Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 71 of 187
Found at i:20958420 original size:15 final size:15
Alignment explanation
Indices: 20958400--20958434 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
20958390 TCTCTAGAAA
20958400 TCTTCTAAAATAATT
1 TCTTCTAAAATAATT
*
20958415 TCTTCTGAAATAATT
1 TCTTCTAAAATAATT
20958430 TCTTC
1 TCTTC
20958435 AGAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (15 bp):
TCTTCTAAAATAATT
Found at i:20958439 original size:15 final size:15
Alignment explanation
Indices: 20958407--20958439 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20958397 AAATCTTCTA
*
20958407 AAATAATTTCTTCTG
1 AAATAATTTCTTCAG
20958422 AAATAATTTCTTCAG
1 AAATAATTTCTTCAG
20958437 AAA
1 AAA
20958440 ATTTTCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATAATTTCTTCAG
Found at i:20958659 original size:61 final size:58
Alignment explanation
Indices: 20958549--20958662 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 58
20958539 ATTACTTTAA
* * * *
20958549 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAAGTAATAGAATACTTATCAAGATAAATATTAAATTAAACTTAATATTAAATC
20958607 TATTAAAGTAATAGAATACTTATCTACAAGATAAATATTAAATTAAACTTAATATT
1 TATTAAAGTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAACTTAATATT
20958663 GAGATAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.41
60 1 0.02
61 28 0.57
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.39
Consensus pattern (58 bp):
TATTAAAGTAATAGAATACTTATCAAGATAAATATTAAATTAAACTTAATATTAAATC
Found at i:20958690 original size:20 final size:18
Alignment explanation
Indices: 20958640--20958691 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
20958630 CTACAAGATA
20958640 AATATTAAATTAA-ACTT
1 AATATTAAATTAATACTT
*
20958657 AATATTGAGA-TAATCACTTT
1 AATATT-AAATTAAT-AC-TT
20958677 AATATTAAATTAATA
1 AATATTAAATTAATA
20958692 AAATATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 5 0.18
20 12 0.43
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATACTT
Found at i:20963537 original size:15 final size:16
Alignment explanation
Indices: 20963505--20963539 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20963495 TAAATAATTT
20963505 TTATAAAGATTATATA
1 TTATAAAGATTATATA
*
20963521 TTATAAAG-TTTTATA
1 TTATAAAGATTATATA
20963536 TTAT
1 TTAT
20963540 TTCTTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TTATAAAGATTATATA
Found at i:20964261 original size:19 final size:19
Alignment explanation
Indices: 20964237--20964280 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
20964227 TTAGAAATTA
20964237 TTTTTATCA-TAGTAATAAT
1 TTTTTAT-AGTAGTAATAAT
*
20964256 TTTTTATAGTATTAATAAT
1 TTTTTATAGTAGTAATAAT
20964275 TTTTTA
1 TTTTTA
20964281 AAATATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATAGTAGTAATAAT
Found at i:20977577 original size:6 final size:6
Alignment explanation
Indices: 20977560--20977599 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
20977550 GAAAACAAAT
20977560 GGGAGAA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGG
1 GGGAG-A GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGG
20977600 GAACAGAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:20978360 original size:36 final size:37
Alignment explanation
Indices: 20978283--20978361 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 37
20978273 AAATACCTCT
* * *
20978283 AAAATAATAACAATAAAACAAGAGTTATATAATATTC
1 AAAACAATAACAATAAAACAAGAGTAATATAATATGC
*
20978320 -AAACAATAACAATAAAA-TAGTAGTAATATAATA-GC
1 AAAACAATAACAATAAAACAAG-AGTAATATAATATGC
20978355 AAAACAA
1 AAAACAA
20978362 CACCAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (37 bp):
AAAACAATAACAATAAAACAAGAGTAATATAATATGC
Found at i:20983888 original size:25 final size:25
Alignment explanation
Indices: 20983862--20983915 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
20983852 TATTTTTTAA
20983862 TTAATAAAATATTATATTAATATAAT
1 TTAATAAAATATT-TATTAATATAAT
* *
20983888 TTAATTAGATATTTATT-A-ATAAT
1 TTAATAAAATATTTATTAATATAAT
20983911 TTAAT
1 TTAAT
20983916 TACAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 4 0.15
26 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTAATAAAATATTTATTAATATAAT
Found at i:20983927 original size:23 final size:23
Alignment explanation
Indices: 20983883--20983927 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20983873 TTATATTAAT
* * **
20983883 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTACAAAAATATTA
20983906 ATAATTTAATTACAAAAATATT
1 ATAATTTAATTACAAAAATATT
20983928 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAATTTAATTACAAAAATATTA
Found at i:20987242 original size:24 final size:24
Alignment explanation
Indices: 20987215--20987260 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
20987205 TGCTAAAGAA
20987215 GGAAAGGGTTTCAGTTAAAAATGG
1 GGAAAGGGTTTCAGTTAAAAATGG
*
20987239 GGAAAGGGTTTTAGTTAAAAAT
1 GGAAAGGGTTTCAGTTAAAAAT
20987261 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.28
Consensus pattern (24 bp):
GGAAAGGGTTTCAGTTAAAAATGG
Found at i:20987267 original size:24 final size:24
Alignment explanation
Indices: 20987216--20987267 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20987206 GCTAAAGAAG
***
20987216 GAAAGGGTTTCAGTTAAAAATGGG
1 GAAAGGGTTTCAGTTAAAAATAAA
*
20987240 GAAAGGGTTTTAGTTAAAAATAAA
1 GAAAGGGTTTCAGTTAAAAATAAA
20987264 GAAA
1 GAAA
20987268 AAAATAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (24 bp):
GAAAGGGTTTCAGTTAAAAATAAA
Found at i:20987616 original size:17 final size:17
Alignment explanation
Indices: 20987594--20987640 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
20987584 TTTTTTCTTA
20987594 TTTATTATTATTATT-AT
1 TTTATTATTATT-TTCAT
* *
20987611 TTTATTGTTATTTTCTT
1 TTTATTATTATTTTCAT
20987628 TTTATTTATTATT
1 TTTA-TTATTATT
20987641 GTTTTGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 16 0.64
18 7 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTATTATTTTCAT
Found at i:20987621 original size:11 final size:11
Alignment explanation
Indices: 20987595--20987687 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
20987585 TTTTTCTTAT
20987595 TTATTATTATTA
1 TTATT-TTATTA
*
20987607 TTATTTTATTG
1 TTATTTTATTA
* *
20987618 TTATTTTCTTT
1 TTATTTTATTA
20987629 TTA-TTTATTA
1 TTATTTTATTA
* * *
20987639 TTGTTTTGTTG
1 TTATTTTATTA
** * *
20987650 CCATTTCATAA
1 TTATTTTATTA
* **
20987661 TTATATTGCTA
1 TTATTTTATTA
20987672 TTATTTTATTA
1 TTATTTTATTA
20987683 TTATT
1 TTATT
20987688 ATTTGAATAT
Statistics
Matches: 55, Mismatches: 25, Indels: 3
0.66 0.30 0.04
Matches are distributed among these distances:
10 7 0.13
11 43 0.78
12 5 0.09
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:21003222 original size:43 final size:43
Alignment explanation
Indices: 21003169--21003504 Score: 435
Period size: 43 Copynumber: 7.8 Consensus size: 43
21003159 TTTTAGAAAT
* * *
21003169 AAACTCCGCTAAAGGTCATGACTTTTAGCGGCGCTGTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
*
21003212 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
* * * *
21003255 AAATC-CCGTTATAGATCATAACTTCTAGCAGCGCTGTTCCCAC
1 AAA-CGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
* * * *
21003298 AAACGCCGTTACAGATCATGACTTTTAGCGGCGTTGTACCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
* * *
21003341 AAACGCCGCTGTAGATCATGACTTTTAGCGGCGTTGTACCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
* * *
21003384 AAACGCCGCTGTAGATCATGACTTTTAGCAGCGCT-TCTCCCAT
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGT-TCCCAC
*
21003427 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCT-TCTCCTAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGT-TCCCAC
* *
21003470 AAACGCCGTTATAGATCATGACTTTTAGTGGCGCT
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCT
21003505 TTTTTTATAA
Statistics
Matches: 262, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
42 2 0.01
43 259 0.99
44 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTGTTCCCAC
Found at i:21004071 original size:87 final size:87
Alignment explanation
Indices: 21003871--21004074 Score: 329
Period size: 87 Copynumber: 2.3 Consensus size: 87
21003861 CTCGCTGCAG
* * *
21003871 CCTCTGCTTCTCTC-ACTGTTGTCTCTGCTTCTCTCGTTGCTGCATCTGCTTTAAGTTGTAGCTA
1 CCTCAGCTTCTCTCGA-TGTTGTCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTA
21003935 GAGTTCTTCATATTTTCTTTGAA
65 GAGTTCTTCATATTTTCTTTGAA
** * *
21003958 CCTCAGCTTCTCTCGATACTGCCTCTGCTTCCCTCGCTGTTGCATCTGCTTTAAGTTGTAGCTAG
1 CCTCAGCTTCTCTCGATGTTGTCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTAG
