Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 94 of 120
Found at i:26969352 original size:478 final size:463
Alignment explanation
Indices: 26968518--26969466 Score: 1231
Period size: 478 Copynumber: 2.0 Consensus size: 463
26968508 ATTAAATAAT
26968518 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
* * *
26968583 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAAT
66 TTTAATATAATTAAATAATTAAATCGTTTAACTTAATATAATTATATACTTTAATATAAATAAAT
* * *
26968648 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
131 AATTAAATC-TATAACTTAAATATTTAATTAATCGATAGTGTTAATAATTAAATAAATAATTAAA
* * *
26968713 CATGATTAAATAATTTAATATAATTATTTAGTTAATATAATTAAATAATTATATTTTTTAAATTA
195 CAT-ATT--ATAACTTAATATAATTATTTAGTTAATATAATTAAATAATTAAATTTTATAAATTA
* * *
26968778 ATATAATTATTACTTTAATATAATTTAATAATTAAAATCTTTTAACTTAATATAATTATTTACTT
257 ATATAATTATTAATTTAATATAATTTAATAATTAAAATATTATAACTTAATATAATTATTTACTT
* *
26968843 TAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTTTTTATAATTA
322 TAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATACTGTTTATAATTA
* *
26968908 AATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATT
387 AATACATAATTAAACATCATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATT
*
26968973 ATATCTTTTAAA
452 AAATCTTTTAAA
*
26968985 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTAA-TTAATATAATTATTTAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
*
26969049 TTTAATATAATTAAATAATTAAATCGTTTAACTTAAATATTTAATTAATCGATAGTGTT-ATAAT
66 TTTAATATAATTAAATAATTAAATCGTTTAACTT-AATA--TAATT-AT--ATACT-TTAAT-A-
* * * *
26969113 TAAATACATAATTAAA-C-ATGA-TTAAATAATTTAATATAAT-TATTTAGT-TTAAT-A-TAAT
122 TAAATAAATAATTAAATCTATAACTTAAAT-ATTTAAT-TAATCGA--TAGTGTTAATAATTAAA
**
26969171 TAAATAATTAAATC-T-TT-TAACTTAATATAATTATTTCTTTAATATAATTAAATAATTAAATA
183 TAAATAATTAAA-CATATTATAACTTAATATAATTATTTAGTTAATATAATTAAATAATTAAAT-
**
26969233 TTTAT-AATTAAATATTTAATTAATTGATATTTTTTATAATTAATACATAATTAAACATGATTAA
246 TTTATAAATT-AATA--TAATT-ATT-A-ATTTAATATAATT--TA-ATAATTAAA-AT-ATT--
* *
26969297 ATAATTTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
298 ATAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTA
* *
26969362 ATTAATCGATACTGTTTATAATTAAATACATAATTAAATATCATTAAATAATTTAATGTAATTAT
363 ATTAATCGATACTGTTTATAATTAAATACATAATTAAACATCATTAAATAATTTAATATAATTAT
*
26969427 TTACTTTAATATAATTAAATAATTAAATCTTTTAAC
428 TTACTTTAATATAATTAAATAATTAAATCTTTTAAA
26969463 TTAA
1 TTAA
26969467 ATACTTAATT
Statistics
Matches: 422, Mismatches: 32, Indels: 45
0.85 0.06 0.09
Matches are distributed among these distances:
465 44 0.10
466 58 0.14
467 50 0.12
468 7 0.02
469 8 0.02
470 24 0.06
471 22 0.05
472 13 0.03
473 10 0.02
474 23 0.05
475 2 0.00
476 2 0.00
478 159 0.38
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (463 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAC
TTTAATATAATTAAATAATTAAATCGTTTAACTTAATATAATTATATACTTTAATATAAATAAAT
AATTAAATCTATAACTTAAATATTTAATTAATCGATAGTGTTAATAATTAAATAAATAATTAAAC
ATATTATAACTTAATATAATTATTTAGTTAATATAATTAAATAATTAAATTTTATAAATTAATAT
AATTATTAATTTAATATAATTTAATAATTAAAATATTATAACTTAATATAATTATTTACTTTAAT
ATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATACTGTTTATAATTAAATA
CATAATTAAACATCATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAAT
CTTTTAAA
Found at i:26969442 original size:112 final size:112
Alignment explanation
Indices: 26969192--26969509 Score: 534
Period size: 112 Copynumber: 2.9 Consensus size: 112
26969182 ATCTTTTAAC
* *
26969192 TTAATATAATTATTT-CTTTAATATAATTAAATAATTAAATATTTATAA-TTAAATATTTAATTA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTT-TAACTTAAATATTTAATTA
* * * *
26969255 ATTGATATTTTTTATAATT-AATACATAATTAAACATGATTAAATAAT
65 ATCGATACTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
26969302 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
*
26969367 TCGATACTGTTTATAATTAAATACATAATTAAATATCATTAAATAAT
66 TCGATACTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
*
26969414 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATACTTAATTAA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
26969479 TCGATACTGTTTATAATTAAATACATAATTA
66 TCGATACTGTTTATAATTAAATACATAATTA
26969510 TTTAATTATT
Statistics
Matches: 197, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
110 17 0.09
111 59 0.30
112 121 0.61
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (112 bp):
TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
TCGATACTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
Found at i:26969495 original size:54 final size:52
Alignment explanation
Indices: 26968796--26969501 Score: 365
Period size: 54 Copynumber: 13.2 Consensus size: 52
26968786 ATTACTTTAA
* *
26968796 TATAATTTAATAATTAAAATCTTTTAACTT-AATA--TAATT-AT-TTACTTT
1 TATAATTAAATAATT-AAATCTTTTAACTTAAATATTTAATTAATGATACTTT
*
26968844 AATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTTTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAAT-GATA-CTTT
* * * *
26968900 TATAATTAAATACATAATTAAA-C--ATGA-TTAAATAATTTAATATAATTATTTAGTTT
1 TATAATT--A-A-ATAATTAAATCTTTTAACTTAAAT-ATTTAAT-TAATGA--TACTTT
* * *
26968956 AATATAATTAAATAATTATATCTTTTAAATT-AATA--TAATT-AT-TTACTTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATGATACTTT
*
26969005 AATATAATTAAATAATTAAATC-TTTAA-TT-AATA--TAATT-AT-TTACTTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATGATACTTT
* * *
26969052 AATATAATTAAATAATTAAATCGTTTAACTTAAATATTTAATTAATCGATAGTGT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAAT-GATACTTT
* * * *
26969107 TATAATTAAATACATAATTAAA-C--ATGA-TTAAATAATTTAATATAATTATTTAGTTT
1 TATAATT--A-A-ATAATTAAATCTTTTAACTTAAAT-ATTTAAT-TAATGA--TACTTT
*
26969163 AATATAATTAAATAATTAAATCTTTTAACTT-AATA--TAATT-AT--TTCTTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATGATACTTT
* *
26969211 AATATAATTAAATAATTAAATATTTATAA-TTAAATATTTAATTAATTGATATTTTT
1 --TATAATTAAATAATTAAATCTTT-TAACTTAAATATTTAATTAA-TGATA-CTTT
* * *
26969267 TATAATTAATACATAATTAAA-C--ATGA-TTAAATAATTTAATGTAATTATTTACTTT
1 TATAATT-A-A-ATAATTAAATCTTTTAACTTAAAT-ATTTAAT-TAATGA--TACTTT
26969322 AATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATACTGTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAAT-GATACT-TT
** * *
26969378 TATAATTAAATACA-T-AAT-TAAATATCATTAAATAATTTAATGTAATTATTTACTTT
1 TATAATTAAATA-ATTAAATCT-TTTAAC-TTAAAT-ATTTAAT-TAATGA--TACTTT
*
26969434 AATATAATTAAATAATTAAATCTTTTAACTTAAATACTTAATTAATCGATACTGTT
1 --TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAAT-GATACT-TT
26969490 TATAATTAAATA
1 TATAATTAAATA
26969502 CATAATTATT
Statistics
Matches: 531, Mismatches: 44, Indels: 158
0.72 0.06 0.22
Matches are distributed among these distances:
47 42 0.08
48 40 0.08
49 49 0.09
50 22 0.04
51 5 0.01
52 16 0.03
53 34 0.06
54 104 0.20
55 52 0.10
56 47 0.09
57 61 0.11
58 52 0.10
59 6 0.01
60 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (52 bp):
TATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATGATACTTT
Found at i:26972116 original size:44 final size:44
Alignment explanation
Indices: 26972053--26972198 Score: 159
Period size: 44 Copynumber: 3.3 Consensus size: 44
26972043 GATCGGCTCA
* *
26972053 AGAAGCGGGTTCTGGGGGTGAAGAGGGAACGGAGTAAGGGGAAG
1 AGAAGCGAGTTCTGGGGGTGAAGAGGGAACGGAGTAAGGGGAAC
* *
26972097 AGAAGCGAGTT-TGGGGGGTGAAGAGGGAACGGGGTGAGGGGAAC
1 AGAAGCGAGTTCT-GGGGGTGAAGAGGGAACGGAGTAAGGGGAAC
* ** * * * *
26972141 AGAAGCGGGTTCTGTAGGTGAAGAGGCAATGGAGTGAGGGAAAC
1 AGAAGCGAGTTCTGGGGGTGAAGAGGGAACGGAGTAAGGGGAAC
* *
26972185 AGAAGAGGGTTCTG
1 AGAAGCGAGTTCTG
26972199 CGGTCTGGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 86 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.49, T:0.14
Consensus pattern (44 bp):
AGAAGCGAGTTCTGGGGGTGAAGAGGGAACGGAGTAAGGGGAAC
Found at i:26972450 original size:41 final size:41
Alignment explanation
Indices: 26972329--26972838 Score: 378
Period size: 41 Copynumber: 12.8 Consensus size: 41
26972319 TTTAAATAAA
* * * *
26972329 TTAGCGGCGCTTATAGAAAAGCGCCGCTAA-G-CAC-ACCT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* * * * **
26972367 TTAGCGGCGCTTATTAGAAAAGCGCCGCTAATAACCTAACCT
1 TTAGCGGCGCTT-GTGGATAAGCGCCGCTAATGACCCGACCT
* * ** * *
26972409 TTACCGGCGCTTTTATATAAGCGCTGCTAATGACACGACCT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* *
26972450 TTAGC-GCGCGTTGTGGGTAAGCGCCGCTAATGACTCC-ACTT
1 TTAGCGGCGC-TTGTGGATAAGCGCCGCTAATGAC-CCGACCT
* *
26972491 TTAGCGGCGCTTGCGG-TGAAGCGCCGCTAATGACCCGACCA
1 TTAGCGGCGCTTGTGGAT-AAGCGCCGCTAATGACCCGACCT
* *
26972532 TTAGCGGCGCTTGTGGCTAAGCGCCGCTAATGACCCGACTT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* ** * *
26972573 TTAGTGGCGCTTGTGTCTAAGCGCCGCTAATAACCCGACTT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* * *
26972614 TTAGCGGCGCTT-TTG-T-A-------TAATGACTCGAACT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
** * *
26972645 TTAGCGGCGCTTGTGTCTAAGCGCCACTAATGACCCGACTT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* ** **
26972686 TTAGTGGCGCTTGTGTCTAAGCGCCGCTAATGAGTCGACCT
1 TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
* * *
26972727 TTAGCGGCACTTATGGATAAAGCGCCGCTAAAGACCCGACC-
1 TTAGCGGCGCTTGTGGAT-AAGCGCCGCTAATGACCCGACCT
***
26972768 TTAGCGGCGCTT-TGTG-TAAGCGCCGCTAATGA-TTTACCT
1 TTAGCGGCGCTTGTG-GATAAGCGCCGCTAATGACCCGACCT
* * *
26972807 TTTGCGGCGCATT-AGGAAAAGCGCCGCTAATG
1 TTAGCGGCGC-TTGTGGATAAGCGCCGCTAATG
26972839 CTTCACCTTT
Statistics
Matches: 385, Mismatches: 62, Indels: 48
0.78 0.13 0.10
Matches are distributed among these distances:
31 22 0.06
32 1 0.00
33 1 0.00
34 1 0.00
38 16 0.04
39 42 0.11
40 28 0.07
41 234 0.61
42 40 0.10
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTGTGGATAAGCGCCGCTAATGACCCGACCT
Found at i:26972680 original size:154 final size:155
Alignment explanation
Indices: 26972477--26972785 Score: 394
Period size: 154 Copynumber: 2.0 Consensus size: 155
26972467 TAAGCGCCGC
* *
26972477 TAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCGACCATTAGCGGCGC
1 TAATGACTCAACTTTTAGCGGCGCTTGCGGTGAAGCGCCACTAATGACCCGACCATTAGCGGCGC
* * * * **
26972542 TTGTGGCTAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTCT-AAGCGCCGCTAATA-
66 TTGTGGCTAAGCGCCGCTAATGACCCGACCTTTAGCGGCACTTATGGATAAAGCGCCGCTAA-AG
*
26972605 ACCCGACTTTTAGCGGCGCTTT-TGTA
130 ACCCGAC-CTTAGCGGCGCTTTGTGTA
* * ** *
26972631 TAATGACTCGAAC-TTTAGCGGCGCTTG-TGTCTAAGCGCCACTAATGACCCGACTTTTAGTGGC
