Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 117 of 182
Found at i:35864723 original size:2 final size:2
Alignment explanation
Indices: 35864716--35864740 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35864706 CAATAGTATA
35864716 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
35864741 TTGATCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:35876161 original size:30 final size:30
Alignment explanation
Indices: 35876088--35876183 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
35876078 ATCCAATGCT
35876088 CAAATCAATTCGGCAATATATATCCATATA
1 CAAATCAATTCGGCAATATATATCCATATA
* * *
35876118 CGAACTGAATTCGGCAATATATATCTATATA
1 C-AAATCAATTCGGCAATATATATCCATATA
*
35876149 CAAATCAATTCGGAAATGA-ATATCCATATA
1 CAAATCAATTCGGCAAT-ATATATCCATATA
35876179 CAAAT
1 CAAAT
35876184 GTAAGCTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 29 0.51
31 28 0.49
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATCCATATA
Found at i:35887966 original size:20 final size:19
Alignment explanation
Indices: 35887928--35887971 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
35887918 TTTCTGCTTC
*
35887928 TTCTTCTTGTACTTTTCTT
1 TTCTTCTTGTACGTTTCTT
*
35887947 TTCTTCTATTTACGTTTCTT
1 TTCTTCT-TGTACGTTTCTT
35887967 TTCTT
1 TTCTT
35887972 TTTTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (19 bp):
TTCTTCTTGTACGTTTCTT
Found at i:35890643 original size:50 final size:50
Alignment explanation
Indices: 35890458--35890750 Score: 304
Period size: 50 Copynumber: 5.9 Consensus size: 50
35890448 CTATATAACA
* * * ** * * *
35890458 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
35890507 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
35890557 TGCCCATGCCATGTCCCATA-ATGGTCTTACGGGGGACCTCTTATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35890606 TACCAACGCCATGTCCCAGACATCGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35890656 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35890706 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
35890751 AATCTCAATG
Statistics
Matches: 203, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
49 73 0.36
50 130 0.64
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:35890734 original size:100 final size:99
Alignment explanation
Indices: 35890468--35890751 Score: 313
Period size: 99 Copynumber: 2.9 Consensus size: 99
35890458 TGCCAAAGCT
* * * * * *
35890468 ATGTCCCAGACATAGTCTTACATGGGA--TGTTTCTTGTACTGCCAATGCCATATCCCAGATATG
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTATCTTG-A-TGCCAACGCCATGTCCCAGACATG
* ** * **
35890531 GTCTTACATGAGAGTTCTCATATAGGTGCCCATGCC
64 GTCTTACATGGGACCTCTCATATAGGTGCCAACACC
* ** * * *
35890567 ATGTCCCATA-ATGGTCTTACGGGGGACCTCTTATCTTGGTACCAACGCCATGTCCCAGACATCG
1 ATGTCCCAGACATGGTCTTACATGGGACCTC-TATCTTGATGCCAACGCCATGTCCCAGACATGG
* *
35890631 TCTTACATGGGACCTCTCATCTCGGTGCCAACACC
65 TCTTACATGGGACCTCTCATATAGGTGCCAACACC
* *
35890666 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAAACATGG
1 ATGTCCCAGACATGGTCTTACATGGGACCTCT-ATCTTGATGCCAACGCCATGTCCCAGACATGG
35890731 TCTTACATGGGACCTCTCATA
65 TCTTACATGGGACCTCTCATA
35890752 ATCTCAATGA
Statistics
Matches: 151, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
98 13 0.09
99 66 0.44
100 66 0.44
101 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (99 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTATCTTGATGCCAACGCCATGTCCCAGACATGGT
CTTACATGGGACCTCTCATATAGGTGCCAACACC
Found at i:35893027 original size:16 final size:16
Alignment explanation
Indices: 35893006--35893039 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35892996 ATTAAATTAT
35893006 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
35893022 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
35893038 TT
1 TT
35893040 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:35895434 original size:49 final size:49
Alignment explanation
Indices: 35895377--35895480 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
35895367 TCATATGTTA
* * * *
35895377 TAATTTTATAATGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
35895426 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
35895475 TAATTT
1 TAATTT
35895481 GTTTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:35896631 original size:21 final size:21
Alignment explanation
Indices: 35896590--35896632 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35896580 AATAAAGTAG
*
35896590 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
35896611 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
35896632 A
1 A
35896633 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:35896666 original size:10 final size:10
Alignment explanation
Indices: 35896648--35896721 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
35896638 ATATAAGAAT
*
35896648 AATTATATTG
1 AATTATATTA
*
35896658 AATTTTATTA
1 AATTATATTA
35896668 AATTATA-TA
1 AATTATATTA
** *
35896677 TTTTTTATTA
1 AATTATATTA
*
35896687 AATTATATTT
1 AATTATATTA
35896697 AA-TA-A-T-
1 AATTATATTA
*
35896703 AATTATTTTA
1 AATTATATTA
35896713 AATTATATT
1 AATTATATT
35896722 TTATAGTATT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 1 0.02
9 9 0.19
10 32 0.68
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (10 bp):
AATTATATTA
Found at i:35896702 original size:120 final size:118
Alignment explanation
Indices: 35896597--35896954 Score: 612
Period size: 120 Copynumber: 3.0 Consensus size: 118
35896587 TAGATTATAT
*
35896597 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTATATT-GAA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTATATTAGAA
35896660 TTTTATTAAATTATATATTTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 TTTTATTAAATTATATA-TTTTTATTAAATTATATTTAATAATAATTATTTTAA
35896714 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTA-TATT-AG
* *
35896779 AATTTTATTTAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
64 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
35896834 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTT-ATATT-AG
* *
35896899 AATTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATGTTAA
64 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
35896954 A
1 A
35896955 ATATGATTAA
Statistics
Matches: 229, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
117 5 0.02
118 50 0.22
119 4 0.02
120 150 0.66
121 20 0.09
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (118 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTATATTAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:35896735 original size:41 final size:41
Alignment explanation
Indices: 35896688--35896855 Score: 111
Period size: 41 Copynumber: 4.2 Consensus size: 41
35896678 TTTTTATTAA
35896688 ATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
* ** * * *
35896729 ATTATATATT-ATGAT--TT-TAGTAAATTCATA--TAAGAAT
1 ATTATAT-TTAATAATAATTATTTTAAATT-ATATTTTATAGT
* * * * *
35896766 ATT-TA-TTATTAAGAATTTTATTTAATTATATATTTTTATTA-A
1 ATTATATTTAATAATAATTAT-TTTAAAT-TATA-TTTTA-TAGT
*
35896808 ATTATATTTAATAATTATTATTTTAAATTATATTTTATAGT
1 ATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
35896849 ATTATAT
1 ATTATAT
35896856 ATTATGATTT
Statistics
Matches: 91, Mismatches: 21, Indels: 30
0.64 0.15 0.21
Matches are distributed among these distances:
34 2 0.02
35 2 0.02
36 2 0.02
37 9 0.10
38 8 0.09
39 12 0.13
40 3 0.03
41 23 0.25
42 11 0.12
43 9 0.10
44 10 0.11
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (41 bp):
ATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
Found at i:35896823 original size:13 final size:13
Alignment explanation
Indices: 35896774--35896842 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
35896764 ATATTTATTA
* *
35896774 TTAAGAATTTTAT
1 TTAATAATTATAT
* *
35896787 TTAATTATATATTT
1 TTAATAAT-TATAT
*
35896801 TTATTAAATTATAT
1 TTAAT-AATTATAT
35896815 TTAATAATTATTAT
1 TTAATAATTA-TAT
*