21004023 AGTTCTTCATATTTTCTTTGAA
66 AGTTCTTCATATTTTCTTTGAA
21004045 CCTCAGCTTCTCTCGATGTTGTCTCTGCTT
1 CCTCAGCTTCTCTCGATGTTGTCTCTGCTT
21004075 TAAGTTGAGT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 105 0.99
88 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.16, T:0.44
Consensus pattern (87 bp):
CCTCAGCTTCTCTCGATGTTGTCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTAG
AGTTCTTCATATTTTCTTTGAA
Found at i:21004399 original size:21 final size:21
Alignment explanation
Indices: 21004357--21004400 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
21004347 TGTCCCAAAT
*
21004357 TGATTGCATTTTTTGTACGAA
1 TGATTGCATTTTTTGCACGAA
* *
21004378 TGATTGCGTTTTTTGCATGAA
1 TGATTGCATTTTTTGCACGAA
21004399 TG
1 TG
21004401 TAGCAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.23, T:0.48
Consensus pattern (21 bp):
TGATTGCATTTTTTGCACGAA
Found at i:21004765 original size:31 final size:31
Alignment explanation
Indices: 21004722--21004801 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
21004712 CATGGTTGAT
*
21004722 TTAGCAGCAAAAAACAATAGAAGGTGCCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* * *
21004753 TTAGCAGTAAAAACCAATAGAATGTACCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* *
21004784 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAAACAAT
21004802 TAAAAACCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (31 bp):
TTAGCAGCAAAAAACAATAGAAGGTACCATC
Found at i:21006013 original size:45 final size:46
Alignment explanation
Indices: 21005964--21006081 Score: 121
Period size: 45 Copynumber: 2.5 Consensus size: 46
21005954 ATTTGATTTA
* *
21005964 TAGTGCTTGTATTTTTCAAAAATTTTATAGTAGGAATTTAA-TCCG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCCG
* * * * *
21006009 TAGTGTTTGTATTTTTCTAAAACTTCAAATTAGGAATTTAACTCTG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCCG
*
21006055 TGAAGTCAGGTTGTATTTTTCAAAAAT
1 T--AGT--GCTTGTATTTTTCAAAAAT
21006082 ACTAATTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
45 35 0.60
46 4 0.07
48 3 0.05
50 16 0.28
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.44
Consensus pattern (46 bp):
TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCCG
Found at i:21006225 original size:35 final size:35
Alignment explanation
Indices: 21006127--21006225 Score: 81
Period size: 35 Copynumber: 2.8 Consensus size: 35
21006117 CCTGAAAACT
* * * * * * *
21006127 ATAAACCATAAACCCTATACCTTAGACACTAGATC
1 ATAACCCATAAACCCTAAACCTTAAACCCCAAATA
* * * **
21006162 ATAAACCCTTAAACCTTGAACCACAAACCCCAAATA
1 AT-AACCCATAAACCCTAAACCTTAAACCCCAAATA
21006198 ATAACCCATAAACCCTAAACCTTAAACC
1 ATAACCCATAAACCCTAAACCTTAAACC
21006226 TTAAACTGCA
Statistics
Matches: 46, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
35 23 0.50
36 23 0.50
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.19
Consensus pattern (35 bp):
ATAACCCATAAACCCTAAACCTTAAACCCCAAATA
Found at i:21006301 original size:14 final size:14
Alignment explanation
Indices: 21006282--21006311 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21006272 ATAAATCATA
*
21006282 AACCCCTAACCCTT
1 AACCCCTAACACTT
21006296 AACCCCTAACACTT
1 AACCCCTAACACTT
21006310 AA
1 AA
21006312 ACCATAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:21006339 original size:7 final size:7
Alignment explanation
Indices: 21006324--21006362 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
21006314 CATAATCCCC
*
21006324 AACCTTA
1 AACCATA
21006331 AACCATA
1 AACCATA
*
21006338 AACCACA
1 AACCATA
21006345 AACCATA
1 AACCATA
*
21006352 ATCCATA
1 AACCATA
21006359 AACC
1 AACC
21006363 CTTAACCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCATA
Found at i:21006458 original size:14 final size:14
Alignment explanation
Indices: 21006407--21006491 Score: 68
Period size: 14 Copynumber: 5.9 Consensus size: 14
21006397 ACATTAACTA
*
21006407 TAAACCCTAAACCCC
1 TAAACCCT-AACCCT
*
21006422 T-AACCCTTAACCCC
1 TAAACCC-TAACCCT
*
21006436 T-AACACCTAAGCCT
1 TAAAC-CCTAACCCT
21006450 TAAACCCTAACCCT
1 TAAACCCTAACCCT
*
21006464 TAAACCATAATCCC-
1 TAAACCCTAA-CCCT
21006478 TAAACCCCTAACCC
1 TAAA-CCCTAACCC
21006492 ATATTCCTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
14 45 0.75
15 15 0.25
ACGTcount: A:0.36, C:0.44, G:0.01, T:0.19
Consensus pattern (14 bp):
TAAACCCTAACCCT
Found at i:21006507 original size:21 final size:22
Alignment explanation
Indices: 21006406--21006515 Score: 82
Period size: 21 Copynumber: 5.1 Consensus size: 22
21006396 AACATTAACT
* *
21006406 ATAAACCCTAAACCCCTAACCC
1 ATAATCCCTAAACCCCTAAACC
* * * *
21006428 TTAACCCCT-AACACCTAAGCC
1 ATAATCCCTAAACCCCTAAACC
* * *
21006449 TTAAACCCT-AACCCTTAAACC
1 ATAATCCCTAAACCCCTAAACC
*
21006470 ATAATCCCTAAACCCCTAACCC
1 ATAATCCCTAAACCCCTAAACC
* * *
21006492 ATATTCCTTAAA-CCCTAAATC
1 ATAATCCCTAAACCCCTAAACC
21006513 ATA
1 ATA
21006516 GAATATATAT
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
21 44 0.62
22 27 0.38
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.22
Consensus pattern (22 bp):
ATAATCCCTAAACCCCTAAACC
Found at i:21006510 original size:7 final size:7
Alignment explanation
Indices: 21006407--21006484 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
21006397 ACATTAACTA
21006407 TAAACCC
1 TAAACCC
21006414 TAAACCCC
1 TAAA-CCC
21006422 T-AACCC
1 TAAACCC
*
21006428 TTAACCCC
1 -TAAACCC
21006436 T-AACACC
1 TAAAC-CC
* *
21006443 TAAGCCT
1 TAAACCC
21006450 TAAACCC
1 TAAACCC
21006457 T-AACCC
1 TAAACCC
*
21006463 TTAAACCA
1 -TAAACCC
*
21006471 TAATCCC
1 TAAACCC
21006478 TAAACCC
1 TAAACCC
21006485 CTAACCCATA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
6 10 0.19
7 30 0.56
8 14 0.26
ACGTcount: A:0.37, C:0.42, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:21006551 original size:39 final size:39
Alignment explanation
Indices: 21006497--21006583 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
21006487 AACCCATATT
*
21006497 CCTTAAACCCTAAATCATAGAATATATATAAACTATAAA
1 CCTTAAACCCTAAATCATAGAACATATATAAACTATAAA
*
21006536 CCTTAAACCCTAAATCATAGAACATATATAAATTATAAA
1 CCTTAAACCCTAAATCATAGAACATATATAAACTATAAA
21006575 CCTTAAACC
1 CCTTAAACC
21006584 TCAACCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (39 bp):
CCTTAAACCCTAAATCATAGAACATATATAAACTATAAA
Found at i:21006646 original size:15 final size:14
Alignment explanation
Indices: 21006606--21006646 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
21006596 CAATAAACAA
*
21006606 TAAACCATAACCCC
1 TAAACCATAATCCC
21006620 TAAATCCATAATCCC
1 TAAA-CCATAATCCC
21006635 TAAACCACTAAT
1 TAAACCA-TAAT
21006647 GCGTCTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:21006897 original size:102 final size:101
Alignment explanation
Indices: 21006718--21006914 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 101
21006708 AAAACCGCCG
* * * * * *
21006718 CTAATGCTTGACTTTTGCGGTGTTTTTTGTAAAGCACCCCTAATGTCTCTAAAGCTCAACAAAAA
1 CTAATGCTTGAATTCTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
*
21006783 AACGACTCCGTTTGCTTAAAATTTTTTGCGGTGCTTC
66 AACGACTCCGTTTGCTTAAAA-ATTTTGCGGTGCTTC
* *
21006820 CTAATGCTTGAATTCTGCGGCGTTTTTAT-AAAAGCGCCACTAATGTGTCTAAAACTCAACAAAA
1 CTAATGCTTGAATTCTGCGGCGTTTTT-TGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAA
* *
21006884 AAACG-TTGTCGTTTGCTTAAAAATTTTGCGG
65 AAACGACT-CCGTTTGCTTAAAAATTTTGCGG
21006915 CTCTATTGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
101 9 0.11
102 72 0.88
103 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (101 bp):
CTAATGCTTGAATTCTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
AACGACTCCGTTTGCTTAAAAATTTTGCGGTGCTTC
Found at i:21007055 original size:111 final size:111
Alignment explanation
Indices: 21006820--21007138 Score: 381
Period size: 111 Copynumber: 2.8 Consensus size: 111
21006810 GCGGTGCTTC
* * * * * * *
21006820 CTAATGCTTGAATTCTGCGGCGTTTTTATAAAAGCGCCACTAATGTGTCTAAAACTCAACAAAAA
1 CTAATGCTTGACTTTTGCGGCGTTTTTCTGAAAGCGCCACTAATGTCTCTAAAGCT-AAAAAAAA
* * *
21006885 -AACGTTGTCGTTTGCTTAAAAATTTTGCGGCTCTATTGTGAAAGCACCG
65 CAAC---GTCGTTTGCTTAAAACTTTTGCGGCGCTATTGAGAAAGCACCG
* * * *
21006934 CTAATTCTTGACTTTTGCAGCGTTTTTCGGAAAGCGCCACTAATGTCTCTAAAGCTGAAAAAAAC
1 CTAATGCTTGACTTTTGCGGCGTTTTTCTGAAAGCGCCACTAATGTCTCTAAAGCTAAAAAAAAC
* *
21006999 AACGTCGTTTGCTTAAAACTTTTGTGGCGCTTTTGAGAAAGCACCG
66 AACGTCGTTTGCTTAAAACTTTTGCGGCGCTATTGAGAAAGCACCG
* *
21007045 CTAATGCTTGACTTTTGCGGCG-TTTCCTGATAAGCGCCACTAATTTCTCTAAAGCTAAAAGAAA
1 CTAATGCTTGACTTTTGCGGCGTTTTTCTGA-AAGCGCCACTAATGTCTCTAAAGCTAAAA-AAA
* * *
21007109 ACGACATCGTTTGCTTAAGACTTTTGCGGC