1 TAATGACTC-AACTTTTAGCGGCGCTTGCGGT-GAAGCGCCACTAATGACCCGACCATTAGCGGC
* **
26972694 GCTTGTGTCTAAGCGCCGCTAATGAGTCGACCTTTAGCGGCACTTATGGATAAAGCGCCGCTAAA
64 GCTTGTGGCTAAGCGCCGCTAATGACCCGACCTTTAGCGGCACTTATGGATAAAGCGCCGCTAAA
26972759 GACCCGACCTTAGCGGCGCTTTGTGTA
129 GACCCGACCTTAGCGGCGCTTTGTGTA
26972786 AGCGCCGCTA
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
153 2 0.02
154 106 0.80
155 25 0.19
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (155 bp):
TAATGACTCAACTTTTAGCGGCGCTTGCGGTGAAGCGCCACTAATGACCCGACCATTAGCGGCGC
TTGTGGCTAAGCGCCGCTAATGACCCGACCTTTAGCGGCACTTATGGATAAAGCGCCGCTAAAGA
CCCGACCTTAGCGGCGCTTTGTGTA
Found at i:26972681 original size:72 final size:72
Alignment explanation
Indices: 26972559--26972697 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 72
26972549 TAAGCGCCGC
* *
26972559 TAATGACCCGACTTTTAGTGGCGCTTGTGTCTAAGCGCCGCTAATAACCCGACTTTTAGCGGCGC
1 TAATGACCCGACTTTTAGCGGCGCTTGTGTCTAAGCGCCACTAATAACCCGACTTTTAGCGGCGC
26972624 TTTTGTA
66 TTTTGTA
* * *
26972631 TAATGACTCGAAC-TTTAGCGGCGCTTGTGTCTAAGCGCCACTAATGACCCGACTTTTAGTGGCG
1 TAATGACCCG-ACTTTTAGCGGCGCTTGTGTCTAAGCGCCACTAATAACCCGACTTTTAGCGGCG
26972695 CTT
65 CTT
26972698 GTGTCTAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 59 0.97
73 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (72 bp):
TAATGACCCGACTTTTAGCGGCGCTTGTGTCTAAGCGCCACTAATAACCCGACTTTTAGCGGCGC
TTTTGTA
Found at i:26972716 original size:113 final size:113
Alignment explanation
Indices: 26972518--26972734 Score: 353
Period size: 113 Copynumber: 1.9 Consensus size: 113
26972508 GAAGCGCCGC
* *
26972518 TAATGACCCGACCATTAGCGGCGCTTGTGGCTAAGCGCCGCTAATGACCCGACTTTTAGTGGCGC
1 TAATGACCCGAACATTAGCGGCGCTTGTGGCTAAGCGCCACTAATGACCCGACTTTTAGTGGCGC
*
26972583 TTGTGTCTAAGCGCCGCTAATAACCCGACTTTTAGCGGCGCTTTTGTA
66 TTGTGTCTAAGCGCCGCTAATAACCCGACCTTTAGCGGCGCTTTTGTA
* * *
26972631 TAATGACTCGAACTTTAGCGGCGCTTGTGTCTAAGCGCCACTAATGACCCGACTTTTAGTGGCGC
1 TAATGACCCGAACATTAGCGGCGCTTGTGGCTAAGCGCCACTAATGACCCGACTTTTAGTGGCGC
* **
26972696 TTGTGTCTAAGCGCCGCTAATGAGTCGACCTTTAGCGGC
66 TTGTGTCTAAGCGCCGCTAATAACCCGACCTTTAGCGGC
26972735 ACTTATGGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.28
Consensus pattern (113 bp):
TAATGACCCGAACATTAGCGGCGCTTGTGGCTAAGCGCCACTAATGACCCGACTTTTAGTGGCGC
TTGTGTCTAAGCGCCGCTAATAACCCGACCTTTAGCGGCGCTTTTGTA
Found at i:26983367 original size:31 final size:29
Alignment explanation
Indices: 26983300--26983369 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
26983290 AAATCAAAAT
* * *
26983300 TTCATGTATATAATTGTACAAAATCAAAG
1 TTCATGTATACAATTGCACAAAACCAAAG
26983329 TTCATGTATACAATTGCACATTAAACCATAA-
1 TTCATGTATACAATTGCACA--AAACCA-AAG
26983360 TTCATGTATA
1 TTCATGTATA
26983370 ATTTTGATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.51
31 15 0.43
32 2 0.06
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (29 bp):
TTCATGTATACAATTGCACAAAACCAAAG
Found at i:26990120 original size:18 final size:20
Alignment explanation
Indices: 26990083--26990122 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
26990073 GTGAATTTGA
26990083 ATTTGCATTCTCATGATCAC
1 ATTTGCATTCTCATGATCAC
*
26990103 ATTT-CATT-TCATGCTCAC
1 ATTTGCATTCTCATGATCAC
26990121 AT
1 AT
26990123 ATAACAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTGCATTCTCATGATCAC
Found at i:26990416 original size:12 final size:12
Alignment explanation
Indices: 26990393--26990423 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
26990383 AAATGAAAAC
26990393 AGAGACAGCAGAT
1 AGAGA-AGCAGAT
26990406 AGAGAAGCAGAT
1 AGAGAAGCAGAT
26990418 AGAGAA
1 AGAGAA
26990424 ACTGCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.52, C:0.10, G:0.32, T:0.06
Consensus pattern (12 bp):
AGAGAAGCAGAT
Found at i:26997970 original size:14 final size:13
Alignment explanation
Indices: 26997935--26997985 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
26997925 TTTTTAATCA
26997935 AACTTTTCAAAAC
1 AACTTTTCAAAAC
* *
26997948 TACTTTTCAAAAG
1 AACTTTTCAAAAC
**
26997961 AACTTTTTCACCAC
1 AAC-TTTTCAAAAC
26997975 -ACTTTTCAAAA
1 AACTTTTCAAAA
26997986 GCATTTTTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
12 7 0.24
13 15 0.52
14 7 0.24
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (13 bp):
AACTTTTCAAAAC
Found at i:26997993 original size:13 final size:13
Alignment explanation
Indices: 26997936--26998000 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 13
26997926 TTTTAATCAA
26997936 ACTTTTCAAAA-C
1 ACTTTTCAAAAGC
*
26997948 TACTTTTCAAAAGA
1 -ACTTTTCAAAAGC
**
26997962 ACTTTTTCACCA-C
1 AC-TTTTCAAAAGC
26997975 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
26997988 A-TTTTTAAAAGC
1 ACTTTTCAAAAGC
26998000 A
1 A
26998001 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
12 18 0.43
13 17 0.40
14 7 0.17
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:26998320 original size:24 final size:23
Alignment explanation
Indices: 26998282--26998393 Score: 80
Period size: 24 Copynumber: 5.1 Consensus size: 23
26998272 TTAATATATG
* *
26998282 AAATATTAATTTTAAATATTTCT
1 AAATATTAATATTAAATATTTAT
*
26998305 AAATAATTAATATTAATTATTTAT
1 AAAT-ATTAATATTAAATATTTAT
*
26998329 AAA-ATTTA-ATTAGAATA--TAT
1 AAATATTAATATTA-AATATTTAT
*
26998349 AAACTA-T-ATTTTAAATA-TT-T
1 AAA-TATTAATATTAAATATTTAT
26998369 AAATA-TAATCATTAAATATTTAT
1 AAATATTAAT-ATTAAATATTTAT
26998392 AA
1 AA
26998394 TTAGATACTA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
19 3 0.04
20 17 0.24
21 16 0.22
22 10 0.14
23 7 0.10
24 19 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (23 bp):
AAATATTAATATTAAATATTTAT
Found at i:27000883 original size:13 final size:14
Alignment explanation
Indices: 27000865--27000893 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27000855 TATAAAGAAT
27000865 AATTTA-AAATATA
1 AATTTATAAATATA
27000878 AATTTATAAATATA
1 AATTTATAAATATA
27000892 AA
1 AA
27000894 ATAAACTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTATAAATATA
Found at i:27008672 original size:45 final size:45
Alignment explanation
Indices: 27008612--27008714 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
27008602 TATGATCAAG
* * * *
27008612 TTCTTTTATGAATCCGCATGGATGAATATGCTATGTTCATAAAGT
1 TTCTTCTATGAATCCGCATGGATGAATATACTATATCCATAAAGT
** ** * *
27008657 TTCTTCTATGAATCCGTTTGTTTGAATCTACTATATCCATGAAGT
1 TTCTTCTATGAATCCGCATGGATGAATATACTATATCCATAAAGT
27008702 TTCTTCTATGAAT
1 TTCTTCTATGAAT
27008715 TCACATGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (45 bp):
TTCTTCTATGAATCCGCATGGATGAATATACTATATCCATAAAGT
Found at i:27008738 original size:45 final size:44
Alignment explanation
Indices: 27008689--27008781 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 44
27008679 TGAATCTACT
*
27008689 ATATCCATGAAGTTTCTTCTATGAA-TTCACATGTATGAGTCCGTC
1 ATATCCATGAAGTTTCTTCTA-CAAGTTCACATGTATGAGTCCG-C
* * * *
27008734 ATATCTATGAATTTTCTTTTACAAGTTCACATGTATGAGTTCGC
1 ATATCCATGAAGTTTCTTCTACAAGTTCACATGTATGAGTCCGC
27008778 ATAT
1 ATAT
27008782 AAGAGTCCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 7 0.17
45 35 0.83
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (44 bp):
ATATCCATGAAGTTTCTTCTACAAGTTCACATGTATGAGTCCGC
Found at i:27011081 original size:22 final size:20
Alignment explanation
Indices: 27011038--27011082 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
27011028 ATTCAATATA
*
27011038 AATATATATAATTATTATTT
1 AATATATATAATTATTAATT
*
27011058 AATATATATACTTAATATAATT
1 AATATATATAATT-AT-TAATT
27011080 AAT
1 AAT
27011083 TTTTTTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 2 0.10
22 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATATATAATTATTAATT
Found at i:27011500 original size:18 final size:17
Alignment explanation
Indices: 27011460--27011506 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
27011450 ACTAAATTTG
27011460 ATATTTA-AATTATTTTT
1 ATATTTATAA-TATTTTT
27011477 -TATTTATAATATTTTT
1 ATATTTATAATATTTTT
27011493 CATATTTATGAATA
1 -ATATTTAT-AATA
27011507 AAAATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 13 0.50
17 2 0.08
18 7 0.27
19 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATTTATAATATTTTT
Found at i:27011901 original size:29 final size:30
Alignment explanation
Indices: 27011867--27011930 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
27011857 AATTTTCACG
* *
27011867 TATATAATTGCAC-CAAATTAAAATTTATA
1 TATATAATTACACACAAATCAAAATTTATA
*
27011896 TATATAATTACACATTAAATCAAAATTTATA
1 TATATAATTACACA-CAAATCAAAATTTATA
27011927 TATA
1 TATA
27011931 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 12 0.40
31 18 0.60
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (30 bp):
TATATAATTACACACAAATCAAAATTTATA
Found at i:27015007 original size:13 final size:13
Alignment explanation
Indices: 27014979--27015012 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27014969 AATTGTCCCC
*
27014979 AAAAAGAA-AAAG
1 AAAAAGAAGAAAA
27014991 AAAAAGAAGAAAA
1 AAAAAGAAGAAAA
27015004 AAAAAGAAG
1 AAAAAGAAG
27015013 GGCTCTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGAAAA
Found at i:27022278 original size:12 final size:12
Alignment explanation
Indices: 27022254--27022290 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
27022244 TAGGCTTTCC
*
27022254 TTCC-TTTCCTT
1 TTCCTTTTCTTT
27022265 TTCCTTTTCTTT
1 TTCCTTTTCTTT
27022277 TTCCTTTTCTTT
1 TTCCTTTTCTTT
27022289 TT
1 TT
27022291 TTGTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTCCTTTTCTTT
Found at i:27031389 original size:28 final size:28
Alignment explanation
Indices: 27031299--27031519 Score: 154
Period size: 29 Copynumber: 7.8 Consensus size: 28
27031289 TGGATTTACG
* * *
27031299 GGGGCAAAATAGTAATTTTTGGTGAAATT
1 GGGGTAAAATGGTAA-TTTTGGTGAAATC
* * *
27031328 GGGGTCAAAAATAG-AATTTTGG-AAAATTTA
1 GGGGT--AAAATGGTAATTTTGGTGAAA--TC
27031358 GGGGTAAAATGGTAATTTTGGTGAAATC
1 GGGGTAAAATGGTAATTTTGGTGAAATC
* **
27031386 GGGGCTAAAAATGG-AATTTTGGAGAGTTC
1 GGGG-T-AAAATGGTAATTTTGGTGAAATC
27031415 GGGGTAAAATGGTAATTTT-GTGAAATC
1 GGGGTAAAATGGTAATTTTGGTGAAATC
*
27031442 AGGGTTAAAAATGG-AATTTT-G-GAAAGTTC
1 -GGGGT-AAAATGGTAATTTTGGTGAAA--TC
27031471 GAGGGTAAAATGGTAATTTT-GTGAAATC
1 G-GGGTAAAATGGTAATTTTGGTGAAATC
* *
27031499 AGGGTTAAAAT-GAAATTTTGG
1 -GGGGTAAAATGGTAATTTTGG
27031520 AAGTTTCGGG
Statistics
Matches: 158, Mismatches: 16, Indels: 37
0.75 0.08 0.18
Matches are distributed among these distances:
27 23 0.15
28 51 0.32
29 55 0.35
