGGGCCTTAGCCCTATACAG-T-AGT-AGTG
1 TGGGCCTTAGCCCTATACAGATCAGTCAGTG
35140910 TGGGCCT
1 TGGGCCT
35140917 AAGTCATATG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.16
30 3 0.05
31 1 0.02
33 49 0.78
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.29
Consensus pattern (31 bp):
TGGGCCTTAGCCCTATACAGATCAGTCAGTG
Found at i:35141835 original size:18 final size:18
Alignment explanation
Indices: 35141799--35141837 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35141789 TACATTTTAT
*
35141799 CCATGTGGGCCCATAAGC
1 CCATGTGGGCCCACAAGC
35141817 CCAT-TGGGCCCACACAGC
1 CCATGTGGGCCCACA-AGC
35141835 CCA
1 CCA
35141838 GTCCAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (18 bp):
CCATGTGGGCCCACAAGC
Found at i:35152448 original size:49 final size:49
Alignment explanation
Indices: 35152319--35152626 Score: 507
Period size: 49 Copynumber: 6.4 Consensus size: 49
35152309 CCCTTCGGGA
* *
35152319 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35152366 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35152413 CTTATCACATTTATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35152462 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35152511 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35152560 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35152609 CTTATCACATATATATAC
1 CTTATCACATATATATAC
35152627 CTCATACAAA
Statistics
Matches: 241, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 47 0.20
49 193 0.80
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35156784 original size:26 final size:26
Alignment explanation
Indices: 35156748--35156799 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35156738 GAATTGGAAG
35156748 AAACAATGAGATCTCAGTACCCCCAC
1 AAACAATGAGATCTCAGTACCCCCAC
35156774 AAACAATGAGATCTCAGTACCCCCAC
1 AAACAATGAGATCTCAGTACCCCCAC
35156800 CTCTTTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (26 bp):
AAACAATGAGATCTCAGTACCCCCAC
Found at i:35157213 original size:13 final size:13
Alignment explanation
Indices: 35157195--35157222 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35157185 ATATAAATAT
35157195 TATTATATTATTA
1 TATTATATTATTA
35157208 TATTATATTATTA
1 TATTATATTATTA
35157221 TA
1 TA
35157223 ATTAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:35160797 original size:23 final size:24
Alignment explanation
Indices: 35160767--35160811 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
35160757 ATATCCCCAC
*
35160767 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
35160790 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
35160812 GTAGGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:35161989 original size:42 final size:42
Alignment explanation
Indices: 35161943--35162024 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
35161933 GAGACATGGG
* * *
35161943 CGTGTGTCTTAGCCAAGTGAGGTACACGGCCTAGCACACGGT
1 CGTGTGTCTCAGCCAAGTGAGGCACACCGCCTAGCACACGGT
*
35161985 CGTGTGTCTCAGCCATGTGAGGCACACCGCCTAGCACACG
1 CGTGTGTCTCAGCCAAGTGAGGCACACCGCCTAGCACACG
35162025 AGCATGTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (42 bp):
CGTGTGTCTCAGCCAAGTGAGGCACACCGCCTAGCACACGGT
Found at i:35164469 original size:2 final size:2
Alignment explanation
Indices: 35164456--35164491 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
35164446 TTTCGAGCAA
*
35164456 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35164492 AATCTGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:35167201 original size:2 final size:2
Alignment explanation
Indices: 35167194--35167232 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
35167184 CAGCTCAATT
35167194 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
35167233 TTCTTGCTGC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:35170941 original size:33 final size:33
Alignment explanation
Indices: 35170899--35170963 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
35170889 ACTGAGTGGA
35170899 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
1 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
* *
35170932 AGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 AGTGTTTGGTTGCTAGACAGGAGCTAGAATGT
35170964 CAAGAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.38, T:0.31
Consensus pattern (33 bp):
AGTGTTTGGTTGCTAGACAGGAGCTAGAATGTG
Found at i:35175231 original size:3 final size:3
Alignment explanation
Indices: 35175223--35175276 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
35175213 GATGTATCCA
* * * *
35175223 ATG ATG ATG ATG AGG ATG AGG ATG GTG ACG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
35175271 GTG ATG
1 ATG ATG
35175277 CAGCAAGTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.41, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:35183170 original size:42 final size:42
Alignment explanation
Indices: 35183123--35183266 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
35183113 AATAAAATAT
35183123 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
*
35183165 TATCTAGATAAATATTAAATT-AA--TAAAATA-C-TA-T--