64 ACAACGTCGTTTGCTTAAAACTTTTGCGGC
21007139 ACTCTTGACT
Statistics
Matches: 176, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
110 6 0.03
111 85 0.48
112 29 0.16
113 6 0.03
114 50 0.28
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (111 bp):
CTAATGCTTGACTTTTGCGGCGTTTTTCTGAAAGCGCCACTAATGTCTCTAAAGCTAAAAAAAAC
AACGTCGTTTGCTTAAAACTTTTGCGGCGCTATTGAGAAAGCACCG
Found at i:21015674 original size:30 final size:30
Alignment explanation
Indices: 21015640--21015698 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
21015630 AACAACCAAG
21015640 TCAGTTTGAAAACATTACGTGTATGTATAC
1 TCAGTTTGAAAACATTACGTGTATGTATAC
21015670 TCAGTTTGAAAACATTACGTGTATGTATA
1 TCAGTTTGAAAACATTACGTGTATGTATA
21015699 GTGGAGTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (30 bp):
TCAGTTTGAAAACATTACGTGTATGTATAC
Found at i:21017791 original size:33 final size:31
Alignment explanation
Indices: 21017754--21017829 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 31
21017744 ATATTTAAAA
21017754 ATTTTAAAAATA-AAAAAT-TCAAATAAATATAT
1 ATTTTAAAAATATAAAAATGTC--A-AAATATAT
* *
21017786 CATTTT-CAAATATTAAAATGTCAAAATATAT
1 -ATTTTAAAAATATAAAAATGTCAAAATATAT
21017817 ATTTTAAAAATAT
1 ATTTTAAAAATAT
21017830 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.14
31 14 0.38
32 6 0.16
33 10 0.27
34 2 0.05
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (31 bp):
ATTTTAAAAATATAAAAATGTCAAAATATAT
Found at i:21017884 original size:19 final size:19
Alignment explanation
Indices: 21017817--21017890 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
21017807 CAAAATATAT
*
21017817 ATTTTAAAAATATT-TAAA-
1 ATTTTAAAAA-ATTAAAAAC
*
21017835 ATTTTCAACAAAA-TAAATA-
1 ATTTT-AA-AAAATTAAAAAC
21017854 ATTTTAAAAAATTATAAAAC
1 ATTTTAAAAAATTA-AAAAC
21017874 ATTTT-AAAAATTAAAAA
1 ATTTTAAAAAATTAAAAA
21017891 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.09
18 14 0.30
19 21 0.45
20 8 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAATTAAAAAC
Found at i:21018056 original size:24 final size:24
Alignment explanation
Indices: 21018021--21018069 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
21018011 GTTTGGTTTA
*
21018021 TAAAAATATTTT-TTATTTTTCTTT
1 TAAAAATATTTTATT-TTTTTATTT
*
21018045 TAAAAATGTTTTATTTTTTTATTT
1 TAAAAATATTTTATTTTTTTATTT
21018069 T
1 T
21018070 TTATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TAAAAATATTTTATTTTTTTATTT
Found at i:21018442 original size:31 final size:32
Alignment explanation
Indices: 21018402--21018510 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 32
21018392 GCATAAGATT
*
21018402 TTTTCAATTTTTTGTCTTTCAGAGTTTAAAAA
1 TTTTCAATTTTTTATCTTTCAGAGTTTAAAAA
* * ***
21018434 TTTT-AATTTTAATAT-TTTCAAAAACTAAAATTA
1 TTTTCAATTTT-TTATCTTTCAGAGTTTAAAA--A
21018467 TTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAA
1 --TTTTCAATTTTTTATCTTTCAGAGTTTAAAAA
*
21018501 TATT-AATTTT
1 TTTTCAATTTT
21018511 AACATTTTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
31 23 0.40
32 9 0.16
33 1 0.02
34 1 0.02
35 7 0.12
36 17 0.29
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (32 bp):
TTTTCAATTTTTTATCTTTCAGAGTTTAAAAA
Found at i:21018475 original size:67 final size:67
Alignment explanation
Indices: 21018399--21018539 Score: 246
Period size: 67 Copynumber: 2.1 Consensus size: 67
21018389 GGAGCATAAG
* * *
21018399 ATTTTTTCAATTTTTTGTCTTTCAGAGTTTAAAAATTTTAATTTTAATATTTTCAAAAACTAAAA
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
21018464 TT
66 TT
*
21018466 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAATTAAAA
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
21018531 TT
66 TT
21018533 ATTTTTT
1 ATTTTTT
21018540 AAAATCTGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (67 bp):
ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
TT
Found at i:21021697 original size:184 final size:185
Alignment explanation
Indices: 21021386--21021760 Score: 716
Period size: 184 Copynumber: 2.0 Consensus size: 185
21021376 CAGTAGCAAT
*
21021386 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAGGTTAAAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
21021451 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACT
65 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACT
21021516 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
130 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
21021572 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
*
21021636 ATCTCAGTTCATCTCCTTCAATTAAGGAGCTAACAATCTTTTCTAACATCAACCAGATTGAACTG
66 ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACTG
21021701 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
131 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
21021756 ATTCC
1 ATTCC
21021761 TTTTTTTCCC
Statistics
Matches: 187, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 127 0.68
186 60 0.32
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (185 bp):
ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACTG
TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
Found at i:21026581 original size:13 final size:12
Alignment explanation
Indices: 21026551--21026588 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
21026541 GAAACTCTGT
21026551 AAATATTTATAA
1 AAATATTTATAA
*
21026563 AAATATTTCTAA
1 AAATATTTATAA
21026575 CAAATATTTATAA
1 -AAATATTTATAA
21026588 A
1 A
21026589 GCATAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:21033413 original size:19 final size:18
Alignment explanation
Indices: 21033390--21033444 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
21033380 CAAAAAAACC
21033390 TAAAAAAATAAAAAAATT
1 TAAAAAAATAAAAAAATT
**
21033408 TAAAAATTTACAAAAAATT
1 TAAAAAAATA-AAAAAATT
*
21033427 TAAAAAAATACAAAAATT
1 TAAAAAAATAAAAAAATT
21033445 ATTTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATAAAAAAATT
Found at i:21033452 original size:19 final size:17
Alignment explanation
Indices: 21033393--21033454 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 17
21033383 AAAAACCTAA
21033393 AAAAATA-AAAAAATTT
1 AAAAATACAAAAAATTT
21033409 AAAAATTTACAAAAAATTT
1 AAAAA--TACAAAAAATTT
21033428 AAAAAAATACAAAAATTATTT
1 --AAAAATACAAAAA--ATTT
21033449 AAAAAT
1 AAAAAT
21033455 TACGAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.13
18 2 0.05
19 23 0.59
21 9 0.23
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATACAAAAAATTT
Found at i:21033657 original size:19 final size:18
Alignment explanation
Indices: 21033635--21033682 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
21033625 TTCTAATATT
21033635 TTTTAATTATTTTAGTAAA
1 TTTTAATT-TTTTAGTAAA
* * *
21033654 TTTTTATTTTTTTGTAAT
1 TTTTAATTTTTTAGTAAA
21033672 TTTGTAATTTT
1 TTT-TAATTTT
21033683 ATACTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTTTAGTAAA
Found at i:21033721 original size:19 final size:19
Alignment explanation
Indices: 21033671--21033725 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
21033661 TTTTTTGTAA
* *
21033671 TTTTGTAATTTTATACTCTT
1 TTTTGTAATTTT-TAATCAT
* *
21033691 TTTTTTCTATTTTTAATCAT
1 TTTTGT-AATTTTTAATCAT
21033711 TTTTGTAATTTTTAA
1 TTTTGTAATTTTTAA
21033726 ATAACTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTGTAATTTTTAATCAT
Found at i:21033765 original size:26 final size:26
Alignment explanation
Indices: 21033731--21033782 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21033721 TTTAAATAAC
*
21033731 TTTTTTGTAATTATATTTATTGTAAA
1 TTTTGTGTAATTATATTTATTGTAAA
* * *
21033757 TTTTGTGTAATTTTTTTTATTTTAAA
1 TTTTGTGTAATTATATTTATTGTAAA
21033783 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (26 bp):
TTTTGTGTAATTATATTTATTGTAAA
Found at i:21044984 original size:45 final size:45
Alignment explanation
Indices: 21044919--21045006 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
21044909 TTCACTAACG
*
21044919 GTACTCATTTATTTCTGAGTTCTTTAATTTCCCGAACTAGAATCT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
21044964 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
21045007 ATTTCTTACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (45 bp):
GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
Found at i:21045373 original size:17 final size:17
Alignment explanation
Indices: 21045333--21045375 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
21045323 AAGTTCTAAT
**
21045333 GAAAAAAAAGATTAAAA
1 GAAAAAAAAGAAGAAAA
* *
21045350 TATAAAAAAGAAGAAAA
1 GAAAAAAAAGAAGAAAA
21045367 GAAAAAAAA
1 GAAAAAAAA
21045376 TCATCAAAGT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAA
Found at i:21045462 original size:20 final size:19