30 22 0.14
31 7 0.04
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGTGAAATC
Found at i:27031477 original size:57 final size:56
Alignment explanation
Indices: 27031299--27031552 Score: 307
Period size: 56 Copynumber: 4.5 Consensus size: 56
27031289 TGGATTTACG
* * ** * * * *
27031299 GGGGCAAAATAGTAATTTTTGGTGAAATTGGGGTCAAAAATAGAATTTTGGAAAATTTA
1 GGGGTAAAATGGTAA-TTTT-GTGAAATCAGGGTTAAAAATGGAATTTTGG-AAAGTTC
* * *
27031358 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGCTAAAAATGGAATTTTGGAGAGTTC
1 GGGGTAAAATGGTAATTTT-GTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
27031415 GGGGTAAAATGGTAATTTTGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
*
27031471 GAGGGTAAAATGGTAATTTTGTGAAATCAGGGTT-AAAATGAAATTTTGG-AAGTTTC
1 G-GGGTAAAATGGTAATTTTGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG-TTC
*
27031527 GGGGTTAAAAT-GTAATTTTTTGAAAT
1 GGGG-TAAAATGGTAATTTTGTGAAAT
27031553 TTTAGGGTCA
Statistics
Matches: 178, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
55 20 0.11
56 59 0.33
57 55 0.31
58 31 0.17
59 13 0.07
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:27031531 original size:28 final size:27
Alignment explanation
Indices: 27031358--27031545 Score: 136
Period size: 28 Copynumber: 6.7 Consensus size: 27
27031348 GGAAAATTTA
*
27031358 GGGG-TAAAATGGTAATTTTGGTGAA-ATC
1 GGGGTTAAAAT-GTAATTTT-G-GAAGTTC
* *
27031386 GGGGCTAAAAATGGAATTTTGGAGAGTTC
1 GGGG-TTAAAATGTAATTTTGGA-AGTTC
*
27031415 GGGG-TAAAATGGTAATTTTGTGAA-ATC
1 GGGGTTAAAAT-GTAATTTTG-GAAGTTC
* *
27031442 AGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGTT-AAAATGTAATTTTGG-AAGTTC
*
27031471 GAGGG-TAAAATGGTAATTTTGTGAA-ATC
1 G-GGGTTAAAAT-GTAATTTTG-GAAGTTC
* *
27031499 AGGGTTAAAATGAAATTTTGGAAGTTTC
1 GGGGTTAAAATGTAATTTTGGAAG-TTC
27031527 GGGGTTAAAATGTAATTTT
1 GGGGTTAAAATGTAATTTT
27031546 TTGAAATTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
26 3 0.02
27 24 0.19
28 58 0.46
29 33 0.26
30 9 0.07
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (27 bp):
GGGGTTAAAATGTAATTTTGGAAGTTC
Found at i:27031565 original size:29 final size:29
Alignment explanation
Indices: 27031419--27031575 Score: 114
Period size: 29 Copynumber: 5.5 Consensus size: 29
27031409 GAGTTCGGGG
*
27031419 TAAAATGGTAATTTTGTGAAA--TCAGGGT
1 TAAAAT-GTAATTTTTTGAAATTTCAGGGT
* * *
27031447 TAAAAATGGAA-TTTTGGAAAGTTCGAGGG-
1 T-AAAATGTAATTTTTTGAAATTTC-AGGGT
*
27031476 TAAAATGGTAATTTTGTGAAA--TCAGGGT
1 TAAAAT-GTAATTTTTTGAAATTTCAGGGT
* * * *
27031504 TAAAATG-AAATTTTGGAAGTTTCGGGGT
1 TAAAATGTAATTTTTTGAAATTTCAGGGT
*
27031532 TAAAATGTAATTTTTTGAAATTTTAGGGT
1 TAAAATGTAATTTTTTGAAATTTCAGGGT
*
27031561 CAAAAT-TCAATTTTT
1 TAAAATGT-AATTTTT
27031576 GGACTGTTTG
Statistics
Matches: 101, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
26 8 0.08
27 12 0.12
28 31 0.31
29 39 0.39
30 11 0.11
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
TAAAATGTAATTTTTTGAAATTTCAGGGT
Found at i:27031825 original size:162 final size:162
Alignment explanation
Indices: 27031652--27031978 Score: 618
Period size: 162 Copynumber: 2.0 Consensus size: 162
27031642 TCTAGAAGTT
*
27031652 AAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATT
1 AAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAATAAAAGTTGATT
27031717 TAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATTCATAAATAAACCAAAAAGTGA
66 TAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATTCATAAATAAACCAAAAAGTGA
*
27031782 CACGTGGCGACCTCTGGTGCAGTCAAACAGTC
131 CACGTGGCGACCTCCGGTGCAGTCAAACAGTC
27031814 AAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAATAAAAGTTGATT
1 AAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAATAAAAGTTGATT
* *
27031879 TAAGGATTAAATTAAAATAAATTAAAAATGGCAGGGACTAGATTCATAAATAAACCAAAAAGTGA
66 TAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATTCATAAATAAACCAAAAAGTGA
27031944 CACGTGGCGACCTCCGGTGCAGTCAAACAGTC
131 CACGTGGCGACCTCCGGTGCAGTCAAACAGTC
27031976 AAA
1 AAA
27031979 AGATTAAATT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 161 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (162 bp):
AAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAATAAAAGTTGATT
TAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATTCATAAATAAACCAAAAAGTGA
CACGTGGCGACCTCCGGTGCAGTCAAACAGTC
Found at i:27033493 original size:6 final size:6
Alignment explanation
Indices: 27033484--27033549 Score: 82
Period size: 6 Copynumber: 11.0 Consensus size: 6
27033474 ATTTTTAATG
* *
27033484 TTTAAA TTTAGTA TTTTAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAGA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
27033534 --TAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
27033550 ATCAATTAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 43 0.83
7 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:27033556 original size:17 final size:17
Alignment explanation
Indices: 27033501--27033556 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
27033491 TTAGTATTTT
*
27033501 AATTTAAATTTAAATTTA
1 AATTTAAATTTAAA-ATA
*
27033519 AATTTAAATTTAAGATA
1 AATTTAAATTTAAAATA
*
27033536 AATTTAAATTTAAAATC
1 AATTTAAATTTAAAATA
27033553 AATT
1 AATT
27033557 AGAACAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 21 0.62
18 13 0.38
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:27042740 original size:14 final size:15
Alignment explanation
Indices: 27042709--27042746 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27042699 TCAAAACATA
* *
27042709 TTTTTAAAATATGAT
1 TTTTTAAATTACGAT
27042724 TTTTTAAATTACG-T
1 TTTTTAAATTACGAT
27042738 TTTTTAAAT
1 TTTTTAAAT
27042747 CTTTAATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (15 bp):
TTTTTAAATTACGAT
Found at i:27053635 original size:205 final size:208
Alignment explanation
Indices: 27053248--27053868 Score: 896
Period size: 205 Copynumber: 3.0 Consensus size: 208
27053238 GAGAAGCTTT
* * * * *
27053248 TATTTGTTTGCTTCACTTCTTGGGTTGAATCCAATGTTGCAAAAAGGATGATATTCAATCCTTTC
1 TATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTTTC
* *
27053313 ATGTACTTTATTTCCCATTGAATGT-GTTTTTTTCAATTTGTTTTCATTGCATCATTCGGTATGA
66 ATGTACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTCATTCGGTATGA
* * * *
27053377 GCTATGTTACCCAGGCACAAGTGGATCTTGGTTGCTGACATTTGTCTAACACTGATATGCTAAAC
131 GCTATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACATTTGTCCAACACTGATATGCTAAAC
27053442 CTTT-TGAAGTG-A
196 CTTTCT-AAGTGAA
*
27053454 -A-TTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTCTC
1 TATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTTTC
*
27053517 ATGTACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTAATTCGGTATGA
66 ATGTACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTCATTCGGTATGA
*
27053582 GCTATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACTTTTGTCCAACACTGATATGCTAAAC
131 GCTATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACATTTGTCCAACACTGATATGCTAAAC
*
27053647 CTTTCTAGGTGAA
196 CTTTCTAAGTGAA
* * *
27053660 TCTTTTATTTGTTTACTTCACTGCTGGGGTTGAATCCAA-GATTGCAAAAGGAATGATCTTCAGT
1 -----TATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATG-TTGCAAAAAGAATGATCTTCAGT
* * *
27053724 TCTTTCATGCACTTTATTTCCCATTGAATGTGG-TTTTTTCAATTTGTTTTCTTTACTTCATTCA
60 TCTTTCATGTACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTCATTCG
* * * *
27053788 GTATGAGCTATGTTACCCAGGCTCAAGTCAATCTTGGATACTGACATTTGCCCAACACTGATATA
125 GTATGAGCTATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACATTTGTCCAACACTGATATG
*
27053853 CTAAACCTTTCCAAGT
190 CTAAACCTTTCTAAGT
27053869 TTTTCATATA
Statistics
Matches: 374, Mismatches: 30, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
204 81 0.22
205 105 0.28
206 2 0.01
212 104 0.28
213 82 0.22
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (208 bp):
TATTTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTTTC
ATGTACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTCATTCGGTATGA
GCTATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACATTTGTCCAACACTGATATGCTAAAC
CTTTCTAAGTGAA
Found at i:27053860 original size:212 final size:213
Alignment explanation
Indices: 27053455--27053863 Score: 678
Period size: 212 Copynumber: 1.9 Consensus size: 213
27053445 TTGAAGTGAA
* *
27053455 TTGTTTGCTTCACTGCTTGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTCTCATG
1 TTGTTTACTTCACTGCTGGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTCTCATG
* *
27053520 TACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTAATTCGGTATGAGCT
66 CACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTAATTCAGTATGAGCT
* * * * *
27053585 ATGTTACCCAGGCTCAAGTGAATCTTGGATGCTGACTTTTGTCCAACACTGATATGCTAAACCTT
131 ATGTTACCCAGGCTCAAGTCAATCTTGGATACTGACATTTGCCCAACACTGATATACTAAACCTT
27053650 TCTAGGTGAATCTTTTAT
196 TCTAGGTGAATCTTTTAT
* *
27053668 TTGTTTACTTCACTGCTGGGGTTGAATCCAA-GATTGCAAAAGGAATGATCTTCAGTTCTTTCAT
1 TTGTTTACTTCACTGCTGGGGTTGAATCCAATG-TTGCAAAAAGAATGATCTTCAGTTCTCTCAT
* *
27053732 GCACTTTATTTCCCATTGAATGTGG-TTTTTTCAATTTGTTTTCTTTACTTCATTCAGTATGAGC
65 GCACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTAATTCAGTATGAGC
27053796 TATGTTACCCAGGCTCAAGTCAATCTTGGATACTGACATTTGCCCAACACTGATATACTAAACCT
130 TATGTTACCCAGGCTCAAGTCAATCTTGGATACTGACATTTGCCCAACACTGATATACTAAACCT
27053861 TTC
195 TTC
27053864 CAAGTTTTTC
Statistics
Matches: 182, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
212 100 0.55
213 82 0.45
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (213 bp):
TTGTTTACTTCACTGCTGGGGTTGAATCCAATGTTGCAAAAAGAATGATCTTCAGTTCTCTCATG
CACTTTATTTCCCATTGAATGTGGTTTTTTTCAATTTGTTTTCATTACTTAATTCAGTATGAGCT
ATGTTACCCAGGCTCAAGTCAATCTTGGATACTGACATTTGCCCAACACTGATATACTAAACCTT
TCTAGGTGAATCTTTTAT
Found at i:27056036 original size:20 final size:20
Alignment explanation
Indices: 27056008--27056045 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27055998 TCACGTCAAC
27056008 AAATAATTTTAAAATTATTA
1 AAATAATTTTAAAATTATTA
*
27056028 AAATTATTTTAAAATTAT
1 AAATAATTTTAAAATTAT
27056046 ACGCATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTTAAAATTATTA
Found at i:27056039 original size:11 final size:11
Alignment explanation
Indices: 27056008--27056045 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
27055998 TCACGTCAAC
*
27056008 AAATAATTTTA
1 AAATTATTTTA
27056019 AAATTA--TTA
1 AAATTATTTTA
27056028 AAATTATTTTA
1 AAATTATTTTA
27056039 AAATTAT
1 AAATTAT
