Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 76 of 121
Found at i:13046260 original size:11 final size:11
Alignment explanation
Indices: 13046208--13046259 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
13046198 AAAAATACAA
13046208 AATACAAAAAT
1 AATACAAAAAT
13046219 AATACCAAAAAT
1 AATA-CAAAAAT
13046231 AATAC-AAAAT
1 AATACAAAAAT
**
13046241 ACCA-AAAAAT
1 AATACAAAAAT
13046251 -ATACAAAAA
1 AATACAAAAA
13046260 AAATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 1 0.03
10 17 0.50
11 5 0.15
12 11 0.32
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.15
Consensus pattern (11 bp):
AATACAAAAAT
Found at i:13046442 original size:29 final size:29
Alignment explanation
Indices: 13046330--13046431 Score: 170
Period size: 29 Copynumber: 3.5 Consensus size: 29
13046320 GGCACCACTG
*
13046330 CCACCAGGCCCTACACC-CCACCCTTTTGA
1 CCACCATGCCCTAC-CCTCCACCCTTTTGA
13046359 CCACCATGCCCTACCCTCCACCCTTTTGA
1 CCACCATGCCCTACCCTCCACCCTTTTGA
13046388 CCACCATGCCCTACCCTCCACCCTTTTGA
1 CCACCATGCCCTACCCTCCACCCTTTTGA
*
13046417 CCACCATGCCTTACC
1 CCACCATGCCCTACC
13046432 ACCTATCCTT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
28 2 0.03
29 68 0.97
ACGTcount: A:0.19, C:0.52, G:0.08, T:0.22
Consensus pattern (29 bp):
CCACCATGCCCTACCCTCCACCCTTTTGA
Found at i:13048996 original size:52 final size:53
Alignment explanation
Indices: 13048918--13049074 Score: 205
Period size: 52 Copynumber: 3.0 Consensus size: 53
13048908 TATAATCATA
* *
13048918 CAAACTTGCCCATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTCTTGCAAGT
*
13048970 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTC-TCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTCTTGCAAGT
* * * * *
13049022 TAAACTTACCTATTAAAAATCTCCTTT-CTCTTAGAATTTTTCTT-TTACAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTTCTTGCAAGT
13049074 C
1 C
13049075 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.02
52 84 0.91
53 6 0.07
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTCTTGCAAGT
Found at i:13049823 original size:18 final size:19
Alignment explanation
Indices: 13049800--13049844 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
13049790 AATTTGTATA
13049800 ATTTTTTTGTATTAATTAT
1 ATTTTTTTGTATTAATTAT
13049819 ATTTTTTTGTATTAATTAT
1 ATTTTTTTGTATTAATTAT
13049838 ATTTTTT
1 ATTTTTT
13049845 ATTTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTTTGTATTAATTAT
Found at i:13050245 original size:10 final size:10
Alignment explanation
Indices: 13050232--13050275 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
13050222 ATTTTTTTGG
*
13050232 TTTTTTTCTT
1 TTTTTTTATT
13050242 TTTTTTTATT
1 TTTTTTTATT
*
13050252 TTTGTATTATT
1 TTT-TTTTATT
*
13050263 GTTTTTTATT
1 TTTTTTTATT
13050273 TTT
1 TTT
13050276 CCTTAAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:13050620 original size:33 final size:33
Alignment explanation
Indices: 13050570--13050840 Score: 141
Period size: 32 Copynumber: 8.4 Consensus size: 33
13050560 GAGGTCACAT
* * *
13050570 TTTTC-TTA-GTGCCAGCTAATCTAGACTTAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTTAAA
* * *
13050601 TTTTCATTAGGTGCTAGCTAAACTCGGTTTAAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTT-AAA
* * * *
13050635 CTTT-ATTA-GTGCTAGATAATCTTGGTTTAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTTAAA
* * *
13050666 TTTTCATTAAGTGCCAACTAAAT-TGGGCTTAAAA
1 TTTTCATTAGGTGCTAGCT-AATCTGGGCTT-AAA
* * * * *
13050700 CTTT-ACTAAGTGCTAGTTAAACTGGGCTTAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTTAAA
* * *
13050732 TTTTCATTGGGTGATAGCTAATTTGGGCTTAAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTT-AAA
* ** ***
13050766 TTTT-ATT-GGTGCAAAATAATCTGCATTTAAA
1 TTTTCATTAGGTGCTAGCTAATCTGGGCTTAAA
* * *
13050797 -TTTCATTGGGTGCTAGAC-AATATAGGCTTAAA
1 TTTTCATTAGGTGCTAG-CTAATCTGGGCTTAAA
*
13050829 -TTTCATTGGGTG
1 TTTTCATTAGGTG
13050841 TCAGCTAGAT
Statistics
Matches: 182, Mismatches: 45, Indels: 25
0.72 0.18 0.10
Matches are distributed among these distances:
30 3 0.02
31 17 0.09
32 72 0.40
33 68 0.37
34 22 0.12
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (33 bp):
TTTTCATTAGGTGCTAGCTAATCTGGGCTTAAA
Found at i:13050644 original size:65 final size:66
Alignment explanation
Indices: 13050574--13050812 Score: 200
Period size: 65 Copynumber: 3.7 Consensus size: 66
13050564 TCACATTTTT
* * * *
13050574 CTTAGTGCCAGCTAATCTAGACTTAAATTTTCATTAGGTGCTAGCTAAACTCGGTTTAAAACTTT
1 CTTAGTGCTAGATAATCTAGGCTTAAATTTTCATTAGGTGCTAGCTAAACTCGGCTTAAAACTTT
13050639 A
66 A
* * * * * * *
13050640 -TTAGTGCTAGATAATCTTGGTTTAAATTTTCATTAAGTGCCAACTAAATTGGGCTTAAAACTTT
1 CTTAGTGCTAGATAATCTAGGCTTAAATTTTCATTAGGTGCTAGCTAAACTCGGCTTAAAACTTT
13050704 A
66 A
* * * * * * ** * *
13050705 CTAAGTGCTAGTTAAACTGGGCTTAAATTTTCATTGGGTGATAGCTAATTTGGGCTTAAAATTTT
1 CTTAGTGCTAGATAATCTAGGCTTAAATTTTCATTAGGTGCTAGCTAAACTCGGCTTAAAACTTT
13050770 A
66 A
* * * *
13050771 -TTGGTGCAAAATAATCT--GCATTTAAA-TTTCATTGGGTGCTAG
1 CTTAGTGCTAGATAATCTAGGC--TTAAATTTTCATTAGGTGCTAG
13050813 ACAATATAGG
Statistics
Matches: 140, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
63 2 0.01
64 15 0.11
65 70 0.50
66 53 0.38
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (66 bp):
CTTAGTGCTAGATAATCTAGGCTTAAATTTTCATTAGGTGCTAGCTAAACTCGGCTTAAAACTTT
A
Found at i:13050758 original size:66 final size:65
Alignment explanation
Indices: 13050595--13050771 Score: 210
Period size: 66 Copynumber: 2.7 Consensus size: 65
13050585 CTAATCTAGA
* * * * * *
13050595 CTTAAATTTTCATTAGGTGCTAGCTAAACTCGGTTTAAAACTTTATTAGTGCTAGATAATCTTGG
1 CTTAAATTTTCATTAGGTGCTAGCTAAATTGGGCTTAAAACTTTATAAGTGCTAGATAAACTGGG
* * * * *
13050660 TTTAAATTTTCATTAAGTGCCAACTAAATTGGGCTTAAAACTTTACTAAGTGCTAGTTAAACTGG
1 CTTAAATTTTCATTAGGTGCTAGCTAAATTGGGCTTAAAACTTTA-TAAGTGCTAGATAAACTGG
13050725 G
65 G
* * * *
13050726 CTTAAATTTTCATTGGGTGATAGCTAATTTGGGCTTAAAATTTTAT
1 CTTAAATTTTCATTAGGTGCTAGCTAAATTGGGCTTAAAACTTTAT
13050772 TGGTGCAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 39 0.42
66 53 0.58
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (65 bp):
CTTAAATTTTCATTAGGTGCTAGCTAAATTGGGCTTAAAACTTTATAAGTGCTAGATAAACTGGG
Found at i:13051084 original size:22 final size:22
Alignment explanation
Indices: 13051038--13051088 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13051028 TAATATGAGT
*
13051038 TTACATGTCAACTAATCTAGAC
1 TTACGTGTCAACTAATCTAGAC
*
13051060 TTACGTGTCAACTAATTTA-AGC
1 TTACGTGTCAACTAATCTAGA-C
13051082 TTACGTG
1 TTACGTG
13051089 CTAGCTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (22 bp):
TTACGTGTCAACTAATCTAGAC
Found at i:13056706 original size:17 final size:17
Alignment explanation
Indices: 13056686--13056720 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13056676 TTTATTTGGA
13056686 CTTTTTTT-TCTTTTTCT
1 CTTTTTTTAT-TTTTTCT
13056703 CTTTTTTTATTTTTTCT
1 CTTTTTTTATTTTTTCT
13056720 C
1 C
13056721 CTAACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTTTATTTTTTCT
Found at i:13058537 original size:20 final size:19
Alignment explanation
Indices: 13058508--13058548 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
13058498 AATTTTGAGC
13058508 TTCATTTAAGATTTAAGGT
1 TTCATTTAAGATTTAAGGT
*
13058527 TTCATTTTAAGATTTTAGGT
1 TTCA-TTTAAGATTTAAGGT
13058547 TT
1 TT
13058549 TACCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (19 bp):
TTCATTTAAGATTTAAGGT
Found at i:13058913 original size:18 final size:17
Alignment explanation
Indices: 13058884--13058925 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13058874 TTAATCAATC
*
13058884 TTTTATTTATTATTATT
1 TTTTATTTATTAATATT
13058901 TTTTATGTTATTAATA-T
1 TTTTAT-TTATTAATATT
13058918 TTTTATTT
1 TTTTATTT
13058926 GATAACTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTAATATT
Found at i:13061049 original size:24 final size:24
Alignment explanation
Indices: 13061022--13061079 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
13061012 TTTTATTTTG
*
13061022 TATTATTTTTTAGTATTAATTATT
1 TATTATTTTTTAGTATTAATTATA
* * *
13061046 TATTGTTTGTTATTATTAATTATA
1 TATTATTTTTTAGTATTAATTATA
13061070 TATTATTTTT
1 TATTATTTTT
13061080 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TATTATTTTTTAGTATTAATTATA
Found at i:13061060 original size:17 final size:16
Alignment explanation
Indices: 13061013--13061121 Score: 66
Period size: 17 Copynumber: 6.7 Consensus size: 16
13061003 CCTTTTTTTT
*
13061013 TTTATTTTGTATTATTT
1 TTTATTTT-TATTATTA
* *
13061030 TTTAGTATTA--ATTA
1 TTTATTTTTATTATTA
*
13061044 TTTATTGTTTGTTATTA
1 TTTATT-TTTATTATTA
* *
13061061 TTAATTATATATTATT-
1 TTTATT-TTTATTATTA
13061077 TTTATTTTTATTATTA
1 TTTATTTTTATTATTA
13061093 --TATTTTCTATTACCTTA
1 TTTATTTT-TATTA--TTA
13061110 TTTGATTTTTAT
1 TTT-ATTTTTAT
13061122 ATTTACTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
14 14 0.20
15 15 0.21
16 7 0.10
17 25 0.36
19 4 0.06
20 5 0.07
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTATTTTTATTATTA
Found at i:13066866 original size:19 final size:18
Alignment explanation
Indices: 13066837--13066884 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
13066827 TCAAAATGAG
*
13066837 AAAAAA-AAAAAAAAAATC
1 AAAAAACAAAAACAAAA-C
*
13066855 AGAAAACCAAAAACAAAAC
1 A-AAAAACAAAAACAAAAC
13066874 AAAAAACAAAA
1 AAAAAACAAAA
13066885 TGAAAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAACAAAAACAAAAC
Found at i:13072188 original size:18 final size:18
Alignment explanation
Indices: 13072165--13072200 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13072155 CCATTTAAGG
13072165 CTTTTTTTGTTCAAAAAA
1 CTTTTTTTGTTCAAAAAA
*
13072183 CTTTTTTTGTTGAAAAAA
1 CTTTTTTTGTTCAAAAAA
13072201 TTATGCTCTA
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:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (18 bp):
CTTTTTTTGTTCAAAAAA
Found at i:13072920 original size:43 final size:41
Alignment explanation
Indices: 13072858--13072940 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 41
13072848 CATTACTTAC
* * *
13072858 TTTTTCTTTTCATCTTTAAATAGTGTAGTCAATTGTCAGGTAAA
1 TTTTTCTTGTCATCTTT-AA-A-CGTAGTCAATTGTAAGGTAAA
13072902 TTTTT-TTGTCATCTTTAAACGTAGTCAATTGTAAGGTAA
1 TTTTTCTTGTCATCTTTAAACGTAGTCAATTGTAAGGTAA
13072941 TCTATTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 18 0.50
41 1 0.03
42 2 0.06
43 10 0.28
44 5 0.14
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (41 bp):
TTTTTCTTGTCATCTTTAAACGTAGTCAATTGTAAGGTAAA
Found at i:13074694 original size:12 final size:12
Alignment explanation
Indices: 13074677--13074703 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13074667 CAATCTTTGT
13074677 AATCTATCATGG
1 AATCTATCATGG