Alignment explanation
Indices: 21045439--21045480 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
21045429 GAAAAATAAT
*
21045439 AAAATAGAAGACAAAAAGTA
1 AAAAGAGAAGACAAAAA-TA
*
21045459 AAAAGAGAAGAGAAAAATA
1 AAAAGAGAAGACAAAAATA
21045478 AAA
1 AAA
21045481 TGTAATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAGAGAAGACAAAAATA
Found at i:21051386 original size:25 final size:25
Alignment explanation
Indices: 21051358--21051418 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
21051348 TAAAATATGT
* *
21051358 TATGTTATGATTCGATATAACATGA
1 TATGTTAAGATTCAATATAACATGA
* * *
21051383 TATGCTAAGATTCAATATGATATGA
1 TATGTTAAGATTCAATATAACATGA
*
21051408 TACGTTAAGAT
1 TATGTTAAGAT
21051419 ATGATTTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (25 bp):
TATGTTAAGATTCAATATAACATGA
Found at i:21054147 original size:26 final size:26
Alignment explanation
Indices: 21054113--21054176 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
21054103 TGTTAATTTC
*
21054113 AAGACTTATTTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
21054139 AAGACTTATGTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
21054165 AAGACTTA-GTAA
1 AAGACTTATGTAA
21054177 AACCATAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (26 bp):
AAGACTTATGTAATGTTAGTGATTCA
Found at i:21057079 original size:16 final size:16
Alignment explanation
Indices: 21057031--21057081 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
21057021 TTAAAAAATG
21057031 TTTATAT-TATTTTAA
1 TTTATATATATTTTAA
*
21057046 TTTA-ATAT-TTAATAA
1 TTTATATATATT-TTAA
*
21057061 TTTATATATATTTTTA
1 TTTATATATATTTTAA
21057077 TTTAT
1 TTTAT
21057082 TGAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 11 0.38
17 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATATATATTTTAA
Found at i:21060158 original size:73 final size:73
Alignment explanation
Indices: 21060081--21060231 Score: 178
Period size: 73 Copynumber: 2.1 Consensus size: 73
21060071 GTATAACAGA
* * * * *
21060081 AAGCTCATAAGAGCCACAT-TTAGGAAGCTCATGTGAGCCAATAACGGGTAGCTCTGAAGAGCCA
1 AAGCTCAGAAGAGCCACATATTAGGAAGCTCAAGCGAGCC-ATAACGGGAAGCTCCGAAGAGCCA
21060145 TTAATCAGG
65 TTAATCAGG
* * * * * * *
21060154 AAGCTCCGGATAGCCATATATTAGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAGCCAT
1 AAGCTCAGAAGAGCCACATATTAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAGCCAT
21060219 TAATCAGG
66 TAATCAGG
21060227 AAGCT
1 AAGCT
21060232 TACAAAGAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 48 0.74
74 17 0.26
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (73 bp):
AAGCTCAGAAGAGCCACATATTAGGAAGCTCAAGCGAGCCATAACGGGAAGCTCCGAAGAGCCAT
TAATCAGG
Found at i:21060168 original size:25 final size:24
Alignment explanation
Indices: 21060138--21060231 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
21060128 GTAGCTCTGA
21060138 AGAGCCATTAATCAGGAAGCTCCGG
1 AGAGCCA-TAATCAGGAAGCTCCGG
* * * **
21060163 ATAGCCATATATTAGGAAGTTCAAG
1 AGAGCCATA-ATCAGGAAGCTCCGG
* *
21060188 CGAGCCAT-ATCGGGAAGCTCCGG
1 AGAGCCATAATCAGGAAGCTCCGG
21060211 AGAGCCATTAATCAGGAAGCT
1 AGAGCCA-TAATCAGGAAGCT
21060232 TACAAAGAGC
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
23 16 0.31
24 3 0.06
25 33 0.63
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
AGAGCCATAATCAGGAAGCTCCGG
Found at i:21060247 original size:26 final size:26
Alignment explanation
Indices: 21060211--21060283 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
21060201 GAAGCTCCGG
21060211 AGAGCCATTAATCAGGAAGCTTACAA
1 AGAGCCATTAATCAGGAAGCTTACAA
* *
21060237 AGAGCCTTTAATCGGGAAGCTTACAA
1 AGAGCCATTAATCAGGAAGCTTACAA
*
21060263 ATAGCCA-TATATCAGG-AGCTT
1 AGAGCCATTA-ATCAGGAAGCTT
21060284 CCTGATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTTACAA
Found at i:21062183 original size:28 final size:29
Alignment explanation
Indices: 21062151--21062214 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
21062141 AATACATTTT
*
21062151 TAAAATTTTTAAAATTCA-AAAAATATTA
1 TAAAATTTTTAAAAATCATAAAAATATTA
** *
21062179 TAAAAAATTTAAAAATCATTAAAATTATTA
1 TAAAATTTTTAAAAATCA-TAAAAATATTA
21062209 -AAAATT
1 TAAAATT
21062215 ATTTTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 15 0.54
29 4 0.14
30 9 0.32
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAATTTTTAAAAATCATAAAAATATTA
Found at i:21063585 original size:43 final size:43
Alignment explanation
Indices: 21063537--21063699 Score: 247
Period size: 43 Copynumber: 3.8 Consensus size: 43
21063527 GCGTCGCTAA
* *
21063537 CTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
21063580 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACC-AGAAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAG-AC
* * * *
21063623 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAATACCAGGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
*
21063666 CTTTAGCGGCGCTTTTACCACAAATGCCGCTAAA
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA
21063700 AACATGACTT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
42 2 0.02
43 106 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
Found at i:21063667 original size:86 final size:86
Alignment explanation
Indices: 21063537--21063699 Score: 272
Period size: 86 Copynumber: 1.9 Consensus size: 86
21063527 GCGTCGCTAA
* * *
21063537 CTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACA
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACA
21063602 AACGCCGCTAAAGACCAGAAC
66 AACGCCGCTAAAGACCAGAAC
* *
21063623 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAATACCAGGACCTTTAGCGGCGCTTTTACCACA
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACA
*
21063688 AATGCCGCTAAA
66 AACGCCGCTAAA
21063700 AACATGACTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACA
AACGCCGCTAAAGACCAGAAC
Found at i:21063921 original size:18 final size:18
Alignment explanation
Indices: 21063898--21063956 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
21063888 TTAAAACAAG
21063898 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
21063916 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
21063933 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
21063951 TTACAT
1 TTACAT
21063957 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:21070025 original size:7 final size:7
Alignment explanation
Indices: 21070015--21070059 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
21070005 CACTAACTCT
21070015 TAACCCC
1 TAACCCC
*
21070022 TAACCTC
1 TAACCCC
*
21070029 TAACCCA
1 TAACCCC
21070036 TAACCCC
1 TAACCCC
**
21070043 TAACTAC
1 TAACCCC
21070050 TAACCCC
1 TAACCCC
21070057 TAA
1 TAA
21070060 ATCTTATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:21070031 original size:21 final size:21
Alignment explanation
Indices: 21070015--21070055 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21070005 CACTAACTCT
21070015 TAACCCCTAACCTCTAACCCA
1 TAACCCCTAACCTCTAACCCA
21070036 TAACCCCTAA-CTACTAACCC
1 TAACCCCTAACCT-CTAACCC
21070056 CTAAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCCCTAACCTCTAACCCA
Found at i:21070134 original size:20 final size:20
Alignment explanation
Indices: 21070102--21070145 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21070092 ATTAATCTAG
21070102 ACCCTAAATCCTAAACCCTA
1 ACCCTAAATCCTAAACCCTA
*
21070122 ACCC-AAATCCCTAACCCCTA
1 ACCCTAAAT-CCTAAACCCTA
21070142 ACCC
1 ACCC
21070146 CTACACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (20 bp):
ACCCTAAATCCTAAACCCTA
Found at i:21070194 original size:88 final size:92
Alignment explanation
Indices: 21070023--21070197 Score: 241
Period size: 88 Copynumber: 1.9 Consensus size: 92
21070013 CTTAACCCCT
* *
21070023 AACCTCTAACCCATAACCCCTAACTACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAAC
1 AACCTCTAACCCATAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAC
*
21070088 ACTAATTAATCTAGACCCTAAATCCTA
66 ACTAATTAATCTAAACCCTAAATCCTA
* * * * * *
21070115 AACC-CTAACCCA-AATCCCTAACCCCTAACCCCTACACCTTA-TTCA-ATATAAATTAGAACAC
1 AACCTCTAACCCATAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAC
21070176 ACTAATTAATCTAAACCCTAAA
66 ACTAATTAATCTAAACCCTAAA
21070198 CTCTAACCTG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
88 35 0.47
89 3 0.04
90 24 0.32
91 8 0.11
92 4 0.05
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (92 bp):
AACCTCTAACCCATAACCCCTAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAC
ACTAATTAATCTAAACCCTAAATCCTA
Found at i:21070824 original size:41 final size:41
Alignment explanation
Indices: 21070760--21070915 Score: 249