35896829 TTTA-AATTATAT
1 TTAATAATTATAT
35896841 TT
1 TT
35896843 TATAGTATTA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
12 5 0.11
13 16 0.36
14 21 0.48
15 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (13 bp):
TTAATAATTATAT
Found at i:35896839 original size:26 final size:28
Alignment explanation
Indices: 35896645--35896860 Score: 120
Period size: 26 Copynumber: 7.5 Consensus size: 28
35896635 TTCATATAAG
* * *
35896645 AATA-ATTA-TATTGAATTTTATTAAAT
1 AATATATTATTATTAAATTATATTTAAT
* *
35896671 TATATATTTTTTATTAAATTATATTTAAT
1 AATATA-TTATTATTAAATTATATTTAAT
35896700 AATA-ATTATT-TTAAATTATATTTTATAGT
1 AATATATTATTATTAAATTATA-TTTA-A-T
* ** * * *
35896729 ATTATATATTATGATTTTAGTAAATTCATAT
1 A--ATATATTATTATTAAATTATATTTA-AT
* *
35896760 AAGAATATTTATTATTAAGAATTTTATTTAAT
1 AA-TATA-TTATTATT-A-AATTATATTTAAT
* *
35896792 TATATATTTTTATTAAATTATATTTAAT
1 AATATATTATTATTAAATTATATTTAAT
*
35896820 AAT-TATTATT-TTAAATTATATTTTAT
1 AATATATTATTATTAAATTATATTTAAT
*
35896846 AGTATTATATATTAT
1 AATA-TAT-TATTAT
35896861 GATTTTAGTA
Statistics
Matches: 143, Mismatches: 29, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
26 30 0.21
27 15 0.10
28 21 0.15
29 26 0.18
30 11 0.08
31 15 0.10
32 13 0.09
33 12 0.08
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
AATATATTATTATTAAATTATATTTAAT
Found at i:35896922 original size:18 final size:18
Alignment explanation
Indices: 35896901--35896936 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35896891 ATATTAAGAA
35896901 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
35896919 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
35896937 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:35897192 original size:16 final size:16
Alignment explanation
Indices: 35897173--35897221 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
35897163 ACTATTACGC
35897173 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
*
35897189 CTCTATTCCATTACAA
1 CTCTATTCCATTACAG
*
35897205 CTCTATTCTATTACAG
1 CTCTATTCCATTACAG
35897221 C
1 C
35897222 GAACCAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:35898325 original size:22 final size:22
Alignment explanation
Indices: 35898300--35898341 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35898290 TGCACATAGT
*
35898300 TATGAAAGCCCTTTACGGGTAG
1 TATGAAAGCCCTTTAAGGGTAG
35898322 TATGAAAGCCCTTTAAGGGT
1 TATGAAAGCCCTTTAAGGGT
35898342 GGTAAAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (22 bp):
TATGAAAGCCCTTTAAGGGTAG
Found at i:35901442 original size:16 final size:17
Alignment explanation
Indices: 35901421--35901456 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35901411 TGTTTTTCAA
35901421 TTTTCTCT-TTTATGTT
1 TTTTCTCTGTTTATGTT
*
35901437 TTTTCTCTGTTTGTGTT
1 TTTTCTCTGTTTATGTT
35901454 TTT
1 TTT
35901457 CAATTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.03, C:0.11, G:0.11, T:0.75
Consensus pattern (17 bp):
TTTTCTCTGTTTATGTT
Found at i:35907284 original size:11 final size:11
Alignment explanation
Indices: 35907270--35907294 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35907260 TCACAAATCA
35907270 CTCTCAAAATT
1 CTCTCAAAATT
35907281 CTCTCAAAATT
1 CTCTCAAAATT
35907292 CTC
1 CTC
35907295 ACTTTCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (11 bp):
CTCTCAAAATT
Found at i:35910191 original size:41 final size:40
Alignment explanation
Indices: 35910145--35910245 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 40
35910135 GAAAGAAGTG
35910145 AATAGTGGCGATTACATACTAAAAAATTTCAAAGAATCTTT
1 AATAGTGGCGATTACATAC-AAAAAATTTCAAAGAATCTTT
* ** *
35910186 AATAGTGACGATTACATAGCAAGGAATTTTAAAGAATCTTT
1 AATAGTGGCGATTACATA-CAAAAAATTTCAAAGAATCTTT
35910227 AATAGTGGCGATTACATAC
1 AATAGTGGCGATTACATAC
35910246 CCATGTTGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.02
41 52 0.96
42 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (40 bp):
AATAGTGGCGATTACATACAAAAAATTTCAAAGAATCTTT
Found at i:35913121 original size:21 final size:21
Alignment explanation
Indices: 35913090--35913141 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
35913080 CAAAAACCCT
35913090 AACCTTAAACCCTAAAACACAA
1 AACCTT-AACCCTAAAACACAA
* **
35913112 AACCTTAACCTTAAAGTACAA
1 AACCTTAACCCTAAAACACAA
*
35913133 AACCCTAAC
1 AACCTTAAC
35913142 ATCAGAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (21 bp):
AACCTTAACCCTAAAACACAA
Found at i:35920028 original size:37 final size:38
Alignment explanation
Indices: 35919973--35920049 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
35919963 TTTAAAAAAT
35919973 CTTAAACCCTAATTTATTT-TTTTTCAAAAACACTAAAC
1 CTTAAACCCTAATTTATTTATTTTT-AAAAACACTAAAC
* * *
35920011 CTTAAA-CCTCATTTATTTATTTTTTAAAACCCTAAAC
1 CTTAAACCCTAATTTATTTATTTTTAAAAACACTAAAC
35920048 CT
1 CT
35920050 AATTTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 24 0.69
38 11 0.31
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (38 bp):
CTTAAACCCTAATTTATTTATTTTTAAAAACACTAAAC
Found at i:35920065 original size:26 final size:27
Alignment explanation
Indices: 35920025--35920078 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
35920015 AACCTCATTT
35920025 ATTTATTTTTT-AAAACCCTAAACCTA
1 ATTTATTTTTTAAAAACCCTAAACCTA
*
35920051 ATTT-TTTTTTCAAAAACCCTAACCCTA
1 ATTTATTTTTT-AAAAACCCTAAACCTA
35920078 A
1 A
35920079 CCATAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 4 0.16
27 15 0.60
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTATTTTTTAAAAACCCTAAACCTA
Found at i:35922185 original size:22 final size:22
Alignment explanation
Indices: 35922160--35922251 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
35922150 AAATTCAATA
* *
35922160 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
35922182 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
35922204 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
35922225 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
35922248 TCAA
1 TCAA
35922252 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:35922217 original size:44 final size:44
Alignment explanation
Indices: 35922160--35922251 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
35922150 AAATTCAATA
* * *
35922160 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
35922204 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
35922248 TCAA
1 TCAA
35922252 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:35922267 original size:52 final size:51
Alignment explanation
Indices: 35922201--35922303 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
35922191 TTCAAAATTT
* *
35922201 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
35922253 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
35922304 TACATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:35922292 original size:21 final size:22
Alignment explanation
Indices: 35922253--35922294 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35922243 TTCTCTCAAA
35922253 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
35922275 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
35922295 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:35922388 original size:27 final size:27
Alignment explanation
Indices: 35922336--35922390 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
35922326 ATTAAATTTC
** *
35922336 ATTTTTTAAGAAAATTTTTTATTTTTT
1 ATTTTTTAAGAAAATTTTAAAATTTTT
35922363 ATTTTTTAA-AATAATTTTAAAATTTTT
1 ATTTTTTAAGAA-AATTTTAAAATTTTT
35922390 A
1 A
35922391 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
ATTTTTTAAGAAAATTTTAAAATTTTT
Found at i:35924116 original size:23 final size:23
Alignment explanation
Indices: 35924082--35924774 Score: 438
Period size: 23 Copynumber: 27.7 Consensus size: 23
35924072 ACATTATTTG
* *
35924082 ATTAAAATCCCTAACCCTACTTAA
1 ATTAAAAACCCTAA-CCTAATTAA
**
35924106 A-TAAAAACCCTAATTTAATTAA
1 ATTAAAAACCCTAACCTAATTAA
