Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 40 of 187
Found at i:11761756 original size:41 final size:41
Alignment explanation
Indices: 11761711--11761843 Score: 212
Period size: 41 Copynumber: 3.2 Consensus size: 41
11761701 GGCTCGGTGC
* * * **
11761711 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
11761752 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
*
11761793 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
11761834 CTAGCAGGCT
1 CTAGCAGGCT
11761844 AAGTGCCAGT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:11765922 original size:20 final size:20
Alignment explanation
Indices: 11765899--11766065 Score: 90
Period size: 20 Copynumber: 8.4 Consensus size: 20
11765889 TTGCACGATT
11765899 GTGCCCCTGTTCGCACTTCG
1 GTGCCCCTGTTCGCACTTCG
* *
11765919 GTGCCCCTGTAT-ACACTT-A
1 GTGCCCCTGT-TCGCACTTCG
* * * ** *
11765938 GTGTCCCTATTTGCACGACT
1 GTGCCCCTGTTCGCACTTCG
* * *
11765958 ATGCCCTTGTTCGAAC-TCTG
1 GTGCCCCTGTTCGCACTTC-G
*
11765978 GTGCCCCTGTTCGCACTTTG
1 GTGCCCCTGTTCGCACTTCG
* *
11765998 GTTCCCCTGTAT-ACACTTCG
1 GTGCCCCTGT-TCGCACTTCG
* * * **
11766018 GTGTCCCTGTTTGCACATAT
1 GTGCCCCTGTTCGCACTTCG
* *
11766038 GTGCCCCTGTTTGTACTTCG
1 GTGCCCCTGTTCGCACTTCG
11766058 GTGCCCCT
1 GTGCCCCT
11766066 AACTGCATGT
Statistics
Matches: 106, Mismatches: 34, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
18 1 0.01
19 13 0.12
20 89 0.84
21 3 0.03
ACGTcount: A:0.11, C:0.33, G:0.21, T:0.35
Consensus pattern (20 bp):
GTGCCCCTGTTCGCACTTCG
Found at i:11768767 original size:28 final size:28
Alignment explanation
Indices: 11768715--11768786 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
11768705 TTAGAACACG
* * **
11768715 CCACAAAGGC-ATCCCTTTCAGAGTTTT
1 CCACAAAGGCTATTCTTTTCAGAGTTCA
*
11768742 CCATAAAGGCTATTCTTTTCAGAGTTCA
1 CCACAAAGGCTATTCTTTTCAGAGTTCA
*
11768770 CCACAAAGGTTATTCTT
1 CCACAAAGGCTATTCTT
11768787 AATTGTCGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 9 0.24
28 28 0.76
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
CCACAAAGGCTATTCTTTTCAGAGTTCA
Found at i:11784173 original size:22 final size:25
Alignment explanation
Indices: 11784148--11784201 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
11784138 TTATAAATTC
11784148 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
11784170 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
11784195 AATTTAA
1 AATTTAA
11784202 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:11785649 original size:13 final size:13
Alignment explanation
Indices: 11785630--11785664 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
11785620 GCCAAAGTTC
11785630 AGGCAAAGCCCAA
1 AGGCAAAGCCCAA
*
11785643 GGGCAAAGCCCAA
1 AGGCAAAGCCCAA
11785656 AGGCAAAGC
1 AGGCAAAGC
11785665 TAGGCCCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.29, T:0.00
Consensus pattern (13 bp):
AGGCAAAGCCCAA
Found at i:11799285 original size:18 final size:18
Alignment explanation
Indices: 11799262--11799297 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11799252 ACATTGCACG
*
11799262 TTAAAGTATAGAAATTAA
1 TTAAAGTATAAAAATTAA
11799280 TTAAAGTATAAAAATTAA
1 TTAAAGTATAAAAATTAA
11799298 ATTGACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
TTAAAGTATAAAAATTAA
Found at i:11823067 original size:245 final size:245
Alignment explanation
Indices: 11822637--11823127 Score: 919
Period size: 245 Copynumber: 2.0 Consensus size: 245
11822627 GCAATTACAC
* *
11822637 ACTACTGAGAATTCATTTGAATATGAATGCACTAAGTGCAGCGCTGATCAAAGGATGTACATGTA
1 ACTACTGAGAACTCATTTGAATATGAATGCACTAAGTGCAGCGCTGATCAAAGGACGTACATGTA
*
11822702 TTAGCAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCACAGGATATTGTCTGAAACTCCGAAC
66 TTAGCAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCACAGGATATTGCCTGAAACTCCGAAC
11822767 CTTGAGGAGCTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAG
131 CTTGAGGAGCTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAG
*
11822832 AAGAATACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAATGGA
196 AAGAATACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAACGGA
* *
11822882 ACTACTGAGAACTCATTTGAATATGAATGCCCTAAGTGCAGCGCTGATCAAAGGACGTACATGTC
1 ACTACTGAGAACTCATTTGAATATGAATGCACTAAGTGCAGCGCTGATCAAAGGACGTACATGTA
*
11822947 TTAGCACAGTTTTTTCAAATTATGGCATGTAGAACAAGCACAGGATATTGCCTGAAACTCCGAAC
66 TTAGCAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCACAGGATATTGCCTGAAACTCCGAAC
11823012 CTTGAGGAGCTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAG
131 CTTGAGGAGCTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAG
11823077 AAGAATACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAACGGA
196 AAGAATACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAACGGA
11823127 A
1 A
11823128 ATGATAAGAA
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
245 239 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (245 bp):
ACTACTGAGAACTCATTTGAATATGAATGCACTAAGTGCAGCGCTGATCAAAGGACGTACATGTA
TTAGCAAAGTTTTTTCAAATTATGGCATGTAGAACAAGCACAGGATATTGCCTGAAACTCCGAAC
CTTGAGGAGCTAGCCACAATTCAGGAACACAGGCAAATGTGGCATAAAATTTCAACTTAACAAAG
AAGAATACAAATGAGAACTATTAGGGGTATATGCTACAACCTAAAACGGA
Found at i:11830925 original size:40 final size:38
Alignment explanation
Indices: 11830855--11830942 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
11830845 AATTTAATAA
* *
11830855 TAAATTAATATAATACTTATCAAGAAAAATATTAGA-T
1 TAAATTAATAGAATACTTATCAAGAAAAATATTAAATT
* *
11830892 TAAATTAATAGAATATTTATTTACAAGATAAATATTAAATT
1 TAAATTAATAGAATACTTA--T-CAAGAAAAATATTAAATT
*
11830933 TAATTTAATA
1 TAAATTAATA
11830943 TTAAGATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 17 0.40
39 1 0.02
40 14 0.33
41 10 0.24
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (38 bp):
TAAATTAATAGAATACTTATCAAGAAAAATATTAAATT
Found at i:11832436 original size:44 final size:44
Alignment explanation
Indices: 11832369--11832573 Score: 286
Period size: 44 Copynumber: 4.5 Consensus size: 44
11832359 TTACATTTAT
* *
11832369 CACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
11832413 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* * * *
11832457 CACTTTTCACTTTTCACTAATCAGATAAGTGTAGCTAAAGTTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
11832501 CACTTATCACTTGTCACTTGTTACTGATCAGATAAGTGTAGC-AAAGCTAC
1 CACTTATCACTTGT--C-----ACTGATCAGATAAGTGTAGCTAAAGCTAC
11832551 CACTTATCACTTGTCACTGATCA
1 CACTTATCACTTGTCACTGATCA
11832574 AAAGTATTCA
Statistics
Matches: 144, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
43 8 0.06
44 94 0.65
46 1 0.01
48 1 0.01
50 21 0.15
51 19 0.13
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:11839401 original size:37 final size:39
Alignment explanation
Indices: 11839346--11839528 Score: 120
Period size: 42 Copynumber: 4.5 Consensus size: 39
11839336 AAAATTAATC
*
11839346 ATATTAATATTAAA-TTAATA-A-AATATTATCTAGATAA
1 ATATTAA-ATTAAATTTAATACATAATAATATCTAGATAA
*
11839383 ATATTAAATTAAATTTAATATCTCATATTAATATCTAGATAA
1 ATATTAAATTAAATTTAATA---CATAATAATATCTAGATAA
* * * ** *
11839425 ATATTTAATTTAATTTAATGTCTCATTTTAATGTCTAGATAA
1 ATATTAAATTAAATTTAA--T-ACATAATAATATCTAGATAA
* * ** **
11839467 ATATTAAATTTAATTTAATGTCTCATTTTAATGGCTAGATAA
1 ATATTAAATTAAATTTAA--T-ACATAATAATATCTAGATAA
*
11839509 ATATTAAATTTAATTTAATA
1 ATATTAAATTAAATTTAATA
11839529 TTAAATTCAT
Statistics
Matches: 127, Mismatches: 10, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
36 6 0.05
37 13 0.10
40 1 0.01
41 1 0.01
42 105 0.83
44 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (39 bp):
ATATTAAATTAAATTTAATACATAATAATATCTAGATAA
Found at i:11839418 original size:42 final size:42
Alignment explanation
Indices: 11839372--11839529 Score: 244
Period size: 42 Copynumber: 3.8 Consensus size: 42
11839362 AATAAAATAT
* *
11839372 TATCTAGATAAATATTAAATTAAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATTTTAA
* *
11839414 TATCTAGATAAATATTTAATTTAATTTAATGTCTCATTTTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATTTTAA
* *
11839456 TGTCTAGATAAATATTAAATTTAATTTAATGTCTCATTTTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATTTTAA
**
11839498 TGGCTAGATAAATATTAAATTTAATTTAATAT
1 TATCTAGATAAATATTAAATTTAATTTAATAT
11839530 TAAATTCATT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (42 bp):
TATCTAGATAAATATTAAATTTAATTTAATATCTCATTTTAA
Found at i:11845739 original size:4 final size:4
Alignment explanation
Indices: 11845730--11845756 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11845720 AATAAAAGAA
11845730 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
11845757 ACGAAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:11845793 original size:12 final size:12
Alignment explanation
Indices: 11845724--11845796 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
11845714 CAAAGAAATA
11845724 AAAGAAA-AA-G
1 AAAGAAAGAAGG
*
11845734 AAAGAAAGAAAG
1 AAAGAAAGAAGG
11845746 AAAGAAAGAA--
1 AAAGAAAGAAGG
*
11845756 AACGAAATAGAAGGG
1 AAAG-AA-AGAA-GG
*
11845771 AAAAAAAAGAAGG
1 -AAAGAAAGAAGG
11845784 AAAGAAAGAAGG
1 AAAGAAAGAAGG
11845796 A
1 A
11845797 GAAAGACAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
10 10 0.20
11 4 0.08
12 27 0.53
13 2 0.04
14 4 0.08
15 2 0.04
16 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.26, T:0.01
Consensus pattern (12 bp):
AAAGAAAGAAGG
Found at i:11846793 original size:40 final size:40
Alignment explanation
Indices: 11846674--11846811 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
11846664 TTTCGAGTCT
* *
11846674 ATGAAACACTGGGTGTCAAATTATTACTTCGGATATATTCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGAT-TATCCG
* * * *
11846715 ATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
* *
11846752 ATGAGACACTGGGTGTCAAATTATTACTTTGAATTATCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
* *
11846792 ATGAGGCACTGGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
11846812 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 18 0.22
38 13 0.16
39 2 0.03
40 34 0.43
41 13 0.16
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
Found at i:11850856 original size:27 final size:25
Alignment explanation
Indices: 11850823--11850886 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
11850813 TTTAGTCATT
*
11850823 GGTGACTTGATTTTCTTGAGTCTATAA
1 GGTGACTTGATTTTCTCGAGT-T-TAA
*
11850850 GGTGACTTG-GTTTCTCGAGTTTAA
1 GGTGACTTGATTTTCTCGAGTTTAA
*
11850874 GTTGACTT-ATTTT
1 GGTGACTTGATTTT
11850887 TATTTACCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 13 0.41
25 1 0.03
26 9 0.28
27 9 0.28
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (25 bp):
GGTGACTTGATTTTCTCGAGTTTAA
Found at i:11852340 original size:21 final size:21
Alignment explanation
Indices: 11852295--11852334 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11852285 AACCCTACTA
*
11852295 TTTTGCTGCTGTTTTTCCATG
1 TTTTGCTACTGTTTTTCCATG
11852316 TTTTGCTACTGTTTTTCCA
1 TTTTGCTACTGTTTTTCCA
11852335 CTTTTTACCA
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:0.07, C:0.20, G:0.15, T:0.57
Consensus pattern (21 bp):
TTTTGCTACTGTTTTTCCATG
Found at i:11853400 original size:23 final size:22
Alignment explanation