27056046 ACGCATCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:27058738 original size:54 final size:54
Alignment explanation
Indices: 27058679--27058785 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
27058669 CTCGTGAACT
*
27058679 GCTCAAAGGTAAGTATTAGGATACTCAAATTTAGCACAATTGATAACTTGAGCA
1 GCTCAAAGGTAAGTATTAGGATACTCAAATTTAGCACAATCGATAACTTGAGCA
*
27058733 GCTCAAAGGTAAGTATTAGGATACTCGAATTTAGCACAATCGATAACTTGAGC
1 GCTCAAAGGTAAGTATTAGGATACTCAAATTTAGCACAATCGATAACTTGAGC
27058786 TGCAAAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (54 bp):
GCTCAAAGGTAAGTATTAGGATACTCAAATTTAGCACAATCGATAACTTGAGCA
Found at i:27065466 original size:51 final size:51
Alignment explanation
Indices: 27065407--27065509 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
27065397 CACAAAAATC
27065407 ATATGAATATATCATCACAATAATAAAGCTCAAAGATATATATATATATAT
1 ATATGAATATATCATCACAATAATAAAGCTCAAAGATATATATATATATAT
27065458 ATATGAATATATCATCACAATAATAAAGCTCAAAGATATATATATATATAT
1 ATATGAATATATCATCACAATAATAAAGCTCAAAGATATATATATATATAT
27065509 A
1 A
27065510 CCTGATTCTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (51 bp):
ATATGAATATATCATCACAATAATAAAGCTCAAAGATATATATATATATAT
Found at i:27068430 original size:2 final size:2
Alignment explanation
Indices: 27068423--27068461 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27068413 ACCAACAAGC
27068423 CA CA CA CA CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
27068462 TATACATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27078281 original size:2 final size:2
Alignment explanation
Indices: 27078274--27078304 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27078264 CGTTGGATCC
27078274 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27078305 AACTTCGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27082369 original size:30 final size:29
Alignment explanation
Indices: 27082277--27082563 Score: 237
Period size: 30 Copynumber: 9.8 Consensus size: 29
27082267 TTTGAGGTAA
* * *
27082277 AAAATGTGACTTTTGGAAA-TTTGGGGGC
1 AAAATGTGATTTTTGGAAAGTTTAGGGTC
* *
27082305 AAAATGGTGATTTTTGG-ATGTTCGAGGG-C
1 AAAAT-GTGATTTTTGGAAAGTT-TAGGGTC
*
27082334 AAAATG-GTAATTTTGGATAAGTTTAGGGTC
1 AAAATGTG-ATTTTTGGA-AAGTTTAGGGTC
* * * *
27082364 AAAATG-CAATTTTGGAAAAGTTTGGGGTA
1 AAAATGTGATTTTTGG-AAAGTTTAGGGTC
* * *
27082393 AAAATGT-AATTTTGGAAACTTTTAAGGGTT
1 AAAATGTGATTTTTGGAAA-GTTT-AGGGTC
*
27082423 AAAATGTGATTTTTGAGAAAGTTTAGGGTT
1 AAAATGTGATTTTTG-GAAAGTTTAGGGTC
27082453 AAAATGTGATTTTTGGAAAGTTTAAGGGTC
1 AAAATGTGATTTTTGGAAAGTTT-AGGGTC
*
27082483 AAAATGTGATTTTTGGAAAGTTTGGTGGTC
1 AAAATGTGATTTTTGGAAAGTTTAG-GGTC
* * * * *
27082513 AAAATATGATTTTTGAAAAATTCGAGTGTC
1 AAAATGTGATTTTTGGAAAGTT-TAGGGTC
*
27082543 AAAATGT-ATTGTTGGAAAGTT
1 AAAATGTGATTTTTGGAAAGTT
27082564 CGAGGGCCTC
Statistics
Matches: 216, Mismatches: 27, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
27 1 0.00
28 17 0.08
29 77 0.36
30 107 0.50
31 10 0.05
32 4 0.02
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAATGTGATTTTTGGAAAGTTTAGGGTC
Found at i:27082457 original size:60 final size:59
Alignment explanation
Indices: 27082276--27082505 Score: 215
Period size: 59 Copynumber: 3.9 Consensus size: 59
27082266 TTTTGAGGTA
* * * * *
27082276 AAAAATGTGACTTTTGGAAA-TTT-GGGGGCAAAATGGTGATTTTTG-G-ATGTTCGAGGG-
1 AAAAATGT-AATTTTGGAAAGTTTAAGGGTCAAAAT-GTGATTTTTGAGAAAGTT-TAGGGT
* ** * *
27082333 CAAAATGGTAATTTTGGATAAGTTT-AGGGTCAAAATGCAATTTTGGA-AAAGTTTGGGGT
1 AAAAAT-GTAATTTTGGA-AAGTTTAAGGGTCAAAATGTGATTTTTGAGAAAGTTTAGGGT
* *
27082392 AAAAATGTAATTTTGGAAACTTTTAAGGGTTAAAATGTGATTTTTGAGAAAGTTTAGGGT
1 AAAAATGTAATTTTGGAAA-GTTTAAGGGTCAAAATGTGATTTTTGAGAAAGTTTAGGGT
* *
27082452 TAAAATGTGATTTTTGGAAAGTTTAAGGGTCAAAATGTGATTTTTG-GAAAGTTT
1 AAAAATGT-AATTTTGGAAAGTTTAAGGGTCAAAATGTGATTTTTGAGAAAGTTT
27082506 GGTGGTCAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
57 15 0.11
58 28 0.20
59 47 0.33
60 42 0.30
61 10 0.07
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (59 bp):
AAAAATGTAATTTTGGAAAGTTTAAGGGTCAAAATGTGATTTTTGAGAAAGTTTAGGGT
Found at i:27086746 original size:3 final size:3
Alignment explanation
Indices: 27086738--27086793 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
27086728 AAAGTAATGA
27086738 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27086786 TAT TAT TA
1 TAT TAT TA
27086794 CAGTAACAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27091640 original size:20 final size:19
Alignment explanation
Indices: 27091615--27091654 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
27091605 TTAAAAAAAA
27091615 ATCTAAATTCAAAAATATAT
1 ATCTAAATTCAAAAA-ATAT
*
27091635 ATCTAAATTTAAAAAATAT
1 ATCTAAATTCAAAAAATAT
27091654 A
1 A
27091655 CAAAGTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCTAAATTCAAAAAATAT
Found at i:27091964 original size:24 final size:26
Alignment explanation
Indices: 27091922--27091969 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
27091912 AATTATTTAC
*
27091922 TTTTCTATTTTAATTTAAATTTAACG
1 TTTTCTATTTTAATATAAATTTAACG
27091948 TTTT-TATTTTAA-ATAAATTTAA
1 TTTTCTATTTTAATATAAATTTAA
27091970 TTGTCACGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 8 0.38
26 4 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTCTATTTTAATATAAATTTAACG
Found at i:27102916 original size:16 final size:16
Alignment explanation
Indices: 27102872--27102918 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
27102862 TTACTTCATG
27102872 TAATTAATGCAAAATAA
1 TAATTAAT-CAAAATAA
*
27102889 T-ATTATTCAAAATAA
1 TAATTAATCAAAATAA
*
27102904 TAATTAATAAAAATA
1 TAATTAATCAAAATA
27102919 TTGTGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 16 0.62
17 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATTAATCAAAATAA
Found at i:27112649 original size:2 final size:2
Alignment explanation
Indices: 27112642--27112670 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27112632 GAAAAGTAAA
27112642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27112671 ATTTAAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27113919 original size:15 final size:15
Alignment explanation
Indices: 27113901--27113930 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27113891 AATGACAAGG
27113901 TTTATTTATTATTTA
1 TTTATTTATTATTTA
27113916 TTTATTTATTATTTA
1 TTTATTTATTATTTA
27113931 CATTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTATTATTTA
Found at i:27114194 original size:24 final size:24
Alignment explanation
Indices: 27114165--27114242 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
27114155 TAGAGTGCAA
27114165 GTTGTTAGTAAAATCTATTGTGTT
1 GTTGTTAGTAAAATCTATTGTGTT
* * * ***
27114189 GTTGTT-TTAAATACCGAGTTG-CAA
1 GTTGTTAGTAAA-ATCTA-TTGTGTT
27114213 GTTGTTAGTAAAATCTATTGTGTT
1 GTTGTTAGTAAAATCTATTGTGTT
27114237 GTTGTT
1 GTTGTT
27114243 TTATTTACTG
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
23 7 0.18
24 24 0.63
25 7 0.18
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (24 bp):
GTTGTTAGTAAAATCTATTGTGTT
Found at i:27114635 original size:23 final size:24
Alignment explanation
Indices: 27114609--27114666 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
27114599 AAAAAGGGTT
**
27114609 TAAAATTAAAATTAAAAC-TAAAA
1 TAAAATTAAAAAGAAAACATAAAA
*
27114632 T-AAATTAAAAAGAGAACATAAAA
1 TAAAATTAAAAAGAAAACATAAAA
*
27114655 TAAAATAAAAAA
1 TAAAATTAAAAA
27114667 TCACCAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 13 0.45
23 7 0.24
24 9 0.31
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (24 bp):
TAAAATTAAAAAGAAAACATAAAA
Found at i:27128987 original size:28 final size:27
Alignment explanation
Indices: 27128946--27129048 Score: 107
Period size: 28 Copynumber: 3.7 Consensus size: 27
27128936 TTGGAAACAT
*
27128946 TTGATCGGTAGTGCTTGACAGGTAACGC
1 TTGATCGGTAGTGCTTGACA-GTAATGC
* *
27128974 TTGATCGATTGTGCTTGACAAGTAATGC
1 TTGATCGGTAGTGCTTGAC-AGTAATGC
* * * * *
27129002 CTGACCGTTGGTGCCTGACCAGTAATGC
1 TTGATCGGTAGTGCTTGA-CAGTAATGC
27129030 TTGATCGGTAGTGCTTGAC
1 TTGATCGGTAGTGCTTGAC
27129049 TGACAGTGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 57 0.95
29 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (27 bp):
TTGATCGGTAGTGCTTGACAGTAATGC
Found at i:27129109 original size:28 final size:28
Alignment explanation
Indices: 27129063--27129171 Score: 69
Period size: 28 Copynumber: 3.9 Consensus size: 28
27129053 AGTGTTTGAT
* **
27129063 CGGTAACACTTGAAAGGTAACACCATAC
1 CGGTAACACCTGATCGGTAACACCATAC
** *
27129091 CGGTAACACCTGATCGGTAATGCTATAC
1 CGGTAACACCTGATCGGTAACACCATAC
* * ** *
27129119 CGATAACA-CT-ATACCAGTAATGCCACAC
1 CGGTAACACCTGAT--CGGTAACACCATAC
* *
27129147 CGGTAACACCTGACCGATAACACCA
1 CGGTAACACCTGATCGGTAACACCA
27129172 CACTGATAAC
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 54 0.89
29 2 0.03
30 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (28 bp):
CGGTAACACCTGATCGGTAACACCATAC
Found at i:27129271 original size:14 final size:14
Alignment explanation
Indices: 27129159--27129314 Score: 105
Period size: 14 Copynumber: 11.1 Consensus size: 14
27129149 GTAACACCTG
**
27129159 ACCGATAACACCAC
1 ACCGATAACGTCAC
*
27129173 ACTGATAACGTCAC
1 ACCGATAACGTCAC
* *
27129187 ATCGATAACGCCAC
1 ACCGATAACGTCAC
** *
27129201 ATAGGTAACGTCAC
1 ACCGATAACGTCAC
* *
27129215 ACCGATAATGCCAC
1 ACCGATAACGTCAC
*
27129229 ATCGATAACGTCAC
1 ACCGATAACGTCAC
* * *
27129243 ACCAAAAACGCCAC
1 ACCGATAACGTCAC
* *
27129257 ACCGGTAATGTCAC
1 ACCGATAACGTCAC
**
27129271 ACCGATAACACCAC
1 ACCGATAACGTCAC
* ***
27129285 ACCGGTGGTGTCAC
1 ACCGATAACGTCAC
*
27129299 ACCGATAACATCAC
1 ACCGATAACGTCAC
27129313 AC
1 AC
27129315 AGGTAACGCC
Statistics
Matches: 101, Mismatches: 41, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 101 1.00
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.15
Consensus pattern (14 bp):
ACCGATAACGTCAC
Found at i:27129286 original size:42 final size:42
Alignment explanation
Indices: 27129136--27129287 Score: 108
Period size: 42 Copynumber: 3.6 Consensus size: 42
27129126 ACTATACCAG
* ** * * * *
27129136 TAATGCCACACCGGTAACACCTGACCGATAACACCACACTGA
1 TAATGCCACACCGATAACACCACACCAAAAACGCCACACCGA
* * * * * ** *
27129178 TAACGTCACATCGATAACGCCACA-TAGGTAACGTCACACCGA
1 TAATGCCACACCGATAACACCACACCA-AAAACGCCACACCGA
* ** *
27129220 TAATGCCACATCGATAACGTCACACCAAAAACGCCACACCGG
1 TAATGCCACACCGATAACACCACACCAAAAACGCCACACCGA
*
27129262 TAATGTCACACCGATAACACCACACC