35924128 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAA--C---CCTAACCTAATTAA
*
35924156 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAA--C---CCTAACCTAATTAA
*
35924184 ATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTAA
35924207 ATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAACCT-A---A-TTAA
35924235 ATTAAAAACCCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAACC-----TAATTAA
*
35924263 ATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTAA
35924286 ATTAAAAACCCTAACC---TTAA
1 ATTAAAAACCCTAACCTAATTAA
35924306 ATT-AAAACCCTAACCTAATTAA
1 ATTAAAAACCCTAACCTAATTAA
*
35924328 AGTAAAAA-CCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAACC-----TAATTAA
* *
35924355 ATTAAAAATCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTAA
35924378 ATTAAAAACCCTAACC---TTAA
1 ATTAAAAACCCTAACCTAATTAA
35924398 ATTAAAAACCCTAACCTAATTAA
1 ATTAAAAACCCTAACCTAATTAA
35924421 ATTAAAAACCCTAACCTTATTTTAATTAA
1 ATTAAAAACCCTAACC------TAATTAA
*
35924450 ATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTAA
* **
35924473 ATTAAAAACTCTAACCCTACCCTAA
1 ATTAAAAACCCTAA-CCTA-ATTAA
** *****
35924498 CCTAATTTAATTAAAAACCCTAACCTACTTAA
1 ATTAA---AAACCCTAA-CCT-A---A-TTAA
*
35924530 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAA--C---CCTAACCTAATTAA
*
35924558 ATTAAAAACCCTAACCTACTTAA
1 ATTAAAAACCCTAACCTAATTAA
*
35924581 ATTAAAAACCCTAACATAATTTAATTAA
1 ATTAAAAACCCTAAC-----CTAATTAA
*
35924609 ATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTAA
*
35924632 ATTAAAAGCCCTAACC---TTAA
1 ATTAAAAACCCTAACCTAATTAA
35924652 ATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAACCT-A---A-TTAA
*
35924680 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAA--C---CCTAACCTAATTAA
*
35924708 ATTAAAAACCCTAACCTACTTAA
1 ATTAAAAACCCTAACCTAATTAA
35924731 ATTAAAAACCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACC-----TAATTAA
35924759 ATTAAAAACCCTAACC
1 ATTAAAAACCCTAACC
35924775 CTACCCTAAC
Statistics
Matches: 546, Mismatches: 51, Indels: 140
0.74 0.07 0.19
Matches are distributed among these distances:
19 12 0.02
20 43 0.08
22 20 0.04
23 210 0.38
24 6 0.01
25 6 0.01
26 3 0.01
27 15 0.03
28 178 0.33
29 29 0.05
30 1 0.00
32 9 0.02
33 12 0.02
34 2 0.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAAACCCTAACCTAATTAA
Found at i:35924146 original size:28 final size:26
Alignment explanation
Indices: 35924102--35924857 Score: 564
Period size: 28 Copynumber: 29.7 Consensus size: 26
35924092 CTAACCCTAC
*
35924102 TTAAA-TAAAAACCCTAA--T-TTAA
1 TTAAATTAAAAACCCTAACCTAATAA
35924124 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
35924152 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
*
35924180 TTTAATTAAAAACCCTAACCTAAT--
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924204 TT-AATTAAAAACCCTAACCTAACCTAC
1 TTAAATTAAAAACCCTAACCTAA--TAA
35924231 TTAAATTAAAAACCCTAACCTAATTTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
35924259 TTAAATTAAAAACCCTAACCTAAT--
1 TTAAATTAAAAACCCTAACCTAATAA
35924283 TT-AATTAAAAACCCTAACC------
1 TTAAATTAAAAACCCTAACCTAATAA
35924302 TTAAATT-AAAACCCTAACC---TAA
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924324 TTAAAGTAAAAA-CCTAACCTAATTTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
*
35924351 TTAAATTAAAAATCCTAACCTAAT--
1 TTAAATTAAAAACCCTAACCTAATAA
35924375 TT-AATTAAAAACCCTAACC------
1 TTAAATTAAAAACCCTAACCTAATAA
35924394 TTAAATTAAAAACCCTAACC---TAA
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924417 TTAAATTAAAAACCCTAACCTTATTTTAA
1 TTAAATTAAAAACCCTAACC-TA--ATAA
35924446 TTAAATTAAAAACCCTAACCTAATTTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
* *
35924474 TTAAA--AACTCTAACCCTACCCTAACCTAA
1 TTAAATTAA---AAACCCTAACCTAA--TAA
* *
35924503 TTTAATTAAAAACCCTAACC---TAC
1 TTAAATTAAAAACCCTAACCTAATAA
35924526 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
* *
35924554 TTTAATTAAAAACCCTAACC---TAC
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924577 TTAAATTAAAAACCCTAACATAATTTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
35924605 TTAAATTAAAAACCCTAACCTAAT--
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924629 TT-AATTAAAAGCCCTAACC------
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924648 TTAAATTAAAAACCCTAACCTAACCTAC
1 TTAAATTAAAAACCCTAACCTAA--TAA
35924676 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA--TAA
* *
35924704 TTTAATTAAAAACCCTAACC---TAC
1 TTAAATTAAAAACCCTAACCTAATAA
*
35924727 TTAAATTAAAAACCCTAACCTTATTTAA
1 TTAAATTAAAAACCCTAACC-TA-ATAA
35924755 TTAAATTAAAAACCCTAACCCTACCCTAACCTAA
1 TTAAATTAAAAACCCT-A----A-CCTAA--TAA
* *
35924789 TTTAATTAAAAACCCTAACCTACTTTAA
1 TTAAATTAAAAACCCTAACCTA--ATAA
35924817 TTAAATTAAAAACCCTAACCCT-AT--
1 TTAAATTAAAAACCCTAA-CCTAATAA
35924841 TT-AATTAAAAACCCTAA
1 TTAAATTAAAAACCCTAA
35924858 TTTAATTGTA
Statistics
Matches: 623, Mismatches: 37, Indels: 147
0.77 0.05 0.18
Matches are distributed among these distances:
19 18 0.03
20 37 0.06
22 18 0.03
23 182 0.29
24 10 0.02
25 2 0.00
26 7 0.01
27 16 0.03
28 260 0.42
29 47 0.08
31 2 0.00
33 4 0.01
34 20 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (26 bp):
TTAAATTAAAAACCCTAACCTAATAA
Found at i:35924165 original size:51 final size:51
Alignment explanation
Indices: 35924091--35924857 Score: 671
Period size: 51 Copynumber: 15.0 Consensus size: 51
35924081 GATTAAAATC
* **
35924091 CCTAACCCTACTTAAA-TAAAAACCCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAA-CCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
*
35924142 CCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAA--C---CCTAACCTAATTAAATTAAAAACCCTAA
35924198 CCTAA--T--TT-AATTAAAAACCCTAACCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCT-A---A-TTAAATTAAAAACCCTAA
** *
35924249 CCTAATTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
*
35924295 CCTAACC---TTAAATT-AAAACCCTAACCTAATTAAAGTAAAAA-CCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
** * *
35924341 CCTAATTTAATTAAATTAAAAATCCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
35924387 CCTAACC---TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
*** * *
35924435 CCTTATTTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACTCTAACCCTAC
1 CC-TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT--AAA----AACCCTAA
* *
35924493 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* *
35924544 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* ** * *
35924595 CATAATTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAGCCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
35924646 CCTTA---AATTAAA--AACCCTAA-CCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAA---AAACCCTAACCTAATTAAATTAAAAACCCTAA
* *
35924694 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* ** *
35924745 CCTTATTTAATTAAATTAAAAACCCTAACCCTACCCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTAAATT---AA----AA----ACCCTAACCTAATTAAATTAAAAACCCTAA
* *
35924807 CCT-ACTTTAATTAAATTAAAAACCCTAACCCT-ATTTAATTAAAAACCCTAA
1 CCTAAC-CTAATTAAATTAAAAACCCTAA-CCTAATTAAATTAAAAACCCTAA
35924858 TTTAATTGTA
Statistics
Matches: 601, Mismatches: 54, Indels: 122
0.77 0.07 0.16
Matches are distributed among these distances:
42 25 0.04
43 41 0.07
45 1 0.00
46 25 0.04
47 1 0.00
48 38 0.06
49 14 0.02
50 36 0.06
51 231 0.38
52 35 0.06
53 4 0.01
54 6 0.01
55 8 0.01
56 48 0.08
57 32 0.05
58 11 0.02
59 2 0.00
61 1 0.00
62 42 0.07
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (51 bp):
CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
Found at i:35924495 original size:34 final size:34
Alignment explanation
Indices: 35924457--35924522 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
35924447 TAAATTAAAA
*
35924457 ACCCTAACCTAATTTAATTAAAAACTCTAACCCT
1 ACCCTAACCTAATTTAATTAAAAACCCTAACCCT
35924491 ACCCTAACCTAATTTAATTAAAAACCCTAACC
1 ACCCTAACCTAATTTAATTAAAAACCCTAACC
35924523 TACTTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (34 bp):