Indices: 11853370--11853423 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
11853360 NNNNNNNNCG
11853370 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
11853393 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
11853415 TAC-TAATAA
1 TACATAATAA
11853424 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:11853404 original size:3 final size:3
Alignment explanation
Indices: 11853373--11853443 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
11853363 NNNNNCGTAC
* * * *
11853373 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
11853420 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11853444 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11853930 original size:11 final size:12
Alignment explanation
Indices: 11853910--11853947 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
11853900 AGAAAAAAAA
11853910 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
11853923 GAAGAGAGAAGG
1 GAAGAGAGAAGG
11853935 G-AGAGAGAAGG
1 GAAGAGAGAAGG
11853946 GA
1 GA
11853948 GGGGGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:11854434 original size:8 final size:8
Alignment explanation
Indices: 11854421--11854445 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11854411 GGTGTTCGGC
11854421 GCAAGTGG
1 GCAAGTGG
11854429 GCAAGTGG
1 GCAAGTGG
11854437 GCAAGTGG
1 GCAAGTGG
11854445 G
1 G
11854446 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:11854979 original size:44 final size:44
Alignment explanation
Indices: 11854950--11855245 Score: 112
Period size: 44 Copynumber: 6.8 Consensus size: 44
11854940 CCTTTATTTT
*
11854950 AATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATTACTATCTTC
* * * * * *
11854994 AATCTACTCCGCTGTAATCTCAGGGAGAT-GGATCTGA-AATTCTTT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGAT-T-ACTA-TCTTC
** * * * ** * *
11855039 GGTCTACTCCCCTGTAACCTCAGGGTGATAAGA--CCTGA--TGC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATTACT-ATCTTC
* * ** * *
11855080 GATCTACTCTGCTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGAT--TACTATCTTC
* * * *
11855124 AATCCGCTCCATTGTAA-CTTCAGAG-AGATAGGATTACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATTACTATCTTC
* * *
11855168 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATTACTATCTTC
** * * *
11855212 AATCTGCCCCATTGTAATCTCAGGGAGATAAGAT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGAT
11855246 CTGAAATTTT
Statistics
Matches: 193, Mismatches: 42, Indels: 34
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 26 0.13
42 2 0.01
43 8 0.04
44 124 0.64
45 30 0.16
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCCACTCCACTGTAATCTCAGGCAGATAAGATTACTATCTTC
Found at i:11855385 original size:44 final size:45
Alignment explanation
Indices: 11855313--11855609 Score: 161
Period size: 44 Copynumber: 6.8 Consensus size: 45
11855303 ATCTGATGTG
* *
11855313 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTATTATTTCA
** * * *
11855357 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTATTA-TTTCA
* * ***
11855401 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTATTATTTCA
* * * * *
11855445 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTT-G
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT---ATTATTTCA
* * * * * * * *
11855491 GTCTACTCCCCTGTAACCTCAGGGTGATAAGA-CC--TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTATTATTTCA
** *
11855532 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTATTATTTCA
** * *
11855576 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATC
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC
11855610 TGAAATTCTT
Statistics
Matches: 192, Mismatches: 47, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.15
42 3 0.02
43 6 0.03
44 121 0.63
45 1 0.01
46 29 0.15
47 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTATTATTTCA
Found at i:11855472 original size:88 final size:88
Alignment explanation
Indices: 11855313--11855473 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
11855303 ATCTGATGTG
* * * * *
11855313 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
11855378 GAGAGATAGGATTACTAGCTTCA
66 GAGAGATAGGATTACTAGCTTCA
* * *
11855401 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCT
*
11855464 CAGGGAGATA
64 CAGAGAGATA
11855474 AGATCTGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 3 0.05
88 59 0.95
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAGGATTACTAGCTTCA
Found at i:11855512 original size:46 final size:46
Alignment explanation
Indices: 11855445--11855653 Score: 164
Period size: 46 Copynumber: 4.7 Consensus size: 46
11855435 TCTGGCTTCA
*
11855445 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
* * * * *
11855491 GTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTG--ATGC---G
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
** * * ** *
11855532 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTA-T-TTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTG
** * *
11855576 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
* ** *
11855622 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA
11855654 CCTGTATAAT
Statistics
Matches: 124, Mismatches: 30, Indels: 18
0.72 0.17 0.10
Matches are distributed among these distances:
41 27 0.22
42 2 0.02
43 3 0.02
44 29 0.23
45 1 0.01
46 62 0.50
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (46 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
Found at i:11855514 original size:232 final size:219
Alignment explanation
Indices: 11854916--11855608 Score: 880
Period size: 232 Copynumber: 3.1 Consensus size: 219
11854906 GATCTACTCT
* * * * * *
11854916 ACTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCACTCCACTGTAATCTCAG-GCAGA
1 ACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCAATCTACTCCGCTGTAATCTCAGAG-AGA
* * * * * * *
11854978 TAGGATTACTATCTTCAATCTACTCCGCTGTAATCTCAGGGAGAT-GGATCTGAAATTCTTT-GG
63 TAAGATTACTAGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTTCGG
* *
11855041 TCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
127 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
11855106 GATAAGATCCTTTATTTTAATCCGCTCC
192 GATAAGATCCTTTATTTTAATCCGCTCC
* *
11855134 ATTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAA
1 ACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAA
* * * *
11855199 GATTACTATCTTCAATCTGCCCCATTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTG
66 GATTACTAGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
* * * *
11855264 TTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAA
131 CTCCACTGTAACCTCAGGGAGATAAGA----------C---CTGATGCGATCTACTCTGCTGTAA
11855329 CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
183 CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
11855366 ACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAA
1 ACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAA
* *
11855431 GATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTT-GGTC
66 GAT-TACTAGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTTCGGTC
* *
11855494 TACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
129 TACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
11855559 TAAGATCCTTTATTTTAATCCGCTCC
194 TAAGATCCTTTATTTTAATCCGCTCC
*
11855585 ACTGTAA-TCTCAGGGAGATAGGAT
1 ACTGTAACT-TCAGAGAGATAGGAT
11855609 CTGAAATTCT
Statistics
Matches: 419, Mismatches: 35, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
216 1 0.00
217 2 0.00
218 92 0.22
219 120 0.29
222 1 0.00
229 1 0.00
232 198 0.47
233 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (219 bp):
ACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAA
GATTACTAGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCGCTCC
Found at i:11855557 original size:131 final size:131
Alignment explanation
Indices: 11855401--11855657 Score: 365
Period size: 131 Copynumber: 2.0 Consensus size: 131
11855391 ACTAGCTTCA
* *
11855401 ATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCTC
* *
11855465 AGGGAGATAAGATCTGAAATTCTTTGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATG
65 AGGGAGATAAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG
11855530 CG
130 CG
* * * * *
11855532 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTC
* ** *
11855596 AGGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
65 AGGGAGATAAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
11855658 TATAATAAAC
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.01
131 108 0.97
132 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
G
Found at i:11856890 original size:11 final size:11
Alignment explanation
Indices: 11856874--11856902 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
11856864 CTCCCCAAAG
11856874 TTTTTTTTCTT
1 TTTTTTTTCTT
11856885 TTTTTTTTCTT
1 TTTTTTTTCTT
11856896 TTTTTTT
1 TTTTTTT
11856903 AGGAAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:11866025 original size:21 final size:21
Alignment explanation
Indices: 11865980--11866019 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11865970 AACCCTACTA
*
11865980 TTTTGCTGCTGTTTTTCCATG
1 TTTTGCTACTGTTTTTCCATG
11866001 TTTTGCTACTGTTTTTCCA
1 TTTTGCTACTGTTTTTCCA
11866020 CTTTTTACCA
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:0.07, C:0.20, G:0.15, T:0.57
Consensus pattern (21 bp):
TTTTGCTACTGTTTTTCCATG
Found at i:11866658 original size:79 final size:77
Alignment explanation
Indices: 11866529--11866689 Score: 286
Period size: 79 Copynumber: 2.1 Consensus size: 77
11866519 TTAAAAACTC
*
11866529 GAAAAGAATTTAAAAATAAGATCCTTCTTTATATTGCGTTATTTTTTTTTTTTTAAAAATTACTT
1 GAAAAGAATTTAAAAATAAGATCCTTCTTTATATTGCGTTA--TTTTTTTTTTAAAAAATTACTT
11866594 GGATAAGTCAAAAT
64 GGATAAGTCAAAAT
11866608 GAAAAGAATTTAAAAATAAGATCCTTCTTTATATTGCGTTATTTTTTTTTTAAAAAATTACTTGG
1 GAAAAGAATTTAAAAATAAGATCCTTCTTTATATTGCGTTATTTTTTTTTTAAAAAATTACTTGG
11866673 ATAAGTCAAAAT
66 ATAAGTCAAAAT
*
11866685 AAAAA
1 GAAAA
11866690 ATGCCTTCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
77 39 0.49
79 41 0.51
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (77 bp):
GAAAAGAATTTAAAAATAAGATCCTTCTTTATATTGCGTTATTTTTTTTTTAAAAAATTACTTGG
ATAAGTCAAAAT
Found at i:11867798 original size:8 final size:8
Alignment explanation
Indices: 11867785--11867809 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11867775 GGTGTTCGGC
11867785 GCAAGTGG
1 GCAAGTGG
11867793 GCAAGTGG
1 GCAAGTGG
11867801 GCAAGTGG
1 GCAAGTGG
11867809 G
1 G
11867810 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:11868430 original size:5 final size:5
Alignment explanation
Indices: 11868420--11868451 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11868410 TTTATGTTTA
11868420 TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
11868452 CTTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:11869894 original size:26 final size:26
Alignment explanation
Indices: 11869865--11869986 Score: 102
Period size: 26 Copynumber: 4.5 Consensus size: 26
11869855 ACCTTGATTT
*
11869865 GAAGCTTGAGTGAGCAACCTAAATAC
1 GAAGCTTGTGTGAGCAACCTAAATAC
* **
11869891 GAAGGCTTGTGTGAGCCATTTCATAA-AC