1 TAATGCCACACCGATAACACCACACC
27129288 GGTGGTGTCA
Statistics
Matches: 83, Mismatches: 25, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
42 82 0.99
43 1 0.01
ACGTcount: A:0.37, C:0.35, G:0.14, T:0.14
Consensus pattern (42 bp):
TAATGCCACACCGATAACACCACACCAAAAACGCCACACCGA
Found at i:27129287 original size:28 final size:28
Alignment explanation
Indices: 27129141--27129322 Score: 157
Period size: 28 Copynumber: 6.5 Consensus size: 28
27129131 ACCAGTAATG
** **
27129141 CCACACCGGTAACACCTGACCGATAACA
1 CCACACCGGTAACGTCACACCGATAACA
* * * *
27129169 CCACACTGATAACGTCACATCGATAACG
1 CCACACCGGTAACGTCACACCGATAACA
** **
27129197 CCACATAGGTAACGTCACACCGATAATG
1 CCACACCGGTAACGTCACACCGATAACA
* * * * *
27129225 CCACATCGATAACGTCACACCAAAAACG
1 CCACACCGGTAACGTCACACCGATAACA
*
27129253 CCACACCGGTAATGTCACACCGATAACA
1 CCACACCGGTAACGTCACACCGATAACA
***
27129281 CCACACCGGTGGTGTCACACCGATAACA
1 CCACACCGGTAACGTCACACCGATAACA
* *
27129309 TCACACAGGTAACG
1 CCACACCGGTAACG
27129323 CCTGATCGGT
Statistics
Matches: 123, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 123 1.00
ACGTcount: A:0.36, C:0.34, G:0.16, T:0.14
Consensus pattern (28 bp):
CCACACCGGTAACGTCACACCGATAACA
Found at i:27129393 original size:32 final size:32
Alignment explanation
Indices: 27129339--27129401 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
27129329 CGGTAAAGCC
*
27129339 TGATCGAACCCTAAGCACTAAACCTTAAACCT
1 TGATCGAACCCTAAACACTAAACCTTAAACCT
* * * *
27129371 TGATTGAACCTTAAACATTAAACTTTAAACC
1 TGATCGAACCCTAAACACTAAACCTTAAACC
27129402 CTAAATCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (32 bp):
TGATCGAACCCTAAACACTAAACCTTAAACCT
Found at i:27129449 original size:47 final size:47
Alignment explanation
Indices: 27129377--27129970 Score: 320
Period size: 47 Copynumber: 12.8 Consensus size: 47
27129367 ACCTTGATTG
* * ** *
27129377 AACCTTAAACATTAAACTTTAAACCCTAAATCAATAAAGTCTAATCA
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * * **
27129424 AACTTTAAGCACTAAACCCTCAACCCTAAATCGATAAAGCCTAATTG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * * * * **
27129471 AACCCTAAACACTAAACACTCAACCCTAAATTAATAAAGCCTAATTG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * * * * *
27129518 AACCCTAAGCACTAAACACTCAACCCTAAATTAATTCAA-CCTAA-CTG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAA-TAAAGCCTAATC-A
* * * * * *
27129565 AACCTTAAGCATTAAATCATAAACCTTAAATCGATAAAGCCTGATCA
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
** * * * *
27129612 AA-CTCTAAGCACTAAATTCTAAACCTTAAATCGATAAAGCTTAACTGA
1 AACCT-TAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAA-TCA
* * * * *
27129660 ATA--TTAAACATTAAACCTTAAACCCTAAATCAATAAAACCCAATCA
1 A-ACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * *
27129706 AA-CTT------TAAACCTTAAACCCTAAATCAATAAAACATAA-CTA
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATC-A
* * * * ** *
27129746 AACCTTAAGCATTAAACACTAAACCTTAAATCGATAAAGTTTGATCA
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * * * ** *
27129793 AACTTTAAGCACTAAACCTTAAACCTTAAATCGATAAAGTTTAATCG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
* * ** * * *
27129840 AACCTTAAGCATTAAACCTTAAACTTTAAATCAATACAA-CATGATCG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATA-AAGCCTAATCA
* * ** * * * *
27129887 AACCATAAGCACTAATCTATAAACCCTAAATTAATAAAACTTAA-CTG
1 AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATC-A
* **
27129934 AA-CTATAAGCACTAATCTTTAAACCCTAAATCAATAA
1 AACCT-TAAGCACTAAACCCTAAACCCTAAATCAATAA
27129971 CGTCTGACTG
Statistics
Matches: 442, Mismatches: 84, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.00
40 33 0.07
41 3 0.01
45 1 0.00
46 14 0.03
47 378 0.86
48 11 0.02
49 1 0.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (47 bp):
AACCTTAAGCACTAAACCCTAAACCCTAAATCAATAAAGCCTAATCA
Found at i:27129474 original size:26 final size:25
Alignment explanation
Indices: 27129445--27129525 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 25
27129435 CTAAACCCTC
27129445 AACCCTAAATCGATAAAGCCTAATTG
1 AACCCTAAATC-ATAAAGCCTAATTG
* *
27129471 AACCCTAAA-CACTAAA--C--ACTC
1 AACCCTAAATCA-TAAAGCCTAATTG
*
27129492 AACCCTAAATTAATAAAGCCTAATTG
1 AACCCTAAA-TCATAAAGCCTAATTG
27129518 AACCCTAA
1 AACCCTAA
27129526 GCACTAAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
21 11 0.26
22 4 0.09
23 2 0.05
24 2 0.05
25 5 0.12
26 19 0.44
ACGTcount: A:0.46, C:0.27, G:0.06, T:0.21
Consensus pattern (25 bp):
AACCCTAAATCATAAAGCCTAATTG
Found at i:27129507 original size:94 final size:94
Alignment explanation
Indices: 27129375--27129970 Score: 437
Period size: 94 Copynumber: 6.4 Consensus size: 94
27129365 AAACCTTGAT
** *
27129375 TGAACCTTAAACATTAAACTTTAAACCCTAAATCAATAAAGTCTAATCAAACTTTAAGCACTAAA
1 TGAACCTTAAACATTAAACACTAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAAA
* *
27129440 CCCTCAACCCTAAATCGATAAAGCCTAAT
66 CCCTAAACCCTAAATCGATAAAGCCTAAC
* * * * ** **
27129469 TGAACCCTAAACACTAAACACTCAACCCTAAATTAATAAAGCCTAATTGAACCCTAAGCACTAAA
1 TGAACCTTAAACATTAAACACTAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAAA
* * ** *
27129534 CACTCAACCCTAAATTAATTCAA-CCTAAC
66 CCCTAAACCCTAAATCGA-TAAAGCCTAAC
* * * * *
27129563 TGAACCTTAAGCATTAAATCA-TAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAA
1 TGAACCTTAAACATTAAA-CACTAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAA
** * *
27129627 ATTCTAAACCTTAAATCGATAAAGCTTAAC
65 ACCCTAAACCCTAAATCGATAAAGCCTAAC
** * *
27129657 TGAATATTAAACATTAAAC-CTTAAACCCTAAATCAATAAAACCCAATCAAAC-TT------TAA
1 TGAACCTTAAACATTAAACAC-TAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAA
* * * *
27129714 ACCTTAAACCCTAAATCAATAAAACATAAC
65 ACCCTAAACCCTAAATCGATAAAGCCTAAC
* * * * ** *
27129744 TAAACCTTAAGCATTAAACACTAAACCTTAAATCGATAAAGTTTGATCAAACTTTAAGCACTAAA
1 TGAACCTTAAACATTAAACACTAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAAA
* * **
27129809 CCTTAAACCTTAAATCGATAAAGTTTAA-
66 CCCTAAACCCTAAATCGATAAAGCCTAAC
* ** * * * **
27129837 TCGAACCTTAAGCATTAAAC-CTTAAACTTTAAATCAATACAA-CATGATCGAACCATAAGCACT
1 T-GAACCTTAAACATTAAACAC-TAAACCCTAAATCAATA-AAGCCTAATCAAACTTTAAGCACT
* ** ** * *
27129900 AATCTATAAACCCTAAATTAATAAAACTTAAC
63 AAACCCTAAACCCTAAATCGATAAAGCCTAAC
* * * **
27129932 TGAA-CTATAAGCACTAATCTTTAAACCCTAAATCAATAA
1 TGAACCT-TAAACATTAAACACTAAACCCTAAATCAATAA
27129971 CGTCTGACTG
Statistics
Matches: 395, Mismatches: 88, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
87 65 0.16
88 3 0.01
93 10 0.03
94 309 0.78
95 8 0.02
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (94 bp):
TGAACCTTAAACATTAAACACTAAACCCTAAATCAATAAAGCCTAATCAAACTTTAAGCACTAAA
CCCTAAACCCTAAATCGATAAAGCCTAAC
Found at i:27129761 original size:40 final size:40
Alignment explanation
Indices: 27129665--27129768 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
27129655 ACTGAATATT
* * *
27129665 AAACATTAAACCTTAAACCCTAAATCAATAAAACCCAATC
1 AAACCTTAAACATTAAACCCTAAATCAATAAAACACAATC
* * *
27129705 AAACTTTAAACCTTAAACCCTAAATCAATAAAACATAA-C
1 AAACCTTAAACATTAAACCCTAAATCAATAAAACACAATC
* *
27129744 TAAACCTTAAGCATTAAACACTAAA
1 -AAACCTTAAACATTAAACCCTAAA
27129769 CCTTAAATCG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (40 bp):
AAACCTTAAACATTAAACCCTAAATCAATAAAACACAATC
Found at i:27129781 original size:181 final size:181
Alignment explanation
Indices: 27129377--27129875 Score: 497
Period size: 181 Copynumber: 2.7 Consensus size: 181
27129367 ACCTTGATTG
* * * * * * *
27129377 AACCTTAAACATTAAA-CTTTAAACCCTAAATCAATAAAGTCTAATCAAACTTTAAGCACTAAAC
1 AACCTTAAGCATTAAATC-ATAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAAAC
* * * * * ** * * *
27129441 CCTCAACCCTAAATCGATAAAGCCTAATTGAACCCTAAACACTAAACAC-TCAACCCTAAATTAA
65 CTTAAACCTTAAATCGATAAAGCTTAATCGAACATTAAACATTAAAC-CTTAAACCCTAAATCAA
* * * ** * * ** * *
27129505 TAAAGCCTAATTGAACCCTAAGCACTAAACAC-TCAACCCTAAATTAATTCAACCTAACTG
129 TAAAACCCAA-T-----C-AAACTTTAAAC-CTTAAACCCTAAATCAATAAAACATAACTA
*
27129565 AACCTTAAGCATTAAATCATAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAAA-T
1 AACCTTAAGCATTAAATCATAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAAACC
*
27129629 TCTAAACCTTAAATCGATAAAGCTTAA-CTGAATATTAAACATTAAACCTTAAACCCTAAATCAA
66 T-TAAACCTTAAATCGATAAAGCTTAATC-GAACATTAAACATTAAACCTTAAACCCTAAATCAA
27129693 TAAAACCCAATCAAACTTTAAACCTTAAACCCTAAATCAATAAAACATAACTA
129 TAAAACCCAATCAAACTTTAAACCTTAAACCCTAAATCAATAAAACATAACTA
** *
27129746 AACCTTAAGCATTAAA-CACTAAACCTTAAATCGATAAAGTTTGATCAAACTTTAAGCACTAAAC
1 AACCTTAAGCATTAAATCA-TAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAAAC
* * * **
27129810 CTTAAACCTTAAATCGATAAAGTTTAATCGAACCTTAAGCATTAAACCTTAAACTTTAAATCAAT
65 CTTAAACCTTAAATCGATAAAGCTTAATCGAACATTAAACATTAAACCTTAAACCCTAAATCAAT
27129875 A
130 A
27129876 CAACATGATC
Statistics
Matches: 263, Mismatches: 40, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
180 3 0.01
181 143 0.54
182 3 0.01
187 2 0.01
188 111 0.42
189 1 0.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (181 bp):
AACCTTAAGCATTAAATCATAAACCTTAAATCGATAAAGCCTGATCAAACTCTAAGCACTAAACC
TTAAACCTTAAATCGATAAAGCTTAATCGAACATTAAACATTAAACCTTAAACCCTAAATCAATA
AAACCCAATCAAACTTTAAACCTTAAACCCTAAATCAATAAAACATAACTA
Found at i:27130027 original size:28 final size:28
Alignment explanation
Indices: 27129967--27130028 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
27129957 CCCTAAATCA
* * *
27129967 ATAACGTCTGACTGGTAAAGCTTGATTG
1 ATAACATCTGACTAGTAAAGCTTGATCG
* **
27129995 GTAACATCTGACTAGTAGTGCTTGATCG
1 ATAACATCTGACTAGTAAAGCTTGATCG
27130023 ATAACA
1 ATAACA
27130029 CTTAAATCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (28 bp):
ATAACATCTGACTAGTAAAGCTTGATCG
Found at i:27130119 original size:28 final size:29
Alignment explanation
Indices: 27130074--27130174 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 29
27130064 GCCTGACAAG
**
27130074 TAGTGCCTGATCGGTAACGTCTGATTAG-
1 TAGTGCCTGATCAATAACGTCTGATTAGA
* * ***
27130102 TAGTGCTTGATCAATAACGCCT-AACCGA
1 TAGTGCCTGATCAATAACGTCTGATTAGA
*
27130130 TAGTGCCTGATCATTAACGTCTGATT-GA
1 TAGTGCCTGATCAATAACGTCTGATTAGA
* * *
27130158 TAATGCTTGATCGATAA
1 TAGTGCCTGATCAATAA
27130175 ACCCTAAATC
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
27 2 0.04
28 52 0.95
29 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (29 bp):
TAGTGCCTGATCAATAACGTCTGATTAGA
Found at i:27134928 original size:20 final size:19
Alignment explanation