ACCCTAACCTAATTTAATTAAAAACCCTAACCCT
Found at i:35924775 original size:34 final size:33
Alignment explanation
Indices: 35924737--35924839 Score: 117
Period size: 34 Copynumber: 3.2 Consensus size: 33
35924727 TTAAATTAAA
35924737 AACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACC-TATTTAATTAAATTAAAAACCCT
* ** *
35924771 AACCCTACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCT-ATTTAATTAAATTAAAAACCCT
35924805 AA-CCT-A-C--TTTAATTAAATTAAAAACCCT
1 AACCCTAACCTATTTAATTAAATTAAAAACCCT
35924833 AACCCTA
1 AACCCTA
35924840 TTTAATTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 20 0.34
29 3 0.05
31 1 0.02
33 4 0.07
34 30 0.52
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (33 bp):
AACCCTAACCTATTTAATTAAATTAAAAACCCT
Found at i:35924807 original size:23 final size:24
Alignment explanation
Indices: 35924777--35924857 Score: 103
Period size: 23 Copynumber: 3.3 Consensus size: 24
35924767 CCCTAACCCT
35924777 ACCCTAA-CCTAATTTAATTAAAA
1 ACCCTAACCCTAATTTAATTAAAA
*
35924800 ACCCTAACCTACTTTAATTAAATTAAAA
1 ACCCTAACC--C--TAATTTAATTAAAA
35924828 ACCCTAACCCT-ATTTAATTAAAA
1 ACCCTAACCCTAATTTAATTAAAA
35924851 ACCCTAA
1 ACCCTAA
35924858 TTTAATTGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
23 25 0.49
24 2 0.04
26 2 0.04
28 22 0.43
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.30
Consensus pattern (24 bp):
ACCCTAACCCTAATTTAATTAAAA
Found at i:35924816 original size:62 final size:62
Alignment explanation
Indices: 35924715--35924839 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
35924705 TTAATTAAAA
*
35924715 ACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCCT
1 ACCCTAACCTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCCT
*
35924777 ACCCTAACCTAATTTAATTAAAAACCCTAACC-TACTTTAATTAAATTAAAAACCCTAACCCT
1 ACCCTAACCTAATTAAATTAAAAACCCTAACCTTA-TTTAATTAAATTAAAAACCCTAACCCT
35924839 A
1 A
35924840 TTTAATTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 2 0.03
62 58 0.97
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (62 bp):
ACCCTAACCTAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCCT
Found at i:35924850 original size:85 final size:83
Alignment explanation
Indices: 35924397--35924857 Score: 337
Period size: 74 Copynumber: 5.8 Consensus size: 83
35924387 CCTAACCTTA
* *
35924397 AATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCT
1 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCCTA--TT-ATTAAATTAAAAACCCT
** * *
35924462 AA-CCTAATTTAA-TTAA--A
63 AACCCTAACCTAACCTAATTT
** * * *
35924479 AACTCTAACCCTACCCTAACCTAATTTAATTAAAAACCCTAA-CCTA--CTTAAATT--AAA---
1 AA-T-TAA--AAACCCTAACCTACTTAAATTAAAAACCCTAACCCTATTATTAAATTAAAAACCC
35924536 -AACCCTAACCTAACCTAATTT
62 TAACCCTAACCTAACCTAATTT
* * *
35924557 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA--C-ATAATTTAATT--AAA--TTAA-
1 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCCTATTATTAAATTAAAAACCCTAAC
*
35924614 --AAACCCTAACCTAATTT
66 CCTAA-CCTAACCTAATTT
* *
35924631 AATTAAAAGCCCTAA-C--CTTAAATTAAAAACCCTAA-CCTAACCTACTTAAATT--AAA----
1 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCCT-A-TTA-TTAAATTAAAAACCCT
35924686 AACCCTAACCTAACCTAATTT
63 AACCCTAACCTAACCTAATTT
*
35924707 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTA
1 AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCCTA-TT-ATTAAATTAAAAACCCTA
*
35924772 ACCCTACCCTAACCTAATTT
64 ACCCTAACCTAACCTAATTT
35924792 AATTAAAAACCCTAACCTACTTTAATTAAATTAAAAACCCTAACCCTA-T-TT-AATTAAAAACC
1 AATTAAAAACCCTAACCTAC-----TTAAATTAAAAACCCTAACCCTATTATTAAATTAAAAACC
35924854 CTAA
61 CTAA
35924858 TTTAATTGTA
Statistics
Matches: 315, Mismatches: 27, Indels: 71
0.76 0.07 0.17
Matches are distributed among these distances:
71 19 0.06
72 2 0.01
73 4 0.01
74 69 0.22
75 9 0.03
76 44 0.14
77 4 0.01
78 5 0.02
79 28 0.09
80 10 0.03
81 3 0.01
82 2 0.01
83 1 0.00
84 3 0.01
85 58 0.18
86 31 0.10
88 1 0.00
90 22 0.07
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (83 bp):
AATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCCTATTATTAAATTAAAAACCCTAAC
CCTAACCTAACCTAATTT
Found at i:35926388 original size:89 final size:88
Alignment explanation
Indices: 35926232--35926395 Score: 247
Period size: 89 Copynumber: 1.9 Consensus size: 88
35926222 CAACCAGTAA
* * * *
35926232 CCGATGAGTGTACCTACCGAACATGAAGGTACCGTCAATTTGTACCAACGGCTTGCAGTACGGAA
1 CCGATGAGTATACCTACCGAACATAAAGGTACCGTCAATTTGTACCAACGGCTCGCAGTACGAAA
35926297 ATGCGTCTCGNATGCAAGCAATAG
66 ATGCGTCTCG-ATGCAAGCAATAG
* * * *
35926321 CCGATGAGTATACCTACTGAACATAAAGGTACCGTCAATTTGTACCAATGGCTCGTAGTATGAAA
1 CCGATGAGTATACCTACCGAACATAAAGGTACCGTCAATTTGTACCAACGGCTCGCAGTACGAAA
35926386 ATGCGTCTCG
66 ATGCGTCTCG
35926396 GTATTGCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
CCGATGAGTATACCTACCGAACATAAAGGTACCGTCAATTTGTACCAACGGCTCGCAGTACGAAA
ATGCGTCTCGATGCAAGCAATAG
Found at i:35930469 original size:21 final size:23
Alignment explanation
Indices: 35930440--35930482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
35930430 TTAACTGTTT
*
35930440 TTTATGTTTTCCTGT-ATTTATC
1 TTTATGTTTTCCTATCATTTATC
35930462 TTTA-GTTTTCCTATCATTTAT
1 TTTATGTTTTCCTATCATTTAT
35930483 AGTGTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTATGTTTTCCTATCATTTATC
Found at i:35935528 original size:16 final size:17
Alignment explanation
Indices: 35935498--35935530 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35935488 CATCTTTTGT
*
35935498 TTTAATTTACTAAATTA
1 TTTAATTTACAAAATTA
35935515 TTTAA-TTACAAAATTA
1 TTTAATTTACAAAATTA
35935531 ATCTTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAATTTACAAAATTA
Found at i:35937754 original size:19 final size:19
Alignment explanation
Indices: 35937717--35937757 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35937707 AAATAAGTGT
*
35937717 AATAATAATACCAATAATA
1 AATAATAATACCAACAATA
**
35937736 AATAATAATAGTAACAATA
1 AATAATAATACCAACAATA
35937755 AAT
1 AAT
35937758 TTATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATACCAACAATA
Found at i:35938836 original size:12 final size:12
Alignment explanation
Indices: 35938821--35938852 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35938811 ATTTGGACTG
*
35938821 TTATTTTATTTT
1 TTATTTTATTAT
35938833 TTATTTTATTAT
1 TTATTTTATTAT
35938845 TTATTTTA
1 TTATTTTA
35938853 ATAGCGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:35939185 original size:44 final size:44
Alignment explanation
Indices: 35939083--35939237 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 44
35939073 TTTTTAGTCT
* ** * *
35939083 GCTCTACTGCAACCTCAGGGAGATAAGA-CCTGA--TGCGATCC
1 GCTCTACTGCAACTTCAGGGAGATAAGATTATGAGCTTCAATCC
* * * * *
35939124 ACTCTACTGCAAATTCAGAGAGATAAGATCTATTA-CTTTAATCC
1 GCTCTACTGCAACTTCAGGGAGATAAGAT-TATGAGCTTCAATCC
* * *
35939168 GCTCTACTACAACTTCAGGGAGATAGGATTATGAGCTTCAATCT
1 GCTCTACTGCAACTTCAGGGAGATAAGATTATGAGCTTCAATCC
* *
35939212 GCTCCACTGTAACTTCAGGGAGATAA
1 GCTCTACTGCAACTTCAGGGAGATAA
35939238 TATTTGCCAT
Statistics
Matches: 88, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
41 24 0.27
43 6 0.07
44 58 0.66
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (44 bp):
GCTCTACTGCAACTTCAGGGAGATAAGATTATGAGCTTCAATCC
Found at i:35939591 original size:87 final size:87
Alignment explanation
Indices: 35939379--35939810 Score: 553
Period size: 87 Copynumber: 5.0 Consensus size: 87
35939369 TCGCCATCTT
* * * * * * * *
35939379 CGATCTGCTTCACTGTCGATGCAGGTAGGCAAGATTTGCTGTCTTCAACCTGCTCTACTACAACC
1 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
35939444 GAGGGAGGCAAGGCTTGTGTCTT-
66 GAGGGAGGCAAGGCTT-TGT-TTG
* ** ** ** *
35939467 CGATTTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAACTTGCTCCACCGCAACT
1 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
35939532 GAGGGAGGCAAGGCTTTGTTTG
66 GAGGGAGGCAAGGCTTTGTTTG
* * *
35939554 CGATCTGCTTCGTTGTCAATGCAGGAAGGCAATATCTGCTATCTTTAACTAGCTCCACTACAACC
