Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 40 of 208
Found at i:11013215 original size:24 final size:24
Alignment explanation
Indices: 11013182--11013229 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11013172 GTTCACAAAC
*
11013182 AAGCTCGTTTATTGGCTCGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
* *
11013206 AAGCTTGTTTATTGACTTGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
11013230 GACTCATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (24 bp):
AAGCTCGTTTATTGACTCGTTTAT
Found at i:11014632 original size:8 final size:8
Alignment explanation
Indices: 11014598--11014632 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
11014588 GTATTTAGCT
11014598 ATACAAAA
1 ATACAAAA
11014606 ATACGAAAA
1 ATAC-AAAA
*
11014615 ATAGAAAA
1 ATACAAAA
11014623 ATACAAAA
1 ATACAAAA
11014631 AT
1 AT
11014633 CGCCAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.14
Consensus pattern (8 bp):
ATACAAAA
Found at i:11023929 original size:20 final size:19
Alignment explanation
Indices: 11023901--11023944 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11023891 ATTAATTAAA
* *
11023901 AATAGAAAAGAATTTTTTTG
1 AATA-AAAAAAATTTTTTAG
*
11023921 AATAAAAAATATTTTTTAG
1 AATAAAAAAAATTTTTTAG
11023940 AATAA
1 AATAA
11023945 TACAAATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
AATAAAAAAAATTTTTTAG
Found at i:11035444 original size:60 final size:60
Alignment explanation
Indices: 11035317--11035452 Score: 139
Period size: 60 Copynumber: 2.3 Consensus size: 60
11035307 CACTATTCAT
* * * * *
11035317 CCCATTATTCTGTCCACTAGCAGACCTAATAAACTGACCTGCACTCGACCCAAAATACTG
1 CCCACTATTCTGCCCACTAGCAGACCCAATAAACTAACCTGCACTCGACCCAAAATAATG
* * ** **
11035377 CCCACTATTCTGCCCACTAGCAGGCCCAA-AAGACTAACCTGCATTCGGTCCAAGGTAATG
1 CCCACTATTCTGCCCACTAGCAGACCCAATAA-ACTAACCTGCACTCGACCCAAAATAATG
* *
11035437 CCTACTATTATGCCCA
1 CCCACTATTCTGCCCA
11035453 AGAGACTGGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 2 0.03
60 60 0.97
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (60 bp):
CCCACTATTCTGCCCACTAGCAGACCCAATAAACTAACCTGCACTCGACCCAAAATAATG
Found at i:11038460 original size:25 final size:25
Alignment explanation
Indices: 11038422--11038510 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
11038412 ATTGTCCTTG
* * *
11038422 ATAGTTTATCCTGAAACTGCTATAA
1 ATAGTATATACTGAAACTACTATAA
* *
11038447 ATAGTATATACTGAGACTACTATAG
1 ATAGTATATACTGAAACTACTATAA
*
11038472 ATAG-ACTATACTGAAAATACT-TAAA
1 ATAGTA-TATACTGAAACTACTAT-AA
*
11038497 ATAGTGTATACTGA
1 ATAGTATATACTGA
11038511 GACTGTAGTA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.04
25 50 0.96
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (25 bp):
ATAGTATATACTGAAACTACTATAA
Found at i:11043323 original size:17 final size:18
Alignment explanation
Indices: 11043301--11043335 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11043291 AATTTGGTCA
11043301 TGTGGG-CCACACGGGCG
1 TGTGGGCCCACACGGGCG
11043318 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACACGGGCG
11043336 AACATCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.11, C:0.31, G:0.46, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCG
Found at i:11047049 original size:22 final size:22
Alignment explanation
Indices: 11046987--11047055 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
11046977 ATTGTTCAAA
* **
11046987 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
11047009 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
11047031 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
11047053 CAT
1 CAT
11047056 TAGTTTTGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:11052914 original size:18 final size:17
Alignment explanation
Indices: 11052888--11052935 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11052878 AAATAAAAAA
*
11052888 AATGTTTTGAAATTGAAT
1 AATGATTTGAAA-TGAAT
11052906 AATGATTTGTAAATGAAT
1 AATGATTTG-AAATGAAT
11052924 AAT-ATTTTGAAA
1 AATGA-TTTGAAA
11052936 ACGAACGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 20 0.74
19 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
AATGATTTGAAATGAAT
Found at i:11054314 original size:86 final size:86
Alignment explanation
Indices: 11054208--11054443 Score: 314
Period size: 86 Copynumber: 2.7 Consensus size: 86
11054198 GCCGCTAAAA
* * ** *
11054208 ATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATG-TTTTTAGCGGCACTTTTA
1 ATGACCTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCAGCACTTTTA
*
11054272 TAGCAAAT-TCCGCTAAAGAAC
66 TAGC-AATCACCGCTAAAGAAC
* *
11054293 ATGACCTTTTAGCGGTGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCAGCGCTTTT
1 ATGACC-TTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCAGCACTTTT
11054358 ATAGCAATCACCGCTAAAGAAC
65 ATAGCAATCACCGCTAAAGAAC
* * * * * *
11054380 ATGACCTTTAGCGGCACTTTTATAGCAATCGACACTAAAGAACATGACCTTTAGCGGCGCTTTT
1 ATGACCTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCAGCACTTTT
11054444 TCTCACAAAC
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
85 6 0.04
86 92 0.69
87 36 0.27
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (86 bp):
ATGACCTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCAGCACTTTTA
TAGCAATCACCGCTAAAGAAC
Found at i:11054375 original size:43 final size:43
Alignment explanation
Indices: 11054208--11054443 Score: 280
Period size: 43 Copynumber: 5.5 Consensus size: 43
11054198 GCCGCTAAAA
* * * *
11054208 ATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATC
1 ATGACCTTTAGCGGCGCTTTTATAGCAATCACCGCTAAAGAAC
** * *
11054251 ATG-TTTTTAGCGGCACTTTTATAGCAAAT-TCCGCTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATAGC-AATCACCGCTAAAGAAC
* * * * *
11054293 ATGACCTTTTAGCGGTGCTTTTATAACAAACGCCACTAAAGAAC
1 ATGACC-TTTAGCGGCGCTTTTATAGCAATCACCGCTAAAGAAC
*
11054337 ATGACCTTTAGCAGCGCTTTTATAGCAATCACCGCTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATAGCAATCACCGCTAAAGAAC
* *
11054380 ATGACCTTTAGCGGCACTTTTATAGCAATCGA-CACTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTTATAGCAATC-ACCGCTAAAGAAC
11054423 ATGACCTTTAGCGGCGCTTTT
1 ATGACCTTTAGCGGCGCTTTT
11054444 TCTCACAAAC
Statistics
Matches: 163, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 32 0.20
43 96 0.59
44 35 0.21
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGCTTTTATAGCAATCACCGCTAAAGAAC
Found at i:11054454 original size:130 final size:129
Alignment explanation
Indices: 11054208--11054462 Score: 345
Period size: 130 Copynumber: 2.0 Consensus size: 129
11054198 GCCGCTAAAA
* * * **
11054208 ATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGATCATGTTTTTAGCGGCACTTTTAT
1 ATGACCTTTAGCAGCGCTTTTATAACAAACACCGCTAAAGAACATGCCTTTAGCGGCACTTTTAT
* *
11054273 AGCAAATTCCGCTAAAGAACATGACCTTTTAGCGGTGCTTTTATAACAAACGCCACTAAAGAAC
66 AGCAAATTCCACTAAAGAACATGACCTTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAAC
* *
11054337 ATGACCTTTAGCAGCGCTTTTATAGCAATCACCGCTAAAGAACATGACCTTTAGCGGCACTTTTA
1 ATGACCTTTAGCAGCGCTTTTATAACAAACACCGCTAAAGAACATG-CCTTTAGCGGCACTTTTA
* * *
11054402 TAGC-AA-TCGACACTAAAGAACATGACC-TTTAGCGGCGCTTTTTCTCACAAACGCCGCTAAA
65 TAGCAAATTC--CACTAAAGAACATGACCTTTTAGCGGCGC-TTTTATAACAAACGCCACTAAA
11054463 AGTACCGTTC
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
128 2 0.02
129 53 0.48
130 55 0.50
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (129 bp):
ATGACCTTTAGCAGCGCTTTTATAACAAACACCGCTAAAGAACATGCCTTTAGCGGCACTTTTAT
AGCAAATTCCACTAAAGAACATGACCTTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAAC
Found at i:11058550 original size:12 final size:12
Alignment explanation
Indices: 11058535--11058560 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11058525 AGGATCATCC
11058535 TCTTCATCAGAT
1 TCTTCATCAGAT
11058547 TCTTCATCAGAT
1 TCTTCATCAGAT
11058559 TC
1 TC
11058561 ATCCCTCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (12 bp):
TCTTCATCAGAT
Found at i:11060295 original size:9 final size:9
Alignment explanation
Indices: 11060281--11060511 Score: 131
Period size: 9 Copynumber: 26.1 Consensus size: 9
11060271 TAAGTATAAA
11060281 TAAGTTATG
1 TAAGTTATG
11060290 TAAGTTATG
1 TAAGTTATG
* * *
11060299 ATATGATATA
1 -TAAGTTATG
*
11060309 T-ATTTATG
1 TAAGTTATG
11060317 T-A-TTATG
1 TAAGTTATG
11060324 TAAGTTATG
1 TAAGTTATG
*
11060333 TAAGTTATCA
1 TAAGTTAT-G
* * *
11060343 TATGATATA
1 TAAGTTATG
*
11060352 T-ATTTATG
1 TAAGTTATG
*
11060360 T--GTTTTG
1 TAAGTTATG
11060367 TAAGTTATG
1 TAAGTTATG
11060376 TAAGTTATG
1 TAAGTTATG
*
11060385 TGAGTTATG
1 TAAGTTATG
*
11060394 TAAGTTATCA
1 TAAGTTAT-G
* * *
11060404 TATGATATA
1 TAAGTTATG
*
11060413 T-ATTTATG
1 TAAGTTATG
*
11060421 T-A-TTTTG
1 TAAGTTATG
11060428 TAAGTTATG
1 TAAGTTATG
*