Indices: 27134905--27134964 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
27134895 ATTACACGAG
27134905 TAATTTTAAAATTTTCAAAA
1 TAATTTTAAAA-TTTCAAAA
27134925 TAATTTTAAGAA-TTCAAAA
1 TAATTTTAA-AATTTCAAAA
*
27134944 T-ATTTATAAAAATTCCAAAA
1 TAATTT-T-AAAATTTCAAAA
27134964 T
1 T
27134965 TTATATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 4 0.11
19 11 0.31
20 18 0.51
21 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATTTTAAAATTTCAAAA
Found at i:27134966 original size:18 final size:18
Alignment explanation
Indices: 27134926--27134969 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
27134916 TTTTCAAAAT
*
27134926 AATTT-TAAGAATTCAAA
1 AATTTATAAAAATTCAAA
*
27134943 ATATTTATAAAAATTCCAA
1 A-ATTTATAAAAATTCAAA
27134962 AATTTATA
1 AATTTATA
27134970 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
AATTTATAAAAATTCAAA
Found at i:27135036 original size:16 final size:17
Alignment explanation
Indices: 27134982--27135038 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
27134972 TTTTAAATAC
27134982 AAAAATTATAAAAAATCCT
1 AAAAA-TATAAAAAAT-CT
*
27135001 AAATATATAAAAAAGT-T
1 AAAAATATAAAAAA-TCT
27135018 AAAAAT-TAAAAAATCT
1 AAAAATATAAAAAATCT
27135034 AAAAA
1 AAAAA
27135039 AATCATAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.03
16 13 0.38
17 6 0.18
18 9 0.26
19 5 0.15
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAAAATCT
Found at i:27135074 original size:22 final size:22
Alignment explanation
Indices: 27135044--27135094 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
27135034 AAAAAAATCA
* *
27135044 TAAACCAAAAACTCTAAAAAGCC
1 TAAA-CAAAAACCCTAAAAACCC
*
27135067 TAAACAAAAACCCTAAAACCCC
1 TAAACAAAAACCCTAAAAACCC
27135089 TAAACA
1 TAAACA
27135095 GGTTGGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.57, C:0.29, G:0.02, T:0.12
Consensus pattern (22 bp):
TAAACAAAAACCCTAAAAACCC
Found at i:27142500 original size:19 final size:19
Alignment explanation
Indices: 27142478--27142516 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27142468 TGTGTGAGGG
27142478 AATGAAAAGAAAAT-GAAAA
1 AATGAAAA-AAAATCGAAAA
27142497 AATGAAAAAAAATCGAAAA
1 AATGAAAAAAAATCGAAAA
27142516 A
1 A
27142517 GTTAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (19 bp):
AATGAAAAAAAATCGAAAA
Found at i:27149956 original size:21 final size:21
Alignment explanation
Indices: 27149927--27149968 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27149917 TTACGTGATG
* *
27149927 AATGTAGAATCATAGGTATGA
1 AATGCAGAATCATAGATATGA
*
27149948 AATGCAGAATTATAGATATGA
1 AATGCAGAATCATAGATATGA
27149969 CATAAATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (21 bp):
AATGCAGAATCATAGATATGA
Found at i:27159601 original size:31 final size:31
Alignment explanation
Indices: 27159565--27159626 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27159555 AGAGAAAGAA
27159565 AAACAAAATAAACGGAGTCAAAATGTGATTT
1 AAACAAAATAAACGGAGTCAAAATGTGATTT
27159596 AAACAAAATAAACGGAGTCAAAATGTGATTT
1 AAACAAAATAAACGGAGTCAAAATGTGATTT
27159627 TTGGATGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.23
Consensus pattern (31 bp):
AAACAAAATAAACGGAGTCAAAATGTGATTT
Found at i:27159727 original size:29 final size:28
Alignment explanation
Indices: 27159693--27159855 Score: 127
Period size: 29 Copynumber: 5.6 Consensus size: 28
27159683 TTTCGAAAGG
*
27159693 TTCGAGGTTACAAATGGAATTTTTAGACA
1 TTCGAGGGTA-AAATGGAATTTTTAGACA
* *
27159722 TTCGAGGGTAAAATGATAATTTTTGGA-A
1 TTCGAGGGTAAAATG-GAATTTTTAGACA
*
27159750 GGTTAG-GGGTTAAAATGGAATTTTTAGACA
1 --TTCGAGGG-TAAAATGGAATTTTTAGACA
* * *
27159780 TTCGGGGGTAAAATGGTAA-TTTTGGAAA
1 TTCGAGGGTAAAATGG-AATTTTTAGACA
* *
27159808 GTTCG-GGGTCAAAAATAGAATCTTTAGACA
1 -TTCGAGGGT--AAAATGGAATTTTTAGACA
*
27159838 TCCGAGGGTAAAATGGAA
1 TTCGAGGGTAAAATGGAA
27159856 AGCTTGGGAT
Statistics
Matches: 107, Mismatches: 15, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
28 36 0.34
29 44 0.41
30 27 0.25
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (28 bp):
TTCGAGGGTAAAATGGAATTTTTAGACA
Found at i:27159789 original size:58 final size:58
Alignment explanation
Indices: 27159672--27159853 Score: 240
Period size: 58 Copynumber: 3.1 Consensus size: 58
27159662 CTTTAGGAAC
* * *
27159672 AAAATGGTAATTTTCGAAAGGTTCGAGGTTACAAATGGAATTTTTAGACATTCGAGGGT
1 AAAATGGTAATTTTTGGAAGGTTCGGGGTTA-AAATGGAATTTTTAGACATTCGAGGGT
* * *
27159731 AAAATGATAATTTTTGGAAGGTTAGGGGTTAAAATGGAATTTTTAGACATTCGGGGGT
1 AAAATGGTAATTTTTGGAAGGTTCGGGGTTAAAATGGAATTTTTAGACATTCGAGGGT
* * * * *
27159789 AAAATGGTAA-TTTTGGAAAGTTCGGGGTCAAAAATAGAATCTTTAGACATCCGAGGGT
1 AAAATGGTAATTTTTGGAAGGTTCGGGGT-TAAAATGGAATTTTTAGACATTCGAGGGT
27159847 AAAATGG
1 AAAATGG
27159854 AAAGCTTGGG
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
57 16 0.15
58 66 0.61
59 26 0.24
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAGGTTCGGGGTTAAAATGGAATTTTTAGACATTCGAGGGT
Found at i:27159899 original size:29 final size:28
Alignment explanation
Indices: 27159868--27160094 Score: 102
Period size: 29 Copynumber: 7.8 Consensus size: 28
27159858 CTTGGGATCA
* *
27159868 AAAATGGGATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTTGAAAGTTCGGGGGT
* *
27159896 AAAATGTAATTTTTGAATAGTT-TGGGGT
1 AAAATGGAATTTTTGAA-AGTTCGGGGGT
** *
27159924 CAAAATGGAATTTTTGAAAGTTCGAAGCT
1 -AAAATGGAATTTTTGAAAGTTCGGGGGT
** ** *
27159953 AAAAATATAATTTTCAAAGAGTTC-GAGGT
1 -AAAATGGAATTTTTGAA-AGTTCGGGGGT
* * *
27159982 CAAAATGGAATTTTTGGATA-TTTGAGGGT
1 -AAAATGGAATTTTT-GAAAGTTCGGGGGT
* * *
27160011 AAAAATGTAATTTTTGGAAAGTTTAGGGGTT
1 -AAAATGGAATTTTT-GAAAG-TTCGGGGGT
* **
27160042 AAAATGTG-TTTTTTAGAAAGTTTAGGGGT
1 AAAATG-GAATTTTT-GAAAGTTCGGGGGT
**
27160071 CAAAATATAATTTTTAGAAAGTTC
1 -AAAATGGAATTTTT-GAAAGTTC
27160095 AAAGGTCAAA
Statistics
Matches: 147, Mismatches: 41, Indels: 20
0.71 0.20 0.10
Matches are distributed among these distances:
28 25 0.17
29 76 0.52
30 40 0.27
31 6 0.04
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAATGGAATTTTTGAAAGTTCGGGGGT
Found at i:27159958 original size:58 final size:57
Alignment explanation
Indices: 27159853--27160093 Score: 193
Period size: 58 Copynumber: 4.1 Consensus size: 57
27159843 GGGTAAAATG
* * * * *
27159853 GAAAGCTTGGGATCAAAAATGGGATTTTGGAAAGTTCGGGGGT-AAAATGTAATTTTT
1 GAAAGTTTGGGGTC-AAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATGTAATTTTT
* * * *
27159910 GAATAGTTTGGGGTCAAAATGGAATTTTTGAAAGTTCGAAGCTAAAAATATAATTTTC
1 GAA-AGTTTGGGGTCAAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATGTAATTTTT
* * * * *
27159968 AAAGAGTTCGAGGTCAAAATGGAATTTTTGGATA-TTTGAGGGTAAAAATGTAATTTTT
1 GAA-AGTTTGGGGTCAAAATGGAATTTTT-GAAAGTTCGAGGGTAAAAATGTAATTTTT
* * * * *
27160026 GGAAAGTTTAGGGGTTAAAATGTG-TTTTTTAGAAAGTT-TAGGGGTCAAAATATAATTTTT
1 -GAAAGTTT-GGGGTCAAAATG-GAATTTTT-GAAAGTTCGA-GGGTAAAAATGTAATTTTT
27160086 AGAAAGTT
1 -GAAAGTT
27160094 CAAAGGTCAA
Statistics
Matches: 146, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
57 26 0.18
58 69 0.47
59 24 0.16
60 27 0.18
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (57 bp):
GAAAGTTTGGGGTCAAAATGGAATTTTTGAAAGTTCGAGGGTAAAAATGTAATTTTT
Found at i:27160048 original size:30 final size:29
Alignment explanation
Indices: 27159876--27160093 Score: 144
Period size: 30 Copynumber: 7.4 Consensus size: 29
27159866 CAAAAATGGG
*
27159876 ATTTTGGAAAG-TTCGGGGGT-AAAATGTA
1 ATTTTTGAAAGTTTC-GGGGTCAAAATGTA
*
27159904 ATTTTTGAATAGTTT-GGGGTCAAAATGGA
1 ATTTTTGAA-AGTTTCGGGGTCAAAATGTA
* * * *
27159933 ATTTTTGAAAG-TTCGAAGCTAAAAATATA
1 ATTTTTGAAAGTTTCG-GGGTCAAAATGTA
* * * *
27159962 A-TTTTCAAAGAGTTCGAGGTCAAAATGGA
1 ATTTTTGAAAG-TTTCGGGGTCAAAATGTA
* *
27159991 ATTTTTGGATA-TTT-GAGGGTAAAAATGTA
1 ATTTTT-GAAAGTTTCG-GGGTCAAAATGTA
* * *
27160020 ATTTTTGGAAAGTTTAGGGGTTAAAATGTG
1 ATTTTT-GAAAGTTTCGGGGTCAAAATGTA
* * *
27160050 TTTTTTAGAAAGTTTAGGGGTCAAAATATA
1 ATTTTT-GAAAGTTTCGGGGTCAAAATGTA
27160080 ATTTTTAGAAAGTT
1 ATTTTT-GAAAGTT
27160094 CAAAGGTCAA
Statistics
Matches: 151, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.01
28 25 0.17
29 59 0.39
30 62 0.41
31 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
ATTTTTGAAAGTTTCGGGGTCAAAATGTA
Found at i:27161315 original size:3 final size:3
Alignment explanation
Indices: 27161301--27161340 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
27161291 TTTTTCCTTA
* *
27161301 AAT AAT AA- AAT AAT ATT AAT AAT AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27161341 ATGATAATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27162161 original size:17 final size:17
Alignment explanation
Indices: 27162119--27162173 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
27162109 TTTAAGCTCC
*
27162119 AAATAAACTTAAATTTA
1 AAATAAATTTAAATTTA
*
27162136 CAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
* *
27162153 AAATGAATTAAAATTTA
1 AAATAAATTTAAATTTA
27162170 AAAT
1 AAAT
27162174 CTAAAATTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATAAATTTAAATTTA
Found at i:27162369 original size:15 final size:15
Alignment explanation
Indices: 27162349--27162382 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
27162339 ATATGGTGCT
27162349 TACATATGAAAAGGA
1 TACATATGAAAAGGA
27162364 TACATATGAAAAGGA
1 TACATATGAAAAGGA
27162379 -ACAT
1 TACAT
27162383 GTTCATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (15 bp):
TACATATGAAAAGGA
Found at i:27169035 original size:14 final size:14
Alignment explanation
Indices: 27169013--27169047 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
27169003 ATTTTGTATA
27169013 AAATA-TTTTTTTG
1 AAATATTTTTTTTG
27169026 AAATATTTTTTTTG
1 AAATATTTTTTTTG
27169040 AAAT-TTTT
1 AAATATTTT
27169048 AGTGAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (14 bp):
AAATATTTTTTTTG
Found at i:27170544 original size:25 final size:26
Alignment explanation
Indices: 27170509--27170558 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
27170499 CACAATGATG
* *
27170509 TATATAAAGAATTTATGTAATAAATT
1 TATATAAAGAATTTATATAAAAAATT
27170535 TATA-AAAGAATTTATATAAAAAAT
1 TATATAAAGAATTTATATAAAAAAT
27170559 AAATGTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (26 bp):
TATATAAAGAATTTATATAAAAAATT
Found at i:27171837 original size:15 final size:16
Alignment explanation
Indices: 27171812--27171844 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27171802 TAAAATGTTC
*
27171812 TAAAAATTAAAAACTA
1 TAAAAATTAAAAAATA
27171828 TAAAAA-TAAAAAATA
1 TAAAAATTAAAAAATA