13074689 AATCTATCATGG
1 AATCTATCATGG
13074701 AAT
1 AAT
13074704 GTTCAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (12 bp):
AATCTATCATGG
Found at i:13078652 original size:14 final size:14
Alignment explanation
Indices: 13078622--13078672 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
13078612 TTTCTTTACA
*
13078622 TATT-ATATATTTT
1 TATTAATATATATT
* * *
13078635 TATTTATTTATATA
1 TATTAATATATATT
13078649 TATTAATATATATT
1 TATTAATATATATT
*
13078663 CATTAATATA
1 TATTAATATA
13078673 ATAAATATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:13078703 original size:23 final size:22
Alignment explanation
Indices: 13078646--13078711 Score: 98
Period size: 21 Copynumber: 3.0 Consensus size: 22
13078636 ATTTATTTAT
*
13078646 ATATATTAATATATATTCATTA
1 ATATAATAATATATATTCATTA
13078668 ATATAATAA-ATATATTCATTA
1 ATATAATAATATATATTCATTA
*
13078689 ATATAATAAATATATATTTATTA
1 ATATAAT-AATATATATTCATTA
13078712 TGTTATGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 19 0.47
22 10 0.25
23 11 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATAATAATATATATTCATTA
Found at i:13079655 original size:3 final size:3
Alignment explanation
Indices: 13079647--13079677 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13079637 GGATTATAAT
13079647 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13079678 GAATATTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13085287 original size:3 final size:3
Alignment explanation
Indices: 13085281--13085308 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13085271 ACTACTATGG
13085281 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13085309 TACTACTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13085597 original size:19 final size:19
Alignment explanation
Indices: 13085552--13085616 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
13085542 AAACTTCATG
* *
13085552 GAAGACACGGTTGTTTTTT
1 GAAGAAACGGTTGATTTTT
**
13085571 GGGGGAAACGGTTGATTTTT
1 -GAAGAAACGGTTGATTTTT
* * *
13085591 GAAGAAAGGGTGGATTTTG
1 GAAGAAACGGTTGATTTTT
13085610 GAAGAAA
1 GAAGAAA
13085617 ATGGTGGATT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.29, C:0.05, G:0.35, T:0.31
Consensus pattern (19 bp):
GAAGAAACGGTTGATTTTT
Found at i:13085624 original size:20 final size:19
Alignment explanation
Indices: 13085584--13085627 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
13085574 GGAAACGGTT
*
13085584 GATTTTTGAAGAAAGGGTG
1 GATTTTGGAAGAAAGGGTG
*
13085603 GATTTTGGAAGAAAATGGTG
1 GATTTTGGAAG-AAAGGGTG
13085623 GATTT
1 GATTT
13085628 GGTGAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (19 bp):
GATTTTGGAAGAAAGGGTG
Found at i:13086234 original size:18 final size:18
Alignment explanation
Indices: 13086177--13086262 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 18
13086167 AAGTTTTCTT
*
13086177 TTTTTCATTTGATTTTTA
1 TTTTTAATTTGATTTTTA
* *
13086195 TTTTTTGATTTGA-TTTGA
1 -TTTTTAATTTGATTTTTA
13086213 TTTTTAATTT-ATTTTTA
1 TTTTTAATTTGATTTTTA
*
13086230 GTTTTT-ATTTTACTAATTTTA
1 -TTTTTAATTTGA-T--TTTTA
13086251 TTTTT-ATTTGAT
1 TTTTTAATTTGAT
13086263 ACATTTTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 17 0.30
18 10 0.18
19 13 0.23
20 10 0.18
21 5 0.09
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTGATTTTTA
Found at i:13086256 original size:20 final size:20
Alignment explanation
Indices: 13086225--13086272 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
13086215 TTTAATTTAT
*
13086225 TTTTAGTTTTTATTTTACTA-A
1 TTTTA-TTTTTATTTGA-TACA
13086246 TTTTATTTTTATTTGATACA
1 TTTTATTTTTATTTGATACA
13086266 TTTTATT
1 TTTTATT
13086273 ATTTTGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 5 0.20
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTATTTGATACA
Found at i:13086345 original size:23 final size:24
Alignment explanation
Indices: 13086319--13086363 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
13086309 AATAAATAAG
13086319 TTTTAAAAAAAAAT-AAAAAAATC
1 TTTTAAAAAAAAATGAAAAAAATC
** *
13086342 TTTTTCAAATAAATGAAAAAAA
1 TTTTAAAAAAAAATGAAAAAAA
13086364 GAGAAGAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
TTTTAAAAAAAAATGAAAAAAATC
Found at i:13089715 original size:17 final size:17
Alignment explanation
Indices: 13089695--13089737 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13089685 ATGGTGATAA
*
13089695 GATCACCAAGGTGATTT
1 GATCACCAAAGTGATTT
*
13089712 GATCATCAAAGTGATTT
1 GATCACCAAAGTGATTT
*
13089729 GATGACCAA
1 GATCACCAA
13089738 TGCTCTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (17 bp):
GATCACCAAAGTGATTT
Found at i:13091495 original size:39 final size:41
Alignment explanation
Indices: 13091441--13091518 Score: 124
Period size: 39 Copynumber: 1.9 Consensus size: 41
13091431 TCCTAAGTTG
13091441 ATGTCATAAGAACAAGA-ACTAAATC-AGTATAAATTATTA
1 ATGTCATAAGAACAAGATACTAAATCAAGTATAAATTATTA
*
13091480 ATGTCTTAAGAACAAGATACTAAATCATAGTATAAATTA
1 ATGTCATAAGAACAAGATACTAAATCA-AGTATAAATTA
13091519 AGTATCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 16 0.46
40 8 0.23
42 11 0.31
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (41 bp):
ATGTCATAAGAACAAGATACTAAATCAAGTATAAATTATTA
Found at i:13097238 original size:29 final size:29
Alignment explanation
Indices: 13097183--13097239 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
13097173 ATTAGTTAAA
* * *
13097183 TGCAATTTTTTTTAAGTTATAACTAATAC
1 TGCAATTTTATTTAAATAATAACTAATAC
13097212 TGCATATTTTATTTAAATAATAA-TAATA
1 TGCA-ATTTTATTTAAATAATAACTAATA
13097240 ATATATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (29 bp):
TGCAATTTTATTTAAATAATAACTAATAC
Found at i:13098385 original size:12 final size:12
Alignment explanation
Indices: 13098365--13098402 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13098355 AATGTGACAC
*
13098365 ATATCTTTAAAA
1 ATATATTTAAAA
13098377 ATATATTTAAAA
1 ATATATTTAAAA
*
13098389 A-ATAATTAAAA
1 ATATATTTAAAA
13098400 ATA
1 ATA
13098403 AAAATAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATATTTAAAA
Found at i:13098880 original size:5 final size:6
Alignment explanation
Indices: 13098863--13098887 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13098853 TCCAATTAGA
13098863 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
13098888 TTCATTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:13099258 original size:21 final size:20
Alignment explanation
Indices: 13099216--13099254 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13099206 GGTTTTGAGA
*
13099216 GTGAATTCAGGTTTCTAGAG
1 GTGAATTCAGGGTTCTAGAG
* *
13099236 GTGAATTTAGGGTTGTAGA
1 GTGAATTCAGGGTTCTAGA
13099255 AGGTTCGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (20 bp):
GTGAATTCAGGGTTCTAGAG
Found at i:13100069 original size:3 final size:3
Alignment explanation
Indices: 13100061--13100087 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13100051 AATTCTTGTT
13100061 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
13100088 ATATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13101263 original size:39 final size:40
Alignment explanation
Indices: 13101220--13101295 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
13101210 TTAATAATAA
13101220 TAAAATG-AAAATAA-AATAAGATAATAA-CTAAAAAAAATT
1 TAAAATGCAAAATAATAAT-A-ATAATAATCTAAAAAAAATT
*
13101259 TAAAATGCTAAATAATAATAATAATAATCTAAAAAAA
1 TAAAATGCAAAATAATAATAATAATAATCTAAAAAAA
13101296 TAATAAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 14 0.42
40 16 0.48
41 3 0.09
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (40 bp):
TAAAATGCAAAATAATAATAATAATAATCTAAAAAAAATT
Found at i:13101299 original size:19 final size:19
Alignment explanation
Indices: 13101240--13101301 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
13101230 ATAAAATAAG
13101240 ATAATAA-CTAAAAAAA-A
1 ATAATAATCTAAAAAAATA
*
13101257 TTTAA-AATGCTAAATAATAATA
1 -ATAATAAT-CTAAA-AA-AATA
13101279 ATAATAATCTAAAAAAATA
1 ATAATAATCTAAAAAAATA
13101298 ATAA
1 ATAA
13101302 GAATTGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
17 2 0.06
18 3 0.08
19 13 0.36
20 4 0.11
21 10 0.28
22 4 0.11
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAATAATCTAAAAAAATA
Found at i:13101669 original size:14 final size:14
Alignment explanation
Indices: 13101652--13101704 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
13101642 TCAAAACCTT
13101652 AACCCTAAAATCCA
1 AACCCTAAAATCCA
* * *
13101666 AACCTTTAAATTCAA
1 AACC-CTAAAATCCA
13101681 AACCCTAAAATCCA
1 AACCCTAAAATCCA
*
13101695 AACCCCAAAA
1 AACCCTAAAA
13101705 CCTTTGAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:13101778 original size:14 final size:13
Alignment explanation
Indices: 13101759--13101810 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
13101749 AAACCTCCTA
13101759 AAATCCAAACCCTT
1 AAATCCAAA-CCTT
* *
13101773 AAATCCAAATCAT
1 AAATCCAAACCTT
13101786 AATATCCAAAACCTT
1 AA-ATCC-AAACCTT
13101801 AAAATCCAAA
1 -AAATCCAAA
13101811 ATTCTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 9 0.29
16 2 0.06
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATCCAAACCTT
Found at i:13105273 original size:20 final size:20
Alignment explanation
Indices: 13105223--13105263 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13105213 ATTTTATTAG
* *
13105223 TCATGCATTCACTCATTCAT
1 TCATTCATTCACTCATCCAT
13105243 TCATTCATTCACTCATCCAT
1 TCATTCATTCACTCATCCAT
13105263 T
1 T
13105264 TATGTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATTCATTCACTCATCCAT
Found at i:13107644 original size:16 final size:15
Alignment explanation
Indices: 13107623--13107660 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
13107613 GAGGCATGCA
13107623 AAAAAAAAAGCTAAAG
1 AAAAAAAAAGC-AAAG
13107639 AAAAAAAAAGCAAAG
1 AAAAAAAAAGCAAAG
13107654 AAAAAAA
1 AAAAAAA
13107661 TAAAAATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGCAAAG
Found at i:13108130 original size:31 final size:31
Alignment explanation
Indices: 13108095--13108158 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13108085 CACTCAGTGA
13108095 AAGAACAAAAAAAAAAAAAAAAAAAGAAATG
1 AAGAACAAAAAAAAAAAAAAAAAAAGAAATG
* * *
13108126 AAGAATAAAAAAAAGAAAAAGAAAAGAAATG
1 AAGAACAAAAAAAAAAAAAAAAAAAGAAATG
13108157 AA
1 AA
13108159 TGGGTGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (31 bp):
AAGAACAAAAAAAAAAAAAAAAAAAGAAATG
Found at i:13108512 original size:8 final size:8
Alignment explanation
Indices: 13108501--13108534 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
13108491 AAAAAAAATC
13108501 AAAAAAAG
1 AAAAAAAG
13108509 AAAAAAAG
1 AAAAAAAG
13108517 AAAAAATAG
1 AAAAAA-AG
13108526 AAATAAAAG
1 AAA-AAAAG