1 GAA-GCTTGTGTGAGCAACCT-A-AATAC
* ** *
11869919 AAAAGCTTGTGTGAGCAACCTTGATAT
1 -GAAGCTTGTGTGAGCAACCTAAATAC
* *
11869946 GAAGCTTGTGTAAGCAACCCAAATAC
1 GAAGCTTGTGTGAGCAACCTAAATAC
11869972 GAAGGCTTGTGTGAG
1 GAA-GCTTGTGTGAG
11869987 TCATTCATAA
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
26 27 0.38
27 24 0.33
28 17 0.24
29 4 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (26 bp):
GAAGCTTGTGTGAGCAACCTAAATAC
Found at i:11869934 original size:81 final size:80
Alignment explanation
Indices: 11869840--11870010 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 80
11869830 AAATCGAACT
* * * * *
11869840 AAGCTTCTTTGAGCAACCTTGATTTGAAGCTTGAGTGAGCAACCTAAATACGAAGGCTTGTGTGA
1 AAGCTTGTGTGAGCAACCTTGATATGAAGCTTGAGTAAGCAACCCAAATACGAAGGCTTGTGTGA
11869905 GCCATTTCATAAACAA
66 GCCA-TTCATAAACAA
*
11869921 AAGCTTGTGTGAGCAACCTTGATATGAAGCTTGTGTAAGCAACCCAAATACGAAGGCTTGTGTGA
1 AAGCTTGTGTGAGCAACCTTGATATGAAGCTTGAGTAAGCAACCCAAATACGAAGGCTTGTGTGA
*
11869986 GTCATTCATAAACAA
66 GCCATTCATAAACAA
11870001 AAGCTTGTGT
1 AAGCTTGTGT
11870011 AAGCGAAACA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 21 0.25
81 62 0.75
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (80 bp):
AAGCTTGTGTGAGCAACCTTGATATGAAGCTTGAGTAAGCAACCCAAATACGAAGGCTTGTGTGA
GCCATTCATAAACAA
Found at i:11873228 original size:126 final size:123
Alignment explanation
Indices: 11872983--11873352 Score: 472
Period size: 126 Copynumber: 3.0 Consensus size: 123
11872973 TTAGGGTCCT
*** * ** ** * *
11872983 GGAAGAAATAATTTCGAGTTGACGTTTCTGATAAAATAATATAAAATTACTTCTAGTAGGATGGT
1 GGAAGAAATAATTT-TTTTTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCT
* * *
11873048 ATTTGAGAAGAATTTGTGAAATCGCGCCTTTGTAGACGTGCTTTTGCTATAGTAGGTCAC
65 ATTTGAGAAGAATTTGTGAAATCGCGCC-TCGTAGACGCGCTTTTGCTACAGTAGGTCAC
* *
11873108 GGAAGAAATAATTATTTTTTTGACATTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGC
1 GGAAGAAATAA-T-TTTTTTTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGC
* *
11873173 TATTTGAGAAGAATTTGTGAAATTGCAGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCAT
64 TATTTGAGAAGAATTTGTGAAATCGC-GCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCAC
* * *
11873234 GTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTA
1 GGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTA
* *
11873299 TTTGAGAAGAATTTGTGAAATCGGGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 TTTGAGAAGAATTTGTGAAATCGCG-CCTCGTAGACGCGCTTTTGCTACAGTAG
11873353 CATGTTTAGG
Statistics
Matches: 214, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
123 2 0.01
124 96 0.45
125 12 0.06
126 97 0.45
127 7 0.03
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (123 bp):
GGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTA
TTTGAGAAGAATTTGTGAAATCGCGCCTCGTAGACGCGCTTTTGCTACAGTAGGTCAC
Found at i:11873310 original size:124 final size:125
Alignment explanation
Indices: 11873001--11873352 Score: 485
Period size: 124 Copynumber: 2.8 Consensus size: 125
11872991 TAATTTCGAG
** ** * *
11873001 TTGACGTTTCTGATAAAATAATATAAAATTACTTCTAGTAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
11873066 AAATCGCGCCTTTGTAGACGTGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCC-TCGTAGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* * *
11873127 TTGACATTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
11873192 AAATTGCAGCCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGC-GCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
11873251 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
11873316 AAATCGGGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCG-CCTCGTAGACGCGCTTTTGCTACAGTAG
11873353 CATGTTTAGG
Statistics
Matches: 200, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
123 2 0.01
124 96 0.48
125 1 0.00
126 96 0.48
127 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCTCGTAGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:11875937 original size:118 final size:116
Alignment explanation
Indices: 11875734--11875953 Score: 368
Period size: 118 Copynumber: 1.9 Consensus size: 116
11875724 TGATAAATTG
* *
11875734 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGCAAAATTATCAAATTATATAAAATTATTAATTGT
*
11875799 TAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
11875850 TATTAAGTCAAAAAATTGTATTAATGGTTATGGCAATATTATCAAATTATGTAAAATTATTATTT
1 TATTAAGTCAAAAAATTGTATTAATGGTTA--GCAAAATTATCAAATTATATAAAATTATTAATT
11875915 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
64 GTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
11875954 CGTTAAGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 30 0.31
118 66 0.69
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGCAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:11875989 original size:23 final size:23
Alignment explanation
Indices: 11875959--11876602 Score: 451
Period size: 23 Copynumber: 27.3 Consensus size: 23
11875949 CATTACGTTA
11875959 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
11875982 AGGCTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* *
11876005 AGGTTAGGATTTGTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
* * *
11876026 GGGTTTATGGCTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
11876050 AGGTTAGGGTTAAGGTTT--TT-AATT
1 AGGTTAGGGTT----TTTAATTAAATT
11876074 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
**
11876100 AGACTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876123 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
* *
11876144 GGGTTTATGGTTTTTAATTGAATTATGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
11876173 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
11876194 GGGTTTATGTTTTTTAATT-AA--
1 AGG-TTAGGGTTTTTAATTAAATT
*
11876215 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
**
11876239 AGACTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
11876262 AGGTTAGAGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876285 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876308 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
* *
11876329 GGGTTTATGGTTTTTAATTGAATTATGTT
1 AGG-TTAGGGTTTTTAATT-AA--A--TT
11876358 AGGGTTAGGGTTTTTAATT-AA--
1 A-GGTTAGGGTTTTTAATTAAATT
* * *
11876379 GGGTTTATGTTTTTTAATT-AA--
1 AGG-TTAGGGTTTTTAATTAAATT
*
11876400 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
11876424 AGGTTAGAGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876447 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
* * *
11876468 GGGTTTATGGTTTTTAATTGAATT
1 AGG-TTAGGGTTTTTAATTAAATT
* *
11876492 AGGTTAGGGTTAGGGTTTAGGGTTTTTAATT
1 AGGTTAGGGTT----TTTA----ATTAAATT
11876523 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
*
11876549 AGTTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876572 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
11876595 AGGTTAGG
1 AGGTTAGG
11876603 TTAGGGTTTT
Statistics
Matches: 506, Mismatches: 54, Indels: 122
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.01
21 80 0.16
22 53 0.10
23 255 0.50
24 21 0.04
25 11 0.02
26 12 0.02
27 17 0.03
29 28 0.06
30 8 0.02
31 6 0.01
32 1 0.00
33 2 0.00
34 8 0.02
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.48
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:11876076 original size:50 final size:48
Alignment explanation
Indices: 11875986--11876110 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 48
11875976 TAAATTAGGC
*
11875986 TAGGGTTTTTAATTAAATTAGGTTA-GG--ATTTGTAAGTTAAGGGTT
1 TAGGGCTTTTAATTAAATTAGGTTAGGGTTATTTGTAAGTTAAGGGTT
* *
11876031 TATGGCTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAA-TTAAGGGTT
1 TAGGGCTTTTAATTAAATTAGGTTAGGGTT-A--TTTGTAAGTTAAGGGTT
* **
11876081 TAGGGTTTTTAATTAAATTAGACTAGGGTT
1 TAGGGCTTTTAATTAAATTAGGTTAGGGTT
11876111 TTTAATTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
45 23 0.34
46 2 0.03
49 1 0.01
50 35 0.52
51 6 0.09
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.45
Consensus pattern (48 bp):
TAGGGCTTTTAATTAAATTAGGTTAGGGTTATTTGTAAGTTAAGGGTT
Found at i:11876174 original size:118 final size:118
Alignment explanation
Indices: 11875962--11876295 Score: 444
Period size: 118 Copynumber: 2.8 Consensus size: 118
11875952 TACGTTAAGG
* * *
11875962 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGATTTGTAAGTTAAG
1 TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
11876027 GGTTTATGGCTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGGGT
66 GGTTTATGGCTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGGGT
11876080 TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
* * * *
11876145 GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGT
66 GGTTTATGGCTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGGGT
* * ** ** **
11876198 TTATGTTTTTTAATT-AA-GGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAA-TTAAA
1 TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT-AA
* *
11876260 TTAGG-TTA-GAGTTTTTAATTAAATTAGGTTAGGGTT
65 --GGGTTTATG-GCTTTTAATTAAATTAGGTTAGGGTT
11876296 TTTAATTAAA
Statistics
Matches: 194, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
115 2 0.01
116 37 0.19
117 29 0.15
118 126 0.65
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.47
Consensus pattern (118 bp):
TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
GGTTTATGGCTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAGGGT
Found at i:11876237 original size:139 final size:134
Alignment explanation
Indices: 11876055--11876602 Score: 522
Period size: 139 Copynumber: 3.9 Consensus size: 134
11876045 AAATTAGGTT
*
11876055 AGGG-TTAAGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTA
1 AGGGTTTATGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTA
* * *
11876119 AATTAGGTTAGGGTTTTTAAGTT-AA-GGGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGG
66 AATTAGGTTAGAGTTTTTAA-TTAAATAGG-TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGG
11876182 GTTTTTAA-TTA
123 GTTTTTAAGTTA
*
11876193 AGGGTTTATGTTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTA
1 AGGGTTTATGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTA
11876258 AATTAGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
66 AATTAGGTTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTA
11876323 AGTTA
130 AGTTA
* ** ** * *
11876328 AGGGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATT-AA-GGGTTTATGTTT
1 AGGGTTTATGGTTTTTAATT--A--A-G---GGTTTAGGGTTTTTAATTAAATTAGACTAGGGTT
* * *
11876391 TTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTA
58 TTTAATTAAATTAGG-TTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTA
11876453 GGGTTTTTAAGTTA
121 GGGTTTTTAAGTTA
* * * **
11876467 AGGGTTTATGGTTTTTAATTGAATTAGG-TTAGGGTTAGGGTTTAGGGTTTTTAATTAAGGGTTT
1 AGGGTTTATGGTTTTTAATT-AA--GGGTTTAGGGTT----TTTA----ATTAAATT-A--GACT
* *
11876531 AGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTA
52 AGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTA
11876596 GGTTAGG
116 GGTTAGG
11876603 TTAGGGTTTT
Statistics
Matches: 353, Mismatches: 26, Indels: 52
0.82 0.06 0.12
Matches are distributed among these distances:
133 8 0.02