27171843 TA
1 TA
27171845 TATTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAATTAAAAAATA
Found at i:27172328 original size:2 final size:2
Alignment explanation
Indices: 27172323--27172361 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27172313 TTTTTACTGT
27172323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27172362 TGAATATTTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27177033 original size:3 final size:3
Alignment explanation
Indices: 27177025--27177050 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27177015 TAACAGCCGG
27177025 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
27177051 GAGAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:27177809 original size:11 final size:11
Alignment explanation
Indices: 27177767--27177814 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
27177757 TTCGCTGATG
* *
27177767 TTTTGTTGTCA
1 TTTTGTTATTA
27177778 TTTTGTTATTA
1 TTTTGTTATTA
* **
27177789 TATTACTATTA
1 TTTTGTTATTA
27177800 TTTTGTTATTA
1 TTTTGTTATTA
27177811 TTTT
1 TTTT
27177815 TTGGCTATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:27191231 original size:102 final size:103
Alignment explanation
Indices: 27191039--27191238 Score: 253
Period size: 102 Copynumber: 2.0 Consensus size: 103
27191029 GTGAATTGCT
** * * * *
27191039 GGTGGACATGGCAAAATACTTTAAATGGCTTTTGGCAAAAGCTCCTTTCTATCTATTGGCAAAAT
1 GGTGGACATGGCAAAATACTTTAAATAACTTTTGGCAAAAGCTCCTTCCAATCTACTGACAAAAT
* *
27191104 ATCCAGTGACCCTTATAGAGGGGTGTTTGATGTCCATG
66 ATCCAGTGACCCTTATAAAGAGGTGTTTGATGTCCATG
* *
27191142 GGTGGACATGG-AAAATACTTTGAATAACTTTTGG-AAAATGCTCCTTCCAATCTACTGACACAA
1 GGTGGACATGGCAAAATACTTTAAATAACTTTTGGCAAAA-GCTCCTTCCAATCTACTGACAAAA
* *
27191205 TATCTATTGATCCC-TATAAAGAGGTGTTTGATGT
65 TATCCAGTGA-CCCTTATAAAGAGGTGTTTGATGT
27191239 AAGACCTATG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
101 4 0.05
102 65 0.78
103 14 0.17
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (103 bp):
GGTGGACATGGCAAAATACTTTAAATAACTTTTGGCAAAAGCTCCTTCCAATCTACTGACAAAAT
ATCCAGTGACCCTTATAAAGAGGTGTTTGATGTCCATG
Found at i:27197117 original size:18 final size:19
Alignment explanation
Indices: 27197094--27197137 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
27197084 ATATAGTTAT
*
27197094 ATAAAAATATT-TTATAAA
1 ATAAAAATATTGTCATAAA
*
27197112 ATAAAAGTATTGTCATAAA
1 ATAAAAATATTGTCATAAA
*
27197131 ATTAAAA
1 ATAAAAA
27197138 CCAAATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAAAAATATTGTCATAAA
Found at i:27197131 original size:19 final size:18
Alignment explanation
Indices: 27197094--27197137 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
27197084 ATATAGTTAT
*
27197094 ATAAAAATATTTTATAAA
1 ATAAAAATATTTCATAAA
*
27197112 ATAAAAGTATTGTCATAAA
1 ATAAAAATATT-TCATAAA
27197131 ATTAAAA
1 A-TAAAA
27197138 CCAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAAAAATATTTCATAAA
Found at i:27204988 original size:27 final size:27
Alignment explanation
Indices: 27204952--27205009 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
27204942 TGATACACAC
27204952 AGAATTATATTGCATTTGATTTTTTAT
1 AGAATTATATTGCATTTGATTTTTTAT
27204979 AGAATTATATTGCATTTGATTTTTTAT
1 AGAATTATATTGCATTTGATTTTTTAT
27205006 AGAA
1 AGAA
27205010 CAACGATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (27 bp):
AGAATTATATTGCATTTGATTTTTTAT
Found at i:27212697 original size:24 final size:22
Alignment explanation
Indices: 27212653--27212702 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
27212643 AAAAGAAAAG
*
27212653 AAAAAACTCAAAATTTCCTTTA
1 AAAAAACTCAAAATTTACTTTA
* *
27212675 AAAAAACCTTAAAATCTTACTTTC
1 AAAAAA-CTCAAAAT-TTACTTTA
27212699 AAAA
1 AAAA
27212703 TCATCCTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 10 0.43
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAACTCAAAATTTACTTTA
Found at i:27213589 original size:2 final size:2
Alignment explanation
Indices: 27213582--27213610 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27213572 TTATTTATTG
27213582 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27213611 TAATTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27214750 original size:31 final size:31
Alignment explanation
Indices: 27214698--27214756 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
27214688 TAAAAATATA
* *
27214698 ATTTTTAAAATGTTAAATT-AAAATTTTATT
1 ATTTTTAAAAAGTCAAATTAAAAATTTTATT
27214728 ATTTTTAAGAAAGTCAAATTAAAAATTTT
1 ATTTTTAA-AAAGTCAAATTAAAAATTTT
27214757 CAAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 9 0.36
32 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTTTTAAAAAGTCAAATTAAAAATTTTATT
Found at i:27215586 original size:20 final size:20
Alignment explanation
Indices: 27215561--27215605 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
27215551 TATACTATTA
27215561 TTTTTTAT-TTCTTTACTTTT
1 TTTTTTATCTTC-TTACTTTT
* *
27215581 TTTTTTCTCTTCTTCCTTTT
1 TTTTTTATCTTCTTACTTTT
27215601 TTTTT
1 TTTTT
27215606 CTTCATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTATCTTCTTACTTTT
Found at i:27216974 original size:19 final size:18
Alignment explanation
Indices: 27216940--27216995 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 18
27216930 GTTTTTTTGG
*
27216940 TTTATAATTTT-A-TTTT
1 TTTATGATTTTAATTTTT
* * *
27216956 GTTATTATTTTCATTTTT
1 TTTATGATTTTAATTTTT
27216974 TTTCATGATTTTAATTTTT
1 TTT-ATGATTTTAATTTTT
27216993 TTT
1 TTT
27216996 TATAAATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.28
17 1 0.03
18 6 0.19
19 16 0.50
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTATGATTTTAATTTTT
Found at i:27217239 original size:10 final size:11
Alignment explanation
Indices: 27217207--27217241 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
27217197 CGGCCCACCC
27217207 ATATTAATTTTT
1 ATATT-ATTTTT
27217219 ATATTATTTTT
1 ATATTATTTTT
27217230 ATATTATTTTT
1 ATATTATTTTT
27217241 A
1 A
27217242 AATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:27217393 original size:30 final size:30
Alignment explanation
Indices: 27217357--27217421 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
27217347 GTAACTTAAC
* *
27217357 AACAAATGCCTCTAAAATAGTAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
27217387 AACAAATGCATCTAAAATAATAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
27217417 AACAA
1 AACAA
27217422 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAAATGCATCTAAAATAATAACAAAATT
Found at i:27218905 original size:23 final size:22
Alignment explanation
Indices: 27218838--27218906 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 22
27218828 AGTCCGATCC
*
27218838 ATATA-AAAAATATAAAAATAA
1 ATATACAAAAATATTAAAATAA
* * * * *
27218859 ATTTTACAAATATAATACATTAA
1 A-TATACAAAAATATTAAAATAA
27218882 ATATACTAAAAATATTAAAATAA
1 ATATAC-AAAAATATTAAAATAA
27218905 AT
1 AT
27218907 GTTTCACAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
21 1 0.03
22 7 0.21
23 26 0.76
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATACAAAAATATTAAAATAA
Found at i:27240707 original size:80 final size:80
Alignment explanation
Indices: 27240615--27240774 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
27240605 ATCCGGAAGA
*
27240615 ACTAATGCTTATCAACAAGAAAAAGCATTTGCCAGGTGTTTCACTCCAACAACATGAAGTGATAG
1 ACTAATGCTTATCAACAAGAAAAAGCATTTACCAGGTGTTTCACTCCAACAACATGAAGTGATAG
*
27240680 CATCCTTATCTGATG
66 AATCCTTATCTGATG
*
27240695 ACTAATGCTTATCAACAAGGAAAAGCATTTACCAGGTGTTTCACTCCAACAACATGAAGTGATAG
1 ACTAATGCTTATCAACAAGAAAAAGCATTTACCAGGTGTTTCACTCCAACAACATGAAGTGATAG
27240760 AATCCTTATCTGATG
66 AATCCTTATCTGATG
27240775 GCATCTGGAC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (80 bp):
ACTAATGCTTATCAACAAGAAAAAGCATTTACCAGGTGTTTCACTCCAACAACATGAAGTGATAG
AATCCTTATCTGATG
Found at i:27241179 original size:5 final size:6
Alignment explanation
Indices: 27241164--27241188 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27241154 CTAGTAAAGC
27241164 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
27241189 AAAATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:27247259 original size:22 final size:20
Alignment explanation
Indices: 27247224--27247265 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
27247214 CCGTTGTTGA
*
27247224 GAAATTGATGAATTAGACTT
1 GAAATTGATGAATTAAACTT
27247244 GAAATTGATAGAAATTAAACTT
1 GAAATTGAT-G-AATTAAACTT
27247266 AGATCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
GAAATTGATGAATTAAACTT
Found at i:27253776 original size:34 final size:34
Alignment explanation
Indices: 27253733--27253798 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 34
27253723 TTGGTAGGTG
27253733 TCTATTATTGT-AATTGGAGTTATTACTTGGCATT
1 TCTATTATTGTCAA-TGGAGTTATTACTTGGCATT
27253767 TCTATTATTGTCAATGGAGTTATTACTTGGCA
1 TCTATTATTGTCAATGGAGTTATTACTTGGCA
27253799 GTAAATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (34 bp):
TCTATTATTGTCAATGGAGTTATTACTTGGCATT
Found at i:27279521 original size:22 final size:23
Alignment explanation
Indices: 27279495--27279537 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27279485 ACCTAAATTT
*
27279495 TTAAATT-TGAAAAGTAAAAAGA
1 TTAAATTCTGAAAAATAAAAAGA
*
27279517 TTAAATTCTTAAAAATAAAAA
1 TTAAATTCTGAAAAATAAAAA
27279538 CATAGAGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
TTAAATTCTGAAAAATAAAAAGA
Found at i:27280357 original size:17 final size:16
Alignment explanation
Indices: 27280303--27280355 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
27280293 CCACGTGAGA
27280303 TTTT-ATTTGTACCTCT
1 TTTTCATTT-TACCTCT
* **
27280319 TTTTCTTTTTATTTCCT
1 TTTTCATTTTACCT-CT
27280336 TTTTCATTTTACCTCT
1 TTTTCATTTTACCTCT
27280352 TTTT
1 TTTT
27280356 TCTGGTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTCATTTTACCTCT
Found at i:27280481 original size:18 final size:18
Alignment explanation
Indices: 27280458--27280498 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
27280448 CCGTGAAAGT
27280458 TGGTGGAGCCATATAATA
1 TGGTGGAGCCATATAATA
27280476 TGGTGGAGCCATATAATA
1 TGGTGGAGCCATATAATA
27280494 TGGTG
1 TGGTG
27280499 TCACCAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (18 bp):
TGGTGGAGCCATATAATA
Found at i:27282387 original size:22 final size:22
Alignment explanation
Indices: 27282359--27282409 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
27282349 ATATATTTAG
*
27282359 TGAAATTATATTACATAACACT
1 TGAAATTATATGACATAACACT
27282381 TGAAATTATATGACATAACACT