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
* * *
35183199 TA---A-ATAAATATTTAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
35183237 TATCTAGATAAATATTAAATTAAATATTAA
1 TATCTAGATAAATATTAAATTAAAT-TTAA
35183267 ATTCATTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
30 13 0.16
31 3 0.04
33 5 0.06
34 3 0.04
35 2 0.02
36 2 0.02
37 2 0.02
38 3 0.04
39 6 0.07
41 3 0.04
42 37 0.45
43 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (42 bp):
TATCTAGATAAATATTAAATTAAATTTAATATATCATATTAA
Found at i:35183225 original size:72 final size:73
Alignment explanation
Indices: 35183104--35183259 Score: 260
Period size: 72 Copynumber: 2.2 Consensus size: 73
35183094 ATCACATTAG
* *
35183104 TATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATATCATATTAATATC
1 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
35183169 TAGATAAA
66 TAGATAAA
* * *
35183177 TATTAAATTAATAAAATACTAT-TAAATAAATATTTAATTTAATTTAATATCTCATATTAATATC
1 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
35183241 TAGATAAA
66 TAGATAAA
35183249 TATTAAATTAA
1 TATTAAATTAA
35183260 ATATTAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 57 0.73
73 21 0.27
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (73 bp):
TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAATATC
TAGATAAA
Found at i:35183260 original size:12 final size:12
Alignment explanation
Indices: 35183245--35183269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35183235 AATATCTAGA
35183245 TAAATATTAAAT
1 TAAATATTAAAT
35183257 TAAATATTAAAT
1 TAAATATTAAAT
35183269 T
1 T
35183270 CATTAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:35188942 original size:39 final size:39
Alignment explanation
Indices: 35188886--35189196 Score: 478
Period size: 39 Copynumber: 8.0 Consensus size: 39
35188876 ATTATATTAT
* * * *
35188886 CAGCACAAAGCCCGCGGGACTTTAACTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
35188925 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
35188964 CAGCACGAAGCCCGCGGGACTTTAGTCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
35189003 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
35189042 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
35189081 CAGCACAAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
35189120 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
35189159 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
35189197 TCAGTGTCTT
Statistics
Matches: 244, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 244 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:35191826 original size:46 final size:45
Alignment explanation
Indices: 35191776--35191951 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
35191766 TGGTTGAGCA
35191776 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
35191822 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
35191869 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
35191915 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35191952 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:35191932 original size:93 final size:93
Alignment explanation
Indices: 35191773--35191943 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35191763 GGATGGTTGA
* *
35191773 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35191838 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
35191866 GCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35191930 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
35191944 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:35193950 original size:47 final size:46
Alignment explanation
Indices: 35193895--35194025 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 46
35193885 CACAATCGAT
*
35193895 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCC
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
* * * * * * *
35193941 GGAGTACCTATACCATGGCCCATAGCCAAATTAGGGTAGCTTTTCTC
1 -AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
* *
35193988 AATGTACCTATATCATGGCTCGTAGCCAAATCAAGGTA
1 AA-GTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
35194026 TTATTCACAC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCC
Found at i:35209046 original size:28 final size:29
Alignment explanation
Indices: 35209014--35209091 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
35209004 ATGATTATAG
*
35209014 TTCCAAGTACTATGTACCGGTGTTT-CAC
1 TTCCAGGTACTATGTACCGGTGTTTACAC
* * * * * *
35209042 TTCCAGGCACTTTGTGCTGATGTTTACAG
1 TTCCAGGTACTATGTACCGGTGTTTACAC
*
35209071 TTTCAGGTACTATGTACCGGT
1 TTCCAGGTACTATGTACCGGT
35209092 TGTGGATACC
Statistics
Matches: 36, Mismatches: 13, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (29 bp):
TTCCAGGTACTATGTACCGGTGTTTACAC
Found at i:35211858 original size:50 final size:50
Alignment explanation
Indices: 35211718--35211858 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
35211708 AAAGCTATCT
* * **
35211718 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCC
* * * * *
35211767 GGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCC
35211817 GAG-ACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 G-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
35211859 CACAATAGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 35 0.45
50 41 0.53
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCC
Found at i:35214617 original size:23 final size:23
Alignment explanation
Indices: 35214591--35214665 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
35214581 CTCAAGGGCA
35214591 TTACAGAATACACCACAAAGGCT
1 TTACAGAATACACCACAAAGGCT
* ** **
35214614 TTACAAAATATGCCACAAAGGAAA
1 TTACAGAATACACCACAAAGG-CT
* *
35214638 TCATAGAATACACCACAAAGGCT
1 TTACAGAATACACCACAAAGGCT
35214661 TTACA
1 TTACA
35214666 AAACATTATG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.19
Consensus pattern (23 bp):
TTACAGAATACACCACAAAGGCT
Found at i:35219962 original size:49 final size:49
Alignment explanation
Indices: 35219900--35220034 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 49
35219890 ATCTGGTATG
*
35219900 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA-ATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACATATCGGGTACA
* *** * * *
35219949 CGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCACA--TATCGGGTACA
35220000 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
35220035 TCACAATAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.04
49 30 0.43
51 37 0.53
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCACATATCGGGTACA
Found at i:35220006 original size:51 final size:49
Alignment explanation
Indices: 35219894--35220027 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 49
35219884 GAAGCTATCT
* ** *
35219894 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACCAACAATCG
* * * * *
35219943 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATC-ACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACCAACA---ATCG
35219994 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
35220028 TGCGACCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
48 3 0.04
49 34 0.48
51 34 0.48
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACCAACAATCG
Found at i:35222823 original size:25 final size:24
Alignment explanation
Indices: 35222790--35222837 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
35222780 AAGTTTACTA
**
35222790 AAAATAGAGTTTGAAAATTCCTCT
1 AAAATAGAGCCTGAAAATTCCTCT
35222814 AAAATAAGAGCCTGAAAATTCCTC
1 AAAAT-AGAGCCTGAAAATTCCTC
35222838 CTTCTGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (24 bp):
AAAATAGAGCCTGAAAATTCCTCT
Found at i:35229148 original size:43 final size:43
Alignment explanation
Indices: 35229093--35229264 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
35229083 ATATCGTACA
* * * *
35229093 ATGCCAACGTCCCAGACGTGGTCTTATATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
35229136 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
35229179 ATGCCAATGTCCTAAATATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
35229222 ATGACAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
35229265 GAATCACATA
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 113 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:35235132 original size:28 final size:27
Alignment explanation
Indices: 35235101--35235181 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
35235091 GCAATCAAAT
*
35235101 ATGGCACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTA-GAAATATTGAGA
* *
35235129 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGT-AGAAATATTGAGA
*
35235157 ATGACACTTAGTGTGAGAAATATTG
1 ATGGCACTTAGTGT-AGAAATATTG
35235182 TAACACCCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (27 bp):
ATGGCACTTAGTGTAGAAATATTGAGA
Found at i:35240620 original size:46 final size:46
Alignment explanation
Indices: 35240553--35240724 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
35240543 AACCCGCCCC
*
35240553 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
35240599 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
35240647 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
35240692 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
35240725 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:35240665 original size:93 final size:93
Alignment explanation
Indices: 35240558--35240728 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
35240548 GCCCCTAAGT
* *
35240558 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35240623 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
35240651 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35240716 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35240729 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35241178 original size:30 final size:30
Alignment explanation
Indices: 35241144--35241203 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35241134 ATTTAATACG
35241144 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
35241174 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