134 17 0.05
135 25 0.07
136 1 0.00
137 7 0.02
138 9 0.03
139 163 0.46
140 17 0.05
141 17 0.05
142 4 0.01
143 17 0.05
146 15 0.04
147 2 0.01
148 50 0.14
149 1 0.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (134 bp):
AGGGTTTATGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTA
AATTAGGTTAGAGTTTTTAATTAAATAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
GTTA
Found at i:11876304 original size:185 final size:185
Alignment explanation
Indices: 11876080--11876502 Score: 726
Period size: 185 Copynumber: 2.3 Consensus size: 185
11876070 AATTAAGGGT
**
11876080 TTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
11876145 GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGTTTATGTTTTTTA
66 GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGTTTATGTTTTTTA
*
11876210 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGGGTTTTTAATTAAATTAGG
131 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGAGTTTTTAATTAAATTAGG
*
11876265 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
11876330 GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGTTTATGTTTTTTA
66 GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGTTTATGTTTTTTA
**
11876395 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGG
131 ATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGAGTTTTTAATTAAATTAGG
* * *
11876450 TTAGGGTTTTTAAGTT-AA--GGGTTTATGGTTTTTAATTGAATTAGGTTAGGGTT
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
11876503 AGGGTTTAGG
Statistics
Matches: 226, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
183 2 0.01
184 29 0.13
185 193 0.85
186 2 0.01
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.49
Consensus pattern (185 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAG
GGTTTATGGTTTTTAATTGAATTATGTTAGGGTTAGGGTTTTTAATTAAGGGTTTATGTTTTTTA
ATTAAGGGTTTAGGGTTTTTAATTAAATTAGACTAGAGTTTTTAATTAAATTAGG
Found at i:11876537 original size:57 final size:58
Alignment explanation
Indices: 11876450--11876559 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 58
11876440 TTAAATTAGG
* *
11876450 TTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAATTGAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
11876508 TTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
11876560 TTTAATTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 36 0.73
58 13 0.27
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (58 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
Found at i:11876602 original size:28 final size:27
Alignment explanation
Indices: 11876529--11876614 Score: 107
Period size: 23 Copynumber: 3.4 Consensus size: 27
11876519 AATTAAGGGT
11876529 TTAGGGTTTTTAATTAAATTAG-T---
1 TTAGGGTTTTTAATTAAATTAGTTAGG
11876552 TTAGGGTTTTTAATT-AA--A-TTAGG
1 TTAGGGTTTTTAATTAAATTAGTTAGG
11876575 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTA-GTTAGG
11876603 TTAGGGTTTTTA
1 TTAGGGTTTTTA
11876615 TTACATCAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.04
22 2 0.04
23 30 0.56
24 2 0.04
26 1 0.02
28 17 0.31
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (27 bp):
TTAGGGTTTTTAATTAAATTAGTTAGG
Found at i:11876694 original size:43 final size:45
Alignment explanation
Indices: 11876620--11876705 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
11876610 TTTTATTACA
*
11876620 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
11876665 TCAAAT-AATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
11876706 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 11 0.28
45 6 0.15
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:11877160 original size:18 final size:18
Alignment explanation
Indices: 11877126--11877160 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11877116 CGGAAAAGGA
*
11877126 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
*
11877144 TACATATAAGTGCTAGG
1 TACATATAAGGGCTAGG
11877161 AAACGCACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:11877823 original size:7 final size:7
Alignment explanation
Indices: 11877813--11877837 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11877803 ATACATACAT
11877813 AATACTA
1 AATACTA
11877820 AATACTA
1 AATACTA
11877827 AATACTA
1 AATACTA
11877834 AATA
1 AATA
11877838 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11878523 original size:7 final size:7
Alignment explanation
Indices: 11878513--11878537 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11878503 ATACATACAT
11878513 AATACTA
1 AATACTA
11878520 AATACTA
1 AATACTA
11878527 AATACTA
1 AATACTA
11878534 AATA
1 AATA
11878538 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11879735 original size:51 final size:51
Alignment explanation
Indices: 11879680--11879785 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
11879670 TATTTTAAAA
* *
11879680 AAGGAAATTGAGA-AGAAATTGAAATTAAATACGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGA-AAATTGAAATTAAATACAGATTTGAGAGAATTTTGG
*
11879731 AAGGAAATTGAGAGAAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATACAGATTTGAGAGAATTTTGG
11879782 AAGG
1 AAGG
11879786 TTTGAGAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.25, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATACAGATTTGAGAGAATTTTGG
Found at i:11879791 original size:20 final size:20
Alignment explanation
Indices: 11879766--11879805 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11879756 TAAATATAGA
11879766 TTTGAGAGAATTTTGGAAGG
1 TTTGAGAGAATTTTGGAAGG
11879786 TTTGAGAGAATTTTGGAAGG
1 TTTGAGAGAATTTTGGAAGG
11879806 AAATTGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (20 bp):
TTTGAGAGAATTTTGGAAGG
Found at i:11879812 original size:22 final size:20
Alignment explanation
Indices: 11879767--11879820 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 20
11879757 AAATATAGAT
*
11879767 TTGAGAGAATTTTGGAAGGT
1 TTGAGAGAATTTTGGAAGGA
11879787 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGG--A
11879809 TTGAGAGGAATT
1 TTGAGA-GAATT
11879821 GAGAGGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 19 0.63
22 6 0.20
23 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (20 bp):
TTGAGAGAATTTTGGAAGGA
Found at i:11879837 original size:12 final size:11
Alignment explanation
Indices: 11879803--11879837 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
11879793 GAATTTTGGA
11879803 AGGAAATTGAG
1 AGGAAATTGAG
11879814 AGG-AATTGAG
1 AGGAAATTGAG
11879824 AGGAAATATGAG
1 AGGAAAT-TGAG
11879836 AG
1 AG
11879838 AGGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:11880850 original size:108 final size:108
Alignment explanation
Indices: 11880661--11880876 Score: 369
Period size: 108 Copynumber: 2.0 Consensus size: 108
11880651 TGTTGGGATG
* * *
11880661 AAAATAGGTTTTTAATTAAATAAATTTAATTTGGACTGCCATGTAGGATATCCAAGTTGGCATTT
1 AAAATAGGTTTTTAATTAAATAAATTTAATTTGGACTACCACGTAGGACATCCAAGTTGGCATTT
* *
11880726 AAAACTCATTTGGACTGCCATATAGGACCGCTATTAGGGAGGT
66 AAAACTCATCTGGACTGCCATATAGGACCGCTATTAGGAAGGT
*
11880769 AAAATAGGTTTTTAATTAAATAAATTTAATTTGGACTACCACGTAGGACATCTAAGTTGGCATTT
1 AAAATAGGTTTTTAATTAAATAAATTTAATTTGGACTACCACGTAGGACATCCAAGTTGGCATTT
*
11880834 AAAACTCATCTGGACTGCCATGTAGGACCGCTATTAGGAAGGT
66 AAAACTCATCTGGACTGCCATATAGGACCGCTATTAGGAAGGT
11880877 CGGAGCTTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (108 bp):
AAAATAGGTTTTTAATTAAATAAATTTAATTTGGACTACCACGTAGGACATCCAAGTTGGCATTT
AAAACTCATCTGGACTGCCATATAGGACCGCTATTAGGAAGGT
Found at i:11882057 original size:28 final size:29
Alignment explanation
Indices: 11881991--11882057 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 29
11881981 TTATTGTCTG
11881991 ATTTATTTAATATATTTGTTAAATTTATTAA
1 ATTTATTT-ATATATTTG-TAAATTTATTAA
**
11882022 AGAGTATTT-TATATTTG-AAATTTATCTAA
1 A-TTTATTTATATATTTGTAAATTTAT-TAA
11882051 ATTTATT
1 ATTTATT
11882058 ATTTGATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
28 12 0.40
29 4 0.13
30 8 0.27
31 1 0.03
32 5 0.17
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (29 bp):
ATTTATTTATATATTTGTAAATTTATTAA
Found at i:11883374 original size:32 final size:33
Alignment explanation
Indices: 11883295--11883375 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 33
11883285 TTTTTTAAAA
* *
11883295 TTTTGAG-TTAAG-CGAATCAAGTTATTCGATT
1 TTTTGAGTTTAAGTTGAATCAAGTAATTCGATT
* *
11883326 TTTTTA-TTT-AGCTTGAAT-AAGTAATTTGATT
1 TTTTGAGTTTAAG-TTGAATCAAGTAATTCGATT
11883357 TTTTGAGTTTAAGTTGAAT
1 TTTTGAGTTTAAGTTGAAT
11883376 TGAATTTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
30 2 0.05
31 23 0.57
32 13 0.32
33 2 0.05
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTTGAGTTTAAGTTGAATCAAGTAATTCGATT
Found at i:11884677 original size:12 final size:12
Alignment explanation
Indices: 11884660--11884684 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11884650 CAGAGCTTCA
11884660 ACCACCATCACC
1 ACCACCATCACC
11884672 ACCACCATCACC
1 ACCACCATCACC
11884684 A
1 A
11884685 TGCTGCCCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.56, G:0.00, T:0.08
Consensus pattern (12 bp):
ACCACCATCACC
Found at i:11885724 original size:3 final size:3
Alignment explanation
Indices: 11885716--11885750 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11885706 ATCACATGTT
11885716 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11885751 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11885868 original size:72 final size:72
Alignment explanation
Indices: 11885751--11886006 Score: 503
Period size: 72 Copynumber: 3.6 Consensus size: 72
11885741 TATTATTATT
11885751 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
11885816 TTTTAAG
66 TTTTAAG
11885823 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
11885888 TTTTAAG
66 TTTTAAG
11885895 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
11885960 TTTTAAG
66 TTTTAAG
*
11885967 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
11886007 GTCAAGTTGT
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 183 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:11890233 original size:3 final size:3
Alignment explanation
Indices: 11890225--11890253 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11890215 ATCACATGTT
11890225 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11890254 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11890463 original size:72 final size:72
Alignment explanation
Indices: 11890254--11890437 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
11890244 TATTATTATT
11890254 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
11890319 TTTTAAG
66 TTTTAAG
11890326 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
11890391 TTTTAAG
66 TTTTAAG
*
11890398 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
11890438 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:11894246 original size:90 final size:90
Alignment explanation
Indices: 11894093--11894329 Score: 429
Period size: 90 Copynumber: 2.6 Consensus size: 90
11894083 CCATTTCCAA
*
11894093 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAATGGTGTAGAGGATGAGAAAGAGATCGACT
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
*
11894158 TGTTCAAAGAGTTGCCAGCTGGAGT