11060437 TAGGTTATG
1 TAAGTTATG
*
11060446 TGAGTTATG
1 TAAGTTATG
*
11060455 TGAGTTATG
1 TAAGTTATG
11060464 TAAGTTATG
1 TAAGTTATG
* *
11060473 ATATGATATATA
1 -TAAG-T-TATG
11060485 TAAGTTAT-
1 TAAGTTATG
11060493 TAAGTTATG
1 TAAGTTATG
*
11060502 TATGTTATG
1 TAAGTTATG
11060511 T
1 T
11060512 GGAAATTAGA
Statistics
Matches: 173, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
7 16 0.09
8 24 0.14
9 104 0.60
10 22 0.13
11 4 0.02
12 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:11060330 original size:43 final size:43
Alignment explanation
Indices: 11060281--11060384 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
11060271 TAAGTATAAA
11060281 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
* * *
11060324 TAAGTTATGTAAGTTATCATATGATATATATTTATGTGTTTTG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
11060367 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
11060385 TGAGTTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (43 bp):
TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
Found at i:11060384 original size:61 final size:61
Alignment explanation
Indices: 11060312--11060462 Score: 252
Period size: 61 Copynumber: 2.5 Consensus size: 61
11060302 TGATATATAT
* *
11060312 TTATGT-A-TTATGTAAGTTATGTAAGTTATCATATGATATATATTTATGTGTTTTGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAG
11060371 TTATGTAAGTTATGTGAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAG
* *
11060432 TTATGTAGGTTATGTGAGTTATGTGAGTTAT
1 TTATGTAAGTTATGTGAGTTATGTAAGTTAT
11060463 GTAAGTTATG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
59 6 0.07
60 1 0.01
61 79 0.92
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.50
Consensus pattern (61 bp):
TTATGTAAGTTATGTGAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAG
Found at i:11060397 original size:70 final size:68
Alignment explanation
Indices: 11060312--11060485 Score: 238
Period size: 61 Copynumber: 2.6 Consensus size: 68
11060302 TGATATATAT
*
11060312 TTATGTA-TTATGTAAGTTATGTAAGTTATCATATGATATATATTTATGTGTTTTGTAAGTTATG
1 TTATGTAGTTATGT-AGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAGTTATG
11060376 TAAG
65 TAAG
11060380 TTA--T-G---TG-AGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAGTTATGT
1 TTATGTAGTTATGTAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAGTTATGT
*
11060438 AGG
66 AAG
*
11060441 TTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 TTATGT-AGTTATGT-AGTTATGTAAGTTATCATATGATATATAT
11060486 AAGTTATTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 18
0.82 0.03 0.16
Matches are distributed among these distances:
61 55 0.59
63 3 0.03
65 1 0.01
66 1 0.01
68 5 0.05
70 28 0.30
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (68 bp):
TTATGTAGTTATGTAGTTATGTAAGTTATCATATGATATATATTTATGTATTTTGTAAGTTATGT
AAG
Found at i:11060605 original size:19 final size:20
Alignment explanation
Indices: 11060583--11060636 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
11060573 TATTTAAAAA
* *
11060583 TATAACATTTATAA-TTATG
1 TATAAAATTTAAAATTTATG
11060602 TATAAAATTTAAAATTTTATG
1 TATAAAATTTAAAA-TTTATG
*
11060623 TATAATATTTAAAA
1 TATAAAATTTAAAA
11060637 ATATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 12 0.40
21 18 0.60
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATAAAATTTAAAATTTATG
Found at i:11060623 original size:21 final size:21
Alignment explanation
Indices: 11060597--11060636 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11060587 ACATTTATAA
11060597 TTATGTATAAAATTTAAAATT
1 TTATGTATAAAATTTAAAATT
*
11060618 TTATGTATAATATTTAAAA
1 TTATGTATAAAATTTAAAA
11060637 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TTATGTATAAAATTTAAAATT
Found at i:11060690 original size:34 final size:36
Alignment explanation
Indices: 11060618--11060708 Score: 123
Period size: 34 Copynumber: 2.6 Consensus size: 36
11060608 ATTTAAAATT
* *
11060618 TTATGTATAATATTTAAAAATATTTAAAAATAAGTAA
1 TTATATATAATATTTAAAAATA-TTAAAAATAAATAA
11060655 TTATATATAATATTTAAAAATA-T-AAAATAAATAA
1 TTATATATAATATTTAAAAATATTAAAAATAAATAA
* *
11060689 TTATATTTAAAATTTAAAAA
1 TTATATATAATATTTAAAAA
11060709 GTTATTTGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 28 0.56
35 1 0.02
37 21 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (36 bp):
TTATATATAATATTTAAAAATATTAAAAATAAATAA
Found at i:11060754 original size:21 final size:21
Alignment explanation
Indices: 11060725--11060821 Score: 90
Period size: 21 Copynumber: 4.5 Consensus size: 21
11060715 TGTAATGAAT
*
11060725 TTAAAAATATAGGTTTTAATAG
1 TTAAAAATATAGGTTAT-ATAG
11060747 TT-AAAATATAGGTTATATAG
1 TTAAAAATATAGGTTATATAG
* * *
11060767 GTAATATAATACAGGTGATATA-
1 TTAA-A-AATATAGGTTATATAG
* *
11060789 TTAAAAATATAGGTTTTAATAT
1 TTAAAAATATAGGTTAT-ATAG
11060811 TTAAAAATATA
1 TTAAAAATATA
11060822 AAATAAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
20 14 0.23
21 18 0.29
22 17 0.27
23 13 0.21
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.39
Consensus pattern (21 bp):
TTAAAAATATAGGTTATATAG
Found at i:11063110 original size:29 final size:29
Alignment explanation
Indices: 11063067--11063191 Score: 109
Period size: 29 Copynumber: 4.4 Consensus size: 29
11063057 TTTTTAATAG
11063067 ATTTATAAATTTGATACATTAATATGACATT
1 ATTTAT-AA-TTGATACATTAATATGACATT
*
11063098 ATTTTTAATTGATACATTAATATGACATT
1 ATTTATAATTGATACATTAATATGACATT
* * *
11063127 ATTAAT-ATT-AT---TTAA-ATAATATT
1 ATTTATAATTGATACATTAATATGACATT
* *
11063150 ATTTAAAAATTTGATACATTAATATGATATT
1 ATTT-ATAA-TTGATACATTAATATGACATT
*
11063181 ATTTTTAATTG
1 ATTTATAATTG
11063192 TTAAAATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
23 9 0.12
24 5 0.07
25 1 0.01
26 2 0.03
27 4 0.05
28 3 0.04
29 28 0.37
30 8 0.11
31 16 0.21
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (29 bp):
ATTTATAATTGATACATTAATATGACATT
Found at i:11063146 original size:14 final size:14
Alignment explanation
Indices: 11063129--11063156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11063119 ATGACATTAT
11063129 TAATATTATTTAAA
1 TAATATTATTTAAA
11063143 TAATATTATTTAAA
1 TAATATTATTTAAA
11063157 AATTTGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:11063510 original size:7 final size:7
Alignment explanation
Indices: 11063494--11063617 Score: 63
Period size: 7 Copynumber: 17.6 Consensus size: 7
11063484 TTAAACCCAA
11063494 AAACCCT
1 AAACCCT
*
11063501 AAACCTT
1 AAACCCT
*
11063508 AAACCAT
1 AAACCCT
* *
11063515 TAACCTT
1 AAACCCT
11063522 AAAACCCT
1 -AAACCCT
*
11063530 AAATCCT
1 AAACCCT
11063537 AAACCCT
1 AAACCCT
*
11063544 AAACCAT
1 AAACCCT
* **
11063551 GCAA-TGT
1 -AAACCCT
*
11063558 AAACCTT
1 AAACCCT
* *
11063565 AAATCAT
1 AAACCCT
*
11063572 AAACACT
1 AAACCCT
11063579 AAACCCT
1 AAACCCT
*
11063586 AAACCAT
1 AAACCCT
*
11063593 AAA-CAT
1 AAACCCT
11063599 CAAACCCT
1 -AAACCCT
*
11063607 AAATCCT
1 AAACCCT
11063614 AAAC
1 AAAC
11063618 TTCTATATCT
Statistics
Matches: 87, Mismatches: 25, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
6 5 0.06
7 73 0.84
8 9 0.10
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:11063548 original size:29 final size:29
Alignment explanation
Indices: 11063493--11063617 Score: 82
Period size: 28 Copynumber: 4.4 Consensus size: 29
11063483 ATTAAACCCA
*
11063493 AAAACCCTAAACCTTAAACCATTAACCTT
1 AAAACCCTAAACCTTAAACCATAAACCTT
* *
11063522 AAAACCCTAAATCC-TAAACCCTAAACCAT
1 AAAACCCTAAA-CCTTAAACCATAAACCTT
** ** *
11063551 GCAA-TGTAAACCTTAAATCATAAACAC-T
1 AAAACCCTAAACCTTAAACCATAAAC-CTT
* *
11063579 -AAACCCTAAACCATAAA-CATCAAACCCT
1 AAAACCCTAAACCTTAAACCAT-AAACCTT
*
11063607 -AAATCCTAAAC
1 AAAACCCTAAAC
11063618 TTCTATATCT
Statistics
Matches: 76, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
27 8 0.11
28 40 0.53
29 26 0.34
30 2 0.03
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (29 bp):
AAAACCCTAAACCTTAAACCATAAACCTT
Found at i:11063581 original size:21 final size:20
Alignment explanation
Indices: 11063557--11063617 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
11063547 CCATGCAATG
*
11063557 TAAACCTTAAATCATAAACA
1 TAAACCCTAAATCATAAACA
*
11063577 CTAAACCCTAAACCATAAACA
1 -TAAACCCTAAATCATAAACA
*
11063598 TCAAACCCTAAATCCTAAAC
1 T-AAACCCTAAATCATAAAC
11063618 TTCTATATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAATCATAAACA
Found at i:11063688 original size:21 final size:21
Alignment explanation
Indices: 11063664--11063711 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
11063654 CACTAAATCA
11063664 TAAACCCCAAACTTCAAACCC
1 TAAACCCCAAACTTCAAACCC
11063685 TAAACCCCAAACTTCAAACCC
1 TAAACCCCAAACTTCAAACCC
11063706 TAAACC
1 TAAACC
11063712 TACACTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACCCCAAACTTCAAACCC
Found at i:11063741 original size:21 final size:20
Alignment explanation
Indices: 11063679--11063742 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
11063669 CCCAAACTTC
*
11063679 AAACCCTAAACCCCAAACT-T
1 AAACCCTAAA-CCAAAACTCT
* *
11063699 CAAACCCTAAACCTACACTCT
1 -AAACCCTAAACCAAAACTCT
11063720 AAACCCTAAACTCAAAACTCT
1 AAACCCTAAAC-CAAAACTCT
11063741 AA
1 AA
11063743 TCCCAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (20 bp):
AAACCCTAAACCAAAACTCT
Found at i:11068552 original size:14 final size:16
Alignment explanation
Indices: 11068533--11068565 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11068523 TTAAAAATTA
11068533 TTCCTTT-ATTTT-TT
1 TTCCTTTCATTTTCTT
11068547 TTCCTTTCATTTTCTT
1 TTCCTTTCATTTTCTT
11068563 TTC
1 TTC
11068566 ACCATCGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 5 0.29
16 5 0.29
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCCTTTCATTTTCTT
Found at i:11072633 original size:18 final size:18
Alignment explanation
Indices: 11072612--11072649 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11072602 ATTTAACAAT
11072612 AAAAA-TTAATTAAAGAAA
1 AAAAATTTAA-TAAAGAAA
*
11072630 AAAAATTTAATAAATAAA
1 AAAAATTTAATAAAGAAA
11072648 AA
1 AA
11072650 TAAACTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAATTTAATAAAGAAA
Found at i:11076079 original size:41 final size:41
Alignment explanation
Indices: 11076022--11076104 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
11076012 TGTTACTCAA
11076022 TTGGACTAATTTCGTTGTCTATGTTTGTATGAAATTTTGCC
1 TTGGACTAATTTCGTTGTCTATGTTTGTATGAAATTTTGCC
11076063 TTGGACTAATTTCGTTGTCTATGTTTGTATGAAATTTTGCC
1 TTGGACTAATTTCGTTGTCTATGTTTGTATGAAATTTTGCC
11076104 T
1 T
11076105 ACATACCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (41 bp):
TTGGACTAATTTCGTTGTCTATGTTTGTATGAAATTTTGCC
Found at i:11078215 original size:6 final size:6
Alignment explanation
Indices: 11078204--11078241 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
11078194 TTTGCAACCC
*
11078204 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
11078242 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:11078227 original size:18 final size:18
Alignment explanation
Indices: 11078204--11078239 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11078194 TTTGCAACCC
11078204 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
11078222 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
11078240 GAGAAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:11078248 original size:18 final size:18
Alignment explanation
Indices: 11078209--11078250 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11078199 AACCCAAGGG
**
11078209 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
11078227 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
11078245 GAAGGG
1 GAAGGG
11078251 TAACCAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:11078846 original size:13 final size:13
Alignment explanation
Indices: 11078828--11078852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11078818 CTGAATTAGT
11078828 TTTACTAACCACC
1 TTTACTAACCACC
11078841 TTTACTAACCAC
1 TTTACTAACCAC
11078853 TTGATCATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:11081786 original size:27 final size:27
Alignment explanation
Indices: 11081750--11081802 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
11081740 CAATGTCGCA
11081750 TTACAGTAGAAGAATCAGAAGAAACAT
1 TTACAGTAGAAGAATCAGAAGAAACAT
* * *
11081777 TTACATTAGAGGAATTAGAAGAAACA
1 TTACAGTAGAAGAATCAGAAGAAACA
11081803 CCATTAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (27 bp):
TTACAGTAGAAGAATCAGAAGAAACAT
Found at i:11088736 original size:13 final size:13
Alignment explanation
Indices: 11088718--11088744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11088708 TTGAAGTAGA
11088718 TTTACTAACCACC
1 TTTACTAACCACC
11088731 TTTACTAACCACC
1 TTTACTAACCACC
11088744 T
1 T
11088745 GATCATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:11090411 original size:30 final size:30
Alignment explanation
Indices: 11090370--11090439 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
11090360 GAAAAAATTT
*
11090370 GGTTAACCGACCGAATTCGGTTAATCGGTC
1 GGTTAACCGACCGAATTCGGTTAATCAGTC
*
11090400 GGTTAATCGACCGAATTCGGTTAATCAGTC
1 GGTTAACCGACCGAATTCGGTTAATCAGTC
11090430 GGTTAACCGA
1 GGTTAACCGA
11090440 ATATTTTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (30 bp):
GGTTAACCGACCGAATTCGGTTAATCAGTC
Found at i:11090421 original size:18 final size:18
Alignment explanation
Indices: 11090365--11090425 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
11090355 AAACCGAAAA
* *
11090365 AATTTGGTTAACCGACCG
1 AATTCGGTTAATCGACCG
11090383 AATTCGGTTAATCG---G
1 AATTCGGTTAATCGACCG
11090398 ---TCGGTTAATCGACCG
1 AATTCGGTTAATCGACCG
11090413 AATTCGGTTAATC
1 AATTCGGTTAATC
11090426 AGTCGGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
12 11 0.31
15 2 0.06
18 22 0.63
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (18 bp):
AATTCGGTTAATCGACCG
Found at i:11090653 original size:7 final size:7
Alignment explanation
Indices: 11090641--11090685 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
11090631 CCAAGAACAA
11090641 TTCATGT
1 TTCATGT
11090648 TTCATGTT
1 TTCATG-T
11090656 TTCATGT
1 TTCATGT
**
11090663 TTCATAC
1 TTCATGT
*
11090670 TGCATGT
1 TTCATGT
11090677 TTCATGT
1 TTCATGT
11090684 TT
1 TT
11090686 TCTTCTGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.56
Consensus pattern (7 bp):
TTCATGT
Found at i:11090986 original size:37 final size:37
Alignment explanation
Indices: 11090936--11091046 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
11090926 TTTATGTGTT
11090936 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
* *
11090973 AAAGACTTATGTAATGTTTTTAGTTATGTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
*
11091010 AAAGACTTATGTAATTTTTTTTAATTATATAGTGATT
1 AAAGACTTATGTAA-TGTTTTTAATTATATAGTGATT
11091047 TAAATCGGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 49 0.72
38 19 0.28
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (37 bp):
AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
Found at i:11091021 original size:20 final size:20
Alignment explanation
Indices: 11090959--11091022 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
11090949 ATGTTTTTAA
*
11090959 TTATATAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
11090979 TTATGTAATG-TTTTTAG--
1 TTATGTAGTGATTCAAAGAC
11090996 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
11091016 TTATGTA
1 TTATGTA
11091023 ATTTTTTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 9 0.28
18 4 0.12
19 4 0.12
20 15 0.47
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:11091065 original size:9 final size:9
Alignment explanation
Indices: 11091046--11091147 Score: 125
Period size: 9 Copynumber: 11.4 Consensus size: 9
11091036 ATATAGTGAT
11091046 TTAAATCGG
1 TTAAATCGG
* *
11091055 TTAAGTTGG
1 TTAAATCGG
11091064 TTAAATCGG
1 TTAAATCGG
*
11091073 TTAAATCGA
1 TTAAATCGG
*
11091082 TTAAGTCGG
1 TTAAATCGG
*
11091091 TTAAATCGA
1 TTAAATCGG
*
11091100 TTAAGTCGG
1 TTAAATCGG
11091109 TTAAATCGG
1 TTAAATCGG
11091118 TT-AATCGG
1 TTAAATCGG
*
11091126 TTAAATTGG
1 TTAAATCGG
*
11091135 TTAAATTGG
1 TTAAATCGG
11091144 TTAA
1 TTAA
11091148 TTTTTAACCA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
8 8 0.10
9 71 0.90
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (9 bp):
TTAAATCGG
Found at i:11097676 original size:19 final size:18
Alignment explanation
Indices: 11097652--11097706 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
11097642 TCATATGCCA
11097652 CACAGCCTGTACACACGCC
1 CACAGCCTG-ACACACGCC
*
11097671 CACAGCCTGAACACATGCC
1 CACAGCCTG-ACACACGCC
*
11097690 CACGGCCTAGACACACG
1 CACAGCCT-GACACACG
11097707 TACATGTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.29, C:0.44, G:0.18, T:0.09
Consensus pattern (18 bp):
CACAGCCTGACACACGCC
Found at i:11097859 original size:62 final size:62
Alignment explanation
Indices: 11097771--11097892 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
11097761 ACCTATGTGA
* * ** * *
11097771 TTCTAAATCATAAAGAGTGAGTTACACGGCCTGGGCACATGCCCATGTCCCTGGCCGTGTTG
1 TTCTAAAGCATAAACAGTGAGTTACACGGCCTGAACACACGCCCATGTCCCTGCCCGTGTTG
* * *
11097833 TTCTAAAGCGTAAACAGTGAGTTACACGGCTTGAACACACGCCCATGTCCTTGCCCGTGT
1 TTCTAAAGCATAAACAGTGAGTTACACGGCCTGAACACACGCCCATGTCCCTGCCCGTGT
11097893 GGCTCACACA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (62 bp):
TTCTAAAGCATAAACAGTGAGTTACACGGCCTGAACACACGCCCATGTCCCTGCCCGTGTTG
Found at i:11107168 original size:37 final size:36
Alignment explanation