13108535 CAGCTCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 7 0.29
10 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13108514 original size:17 final size:17
Alignment explanation
Indices: 13108492--13108533 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
13108482 ATAGTGAGTA
13108492 AAAAAAATCAAAAAA-AG
1 AAAAAAA-CAAAAAATAG
*
13108509 AAAAAAAGAAAAAATAG
1 AAAAAAACAAAAAATAG
13108526 AAATAAAA
1 AAA-AAAA
13108534 GCAGCTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAACAAAAAATAG
Found at i:13109186 original size:22 final size:22
Alignment explanation
Indices: 13109161--13109203 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13109151 GCCCAGTATT
*
13109161 GCTGGCATAGAAGCCCAAATTA
1 GCTGGCACAGAAGCCCAAATTA
* *
13109183 GCTGGCACATAAGCTCAAATT
1 GCTGGCACAGAAGCCCAAATT
13109204 TGGTGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (22 bp):
GCTGGCACAGAAGCCCAAATTA
Found at i:13109471 original size:33 final size:33
Alignment explanation
Indices: 13109434--13109683 Score: 162
Period size: 33 Copynumber: 7.5 Consensus size: 33
13109424 TCAAAAAAGA
* * *
13109434 TTTAAGCCCAATTTATCTTGCCATCAATGAATT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
** * * * *
13109467 TTTAAGTTCAGTTTAGCTAGCCCTTAAGGAAAT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
* * * * * * * *
13109500 CTTAAACCTAGTTTAGCTGGCCCTTAAAGAAAT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
* * * *
13109533 CTTAAGCCTAGTTTATATAGCCATCAATGAAGT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
* * * *
13109566 TTTAAGTCCAGTTTACCTAGCCTTCAAAGAATAT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAA-AT
* * *
13109600 TTTAAGCCCAATTTATCAAGCCATCAATGAAGT
1 TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
* * * **
13109633 TTTAAGCCTAATTTAACT-GGAATCTAA-GAAAAT
1 TTTAAGCCCAGTTTATCTAGCCATC-AATG-AAAT
13109666 TTTAAGCCCAGTTTATCT
1 TTTAAGCCCAGTTTATCT
13109684 GGCCTTAAAT
Statistics
Matches: 166, Mismatches: 48, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
32 5 0.03
33 135 0.81
34 26 0.16
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTAAGCCCAGTTTATCTAGCCATCAATGAAAT
Found at i:13109862 original size:32 final size:32
Alignment explanation
Indices: 13109757--13109875 Score: 130
Period size: 33 Copynumber: 3.7 Consensus size: 32
13109747 CTCCAATCTC
* * *
13109757 TAAGCCCAGTTTATCTGACCGTAAAAAAAAATT
1 TAAGCCCAGTTTATCTGGCCCT-AAATAAAATT
* * * * *
13109790 TAAGCCTAGTTTATTTGGCCATTAATAAAGTTT
1 TAAGCCCAGTTTATCTGGCCCTAAATAAA-ATT
* *
13109823 TAAGCCCAGTTTAGCTGGCCCTCAATAAAATT
1 TAAGCCCAGTTTATCTGGCCCTAAATAAAATT
13109855 TAAGCCCAGTTTATCTGGCCC
1 TAAGCCCAGTTTATCTGGCCC
13109876 CAAAAGAGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
32 27 0.38
33 44 0.62
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (32 bp):
TAAGCCCAGTTTATCTGGCCCTAAATAAAATT
Found at i:13110093 original size:38 final size:38
Alignment explanation
Indices: 13110047--13110160 Score: 138
Period size: 38 Copynumber: 2.9 Consensus size: 38
13110037 GTATCATGAA
13110047 AAGGACATTTGCATTTGCATCACTTGCATCTGCACCAC
1 AAGGACATTTGCATTTGCATCACTTGCATCTGCACCAC
* * * *
13110085 AAGGACATTTGCATTTGCATCACTTGCACCTACATCAT
1 AAGGACATTTGCATTTGCATCACTTGCATCTGCACCAC
* * *
13110123 AAGAAAGATATTTGCATTTGCATCATTTGCATTTGCAC
1 AAG---GACATTTGCATTTGCATCACTTGCATCTGCAC
13110161 TTGTATAAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 37 0.59
41 26 0.41
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (38 bp):
AAGGACATTTGCATTTGCATCACTTGCATCTGCACCAC
Found at i:13110725 original size:44 final size:44
Alignment explanation
Indices: 13110641--13110725 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
13110631 GTCAATTCTG
* * ** **
13110641 TAAGACCTTCAGGCATGTTTTTTAAGTCCTCTGATTATAATCTT
1 TAAGACCTTCAGGCATGATTTCTAAGTCCTCCAAGCATAATCTT
13110685 TAAGACCTTC-GAGCATGATTTCTAAGTCCTCCAAGCATAAT
1 TAAGACCTTCAG-GCATGATTTCTAAGTCCTCCAAGCATAAT
13110726 TTTGATTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.03
44 33 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (44 bp):
TAAGACCTTCAGGCATGATTTCTAAGTCCTCCAAGCATAATCTT
Found at i:13110742 original size:155 final size:154
Alignment explanation
Indices: 13110513--13110802 Score: 413
Period size: 155 Copynumber: 1.9 Consensus size: 154
13110503 ATTTGCAAGA
* * *
13110513 CCTCTGAGCATAATCTTTAAGACCTTCGGATATGATTTTTAAGTTCTCCAAGCATAATTTCGATT
1 CCTCTGAGCATAATCTTTAAGACCTTCGGACATGATTTCTAAGTCCTCCAAGCATAATTTCGATT
* * *
13110578 CACAATGTTGTCCCAATCGATTTTT-TTTATTTTCGACTTGCGGTGTTATCTCGGTCAATTCTGT
66 CACAATGTTGTCCCAATCGATTTTTAATT-TTTT-GACTTACGGTGTTATCTCGATCAATTCTGT
13110642 AAGACCTTCAGGCATGTTTTTTAAGT
129 AAGACCTTCAGGCATGTTTTTTAAGT
** *
13110668 CCTCTGATTATAATCTTTAAGACCTTC-GAGCATGATTTCTAAGTCCTCCAAGCATAATTTTGAT
1 CCTCTGAGCATAATCTTTAAGACCTTCGGA-CATGATTTCTAAGTCCTCCAAGCATAATTTCGAT
*** * *
13110732 TTGTAGTGTTGTCCCAATCGATTTTTAATTTTTTGACTTACGGTGTTATCTCGATCGATTCTGTA
65 TCACAATGTTGTCCCAATCGATTTTTAATTTTTTGACTTACGGTGTTATCTCGATCAATTCTGTA
13110797 AGACCT
130 AGACCT
13110803 CTGGGCATAA
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
154 36 0.30
155 81 0.68
156 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (154 bp):
CCTCTGAGCATAATCTTTAAGACCTTCGGACATGATTTCTAAGTCCTCCAAGCATAATTTCGATT
CACAATGTTGTCCCAATCGATTTTTAATTTTTTGACTTACGGTGTTATCTCGATCAATTCTGTAA
GACCTTCAGGCATGTTTTTTAAGT
Found at i:13110991 original size:88 final size:87
Alignment explanation
Indices: 13110720--13111157 Score: 430
Period size: 88 Copynumber: 4.9 Consensus size: 87
13110710 GTCCTCCAAG
** * * *
13110720 CATAATTTTGATTTGTAGTGTTGTCCCAATCGATTTTTAATTTTTTGACTTACGGTGTTATCTCG
1 CATAATTTTGATTTGCGGTGTTATCCCGATCGATTTTTAATTTTTTGACTTACGGTGTTATCTAG
*
13110785 ATCGATTCTGTAAGACCTCTGGG
66 -TCGATTCTGTAAGACCTCTGGA
* * * * *
13110808 CATAATTTGGATTTGCGGTGTTATCTCGATCAATTTTTTTAAATTTTTTGACTTGCGATGTTATC
1 CATAATTTTGATTTGCGGTGTTATCCCGATCGA--TTTTT-AATTTTTTGACTTACGGTGTTATC
* * * *
13110873 TCGATCGATTTTGTAAGACAT-TCGA
63 TAG-TCGATTCTGTAAGACCTCTGGA
* * * ** * * *
13110898 GCATAATTTTGATTCGCGGTATTGTCCCGATCGATTTTTAATTTTTCAACCTGCAGTGTTATCCT
1 -CATAATTTTGATTTGCGGTGTTATCCCGATCGATTTTTAATTTTTTGACTTACGGTGTTAT-CT
* *
13110963 TGTCGATTCTGTAAAACCTCTGGA
64 AGTCGATTCTGTAAGACCTCTGGA
* * * * *
13110987 CATAATTTTAATTTACGATGTTATCCCGATCGATTTTTAATTTTTTGACTTACGGTGCTATCCCA
1 CATAATTTTGATTTGCGGTGTTATCCCGATCGATTTTTAATTTTTTGACTTACGGTGTTAT-CTA
* * *
13111052 GTCAATTCTATAAAACCTCTGGA
65 GTCGATTCTGTAAGACCTCTGGA
* * * **
13111075 CATAATTTTGATTCGCGGTGTCATCCCAATCGATTCTTT-ATTTTTCAACTTACGGTGTTATCTC
1 CATAATTTTGATTTGCGGTGTTATCCCGATCGATT-TTTAATTTTTTGACTTACGGTGTTATCT-
13111139 AGTCGATTCTGTAAGACCT
64 AGTCGATTCTGTAAGACCT
13111158 TCGAGCATGA
Statistics
Matches: 284, Mismatches: 58, Indels: 16
0.79 0.16 0.04
Matches are distributed among these distances:
87 1 0.00
88 194 0.68
89 14 0.05
90 7 0.02
91 68 0.24
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (87 bp):
CATAATTTTGATTTGCGGTGTTATCCCGATCGATTTTTAATTTTTTGACTTACGGTGTTATCTAG
TCGATTCTGTAAGACCTCTGGA
Found at i:13111173 original size:176 final size:177
Alignment explanation
Indices: 13110718--13111173 Score: 485
Period size: 176 Copynumber: 2.6 Consensus size: 177
13110708 AAGTCCTCCA
* ** **
13110718 AGCATAATTTTGATTTGTAGTGTTGTCCCAATCGATTTTTAATTTTTTGACTTACGGTGTTATCT
1 AGCATAATTTTGATTCGCGGTGTTGTCCCAATCGATTTTTAATTTTTCAACTTACGGTGTTATCT
* ** * * *
13110783 CGATCGATTCTGTAAGACC-TCTGGGCATAATTTGGATTTGCGGTGTTATCTCGATCAATTTTTT
66 CG-TCGATTCTGTAAGACCTTC-GAGCATAATTTTAATTTACGATGTTATCCCGATCAA-TTTTT
* * * * * * *
13110847 TAAATTTTTTGACTTGCGATGTTATCTCGATCGATTTTGTAAGACATTCG
128 TAAATTTTTTGACTTACGATGCTATCCCGATCAATTCTATAAAACATTCG
* * * * *
13110897 AGCATAATTTTGATTCGCGGTATTGTCCCGATCGATTTTTAATTTTTCAACCTGCAGTGTTATCC
1 AGCATAATTTTGATTCGCGGTGTTGTCCCAATCGATTTTTAATTTTTCAACTTACGGTGTTAT-C
* * * *
13110962 TTGTCGATTCTGTAAAACCTCTGGA-CATAATTTTAATTTACGATGTTATCCCGATCGA-TTTTT
65 TCGTCGATTCTGTAAGACCT-TCGAGCATAATTTTAATTTACGATGTTATCCCGATCAATTTTTT
* * *
13111025 -AATTTTTTGACTTACGGTGCTATCCC-AGTCAATTCTATAAAACCTCTGG
129 AAATTTTTTGACTTACGATGCTATCCCGA-TCAATTCTATAAAACAT-TCG
**
13111074 A-CATAATTTTGATTCGCGGTGTCATCCCAATCGATTCTTT-ATTTTTCAACTTACGGTGTTATC
1 AGCATAATTTTGATTCGCGGTGTTGTCCCAATCGATT-TTTAATTTTTCAACTTACGGTGTTATC
*
13111137 TCAGTCGATTCTGTAAGACCTTCGAGCATGATTTTAA
65 TC-GTCGATTCTGTAAGACCTTCGAGCATAATTTTAA
13111174 GACCTCTAGG
Statistics
Matches: 228, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
175 6 0.03
176 111 0.49
177 11 0.05
179 95 0.42
180 4 0.02
181 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (177 bp):
AGCATAATTTTGATTCGCGGTGTTGTCCCAATCGATTTTTAATTTTTCAACTTACGGTGTTATCT
CGTCGATTCTGTAAGACCTTCGAGCATAATTTTAATTTACGATGTTATCCCGATCAATTTTTTAA
ATTTTTTGACTTACGATGCTATCCCGATCAATTCTATAAAACATTCG
Found at i:13111174 original size:21 final size:23
Alignment explanation
Indices: 13111150--13111241 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 23
13111140 GTCGATTCTG
13111150 TAAGACCTTCGA-GCATGATTT-
1 TAAGACCTTCGAGGCATGATTTC
* *
13111171 TAAGACC-TCTAGGCATAATTTC
1 TAAGACCTTCGAGGCATGATTTC
* * *
13111193 TAAGAACTCCGA-GCA--ATTCTG
1 TAAGACCTTCGAGGCATGATT-TC
13111214 TAAGA-CTTC-AGGCATGATTT-
1 TAAGACCTTCGAGGCATGATTTC
13111234 TAAGACCT
1 TAAGACCT
13111242 CCGGGAAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 17 0.30
21 24 0.43
22 12 0.21
23 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (23 bp):
TAAGACCTTCGAGGCATGATTTC
Found at i:13111499 original size:22 final size:22
Alignment explanation
Indices: 13111452--13111517 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
13111442 ATCGGTTTTA
*
13111452 TAAGACCTCCAGACATCATTTC
1 TAAGACCTCCAGACATAATTTC
* *
13111474 TAAGTCCTCCGGACATAATCTT-
1 TAAGACCTCCAGACATAAT-TTC
**
13111496 TAAGACCTCTTGACATAATTTC
1 TAAGACCTCCAGACATAATTTC
13111518 AATTCGGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCAGACATAATTTC
Found at i:13111815 original size:3 final size:3
Alignment explanation
Indices: 13111809--13111842 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13111799 AATAATAATA
13111809 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13111843 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13113813 original size:16 final size:16
Alignment explanation
Indices: 13113792--13113822 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13113782 ACCTATGGAT
*
13113792 AAAAAGCTAGATTCTC
1 AAAAAGCTAAATTCTC
13113808 AAAAAGCTAAATTCT
1 AAAAAGCTAAATTCT
13113823 TACTTCTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAAGCTAAATTCTC
Found at i:13115487 original size:80 final size:80
Alignment explanation