66 CGTTCAAAGAGTTGCCAGCTGGAGT
11894183 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
11894248 CGTTCAAAGAGTTGCCAGCTGGAGT
66 CGTTCAAAGAGTTGCCAGCTGGAGT
* * *
11894273 AATTGATGAGCATTTACTTGAAGCAAAATCAAACAACGGTGTACAGGATGAGAAAGA
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGA
11894330 AGTAGAGATC
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 142 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (90 bp):
AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
CGTTCAAAGAGTTGCCAGCTGGAGT
Found at i:11897724 original size:12 final size:13
Alignment explanation
Indices: 11897709--11897749 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
11897699 GGAAAAATTT
11897709 ATTATTAAATA-A
1 ATTATTAAATATA
* *
11897721 ATTACTAAAAATA
1 ATTATTAAATATA
11897734 ATT-TTAAATATA
1 ATTATTAAATATA
11897746 ATTA
1 ATTA
11897750 AGTTACAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATTAAATATA
Found at i:11907666 original size:50 final size:50
Alignment explanation
Indices: 11907600--11907729 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 50
11907590 TCCGTATGCC
** * * *
11907600 CTCACGAGCTGCAAATCAGTAAGCTCATACGAGTTGAGAATTGGTAAGCT
1 CTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAAAATCGGTAAGCT
*
11907650 CTCATGAGCTATAAATCGGTAAGCTCATACGAGTTGAAAATCGGTAAGCT
1 CTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAAAATCGGTAAGCT
* *
11907700 CTCACGAGCTATGAATCGGTAAACTCATAC
1 CTCACGAGCTATAAATCGGTAAGCTCATAC
11907730 AAGCTGTGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
CTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAAAATCGGTAAGCT
Found at i:11907734 original size:25 final size:25
Alignment explanation
Indices: 11907574--11907734 Score: 109
Period size: 25 Copynumber: 6.4 Consensus size: 25
11907564 ACATGTATGT
* *
11907574 TCATACGAGCTATGAATCCGTATGC
1 TCATACGAGCTATGAATCGGTAAGC
* *** *
11907599 -CCTCACGAGCTGCAAATCAGTAAGC
1 TCAT-ACGAGCTATGAATCGGTAAGC
* *
11907624 TCATACGAGTTGA-GAATTGGTAAGC
1 TCATACGAGCT-ATGAATCGGTAAGC
* *
11907649 TC-TCATGAGCTATAAATCGGTAAGC
1 TCAT-ACGAGCTATGAATCGGTAAGC
11907674 TCATACGAG-T-TGAAAATCGGTAAGC
1 TCATACGAGCTATG--AATCGGTAAGC
*
11907699 TC-TCACGAGCTATGAATCGGTAAAC
1 TCAT-ACGAGCTATGAATCGGTAAGC
*
11907724 TCATACAAGCT
1 TCATACGAGCT
11907735 GTGGTGTGTT
Statistics
Matches: 104, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.01
24 6 0.06
25 90 0.87
26 5 0.05
27 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
TCATACGAGCTATGAATCGGTAAGC
Found at i:11909103 original size:49 final size:49
Alignment explanation
Indices: 11909050--11909143 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
11909040 TGCTATTCAA
* * *
11909050 TGCTAAACTTGGTCTTCTACTGTCTACACTCTTT-TCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTGCCTACACT-TTTATCACTATTTATACAT
11909099 TGCTAAACTTAGTCTTCCACTGCCTACACTTTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCCACTGCCTACACTTTTATCACTATTTAT
11909144 CTCTTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTGCCTACACTTTTATCACTATTTATACAT
Found at i:11911010 original size:19 final size:18
Alignment explanation
Indices: 11910970--11911010 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11910960 AATATTACAC
*
11910970 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
11910988 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
11911007 ATTT
1 ATTT
11911011 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:11917745 original size:69 final size:68
Alignment explanation
Indices: 11917663--11917790 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 68
11917653 GCAGACTCCT
*
11917663 TATGTTGCAATAGCCGAGCTATGGTCTTACACAATGTAATCCCCATGTTTATTATCTTGGTGAAC
1 TATGTTGCAATAGCCAAGCTATGGTCTTACACAATGTAA-CCCCATGTTTATTATCTTGGTGAAC
11917728 TTTA
65 TTTA
* * *
11917732 TATGTTGTC-ATAGCCAAGCTATGGTCTTACACAATGTAACTCTATGTTTATTGTCTTGG
1 TATGTTG-CAATAGCCAAGCTATGGTCTTACACAATGTAACCCCATGTTTATTATCTTGG
11917791 CGGACTCTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
68 17 0.31
69 36 0.67
70 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (68 bp):
TATGTTGCAATAGCCAAGCTATGGTCTTACACAATGTAACCCCATGTTTATTATCTTGGTGAACT
TTA
Found at i:11919985 original size:5 final size:5
Alignment explanation
Indices: 11919975--11920008 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
11919965 CCTAAAAAAC
11919975 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
11920009 TCCTTAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCAA
Found at i:11944457 original size:12 final size:13
Alignment explanation
Indices: 11944440--11944468 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11944430 CTCATACATG
11944440 AATAAATAAA-GC
1 AATAAATAAATGC
11944452 AATAAATAAATGC
1 AATAAATAAATGC
11944465 AATA
1 AATA
11944469 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:11955547 original size:26 final size:27
Alignment explanation
Indices: 11955518--11955571 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11955508 TGCAAAATTC
*
11955518 TTTAAAATAT-TTTTATATTTACTTTT
1 TTTAAAATATAATTTATATTTACTTTT
*
11955544 TTTAAATTATAATTTATATTTACTTTT
1 TTTAAAATATAATTTATATTTACTTTT
11955571 T
1 T
11955572 AAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTAAAATATAATTTATATTTACTTTT
Found at i:11956213 original size:17 final size:17
Alignment explanation
Indices: 11956191--11956236 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
11956181 TTATTTTAAT
11956191 ATTAAAATTTAAAAAA-A
1 ATTAAAA-TTAAAAAATA
*
11956208 ATTAAAAATAAAAAATA
1 ATTAAAATTAAAAAATA
11956225 A-TAAAATTAAAA
1 ATTAAAATTAAAA
11956237 TTTTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTAAAATTAAAAAATA
Found at i:11956530 original size:15 final size:15
Alignment explanation
Indices: 11956510--11956540 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11956500 TCATATTAAT
11956510 AATTATTATTAAATA
1 AATTATTATTAAATA
11956525 AATTATTATTAAATA
1 AATTATTATTAAATA
11956540 A
1 A
11956541 TTCGAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATTATTAAATA
Found at i:11958212 original size:3 final size:3
Alignment explanation
Indices: 11958204--11958233 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11958194 AATTTTACAA
11958204 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11958234 TCTTTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11968229 original size:14 final size:15
Alignment explanation
Indices: 11968203--11968235 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11968193 TCCCATGCTG
*
11968203 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
11968218 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
11968232 GGAA
1 GGAA
11968236 AAGCATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:11969817 original size:44 final size:44
Alignment explanation
Indices: 11969769--11970083 Score: 162
Period size: 43 Copynumber: 7.2 Consensus size: 44
11969759 AGATACCAGC
* *
11969769 CTTGCCTCCTTGGGTTTTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCTTGGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
** * * * * * * *
11969813 CTTGCCTTCC-TGCATCGACAGCGAAGCAGATCGAAGATACCAG-C
1 CTTGCC-TCCTTGGGT-TATAGTGAAGCAGGTTGAAGATAGCAGAT
* * * *
11969857 CTTGCCTCCCTGGGTTGTAGTGGACCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCTTGGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
* ** * * * * *
11969901 CTTGCCTTACTGTACCG--ACAGTGAAGCAGATCGAAGATACCAG-C
1 CTTGCC-TCCT-T-GGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
* ** *
11969945 CTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCTTGGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
** * * ** *
11969989 CTTGCCTTCCTGTACCG--ACAGTGAAGCAGATCAAAGATA-CTAG-C
1 CTTGCC-TCCT-T-GGGTTATAGTGAAGCAGGTTGAAGATAGC-AGAT
* *
11970033 CTTGCCTCCTTGGGTTGTAGTGAAGCAAGTTGAAGATAGCAGAT
1 CTTGCCTCCTTGGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
11970077 CTTGCCT
1 CTTGCCT
11970084 TCCTGTACCG
Statistics
Matches: 188, Mismatches: 65, Indels: 36
0.65 0.22 0.12
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 65 0.35
44 51 0.27
45 64 0.34
46 2 0.01
47 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (44 bp):
CTTGCCTCCTTGGGTTATAGTGAAGCAGGTTGAAGATAGCAGAT
Found at i:11970144 original size:88 final size:88
Alignment explanation
Indices: 11969678--11970138 Score: 706
Period size: 88 Copynumber: 5.2 Consensus size: 88
11969668 GAAAGCACAA
* * * * * * *
11969678 AGCCTTGACTCCCTGGTTTGCAGCGGAGTAGGTTGAAAATAGTAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
11969743 CAGTAAATCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * *
11969766 AGCCTTGCCTCCTTGGGTTTTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
11969831 CAGCGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* *
11969854 AGCCTTGCCTCCCTGGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTGCCTTACTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
11969919 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
*
11969942 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
11970007 CAGTGAAGCAGATCAAAGATACT
66 CAGTGAAGCAGATCGAAGATACC
* * *
11970030 AGCCTTGCCTCCTTGGGTTGTAGTGAAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
11970095 CAGTGAAGCAGATCAAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
*
11970118 AGCCTTGCCTCCCTAGGTTGT
1 AGCCTTGCCTCCCTGGGTTGT
11970139 CGTGAAATAG
Statistics
Matches: 340, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 340 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
CAGTGAAGCAGATCGAAGATACC
Found at i:11970206 original size:44 final size:44
Alignment explanation
Indices: 11970139--11970467 Score: 298
Period size: 44 Copynumber: 7.4 Consensus size: 44
11970129 CCTAGGTTGT
* *
11970139 CGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
11970183 CGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *** *
11970227 CGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *
11970271 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * *** *
11970316 CGTGAAATAGATCAAAGATAGAAAATTTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* ** * ***
11970360 TGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCAA
1 CG-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * * *
11970405 CATGAAATAGATCAAAAATAGCAGATCTTGCCTTCCTGTACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
11970449 CAGTGAAGCAGAACGAAGA
1 C-GTGAAGTAGATCGAAGA
11970468 CATTTAGCCC
Statistics
Matches: 215, Mismatches: 67, Indels: 5
0.75 0.23 0.02
Matches are distributed among these distances:
44 141 0.66
45 74 0.34
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:11970246 original size:176 final size:176
Alignment explanation
Indices: 11969716--11970262 Score: 542
Period size: 176 Copynumber: 3.1 Consensus size: 176
11969706 TAGGTTGAAA
* * * * * *
11969716 ATAGTAGATCTTGCCTTCCTGTACCGACAGTAAATCAGATCGAAGATACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
** * * * * * * * * * *
11969781 GGTTTTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
66 GGTCGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCA
* * * * * * * *