35241204 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35248220 original size:91 final size:91
Alignment explanation
Indices: 35248111--35248279 Score: 311
Period size: 91 Copynumber: 1.9 Consensus size: 91
35248101 GCCCCTAAGT
* *
35248111 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35248176 CGAGTTCGGATGCCTAGTTACATCAC
66 CGAGTTCGGATGCCTAGTTACATCAC
*
35248202 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35248267 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35248280 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCAC
Found at i:35248276 original size:46 final size:46
Alignment explanation
Indices: 35248106--35248276 Score: 224
Period size: 46 Copynumber: 3.7 Consensus size: 46
35248096 AACCCGCCCC
* * *
35248106 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
35248152 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
35248198 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
35248243 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35248277 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 33 0.31
46 66 0.61
47 4 0.04
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:35248295 original size:46 final size:45
Alignment explanation
Indices: 35248108--35248295 Score: 154
Period size: 46 Copynumber: 4.1 Consensus size: 45
35248098 CCCGCCCCTA
* * * * * *
35248108 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
35248154 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC-
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
35248200 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCT
35248245 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
35248291 AGTGA
1 AGTGA
35248296 CATGTCACTT
Statistics
Matches: 117, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.10
45 34 0.29
46 65 0.56
47 4 0.03
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:35248730 original size:30 final size:30
Alignment explanation
Indices: 35248696--35248755 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35248686 ATTTAATACG
35248696 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
35248726 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
35248756 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35259141 original size:29 final size:29
Alignment explanation
Indices: 35259010--35259140 Score: 183
Period size: 29 Copynumber: 4.5 Consensus size: 29
35259000 GTGACGAGAT
35259010 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35259039 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35259068 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** ** * *
35259097 CGGCACTGGGTGTGCGGGCTTG-AATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
35259126 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35259141 GAAATCGAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 3 0.03
29 88 0.97
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:35263163 original size:40 final size:39
Alignment explanation
Indices: 35263037--35263175 Score: 140
Period size: 39 Copynumber: 3.5 Consensus size: 39
35263027 GGACTAGGAT
* *
35263037 CCGAAGGCATTCGTGCGAGAT-AATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAG-TCACTAAA-CCGGGCTTAGTC
* * * *
35263076 CCGAAGGCATTTGTGCAAGTTACTAAACCCGG-TTAAGTC
1 CCGAAGGCATTCGTGCGAGTCACTAAACCGGGCTT-AGTC
*
35263115 CCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTCACTA-AACCGGGCTTAGTC
* *
35263155 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
35263176 GTTATATCCG
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
37 1 0.01
38 7 0.08
39 45 0.54
40 28 0.34
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTCACTAAACCGGGCTTAGTC
Found at i:35263198 original size:79 final size:78
Alignment explanation
Indices: 35262984--35263200 Score: 181
Period size: 79 Copynumber: 2.7 Consensus size: 78
35262974 TCGAATGATG
* * * * * *
35262984 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGG-TTA-AATTCCGAAGGCAT
35263047 TCGTGCGAGATAATAAA
62 TCGTGCGAGATAATAAA
* * * *
35263064 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGTTAAGTCCCGAAGGCATTCGT
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGTTAAATTCCGAAGGCATTCGT
*
35263129 GCGAG-TCACTATAA
66 GCGAGAT-AATA-AA
** * ** * *
35263143 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGTTAAATTCCGAAGG
35263201 TACGTGATTC
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 32 0.28
79 62 0.55
80 18 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGTTAAATTCCGAAGGCATTCGT
GCGAGATAATAAA
Found at i:35273367 original size:29 final size:29
Alignment explanation
Indices: 35273334--35273464 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
35273324 GTGACGAGAT
35273334 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
35273363 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
35273392 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
35273421 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
35273450 TGGCACTATGTGTGC
1 TGGCACTAAGTGTGC
35273465 AGGCTTAAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:35289043 original size:53 final size:54