Indices: 13115354--13115512 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
13115344 AATTATTGTG
* * *
13115354 TGAAATTTGGCATTGCAACTAGAAGAAAGTGCATAATTGAATTGGGCATGTTAGCTGAAGAGCTT
1 TGAAATTTGGCATGGCAACTAGAAGAAAATGCATAATTGAATTGGGCATGTTAGCTAAAGAGCTT
*
13115419 TAACGCAAGAGATAC
66 TAACACAAGAGATAC
* * *
13115434 TGAAATTTGGCATGGCAGCTAGAAGAAAATGCATGATTGTATTGGGCATGTTAGCTAAAGAGCTT
1 TGAAATTTGGCATGGCAACTAGAAGAAAATGCATAATTGAATTGGGCATGTTAGCTAAAGAGCTT
13115499 TAACACAAGAGATA
66 TAACACAAGAGATA
13115513 ATAGTGCCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (80 bp):
TGAAATTTGGCATGGCAACTAGAAGAAAATGCATAATTGAATTGGGCATGTTAGCTAAAGAGCTT
TAACACAAGAGATAC
Found at i:13115696 original size:54 final size:54
Alignment explanation
Indices: 13115547--13115914 Score: 249
Period size: 54 Copynumber: 6.8 Consensus size: 54
13115537 TGTTAGTGCT
** * * * *
13115547 GAGCCTTAATTCAAGAGATAAAGGTGCCAGGGGCACATTAATCATGTTGGCATA
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCATA
* * ** * ** ** *
13115601 AAACCTTAATGCAATAGATAAAGGTGCCATGAACATGTTGAGCATGTTGGCATG
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCATA
* * *
13115655 GAGTCTTAACACAATAGATAAAGGTGCTAAGGGCACATTGAGCGTGTTGGC-TCA
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCAT-A
*** * * *** *
13115709 GAGCCTTAGTGCAAT-GATAAAAGTGCCAAGGGCATATTGAATGTGTTAGCATA
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCATA
** * * ** ** * *
13115762 GAGCCTTAATGCAAGAGATAAAAGTGTTAAAAGCATATTGAGCATGTTAG--TGA
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCAT-A
* * ** *
13115815 GAAGCCTTAACACAATAAATAAAGGTGCCATGGGCACATTGAGTGTGTTGGCGTA
1 G-AGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCATA
* * * * *
13115870 GAGTCATAACACAATAGATAAAAGTGCTAGGGGCACATTGAGCAT
1 GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCAT
13115915 ATCGGTAGGA
Statistics
Matches: 241, Mismatches: 66, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
52 1 0.00
53 46 0.19
54 191 0.79
55 2 0.01
56 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (54 bp):
GAGCCTTAACACAATAGATAAAGGTGCCAAGGGCACATTGAGCATGTTGGCATA
Found at i:13115805 original size:161 final size:161
Alignment explanation
Indices: 13115563--13115866 Score: 373
Period size: 161 Copynumber: 1.9 Consensus size: 161
13115553 TAATTCAAGA
* * * * *
13115563 GATAAAGGTGCCAGGGGCACATTAATCATGTTGGCATAAAACCTTAATGCAATAGATAAAGGTGC
1 GATAAAAGTGCCAAGGGCACATTAATCATGTTAGCATAAAACCTTAATGCAAGAGATAAAAGTGC
* * * * * *
13115628 CATGAACATGTTGAGCATGTT-G-GCATGGAGTCTTAACACAATAGATAAAGGTGCTAAGGGCAC
66 CATAAACATATTGAGCATGTTAGTG-A-GAAGCCTTAACACAATAAATAAAGGTGCCAAGGGCAC
13115691 ATTGAGCGTGTTGGCTCAGAGCCTTAGTGCAAT
129 ATTGAGCGTGTTGGCTCAGAGCCTTAGTGCAAT
* * * *
13115724 GATAAAAGTGCCAAGGGCATATTGAAT-GTGTTAGCATAGAGCCTTAATGCAAGAGATAAAAGTG
1 GATAAAAGTGCCAAGGGCACATT-AATCATGTTAGCATAAAACCTTAATGCAAGAGATAAAAGTG
** *
13115788 TTA-AAAGCATATTGAGCATGTTAGTGAGAAGCCTTAACACAATAAATAAAGGTGCCATGGGCAC
65 CCATAAA-CATATTGAGCATGTTAGTGAGAAGCCTTAACACAATAAATAAAGGTGCCAAGGGCAC
*
13115852 ATTGAGTGTGTTGGC
129 ATTGAGCGTGTTGGC
13115867 GTAGAGTCAT
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
160 2 0.02
161 112 0.93
162 5 0.04
163 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (161 bp):
GATAAAAGTGCCAAGGGCACATTAATCATGTTAGCATAAAACCTTAATGCAAGAGATAAAAGTGC
CATAAACATATTGAGCATGTTAGTGAGAAGCCTTAACACAATAAATAAAGGTGCCAAGGGCACAT
TGAGCGTGTTGGCTCAGAGCCTTAGTGCAAT
Found at i:13116031 original size:75 final size:75
Alignment explanation
Indices: 13115901--13116114 Score: 243
Period size: 75 Copynumber: 2.9 Consensus size: 75
13115891 AAGTGCTAGG
* * * * *
13115901 GGCACATT-GAGCATATCGGTAGGAAGTGGGGACTATGTTAACCCATATATGTTAACACAAGTAA
1 GGCACATTAG-GCATATCAGTAGGAAATGGGGACTATGTTAACCCATATGTCTTAACACAAATAA
13115965 AT-AGCGCACAA
65 ATGA-CGCACAA
* **
13115976 GGCACATTAGGCATATCAGTAGGAAATGGTGACTATGTTAACTTATATGTCTTAACACAAATAAA
1 GGCACATTAGGCATATCAGTAGGAAATGGGGACTATGTTAACCCATATGTCTTAACACAAATAAA
* *
13116041 TGACGTACGA
66 TGACGCACAA
* * * * * * *
13116051 GGCACGTTAGACATGTCAGCAAGAAATGGGGACTATGTTAACCCATATGCCTTAACATAAATAA
1 GGCACATTAGGCATATCAGTAGGAAATGGGGACTATGTTAACCCATATGTCTTAACACAAATAA
13116115 GTAGTGTGCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
75 115 0.98
76 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (75 bp):
GGCACATTAGGCATATCAGTAGGAAATGGGGACTATGTTAACCCATATGTCTTAACACAAATAAA
TGACGCACAA
Found at i:13120235 original size:37 final size:37
Alignment explanation
Indices: 13120194--13120266 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
13120184 ATTCTTGGGG
* *
13120194 AGGTTGTT-GGATGGCTTATTGGTATTGTTGGAGTAAA
1 AGGTTGTTAGG-TGGCTTATTGGTACTATTGGAGTAAA
*
13120231 AGGTTGTTAGGTGGCTTGTTGGTACTATTGGAGTAA
1 AGGTTGTTAGGTGGCTTATTGGTACTATTGGAGTAA
13120267 TCTTTACTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.40
Consensus pattern (37 bp):
AGGTTGTTAGGTGGCTTATTGGTACTATTGGAGTAAA
Found at i:13121219 original size:21 final size:21
Alignment explanation
Indices: 13121193--13121245 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
13121183 CATGGGTCAG
13121193 ATTTAATGATCTTTAAGCTGC
1 ATTTAATGATCTTTAAGCTGC
* *
13121214 ATTTAATGATCTTTGAGCTGT
1 ATTTAATGATCTTTAAGCTGC
13121235 ATTTAATGATC
1 ATTTAATGATC
13121246 CTAAGTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTTAATGATCTTTAAGCTGC
Found at i:13123079 original size:3 final size:3
Alignment explanation
Indices: 13123053--13123199 Score: 130
Period size: 3 Copynumber: 51.0 Consensus size: 3
13123043 ATTTTTGTTA
* *
13123053 TAT TA- TAT TA- TAT TA- TAG TAT TAT TAT CA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
13123097 TAT TAG CA- TAT TGT ATAG TAT TA- TAT CA- TAT TAT TA- TAT CAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
13123139 TAT TGT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13123187 TAT TAT TACT TAT
1 TAT TAT TA-T TAT
13123200 GTAATTCTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
2 13 0.11
3 99 0.85
4 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13124051 original size:19 final size:18
Alignment explanation
Indices: 13124024--13124064 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
13124014 AATTGCAGGT
*
13124024 TTTTTTTTTTTCATTTTCA
1 TTTTATTTTTTCATTTT-A
*
13124043 TTTTATTTTTTGATTTTA
1 TTTTATTTTTTCATTTTA
13124061 TTTT
1 TTTT
13124065 TTTAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTCATTTTA
Found at i:13124053 original size:13 final size:13
Alignment explanation
Indices: 13124037--13124066 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13124027 TTTTTTTTCA
13124037 TTTTCATTTTATT
1 TTTTCATTTTATT
*
13124050 TTTTGATTTTATT
1 TTTTCATTTTATT
13124063 TTTT
1 TTTT
13124067 TAATTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTCATTTTATT
Found at i:13124105 original size:18 final size:18
Alignment explanation
Indices: 13124082--13124116 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13124072 ATTTATCTTA
*
13124082 AGTTTTTATTTCATTTTT
1 AGTTTTTATTTAATTTTT
13124100 AGTTTTTATTTAATTTT
1 AGTTTTTATTTAATTTT
13124117 ATTGGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
AGTTTTTATTTAATTTTT
Found at i:13130118 original size:69 final size:69
Alignment explanation
Indices: 13129976--13130119 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 69
13129966 TTTTTTTGAA
** * * *
13129976 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTATGAATTTAAAAGTCTTTGTGAATCTA
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTACAAATCTAAAAGTCCTTGCGAATCTA
*
13130041 GAAC
66 CAAC
** *
13130045 CTTTGTGAAACTTGAAATCTTGTGAATCTTTCTTTCTTGCAAATCTAAAAGTCCTTGCGAA-CTT
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTACAAATCTAAAAGTCCTTGCGAATC-T
*
13130109 ACAAT
65 ACAAC
13130114 CTTTGT
1 CTTTGT
13130120 AAATCTAGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.02
69 63 0.98
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (69 bp):
CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTACAAATCTAAAAGTCCTTGCGAATCTA
CAAC
Found at i:13130844 original size:3 final size:3
Alignment explanation
Indices: 13130838--13130967 Score: 117
Period size: 3 Copynumber: 44.3 Consensus size: 3
13130828 ATAATAATAA
* * * *
13130838 TAT TAT TAT TAG TA- TAT TGT ATAG TAT TA- TAT CA- TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
13130880 TAT CAT TAT AAT TAT CAT TAT TAC TAT TAT TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
13130928 TGT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
13130968 CTTCTTTCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
2 9 0.09
3 88 0.87
4 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:13131783 original size:20 final size:19
Alignment explanation
Indices: 13131754--13131793 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13131744 TCGTAGGATC
*
13131754 TTTTTTTTTTAATTTTTTA
1 TTTTTTTTTTAATTGTTTA
13131773 TTTTATTTTTTAATTGTTTA
1 TTTT-TTTTTTAATTGTTTA
13131793 T
1 T
13131794 CTTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTAATTGTTTA
Found at i:13131803 original size:20 final size:20
Alignment explanation
Indices: 13131760--13131803 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
13131750 GATCTTTTTT
* * **
13131760 TTTTAATTTTTTATTTTATT
1 TTTTAATTGTTTATCTTAAA
13131780 TTTTAATTGTTTATCTTAAA
1 TTTTAATTGTTTATCTTAAA
13131800 TTTT
1 TTTT
13131804 TATTTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTAATTGTTTATCTTAAA
Found at i:13136828 original size:18 final size:18
Alignment explanation
Indices: 13136788--13136830 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13136778 TTATAATATC
*
13136788 AATTTTATATTAAATTAA
1 AATTTTATATTAAAATAA
13136806 AATTTT-TATTAAGAATAA
1 AATTTTATATTAA-AATAA
*
13136824 TATTTTA
1 AATTTTA
13136831 ATTGTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTATATTAAAATAA
Found at i:13136829 original size:17 final size:16
Alignment explanation
Indices: 13136795--13136953 Score: 84
Period size: 14 Copynumber: 9.9 Consensus size: 16
13136785 ATCAATTTTA
* *
13136795 TATTAAATTAAAATTTT
1 TATTAAAATAATA-TTT
13136812 TATTAAGAATAATATTT
1 TATTAA-AATAATATTT
13136829 TAATTGTAAAACATAAT-TTT
1 T-A-T-T-AAA-ATAATATTT
* * *
13136849 TGTAAAAATAAT-TAT
1 TATTAAAATAATATTT
13136864 TATT-AAATAATATTT
1 TATTAAAATAATATTT
* *
13136879 TAATAAAACAA-ATTT
1 TATTAAAATAATATTT
13136894 T-TTACGAAATAAT-TTT
1 TATTA--AAATAATATTT
13136910 TATT-AAATAATATTTT
1 TATTAAAATAATA-TTT
* *
13136926 TAATAAAACAAT-TTT
1 TATTAAAATAATATTT
13136941 T-TTAAAATAATAT
1 TATTAAAATAATAT
13136954 GAAAATAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
14 24 0.22
15 24 0.22
16 23 0.21
17 18 0.16
18 7 0.06
19 1 0.01
20 6 0.05