11969846 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGACCAGGTTGAAG
131 AAGATACTAGCCTTGCCTCCATGGATTGGAGTGAAGCAAGTCGAAG
* * *
11969892 ATAGCAGATCTTGCCTTACTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
* * * * * *
11969957 GGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
66 GGTCGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCA
* * * *
11970022 AAGATACTAGCCTTGCCTCCTTGGGTTGTAGTGAAGCAAGTTGAAG
131 AAGATACTAGCCTTGCCTCCATGGATTGGAGTGAAGCAAGTCGAAG
11970068 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
* * * * ** * *
11970133 GGTTGTCGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCA
66 GGTCGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCA
* * * * * * *
11970197 AATATAGC-AGATCTTGTCTTCATGTATTGGCGTGAAG-TAGATCGAAG
131 AAGATA-CTAG-CCTTGCCTCCATGGATTGGAGTGAAGCAAG-TCGAAG
* *
11970244 ATAGCAAATCTTGTCTTCC
1 ATAGCAGATCTTGCCTTCC
11970263 CATACTGGTG
Statistics
Matches: 322, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
175 21 0.07
176 301 0.93
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (176 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
GGTCGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTCATGTACCGACAGTGAAGCAGATCA
AAGATACTAGCCTTGCCTCCATGGATTGGAGTGAAGCAAGTCGAAG
Found at i:11970246 original size:264 final size:264
Alignment explanation
Indices: 11969716--11970262 Score: 675
Period size: 264 Copynumber: 2.1 Consensus size: 264
11969706 TAGGTTGAAA
* * *
11969716 ATAGTAGATCTTGCCTTCCTGTACCGACAGTAAATCAGATCGAAGATACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTAAAGCAGATCAAAGATACCAGCCTTGCCTCCTTG
* * * * *
11969781 GGTTTTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
66 GGTTGTAGTGAAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
* * * * * *
11969846 AAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTGCCTTAC
131 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTAC
* * * * * * *
11969911 TGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTT
196 TGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCATGGATCGGAGTGAAGCAGATC
11969976 GAAG
261 GAAG
* *
11969980 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACTAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTAAAGCAGATCAAAGATACCAGCCTTGCCTCCTTG
* *
11970045 GGTTGTAGTGAAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
66 GGTTGTAGTGAAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
* * *
11970110 AAGATACCAGCCTTGCCTCCCTAGGTTGTCGTGAAATAGATCGAAGAAAGCAGATCTTGTCTT-C
131 AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTAC
** * * * * * * * * * * *
11970174 ATGTATTGGC-GTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
196 -TGTACCGACAGTGAAGCAGATCAAAGATACCAG-CCTTGCCTCCATGGATCGGAGTGAAGCAGA
11970238 TCGAAG
259 TCGAAG
* *
11970244 ATAGCAAATCTTGTCTTCC
1 ATAGCAGATCTTGCCTTCC
11970263 CATACTGGTG
Statistics
Matches: 238, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
263 20 0.08
264 218 0.92
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (264 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGTAAAGCAGATCAAAGATACCAGCCTTGCCTCCTTG
GGTTGTAGTGAAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCA
AAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGAAACAGATCGAAGAAAGCAGATCTTGCCTTAC
TGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCATGGATCGGAGTGAAGCAGATC
GAAG
Found at i:11970297 original size:133 final size:134
Alignment explanation
Indices: 11970146--11970395 Score: 367
Period size: 133 Copynumber: 1.9 Consensus size: 134
11970136 TGTCGTGAAA
* * * *
11970146 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATATAGCAGATCT
1 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAAAATCT
** * ** *
11970211 TGTCTTCATGTATTGGCG-TGAAGTAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGC
66 TGTCTTCACATACTGGCGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCCCATACTGGTGGC
11970275 GAAG
131 GAAG
*
11970279 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAAAATTT
1 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAAAATCT
* * *
11970344 TGTCTTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
66 TGTCTTCACATACTGGCGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTC
11970396 ATGTATCAAC
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
133 73 0.72
134 29 0.28
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (134 bp):
TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAAAATCT
TGTCTTCACATACTGGCGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCCCATACTGGTGGC
GAAG
Found at i:11970308 original size:89 final size:89
Alignment explanation
Indices: 11970139--11970440 Score: 372
Period size: 89 Copynumber: 3.4 Consensus size: 89
11970129 CCTAGGTTGT
* * *** * * * * * *
11970139 CGTGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAATATA
1 CGTGAAATAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
11970203 GCAGATCTTGTCTTCATGTATTGG
66 GCAGATCTTGTCTTCATGTATTGG
*
11970227 CGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 CGTGAAATAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
11970292 GCAGATCTTGTCTTCATGTATTGG
66 GCAGATCTTGTCTTCATGTATTGG
* * * * *
11970316 CGTGAAATAGATCAAAGATAGAAAATTTTGTCTTCCCATACTGGTGACAAAGTAGATCGAAGAAA
1 CGTGAAATAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
***
11970381 GCAGATCTTGTCTTCATGTATCAA
66 GCAGATCTTGTCTTCATGTATTGG
* * * * *
11970405 CATGAAATAGATCAAAAATAGCAGATCTTGCCTTCC
1 CGTGAAATAGATCGAAGATAGCAAATCTTGTCTTCC
11970441 TGTACTGGCA
Statistics
Matches: 186, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
88 37 0.20
89 149 0.80
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (89 bp):
CGTGAAATAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGG
Found at i:11970416 original size:133 final size:133
Alignment explanation
Indices: 11970141--11970455 Score: 337
Period size: 133 Copynumber: 2.4 Consensus size: 133
11970131 TAGGTTGTCG
* * *
11970141 TGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATATAGCA
1 TGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAA
* ** * ** * * **
11970206 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCTTGTCTTCCCATACTGG
66 AATCTTGTCTTCACATACTGGCGCAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTCA
***
11970271 TGG
131 ACA
* *
11970274 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAA
1 TGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAA
* * * * **
11970339 AATTTTGTCTTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-TC
66 AATCTTGTCTTCACATACTGGCG-CAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTC
11970403 AACA
130 AACA
* * * *
11970407 TGAAATAGATC-AAAAATAGCAGATCTTGCCTTCCTGTACTGGCAGTGAA
1 TGAAATAGATCGAAGAA-AGCAGATCTTGTCTTCATGTATTGGC-GTGAA
11970456 GCAGAACGAA
Statistics
Matches: 149, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
132 4 0.03
133 109 0.73
134 36 0.24
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (133 bp):
TGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGATAGAA
AATCTTGTCTTCACATACTGGCGCAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCACATACTCA
ACA
Found at i:11970853 original size:44 final size:44
Alignment explanation
Indices: 11970787--11971070 Score: 210
Period size: 44 Copynumber: 6.5 Consensus size: 44
11970777 AAGATGGCGA
11970787 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * *** * *
11970831 ATCTTATCTCTCTGAAGCTGCAG-AGAGCAGA-TCGCATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* *
11970872 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCACAG
* * * ***
11970916 -TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGC-G
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCACAG
* *
11970959 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ACAG
* ** ***
11971004 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
*
11971048 ATCTTATCTCTCTGAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAG
11971071 AGAGTAGATC
Statistics
Matches: 184, Mismatches: 40, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.11
41 9 0.05
42 4 0.02
43 12 0.07
44 109 0.59
45 27 0.15
46 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
Found at i:11970937 original size:84 final size:87
Alignment explanation
Indices: 11970783--11971013 Score: 235
Period size: 84 Copynumber: 2.7 Consensus size: 87
11970773 ACTAAAGATG
* *
11970783 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAG
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAGATCTTATCTCTCTAAAG
11970848 CTGCAGAGA-GCAGA-TCG-CAT
66 CTGCAGAGAGGCAGACT-GACAT
* * *
11970868 -CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATC-CTCCTA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AACCACAGATCTTATCTCT-CTA
* * *
11970929 AAGTTGCAGTGAGGCAGACTGAAGAT
63 AAGCTGCAGAGAGGCAGACTG-ACAT
* * * *
11970955 GGCGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCCTATCTC
1 -GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACC-ACAGATCTTATCTC
11971014 CCTGAAGTTG
Statistics
Matches: 118, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
83 2 0.02
84 55 0.47
85 8 0.07
86 5 0.04
87 4 0.03
88 1 0.01
89 42 0.36
90 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACCACAGATCTTATCTCTCTAAAG
CTGCAGAGAGGCAGACTGACAT
Found at i:11988217 original size:29 final size:26
Alignment explanation
Indices: 11988155--11988221 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
11988145 GTTGATAAAA
11988155 AATAATATATAAATTATAAATAATAT
1 AATAATATATAAATTATAAATAATAT
* *
11988181 AATTATATATCAAAATTTATCAAATTAT-T
1 AATAATATAT--AAA-TTAT-AAATAATAT
11988210 AATAATAT-TAAA
1 AATAATATATAAA
11988222 GATATTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
26 12 0.35
28 4 0.12
29 12 0.35
30 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
AATAATATATAAATTATAAATAATAT
Found at i:11995102 original size:42 final size:42
Alignment explanation
Indices: 11994964--11995123 Score: 186
Period size: 41 Copynumber: 3.9 Consensus size: 42
11994954 TTTAAACAGA
* * * *
11994964 TTCACTGGCACTTAGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCACTTAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
11995005 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCACTTAGCCTGCTAGACGTAAAGTCTGATATTGT
11995046 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCACTT-AGCCTGCTAGACGTAAAGTCTGATATTGT
11995088 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGA
1 TTCACCGGCACTT-AGCCTGCTAGACGTAAAGTCTGA
11995124 AATNNNNNNN
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
40 3 0.03
41 61 0.59
42 40 0.38
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
TTCACCGGCACTTAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:11996399 original size:18 final size:18
Alignment explanation
Indices: 11996376--11996411 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11996366 GATTAGGGTC
*
11996376 AAGATCGGGTTGTTACAA
1 AAGATCAGGTTGTTACAA
11996394 AAGATCAGGTTGTTACAA
1 AAGATCAGGTTGTTACAA
11996412 CTCTTCCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (18 bp):
AAGATCAGGTTGTTACAA
Found at i:11999605 original size:39 final size:39
Alignment explanation