1 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
**
35939619 GATAGAGGCAAGGCTTTGTTTG
66 GAGGGAGGCAAGGCTTTGTTTG
* * *
35939641 CGATCTTCTTCGCTGTCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
1 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
* *
35939706 GATGGAGGCAAGGCTTTGTTTT
66 GAGGGAGGCAAGGCTTTGTTTG
* * *
35939728 TGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACC
1 CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
* *
35939793 AATGGAGGCAAGG-TTTGT
66 GAGGGAGGCAAGGCTTTGT
35939811 GTCTTCGATC
Statistics
Matches: 303, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
86 7 0.02
87 229 0.76
88 67 0.22
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (87 bp):
CGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
GAGGGAGGCAAGGCTTTGTTTG
Found at i:35940467 original size:55 final size:55
Alignment explanation
Indices: 35940401--35940510 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
35940391 ATCCAAAGAG
*
35940401 AAAGTCCAAATTTAGACTCTTCCTTTTCAAATTTCCAACCTTTACCTGGTGCGTT
1 AAAGTCCAAATTTAGACTCTTCCTTCTCAAATTTCCAACCTTTACCTGGTGCGTT
35940456 AAAGTCCAAATTTAGACTCTTCCTTCTCAAATTTCCAACCTTTACCTGGTGCGTT
1 AAAGTCCAAATTTAGACTCTTCCTTCTCAAATTTCCAACCTTTACCTGGTGCGTT
35940511 CTAAACAATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.37
Consensus pattern (55 bp):
AAAGTCCAAATTTAGACTCTTCCTTCTCAAATTTCCAACCTTTACCTGGTGCGTT
Found at i:35942066 original size:27 final size:27
Alignment explanation
Indices: 35942028--35942087 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
35942018 TTGATTTCTC
35942028 TTTTTTGCTTTTGCTTTTGACTTTGAT
1 TTTTTTGCTTTTGCTTTTGACTTTGAT
* * *
35942055 TTTTTTGTTTTTGTTTTTGATTTTGAT
1 TTTTTTGCTTTTGCTTTTGACTTTGAT
35942082 TTTTTT
1 TTTTTT
35942088 TAATCTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.07, C:0.05, G:0.13, T:0.75
Consensus pattern (27 bp):
TTTTTTGCTTTTGCTTTTGACTTTGAT
Found at i:35942087 original size:21 final size:21
Alignment explanation
Indices: 35942036--35942078 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35942026 TCTTTTTTGC
35942036 TTTTGCTTTTGACTTTGATTT
1 TTTTGCTTTTGACTTTGATTT
* **
35942057 TTTTGTTTTTGTTTTTGATTT
1 TTTTGCTTTTGACTTTGATTT
35942078 T
1 T
35942079 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.05, G:0.14, T:0.74
Consensus pattern (21 bp):
TTTTGCTTTTGACTTTGATTT
Found at i:35947053 original size:19 final size:19
Alignment explanation
Indices: 35947016--35947056 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35947006 AAATAAGTGT
*
35947016 AATAATAATACCAATAATA
1 AATAATAATACCAACAATA
**
35947035 AATAATAATAGTAACAATA
1 AATAATAATACCAACAATA
35947054 AAT
1 AAT
35947057 TTATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATACCAACAATA
Found at i:35948133 original size:16 final size:15
Alignment explanation
Indices: 35948105--35948138 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35948095 TAATTTGGAC
*
35948105 TTTTATTTTATTTGT
1 TTTTATTTTATTTAT
35948120 TTTTATTATTATTTAT
1 TTTTATT-TTATTTAT
35948136 TTT
1 TTT
35948139 AATAGTGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:35954333 original size:7 final size:7
Alignment explanation
Indices: 35954321--35954346 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35954311 TTTCAATTTC
35954321 ATATTGA
1 ATATTGA
35954328 ATATTGA
1 ATATTGA
35954335 ATATTGA
1 ATATTGA
35954342 ATATT
1 ATATT
35954347 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (7 bp):
ATATTGA
Found at i:35956805 original size:22 final size:20
Alignment explanation
Indices: 35956775--35956847 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
35956765 TTTTATATGT
*
35956775 TTTATAATATTATTATTTAAAA
1 TTTA-AATATTATT-TTTTAAA
*
35956797 TCTTAAATATATTTTTTTTTAAA
1 T-TT-AA-ATATTATTTTTTAAA
35956820 TTTAAATATTATTTTTTAAA
1 TTTAAATATTATTTTTTAAA
35956840 TATTAAAT
1 T-TTAAAT
35956848 CTAATTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 15 0.34
21 8 0.18
22 3 0.07
23 10 0.23
24 8 0.18
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAAATATTATTTTTTAAA
Found at i:35956808 original size:24 final size:22
Alignment explanation
Indices: 35956781--35956834 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
35956771 ATGTTTTATA
35956781 ATATTATTATTTAAAATCTTAAAT
1 ATATT-TTATTTAAAAT-TTAAAT
* *
35956805 ATATTTTTTTTTAAATTTAAAT
1 ATATTTTATTTAAAATTTAAAT
35956827 ATTATTTT
1 A-TATTTT
35956835 TTAAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTTTATTTAAAATTTAAAT
Found at i:35956836 original size:21 final size:22
Alignment explanation
Indices: 35956780--35956856 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
35956770 TATGTTTTAT
* * *
35956780 AATATTATTATTTAAAATCTTA
1 AATATTATTTTTTTAAATATTA
*
35956802 AATATATTTTTTTTTAAAT-TTA
1 AATAT-TATTTTTTTAAATATTA
35956824 AATATTA-TTTTTTAAATATTA
1 AATATTATTTTTTTAAATATTA
* *
35956845 AATCTAATTTTT
1 AATATTATTTTT
35956857 AATATTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.22
21 9 0.20
22 17 0.37
23 10 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATTATTTTTTTAAATATTA
Found at i:35956855 original size:20 final size:21
Alignment explanation
Indices: 35956812--35956863 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
35956802 AATATATTTT
* *
35956812 TTTTTAAAT-TTAAATATTAT
1 TTTTTAAATATTAAATACTAA
35956832 TTTTTAAATATTAAAT-CTAA
1 TTTTTAAATATTAAATACTAA
35956852 TTTTT-AATATTA
1 TTTTTAAATATTA
35956864 TAAAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.24
20 16 0.55
21 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTAAATATTAAATACTAA
Found at i:35957005 original size:14 final size:13
Alignment explanation
Indices: 35956975--35957021 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
35956965 CTTTTTTAAA
*
35956975 TTTTAAATATAATT
1 TTTTAAATATTA-T
35956989 TTTTAAATCATTAT
1 TTTTAAAT-ATTAT
*
35957003 TTTGAAA-ATTAT
1 TTTTAAATATTAT
35957015 TTTTAAA
1 TTTTAAA
35957022 GATATTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 11 0.38
14 15 0.52
15 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:35957060 original size:23 final size:23
Alignment explanation
Indices: 35956987--35957060 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 23
35956977 TTAAATATAA
35956987 TTTTTTAAATCATTATTTTGAAAATT
1 TTTTTTAAATCA-TA-TTT-AAAATT
* * *
35957013 ATTTTTAAA-GATA-TTCAAATGT
1 TTTTTTAAATCATATTTAAAAT-T
*
35957035 TTTTTTAAATTATATTTAAAATT
1 TTTTTTAAATCATATTTAAAATT
35957058 TTT
1 TTT
35957061 AAAAAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.10
22 11 0.28
23 7 0.18
24 8 0.21
25 1 0.03
26 8 0.21
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTTAAATCATATTTAAAATT
Found at i:35957345 original size:10 final size:9
Alignment explanation
Indices: 35957326--35957359 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
35957316 ACGGAGGACC
35957326 AAAAAATAA
1 AAAAAATAA
*
35957335 AAAAAATTA
1 AAAAAATAA
35957344 AAAAAATAA
1 AAAAAATAA
35957353 GAAAAAA
1 -AAAAAA
35957360 AGTGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:35957411 original size:18 final size:18
Alignment explanation
Indices: 35957388--35957429 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35957378 TGGAAAAAAA
*
35957388 TAAAAAAGATTTATTTAT
1 TAAAAAACATTTATTTAT
* *
35957406 TAAAAATCATTTATTTGT
1 TAAAAAACATTTATTTAT
35957424 TAAAAA
1 TAAAAA
35957430 TTATAGCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAAAAACATTTATTTAT
Found at i:35957430 original size:18 final size:18
Alignment explanation
Indices: 35957396--35957430 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35957386 AATAAAAAAG
35957396 ATTTATTTATTAAAAATC
1 ATTTATTTATTAAAAATC
*
35957414 ATTTATTTGTTAAAAAT
1 ATTTATTTATTAAAAAT
35957431 TATAGCATTT
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:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTTATTTATTAAAAATC
Found at i:35963085 original size:24 final size:22