Indices: 11107113--11107190 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
11107103 TTAAAACTTC
* * * *
11107113 CTTAAGTGTTTTATCCAAATCTTAAGATTGCAACTCT
1 CTTAAGTGTTTTACCCAAACCTTAAGACT-CAACCCT
11107150 CTTAAG-GTTTCTACCCAAACCTTAAGACTCAACCCT
1 CTTAAGTGTTT-TACCCAAACCTTAAGACTCAACCCT
11107186 CTTAA
1 CTTAA
11107191 AGAGAATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTAAGTGTTTTACCCAAACCTTAAGACTCAACCCT
Found at i:11107566 original size:21 final size:21
Alignment explanation
Indices: 11107523--11107566 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
11107513 CATTTAATTC
*
11107523 ACTTGCAACCACGAGTATTGAT
1 ACTTGCAACCAC-AGTATCGAT
11107545 ACTTGCTAACCA-AGTATCGAT
1 ACTTGC-AACCACAGTATCGAT
11107566 A
1 A
11107567 TCTTTAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (21 bp):
ACTTGCAACCACAGTATCGAT
Found at i:11107814 original size:19 final size:18
Alignment explanation
Indices: 11107783--11107823 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
11107773 TTATAACAAT
11107783 TTTAACTTTGATTGAAAATG
1 TTTAACTTTGATT-AAAA-G
11107803 TTTAAC-TTGATTAAAAG
1 TTTAACTTTGATTAAAAG
11107820 TTTA
1 TTTA
11107824 TTCAAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 6 0.29
20 6 0.29
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAACTTTGATTAAAAG
Found at i:11110816 original size:17 final size:16
Alignment explanation
Indices: 11110789--11110842 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
11110779 GGTATATCTA
*
11110789 TTTTCCTTTTCTGTTT
1 TTTTTCTTTTCTGTTT
*
11110805 TTATTTCTTTTCTCTTT
1 TT-TTTCTTTTCTGTTT
*
11110822 ATTTTTGTTTT-TGTTT
1 -TTTTTCTTTTCTGTTT
11110838 TTTTT
1 TTTTT
11110843 TTCCAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 19 0.59
18 2 0.06
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTGTTT
Found at i:11111930 original size:18 final size:17
Alignment explanation
Indices: 11111908--11111964 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
11111898 GAATACATAC
11111908 ATATACTTTTATATTTT
1 ATATACTTTTATATTTT
* *
11111925 CATATAATTTAATATTTT
1 -ATATACTTTTATATTTT
* *
11111943 ATATA-TTTTGTAATTT
1 ATATACTTTTATATTTT
11111959 ATATAC
1 ATATAC
11111965 ACAAACTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 13 0.39
17 5 0.15
18 15 0.45
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATACTTTTATATTTT
Found at i:11112047 original size:24 final size:23
Alignment explanation
Indices: 11112006--11112085 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
11111996 ATTTTATAAG
*
11112006 TATATATTTATA--TGTACATACT
1 TATATATTTATATTTTTACATA-T
11112028 TATATATTTATATTTTTACATAT
1 TATATATTTATATTTTTACATAT
* * *
11112051 TAAAATATGTATATTTTTATATA-
1 T-ATATATTTATATTTTTACATAT
11112074 TAT-TATTT-TATT
1 TATATATTTATATT
11112086 ATAATTCACA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 4 0.08
21 4 0.08
22 13 0.27
23 3 0.06
24 25 0.51
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (23 bp):
TATATATTTATATTTTTACATAT
Found at i:11112636 original size:110 final size:109
Alignment explanation
Indices: 11112342--11112753 Score: 637
Period size: 109 Copynumber: 3.8 Consensus size: 109
11112332 AAAATTTTTC
* * * * * *
11112342 TAAAA-AAGGCAATATTTAGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA
1 TAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
** *
11112406 TTTTTCTCGTTCAACCAAATAACTTAATATTCTTTTAAAAATTT
66 TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTT
* * *
11112450 CAAAATAAGGCAATGTATTACGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
1 TAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
*
11112515 TTTTTCTCGTTCATCCAAATGGCTTAATATCCTTTTAAAAATTT
66 TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTT
*
11112559 TAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTGTCG
1 TAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG
* *
11112624 ATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAACAGTT
65 ATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTT
* *
11112669 TAAAATAAGGCAATGTTTTCCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGA
1 TAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
*
11112734 TTTTTCTCGTTTAACCAAAT
66 TTTTTCTCGTTCAACCAAAT
11112754 TGCCAAATAT
Statistics
Matches: 278, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
108 4 0.01
109 170 0.61
110 104 0.37
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
TAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA
TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTT
Found at i:11112765 original size:219 final size:217
Alignment explanation
Indices: 11112342--11112766 Score: 645
Period size: 219 Copynumber: 1.9 Consensus size: 217
11112332 AAAATTTTTC
* * *
11112342 TAAAAAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 TAAAAAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
11112407 TTTTCTCGTTCAACCAAATAACTTAATATTCTTTTAAAAATTTCAAAATAAGGCAATGTATTACG
66 TTTTCTCGTTCAACCAAATAACTTAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTATTACG
*
11112472 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCATCCAAATGG
131 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
**
11112537 CTTAATATCCTTTTAAAAATTT
196 CCAAATATCCTTTTAAAAATTT
* * * *
11112559 TAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTGTCG
1 TAAAA-AAGGCAATATTTAGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCG
** * *
11112624 ATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAACAGTTT-AAAATAAGGCAATGTTTT
64 ATTTTTCTCGTTCAACCAAATAACTTAATATCCTTTTAAA-AATTTCAAAATAAGGCAATGTATT
* * *
11112688 CCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAA
128 ACGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAA
*
11112753 TTGCCAAATATCCT
193 TGGCCAAATATCCT
11112767 CTTGAATTTT
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
217 5 0.03
218 16 0.09
219 161 0.87
220 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (217 bp):
TAAAAAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATAACTTAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTATTACG
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
CCAAATATCCTTTTAAAAATTT
Found at i:11118200 original size:24 final size:24
Alignment explanation
Indices: 11118173--11118229 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
11118163 AAAGCCTACT
11118173 CCAAGGCCTG-CAACATGTCCAGCA
1 CCAAGGCCTGCCAA-ATGTCCAGCA
* *
11118197 CCAAGGCCCGCCAAATGTCCAGTA
1 CCAAGGCCTGCCAAATGTCCAGCA
11118221 CCAAGGCCT
1 CCAAGGCCT
11118230 ACTCCAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.28, C:0.39, G:0.21, T:0.12
Consensus pattern (24 bp):
CCAAGGCCTGCCAAATGTCCAGCA
Found at i:11119957 original size:43 final size:43
Alignment explanation
Indices: 11119909--11120250 Score: 395
Period size: 43 Copynumber: 8.0 Consensus size: 43
11119899 ATGTCACTAT
* * *
11119909 AGAACATGACTTTTAGCGGCACTTTTATCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
* *
11119952 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
* * *
11119995 TGAACATGACCATTAGCGACGCTTTTATTACAAA---CGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
* * * *
11120035 TGAACATGACATTTAGCGACGC-TTTATCCACAAATGCTGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTAT-CACAAACGCCGCTAA
** * * * * *
11120078 AGAACATGATTTTTAGCAACGTTTTTATCACAAATGTCACTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
* *
11120121 AGAACATGACCTTTAGCGACACTTTTATCAAAAACGCCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
*
11120164 AGAACATGACCTTTAGCGACGCTTTTATCACAAACACCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
* * * * * *
11120207 AAAATATGACATTTAGCGTCACTTTTATCACAAACGCCACTAA
1 AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
11120250 A
1 A
11120251 AGTAGTTCTT
Statistics
Matches: 256, Mismatches: 38, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
39 5 0.02
40 31 0.12
43 215 0.84
44 5 0.02
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAA
Found at i:11120137 original size:126 final size:127
Alignment explanation
Indices: 11119909--11120250 Score: 382
Period size: 126 Copynumber: 2.7 Consensus size: 127
11119899 ATGTCACTAT
* * * **
11119909 AGAACATGACTTTTAGCGGCACTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 AGAACATGACATTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCAACGC
* * * * *
11119974 TTTTATCACAAACACCGCTAATGAACATGACCATTAGCGACGCTTTTATTACAAA-CGCTAA
66 TTTTATCACAAACACCACTAAAGAACATGACCATTAGCGACACTTTTATCAAAAACCGCTAA
* * * **
11120035 TGAACATGACATTTAGCGACGC-TTTATCCACAAATGCTGCTAAAGAACATGATTTTTAGCAACG
1 AGAACATGACATTTAGCGACGCTTTTAT-CACAAACGCCGCTAAAGAACATGACCTTTAGCAACG
* *** *
11120099 TTTTTATCACAAATGTCACTAAAGAACATGACCTTTAGCGACACTTTTATCAAAAACGCCGCTAA