Indices: 11999551--11999626 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
11999541 TTACTCGGTC
*
11999551 TGGTACTCTGAATAGTGTTTTGCTCAGCTATCATCAGTT
1 TGGTACTCTAAATAGTGTTTTGCTCAGCTATCATCAGTT
*
11999590 TGGTACTCTAAATAGTGTTTTGCTCAGCTCTCATCAG
1 TGGTACTCTAAATAGTGTTTTGCTCAGCTATCATCAG
11999627 ACACCTCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
TGGTACTCTAAATAGTGTTTTGCTCAGCTATCATCAGTT
Found at i:11999948 original size:29 final size:29
Alignment explanation
Indices: 11999915--11999972 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
11999905 TAGCTTCAAA
*
11999915 GTCAGCATTTCTCTTCTCTTTCCTGAGTT
1 GTCAGCATTTCTCTTCTCTTTCCCGAGTT
*
11999944 GTCAGTATTTCTCTTCTCTTTCCCGAGTT
1 GTCAGCATTTCTCTTCTCTTTCCCGAGTT
11999973 CTTCAGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.10, C:0.28, G:0.14, T:0.48
Consensus pattern (29 bp):
GTCAGCATTTCTCTTCTCTTTCCCGAGTT
Found at i:12001924 original size:42 final size:42
Alignment explanation
Indices: 12001786--12002012 Score: 320
Period size: 42 Copynumber: 5.5 Consensus size: 42
12001776 TTTAAACAGA
* * * *
12001786 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
12001827 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12001868 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12001910 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12001952 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
12001994 TTCACCGGCATTAAGCCTG
1 TTCACCGGCATTAAGCCTG
12002013 ATAGGCACTG
Statistics
Matches: 171, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
40 3 0.02
41 61 0.36
42 107 0.63
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:12010656 original size:16 final size:15
Alignment explanation
Indices: 12010614--12010659 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
12010604 TATTGTTCAC
12010614 TTTATAAATTTT-T-
1 TTTATAAATTTTATA
**
12010627 TTTATAAAGGTTATA
1 TTTATAAATTTTATA
12010642 TCTTATAAATTTTATA
1 T-TTATAAATTTTATA
12010658 TT
1 TT
12010660 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 2 0.08
16 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (15 bp):
TTTATAAATTTTATA
Found at i:12011441 original size:26 final size:28
Alignment explanation
Indices: 12011411--12011474 Score: 96
Period size: 26 Copynumber: 2.3 Consensus size: 28
12011401 TCAAAGGCCT
*
12011411 AAAAGTTAATTGCTACAC-TATATG-AA
1 AAAAGTTAATCGCTACACATATATGAAA
12011437 AAAAGTTAATCGCTACACTATATATGAAA
1 AAAAGTTAATCGCTACAC-ATATATGAAA
12011466 AAAAGTTAA
1 AAAAGTTAA
12011475 ACATAAGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 17 0.50
28 6 0.18
29 11 0.32
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (28 bp):
AAAAGTTAATCGCTACACATATATGAAA
Found at i:12013614 original size:51 final size:51
Alignment explanation
Indices: 12013456--12013847 Score: 345
Period size: 51 Copynumber: 7.7 Consensus size: 51
12013446 GAAGTTGCTA
* * *
12013456 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATG-ATA-
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCG-GATGAATAT
* * *
12013506 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-C---TGAATAGCTT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAATA---T
** * * * *
12013556 CAATCACGTGTGCAGTACTATGTGCAAGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAATAT
*
12013608 GGTCACGTGTGTAGTACTATGTGCAGGTTACTATGTGTATCGGAATG-ATA-
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGG-ATGAATAT
* * * * * * *
12013658 GGTCGCATGTGTAATACTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGA-ATAT
* * * * *
12013709 GATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGA-ATAT
* * * * *
12013760 GATCACGTGTGTAGTACTTTGTGTAGGCTACTACGTGTATCGGATGAAAAT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAATAT
* * *
12013811 GGTCACATGTGTAGTATTATGTACAGGCTACTATGTG
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTG
12013848 AACCGGGTAT
Statistics
Matches: 280, Mismatches: 47, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 3 0.01
49 3 0.01
50 73 0.26
51 188 0.67
52 6 0.02
55 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGAATAT
Found at i:12013732 original size:152 final size:152
Alignment explanation
Indices: 12013456--12013845 Score: 523
Period size: 152 Copynumber: 2.6 Consensus size: 152
12013446 GAAGTTGCTA
* *
12013456 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGGTCGCATGTGTAGT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGT
*
12013521 ACTATGTGCAGGCTACTATGCGTACTGAATAGCTTCAATCACGTGTGCAGTACTATGTGCAAGCT
66 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCAATCACGTGTGCAGTACTATGTGCAAGCT
* *
12013586 ACTACGTGTATCGGAT-GAAAAT
131 ACTACGCGTACCGGATAG-AAAT
* * *
12013608 GGTCACGTGTGTAGTACTATGTGCAGGTTACTATGTGTATCGGAATGATAGGTCGCATGTGTAAT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGT
* ** * *
12013673 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGATCACGTGTGTAGTACTATGTGCAGGCT
66 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCAATCACGTGTGCAGTACTATGTGCAAGCT
* ***
12013738 ACTATGCGTACCGGATAGCTTT
131 ACTACGCGTACCGGATAGAAAT
* * * * *
12013760 GATCACGTGTGTAGTACTTTGTGTAGGCTACTACGTGTATCGG-ATGAAAATGGTCACATGTGTA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATG-ATA-GGTCGCATGTGTA
* *
12013824 GTATTATGTACAGGCTACTATG
64 GTACTATGTGCAGGCTACTATG
12013846 TGAACCGGGT
Statistics
Matches: 208, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
151 3 0.01
152 173 0.83
153 32 0.15
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (152 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGT
ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCAATCACGTGTGCAGTACTATGTGCAAGCT
ACTACGCGTACCGGATAGAAAT
Found at i:12015430 original size:17 final size:18
Alignment explanation
Indices: 12015405--12015438 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12015395 TTCCATTAGC
12015405 TTTACATTTT-ATTATTT
1 TTTACATTTTAATTATTT
*
12015422 TTTATATTTTAATTATT
1 TTTACATTTTAATTATT
12015439 AATTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTACATTTTAATTATTT
Found at i:12024930 original size:79 final size:78
Alignment explanation
Indices: 12024799--12025029 Score: 286
Period size: 79 Copynumber: 2.9 Consensus size: 78
12024789 AATTAAAGGT
* * * * *
12024799 AAATAAAATCTATTTCGGGATTGA-TCCCTACCGTTTAACGATTCTATTCCAAATTTGGTTTTAT
1 AAATAAAATCCATTTCGGGATTGATTCCGT--CGTTCAACGATTTTATTCCAAATTTTGTTTTAT
12024863 TTCCAAAAACGAGTA
64 TTCCAAAAACGAGTA
* *
12024878 AAATAAAGTCCATTTCGGGATTGATTCTCGTCGTTCAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCATTTCGGGATTGATTC-CGTCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
12024943 TCCAAAAACGAGTA
65 TCCAAAAACGAGTA
* * * * *
12024957 AAATAAAATTCGTTTCGGGATTTATTCCCG-CTGTTCAATGATTTTATTCCATATTTTGTTTTAT
1 AAATAAAATCCATTTCGGGATTGATT-CCGTC-GTTCAACGATTTTATTCCAAATTTTGTTTTAT
*
12025021 TTCTAAAAA
64 TTCCAAAAA
12025030 TGAGAAATTA
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 127 0.95
80 3 0.02
81 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (78 bp):
AAATAAAATCCATTTCGGGATTGATTCCGTCGTTCAACGATTTTATTCCAAATTTTGTTTTATTT
CCAAAAACGAGTA
Found at i:12025114 original size:87 final size:84
Alignment explanation
Indices: 12024957--12025348 Score: 427
Period size: 84 Copynumber: 4.6 Consensus size: 84
12024947 AAAACGAGTA
* * * *
12024957 AAATAAAAT-TCGTTTCGGGATTTATTCCCGCTGTTCAAT--GATTTTATTCCAT-ATTTTGTTT
1 AAATAAAATCT-GTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATT---TGATTTTATTT
*
12025018 TATTTCTAAAAATGAGAAATTAAATT
62 T-GTT-TAAAAATGAG-AATTAAATT
* * *
12025044 AAATAAAATATGTTTCGGGATTTATTCTCACCGTTTAATAAAGA-TTTATTTGATTTGATTTTGT
1 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAAT-AAGATTTTATTTGATTTTATTTTGT
*
12025108 TGCTAAAATTGAGAAATTAAATT
65 T--TAAAAATGAG-AATTAAATT
*
12025131 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAAATTTTATTTGATTTTATTTTGTT
1 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATTTTATTTTGTT
** *
12025196 TCCAAATTAGAA-TAGAATT
66 TAAAAATGAGAATTA-AATT
* *
12025215 AAATAAAATCTGTTTCGAGATTTATTCCCATCGTTTAATAAGATTTTATTTGATTTTATTTTGTT
1 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATTTTATTTTGTT
* ** *
12025280 TCAAAATTTGAATTGAATT
66 TAAAAATGAGAATTAAATT
* * **
12025299 AAATAAAATTTGTTTCGGGATTTATTTCTGCCGTTTAATAAGATTTTATT
1 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATT
12025349 CGATATTGTT
Statistics
Matches: 268, Mismatches: 28, Indels: 21
0.85 0.09 0.07
Matches are distributed among these distances:
83 2 0.01
84 126 0.47
85 7 0.03
86 6 0.02
87 118 0.44
88 1 0.00
89 6 0.02
90 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (84 bp):
AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATTTTATTTTGTT
TAAAAATGAGAATTAAATT
Found at i:12025387 original size:84 final size:85
Alignment explanation
Indices: 12024957--12025408 Score: 377
Period size: 84 Copynumber: 5.3 Consensus size: 85
12024947 AAAACGAGTA
* * * * **
12024957 AAATAAAATTCGTTTCGGGATTTATTCCCGCTGTTCAAT--GATTTTATTCCATATTTTGTTTTA
1 AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATA--TTGTTTTA
* * *
12025020 TTTCTAAAAATGAGAAATTAAATT
64 TTTC-CAAAATAAG-AAGTAAATT
* * *
12025044 AAATAAAATATGTTTCGGGATTTATTCTCACCGTTTAATAAAGA-TTTATTTGAT-TTGATTTTG
1 AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAAT-AAGATTTTATTTGATATTG-TTTTA
* * * *
12025107 TTGCTAAAATTGAGAAATTAAATT
64 TTTCCAAAA-TAAG-AAGTAAATT
* * * * *
12025131 AAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAATAAAATTTTATTTGATTTTATTTTGTT
1 AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATATTGTTTTATT
*
12025196 TCC-AAATTAGAA-TAGAATT
66 TCCAAAATAAGAAGTA-AATT
* * * * * *
12025215 AAATAAAATCTGTTTCGAGATTTATTCCCATCGTTTAATAAGATTTTATTTGATTTTATTTTGTT
1 AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATATTGTTTTATT
** * *
12025280 T-CAAAATTTGAATTGAATT
66 TCCAAAATAAGAAGTAAATT
* ** *
12025299 AAATAAAATTTGTTTCGGGATTTATTTCTGCCGTTTAATAAGATTTTATTCGATATTGTTTTATT
1 AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATATTGTTTTATT
* *
12025364 TCCAAACA-AAGACGT-AATC
66 TCCAAA-ATAAGAAGTAAATT
*
12025383 AAAT--AATTCTGTTTCAGGATTTATTC
1 AAATAAAATT-TGTTTCGGGATTTATTC
12025409 TTGTCTTTTA
Statistics
Matches: 312, Mismatches: 40, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
82 4 0.01
83 18 0.06
84 144 0.46
85 11 0.04
86 14 0.04
87 109 0.35
88 2 0.01
89 8 0.03
90 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (85 bp):
AAATAAAATTTGTTTCGGGATTTATTCCCACCGTTTAATAAGATTTTATTTGATATTGTTTTATT
TCCAAAATAAGAAGTAAATT
Found at i:12025493 original size:59 final size:59
Alignment explanation
Indices: 12025385--12025496 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
12025375 ACGTAATCAA
* * *
12025385 ATAATTCTGTTTCAGGATTTATTCTTGTCTTTTAACAGATTTTAATTTGATTTAATGAT
1 ATAATTCTGTTTCAGGATTTAATCTTGTCTTTTAACAAATTATAATTTGATTTAATGAT
* **
12025444 ATAATTTTGTTTCA-GATTTAATCTTG-CTATTTAACAAAATTATGTTTTGATTT
1 ATAATTCTGTTTCAGGATTTAATCTTGTCT-TTTAAC-AAATTATAATTTGATTT
12025497 CGTTTCAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.04
58 17 0.38
59 26 0.58
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (59 bp):
ATAATTCTGTTTCAGGATTTAATCTTGTCTTTTAACAAATTATAATTTGATTTAATGAT