Alignment explanation
Indices: 35288974--35289180 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
35288964 TTCCTTTTTA
* *
35288974 AACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * ** *
35289027 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATATTTGCCTTATCG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
35289081 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
35289136 AACTTACCAATGCCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
35289181 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 39 0.32
55 39 0.32
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:35295985 original size:29 final size:29
Alignment explanation
Indices: 35295952--35296112 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
35295942 GTGACGAGAT
35295952 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
35295981 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
35296010 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
35296039 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
35296068 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
35296097 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35296113 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:35303494 original size:29 final size:29
Alignment explanation
Indices: 35303461--35303621 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
35303451 GTGACGAGAT
35303461 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
35303490 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
35303519 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
35303548 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
35303577 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
35303606 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35303622 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:35306775 original size:12 final size:12
Alignment explanation
Indices: 35306760--35306797 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
35306750 AAACATTATT
*
35306760 AGAACTAGAATC
1 AGAATTAGAATC
35306772 AGAATTAGAATC
1 AGAATTAGAATC
*
35306784 AGAATTAGTATC
1 AGAATTAGAATC
35306796 AG
1 AG
35306798 GTATCAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (12 bp):
AGAATTAGAATC
Found at i:35306815 original size:31 final size:31
Alignment explanation
Indices: 35306780--35306850 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
35306770 TCAGAATTAG
* *
35306780 AATCAGAATTAGTATCAGGTATCAAAATCAA
1 AATCAAAATTAGTATCAGGTAACAAAATCAA
*
35306811 AATCAAAATTAGTATCAGGTAACAGAATCAA
1 AATCAAAATTAGTATCAGGTAACAAAATCAA
35306842 AATCAAAAT
1 AATCAAAAT
35306851 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (31 bp):
AATCAAAATTAGTATCAGGTAACAAAATCAA
Found at i:35307011 original size:27 final size:26
Alignment explanation
Indices: 35306981--35307082 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
35306971 GTTCAGTTAT
* *
35306981 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
35307008 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
35307034 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
35307062 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
35307083 TTAATAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:35307268 original size:22 final size:21
Alignment explanation
Indices: 35307240--35307301 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
35307230 GCAAATACGT
*
35307240 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAAT-AGG
*
35307262 TTGGCACAGAGCCATATATAGG
1 TTGGCACAAAGCCATA-ATAGG
*
35307284 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
35307302 TAGAAGGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
TTGGCACAAAGCCATAATAGG
Found at i:35307789 original size:27 final size:27
Alignment explanation
Indices: 35307731--35308379 Score: 779
Period size: 27 Copynumber: 23.3 Consensus size: 27
35307721 GGGGCAAAAT
* * *
35307731 GGTAATTTTACCCCACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307757 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307784 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307811 GGTAATTCTACCCTACAAGGGTATTTCGGTAGAATC
1 GGTAATTCTACCCTACAGGGGTA--T---T----TC
35307847 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307874 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307901 GGTAATTCTACCCTACA-GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307927 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35307954 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35307981 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308008 GGTAATTCTACCCTACAAGGGTATTTCGGTAGAATC
1 GGTAATTCTACCCTACAGGGGTA--T---T----TC
35308044 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308071 GGTAATTCTACCCTACAAGGGTATTTCGGTAGAATC
1 GGTAATTCTACCCTACAGGGGTA--T---T----TC