65 CTTTTATCACAAACACCACTAAAGAACATGACCATTAGCGACACTTTTATCAAAAA--CCGCTAA
* * * * * ** *
11120164 AGAACATGACCTTTAGCGACGCTTTTATCACAAACACCGCTAAAAAATATGACATTTAGCGTCAC
1 AGAACATGACATTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCAACGC
*
11120229 TTTTATCACAAACGCCACTAAA
66 TTTTATCACAAACACCACTAAA
11120251 AGTAGTTCTT
Statistics
Matches: 176, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
125 5 0.03
126 94 0.53
129 72 0.41
130 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (127 bp):
AGAACATGACATTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCAACGC
TTTTATCACAAACACCACTAAAGAACATGACCATTAGCGACACTTTTATCAAAAACCGCTAA
Found at i:11122693 original size:23 final size:23
Alignment explanation
Indices: 11122663--11122707 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11122653 GAAATGGTTT
11122663 GGAAAAAATAAAGGGAATTGGGA
1 GGAAAAAATAAAGGGAATTGGGA
11122686 GGAAAAAATAAAGGGAATTGGG
1 GGAAAAAATAAAGGGAATTGGG
11122708 GTAAGGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.36, T:0.13
Consensus pattern (23 bp):
GGAAAAAATAAAGGGAATTGGGA
Found at i:11123116 original size:19 final size:20
Alignment explanation
Indices: 11123072--11123121 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
11123062 TAAAATTATA
11123072 ATTTTTAGTTTTTGTATTTCT
1 ATTTTTA-TTTTTGTATTTCT
*
11123093 TTTTTTATTTTTGTATTT-T
1 ATTTTTATTTTTGTATTTCT
11123112 ATTTTTATTT
1 ATTTTTATTT
11123122 GTTATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 11 0.41
21 6 0.22
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (20 bp):
ATTTTTATTTTTGTATTTCT
Found at i:11123537 original size:14 final size:14
Alignment explanation
Indices: 11123520--11123559 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11123510 ATAAAATATA
11123520 AACCCTAAACCCCT
1 AACCCTAAACCCCT
* *
11123534 AACCTTTAACCCCT
1 AACCCTAAACCCCT
11123548 AACCCTTAAACC
1 AACCC-TAAACC
11123560 TAGAGGTGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCTAAACCCCT
Found at i:11123725 original size:22 final size:21
Alignment explanation
Indices: 11123707--11123759 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
11123697 ACCAAAAATT
*
11123707 TATTTTAAAAAAATAAAAAAA
1 TATTTTAAAAAAATATAAAAA
*
11123728 GTATTTTAAAAAATTATAAAAA
1 -TATTTTAAAAAAATATAAAAA
11123750 TATTTTAAAA
1 TATTTTAAAA
11123760 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TATTTTAAAAAAATATAAAAA
Found at i:11123738 original size:21 final size:20
Alignment explanation
Indices: 11123707--11123777 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
11123697 ACCAAAAATT
11123707 TATTTTAAAAAAATAAAAAAA
1 TATTTT-AAAAAATAAAAAAA
*
11123728 GTATTTTAAAAAATTATAAAAA
1 -TATTTTAAAAAA-TAAAAAAA
*
11123750 TATTTT-AAAATTAAAAAATA
1 TATTTTAAAAAATAAAAAA-A
11123770 TATATTTA
1 TAT-TTTA
11123778 TTATATATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.14
20 8 0.19
21 15 0.36
22 13 0.31
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
TATTTTAAAAAATAAAAAAA
Found at i:11128161 original size:2 final size:2
Alignment explanation
Indices: 11128154--11128196 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11128144 AATAGATCCC
11128154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11128196 T
1 T
11128197 TGTTTGTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11128203 original size:4 final size:4
Alignment explanation
Indices: 11128196--11128220 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11128186 TATATATATA
11128196 TTGT TTGT TTGT TTGT TTGT TTGT T
1 TTGT TTGT TTGT TTGT TTGT TTGT T
11128221 ATTGATGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTGT
Found at i:11132314 original size:21 final size:20
Alignment explanation
Indices: 11132289--11132337 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
11132279 CAGTTTTTAG
*
11132289 TTTTTAGTTTTTGTATTTCTT
1 TTTTTA-TTTTTGTATTTCAT
11132310 TTTTTATTTTTGTATTTCA-
1 TTTTTATTTTTGTATTTCAT
11132329 TTTTTATTT
1 TTTTTATTT
11132338 GTTATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.33
20 12 0.44
21 6 0.22
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTTGTATTTCAT
Found at i:11132761 original size:14 final size:15
Alignment explanation
Indices: 11132732--11132780 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
11132722 TCATAAAATA
**
11132732 TAAACCCTAAACCCC
1 TAAACCCTTGACCCC
11132747 TAAACCCTTGA-CCC
1 TAAACCCTTGACCCC
*
11132761 TTAACCCTTGACCCC
1 TAAACCCTTGACCCC
11132776 TAAAC
1 TAAAC
11132781 ATTAAACCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.33, C:0.43, G:0.04, T:0.20
Consensus pattern (15 bp):
TAAACCCTTGACCCC
Found at i:11132807 original size:28 final size:28
Alignment explanation
Indices: 11132776--11132830 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
11132766 CCTTGACCCC
* * *
11132776 TAAACATTAAACCTTAATCCTTAAACCA
1 TAAACAATAAACCATAATCCCTAAACCA
*
11132804 TAAACAATAAATCATAATCCCTAAACC
1 TAAACAATAAACCATAATCCCTAAACC
11132831 TAGCCATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACAATAAACCATAATCCCTAAACCA
Found at i:11133350 original size:40 final size:40
Alignment explanation
Indices: 11133224--11133350 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 40
11133214 TTTTTTGTGC
* * * * *
11133224 CATTTTTGACAAAGCGCCGCTAATGCTCGATCTATAGTGG
1 CATTTTTCAAAAAGCGCCGCTAATGCTCGATTTATAGCGA
* * * *
11133264 CGTTTTTCAGATAGCGCCGCTAATGCTCAATTTATAGCGA
1 CATTTTTCAAAAAGCGCCGCTAATGCTCGATTTATAGCGA
* * *
11133304 CATTTTTCAAAAAGCGCCGCTAATACTCGATTTTTAGCAA
1 CATTTTTCAAAAAGCGCCGCTAATGCTCGATTTATAGCGA
*
11133344 CTTTTTT
1 CATTTTT
11133351 ATCCAAGTGC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (40 bp):
CATTTTTCAAAAAGCGCCGCTAATGCTCGATTTATAGCGA
Found at i:11133569 original size:2 final size:2
Alignment explanation
Indices: 11133562--11133589 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11133552 TTCACATTCA
11133562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11133590 TTTTTAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11139137 original size:18 final size:17
Alignment explanation
Indices: 11139114--11139183 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
11139104 CAATTATGTT
11139114 TGAGCTCACAACTTTGAA
1 TGAGCTCACAACTTTG-A
* **
11139132 TGAGCTCGCAGTTTTCGA
1 TGAGCTCACAACTTT-GA
* *
11139150 TGAGCTCGCAAATTTGGA
1 TGAGCTCACAACTTT-GA
*
11139168 TAAGCTCACAACTTTG
1 TGAGCTCACAACTTTG
11139184 CGACCTAAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
17 1 0.02
18 40 0.95
19 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (17 bp):
TGAGCTCACAACTTTGA
Found at i:11139174 original size:54 final size:54
Alignment explanation
Indices: 11139076--11139183 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
11139066 TTGCATGTTT
* ** *
11139076 AATGAGCTCGCAGCTTTCGATGAACTTGCAATTATGTTTGAGCTCACAACTTTG
1 AATGAGCTCGCAGCTTTCGATGAACTCGCAATTATGGATAAGCTCACAACTTTG
* *
11139130 AATGAGCTCGCAGTTTTCGATGAGCTCGCAAATT-TGGATAAGCTCACAACTTTG
1 AATGAGCTCGCAGCTTTCGATGAACTCGC-AATTATGGATAAGCTCACAACTTTG
11139184 CGACCTAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 43 0.91
55 4 0.09
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (54 bp):
AATGAGCTCGCAGCTTTCGATGAACTCGCAATTATGGATAAGCTCACAACTTTG
Found at i:11146784 original size:31 final size:30
Alignment explanation
Indices: 11146749--11146819 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
11146739 TTTATATATT
*
11146749 TCAAGTTTAGGGACCAAAATGAACTTAATTG
1 TCAAGTTTAGGG-CCAAAATGAACCTAATTG
* *
11146780 TCAAGTTCAAGGGCCAAAGTGAACCTAATTG
1 TCAAGTT-TAGGGCCAAAATGAACCTAATTG
*
11146811 TCAAATTTA
1 TCAAGTTTA
11146820 AGTATCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.03
31 29 0.85
32 4 0.12
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (30 bp):
TCAAGTTTAGGGCCAAAATGAACCTAATTG
Found at i:11146945 original size:23 final size:20
Alignment explanation
Indices: 11146917--11146978 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
11146907 TACATCACCT
*
11146917 AAAAAATTATAATTTTTATA
1 AAAAAAATATAATTTTTATA
*
11146937 AAAGTAAAA-ATGTATTTTATATA
1 AAA--AAAATAT-AATTTT-TATA
11146960 AAAAAAATATAAGTTTTTA
1 AAAAAAATATAA-TTTTTA
11146979 ATTTCCAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 3 0.09
21 9 0.27
22 14 0.42
23 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAAAAATATAATTTTTATA
Found at i:11147735 original size:22 final size:22
Alignment explanation
Indices: 11147707--11147756 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11147697 TGATTTATAA
11147707 ATTTTTT-TAATAATTTT-ATATT
1 ATTTTTTGT-ATAATTTTAAT-TT
*
11147729 ATTTTTTGTATTATTTTAATTT
1 ATTTTTTGTATAATTTTAATTT
11147751 ATTTTT
1 ATTTTT