21 7 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TATTAAAATAATATTT
Found at i:13136906 original size:46 final size:44
Alignment explanation
Indices: 13136819--13136951 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 44
13136809 TTTTATTAAG
13136819 AATAATATTTTAATTGTAAAACATAATTTTTGTAAAAATAATTATTATTA
1 AATAATATTTTAA---TAAAACA-AATTTTT-T-AAAATAATTATTATTA
*
13136869 AATAATATTTTAATAAAACAAATTTTTTACGAAATAATTTTTATTA
1 AATAATATTTTAATAAAACAAATTTTTTA--AAATAATTATTATTA
*
13136915 AATAATATTTTTAATAAAACAATTTTTTTAAAATAAT
1 AATAATA-TTTTAATAAAACAAATTTTTTAAAATAAT
13136952 ATGAAAATAA
Statistics
Matches: 78, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
44 1 0.01
45 8 0.10
46 28 0.36
47 28 0.36
50 13 0.17
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (44 bp):
AATAATATTTTAATAAAACAAATTTTTTAAAATAATTATTATTA
Found at i:13136925 original size:31 final size:31
Alignment explanation
Indices: 13136868--13136953 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 31
13136858 AATTATTATT
* * * *
13136868 AAATAATATTTTAATAAA-ACAAATTTTTTACG
1 AAATAAT-TTTTATTAAATA-ATATTTTTAACA
*
13136900 AAATAATTTTTATTAAATAATATTTTTAATA
1 AAATAATTTTTATTAAATAATATTTTTAACA
*
13136931 AAACAATTTTT-TTAAAATAATAT
1 AAATAATTTTTATT-AAATAATAT
13136954 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
30 2 0.04
31 36 0.78
32 8 0.17
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (31 bp):
AAATAATTTTTATTAAATAATATTTTTAACA
Found at i:13136946 original size:14 final size:15
Alignment explanation
Indices: 13136787--13136947 Score: 60
Period size: 16 Copynumber: 10.0 Consensus size: 15
13136777 TTTATAATAT
13136787 CAATTTTATATTAAATTA
1 CAATTTT-TATTAAA--A
*
13136805 AAATTTTTATTAAGAA
1 CAATTTTTATTAA-AA
*
13136821 TAATATTTTAATTGTAAAA
1 CAAT-TTTT-A-T-TAAAA
* *
13136840 CATAATTTTTGTAAAAA
1 C--AATTTTTATTAAAA
* *
13136857 TAATTATTATT-AAA
1 CAATTTTTATTAAAA
* *
13136871 TAATATTTTAATAAAA
1 CAAT-TTTTATTAAAA
*
13136887 CAAATTTT-TTACGAAA
1 CAATTTTTATTA--AAA
*
13136903 TAATTTTTATTAAATA
1 CAATTTTTATTAAA-A
*
13136919 -ATATTTTTAATAAAA
1 CA-ATTTTTATTAAAA
13136934 CAATTTTT-TTAAAA
1 CAATTTTTATTAAAA
13136948 TAATATGAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
14 14 0.13
15 26 0.24
16 31 0.28
17 17 0.15
18 9 0.08
19 3 0.03
20 7 0.06
21 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (15 bp):
CAATTTTTATTAAAA
Found at i:13142078 original size:112 final size:116
Alignment explanation
Indices: 13141869--13142099 Score: 389
Period size: 112 Copynumber: 2.0 Consensus size: 116
13141859 ATTAGATTTT
*
13141869 GGTTTATCTGTTTCTATAACATCATAGTACAAAATTCTCAAAAACTTACTACATTTTTTGAAAGC
1 GGTTTATCTGTTTCTATAACATCATAGTACAAAATTCTCAAAAACTTACTACATCTTTTGAAAGC
*
13141934 ATATCACCTACAATATTATAATTATTTAATCAAAATAAAAGATTATATAGA
66 ATATCACCTACAATATTATAATTATTCAATCAAAATAAAAGATTATATAGA
* * *
13141985 GGTTTATTTGTTTCTGTAACATCATAGTACAAAA-T-T-AAAAACTTACTACATCTTTTG-AGGC
1 GGTTTATCTGTTTCTATAACATCATAGTACAAAATTCTCAAAAACTTACTACATCTTTTGAAAGC
13142046 ATATCACCTACAATATTATAATTATTCAATCAAAATAAAAGATTATATAGA
66 ATATCACCTACAATATTATAATTATTCAATCAAAATAAAAGATTATATAGA
13142097 GGT
1 GGT
13142100 CAACCATTTA
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
112 56 0.51
113 20 0.18
114 1 0.01
115 1 0.01
116 32 0.29
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (116 bp):
GGTTTATCTGTTTCTATAACATCATAGTACAAAATTCTCAAAAACTTACTACATCTTTTGAAAGC
ATATCACCTACAATATTATAATTATTCAATCAAAATAAAAGATTATATAGA
Found at i:13143917 original size:18 final size:18
Alignment explanation
Indices: 13143894--13143931 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13143884 TCAATTCCTT
13143894 CTCCTCCCCATATGGGTA
1 CTCCTCCCCATATGGGTA
* *
13143912 CTCCTCCTCATTTGGGTA
1 CTCCTCCCCATATGGGTA
13143930 CT
1 CT
13143932 TCCCCTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.37, G:0.16, T:0.34
Consensus pattern (18 bp):
CTCCTCCCCATATGGGTA
Found at i:13144416 original size:13 final size:13
Alignment explanation
Indices: 13144398--13144423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13144388 TTATTTGCTT
13144398 CCTCTTCAGGTTG
1 CCTCTTCAGGTTG
13144411 CCTCTTCAGGTTG
1 CCTCTTCAGGTTG
13144424 TTTTGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.23, T:0.38
Consensus pattern (13 bp):
CCTCTTCAGGTTG
Found at i:13146014 original size:18 final size:17
Alignment explanation
Indices: 13145991--13146104 Score: 101
Period size: 18 Copynumber: 6.5 Consensus size: 17
13145981 ATAATTTTAC
13145991 TAATAAATAATATTATAT
1 TAATAAATAATA-TATAT
13146009 TAATAAATAATATATTAAT
1 TAATAAATAATATA-T-AT
* *
13146028 AAATAAAATTATAATATAT
1 TAAT-AAATAAT-ATATAT
13146047 TAATAAATAATATACTAT
1 TAATAAATAATATA-TAT
*
13146065 TAAT--AT-A-ATCTAT
1 TAATAAATAATATATAT
*
13146078 TAATAAATGATATTATAT
1 TAATAAATAATA-TATAT
13146096 TAATAAATA
1 TAATAAATA
13146105 TTATTAAATA
Statistics
Matches: 79, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
13 7 0.09
14 2 0.03
15 3 0.04
16 3 0.04
17 6 0.08
18 38 0.48
19 10 0.13
20 7 0.09
21 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (17 bp):
TAATAAATAATATATAT
Found at i:13146022 original size:15 final size:15
Alignment explanation
Indices: 13145999--13146133 Score: 92
Period size: 15 Copynumber: 9.3 Consensus size: 15
13145989 ACTAATAAAT
*
13145999 AATATTATATTAATA
1 AATAATATATTAATA
13146014 AATAATATATTAATA
1 AATAATATATTAATA
13146029 AATAA-A-A-T--T-
1 AATAATATATTAATA
13146038 -ATAATATATTAATA
1 AATAATATATTAATA
* *
13146052 AATAATATACTATTA
1 AATAATATATTAATA
*
13146067 ATATAATCTATTAATA
1 A-ATAATATATTAATA
13146083 AATGATATTATATTAATA
1 AAT-A-A-TATATTAATA
13146101 AAT-AT-TATTAAATA
1 AATAATATATT-AATA
* *
13146115 ATATAA-AGAATAATA
1 A-ATAATATATTAATA
13146130 AATA
1 AATA
13146134 GTTTTATTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 31
0.71 0.07 0.23
Matches are distributed among these distances:
8 4 0.04
9 1 0.01
10 2 0.02
11 1 0.01
12 1 0.01
13 6 0.06
14 10 0.10
15 42 0.44
16 16 0.17
17 1 0.01
18 12 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:13146045 original size:23 final size:23
Alignment explanation
Indices: 13146015--13146104 Score: 85
Period size: 23 Copynumber: 3.8 Consensus size: 23
13146005 ATATTAATAA
13146015 ATAATATATTAATAAATAAAATT
1 ATAATATATTAATAAATAAAATT
*
13146038 ATAATATATTAATAAATAATATACT
1 ATAATATATTAATAAATAA-A-ATT
* *
13146063 ATTAATATAATCT-ATTAAT-AAATG
1 A-TAATAT-AT-TAATAAATAAAATT
*
13146087 ATATTATATTAATAAATA
1 ATAATATATTAATAAATA
13146105 TTATTAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.02
22 7 0.13
23 24 0.44
24 3 0.06
25 4 0.07
26 7 0.13
27 7 0.13
28 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (23 bp):
ATAATATATTAATAAATAAAATT
Found at i:13146072 original size:31 final size:29
Alignment explanation
Indices: 13145991--13146119 Score: 112
Period size: 31 Copynumber: 4.5 Consensus size: 29
13145981 ATAATTTTAC
13145991 TAATAAATAATATTATATTAATAAATAATATAT
1 TAATAAATAATA-TATATT-AT--ATAATATAT
13146024 TAATAAAT-A-A-A-A-T-TATAATATAT
1 TAATAAATAATATATATTATATAATATAT
*
13146047 TAATAAATAATATACTATTAATATAATCTAT
1 TAATAAATAATATA-TATT-ATATAATATAT
*
13146078 TAATAAATGATATTATATTA-ATAA-ATAT
1 TAATAAATAATA-TATATTATATAATATAT
*
13146106 TATTAAATAATATA
1 TAATAAATAATATA
13146120 AAGAATAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
23 17 0.21
24 1 0.01
25 2 0.02
26 1 0.01
27 3 0.04
28 15 0.18
29 6 0.07
30 1 0.01
31 25 0.30
32 3 0.04
33 8 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (29 bp):
TAATAAATAATATATATTATATAATATAT
Found at i:13150025 original size:15 final size:15
Alignment explanation
Indices: 13150005--13150033 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13149995 AAGTCACTCG
13150005 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
13150020 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
13150034 GGTAAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:13150342 original size:33 final size:30
Alignment explanation
Indices: 13150283--13150359 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
13150273 TTTTTTTAAA
* *
13150283 AAAAATAAGAGTTTATTTGGATATAAATCC
1 AAAAATAAAAATTTATTTGGATATAAATCC
* * *
13150313 AAAAATAAAAATTTATTTGAAGAT-AAT-A
1 AAAAATAAAAATTTATTTGGATATAAATCC
13150341 AAAATATAAAAATTTATTT
1 AAAA-ATAAAAATTTATTT
13150360 AAATAAAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.10
29 17 0.41
30 20 0.49
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (30 bp):
AAAAATAAAAATTTATTTGGATATAAATCC
Found at i:13151942 original size:2 final size:2
Alignment explanation
Indices: 13151937--13151964 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13151927 TTGAAATGCT
13151937 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13151965 ATCATTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13154128 original size:11 final size:12
Alignment explanation
Indices: 13154113--13154145 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13154103 GAGGTAAATC
13154113 GTTTATTTTTTT
1 GTTTATTTTTTT
13154125 -TTTATTTTTTT
1 GTTTATTTTTTT
13154136 GTTTGATTTT
1 GTTT-ATTTT
13154146 GTATTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 3 0.16
13 5 0.26
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (12 bp):
GTTTATTTTTTT
Found at i:13155003 original size:34 final size:34
Alignment explanation
Indices: 13154965--13155030 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
13154955 AAAAATACGG
13154965 ATAATTGA-AATGCATTTTGAAAATGTATTTTTGA
1 ATAATT-ACAATGCATTTTGAAAATGTATTTTTGA
*
13154999 ATAATTACAATGCTTTTTGAAAATGTATTTTT
1 ATAATTACAATGCATTTTGAAAATGTATTTTT
13155031 TGATATAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (34 bp):
ATAATTACAATGCATTTTGAAAATGTATTTTTGA
Found at i:13155051 original size:35 final size:34
Alignment explanation
Indices: 13154979--13155070 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
13154969 TTGAAATGCA
* *
13154979 TTTTGAAAATGTATTTTTGAATAATTACAATGCT
1 TTTTGAAAATGTATTTTTGAATAATGACAAAGCT
* *
13155013 TTTTGAAAATGTATTTTTTGATATAGTGAGAAAG-T
1 TTTTGAAAATGTA-TTTTTGA-ATAATGACAAAGCT
* **
13155048 TTTTGGAAATAAATTTTT-AATAA
1 TTTTGAAAATGTATTTTTGAATAA
13155071 CTTATTGAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 3 0.06
33 1 0.02
34 18 0.38
35 18 0.38
36 8 0.17
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTGAAAATGTATTTTTGAATAATGACAAAGCT
Found at i:13165383 original size:95 final size:95
Alignment explanation
Indices: 13165232--13165414 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 95
13165222 TAATAATTTT
* * * * * * *
13165232 TACTACTATTGTTGACTATTATTTACAAATTACTTCAGTTCTCTTCAGTTTGATTAATTAATGAT
1 TACTAATATTATTGACTATTATTTACAAATTACTTAAGTACACTTCAATTTAATTAATTAATGAT