Alignment explanation
Indices: 35963038--35963098 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
35963028 AAAATAATTT
*
35963038 AAAAAATTATATTTAAATTTAA
1 AAAAAATAATATTTAAATTTAA
*
35963060 AAAAAATAATATTTAAA-TTAT
1 AAAAAATAATATTTAAATTTAA
35963081 AAAAAATAATAATTTAAA
1 AAAAAATAAT-ATTTAAA
35963099 AAAATATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.36
22 23 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAAATAATATTTAAATTTAA
Found at i:35963115 original size:37 final size:37
Alignment explanation
Indices: 35963053--35963136 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 37
35963043 ATTATATTTA
*
35963053 AATTTAAAAAAAATAATATTTAAATTATAAAAAATAAT
1 AATTT-AAAAAAATAATATTAAAATTATAAAAAATAAT
* *
35963091 AATTTAAAAAAAT-ATATGTAAAATTTTTAAAAATAAT
1 AATTTAAAAAAATAATAT-TAAAATTATAAAAAATAAT
35963128 -ATTATAAAA
1 AATT-TAAAA
35963137 CATGTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 7 0.17
37 29 0.71
38 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (37 bp):
AATTTAAAAAAATAATATTAAAATTATAAAAAATAAT
Found at i:35963135 original size:23 final size:23
Alignment explanation
Indices: 35963093--35963136 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35963083 AAAATAATAA
*
35963093 TTTAAAAAAATATATGTAAAATT
1 TTTAAAAAAATATATATAAAATT
35963116 TTTAAAAATAATAT-TATAAAA
1 TTTAAAAA-AATATATATAAAA
35963137 CATGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTAAAAAAATATATATAAAATT
Found at i:35963146 original size:59 final size:58
Alignment explanation
Indices: 35963030--35963158 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 58
35963020 TATCTTTAAA
* * **
35963030 AATAATTTAAAAAATTATATTTAAATTTAAAAAAAATAATATTTAAATTATAAAAAAT
1 AATAATTTAAAAAAATATATTAAAATTTAAAAAAAATAATATTTAAAACATAAAAAAT
** **
35963088 AATAATTTAAAAAAATATATGTAAAATTT-TTAAAAATAATATTATAAAACATGTAAAAT
1 AATAATTTAAAAAAATATAT-TAAAATTTAAAAAAAATAATATT-TAAAACATAAAAAAT
35963147 -ATACATTTAAAA
1 AATA-ATTTAAAA
35963159 TATTATAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 34 0.57
59 26 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (58 bp):
AATAATTTAAAAAAATATATTAAAATTTAAAAAAAATAATATTTAAAACATAAAAAAT
Found at i:35963195 original size:13 final size:13
Alignment explanation
Indices: 35963177--35963201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35963167 AACTAACAAT
35963177 AAACAAATAAATA
1 AAACAAATAAATA
35963190 AAACAAATAAAT
1 AAACAAATAAAT
35963202 GACAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACAAATAAATA
Found at i:35963247 original size:19 final size:20
Alignment explanation
Indices: 35963219--35963258 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35963209 AAAAGAACTG
* *
35963219 AAAAAGTAAATAAA-GAAAA
1 AAAAACTAAAAAAACGAAAA
35963238 AAAAACTAAAAAAACGAAAA
1 AAAAACTAAAAAAACGAAAA
35963258 A
1 A
35963259 GGACAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAACTAAAAAAACGAAAA
Found at i:35964179 original size:37 final size:37
Alignment explanation
Indices: 35964103--35964182 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
35964093 AGATACATAG
* * * **
35964103 ATTTGAATATAATAAAAATACATAAATTAAATTTTAA
1 ATTTGAATATAATAAAAAAACATAAATCAAAATCAAA
*
35964140 ATTTGAGTATAATAAAAAAATCA-AAATCAAAATCAAA
1 ATTTGAATATAATAAAAAAA-CATAAATCAAAATCAAA
35964177 ATTTGA
1 ATTTGA
35964183 CATTTTGTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (37 bp):
ATTTGAATATAATAAAAAAACATAAATCAAAATCAAA
Found at i:35974078 original size:22 final size:23
Alignment explanation
Indices: 35974053--35974099 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
35974043 AACCGGATAT
*
35974053 TTAAT-ATGAATAAAAATTTAGA
1 TTAATGATCAATAAAAATTTAGA
* *
35974075 TTAATGGTCACTAAAAATTTAGA
1 TTAATGATCAATAAAAATTTAGA
35974098 TT
1 TT
35974100 TAAACTGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (23 bp):
TTAATGATCAATAAAAATTTAGA
Found at i:35976226 original size:12 final size:12
Alignment explanation
Indices: 35976199--35976227 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
35976189 GAACAAGGAC
35976199 AATTAAAAAAAT
1 AATTAAAAAAAT
35976211 -ATTAAAAAAAT
1 AATTAAAAAAAT
35976222 AATTAA
1 AATTAA
35976228 TGAACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATTAAAAAAAT
Found at i:35980515 original size:28 final size:27
Alignment explanation
Indices: 35980454--35980578 Score: 178
Period size: 28 Copynumber: 4.6 Consensus size: 27
35980444 ATATTAAGTC
* *
35980454 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
35980481 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
35980509 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
35980537 CGTACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
35980564 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35980579 GCACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 38 0.43
28 49 0.56
29 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:35980567 original size:55 final size:55
Alignment explanation
Indices: 35980454--35980578 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
35980444 ATATTAAGTC
* *
35980454 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* * *
35980509 CGCACACTTAGTGCTACATAGTCAAACTCGTACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
35980564 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35980579 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 38 0.59
56 26 0.41
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:35983152 original size:16 final size:16
Alignment explanation
Indices: 35983131--35983162 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35983121 ATTTTGTTGC
*
35983131 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
35983147 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
35983163 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:35983402 original size:51 final size:51
Alignment explanation
Indices: 35983344--35983534 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 51
35983334 CAGGTTCACA
* *
35983344 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACATG
* *
35983395 TAGTAGCCTACACATAGTACTACATACGTGATCGA--AGCTATCCGGT--ATG
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACATG
* * * * ** *
35983444 CATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TTTGGTACACG
1 --TAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTATCCGGTACATG
* *
35983496 TAGTAGCTTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
35983535 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
49 7 0.06
50 38 0.33
51 65 0.57
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATCACTATCCGGTACATG
Found at i:35983525 original size:101 final size:102
Alignment explanation
Indices: 35983342--35983526 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
35983332 TACAGGTTCA
* *
35983342 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
*
35983407 CATAGTACTACATACGTGATCGAAGCTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
* * ** * * *
35983444 CATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TTTGGTACACGTAGTAGCTTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
35983507 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
35983527 CCATCACTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 35 0.49
102 33 0.46
103 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:35985840 original size:146 final size:146
Alignment explanation
Indices: 35985576--35985856 Score: 490
Period size: 146 Copynumber: 1.9 Consensus size: 146
35985566 GATTTGGAAC
**
35985576 AATCTCCGTTCACAATTGTCTTACTGTCGAAATAGAAACCTCTGGTTAAGCGAACATAAAATAAA
1 AATCTCCGTTCACAATTGTCTTACTACCGAAATAGAAACCTCTGGTTAAGCGAACATAAAATAAA
*
35985641 CTAAGTAAAACCTAAGAATGAAATAAAACCTACATAATAATCCATGTCTCGCTAAAGCTATGTCT
66 CTAAGTAAAACCTAAGAATGAAATAAAACCTACATAATAATCCATGGCTCGCTAAAGCTATGTCT
35985706 TTAATTTGCATAATAA
131 TTAATTTGCATAATAA
*
35985722 AATCTCCGTTCACAATTGTCTTACTACCGAAATAGAAATCTCTGGTTAAGCGAACATAAAATAAA