35308107 GGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308133 GGTAATTCTACCCTACA-GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308159 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35308186 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35308213 AGTAATTCTACCCTACA-GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308239 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308266 GGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308292 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35308319 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35308346 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35308373 GGTAATT
1 GGTAATT
35308380 TCACAAATCA
Statistics
Matches: 554, Mismatches: 37, Indels: 63
0.85 0.06 0.10
Matches are distributed among these distances:
26 132 0.24
27 338 0.61
29 3 0.01
30 1 0.00
31 2 0.00
32 3 0.01
33 1 0.00
34 2 0.00
35 5 0.01
36 67 0.12
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:35307817 original size:54 final size:54
Alignment explanation
Indices: 35307731--35308379 Score: 779
Period size: 53 Copynumber: 11.6 Consensus size: 54
35307721 GGGGCAAAAT
* * * *
35307731 GGTAATTTTACCCCACA-AGGTATTTCGGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35307784 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAATC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA--T---T----TC
*
35307847 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35307901 GGTAATTCTACCCTACA-GGGTATTCCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
35307954 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
35308008 GGTAATTCTACCCTACAAGGGTATTTCGGTAGAATCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA--T---T----TCGGTAATTCTACCCTACAGGGGTATTTC
*
35308071 GGTAATTCTACCCTACAAGGGTATTTCGGTAGAATCGGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA--T---T----TCGGTAATTCTACCCTACAGGGGTATTTC
* *
35308133 GGTAATTCTACCCTACA-GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
35308186 AGTAATTCTACCCTACAGGGGTATTCCAGTAATTCTACCCTACA-GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35308239 GGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35308292 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35308346 AGTAATTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATT
35308380 TCACAAATCA
Statistics
Matches: 540, Mismatches: 33, Indels: 45
0.87 0.05 0.07
Matches are distributed among these distances:
52 18 0.03
53 186 0.34
54 168 0.31
56 3 0.01
58 1 0.00
59 3 0.01
61 6 0.01
62 26 0.05
63 129 0.24
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:35307856 original size:36 final size:36
Alignment explanation
Indices: 35307809--35307877 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
35307799 CAGGGGTATT
35307809 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
*
35307845 TCGGTAATTCTACCCTACAGGGGTATTTCGGTA
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTA
35307878 ATTCTACCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
Found at i:35307987 original size:80 final size:81
Alignment explanation
Indices: 35307846--35308379 Score: 673
Period size: 80 Copynumber: 6.4 Consensus size: 81
35307836 TCGGTAGAAT
*
35307846 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA
35307911 CCCTACA-GGGTATTC
66 CCCTACAGGGGTATTC
* * *
35307926 CGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA
*
35307991 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTC
* * *
35308007 CGGTAATTCTACCCTACAAGGGTATTTCGGTAGAATCGGTAATTCTACCCTACAGGGGTATTTCG
1 CGGTAATTCTACCCTACAGGGGTA--T---T----TCGGTAATTCTACCCTACAAGGGTATTCCG
*
35308072 GTAATTCTACCCTACAAGGGTATTTC
57 GTAATTCTACCCTACAGGGGTA-TTC
35308098 GGTAGAATCGGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCCTAC-AGGGTATTCCGG
1 --------CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGG
35308161 TAATTCTACCCTACAGGGGTATTC
58 TAATTCTACCCTACAGGGGTATTC
* * *
35308185 CAGTAATTCTACCCTACAGGGGTATTCCAGTAATTCTACCCTAC-AGGGTATTCCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA
* *
35308249 CCCTATAGGGGTATTT
66 CCCTACAGGGGTATTC
* * * *
35308265 CGGTAATTCTACCCTACA-GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA
* *
35308329 CCCTATAGGGGTATTT
66 CCCTACAGGGGTATTC
* *
35308345 CAGTAATTCTACCCTACAAGGGTATTTCGGTAATT
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
35308380 TCACAAATCA
Statistics
Matches: 403, Mismatches: 29, Indels: 43
0.85 0.06 0.09
Matches are distributed among these distances:
79 39 0.10
80 193 0.48
81 43 0.11
83 1 0.00
86 1 0.00
87 3 0.01
88 30 0.07
89 18 0.04
90 48 0.12
91 2 0.00
93 1 0.00
96 1 0.00
98 5 0.01
99 18 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (81 bp):
CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA
CCCTACAGGGGTATTC
Found at i:35308053 original size:36 final size:36
Alignment explanation
Indices: 35308006--35308136 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 36
35307996 CAGGGGTATT
35308006 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
*
35308042 TCGGTAATTCTACCCTACAGGGGTA--T---T----
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
35308069 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
35308105 TCGGTAATTCTACCCTAC-AGGGTATTTCGGTA