11147757 AAATCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTTTTGTATAATTTTAATTT
Found at i:11147776 original size:21 final size:21
Alignment explanation
Indices: 11147706--11147776 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
11147696 GTGATTTATA
*
11147706 AATTTTTTTAATAATTTTATAT
1 AATTTTTTAAATAATTTTA-AT
* ** *
11147728 TATTTTTTGTATTATTTTAAT
1 AATTTTTTAAATAATTTTAAT
* *
11147749 -TTATTTTTAAATCATTTTAAT
1 AAT-TTTTTAAATAATTTTAAT
11147770 AATTTTT
1 AATTTTT
11147777 GGGTTTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.55
22 16 0.42
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (21 bp):
AATTTTTTAAATAATTTTAAT
Found at i:11148025 original size:17 final size:17
Alignment explanation
Indices: 11148003--11148036 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11147993 TATGGAAACA
* *
11148003 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
11148020 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
11148037 ATTTTGTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:11148060 original size:22 final size:22
Alignment explanation
Indices: 11148018--11148066 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
11148008 TTCGAGGATA
11148018 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATGA-TT
*
11148041 TGTAATCTTAG-AGATTTGATT
1 TGTAATCTTAGAAGATATGATT
11148062 TGTAA
1 TGTAA
11148067 ATACCCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 7 0.28
22 7 0.28
23 11 0.44
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (22 bp):
TGTAATCTTAGAAGATATGATT
Found at i:11156489 original size:20 final size:20
Alignment explanation
Indices: 11156464--11156504 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11156454 CACATGGTAG
*
11156464 TGTGTTTGAAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
* *
11156484 TGTGTTGGGAAATCGTAACT
1 TGTGTTGGAAAACCGTAACT
11156504 T
1 T
11156505 TGCTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAACT
Found at i:11159160 original size:26 final size:26
Alignment explanation
Indices: 11159131--11159180 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11159121 TTTTCAAATA
*
11159131 TTTTTTTT-ACTTTTTTTTACTTTTC
1 TTTTTTTTCAATTTTTTTTACTTTTC
*
11159156 TTTTTTTTCAATTTTTTTTATTTTT
1 TTTTTTTTCAATTTTTTTTACTTTT
11159181 TCAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTTCAATTTTTTTTACTTTTC
Found at i:11161080 original size:43 final size:43
Alignment explanation
Indices: 11160922--11161079 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 43
11160912 ATCATATATG
*
11160922 ATGCCAATGTCCCAGACATGGTCTTACACATTTTCTTACTTCA
1 ATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTTCA
* * *
11160965 ATGCCAATGTCTCAAACATGGTCATACACATTTTCTCACTTCA
1 ATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTTCA
* * **
11161008 ATGCCAATGTCCCAGGCATGGTCTTACACGTTTTCTCACTTTG
1 ATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTTCA
11161051 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
11161080 GAAATCACAC
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTTCA
Found at i:11161246 original size:34 final size:33
Alignment explanation
Indices: 11161203--11161299 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 33
11161193 ATCTAATGCT
*
11161203 CAAATCAATTCGGCAATATATATGTATACATATA
1 CAAATCAATT-GGCAATATATATATATACATATA
* * *
11161237 CAAATCAATTTG-AA-A-ATGTATATCCATATA
1 CAAATCAATTGGCAATATATATATATACATATA
11161267 CAAATCAATTTGGCAATATATA-A-A-ACATATA
1 CAAATCAA-TTGGCAATATATATATATACATATA
11161298 CA
1 CA
11161300 TTTGAATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
30 20 0.38
31 12 0.23
32 5 0.10
33 3 0.06
34 12 0.23
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.31
Consensus pattern (33 bp):
CAAATCAATTGGCAATATATATATATACATATA
Found at i:11165873 original size:26 final size:26
Alignment explanation
Indices: 11165844--11165906 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
11165834 CAAACAAACG
* * * *
11165844 AAAAATTAGAATATAAAAATTAAATT
1 AAAAATAAAAATATAAAAATAAAAAT
* *
11165870 AAAAACAAAAATATTAAAATAAAAAT
1 AAAAATAAAAATATAAAAATAAAAAT
11165896 AAAAATAAAAA
1 AAAAATAAAAA
11165907 ATGACTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (26 bp):
AAAAATAAAAATATAAAAATAAAAAT
Found at i:11165887 original size:20 final size:20
Alignment explanation
Indices: 11165858--11165902 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11165848 ATTAGAATAT
*
11165858 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAAATAAAAACA
*
11165877 AAAATATTAAAATAAAAATA
1 AAAATATTAAAATAAAAACA
11165897 AAAATA
1 AAAATA
11165903 AAAAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATTAAAATAAAAACA
Found at i:11165892 original size:32 final size:33
Alignment explanation
Indices: 11165839--11165906 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
11165829 AGAATCAAAC
* * *
11165839 AAACGAAAAATTAGAATATAAAAATTAAATTAA
1 AAACAAAAAATTAGAATATAAAAATAAAAATAA
11165872 AAACAAAAATATTA-AA-ATAAAAATAAAAATAA
1 AAACAAAAA-ATTAGAATATAAAAATAAAAATAA
11165904 AAA
1 AAA
11165907 ATGACTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 17 0.55
33 10 0.32
34 4 0.13
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (33 bp):
AAACAAAAAATTAGAATATAAAAATAAAAATAA
Found at i:11165908 original size:7 final size:6
Alignment explanation
Indices: 11165856--11165906 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
11165846 AAATTAGAAT
* * *
11165856 ATAAAA ATTAAA TTAAAA ACAAAA ATATTAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA--AAA ATAAAA ATAAAA ATAAAA
11165906 A
1 A
11165907 ATGACTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 31 0.84
8 6 0.16
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:11168567 original size:90 final size:89
Alignment explanation
Indices: 11168384--11168572 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 89
11168374 AGGTATAGGG
** *
11168384 TATATATAATAATTGTTGGTTTCACCAGCCAGTGCTGGGCACATACATATATATAATATTTGTCA
1 TATATATAATAATTGACGGTTTCACCAGCCAGTGCTAGGCACA-ACATATATATAATATTTGTCA
* *
11168449 GTTTCACTGACTAGTGTCGGGCACA
65 GTTTCACTGACCAGTGTCGGACACA
*
11168474 TATATATAATAATTGACGGTTTTACC-GACCAGTGCTAGGCAC-A-A-ATATATAATATTTGT-A
1 TATATATAATAATTGACGGTTTCACCAG-CCAGTGCTAGGCACAACATATATATAATATTTGTCA
* *
11168534 GGTTTCATTGACCAGTG-CTGAGCACACG
65 -GTTTCACTGACCAGTGTC-G-G-ACACA
11168562 TATATATAATA
1 TATATATAATA
11168573 TTTGTTGGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
85 2 0.02
86 30 0.35
87 2 0.02
88 15 0.17
89 1 0.01
90 36 0.42
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (89 bp):
TATATATAATAATTGACGGTTTCACCAGCCAGTGCTAGGCACAACATATATATAATATTTGTCAG
TTTCACTGACCAGTGTCGGACACA
Found at i:11168583 original size:45 final size:43
Alignment explanation
Indices: 11168384--11168593 Score: 174
Period size: 43 Copynumber: 4.7 Consensus size: 43
11168374 AGGTATAGGG
* * *
11168384 TATATATAATAATTGTTGGTTTCACC-AGCCAGTGCTGGGCACATACA
1 TATATATAATATTTGTCGGTTTCACCGA-CCAGTGCTGAG--C--ACA
* * * *
11168431 TATATATAATATTTGTCAGTTTCACTGACTAGTG-TCGGGCACA
1 TATATATAATATTTGTCGGTTTCACCGACCAGTGCT-GAGCACA
* * *
11168474 TATATATAATAATTGACGGTTTTACCGACCAGTGCT-AGGCACA
1 TATATATAATATTTGTCGGTTTCACCGACCAGTGCTGA-GCACA
* * **
11168517 AATATATAATATTTGTAGGTTTCATTGACCAGTGCTGAGCACA
1 TATATATAATATTTGTCGGTTTCACCGACCAGTGCTGAGCACA
* *
11168560 CGTATATATAATATTTGTTGGTTTCATCGACCAG
1 --TATATATAATATTTGTCGGTTTCACCGACCAG
11168594 CGCTAGGCTC
Statistics
Matches: 134, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
43 70 0.52
44 2 0.01
45 30 0.22
46 1 0.01
47 30 0.22
48 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (43 bp):
TATATATAATATTTGTCGGTTTCACCGACCAGTGCTGAGCACA
Found at i:11170986 original size:14 final size:14
Alignment explanation
Indices: 11170967--11171008 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
11170957 ATCATCATTG
11170967 TAATAATAAAATAT
1 TAATAATAAAATAT
*
11170981 TAATAATAATATA-
1 TAATAATAAAATAT
11170994 TAA-AATAAAATAT
1 TAATAATAAAATAT
11171007 TA
1 TA
11171009 TAACTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 5 0.20
14 12 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATAAAATAT
Found at i:11172932 original size:42 final size:42
Alignment explanation
Indices: 11172860--11172941 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
11172850 TATATATGCG
*
11172860 TATATATATATAGAATATATAAAAATTATAAAACATAAAATA
1 TATATATATATAGAATATATAAAAATTATAAAAAATAAAATA
* * * *
11172902 TATATATATATATAAGTATGTATATA-TATAAAAAATAAAA
1 TATATATATATAGAA-TATATAAAAATTATAAAAAATAAAA
11172942 CAAATTATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.79
43 7 0.21
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (42 bp):