1 AATCTCCGTTCACAATTGTCTTACTACCGAAATAGAAACCTCTGGTTAAGCGAACATAAAATAAA
* * * *
35985787 CTAAGTAAAACCTAAGAATGAAATAAAATCTGCATAATAATCTATGGCTCGCTAAATCTATGTCT
66 CTAAGTAAAACCTAAGAATGAAATAAAACCTACATAATAATCCATGGCTCGCTAAAGCTATGTCT
35985852 TTAAT
131 TTAAT
35985857 CTGGTTACAA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 127 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (146 bp):
AATCTCCGTTCACAATTGTCTTACTACCGAAATAGAAACCTCTGGTTAAGCGAACATAAAATAAA
CTAAGTAAAACCTAAGAATGAAATAAAACCTACATAATAATCCATGGCTCGCTAAAGCTATGTCT
TTAATTTGCATAATAA
Found at i:35987718 original size:42 final size:42
Alignment explanation
Indices: 35987659--35987815 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
35987649 CCATATGGCC
* * *
35987659 AAGGACATGGGCATGTGCCCAGGTCGTGTG-G-CTCACGTGAGA
1 AAGGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACG-G-GA
* * *
35987701 AAGGACATGGGCGTGTGCCCAAGCCATGTGAGCCACACGGGC
1 AAGGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGA
* *
35987743 AAGGACATGGGCGTGTGTCCAGGCCGTGTGAGCCACACGGGC
1 AAGGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGA
* * * *
35987785 TAGGACATGGGCATGTGTCCAGGCCATGTGA
1 AAGGACATGGGCGTGTGCCCAGGCCGTGTGA
35987816 CTCATTGTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 94 0.93
43 2 0.02
44 5 0.05
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.17
Consensus pattern (42 bp):
AAGGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGA
Found at i:35987811 original size:84 final size:84
Alignment explanation
Indices: 35987658--35987815 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
35987648 GCCATATGGC
* * *
35987658 CAAGGACATGGGCATGTGCCCAGGTCGTGTGGCTCACGTGAGAAAGGACATGGGCGTGTGCCCAA
1 CAAGGACATGGGCATGTGCCCAGGCCGTGTGGCACACGTGAGAAAGGACATGGGCATGTGCCCAA
35987723 GCCATGTGAGCCACACGGG
66 GCCATGTGAGCCACACGGG
* * ** *
35987742 CAAGGACATGGGCGTGTGTCCAGGCCGTGTGAGCCACACG-G-GCTAGGACATGGGCATGTGTCC
1 CAAGGACATGGGCATGTGCCCAGGCCGTGTG-G-CACACGTGAGAAAGGACATGGGCATGTGCCC
*
35987805 AGGCCATGTGA
64 AAGCCATGTGA
35987816 CTCATTGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 56 0.89
85 2 0.03
86 5 0.08
ACGTcount: A:0.22, C:0.25, G:0.37, T:0.16
Consensus pattern (84 bp):
CAAGGACATGGGCATGTGCCCAGGCCGTGTGGCACACGTGAGAAAGGACATGGGCATGTGCCCAA
GCCATGTGAGCCACACGGG
Found at i:35990042 original size:39 final size:39
Alignment explanation
Indices: 35989983--35990057 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
35989973 CATTACACAT
* *
35989983 ATAATCACCTAACATACAAGCATATATCTCAATACTCAA
1 ATAATCACATAACATACAAGCATATATCCCAATACTCAA
35990022 ATAATCACATAACACT-CAAGCATATATCCCAATACT
1 ATAATCACATAACA-TACAAGCATATATCCCAATACT
35990058 GAAAAACATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (39 bp):
ATAATCACATAACATACAAGCATATATCCCAATACTCAA
Found at i:36005467 original size:32 final size:32
Alignment explanation
Indices: 36005426--36005488 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
36005416 TACCCTTAGG
36005426 GCTTCATCCTTTGGATTTTTATAGGCATTTCA
1 GCTTCATCCTTTGGATTTTTATAGGCATTTCA
36005458 GCTTCATCCTTTGGATTTTTATAGGCATTTC
1 GCTTCATCCTTTGGATTTTTATAGGCATTTC
36005489 GTCCTAGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (32 bp):
GCTTCATCCTTTGGATTTTTATAGGCATTTCA
Found at i:36014406 original size:133 final size:133
Alignment explanation
Indices: 36014168--36014427 Score: 434
Period size: 133 Copynumber: 2.0 Consensus size: 133
36014158 GGATTCTTGG
* *
36014168 TTTAATTAGTGATCATTCTATCTCTGAGTAAGTATTACAGCTCTGTATGTTAGATGATTTGAAAA
1 TTTAATTAGTGATCATTCCATCTCTGAGTAAGTATTACAGCTCTGCATGTTAGATGATTTGAAAA
36014233 AATGAGTCTATATGTGGTATATGAACAACAAGTTGTAAGTATAAGGCTTTGCATGAGGGTTACTA
66 AATGAGTCTATATGTGGTATATGAACAACAAGTTGTAAGTATAAGGCTTTGCATGAGGGTTACTA
36014298 GGT
131 GGT
* *
36014301 TTTAATTAGTGATCATTCCATCTCT-AGGTAAGTATTATAGCTCTGCATGTTAGATG-TTTTAAA
1 TTTAATTAGTGATCATTCCATCTCTGA-GTAAGTATTACAGCTCTGCATGTTAGATGATTTGAAA
* *
36014364 AGAATGAGTCTATATGTGGTATATGAATAATAAGTTGTAAGTATAAGGCTTTGCATGAGGGTTA
65 A-AATGAGTCTATATGTGGTATATGAACAACAAGTTGTAAGTATAAGGCTTTGCATGAGGGTTA
36014428 TCAGAGTTTG
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
132 8 0.07
133 111 0.93
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (133 bp):
TTTAATTAGTGATCATTCCATCTCTGAGTAAGTATTACAGCTCTGCATGTTAGATGATTTGAAAA
AATGAGTCTATATGTGGTATATGAACAACAAGTTGTAAGTATAAGGCTTTGCATGAGGGTTACTA
GGT
Found at i:36025593 original size:36 final size:36
Alignment explanation
Indices: 36025546--36025617 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
36025536 TAAAAGGCCA
36025546 GTGTGTTCTATGTTGGATCTGGTGCCCTTAGTGTAG
1 GTGTGTTCTATGTTGGATCTGGTGCCCTTAGTGTAG
36025582 GTGTGTTCTATGTTGGATCTGGTGCCCTTAGTGTAG
1 GTGTGTTCTATGTTGGATCTGGTGCCCTTAGTGTAG
36025618 TATTTTTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.11, C:0.14, G:0.33, T:0.42
Consensus pattern (36 bp):
GTGTGTTCTATGTTGGATCTGGTGCCCTTAGTGTAG
Found at i:36026811 original size:57 final size:58
Alignment explanation
Indices: 36026710--36026830 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 58
36026700 ATAGAAATGG
* * *
36026710 AGAAAATGGAGAAATGAAAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 AGAAAATGGAAAAATGAAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
* * * * * *
36026768 TGAAAATGGAAAAATG-GAATCATTTGGAAATGAATGTGATTTTCTCTAATATGAAAA
1 AGAAAATGGAAAAATGAAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
36026825 AGAAAA
1 AGAAAA
36026831 AAGAAAATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
57 39 0.74
58 14 0.26
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (58 bp):
AGAAAATGGAAAAATGAAAAACATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
Found at i:36031456 original size:16 final size:16
Alignment explanation
Indices: 36031412--36031459 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
36031402 AGATTAATGA
*
36031412 AAATGATTAGAATTATG
1 AAATGA-TATAATTATG
* *
36031429 AATTGA-ATAATTGTG
1 AAATGATATAATTATG
36031444 AAATGATATAATTATG
1 AAATGATATAATTATG
36031460 TATGTACTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 12 0.48
16 8 0.32
17 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.38
Consensus pattern (16 bp):
AAATGATATAATTATG
Found at i:36031630 original size:76 final size:76
Alignment explanation
Indices: 36031481--36031686 Score: 243
Period size: 76 Copynumber: 2.7 Consensus size: 76
36031471 CGGTTTATCA
* * * *
36031481 GACTAGCACTGGGCGCAATTCATTTTTGGTACATCCAACTAGTGTTGGGCACACATTTGATATCG
1 GACTAGCGCTGGGCGCAACTCATTGTTGGTAAATCCAACTAGTGTTGGGCACACATTTGATATCG
*
36031546 TCGATTTACCC
66 TAGATTTACCC
*
36031557 GACTAGCGCTGGGTGCAACTCATTGTTGGTAAATCCAACTAGTGTTGGGCACACATTTGATATCG
1 GACTAGCGCTGGGCGCAACTCATTGTTGGTAAATCCAACTAGTGTTGGGCACACATTTGATATCG
36031622 TTAG-TTTACCC
66 -TAGATTTACCC
* * * ** * * ** * *
36031633 AAATAGTGCTATGCACAACTCATTGTCGGTTTATCCAGCTAGTGTAGGGCACAC
1 GACTAGCGCTGGGCGCAACTCATTGTTGGTAAATCCAACTAGTGTTGGGCACAC
36031687 CGATCATCGG
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
76 109 0.98
77 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (76 bp):
GACTAGCGCTGGGCGCAACTCATTGTTGGTAAATCCAACTAGTGTTGGGCACACATTTGATATCG
TAGATTTACCC
Found at i:36031744 original size:35 final size:35
Alignment explanation
Indices: 36031658--36031737 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
36031648 CAACTCATTG
36031658 TCGGTTTATCCAGCTAGTGTAGGGCACACCGATCA
1 TCGGTTTATCCAGCTAGTGTAGGGCACACCGATCA
*
36031693 TCGGTTTATCCAGCTAGTGTAGGGCACACTGATCA
1 TCGGTTTATCCAGCTAGTGTAGGGCACACCGATCA
36031728 TCGGTTTATC
1 TCGGTTTATC
36031738 TGGCTAGCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (35 bp):
TCGGTTTATCCAGCTAGTGTAGGGCACACCGATCA
Found at i:36043418 original size:328 final size:327
Alignment explanation
Indices: 36042817--36043468 Score: 1054
Period size: 328 Copynumber: 2.0 Consensus size: 327
36042807 ATAAAATTTG
* * * *