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTA
35308137 ATTCTACCCT
Statistics
Matches: 84, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
27 24 0.29
29 1 0.01
31 1 0.01
32 1 0.01
34 1 0.01
35 14 0.17
36 42 0.50
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (36 bp):
TCGGTAATTCTACCCTACAAGGGTATTTCGGTAGAA
Found at i:35308422 original size:54 final size:54
Alignment explanation
Indices: 35308361--35308480 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
35308351 TTCTACCCTA
35308361 CAAGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGA-GGGTATTTTGGTAATTTTACAAAC
* * * *** **
35308415 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTGGTAATTTTACAAAC
35308469 CAAGGGTATTTC
1 CAAGGGTATTTC
35308481 AAAAATTTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:35308432 original size:81 final size:80
Alignment explanation
Indices: 35308105--35308433 Score: 319
Period size: 80 Copynumber: 4.1 Consensus size: 80
35308095 TTCGGTAGAA
* * ** *
35308105 TCGGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTCCGGTAATTCTA
1 TCGGTAATTCTACCCTACAGGGTATTGCGATAATTCTACAATACAGGGGTATTTCGGTAATTCTA
**
35308169 CCCTACAGGGGTATT
66 CCAAACAGGGGTATT
* * * ** *
35308184 CCAGTAATTCTACCCTACAGGGGTATT-CCAGTAATTCTACCCTACA-GGGTATTCCGGTAATTC
1 TCGGTAATTCTACCCTACA-GGGTATTGCGA-TAATTCTACAATACAGGGGTATTTCGGTAATTC
** *
35308247 TACCCTATAGGGGTATT
64 TACCAAACAGGGGTATT
**
35308264 TCGGTAATTCTACCCTACAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 TCGGTAATTCTACCCTACAGGGTATTGCGATAATTCTACAATACAGGGGTATTTCGGTAATTCTA
** *
35308329 CCCTATAGGGGTATT
66 CCAAACAGGGGTATT
* * * *
35308344 TCAGTAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAA-ATCAGGGGTATTTTGGTAATT
1 TCGGTAATTCTACCCTAC-AGGGTATTGCGATAATTCT-ACAATA-CAGGGGTATTTCGGTAATT
*
35308407 TTA-CAAACCAGGGGTATT
63 CTACCAAA-CAGGGGTATT
*
35308425 TTGGTAATT
1 TCGGTAATT
35308434 TTATTGATCG
Statistics
Matches: 221, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
79 40 0.18
80 128 0.58
81 53 0.24
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (80 bp):
TCGGTAATTCTACCCTACAGGGTATTGCGATAATTCTACAATACAGGGGTATTTCGGTAATTCTA
CCAAACAGGGGTATT
Found at i:35308435 original size:27 final size:27
Alignment explanation
Indices: 35308364--35308479 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
35308354 TACCCTACAA
* * *
35308364 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
35308391 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
35308418 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
35308444 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
35308472 GGGTATTT
1 GGGTATTT
35308480 CAAAAATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.99
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:35308488 original size:54 final size:54
Alignment explanation
Indices: 35308391--35308503 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
35308381 CACAAATCAG
* **** **
35308391 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAAAAATTTTATAAATCGA
** *
35308445 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAAAAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAAAAATTTTATAAATCGA
35308499 GGGTA
1 GGGTA
35308504 AAATGTTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAAAAATTTTATAAATCGA
Found at i:35308514 original size:27 final size:27
Alignment explanation
Indices: 35308484--35308692 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
35308474 GTATTTCAAA
* *
35308484 AATTTTGTAAATCGAGGGTAAAATGTT
1 AATTCTGTAAATCGAGGGTAAAATGGT
** * *
35308511 AATTCTGTAAATTTAGGGTAAGACGGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
* *
35308538 AATTCTGTAAATCAAGGGTAAAATTGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
*
35308565 AATTCTATAAATCGAGGGTAAAATGGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
* *
35308592 AATTCTATAAATCGAGGGTAAAACGGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
* * * **
35308619 AATTTTATAAATCGAGAGTAAAACAGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
* **
35308646 AATTCTGTAAATCAAGGGTAAAACAGT
1 AATTCTGTAAATCGAGGGTAAAATGGT
* *
35308673 AATTCTATAAATCGATGGTA
1 AATTCTGTAAATCGAGGGTA
35308693 CTTTGGAAAT
Statistics
Matches: 157, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 157 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
AATTCTGTAAATCGAGGGTAAAATGGT
Found at i:35308576 original size:81 final size:81
Alignment explanation
Indices: 35308491--35308692 Score: 260
Period size: 81 Copynumber: 2.5 Consensus size: 81
35308481 AAAAATTTTG
* * ** * * *
35308491 TAAATCGAGGGTAAAATGTTAATTCTGTAAATTTAGGGTAAGACGGTAATTCTGTAAATCAAGGG
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGAG
**
35308556 TAAAATTGTAATTCTA
66 TAAAACAGTAATTCTA
* *
35308572 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGAG
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGAG
*
35308637 TAAAACAGTAATTCTG
66 TAAAACAGTAATTCTA
* ** *
35308653 TAAATCAAGGGTAAAACAGTAATTCTATAAATCGATGGTA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