TATATATATATAGAATATATAAAAATTATAAAAAATAAAATA
Found at i:11173056 original size:3 final size:3
Alignment explanation
Indices: 11173048--11173100 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
11173038 ATATATGAGA
11173048 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11173095 ATT AAT
1 AAT AAT
11173101 GGTGTAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:11180771 original size:37 final size:37
Alignment explanation
Indices: 11180729--11180811 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 37
11180719 CACCTTCTTC
*
11180729 GTGCTT-TGAAGTAAATCTTCTTTCTCTTAAATAAATA
1 GTGCTTAT-AAGTAAATCTTATTTCTCTTAAATAAATA
*
11180766 GTGCTTATAGGTAAATCTTATTTCTCTTAAATAAATA
1 GTGCTTATAAGTAAATCTTATTTCTCTTAAATAAATA
11180803 GTGCTTATA
1 GTGCTTATA
11180812 GGTATAAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (37 bp):
GTGCTTATAAGTAAATCTTATTTCTCTTAAATAAATA
Found at i:11180812 original size:37 final size:37
Alignment explanation
Indices: 11180739--11180815 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
11180729 GTGCTTTGAA
*
11180739 GTAAATCTTCTTTCTCTTAAATAAATAGTGCTTATAG
1 GTAAATCTTATTTCTCTTAAATAAATAGTGCTTATAG
11180776 GTAAATCTTATTTCTCTTAAATAAATAGTGCTTATAG
1 GTAAATCTTATTTCTCTTAAATAAATAGTGCTTATAG
11180813 GTA
1 GTA
11180816 TAAAACACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (37 bp):
GTAAATCTTATTTCTCTTAAATAAATAGTGCTTATAG
Found at i:11181056 original size:20 final size:21
Alignment explanation
Indices: 11181033--11181084 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
11181023 TTTTCTCATA
*
11181033 AAAATTATAAAAAGTA-TATT
1 AAAATTATAAAAAATATTATT
11181053 AAAA--ATCAAAAAATATTATT
1 AAAATTAT-AAAAAATATTATT
11181073 AAAATTATAAAA
1 AAAATTATAAAA
11181085 TATGATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 12 0.44
21 4 0.15
22 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTATAAAAAATATTATT
Found at i:11181084 original size:19 final size:21
Alignment explanation
Indices: 11181031--11181087 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
11181021 ATTTTTCTCA
11181031 TAAAAATTATAAAA-AGTATAT
1 TAAAAATTATAAAATA-TATAT
* *
11181052 TAAAAATCAAAAAATAT-TAT
1 TAAAAATTATAAAATATATAT
11181072 T-AAAATTATAAAATAT
1 TAAAAATTATAAAATAT
11181088 GATTTAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.42
20 4 0.13
21 13 0.42
22 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAAATTATAAAATATATAT
Found at i:11181094 original size:20 final size:19
Alignment explanation
Indices: 11181033--11181094 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
11181023 TTTTCTCATA
*
11181033 AAAATTATAAAAAGTATATTA
1 AAAATTAT-AAAA-TATATTT
* *
11181054 AAAATCAAAAAATAT-TATT
1 AAAATTATAAAATATAT-TT
11181073 AAAATTATAAAATATGATTT
1 AAAATTATAAAATAT-ATTT
11181093 AA
1 AA
11181095 TCTTACATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 8 0.24
21 7 0.21
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAATATATTT
Found at i:11188325 original size:34 final size:34
Alignment explanation
Indices: 11188278--11188344 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
11188268 CAAAATGATT
*
11188278 TCCTTCTCACATTTAGATATCTTTTACCATTGTA
1 TCCTTCTCACATTTAGATATATTTTACCATTGTA
* * *
11188312 TCCTTTTCTCATTTAGATGTATTTTACCATTGT
1 TCCTTCTCACATTTAGATATATTTTACCATTGT
11188345 TGCCTCCAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (34 bp):
TCCTTCTCACATTTAGATATATTTTACCATTGTA
Found at i:11192908 original size:18 final size:18
Alignment explanation
Indices: 11192885--11192933 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11192875 TATGAAAAAG
11192885 TTTATTTATATTAATATT
1 TTTATTTATATTAATATT
*
11192903 TTTATTT-TTTATAATATT
1 TTTATTTATAT-TAATATT
*
11192921 TTTA-ATATATTAA
1 TTTATTTATATTAA
11192934 ATCGTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTATATTAATATT
Found at i:11194045 original size:29 final size:29
Alignment explanation
Indices: 11193977--11194049 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
11193967 TATAGCAAAC
*
11193977 ATATTATTTTCATAATTAATTTATTCTTT
1 ATATTATTTTCATAATTAATTAATTCTTT
** ** *
11194006 ACCTTATTTTTGTAATTAATTAATTTTTT
1 ATATTATTTTCATAATTAATTAATTCTTT
11194035 AATATTATTTT-ATAA
1 -ATATTATTTTCATAA
11194050 AAAATACAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (29 bp):
ATATTATTTTCATAATTAATTAATTCTTT
Found at i:11195412 original size:18 final size:18
Alignment explanation
Indices: 11195379--11195414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11195369 TAAAAATTAC
**
11195379 TTTTTAAAATTTTTTTAA
1 TTTTTAAAATACTTTTAA
11195397 TTTTTAAAATACTTTTAA
1 TTTTTAAAATACTTTTAA
11195415 AAATACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAAAATACTTTTAA
Found at i:11195446 original size:33 final size:33
Alignment explanation
Indices: 11195388--11195452 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
11195378 CTTTTTAAAA
*
11195388 TTTTTTTAATTTTTAAAATACTTTTAAAAATAC
1 TTTTTTTAATTTTTAAAATAATTTTAAAAATAC
***
11195421 TTTTTTTAATTTTTATTTTAATTTTAAAAATA
1 TTTTTTTAATTTTTAAAATAATTTTAAAAATA
11195453 AATTTTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (33 bp):
TTTTTTTAATTTTTAAAATAATTTTAAAAATAC
Found at i:11195451 original size:45 final size:43
Alignment explanation
Indices: 11195296--11195452 Score: 181
Period size: 43 Copynumber: 3.5 Consensus size: 43
11195286 NNNNNNNNNN
* *
11195296 AATTTTTTTTAATTTTAAAATTACTTTTTAAAATACCGTTTTTTTT
1 AATTTTTTTTAATTTTAAAAATACTTTTAAAAATA-C--TTTTTTT
* ** *
11195342 AATTTTTTTTAATTTTAAAAGTTTTTTTAAAAATTAC-TTTTTA
1 AATTTTTTTTAATTTTAAAAATACTTTTAAAAA-TACTTTTTTT
* *
11195385 AAATTTTTTTAATTTTTAAAATACTTTTAAAAATACTTTTTTT
1 AATTTTTTTTAATTTTAAAAATACTTTTAAAAATACTTTTTTT
11195428 AATTTTTATTTTAATTTTAAAAATA
1 AA-TTTT-TTTTAATTTTAAAAATA
11195453 AATTTTTGGT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 3 0.03
43 40 0.43
44 3 0.03
45 16 0.17
46 30 0.32
47 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (43 bp):
AATTTTTTTTAATTTTAAAAATACTTTTAAAAATACTTTTTTT
Found at i:11198008 original size:24 final size:23
Alignment explanation
Indices: 11197960--11198008 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
11197950 CGGCCTCCCT
**
11197960 AAAATTAGAATTTTAAAATTTTA
1 AAAATTAGAATTTTAAAATGGTA
11197983 AAAATATA-AATTATTAAAATGGTA
1 AAAAT-TAGAATT-TTAAAATGGTA
11198007 AA
1 AA
11198009 TTACATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
AAAATTAGAATTTTAAAATGGTA
Found at i:11201339 original size:21 final size:21
Alignment explanation
Indices: 11201312--11201365 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11201302 CCGCCATTTC
*
11201312 TAATCTCACTGTTACAGT-AT
1 TAATCTCACTGCTACAGTAAT
**
11201332 TCAATCTCACCACTACAGTAAT
1 T-AATCTCACTGCTACAGTAAT
11201354 TAATCTCACTGC
1 TAATCTCACTGC
11201366 CATCGTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (21 bp):
TAATCTCACTGCTACAGTAAT
Found at i:11204197 original size:23 final size:24
Alignment explanation
Indices: 11204170--11204228 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
11204160 AGTTATATAC
*
11204170 AAAGGGAGCATTATATATC-ATTT
1 AAAGGGAGCATTATATATCAATTA
11204193 AAA-GGAGC-TGT-TATATCAATTA
1 AAAGGGAGCAT-TATATATCAATTA
11204215 AAAGGAGAGCATTA
1 AAAGG-GAGCATTA
11204229 CACCTCCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
21 7 0.24
22 12 0.41
23 4 0.14
24 5 0.17
25 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAGGGAGCATTATATATCAATTA
Found at i:11206167 original size:18 final size:16
Alignment explanation
Indices: 11206131--11206174 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
11206121 AGAGAGAAGA
*
11206131 AAAATGAAAGAAAATG
1 AAAATGAAAGAAAAAG
11206147 AAAATGAAATCGAAAAAG
1 AAAATGAAA--GAAAAAG
11206165 AAAATGAAAG
1 AAAATGAAAG
11206175 TGAGAGTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 10 0.40
18 15 0.60
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (16 bp):
AAAATGAAAGAAAAAG
Found at i:11210641 original size:21 final size:23
Alignment explanation
Indices: 11210617--11210661 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11210607 CCGAAAAATA
11210617 TTAAATAT-ATA-TTTTTTATTT
1 TTAAATATAATAGTTTTTTATTT
11210638 TTAAATATAATAGTTTTTTATTT
1 TTAAATATAATAGTTTTTTATTT
11210661 T
1 T
11210662 AAGTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTAAATATAATAGTTTTTTATTT
Found at i:11210791 original size:59 final size:59
Alignment explanation
Indices: 11210728--11210906 Score: 250
Period size: 68 Copynumber: 2.9 Consensus size: 59
11210718 TCAAGTTTGT
*
11210728 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
11210787 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
11210852 AAA
57 AAA
* *