1 TGAAATTATATGACATAACACT
*
27282403 TAAAATT
1 TGAAATT
27282410 GGAATGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (22 bp):
TGAAATTATATGACATAACACT
Found at i:27283976 original size:6 final size:6
Alignment explanation
Indices: 27283961--27284031 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
27283951 TCAAGTTTAT
* * * **
27283961 TTTAAA TTT-AA TTTTAA TATAAG TTTAAA TTTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
27284008 ATT--A TTCTAAA TTTAAA TTTAAA T
1 TTTAAA TT-TAAA TTTAAA TTTAAA T
27284032 GATGAAAGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 39 0.78
7 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:27283976 original size:17 final size:17
Alignment explanation
Indices: 27283933--27284028 Score: 95
Period size: 17 Copynumber: 5.6 Consensus size: 17
27283923 AAACCCATTT
27283933 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
27283951 -TCAAGTTTATTTTAAA
1 TTTAAATTTATTTTAAA
* * * *
27283967 TTTAATTTTAATATAAG
1 TTTAAATTTATTTTAAA
27283984 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
27284002 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
27284019 TTTAAATTTA
1 TTTAAATTTA
27284029 AATGATGAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
16 1 0.02
17 48 0.77
18 13 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:27283984 original size:28 final size:28
Alignment explanation
Indices: 27283932--27283987 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
27283922 TAAACCCATT
27283932 TTTTAAATTTATTTTAAGATCAAGTTTA
1 TTTTAAATTTATTTTAAGATCAAGTTTA
*
27283960 TTTTAAATTTAATTTTAATAT-AAGTTTA
1 TTTTAAATTT-ATTTTAAGATCAAGTTTA
27283988 AATTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTTAAATTTATTTTAAGATCAAGTTTA
Found at i:27283993 original size:29 final size:29
Alignment explanation
Indices: 27283933--27284029 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
27283923 AAACCCATTT
* *
27283933 TTTAAATTT-ATTTTAAGATCAAGTTT-AT
1 TTTAAATTTAATTTTAAAAT-AAGTTTAAA
*
27283961 TTTAAATTTAATTTTAATATAAGTTTAAA
1 TTTAAATTTAATTTTAAAATAAGTTTAAA
** * *
27283990 TTTATTTTTAAATTTAAAATTA-TTCTAAA
1 TTTAAATTTAATTTTAAAATAAGTT-TAAA
27284019 TTTAAATTTAA
1 TTTAAATTTAA
27284030 ATGATGAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTAAATTTAATTTTAAAATAAGTTTAAA
Found at i:27284023 original size:35 final size:34
Alignment explanation
Indices: 27283956--27284028 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
27283946 TAAGATCAAG
** *
27283956 TTTATTTTAAATTTAATTTTAATATAAGTTTAAA
1 TTTATTTTAAATTTAAAATTAATATAAATTTAAA
* *
27283990 TTTATTTTTAAATTTAAAATTATTCTAAATTTAAA
1 TTTA-TTTTAAATTTAAAATTAATATAAATTTAAA
27284025 TTTA
1 TTTA
27284029 AATGATGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTATTTTAAATTTAAAATTAATATAAATTTAAA
Found at i:27284761 original size:15 final size:15
Alignment explanation
Indices: 27284740--27284768 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27284730 TCAATTATTA
27284740 TAATATTAATAATAT
1 TAATATTAATAATAT
27284755 TAATATTAATAATA
1 TAATATTAATAATA
27284769 AAAAAGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATTAATAATAT
Found at i:27285926 original size:30 final size:29
Alignment explanation
Indices: 27285892--27285972 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 29
27285882 TTGACCCCTG
*
27285892 AACTTTTTAAAAATTACATTTTAATCCTCA
1 AACTTTTTAAAAATTACATTTT-ACCCTCA
** *
27285922 AACTTCATAAAAATTGCCATTTTACCCTCA
1 AACTTTTTAAAAATT-ACATTTTACCCTCA
* *
27285952 AA-TGTTCAAAAATTACATTTT
1 AACTTTTTAAAAATTACATTTT
27285973 TAACCTCGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 6 0.15
29 8 0.20
30 21 0.51
31 6 0.15
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (29 bp):
AACTTTTTAAAAATTACATTTTACCCTCA
Found at i:27285973 original size:29 final size:29
Alignment explanation
Indices: 27285900--27286067 Score: 92
Period size: 29 Copynumber: 5.7 Consensus size: 29
27285890 TGAACTTTTT
* * *
27285900 AAAAATTACATTTTAATCCTCAAA-CTTC
1 AAAAATTACATTTTTACCCTCAAATGTTC
*
27285928 ATAAAAATTGCCA-TTTTACCCTCAAATGTTC
1 --AAAAATT-ACATTTTTACCCTCAAATGTTC
* * *
27285959 AAAAATTACATTTTTAACCTCGAATTTTCC
1 AAAAATTACATTTTTACCCTCAAATGTT-C
* * * * * * *
27285989 AAAAGTTACCTGTTGAACCTCAAATATCC
1 AAAAATTACATTTTTACCCTCAAATGTTC
* **
27286018 AAAAACTACCGTTTTACCCTCAAA-GTGTC
1 AAAAATTACATTTTTACCCTCAAATGT-TC
*
27286047 CAAAATTACCA-TTTTACCCTC
1 AAAAATTA-CATTTTTACCCTC
27286068 GGACATCTAA
Statistics
Matches: 106, Mismatches: 26, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
28 3 0.03
29 57 0.54
30 41 0.39
31 5 0.05
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCTCAAATGTTC
Found at i:27290278 original size:29 final size:30
Alignment explanation
Indices: 27290232--27290289 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
27290222 GTAGATTTTA
* * *
27290232 AGTTATTTTCGTATTTAA-TAAAAAAAATG
1 AGTTATTTACATAATTAATTAAAAAAAATG
27290261 AGTTATTTACATAATTAATTAAAAAAAAT
1 AGTTATTTACATAATTAATTAAAAAAAAT
27290290 TACTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (30 bp):
AGTTATTTACATAATTAATTAAAAAAAATG
Found at i:27293075 original size:90 final size:89
Alignment explanation
Indices: 27292927--27293185 Score: 275
Period size: 90 Copynumber: 2.9 Consensus size: 89
27292917 TTAATAATTT
* ** * * * * *
27292927 GCAACTCTGGTGGTTCATCCACAGATTTTCTAGCAGCTTTTATTTGTAAATACTTTGTGCATTCA
1 GCAACACTGGTGGTTCATCCACCCATTTTCTGGCAGCTCTAATCTGT-AATACGTTGTGCATTCA
* *
27292992 CAACCATCTAGCAACGTTTTAACAA
65 CAACCATCTGGCAACGTATTAACAA
* * *
27293017 GCAACATTGGTGGTTCATCCACCCATTTTCTGGTAGCTCTAATCTGCAAGTACGTTGTGCATTCA
1 GCAACACTGGTGGTTCATCCACCCATTTTCTGGCAGCTCTAATCTGTAA-TACGTTGTGCATTCA
** **
27293082 CAACCATCTGGCAGTGTATTAACCT
65 CAACCATCTGGCAACGTATTAACAA
* * ** * * * *
27293107 GTAACACTGGTGGTTCCTCCACCCACATTCTGACAGCTCTCATCTGTAATATGTTGTGTATTCAC
1 GCAACACTGGTGGTTCATCCACCCATTTTCTGGCAGCTCTAATCTGTAATACGTTGTGCATTCAC
27293172 AACCATCTGGCAAC
66 AACCATCTGGCAAC
27293186 ACATTAACCT
Statistics
Matches: 138, Mismatches: 30, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
89 28 0.20
90 110 0.80
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (89 bp):
GCAACACTGGTGGTTCATCCACCCATTTTCTGGCAGCTCTAATCTGTAATACGTTGTGCATTCAC
AACCATCTGGCAACGTATTAACAA
Found at i:27294472 original size:26 final size:26
Alignment explanation
Indices: 27294410--27294462 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
27294400 TCACATGGCA
*
27294410 ATTAAATTT--ATTTAAAATAAAATT
1 ATTAAATTTAAATTAAAAATAAAATT
27294434 ATTAAATTTAAATTAAAAATAAAAATT
1 ATTAAATTTAAATTAAAAAT-AAAATT
27294461 AT
1 AT
27294463 AATATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
26 8 0.32
27 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAATTTAAATTAAAAATAAAATT
Found at i:27295465 original size:22 final size:21
Alignment explanation
Indices: 27295386--27295457 Score: 94
Period size: 20 Copynumber: 3.5 Consensus size: 21
27295376 ATTATAATGT
*
27295386 TGTTTTGG-TATTTTTTTTAC
1 TGTTTTGGTTACTTTTTTTAC
27295406 TGTTTTGGTTACTATTTTTTAC
1 TGTTTTGGTTACT-TTTTTTAC
*
27295428 TGTTTTAG-TACTTTTTTTAC
1 TGTTTTGGTTACTTTTTTTAC
*
27295448 TATTTTGGTT
1 TGTTTTGGTT
27295458 GCTGTTTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 22 0.49
21 8 0.18
22 15 0.33
ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67
Consensus pattern (21 bp):
TGTTTTGGTTACTTTTTTTAC
Found at i:27295499 original size:19 final size:21
Alignment explanation
Indices: 27295459--27295503 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
27295449 ATTTTGGTTG
*
27295459 CTGTTTTGGTGCTATTTTTTA
1 CTGTTTTGGTGCTATGTTTTA
27295480 CTGTTTTGGTG-T-TGTTTTA
1 CTGTTTTGGTGCTATGTTTTA
27295499 CTGTT
1 CTGTT
27295504 ATTTTTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 1 0.04
21 11 0.48
ACGTcount: A:0.07, C:0.09, G:0.22, T:0.62
Consensus pattern (21 bp):
CTGTTTTGGTGCTATGTTTTA
Found at i:27295563 original size:44 final size:44
Alignment explanation
Indices: 27295489--27295580 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
27295479 ACTGTTTTGG
* * *
27295489 TGTTGTTTTACTGTTATTTTTGTTAATGTTTTTGTTGTTTTTAT
1 TGTTGTTTTACTGTTATTTTTGCTAATGTTTTAGTTATTTTTAT
* ** *
27295533 TGTTGTTTTGCTGTTATTTTTGCTGCTGTTTTAGTTATTTTTGT
1 TGTTGTTTTACTGTTATTTTTGCTAATGTTTTAGTTATTTTTAT
27295577 TGTT
1 TGTT
27295581 TGGATATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.09, C:0.04, G:0.18, T:0.68
Consensus pattern (44 bp):
TGTTGTTTTACTGTTATTTTTGCTAATGTTTTAGTTATTTTTAT
Found at i:27297599 original size:17 final size:18
Alignment explanation
Indices: 27297574--27297615 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
27297564 TTTGTATACA
*
27297574 TTATATATTTTTTGAAT-T
1 TTAT-TATTTTTTAAATGT
27297592 TTATTATTTTTTAAATGT
1 TTATTATTTTTTAAATGT
27297610 TTATTA
1 TTATTA
27297616 ATTAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTATTATTTTTTAAATGT
Found at i:27297926 original size:30 final size:30
Alignment explanation
Indices: 27297891--27297959 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
27297881 TAATTTAATT
27297891 ATCAATTAAACCCTTAAAAAATTAA-AAAAA
1 ATCAATTAAACCCTTAAAAAA-TAATAAAAA
**
27297921 ATCAATTAAACCCTTGTAAAATAATAAAAA
1 ATCAATTAAACCCTTAAAAAATAATAAAAA
27297951 ATCAATTAA
1 ATCAATTAA
27297960 GCTTTCCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.59, C:0.13, G:0.01, T:0.26
Consensus pattern (30 bp):
ATCAATTAAACCCTTAAAAAATAATAAAAA
Found at i:27299861 original size:23 final size:23
Alignment explanation
Indices: 27299834--27299895 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
27299824 TATTTAAAAA
* *
27299834 TAAAATCAAAATTAGAAGGA-AAT
1 TAAAAT-AAAAATAAAAGGAGAAT
27299857 TAAAATAAAAATAAAAGGAGAAT
1 TAAAATAAAAATAAAAGGAGAAT
27299880 TATAAA-AATAAATAAA
1 TA-AAATAA-AAATAAA
27299896 TAATGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 11 0.32
23 13 0.38
24 10 0.29
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.21
Consensus pattern (23 bp):
TAAAATAAAAATAAAAGGAGAAT
Found at i:27305856 original size:29 final size:29
Alignment explanation
Indices: 27305814--27305871 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
27305804 CTCACTACTG
27305814 CACCTTTTTATGAATATGTCATGCTTTGA
1 CACCTTTTTATGAATATGTCATGCTTTGA
* *
27305843 CACCTTTTTGTGAATATTTCATGCTTTGA
1 CACCTTTTTATGAATATGTCATGCTTTGA
27305872 AGAAGCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (29 bp):
CACCTTTTTATGAATATGTCATGCTTTGA
Done.