35308693 CTTTGGAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGAG
TAAAACAGTAATTCTA
Found at i:35308715 original size:81 final size:81
Alignment explanation
Indices: 35308491--35308715 Score: 200
Period size: 81 Copynumber: 2.8 Consensus size: 81
35308481 AAAAATTTTG
* * * ** * * * ** * *
35308491 TAAATCGAGGGTAAAA-TGTTAATTCTGTAAATTTAGGGTAAGACGGTAATTCTGTAAATCAAGG
1 TAAATCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACGGAAATTTTACAAATCGAGA
**
35308555 GTAAAATTGTAATTCTA
65 GTAAAACAGTAATTCTA
* ** * *
35308572 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGAG
1 TAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGAAATTTTACAAATCGAGAG
*
35308637 TAAAACAGTAATTCTG
66 TAAAACAGTAATTCTA
* **** *
35308653 TAAATCAAGGGTAAAACAGTAATTCTATAAATCGATGGTACTTTGGAAATTTTACAAGTCGAG
1 TAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGAAATTTTACAAATCGAG
35308716 GGCATTTCTG
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
81 119 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (81 bp):
TAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGAAATTTTACAAATCGAGAG
TAAAACAGTAATTCTA
Found at i:35308730 original size:27 final size:27
Alignment explanation
Indices: 35308700--35308827 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
35308690 GTACTTTGGA
* * **
35308700 AATTTTACAAGTCGAGGGCATTTCTGT
1 AATTTTACAAATCGAGGGTATTTCAAT
35308727 AATTTTACAAATCGAGGGTATTTCAAT
1 AATTTTACAAATCGAGGGTATTTCAAT
* *
35308754 AATTTTGCAAATTGAGGGTATTTCAAT
1 AATTTTACAAATCGAGGGTATTTCAAT
* * *
35308781 AATTTTACAAATAGAGGATATTT-AGGT
1 AATTTTACAAATCGAGGGTATTTCA-AT
* *
35308808 AATTTTATAAATCGGGGGTA
1 AATTTTACAAATCGAGGGTA
35308828 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 85 0.99
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AATTTTACAAATCGAGGGTATTTCAAT
Found at i:35310490 original size:93 final size:93
Alignment explanation
Indices: 35310378--35310548 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35310368 GCCCATAAGT
* *
35310378 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35310443 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35310471 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
35310536 TGAGTTCGGATGC
66 CGAGCTCGGATGC
35310549 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35310545 original size:46 final size:46
Alignment explanation
Indices: 35310370--35310545 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35310360 TGTAACCCGC
* *
35310370 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35310416 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
35310462 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
35310509 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35310546 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35313850 original size:40 final size:40
Alignment explanation
Indices: 35313776--35313947 Score: 199
Period size: 40 Copynumber: 4.3 Consensus size: 40
35313766 GATAACCAGA
* * * *
35313776 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGG
* * *
35313816 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGG
* *
35313856 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGG
*
35313896 CTAAGACCCGAAGGTATTTGTG-TGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATATCCGGG
35313935 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
35313948 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 95 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGG
Found at i:35313909 original size:80 final size:79
Alignment explanation
Indices: 35313776--35313947 Score: 233
Period size: 80 Copynumber: 2.2 Consensus size: 79
35313766 GATAACCAGA
* * *
35313776 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCT-
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATG-TG
35313840 AG-TGATTATATCCGGG
65 AGTTG-TTATATCC-GG
* * *
35313856 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGTATTTGTGTGA
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGA
35313921 GTTGTTATATCCGG
66 GTTGTTATATCCGG
35313935 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
35313948 ATACTTGGGT
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.80
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGA
GTTGTTATATCCGG
Found at i:35314215 original size:22 final size:22
Alignment explanation
Indices: 35314175--35314216 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35314165 GAATGTGCAT
*
35314175 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
35314197 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
35314217 TCAAAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:35321066 original size:27 final size:28
Alignment explanation
Indices: 35321009--35321078 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
35320999 AAACTTGTAC
*
35321009 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35321037 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
35321064 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35321079 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Done.