Period size: 41 Copynumber: 3.8 Consensus size: 41
21070750 TCAAAAACGG
* * * *
21070760 GCATTAGCGGCGCTTTTTAAAAAACGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
*
21070801 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
**
21070842 GCATTAGCGATGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
21070883 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
21070916 GCGGCGCTTA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
Found at i:21070918 original size:27 final size:27
Alignment explanation
Indices: 21070888--21070942 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21070878 CCTGAGCATT
*
21070888 AGCGGCGCTTCTTCAAAAACGCCGCTA
1 AGCGGCGCTTATTCAAAAACGCCGCTA
21070915 AGCGGCGCTTATTCAAAAACGCCGCTA
1 AGCGGCGCTTATTCAAAAACGCCGCTA
21070942 A
1 A
21070943 AGGCCCGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (27 bp):
AGCGGCGCTTATTCAAAAACGCCGCTA
Found at i:21070953 original size:109 final size:109
Alignment explanation
Indices: 21070806--21071024 Score: 375
Period size: 109 Copynumber: 2.0 Consensus size: 109
21070796 CCCGAGCATT
* * * * *
21070806 AGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGAGCATTAGCGATGCTTCTTCAAAAACGCCG
1 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGACGCTTATTCAAAAACGCCG
*
21070871 CTAAAGGCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
66 CTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
*
21070915 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTCAAAAACGCCG
1 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGACGCTTATTCAAAAACGCCG
21070980 CTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
66 CTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
21071024 A
1 A
21071025 AGGCCCCAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.19
Consensus pattern (109 bp):
AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGACGCTTATTCAAAAACGCCG
CTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
Found at i:21070971 original size:68 final size:68
Alignment explanation
Indices: 21070853--21070983 Score: 235
Period size: 68 Copynumber: 1.9 Consensus size: 68
21070843 CATTAGCGAT
* * *
21070853 GCTTCTTCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAGC
1 GCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAGC
21070918 GGC
66 GGC
21070921 GCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAA
1 GCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAA
21070984 AGGCCCGAGC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (68 bp):
GCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAGC
GGC
Found at i:21070972 original size:41 final size:41
Alignment explanation
Indices: 21070915--21071030 Score: 223
Period size: 41 Copynumber: 2.8 Consensus size: 41
21070905 AACGCCGCTA
21070915 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATT
1 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATT
21070956 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATT
1 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATT
*
21070997 AGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
21071031 CAAAAACTCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.16
Consensus pattern (41 bp):
AGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATT
Found at i:21071190 original size:40 final size:39
Alignment explanation
Indices: 21071071--21071200 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
21071061 TAGGCTTGTT
* *
21071071 GCGGCGCTTTTCAAAAAACGCCGCTAATGCTT-ATTTTTA
1 GCGGCG-TTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
* * **
21071110 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGACCTTTA
1 GCGGCGTTTT-TAAAAAGCGCCGCTAATGCTTGATTTTTA
*
21071150 GCGACGTTTTTAGAAAAGCGCC-CTTAATGCTTGATTTTTA
1 GCGGCGTTTTTA-AAAAGCGCCGC-TAATGCTTGATTTTTA
*
21071190 GTGGCGTTTTT
1 GCGGCGTTTTT
21071201 TGTCTAAACG
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.05
39 27 0.36
40 45 0.59
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
Found at i:21075032 original size:120 final size:120
Alignment explanation
Indices: 21074926--21075331 Score: 627
Period size: 120 Copynumber: 3.4 Consensus size: 120
21074916 TAAGTAATTG
* * *
21074926 AAATTATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATGGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
* * *
21074990 TATATTATGATTTTAGAAAATTCATATAAGAATTTTTAATATTAATAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAAATTTATT
* *
21075045 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
*
21075110 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAAATTTATT
* * *
21075165 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATT
* * * * *
21075229 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAAATTTATT
*
21075285 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGCTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
21075332 ATATGATTAA
Statistics
Matches: 268, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
119 16 0.06
120 251 0.94
121 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAAATTTATT
Found at i:21075059 original size:18 final size:18
Alignment explanation
Indices: 21075025--21075071 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
21075015 ATAAGAATTT
21075025 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
21075043 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
21075061 TTAAATTATAT
1 TTAAATTATAT
21075072 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:21075110 original size:41 final size:41
Alignment explanation
Indices: 21074932--21075112 Score: 105
Period size: 41 Copynumber: 4.5 Consensus size: 41
21074922 ATTGAAATTA
*
21074932 TATATTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
1 TATATTTTA-TAGTATTATATTTAATAATAATTATGTTAAAT
* * * * *
21074973 TATATTTCATGGTATTATATATT-ATGAT-TTTA-G-AAAAT
1 TATATTTTATAGTATTATAT-TTAATAATAATTATGTTAAAT
* * * *
21075011 TCATA---TA-AGAATT-T-TTAATATTAATAATTTTATTAAAT
1 T-ATATTTTATAGTATTATATT--TAATAATAATTATGTTAAAT
* *
21075049 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
1 TATAT-TTTATAGT--ATTATATTTAATAATAATTATGTTAAAT
21075093 TATATTTTATAGTATTATAT
1 TATATTTTATAGTATTATAT
21075113 ATTATGATTT
Statistics
Matches: 99, Mismatches: 23, Indels: 36
0.63 0.15 0.23
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 2 0.02
35 7 0.07
36 3 0.03
37 3 0.03
38 10 0.10
39 4 0.04
40 4 0.04
41 27 0.27
42 3 0.03
43 6 0.06
44 25 0.25
45 1 0.01
46 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (41 bp):
TATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
Found at i:21075305 original size:18 final size:17
Alignment explanation
Indices: 21075277--21075311 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21075267 ATTATTAAGA
*
21075277 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21075294 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21075312 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21075501 original size:39 final size:40
Alignment explanation
Indices: 21075458--21075562 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
21075448 TTCCCTTATG
21075458 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
21075497 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
21075542 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
21075563 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:21075556 original size:45 final size:44
Alignment explanation
Indices: 21075456--21075565 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
21075446 TTTTCCCTTA
21075456 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
21075495 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
21075540 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
21075566 CCTCTATTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:21075565 original size:16 final size:16
Alignment explanation
Indices: 21075544--21075600 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
21075534 TTGATTTGCT
21075544 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
21075560 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
*
21075576 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
21075592 AATACACCT
1 ATTACACCT
21075601 ATAATCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:21075605 original size:16 final size:16
Alignment explanation
Indices: 21075546--21075613 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
21075536 GATTTGCTAT
* *
21075546 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
* * *