13165297 TAAGAAAGAAAATAAAGAGATTTATATAGC
66 TAAGAAAGAAAATAAAGAGATTTATATAGC
* * * *
13165327 TACTAATATTATTGAGTATTGTTTACAAATTATTTAAGTACACTTTAATTTAATTAATTAATGAT
1 TACTAATATTATTGACTATTATTTACAAATTACTTAAGTACACTTCAATTTAATTAATTAATGAT
* * *
13165392 TAAGTAGGAAAATAAAGATATTT
66 TAAGAAAGAAAATAAAGAGATTT
13165415 TTAGCATATG
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (95 bp):
TACTAATATTATTGACTATTATTTACAAATTACTTAAGTACACTTCAATTTAATTAATTAATGAT
TAAGAAAGAAAATAAAGAGATTTATATAGC
Found at i:13165807 original size:16 final size:16
Alignment explanation
Indices: 13165788--13165824 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13165778 GATTTTTTTA
13165788 TTAAATTTT-TTTAACT
1 TTAAATTTTGTTTAA-T
13165804 TT-AATTTTGTTTAAT
1 TTAAATTTTGTTTAAT
13165819 TTAAAT
1 TTAAAT
13165825 ATATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTAAATTTTGTTTAAT
Found at i:13165809 original size:15 final size:14
Alignment explanation
Indices: 13165773--13165822 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
13165763 ATAGAGTTTA
*
13165773 AATTTGATTTTTTT
1 AATTTAATTTTTTT
*
13165787 -ATTAAATTTTTTT
1 AATTTAATTTTTTT
13165800 AACTTTAATTTTGTTT
1 AA-TTTAATTTT-TTT
13165816 AATTTAA
1 AATTTAA
13165823 ATATATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 13 0.43
16 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (14 bp):
AATTTAATTTTTTT
Found at i:13173428 original size:2 final size:2
Alignment explanation
Indices: 13173421--13173470 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
13173411 AGAAAAAGGC
* * * *
13173421 AT AT AT AT AT AT GT GT GT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13173463 AT AT AT AT
1 AT AT AT AT
13173471 CTGAGACGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13181910 original size:26 final size:26
Alignment explanation
Indices: 13181877--13181933 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
13181867 ATTTTTTTTC
*
13181877 TCTTAGAATTCTTCTATTGCAAGTTT
1 TCTTAGAATTCTTCTATTACAAGTTT
*
13181903 TCTTAGAATTCTTCTCTTACAAGTTT
1 TCTTAGAATTCTTCTATTACAAGTTT
13181929 TCTTA
1 TCTTA
13181934 TTCATCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.51
Consensus pattern (26 bp):
TCTTAGAATTCTTCTATTACAAGTTT
Found at i:13187265 original size:20 final size:19
Alignment explanation
Indices: 13187237--13187276 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13187227 TAACCTTGAT
13187237 AAAAATTTGATAAATTTTA
1 AAAAATTTGATAAATTTTA
*
13187256 AAAAATTTTGATAACTTTTA
1 AAAAA-TTTGATAAATTTTA
13187276 A
1 A
13187277 TATATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
AAAAATTTGATAAATTTTA
Found at i:13187294 original size:23 final size:22
Alignment explanation
Indices: 13187259--13187329 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
13187249 AATTTTAAAA
*
13187259 AATTTTGATAACTTTTAATATAT
1 AATTTTGGTAACTTTTAATAT-T
* *
13187282 AATTTTGGCAACTTTTTATATT
1 AATTTTGGTAACTTTTAATATT
* *
13187304 AA-TTTGGTAACTTATGATA-T
1 AATTTTGGTAACTTTTAATATT
13187324 AATTTT
1 AATTTT
13187330 TAAAATCACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.07
21 17 0.41
22 3 0.07
23 18 0.44
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (22 bp):
AATTTTGGTAACTTTTAATATT
Found at i:13187392 original size:22 final size:21
Alignment explanation
Indices: 13187259--13187419 Score: 103
Period size: 21 Copynumber: 7.6 Consensus size: 21
13187249 AATTTTAAAA
*
13187259 AATTTTGATAACTTTTAATATAT
1 AATTTTGGTAACTTTT--TATAT
*
13187282 AATTTTGGCAACTTTTTATATT
1 AATTTTGGTAACTTTTTATA-T
* *
13187304 AA-TTTGGTAACTTATGATAT
1 AATTTTGGTAACTTTTTATAT
** *** *
13187324 AATTTT--TAAAATCACATAC
1 AATTTTGGTAACTTTTTATAT
* * * *
13187343 AATTTTGGAAACTATTGATAA
1 AATTTTGGTAACTTTTTATAT
*
13187364 AATTTTGGTAACTTCTTTATGT
1 AATTTTGGTAACTT-TTTATAT
* *
13187386 AATTTTGATAACTTTTTGTAT
1 AATTTTGGTAACTTTTTATAT
*
13187407 AATTTAGGTAACT
1 AATTTTGGTAACT
13187420 CATAATATAG
Statistics
Matches: 104, Mismatches: 29, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
19 13 0.12
20 3 0.03
21 54 0.52
22 20 0.19
23 14 0.13
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (21 bp):
AATTTTGGTAACTTTTTATAT
Found at i:13187411 original size:21 final size:22
Alignment explanation
Indices: 13187364--13187454 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 22
13187354 CTATTGATAA
* *
13187364 AATTTTGGTAACTTCTTTATGT
1 AATTTTGATAACTTCTTTATAT
*
13187386 AATTTTGATAACTT-TTTGTAT
1 AATTTTGATAACTTCTTTATAT
* * * *
13187407 AATTTAGGTAAC-TCATAATAT
1 AATTTTGATAACTTCTTTATAT
* *
13187428 AGTTTTGATAA-TTATTTAGTA-
1 AATTTTGATAACTTCTTTA-TAT
13187449 AATTTT
1 AATTTT
13187455 TGTCATTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
20 1 0.02
21 35 0.69
22 15 0.29
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (22 bp):
AATTTTGATAACTTCTTTATAT
Found at i:13187732 original size:22 final size:22
Alignment explanation
Indices: 13187698--13187754 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
13187688 CCAATAATTG
**
13187698 ATAATTAGGTTATAACTGATTT
1 ATAATTAAATTATAACTGATTT
* * * *
13187720 ATTATTATATTATTAGTGATTT
1 ATAATTAAATTATAACTGATTT
13187742 ATAATTAAATTAT
1 ATAATTAAATTAT
13187755 CAAAGATTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATAATTAAATTATAACTGATTT
Found at i:13187820 original size:22 final size:22
Alignment explanation
Indices: 13187714--13187921 Score: 102
Period size: 22 Copynumber: 9.5 Consensus size: 22
13187704 AGGTTATAAC
* * * *
13187714 TGATTTATTATTATATTATTAG
1 TGATTTACTATTAAATTATGAA
*
13187736 TGATTTA-TAATTAAATTATCAA
1 TGATTTACT-ATTAAATTATGAA
* * * * *
13187758 AGATTCACTGTTAAATTATTAT
1 TGATTTACTATTAAATTATGAA
* ** * *
13187780 TCATTTAAAACTAATTTATGAA
1 TGATTTACTATTAAATTATGAA
* *
13187802 TTATTTACTATTAAATTATTAA
1 TGATTTACTATTAAATTATGAA
*
13187824 TGATTTACTATTAAGTTACTG-A
1 TGATTTACTATTAAATTA-TGAA
* *
13187846 TGATTTATTATAAAATTAT-AA
1 TGATTTACTATTAAATTATGAA
* *
13187867 TTGATGTACTACT-AATTCATCG-A
1 -TGATTTACTATTAAATT-AT-GAA
** *
13187890 TGATTTACTACAAAATTATCAA
1 TGATTTACTATTAAATTATGAA
*
13187912 TGATTAACTA
1 TGATTTACTA
13187922 ATTTACTACT
Statistics
Matches: 138, Mismatches: 38, Indels: 20
0.70 0.19 0.10
Matches are distributed among these distances:
21 7 0.05
22 124 0.90
23 7 0.05
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (22 bp):
TGATTTACTATTAAATTATGAA
Found at i:13187852 original size:44 final size:44
Alignment explanation
Indices: 13187804--13187921 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
13187794 TTTATGAATT
* *
13187804 ATTTACTATTAAATTATTAATGATTTACTATTAAGTT-A-CTGATG
1 ATTTACTATAAAATTATTAATGATTTACTACTAA-TTCATC-GATG
* *
13187848 ATTTATTATAAAATTA-TAATTGATGTACTACTAATTCATCGATG
1 ATTTACTATAAAATTATTAA-TGATTTACTACTAATTCATCGATG
* * *
13187892 ATTTACTACAAAATTATCAATGATTAACTA
1 ATTTACTATAAAATTATTAATGATTTACTA
13187922 ATTTACTACT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.08
44 53 0.87
45 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (44 bp):
ATTTACTATAAAATTATTAATGATTTACTACTAATTCATCGATG
Found at i:13188017 original size:22 final size:22
Alignment explanation
Indices: 13187966--13188019 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
13187956 AATTAAATTA
*
13187966 TAAATTATCATTGATTTACAAC
1 TAAATTATCAGTGATTTACAAC
* * * *
13187988 CAAGTTATTAGTGATTTACTAC
1 TAAATTATCAGTGATTTACAAC
13188010 TAAATTATCA
1 TAAATTATCA
13188020 ATATTATTAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (22 bp):
TAAATTATCAGTGATTTACAAC
Found at i:13188227 original size:86 final size:85
Alignment explanation
Indices: 13188135--13188342 Score: 201
Period size: 86 Copynumber: 2.4 Consensus size: 85
13188125 AAACTATCCA
* * * *
13188135 TAATTTACTATTAAGTTATTGATGATTTA-CTAGTAA-ATTAT-ATTTATCTACTTTTAAATTTT
1 TAATTTACTATTAAGTTATTAATGATTTATC-ACTAAGATTATAATTAAT-TACTATTAAA--TT
*
13188197 CAAA-TAACTTAATTAGATTATAAT
62 CAAACTAA-TTAATTAAATTATAAT
* * * * * * *
13188221 TTATTTATTACTAAGTTATTTATAATTTATCACTAAGTTTATCAATTAATTACTATTAAATTGAA
1 TAATTTACTATTAAGTTATTAATGATTTATCACTAAGATTAT-AATTAATTACTATTAAATTCAA
*
13188286 ACTAATTTATTAAATTATAAT
65 ACTAATTAATTAAATTATAAT
*
13188307 TAATTTACTATTAAGTTATTAATGA-TTATTACTAAG
1 TAATTTACTATTAAGTTATTAATGATTTATCACTAAG
13188343 GTTTCACTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
85 10 0.10
86 67 0.68
87 8 0.08
88 9 0.09
89 5 0.05
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (85 bp):
TAATTTACTATTAAGTTATTAATGATTTATCACTAAGATTATAATTAATTACTATTAAATTCAAA
CTAATTAATTAAATTATAAT
Found at i:13188310 original size:19 final size:19
Alignment explanation
Indices: 13188259--13188313 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
13188249 ATCACTAAGT
13188259 TTATCAATTAATTACTATTAAA
1 TTAT-AATTAATT--TATTAAA
*
13188281 TTGA-AACTAATTTATTAAA
1 TT-ATAATTAATTTATTAAA
13188300 TTATAATTAATTTA
1 TTATAATTAATTTA
13188314 CTATTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 18 0.62
21 7 0.24
22 2 0.07
23 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TTATAATTAATTTATTAAA
Found at i:13188679 original size:22 final size:22
Alignment explanation
Indices: 13188636--13188688 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
13188626 TTAAGTTCTT
* *
13188636 ATTGATTTATTACCATGTTATC
1 ATTGATTTATTACCAAGCTATC
**
13188658 ATTGATTTATTAGTAAGCTATC
1 ATTGATTTATTACCAAGCTATC
*
13188680 AATGATTTA
1 ATTGATTTA
13188689 ATAATAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (22 bp):
ATTGATTTATTACCAAGCTATC
Found at i:13188826 original size:22 final size:22
Alignment explanation
Indices: 13188782--13188826 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13188772 TACTAATTTT
* * * *
13188782 TTGATGATTTACTGTTAAGTTA
1 TTGATGATTTAATATAAAATTA
13188804 TTGATGATTTAATATAAAATTA
1 TTGATGATTTAATATAAAATTA
13188826 T
1 T
13188827 AACTGATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (22 bp):
TTGATGATTTAATATAAAATTA
Found at i:13188966 original size:22 final size:21
Alignment explanation
Indices: 13188926--13188987 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
13188916 AAGCTATTTG
* **
13188926 TAATTTACTACTAGGTTATCAA
1 TAATTTACTATTATATTAT-AA
*
13188948 TAATTTACTATTATATTATTA
1 TAATTTACTATTATATTATAA
13188969 TGAATTTACTATTATATTA
1 T-AATTTACTATTATATTA
13188988 CCATTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTTACTATTATATTATAA
Found at i:13189159 original size:22 final size:22
Alignment explanation
Indices: 13189134--13189264 Score: 97
Period size: 22 Copynumber: 6.0 Consensus size: 22
13189124 GAATAATTAT
*
13189134 TAAGTTATCAATGATTTACTAC
1 TAAGTTATTAATGATTTACTAC
* * * **
13189156 TAAGTCA-TATTGATTTATTTT
1 TAAGTTATTAATGATTTACTAC
* *
13189177 TAAGTTTTTAATGATTAACTAC