11210855 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAGTTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
11210907 AATAATTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 46 0.43
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 56 0.52
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:11210829 original size:9 final size:9
Alignment explanation
Indices: 11210817--11210844 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11210807 TTTTATTACA
11210817 ACAATTAAT
1 ACAATTAAT
11210826 ACAATTAAT
1 ACAATTAAT
11210835 ACAATTAAT
1 ACAATTAAT
11210844 A
1 A
11210845 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:11210835 original size:68 final size:68
Alignment explanation
Indices: 11210758--11210928 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
11210748 TTTTGTTACA
11210758 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
11210823 AAT
66 AAT
11210826 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
11210891 AAT
66 AAT
* *
11210894 ACAGTT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
11210929 CAATTAATTT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 27 0.27
67 1 0.01
68 73 0.72
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AAT
Found at i:11210938 original size:16 final size:16
Alignment explanation
Indices: 11210917--11210958 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11210907 AATAATTTGA
*
11210917 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
11210933 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
11210949 TAGTTTTAAT
1 TAATTTTAAT
11210959 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11210947 original size:59 final size:66
Alignment explanation
Indices: 11210758--11210950 Score: 274
Period size: 68 Copynumber: 3.0 Consensus size: 66
11210748 TTTTGTTACA
11210758 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
11210823 AAT
64 AAT
11210826 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
11210891 AAT
64 AAT
* * *
11210894 ACAGTT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTA
11210951 GTTTTAATTT
Statistics
Matches: 122, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.22
67 1 0.01
68 73 0.60
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTAA
T
Found at i:11210957 original size:22 final size:23
Alignment explanation
Indices: 11210932--11210993 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
11210922 TTACTAACAA
* * *
11210932 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
11210954 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
11210977 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
11210994 CGGACCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:11216472 original size:23 final size:25
Alignment explanation
Indices: 11216446--11216494 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
11216436 TAAATATCAA
11216446 ATTAAAACAAA-AAAAAT-TTAAAT
1 ATTAAAACAAATAAAAATATTAAAT
*
11216469 ATTAAAACAAATATAAATATTAAAT
1 ATTAAAACAAATAAAAATATTAAAT
11216494 A
1 A
11216495 ATATATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 5 0.22
25 7 0.30
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
ATTAAAACAAATAAAAATATTAAAT
Found at i:11216500 original size:18 final size:18
Alignment explanation
Indices: 11216454--11216492 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11216444 AAATTAAAAC
* *
11216454 AAAAAAAATTTAAATATT
1 AAAACAAATATAAATATT
11216472 AAAACAAATATAAATATT
1 AAAACAAATATAAATATT
11216490 AAA
1 AAA
11216493 TAATATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAACAAATATAAATATT
Found at i:11216716 original size:22 final size:23
Alignment explanation
Indices: 11216686--11216730 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
11216676 TATTTGAATT
11216686 TTACATTTTTTTT-AATTTGGTA
1 TTACATTTTTTTTCAATTTGGTA
*
11216708 TTACCTTTTTTTTCAATTTGGTA
1 TTACATTTTTTTTCAATTTGGTA
11216731 CTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (23 bp):
TTACATTTTTTTTCAATTTGGTA
Found at i:11216741 original size:24 final size:23
Alignment explanation
Indices: 11216690--11216741 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11216680 TGAATTTTAC
* **
11216690 ATTTTTTTTAATTTGGTATTACC
1 ATTTTTTTCAATTTGGTATTAAA
*
11216713 TTTTTTTTCAATTTGGTACTTAAA
1 ATTTTTTTCAATTTGGTA-TTAAA
11216737 ATTTT
1 ATTTT
11216742 CAAATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
ATTTTTTTCAATTTGGTATTAAA
Found at i:11227955 original size:31 final size:31
Alignment explanation
Indices: 11227862--11227955 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
11227852 AGATAATTGT
*
11227862 AAAGAGTTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
11227893 AAAGAGTTTTTATTAGGATTTAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
11227925 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
11227956 TAATTTACCT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 30 0.51
32 29 0.49
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:11234141 original size:32 final size:31
Alignment explanation
Indices: 11234096--11234191 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
11234086 CTTAGATAAT
*
11234096 TTTAAAGAGTTTTATTAGGATTTAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
11234127 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
11234159 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
11234190 TT
1 TT
11234192 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:11237228 original size:44 final size:43
Alignment explanation
Indices: 11237180--11237364 Score: 133
Period size: 43 Copynumber: 4.3 Consensus size: 43
11237170 AGACTTTGCA
* *
11237180 TAAGACCATATCTAGGATA-TGACGTCGATATATGTGATTACGTG
1 TAAGACCATATCTAGGACATTGACATCG-T-TATGTGATTACGTG
* * * *
11237224 TAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTCGTG
1 TAAGACCATATCTAGGACATTGACATCGTTATGTGATTACGTG
* * * * * * *
11237267 GAAGACCATGTCTTGGACATTGGCATCGATATATGATT-CATG
1 TAAGACCATATCTAGGACATTGACATCGTTATGTGATTACGTG
* * * ** * * *
11237309 TAAGACCAAAGCT-GGGCTATTGGTATCGATATGTGATAACATG
1 TAAGACCATATCTAGGAC-ATTGACATCGTTATGTGATTACGTG
11237352 TAAGACCATATCT
1 TAAGACCATATCT
11237365 GGGATATGGC
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.03
42 29 0.25
43 62 0.53
44 17 0.15
45 6 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TAAGACCATATCTAGGACATTGACATCGTTATGTGATTACGTG
Found at i:11237261 original size:43 final size:43
Alignment explanation
Indices: 11237209--11237386 Score: 186
Period size: 43 Copynumber: 4.2 Consensus size: 43
11237199 TGACGTCGAT
*
11237209 ATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
* * * * *
11237252 TTATGTGATTTCGTGGAAGACCATGTCTTGGACATTGGCATCG
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
* * *
11237295 ATATATGATT-CATGTAAGACCAAAG-CTGGG-CTATTGGTATCG
1 ATATGTGATTACATGTAAGACC-ATGTCTGGGAC-ATTGGCATCG
* * * *
11237337 ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT-T
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
11237378 ATATGTGAT
1 ATATGTGAT
11237387 ATACGAGACT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.09
42 36 0.32
43 66 0.59
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
Found at i:11237331 original size:42 final size:43
Alignment explanation
Indices: 11237285--11237376 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
11237275 TGTCTTGGAC
* *
11237285 ATTGGCATCGATATATGAT-TCATGTAAGACCAAAGCTGGGCT
1 ATTGGCATCGATATATGATAACATGTAAGACCAAAGCTGGGAT
* * * *
11237327 ATTGGTATCGATATGTGATAACATGTAAGACCATATCTGGGAT
1 ATTGGCATCGATATATGATAACATGTAAGACCAAAGCTGGGAT
11237370 A-TGGCAT
1 ATTGGCAT
11237377 TATATGTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 22 0.52
43 20 0.48
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (43 bp):
ATTGGCATCGATATATGATAACATGTAAGACCAAAGCTGGGAT
Found at i:11261798 original size:81 final size:84
Alignment explanation
Indices: 11261695--11261846 Score: 186
Period size: 81 Copynumber: 1.8 Consensus size: 84
11261685 CACCTATCAT
* * ** ***
11261695 CCATCAATTCCTTTGAATCAGAATCATTCATACTTTCACCCTGA-T-CTTT-CAAACAAACCACA
1 CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTGATTACTTTCCAAACAAACCACA
*
11261757 GTATCATCATTCGCATTGC
66 CTATCATCATTCGCATTGC
*
11261776 CCATCAATTCC-TTCAAGCCAGAATCACCCATAAGGTCACCCTGATTATTTTCCAAACAAACCAC
1 CCATCAATTCCTTTCAA-CCAGAATCACCCATAAGGTCACCCTGATTACTTTCCAAACAAACCAC
11261840 ACTATCA
65 ACTATCA
11261847 CCGCACATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.07
81 32 0.55
82 1 0.02
83 3 0.05
84 18 0.31
ACGTcount: A:0.33, C:0.32, G:0.07, T:0.28
Consensus pattern (84 bp):
CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTGATTACTTTCCAAACAAACCACA
CTATCATCATTCGCATTGC
Done.