21075562 TACACCTCTATTTCAT
1 TACACCTCTAATCCAA
21075578 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
21075594 TACACCTATAATCCAA
1 TACACCTCTAATCCAA
21075610 TACA
1 TACA
21075614 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21076129 original size:9 final size:9
Alignment explanation
Indices: 21076115--21076145 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21076105 GTAGTAATTC
21076115 AATTCGGTT
1 AATTCGGTT
*
21076124 AATTCGGGT
1 AATTCGGTT
21076133 AATTCGGTT
1 AATTCGGTT
21076142 AATT
1 AATT
21076146 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:21076790 original size:36 final size:36
Alignment explanation
Indices: 21076743--21076817 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
21076733 ATTAATTATC
*
21076743 TCTTAGTACGGGATTCAAATGATATTCCCGTTTGTT
1 TCTTAGTACGGGATTCAAATAATATTCCCGTTTGTT
21076779 TCTTAGTACGGGATTCAAATAATATTCCCGTTTGTT
1 TCTTAGTACGGGATTCAAATAATATTCCCGTTTGTT
21076815 TCT
1 TCT
21076818 CTTTAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (36 bp):
TCTTAGTACGGGATTCAAATAATATTCCCGTTTGTT
Found at i:21077677 original size:43 final size:43
Alignment explanation
Indices: 21077602--21077710 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 43
21077592 AATGTCATAT
* * * * *
21077602 CCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAA
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
* **
21077645 CCCAGCCATGGTCTTACACGAAATCACATATCGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
*
21077688 CCTAGACATGGTCTTACAC-AAAT
1 CCCAGACATGGTCTTACACGAAAT
21077711 TCTTATATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 4 0.07
43 52 0.93
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATAA
Found at i:21084595 original size:5 final size:5
Alignment explanation
Indices: 21084585--21084610 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21084575 TGAGCATTCG
21084585 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
21084611 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:21085123 original size:19 final size:19
Alignment explanation
Indices: 21085090--21085137 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
21085080 TAAACAATTC
21085090 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
21085107 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
21085126 AATAATATAAAT
1 AATAATATAAAT
21085138 AGAAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:21085648 original size:9 final size:9
Alignment explanation
Indices: 21085634--21085670 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21085624 TATAGTTTGA
21085634 TATTCGAAT
1 TATTCGAAT
21085643 TATTCGAAT
1 TATTCGAAT
*
21085652 TATTCGAGT
1 TATTCGAAT
21085661 TATTCGAAT
1 TATTCGAAT
21085670 T
1 T
21085671 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21090961 original size:12 final size:12
Alignment explanation
Indices: 21090934--21090974 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
21090924 CAAATGAAAT
*
21090934 ATTTCTCATTTTC
1 ATTTCT-ATTTCC
21090947 ATTTCTATTTCC
1 ATTTCTATTTCC
*
21090959 ATTTCCATTTCC
1 ATTTCTATTTCC
21090971 ATTT
1 ATTT
21090975 TTTTGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTATTTCC
Found at i:21090967 original size:18 final size:19
Alignment explanation
Indices: 21090933--21090974 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
21090923 GCAAATGAAA
*
21090933 TATTTCTCATTTTCATTTC
1 TATTTCTCATTTCCATTTC
21090952 TATTTC-CATTTCCATTTC
1 TATTTCTCATTTCCATTTC
*
21090970 CATTT
1 TATTT
21090975 TTTTGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTCTCATTTCCATTTC
Found at i:21092533 original size:28 final size:28
Alignment explanation
Indices: 21092501--21092565 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
21092491 GTCTGTCACG
**
21092501 GGCTATCTTAGGTGGAATGTCCGCCAAA
1 GGCTATCTTAGGTCAAATGTCCGCCAAA
* * *
21092529 GGCTATTTTAGGTCAAATGTCTGCCAAT
1 GGCTATCTTAGGTCAAATGTCCGCCAAA
*
21092557 GACTATCTT
1 GGCTATCTT
21092566 GAAGATGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (28 bp):
GGCTATCTTAGGTCAAATGTCCGCCAAA
Found at i:21095736 original size:43 final size:43
Alignment explanation
Indices: 21095651--21095837 Score: 250
Period size: 43 Copynumber: 4.3 Consensus size: 43
21095641 ACGTCGCTAA
* * * * *
21095651 CTTTTGCGGCGCTTACAGAAAAAAAACGCCTCTAAAGGTCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAAACGCCGCTAATGATCATGTT
*
21095696 CTTTAGCGGCGCTTAGGAAAAAAACGTCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* * *
21095739 CTTTAGCAGCGCTTAGGAAAAAAATGCCGTTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* *
21095782 CTTTAGCAGCGCTTAGG-AAAAAACGCCCCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
21095824 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
21095838 CCGCTAAAGA
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 35 0.27
43 80 0.62
45 13 0.10
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
Found at i:21096427 original size:21 final size:21
Alignment explanation
Indices: 21096403--21096464 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
21096393 CTCTCGCTGT
*
21096403 TTCTCTCGCTGCGGCCTCTGC
1 TTCTCTCGCTGCAGCCTCTGC
*
21096424 TTCTCTTGCTGCAGCCTCTGC
1 TTCTCTCGCTGCAGCCTCTGC
* *
21096445 TTCCCTCGCTGCTGCCTCTG
1 TTCTCTCGCTGCAGCCTCTG
21096465 TTTTAAATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.02, C:0.42, G:0.21, T:0.35
Consensus pattern (21 bp):
TTCTCTCGCTGCAGCCTCTGC
Found at i:21099768 original size:10 final size:10
Alignment explanation
Indices: 21099753--21099781 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21099743 ATTAATAACT
21099753 ATATATATCC
1 ATATATATCC
21099763 ATATATATCC
1 ATATATATCC
21099773 ATATATATC
1 ATATATATC
21099782 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATCC
Found at i:21101219 original size:2 final size:2
Alignment explanation
Indices: 21101214--21101244 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21101204 ACACACCTAT
21101214 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 T
21101245 CTATTAATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21102500 original size:41 final size:40
Alignment explanation
Indices: 21102453--21102675 Score: 248
Period size: 41 Copynumber: 5.5 Consensus size: 40
21102443 GCGCTTCGGC
* * *
21102453 AAAAACGCCGCTAAAGGTAAATGCATTAGCGGCGCTTAGCT
1 AAAAACGCCGCTAAAGGTAGA-GAATTAGCGGCGCTTAGAT
* * * *
21102494 ACAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGAT
1 AAAAACGCCGCTAAAGG-TAGAGAATTAGCGGCGCTTAGAT
* * *
21102535 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGT-AGAGAATTAGCGGCGCTTAGAT
* *
21102576 AAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTGAGAT
1 AAAAACGCCGCTAAAGG-TAGAGAATTAGCGGCGCTTAGAT
** * *
21102617 AAAAACGCCGCTAAATATCCGAGTATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGT-AGAGAATTAGCGGCGCTTAGAT
*
21102658 AAAAACGCTGCTAAAGGT
1 AAAAACGCCGCTAAAGGT
21102676 TTAAAAAATC
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
41 148 0.99
42 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGTAGAGAATTAGCGGCGCTTAGAT
Found at i:21102582 original size:82 final size:82
Alignment explanation
Indices: 21102453--21102674 Score: 338
Period size: 82 Copynumber: 2.7 Consensus size: 82
21102443 GCGCTTCGGC
* ** * *
21102453 AAAAACGCCGCTAAAGGT-AAATGCATTAGCGGCGCTTAGCTACAAACGCCGCTAAAGGCCAGAG
1 AAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAG
*
21102517 AATTAGTGGCGCTCAGAT
65 AATTAGCGGCGCTCAGAT
21102535 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
*
21102600 ATTAGCGGCGCTGAGAT
66 ATTAGCGGCGCTCAGAT
* * *
21102617 AAAAACGCCGCTAAATATCCGAGTATTAGCGGCGCTTAGATAAAAACGCTGCTAAAGG
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
21102675 TTTAAAAAAT
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
82 128 0.99
83 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
ATTAGCGGCGCTCAGAT
Found at i:21107941 original size:19 final size:19
Alignment explanation
Indices: 21107916--21107977 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
21107906 AATGGAAGAT
*
21107916 TTATAAATAAATAATAATC
1 TTATAAATAAATAATAATA
* *
21107935 TTTTAAATATAATTA-AATA
1 TTATAAATA-AATAATAATA
*
21107954 TTATAAATAAATATTAATAA
1 TTATAAATAAATAATAAT-A
21107974 TTAT
1 TTAT
21107978 TGAGGTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.09
19 22 0.65
20 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATAAATAAATAATAATA
Found at i:21108920 original size:4 final size:4
Alignment explanation
Indices: 21108911--21108939 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