Found at i:12027918 original size:20 final size:20
Alignment explanation
Indices: 12027893--12027937 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
12027883 CCGAACAACA
12027893 TAAGTCACCTATGTGAGAGT
1 TAAGTCACCTATGTGAGAGT
*
12027913 TAAGTCATCTATGTGAGAGT
1 TAAGTCACCTATGTGAGAGT
*
12027933 GAAGT
1 TAAGT
12027938 GGAGTTGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (20 bp):
TAAGTCACCTATGTGAGAGT
Found at i:12029782 original size:23 final size:23
Alignment explanation
Indices: 12029741--12029787 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12029731 TAAAAAAATA
* **
12029741 ACCAAAATGTTATTTTTTTATTT
1 ACCAAAATATTATAATTTTATTT
*
12029764 ACCAAAATATTATAATTTTTTTT
1 ACCAAAATATTATAATTTTATTT
12029787 A
1 A
12029788 TTTATCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
ACCAAAATATTATAATTTTATTT
Found at i:12030470 original size:19 final size:19
Alignment explanation
Indices: 12030446--12030508 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
12030436 TCTAATTAAG
12030446 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
12030465 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
12030484 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
12030503 TAATAA
1 TAATAA
12030509 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:12030573 original size:19 final size:18
Alignment explanation
Indices: 12030543--12030578 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12030533 GTAATGTTTC
*
12030543 AAAAAATGTTTTTAGGAA
1 AAAAAATGTTTTAAGGAA
12030561 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
12030579 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
AAAAAATGTTTTAAGGAA
Found at i:12030889 original size:7 final size:7
Alignment explanation
Indices: 12030877--12030903 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12030867 ATAAACCTTC
12030877 ATTATTT
1 ATTATTT
12030884 ATTATTT
1 ATTATTT
12030891 ATTATTT
1 ATTATTT
12030898 ATTATT
1 ATTATT
12030904 CTCTTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:12031945 original size:27 final size:27
Alignment explanation
Indices: 12031907--12031963 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
12031897 ATTTTAGTCC
*
12031907 GGTCAGGCCAATCTCTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
12031934 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
12031961 GGT
1 GGT
12031964 GTCGCCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.32
Consensus pattern (27 bp):
GGTCAGGCCAATCACTTTGGCACCTTT
Found at i:12032067 original size:27 final size:27
Alignment explanation
Indices: 12032013--12032076 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
12032003 ATTTTTTGGT
* ***
12032013 ATATTTTAGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
12032040 ATATTTTGGTAAATAAAAAAAAGGATA
1 ATATTTTGGTAAATAAAAAAAAGGATA
*
12032067 ACATTTTGGT
1 ATATTTTGGT
12032077 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAAGGATA
Found at i:12034763 original size:20 final size:20
Alignment explanation
Indices: 12034701--12034764 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 20
12034691 AATATTTGTT
12034701 TTTATCAAACAA--TT-TAA
1 TTTATCAAACAATTTTCTAA
12034718 TTATATTCACAACATATATTTACTAA
1 TT-TA-TCA-AACA-AT-TTT-CTAA
12034744 TTTATCAAACAATTTTCTAA
1 TTTATCAAACAATTTTCTAA
12034764 T
1 T
12034765 ATAAATTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 3 0.08
20 9 0.24
21 4 0.11
22 2 0.05
23 4 0.11
24 5 0.13
25 2 0.05
26 5 0.13
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTATCAAACAATTTTCTAA
Found at i:12034825 original size:24 final size:24
Alignment explanation
Indices: 12034798--12034855 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
12034788 TAACAATAAC
*
12034798 TTTAATTTTTCAAACA-CTTAAAAT
1 TTTAATTTTTCAAACACCCT-AAAT
*
12034822 TTTAATTTATCAAACACCCTAAAT
1 TTTAATTTTTCAAACACCCTAAAT
12034846 TTATAATTTT
1 TT-TAATTTT
12034856 GTGGGTCTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAATTTTTCAAACACCCTAAAT
Found at i:12044674 original size:14 final size:14
Alignment explanation
Indices: 12044629--12044675 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12044619 TAAATAAAAT
*
12044629 ATTAA-AAATTAAT
1 ATTAAGAAATTAAG
* *
12044642 ATTAAAAAATTTAG
1 ATTAAGAAATTAAG
*
12044656 GTTAAGAAATTAAG
1 ATTAAGAAATTAAG
12044670 ATTAAG
1 ATTAAG
12044676 TGCTCAAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (14 bp):
ATTAAGAAATTAAG
Found at i:12045934 original size:18 final size:18
Alignment explanation
Indices: 12045911--12045946 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12045901 AGGGTGCATT
12045911 ATATGAA-AGTGATAAGTG
1 ATATGAATA-TGATAAGTG
12045929 ATATGAATATGATAAGTG
1 ATATGAATATGATAAGTG
12045947 TAAGGATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (18 bp):
ATATGAATATGATAAGTG
Found at i:12049625 original size:24 final size:24
Alignment explanation
Indices: 12049583--12049631 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12049573 AAATAGCCTA
*
12049583 TAACGGGTAGCTTCAAAGAACAAT
1 TAACGGGTAGCTCCAAAGAACAAT
* *
12049607 TAACGGGTAGCTCCGAAGAGCAAT
1 TAACGGGTAGCTCCAAAGAACAAT
12049631 T
1 T
12049632 TAACAGGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
TAACGGGTAGCTCCAAAGAACAAT
Found at i:12049714 original size:26 final size:26
Alignment explanation
Indices: 12049680--12049745 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
12049670 AAGCGAGCAC
* *
12049680 TAATAGGAAGCTCACAAAAAGCC-TT
1 TAATGGGAAGCTCACAAAAAGCCATA
* *
12049705 TAATTGGGAAGCTCATAAAGAGCCATA
1 TAA-TGGGAAGCTCACAAAAAGCCATA
*
12049732 TAATGGGACGCTCA
1 TAATGGGAAGCTCA
12049746 TAAGAGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 27 0.79
27 4 0.12
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (26 bp):
TAATGGGAAGCTCACAAAAAGCCATA
Found at i:12059399 original size:49 final size:49
Alignment explanation
Indices: 12059327--12059445 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
12059317 AAACTTAAAT
* **
12059327 CCGTGACCGCATAACCATTGTCAACT-A-AGCTCCTGAGTTATACTCCAAC
1 CCGTGACCGTATAACCACCGTCAACTAAGAGC-CCT-AGTTATACTCCAAC
*
12059376 CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTTCAAC
1 CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTCCAAC
* * *
12059425 CTGCGACCGTATAAGCACCGT
1 CCGTGACCGTATAACCACCGT
12059446 GTATTGGGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
49 54 0.89
50 4 0.07
51 3 0.05
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.23
Consensus pattern (49 bp):
CCGTGACCGTATAACCACCGTCAACTAAGAGCCCTAGTTATACTCCAAC
Found at i:12060330 original size:13 final size:13
Alignment explanation
Indices: 12060312--12060377 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 13
12060302 GTATGTGTAT
12060312 TTGAAATAATTAA
1 TTGAAATAATTAA
*
12060325 TTGAAATATTTCACA
1 TTGAAATAATT-A-A
* *
12060340 TATAAACATAATGATAT
1 T-TGAA-ATAAT--TAA
12060357 TTGAAATAATTAA
1 TTGAAATAATTAA
12060370 TTGAAATA
1 TTGAAATA
12060378 TTTCACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
13 20 0.49
14 1 0.02
15 7 0.17
16 6 0.15
17 5 0.12
18 1 0.02
19 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (13 bp):
TTGAAATAATTAA
Found at i:12060396 original size:39 final size:42
Alignment explanation
Indices: 12060309--12060403 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 42
12060299 TTTGTATGTG
12060309 TATTTGAAATAATTAATTGAAATATTTCACATATAAACATAATGA
1 TATTTGAAATAATTAATTGAAATATTTCACATAT--A-ATAATGA
12060354 TATTTGAAATAATTAATTGAAATATTTCACATAT-A-AAT-A
1 TATTTGAAATAATTAATTGAAATATTTCACATATAATAATGA
12060393 TATTTGAAATA
1 TATTTGAAATA
12060404 TCAAACCCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
39 12 0.24
40 3 0.06
41 1 0.02
45 34 0.68
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (42 bp):
TATTTGAAATAATTAATTGAAATATTTCACATATAATAATGA
Found at i:12060759 original size:50 final size:50
Alignment explanation
Indices: 12060703--12060803 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
12060693 AATAAAAGAG
* *
12060703 TTATTAATTAAAAAGATGCATTAAAA-ATAAAAAACTTGAAAACAATATGT
1 TTATTAATTAAAAAGATGAATTAAAATAAAAAAAACTTG-AAACAATATGT
* *
12060753 TTATTAATTAAAAATATTAATTAAAATTTAAAAAAAACTTGAAACAATATG
1 TTATTAATTAAAAAGATGAATTAAAA--TAAAAAAAACTTGAAACAATATG
12060804 ATATAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 23 0.52
52 10 0.23
53 11 0.25
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (50 bp):
TTATTAATTAAAAAGATGAATTAAAATAAAAAAAACTTGAAACAATATGT
Found at i:12060772 original size:13 final size:13
Alignment explanation
Indices: 12060754--12060778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12060744 ACAATATGTT
12060754 TATTAATTAAAAA
1 TATTAATTAAAAA
12060767 TATTAATTAAAA
1 TATTAATTAAAA
12060779 TTTAAAAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:12067562 original size:48 final size:48
Alignment explanation
Indices: 12067506--12067649 Score: 243
Period size: 48 Copynumber: 3.0 Consensus size: 48
12067496 TTAGTATGAA
*
12067506 ATTGGGTTATTCCTCTGTGACTAATCTTGAGAAGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
* *
12067554 ATTGGGTTATTCCTCTGTGAGTAATCTTGGGAGGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
* *
12067602 ACTGGGTTATTCCTTTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
1 ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
12067650 GCTATTCTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.42
Consensus pattern (48 bp):
ATTGGGTTATTCCTCTGTGACTAATCTTGGGAAGTATTTAAGTGTACT
Found at i:12073420 original size:55 final size:55
Alignment explanation
Indices: 12073336--12073500 Score: 267
Period size: 55 Copynumber: 3.0 Consensus size: 55
12073326 ACGTGTTATG
12073336 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
* * *
12073391 TAACAATCGAATTAAACATATAAATAATCGATTCAAAAGAATCAGTATTCTAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
* * * *
12073446 TGACAATCGATTTAAACATATAAAAAATCAATTCAAAATAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
12073501 ACTAAGAAGA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 100 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:12076054 original size:11 final size:11
Alignment explanation
Indices: 12076023--12076092 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
12076013 TTGTAACATC
12076023 CATTTCA-TTT
1 CATTTCATTTT
12076033 CTATTTCCATTTT
1 C-ATTT-CATTTT
* *
12076046 CATATCATTCT
1 CATTTCATTTT
*
12076057 CATTTTCATTCT
1 CA-TTTCATTTT
*
12076069 CATTTCAATTT
1 CATTTCATTTT
*
12076080 CATTTCATATT
1 CATTTCATTTT
12076091 CA
1 CA
12076093 AGTCGTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 1 0.02
11 29 0.59
12 15 0.31
13 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (11 bp):
CATTTCATTTT
Found at i:12076061 original size:23 final size:24
Alignment explanation
Indices: 12076031--12076085 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
12076021 TCCATTTCAT
*
12076031 TTCT-ATTTCCATTTTCATATC-A
1 TTCTCATTTCCATTCTCATATCAA
* *
12076053 TTCTCATTTTCATTCTCATTTCAA
1 TTCTCATTTCCATTCTCATATCAA
12076077 TT-TCATTTC
1 TTCTCATTTC
12076086 ATATTCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (24 bp):
TTCTCATTTCCATTCTCATATCAA
Done.