1 TAAGTTATTAATGATTTACTAC
* * *
13189199 TAAATTATTAATTATTTACTAT
1 TAAGTTATTAATGATTTACTAC
* *
13189221 TAAGTTA-AAATTGATTTACCAC
1 TAAGTTATTAA-TGATTTACTAC
*
13189243 TAAGTTATTTAT-AGTTTACTAC
1 TAAGTTATTAATGA-TTTACTAC
13189265 CACCAATTAA
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
21 17 0.22
22 61 0.77
23 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (22 bp):
TAAGTTATTAATGATTTACTAC
Found at i:13189346 original size:22 final size:24
Alignment explanation
Indices: 13189308--13189365 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
13189298 TACTATTAAG
*
13189308 TTATC-ATTAATTTATTACTA-AA-
1 TTATCAATT-ATTAATTACTACAAC
13189330 TTATCAATTATTAATTACTACAAC
1 TTATCAATTATTAATTACTACAAC
*
13189354 TTATCACTTATT
1 TTATCAATTATT
13189366 TTTTAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.48
23 5 0.16
24 11 0.35
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATCAATTATTAATTACTACAAC
Found at i:13189425 original size:22 final size:22
Alignment explanation
Indices: 13189399--13189459 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
13189389 TGATATAATT
*
13189399 GATTTACTATTAAGTTATTAT-
1 GATTTAATATTAAGTTATTATA
13189420 GCATTTAATATTATA-TTATTATA
1 G-ATTTAATATTA-AGTTATTATA
*
13189443 GATTTATTATTAAGTTA
1 GATTTAATATTAAGTTA
13189460 ACAATTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.52
Consensus pattern (22 bp):
GATTTAATATTAAGTTATTATA
Found at i:13198564 original size:23 final size:23
Alignment explanation
Indices: 13198519--13198564 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13198509 TTTTTAATAA
13198519 AACTATAAAAACGAGTTTAAAGT
1 AACTATAAAAACGAGTTTAAAGT
*
13198542 AACTATAAAAATGAGTTTAAAGT
1 AACTATAAAAACGAGTTTAAAGT
13198565 TTATCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (23 bp):
AACTATAAAAACGAGTTTAAAGT
Found at i:13200821 original size:22 final size:22
Alignment explanation
Indices: 13200757--13200827 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
13200747 CCATCCTTAA
* *
13200757 TTTTTTTTGTCTTTTGT-TCTCT
1 TTTTTTTTGTATTTTGTAT-TAT
13200779 TTTTTTTTGGTATTTAT-TATT-T
1 TTTTTTTT-GTATTT-TGTATTAT
13200801 TTTTATTTTGTATTTTGTATTAT
1 TTTT-TTTTGTATTTTGTATTAT
13200824 TTTT
1 TTTT
13200828 GGTATTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.02
22 23 0.55
23 16 0.38
24 2 0.05
ACGTcount: A:0.10, C:0.04, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTTTTTTGTATTTTGTATTAT
Found at i:13200825 original size:17 final size:17
Alignment explanation
Indices: 13200803--13200886 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 17
13200793 TATTATTTTT
13200803 TTATTTTGTATTTTGTA
1 TTATTTTGTATTTTGTA
* *
13200820 TTATTTTTGGTATTTTTTT
1 TTA-TTTT-GTATTTTGTA
**
13200839 TGTATTTCATATTTTGTA
1 T-TATTTTGTATTTTGTA
*
13200857 ATATTTT-TATTTT-TA
1 TTATTTTGTATTTTGTA
*
13200872 TT-TTATTTTATTTTG
1 TTATT-TTGTATTTTG
13200887 GGACAAAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
14 2 0.04
15 5 0.10
16 12 0.23
17 8 0.15
18 11 0.21
19 12 0.23
20 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.73
Consensus pattern (17 bp):
TTATTTTGTATTTTGTA
Found at i:13200852 original size:37 final size:37
Alignment explanation
Indices: 13200793--13200864 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
13200783 TTTTGGTATT
** *
13200793 TATTATTTTTTTATTTTGTATTTTGTATTATTTTTGG
1 TATTATTTTTTTATTTCATATTTTGTAATATTTTTGG
13200830 TATT-TTTTTTGTATTTCATATTTTGTAATATTTTT
1 TATTATTTTTT-TATTTCATATTTTGTAATATTTTT
13200865 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.72
Consensus pattern (37 bp):
TATTATTTTTTTATTTCATATTTTGTAATATTTTTGG
Found at i:13201388 original size:35 final size:35
Alignment explanation
Indices: 13201349--13202598 Score: 442
Period size: 35 Copynumber: 34.8 Consensus size: 35
13201339 GAAATTAATG
* *
13201349 AAATGATCAGGATTAAACCACGAGCCAAAGATTAA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * * * *
13201384 AAATGA-CTGGGATTGAATCGCAAGTCAGAGAAT-G
1 AAATGATC-GGGATTAAACCACGAGTCAAAGATTAA
13201418 AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * ****
13201453 AGATGA-CTGAGATTGAACTTTAAGTCAAGAGATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* *
13201489 TGAAATGACCGGGATTAAACCACGAGTCAAGGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * *
13201526 AGATGA-CTGGGACTAAACCGCAAGTCAGGAA-A-TAA
1 AAATGATC-GGGATTAAACCACGAGTCA--AAGATTAA
* **
13201561 TGAAATGACCGGGATTAAACCGTGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * * *
13201598 AGATGA-CTGGGACTAAATCGCAAGTCAAGAAATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* ** *
13201634 TGAAATGATCGGGATTAAATCGTGAGTTAAAGATT--
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * *** * * * *
13201669 --A--CT-GGGATTGAACCGTAATTCAGAGAAT-G
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* *
13201698 AAATGACCGGGATTAAACCACAAGTCAAAGATTAA
1 AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* ****
13201733 AGATGA-CTGGGATTAAACTTTAAGTCAAGAGATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* * *
13201769 TGAAATGACCGGGATTAAACCACGAGTTAAGGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * * *
13201806 AGATGATTGGGACTAAACCGCAAGTCAGAA-AATAA
1 AAATGATCGGGATTAAACCACGAGTCA-AAGATTAA
*
13201841 TGAAATGATCGAGATTAAACCACGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * *
13201878 AGATGA-CTGGGACTAAACCGCAAGTCAAGAAATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* *
13201914 TGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * *** *
13201951 AGATGA-CTGGGATTGAATCGTAATTCAAAGAATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAAAG-ATTAA
* *
13201987 TGAAATGACCAGGATTAAACCACGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * ****
13202024 AGATGA-CTGGGATTGAACTTTAAGTCAAGAGATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* * *
13202060 TGAAATGACCGAGATTAAACCACGAGTCAAGGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * * *
13202097 AGATGA-CTGGGACTAAATCGCAAGTTAGGAA-A-TAA
1 AAATGATC-GGGATTAAACCACGAGTCA--AAGATTAA
*
13202132 TGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * *** * *
13202169 AGATGA-CTGAGACTAAATTGCAAGTCAAGAAATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
* *
13202205 TGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * *** *
13202242 AGATGA-CTGGGGTTAAACCGTAAGTCAAGAAATTAA
1 AAATGATC-GGGATTAAACCACGAGTCAA-AGATTAA
*
13202278 TGAAATGACCGGGATTAAACCACGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * ***
13202315 AGATGA-CTGGGACTAAACCGTAAGTCAGGAA-A-TAA
1 AAATGATC-GGGATTAAACCACGAGTCA--AAGATTAA
**
13202350 TGAAATGATCGGGATTAAACCGTGAGTCAAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * * *
13202387 AGATGATTGGGACTAAACCGCAAGTCAAGAAATTAA
1 AAATGATCGGGATTAAACCACGAGTCAA-AGATTAA
* *
13202423 TGAAATGATCGAGATTAAACCACGAGTCAAGGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * *
13202460 AGATGA-CTGGGACTAAACCGCAAGTCAGGAA-A-TAA
1 AAATGATC-GGGATTAAACCACGAGTCA--AAGATTAA
* * * *
13202495 TGAAATGACCGAGATTAAACCGCGAGTCCAAGATTAA
1 --AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
* * * * *
13202532 AGATGA-CTGAGACTAAACCGC-ACGTCAGAAAATTAA
1 AAATGATC-GGGATTAAACCACGA-GTCA-AAGATTAA
*
13202568 TGAAATGATCGGGATTAAACCACGAGCCAAA
1 --AAATGATCGGGATTAAACCACGAGTCAAA
13202599 AGGTAAAGAT
Statistics
Matches: 900, Mismatches: 219, Indels: 190
0.69 0.17 0.15
Matches are distributed among these distances:
28 18 0.02
29 1 0.00
31 2 0.00
34 59 0.07
35 354 0.39
36 74 0.08
37 177 0.20
38 205 0.23
39 10 0.01
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (35 bp):
AAATGATCGGGATTAAACCACGAGTCAAAGATTAA
Found at i:13201518 original size:73 final size:73
Alignment explanation
Indices: 13201279--13202639 Score: 1643
Period size: 73 Copynumber: 18.9 Consensus size: 73
13201269 AAAATAAGAA
* * * * ** * *
13201279 GATCGGGATTAAACCACGAATCAAATATTAACGATGACTGGGACTGAACCATAAATCGAGGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC-AAGAAAT
13201344 TAATGAAAT
65 TAATGAAAT
* * * * * * *
13201353 GATCAGGATTAAACCACGAGCCAAAGATTAAAAATGACTGGGATTGAATCGCAAGTC-AG--A-G
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201414 AATGAAAT
66 AATGAAAT
* * * *** *
13201422 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201487 AATGAAAT
66 AATGAAAT
* * *
13201495 GACCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201559 AATGAAAT
66 AATGAAAT
* ** *
13201567 GACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGACTAAATCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201632 AATGAAAT
66 AATGAAAT
* * * * * * * *
13201640 GATCGGGATTAAA--TC--GT--GAG-TTAAAGATTACTGGGATTGAACCGTAATTC-AG--A-G
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201694 AATGAAAT
66 AATGAAAT
* * * *** *
13201702 GACCGGGATTAAACCACAAGTCAAAGATTAAAGATGACTGGGATTAAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201767 AATGAAAT
66 AATGAAAT
* * * * *
13201775 GACCGGGATTAAACCACGAGTTAAGGATTAAAGATGATTGGGACTAAACCGCAAGTC-AGAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201839 AATGAAAT
66 AATGAAAT
*
13201847 GATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13201912 AATGAAAT
66 AATGAAAT
* * * * * * *
13201920 GATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGATTGAATCGTAATTCAA-AGAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGA-AAT
13201984 TAATGAAAT
65 TAATGAAAT
* * * * *** *
13201993 GACCAGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202058 AATGAAAT
66 AATGAAAT
* * * * * *
13202066 GACCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAATCGCAAGTTAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202130 AATGAAAT
66 AATGAAAT
* * **
13202138 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGACTAAATTGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202203 AATGAAAT
66 AATGAAAT
* * ** *
13202211 GATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGGTTAAACCGTAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202276 AATGAAAT
66 AATGAAAT
* * *
13202284 GACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGTAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202348 AATGAAAT
66 AATGAAAT
** *
13202356 GATCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGGGACTAAACCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202421 AATGAAAT
66 AATGAAAT
* * *
13202429 GATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
13202493 AATGAAAT
66 AATGAAAT
* * * * * *
13202501 GACCGAGATTAAACCGCGAGTCCAAGATTAAAGATGACTGAGACTAAACCGCACGTC-AGAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAG-AAAT
13202565 TAATGAAAT
65 TAATGAAAT
* * *
13202574 GATCGGGATTAAACCACGAGCCAAA-AGGTAAAGATGACTGGGACTAAACCGCAAGTCAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGA-TTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAAT
13202638 TA
65 TA
13202640 TATAAGACTG
Statistics
Matches: 1111, Mismatches: 151, Indels: 51
0.85 0.12 0.04
Matches are distributed among these distances:
62 20 0.02
63 1 0.00
64 1 0.00
65 2 0.00
66 26 0.02
67 2 0.00
68 2 0.00
69 84 0.08
70 5 0.00
71 1 0.00
72 330 0.30
73 589 0.53
74 48 0.04
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (73 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
AATGAAAT
Found at i:13201633 original size:145 final size:145
Alignment explanation
Indices: 13201279--13202639 Score: 1647
Period size: 145 Copynumber: 9.5 Consensus size: 145
13201269 AAAATAAGAA
* * * * ** * *
13201279 GATCGGGATTAAACCACGAATCAAATATTAACGATGACTGGGACTGAACCATAAATCGAGGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC-AAGAAAT
* * * * * *
13201344 TAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAAATGACTGGGATTGAATCGCAAGT
65 TAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGT
*
13201409 CA-G--AGAATGAAAT
130 CAGGAAATAATGAAAT
* * * *** *
13201422 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* *
13201487 AATGAAATGACCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
13201552 AGGAAATAATGAAAT
131 AGGAAATAATGAAAT
* ** *
13201567 GACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGACTAAATCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * * * * *
13201632 AATGAAATGATCGGGATTAAA--TC--GT--GAG-TTAAAGATTACTGGGATTGAACCGTAATTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13201690 A-G--AGAATGAAAT
131 AGGAAATAATGAAAT
* * * *** *
13201702 GACCGGGATTAAACCACAAGTCAAAGATTAAAGATGACTGGGATTAAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * *
13201767 AATGAAATGACCGGGATTAAACCACGAGTTAAGGATTAAAGATGATTGGGACTAAACCGCAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13201832 AGAAAATAATGAAAT
131 AGGAAATAATGAAAT
*
13201847 GATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * * * * *
13201912 AATGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGATTGAATCGTAATTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
* *
13201977 AAAGAATTAATGAAAT
131 -AGGAAATAATGAAAT
* * * * *** *
13201993 GACCAGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * * *
13202058 AATGAAATGACCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAATCGCAAGTT
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
13202123 AGGAAATAATGAAAT
131 AGGAAATAATGAAAT
* * **
13202138 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGACTAAATTGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * ** *
13202203 AATGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGGTTAAACCGTAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13202268 AAGAAATTAATGAAAT
131 AGGAAA-TAATGAAAT
* * *
13202284 GACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGTAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
** *
13202348 AATGAAATGATCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGGGACTAAACCGCAAGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13202413 AAGAAATTAATGAAAT
131 AGGAAA-TAATGAAAT
* * *
13202429 GATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * * * *
13202493 AATGAAATGACCGAGATTAAACCGCGAGTCCAAGATTAAAGATGACTGAGACTAAACCGCACGTC
66 AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13202558 AGAAAATTAATGAAAT
131 AGGAAA-TAATGAAAT
* * *
13202574 GATCGGGATTAAACCACGAGCCAAA-AGGTAAAGATGACTGGGACTAAACCGCAAGTCAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGA-TTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAAT
13202638 TA
65 TA
13202640 TATAAGACTG
Statistics
Matches: 1046, Mismatches: 155, Indels: 31
0.85 0.13 0.03
Matches are distributed among these distances:
135 85 0.08
137 2 0.00
138 26 0.02
139 3 0.00
141 3 0.00
142 89 0.09
143 51 0.05
144 1 0.00
145 596 0.57
146 190 0.18
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (145 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
AATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
AGGAAATAATGAAAT
Found at i:13201991 original size:218 final size:218
Alignment explanation
Indices: 13201279--13202639 Score: 1619
Period size: 218 Copynumber: 6.3 Consensus size: 218
13201269 AAAATAAGAA
* * * * ** * *
13201279 GATCGGGATTAAACCACGAATCAAATATTAACGATGACTGGGACTGAACCATAAATCGAGGAAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC-AAGAAAT
* * * * * * *
13201344 TAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAAATGACTGGGATTGAATCGCAAGT
65 TAATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGT
* * * * * *
13201409 C-AG---AGAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAA
130 CAAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAA
*** *
13201470 CTTTAAGTCAAGAGATTAATGAAAT
195 CCGCAAGTCAAGA-AATAATGAAAT
* * *
13201495 GACCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTCAGGAAA-T
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
** *
13201559 AATGAAATGACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGACTGGGACTAAATCGCAAGTC
66 AATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
* * * * * * * *
13201624 AAGAAATTAATGAAATGATCGGGATTAAA--TC--GT--GAG-TTAAAGATTACTGGGATTGAAC
131 AAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
* * *
13201682 CGTAATTC-AG--AGAATGAAAT
196 CGCAAGTCAAGAAATAATGAAAT
* * * *** *
13201702 GACCGGGATTAAACCACAAGTCAAAGATTAAAGATGACTGGGATTAAACTTTAAGTCAAGAGATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * *
13201767 AATGAAATGACCGGGATTAAACCACGAGTTAAGGATTAAAGATGATTGGGACTAAACCGCAAGTC
66 AATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
*
13201832 -AGAAAATAATGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
131 AAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
13201896 CGCAAGTCAAGAAATTAATGAAAT
196 CGCAAGTCAAGAAA-TAATGAAAT
* * * * * * *
13201920 GATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGATTGAATCGTAATTCAA-AGAAT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGA-AAT
* * * ***
13201984 TAATGAAATGACCAGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACTTTAAGT
65 TAATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGT
* * *
13202049 CAAGAGATTAATGAAATGACCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAA
130 CAAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAA
* * *
13202114 TCGCAAGTTAGGAAATAATGAAAT
195 CCGCAAGTCAAGAAATAATGAAAT
* * **
13202138 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGACTAAATTGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * * ** *
13202203 AATGAAATGATCGGGATTAAACCGCGAGTTAAAGATTAAAGATGACTGGGGTTAAACCGTAAGTC
66 AATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
* *
13202268 AAGAAATTAATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
131 AAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
* *
13202333 CGTAAGTCAGGAAATAATGAAAT
196 CGCAAGTCAAGAAATAATGAAAT
** *
13202356 GATCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGGGACTAAACCGCAAGTCAAGAAATT
1 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
* * *
13202421 AATGAAATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTC
66 AATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
* * * *
13202486 -AGGAAATAATGAAATGACCGAGATTAAACCGCGAGTCCAAGATTAAAGATGACTGAGACTAAAC
131 AAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
*
13202550 CGCACGTC-AGAAAATTAATGAAAT
196 CGCAAGTCAAG-AAA-TAATGAAAT
* * *
13202574 GATCGGGATTAAACCACGAGCCAAA-AGGTAAAGATGACTGGGACTAAACCGCAAGTCAAAAAAT
1 GATCGGGATTAAACCACGAGTCAAAGA-TTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAAT
13202638 TA
65 TA
13202640 TATAAGACTG
Statistics
Matches: 997, Mismatches: 126, Indels: 42
0.86 0.11 0.04
Matches are distributed among these distances:
207 89 0.09
208 60 0.06
209 1 0.00
210 2 0.00
211 27 0.03
212 2 0.00
213 2 0.00
214 85 0.09
215 10 0.01
216 50 0.05
217 70 0.07
218 527 0.53
219 72 0.07
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (218 bp):
GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATT
AATGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTC
AAGAAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAAC
CGCAAGTCAAGAAATAATGAAAT
Found at i:13205338 original size:68 final size:68
Alignment explanation
Indices: 13205220--13205346 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 68
13205210 GCATTACACT
* * * *
13205220 AATGAATAGGATGTTTATAAAATTATTTCTGTTAGTAAATAAATGGATGATTACCTTCTGTATAT
1 AATGAATAAGATATTTATAAAATTATTTCTGGTAGTAAATAAATGAATGATTACCTTCTGTATAT
13205285 AAG
66 AAG
* * * *
13205288 AATGAATAAGATATTTATAAAATTATTTCTGGTGGTATATGAGTGAATGATTACCTTCT
1 AATGAATAAGATATTTATAAAATTATTTCTGGTAGTAAATAAATGAATGATTACCTTCT
13205347 TACCTTCTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (68 bp):
AATGAATAAGATATTTATAAAATTATTTCTGGTAGTAAATAAATGAATGATTACCTTCTGTATAT
AAG
Found at i:13205529 original size:15 final size:15
Alignment explanation
Indices: 13205509--13205538 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13205499 GATATTCAAT
13205509 GATGTTTGTTTTATC
1 GATGTTTGTTTTATC
13205524 GATGTTTGTTTTATC
1 GATGTTTGTTTTATC
13205539 AAACTTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (15 bp):
GATGTTTGTTTTATC
Found at i:13205936 original size:48 final size:47
Alignment explanation
Indices: 13205869--13205968 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 47
13205859 AAAAAAATTT
** *
13205869 AAAAATACAAATCTATACTGATAGATGTTAAGCATTGGTATAGGTAA
1 AAAAATACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAA
* * * * *
13205916 AAAAATTACAAGTTTATACTGATGGGCATTAATCATTGGTATAGATAA
1 AAAAA-TACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAA
13205964 AAAAA
1 AAAAA
13205969 ATTAAAACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 5 0.11
48 39 0.89
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (47 bp):
AAAAATACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAA
Found at i:13206005 original size:56 final size:55
Alignment explanation
Indices: 13205922--13206052 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 55
13205912 GTAAAAAAAT
** * * * *
13205922 TACAAGTTTATACTGATGGGCATTAATCATTGGTATAGATAAAAAAAATTAAAACA
1 TACAAGTTTATACTGACAGGCACTAATCATCGATATAGAT-AAAAAAATCAAAACA
* * *
13205978 TATAAGTTTATACTGACAGGCACTAATCATCGATATAGGTAAGAAAATCAAAACA
1 TACAAGTTTATACTGACAGGCACTAATCATCGATATAGATAAAAAAATCAAAACA
* * *
13206033 TACAAATATATACTGGCAGG
1 TACAAGTTTATACTGACAGG
13206053 TTTTAAGCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
55 29 0.47
56 33 0.53
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (55 bp):
TACAAGTTTATACTGACAGGCACTAATCATCGATATAGATAAAAAAATCAAAACA
Done.