21108901 CCAAAATATA
21108911 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
21108940 GTACTTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:21116918 original size:33 final size:32
Alignment explanation
Indices: 21116841--21116918 Score: 75
Period size: 33 Copynumber: 2.4 Consensus size: 32
21116831 TTGCAATGTC
* *
21116841 TAAACGTAAGACCATAGCTGGGCTATGGCATT
1 TAAACGTAAGACCATAACTGGGCTATGGCAAT
* * * * *
21116873 TTAATGAAAAGACTATAACTGGGTTATGGCACAT
1 TAAACG-TAAGACCATAACTGGGCTATGGCA-AT
21116907 TAAACGTAAGAC
1 TAAACGTAAGAC
21116919 AATGGTTGGA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
32 4 0.12
33 25 0.74
34 5 0.15
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (32 bp):
TAAACGTAAGACCATAACTGGGCTATGGCAAT
Found at i:21117000 original size:33 final size:33
Alignment explanation
Indices: 21116950--21117026 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
21116940 TATATACATG
* * * *
21116950 TGTAAGGCCATAGCTGGGCTATGGCA-TTCTAA
1 TGTAAGACCATAACTGGGCTATGGCACTACAAA
*
21116982 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCACTACAAA
21117016 TGTAAGACCAT
1 TGTAAGACCAT
21117027 GGTAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.79
34 6 0.16
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (33 bp):
TGTAAGACCATAACTGGGCTATGGCACTACAAA
Found at i:21122985 original size:19 final size:19
Alignment explanation
Indices: 21122963--21123050 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
21122953 CATACTAGCG
*
21122963 CACGAAGAGCATCCTGGCA
1 CACGAAGCGCATCCTGGCA
21122982 CACGAAGCGCATCCTGGCA
1 CACGAAGCGCATCCTGGCA
*
21123001 CATGAAGCGCATCCTGGCA
1 CACGAAGCGCATCCTGGCA
* * *
21123020 CATGAAGTGCATCATGGCA
1 CACGAAGCGCATCCTGGCA
* *
21123039 CATGAACCGCAT
1 CACGAAGCGCAT
21123051 AAACCCATAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.15
Consensus pattern (19 bp):
CACGAAGCGCATCCTGGCA
Found at i:21123013 original size:38 final size:38
Alignment explanation
Indices: 21122966--21123050 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
21122956 ACTAGCGCAC
* *
21122966 GAAGAGCATCCTGGCACACGAAGCGCATCCTGGCACAT
1 GAAGCGCATCCTGGCACACGAAGCGCATCATGGCACAT
* *
21123004 GAAGCGCATCCTGGCACATGAAGTGCATCATGGCACAT
1 GAAGCGCATCCTGGCACACGAAGCGCATCATGGCACAT
*
21123042 GAACCGCAT
1 GAAGCGCAT
21123051 AAACCCATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.15
Consensus pattern (38 bp):
GAAGCGCATCCTGGCACACGAAGCGCATCATGGCACAT
Found at i:21126885 original size:13 final size:13
Alignment explanation
Indices: 21126867--21126919 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
21126857 AGTTTAGCAA
21126867 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
21126880 TGCTTTTGAAAGG
1 TGCTTTTGAAAAG
*
21126893 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
*
21126906 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
21126919 T
1 T
21126920 TTGGTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 29 0.88
14 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:21127435 original size:13 final size:14
Alignment explanation
Indices: 21127419--21127447 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21127409 CTCCTTTTAG
21127419 AAGTGCTTTT-AAA
1 AAGTGCTTTTGAAA
21127432 AAGTGCTTTTGAAA
1 AAGTGCTTTTGAAA
21127446 AA
1 AA
21127448 TCAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (14 bp):
AAGTGCTTTTGAAA
Found at i:21127774 original size:19 final size:19
Alignment explanation
Indices: 21127735--21127774 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
21127725 CACCAATGAA
*
21127735 TTAAAAAATATTAATTTTT
1 TTAAAAAATATTAATTATT
21127754 TTAATAAAATATT-ATTATT
1 TTAA-AAAATATTAATTATT
21127773 TT
1 TT
21127775 TAAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAAAATATTAATTATT
Found at i:21127780 original size:21 final size:20
Alignment explanation
Indices: 21127735--21127777 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21127725 CACCAATGAA
21127735 TTAA-AAAATATTAATTTTT
1 TTAATAAAATATTAATTTTT
21127754 TTAATAAAATATT-ATTATTT
1 TTAATAAAATATTAATT-TTT
21127774 TTAA
1 TTAA
21127778 ATATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATAAAATATTAATTTTT
Found at i:21128259 original size:21 final size:22
Alignment explanation
Indices: 21128232--21128280 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
21128222 TTTGGATTAG
21128232 TATTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTGTAAT
21128254 T-TTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTGTAAT
21128275 TATTTT
1 TATTTT
21128281 ATAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (22 bp):
TATTTTGTATGAATATTGTAAT
Found at i:21128310 original size:33 final size:32
Alignment explanation
Indices: 21128273--21128369 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 32
21128263 GAATATTGTA
21128273 ATTATTTTATAATTAATTTGTTAGTAATTTAGG
1 ATTATTTTATAATTAATTT-TTAGTAATTTAGG
*
21128306 ATTATGTTATAA--AATTTTGT-GT--TTGTA--
1 ATTATTTTATAATTAATTTT-TAGTAATT-TAGG
*
21128333 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATTTTATAATTAATTT-TTAGTAATTTAGG
21128366 ATTA
1 ATTA
21128370 AGTTATAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
27 10 0.20
28 2 0.04
29 8 0.16
30 6 0.12
31 8 0.16
32 2 0.04
33 15 0.29
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
ATTATTTTATAATTAATTTTTAGTAATTTAGG
Found at i:21128339 original size:60 final size:60
Alignment explanation
Indices: 21128268--21128389 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 60
21128258 TGTATGAATA
* * *
21128268 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAAATT-TTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAT-AAATTGTTGTGT
21128328 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
21128388 TT
1 TT
21128390 AGTTTAGTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 5 0.09
60 53 0.91
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGT
Found at i:21128524 original size:16 final size:16
Alignment explanation
Indices: 21128503--21128540 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
21128493 TTAACTCATT
21128503 TAATTTTTATATAATG
1 TAATTTTTATATAATG
21128519 TAA-TTTTATATAATG
1 TAATTTTTATATAATG
21128534 TAATTTT
1 TAATTTT
21128541 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
TAATTTTTATATAATG
Found at i:21128527 original size:15 final size:15
Alignment explanation
Indices: 21128507--21128542 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
21128497 CTCATTTAAT
21128507 TTTTATATAATGTAA
1 TTTTATATAATGTAA
21128522 TTTTATATAATGTAA
1 TTTTATATAATGTAA
21128537 TTTTAT
1 TTTTAT
21128543 TTGATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:21130114 original size:6 final size:6
Alignment explanation
Indices: 21130088--21130142 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
21130078 CATGCACCAA
* * * *
21130088 AGCCAA AGCCAG AGCCAG AGCCGG AGCCAG AGCTAG AGCCGG AGCCAG
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG
*
21130136 AGGCAG A
1 AGCCAG A
21130143 AACGAAACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.33, C:0.29, G:0.36, T:0.02
Consensus pattern (6 bp):
AGCCAG
Found at i:21130115 original size:18 final size:18
Alignment explanation
Indices: 21130094--21130142 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
21130084 CCAAAGCCAA
21130094 AGCCAGAGCCAGAGCCGG
1 AGCCAGAGCCAGAGCCGG
*
21130112 AGCCAGAGCTAGAGCCGG
1 AGCCAGAGCCAGAGCCGG
*
21130130 AGCCAGAGGCAGA
1 AGCCAGAGCCAGA
21130143 AACGAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.39, T:0.02
Consensus pattern (18 bp):
AGCCAGAGCCAGAGCCGG
Found at i:21133728 original size:27 final size:27
Alignment explanation
Indices: 21133676--21133753 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
21133666 GAAAAATAAG
* *
21133676 ACCATTGGCGCCTCTCAACATA-GCACA
1 ACCAATGGCGCCTCTC-AGATAGGCACA
* * *
21133703 ACTAATGGCGCCTGTCAGATAGGCACC
1 ACCAATGGCGCCTCTCAGATAGGCACA
* *
21133730 ACCATTGGCGCCTCTGAGATAGGC
1 ACCAATGGCGCCTCTCAGATAGGC
21133754 GCCACTACTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (27 bp):
ACCAATGGCGCCTCTCAGATAGGCACA
Found at i:21133834 original size:21 final size:22
Alignment explanation
Indices: 21133795--21133835 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21133785 TTGACCCTGG
21133795 AAAAAATTAATTATATTTTATT
1 AAAAAATTAATTATATTTTATT
*
21133817 AAAAAATTAA-TATTTTTTA
1 AAAAAATTAATTATATTTTA
21133836 ATTCAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAAAATTAATTATATTTTATT
Found at i:21134405 original size:22 final size:21
Alignment explanation
Indices: 21134357--21134397 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21134347 ATAAAAAGGA
* *
21134357 ATTAAATTATTTTTTTTTATG
1 ATTAAAATATTTTTTATTATG
21134378 ATTAAAATATTTTTTATTAT
1 ATTAAAATATTTTTTATTAT
21134398 ATTCTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTAAAATATTTTTTATTATG
Found at i:21136649 original size:23 final size:23
Alignment explanation
Indices: 21136623--21136669 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21136613 TTTCTTTGTA
21136623 CATAAATCTAAAATTTGCGACAT
1 CATAAATCTAAAATTTGCGACAT
21136646 CATAAATCTAAAATTTGCGACAT
1 CATAAATCTAAAATTTGCGACAT
21136669 C
1 C
21136670 TATCAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (23 bp):
CATAAATCTAAAATTTGCGACAT
Found at i:21137570 original size:161 final size:161
Alignment explanation
Indices: 21137305--21137783 Score: 775
Period size: 161 Copynumber: 3.0 Consensus size: 161
21137295 CTGGTGAGAA
* *
21137305 GTCCAATGTACAAGTTGCCAAAGATCATTAACCAACAATCAATGAAGTTTCCAGTGTTGGTCAAC
1 GTCCAATGTACAAGTTGCCAAAGATCTTTAACCAACAATCAATGAAGTTTTCAGTGTTGGTCAAC
* *
21137370 TCAAAGAGCTCATCAAAGAAGCTATAAAAGACCAATTTGAAAGTGTTGATCCACATTTATATACA
66 TCAAAGAGCTCATCAAAAAAGCTATAAAAGACCAATTTGAAAGTGTTGATCCACCTTTATATACA
*
21137435 TAATCAAATCCATACACACAAAGGATTGACC
131 TACTCAAATCCATACACACAAAGGATTGACC
*
21137466 GTCCAATGTACAAGTTGCCAAAGATCTTTAACCAACAATCAATGAAGTTTTCAGTGTTGGTTAAC
1 GTCCAATGTACAAGTTGCCAAAGATCTTTAACCAACAATCAATGAAGTTTTCAGTGTTGGTCAAC
* * *
21137531 TCAAAGAGCTCATCAAATAAGCTATAAAAGACCAATTTGAAAGTGTTGATCTACCTTCATATACA
66 TCAAAGAGCTCATCAAAAAAGCTATAAAAGACCAATTTGAAAGTGTTGATCCACCTTTATATACA
* * *
21137596 TACTCAAATCCATACACACGAGGGATTGATC
131 TACTCAAATCCATACACACAAAGGATTGACC
*
21137627 GTCCAATGTACAAGTTGCCAAAAAAT-TTTAACCAACAATCAATGAAGTTTTCA--GTTGGTCAA
1 GTCCAATGTACAAGTTGCC-AAAGATCTTTAACCAACAATCAATGAAGTTTTCAGTGTTGGTCAA
* * *
21137689 CTCAAAGAGCTCCTCAAAAAAGCTATAAAAGGCCAATTTGAAAGTGTTGATCCACCTTTATATAT
65 CTCAAAGAGCTCATCAAAAAAGCTATAAAAGACCAATTTGAAAGTGTTGATCCACCTTTATATAC
*
21137754 ATACTCAAATCCATACACACAAATGATTGA
130 ATACTCAAATCCATACACACAAAGGATTGA
21137784 TCGTTTGAGA
Statistics
Matches: 295, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
159 94 0.32
161 196 0.66
162 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (161 bp):
GTCCAATGTACAAGTTGCCAAAGATCTTTAACCAACAATCAATGAAGTTTTCAGTGTTGGTCAAC
TCAAAGAGCTCATCAAAAAAGCTATAAAAGACCAATTTGAAAGTGTTGATCCACCTTTATATACA
TACTCAAATCCATACACACAAAGGATTGACC
Found at i:21140973 original size:43 final size:40
Alignment explanation
Indices: 21140862--21140977 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 40
21140852 AGCGCCACTA
*
21140862 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCC
1 AAAACG-CGCTATAGATCAA-ACCTTTAGCGGCGCTTTTCCC
*
21140904 ACAAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCC
1 A-AAACGC-GCTATAGATCA-AACCTTTAGCGGCGCTTTT-CCC
*
21140948 GAAAACGTCGCTATAGAACAAACCTTTAGC
1 -AAAACG-CGCTATAGATCAAACCTTTAGC
21140978 AACACTTCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.03
43 43 0.67
44 17 0.27
45 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAACGCGCTATAGATCAAACCTTTAGCGGCGCTTTTCCC
Found at i:21144747 original size:7 final size:7
Alignment explanation
Indices: 21144735--21144870 Score: 76
Period size: 7 Copynumber: 18.7 Consensus size: 7
21144725 ACTAATTAAT
21144735 CTAAACC
1 CTAAACC
21144742 CTAAACCC
1 CTAAA-CC
*
21144750 CTAACCC
1 CTAAACC
*
21144757 CTTAACCC
1 C-TAAACC
*
21144765 CTAACCC
1 CTAAACC
*
21144772 TCTAATCC
1 -CTAAACC
*
21144780 CTAAATC
1 CTAAACC
* *
21144787 TTGAACC
1 CTAAACC
*
21144794 C-CAACC
1 CTAAACC
21144800 CTTAAACC
1 C-TAAACC
* *
21144808 GTAAATC
1 CTAAACC
*
21144815 ATAAACC
1 CTAAACC
21144822 CTAAACC
1 CTAAACC
21144829 CTAAACC
1 CTAAACC
*
21144836 CATAATCC
1 C-TAAACC
21144844 CTAAACC
1 CTAAACC
*
21144851 CATAATCC
1 C-TAAACC
*
21144859 ATAAACC
1 CTAAACC
*
21144866 TTAAA
1 CTAAA
21144871 ATAGCATCTT
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
6 5 0.05
7 62 0.61
8 34 0.34
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:21144758 original size:15 final size:15
Alignment explanation
Indices: 21144735--21144865 Score: 74
Period size: 15 Copynumber: 8.9 Consensus size: 15
21144725 ACTAATTAAT
21144735 CTAAACCCTAAACCC
1 CTAAACCCTAAACCC
* *
21144750 CTAACCCCTTAACCC
1 CTAAACCCTAAACCC
* *
21144765 CT-AACCCTCTAATCC
1 CTAAACCCT-AAACCC
* * *
21144780 CTAAATCTTGAACCC
1 CTAAACCCTAAACCC
21144795 C--AACCCTTAAA-CC
1 CTAAACCC-TAAACCC
* * *
21144808 GTAAATCATAAA-CC
1 CTAAACCCTAAACCC
21144822 CTAAACCCTAAACCC
1 CTAAACCCTAAACCC
* *
21144837 ATAATCCCTAAACCC
1 CTAAACCCTAAACCC
* * *
21144852 ATAATCCATAAACC
1 CTAAACCCTAAACC
21144866 TTAAAATAGC
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
13 5 0.06
14 23 0.26
15 58 0.64
16 4 0.04
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.20
Consensus pattern (15 bp):
CTAAACCCTAAACCC
Found at i:21144776 original size:8 final size:7
Alignment explanation
Indices: 21144735--21144783 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 7
21144725 ACTAATTAAT
*
21144735 CTAAACC
1 CTAACCC
21144742 CTAAACCC
1 CT-AACCC
21144750 CTAACCC
1 CTAACCC
21144757 CTTAACCC
1 C-TAACCC
21144765 CTAACCC
1 CTAACCC
*
21144772 TCTAATCC
1 -CTAACCC
21144780 CTAA
1 CTAA
21144784 ATCTTGAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 18 0.49
8 19 0.51
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAACCC
Found at i:21144860 original size:22 final size:22
Alignment explanation
Indices: 21144735--21144870 Score: 75
Period size: 22 Copynumber: 6.2 Consensus size: 22
21144725 ACTAATTAAT
* *
21144735 CTAAACCCTAAACCCCTAACCC
1 CTAAACCCTAAACCCATAAACC
* * *
21144757 CTTAACCCCT-AACCCTCTAATCC
1 C-TAAACCCTAAACCC-ATAAACC
* * * *
21144780 CTAAATCTTGAACCC--CAACC
1 CTAAACCCTAAACCCATAAACC
* *
21144800 CTTAAACCGTAAA-TCATAAACC
1 C-TAAACCCTAAACCCATAAACC
*
21144822 CTAAACCCTAAACCCATAATCC
1 CTAAACCCTAAACCCATAAACC
*
21144844 CTAAACCC-ATAATCCATAAACC
1 CTAAACCCTA-AACCCATAAACC
*
21144866 TTAAA
1 CTAAA
21144871 ATAGCATCTT
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.06
21 19 0.22
22 45 0.51
23 19 0.22
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (22 bp):
CTAAACCCTAAACCCATAAACC
Found at i:21144906 original size:14 final size:14
Alignment explanation
Indices: 21144889--21144919 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21144879 TTTTAAACCT
21144889 TAAACCCTAAACTA
1 TAAACCCTAAACTA
21144903 TAAACCCTAAACTA
1 TAAACCCTAAACTA
21144917 TAA
1 TAA
21144920 TGATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:21145098 original size:15 final size:15
Alignment explanation
Indices: 21145074--21145107 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21145064 CCTAATGTCT
*
21145074 AACCCCTAACCCATA
1 AACCCATAACCCATA
*
21145089 AACCCATAACCCCTA
1 AACCCATAACCCATA
21145104 AACC
1 AACC
21145108 TTAAATCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (15 bp):
AACCCATAACCCATA
Found at i:21145137 original size:14 final size:14
Alignment explanation
Indices: 21145120--21145156 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21145110 AAATCCCAAC
21145120 CCCTAAACCATAAT
1 CCCTAAACCATAAT
* *
21145134 CCCTAATCCATACT
1 CCCTAAACCATAAT
21145148 CCCTAAACC
1 CCCTAAACC
21145157 TTAAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACCATAAT
Found at i:21145556 original size:40 final size:40
Alignment explanation
Indices: 21145497--21145610 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
21145487 TAAAATATTT
* * *
21145497 TTAGCGGTGCCTTTTCAAAAACGCTACTAAA-TCCCCCAGCA
1 TTAGCGGCG-CTTTTCAAAAACGCCACTAAAGT-CACCAGCA
* * *
21145538 TTAGC-GCGCTTTCTCAAAAATGCCGCTAAAGTTACCAGCA
1 TTAGCGGCGCTTT-TCAAAAACGCCACTAAAGTCACCAGCA
*
21145578 TTAGCGGCGCTTTTTCAAAAAACGCCGCTAAAG
1 TTAGCGGCGC-TTTTC-AAAAACGCCACTAAAG
21145611 ACCCGAAAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
39 4 0.07
40 27 0.44
41 12 0.20
42 18 0.30
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCACTAAAGTCACCAGCA
Found at i:21145609 original size:42 final size:40
Alignment explanation
Indices: 21145532--21145610 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 40
21145522 ACTAAATCCC
*
21145532 CCAGCATTAGCGCGCTTTCTCAAAAATGCCGCTAAAGTTA
1 CCAGCATTAGCGCGCTTTCTCAAAAACGCCGCTAAAGTTA
*
21145572 CCAGCATTAGCGGCGCTTTTTCAAAAAACGCCGCTAAAG
1 CCAGCATTAGC-GCGCTTTCTC-AAAAACGCCGCTAAAG
21145611 ACCCGAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 11 0.31
41 9 0.26
42 15 0.43
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCAGCATTAGCGCGCTTTCTCAAAAACGCCGCTAAAGTTA
Done.