36042817 AAAGTATAGGGCTAAAGAATTCTGAGGTATAACTAAAGATGATCCAGAGAGATTCGAGTTCTGGT
1 AAAGAATAGGGCTAAAGAATTCTGAGGCATAACTAAAGATGATCCAGAGACAGTCGAGTTCTGGT
* *
36042882 TAAAAACACAATTAGAGTTTTCAATGAATTGTCTTGTACACCAGTAGAATGCTTGAAATGTGTTG
66 TAAAAACACAATTAGAGTTTTCAATGAATTGTCTTGTACACCAGGAGAATGCTTGAAATATGTTG
* * *
36042947 TTTCTCTATTAAAAGACTCAGCTTACTAGTGGTGAAACACGTTGATCACGGTGGTACTGAGGGAT
131 TTTCTCCATTAAAAGACTCAACTTACTAGTGGTGAAACACGTTGATCACGGTGGTACCGAGGGAT
* * *
36043012 CAAGTAAATTGGGAATTCTTAAAGACAGAGTTCAAAAAGAAATATGTGAGTCAGAGGTTCCTAGA
196 CAAGTAAATTGGGAATTCTTAAAGACAGAGTTCAAAAAGAAATATGTGAGTCAAAGGTTCCAAAA
*
36043077 TAAGAAACGCAAAGAGTTTCTTGAGTTGAAGCAATGACGTAAGGCAATAGCTGAGTACAAGAGGA
261 TAAGAAACGCAAAGAGTTTCTTGAGTTGAAGCAATGACGTAAGGCAATAGATGAGTACAAGAGGA
36043142 CT
326 CT
* *
36043144 AAAGAATAGGGCTAAAGAATTCTGAGGCATAACTGAAGATGATTCAGAGACAGTCGAGTTCTGGT
1 AAAGAATAGGGCTAAAGAATTCTGAGGCATAACTAAAGATGATCCAGAGACAGTCGAGTTCTGGT
* **
36043209 TAGAAAACACAATTAGGGTTTTTGATGAATTGTCTTGTACACCAGGAGAATGCTTGAAATATGTT
66 TA-AAAACACAATTAGAGTTTTCAATGAATTGTCTTGTACACCAGGAGAATGCTTGAAATATGTT
*
36043274 GTTTCTCCATTAAAAGACTCAACTTA-TCAGTGGTGGAACACGTTGATCACGGTGGTACCGAGGG
130 GTTTCTCCATTAAAAGACTCAACTTACT-AGTGGTGAAACACGTTGATCACGGTGGTACCGAGGG
** *
36043338 ATCAAGTAAATTGGGAATTCTTCTAGACAGAGTTTAAAAAGAAATATGTGAGTCAAAGGTTCCAA
194 ATCAAGTAAATTGGGAATTCTTAAAGACAGAGTTCAAAAAGAAATATGTGAGTCAAAGGTTCCAA
* * *
36043403 AATAAGAAACGCAAAGAGTTTCTTGAGTTGAAGCAATGACGTATGTCAGTAGATGAGTACAAGAG
259 AATAAGAAACGCAAAGAGTTTCTTGAGTTGAAGCAATGACGTAAGGCAATAGATGAGTACAAGAG
36043468 G
324 G
36043469 GAATTTATGC
Statistics
Matches: 298, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
327 62 0.21
328 236 0.79
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (327 bp):
AAAGAATAGGGCTAAAGAATTCTGAGGCATAACTAAAGATGATCCAGAGACAGTCGAGTTCTGGT
TAAAAACACAATTAGAGTTTTCAATGAATTGTCTTGTACACCAGGAGAATGCTTGAAATATGTTG
TTTCTCCATTAAAAGACTCAACTTACTAGTGGTGAAACACGTTGATCACGGTGGTACCGAGGGAT
CAAGTAAATTGGGAATTCTTAAAGACAGAGTTCAAAAAGAAATATGTGAGTCAAAGGTTCCAAAA
TAAGAAACGCAAAGAGTTTCTTGAGTTGAAGCAATGACGTAAGGCAATAGATGAGTACAAGAGGA
CT
Found at i:36046325 original size:14 final size:14
Alignment explanation
Indices: 36046306--36046347 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
36046296 CCCAGCTTAG
36046306 TGAAGAATTTGAGA
1 TGAAGAATTTGAGA
*
36046320 TGAAGAATTTGACA
1 TGAAGAATTTGAGA
36046334 TGAAGAATTTGAGA
1 TGAAGAATTTGAGA
36046348 GCAGCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.29
Consensus pattern (14 bp):
TGAAGAATTTGAGA
Found at i:36058972 original size:125 final size:126
Alignment explanation
Indices: 36058742--36059126 Score: 542
Period size: 125 Copynumber: 3.1 Consensus size: 126
36058732 GCCAAGCAAG
* * * * *
36058742 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCGTTTTTCAATACTTTTGCTGATAGTACATCT
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGC-TTTTTTAGTACTTTTGCTGACAGTGCATCC
* * * *
36058807 TGCTTGAAACATTTTTGACATTATTTTTTTAGAATC-GTCTTCTTAAAATTATTTTTTCAGA
65 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
* * * *
36058868 AACTACTGTAGAAAAAGAGCGTCCACATGAGATCTTTTTTAGTACTTTTGATGACACTGCATCCT
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTAGTACTTTTGCTGACAGTGCATCCT
*
36058933 GCTTGAAGCATTTTTGACATTATTTTTTCAGAA-CAGTCTTCTCAAAATTAGTTTTTCAGA
66 GCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
* * *
36058993 AACTACTGCAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTATTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTT-AGTACTTTTGCTGACAGTGCATCC
** * *
36059058 TGCTTGAAGTGTTTTTGACACTATTTTTTCATAACCA-TCTTCTCAAAATTATTTTTTCAGA
65 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
36059119 AACTACTG
1 AACTACTG
36059127 AACAAAAAAA
Statistics
Matches: 231, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.00
125 114 0.49
126 114 0.49
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTAGTACTTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
Found at i:36059083 original size:126 final size:127
Alignment explanation
Indices: 36058742--36059126 Score: 553
Period size: 126 Copynumber: 3.1 Consensus size: 127
36058732 GCCAAGCAAG
* * * * *
36058742 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCGTTTTTCAATACTTTTGCTGATAGTACATCT
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
36058807 TGCTTGAAACATTTTTGACATTATTTTTTTAGAATC-GTCTTCTTAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
* * * *
36058868 AACTACTGTAGAAAAAGAGCGTCCACATGAGATCTTTTTT-AGTACTTTTGATGACACTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
36058932 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAA-CAGTCTTCTCAAAATTAGTTTTTCAGA
66 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
* * *
36058993 AACTACTGCAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTATTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
** * *
36059058 TGCTTGAAGTGTTTTTGACACTATTTTTTCATAACCA-TCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
36059119 AACTACTG
1 AACTACTG
36059127 AACAAAAAAA
Statistics
Matches: 231, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.00
125 109 0.47
126 119 0.52
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (127 bp):
AACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCAGTCTTCTCAAAATTATTTTTTCAGA
Found at i:36059316 original size:33 final size:34
Alignment explanation
Indices: 36059229--36059308 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
36059219 AATTATTTTT
36059229 AAAACCCTAAACCCTAATTTAATTTATTTTTAAA
1 AAAACCCTAAACCCTAATTTAATTTATTTTTAAA
** *
36059263 AAAAATCTAAATCCTAATTTAATTTATTTGTT-AA
1 AAAACCCTAAACCCTAATTTAATTTATTT-TTAAA
36059297 AAAACCCTAAAC
1 AAAACCCTAAAC
36059309 TTGATTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (34 bp):
AAAACCCTAAACCCTAATTTAATTTATTTTTAAA
Found at i:36059420 original size:24 final size:23
Alignment explanation
Indices: 36059372--36059435 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
36059362 TTATTTTAAC
*
36059372 AAAACCCT-AACACTAAACCCTT
1 AAAACCCTAAACACTAAACCCAT
*
36059394 AAAACCCTAAAACTCTAAACCCAT
1 AAAACCCT-AAACACTAAACCCAT
**
36059418 -AAACCCTAGGCACTAAAC
1 AAAACCCTAAACACTAAAC
36059436 ATGCAAATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 16 0.46
23 7 0.20
24 12 0.34
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (23 bp):
AAAACCCTAAACACTAAACCCAT
Found at i:36067114 original size:13 final size:13
Alignment explanation
Indices: 36067096--36067122 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36067086 CACATAAAAC
36067096 AAACAATTTTATA
1 AAACAATTTTATA
36067109 AAACAATTTTATA
1 AAACAATTTTATA
36067122 A
1 A
36067123 GGGCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAACAATTTTATA
Found at i:36070749 original size:21 final size:21
Alignment explanation
Indices: 36070721--36070774 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
36070711 AACAGCAATG
*
36070721 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGATACTGTA
*
36070742 G-ATGTGAGATTGGATACTGTA
1 GCA-GTGAGATTAGATACTGTA
36070763 GCAGTGAGATTA
1 GCAGTGAGATTA
36070775 AAAACAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.31, T:0.31
Consensus pattern (21 bp):
GCAGTGAGATTAGATACTGTA
Found at i:36071040 original size:33 final size:32
Alignment explanation
Indices: 36070986--36071047 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
36070976 AATGAATTAT
36070986 ATAATTAATTTAAATTATTTATTAGTTAAAATG
1 ATAATTAATTTAAATTATTTA-TAGTTAAAATG
* * *
36071019 ATAATTATTTTTAATTTTTTATAGTTAAA
1 ATAATTAATTTAAATTATTTATAGTTAAA
36071048 TATTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (32 bp):
ATAATTAATTTAAATTATTTATAGTTAAAATG
Found at i:36077298 original size:18 final size:18
Alignment explanation
Indices: 36077271--36077311 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
36077261 GGTTTGTGGG
*
36077271 TATTGTAGGCAGAAGAGT
1 TATTGGAGGCAGAAGAGT
36077289 TATTGGAGGCAGAAGAGT
1 TATTGGAGGCAGAAGAGT
36077307 TATTG
1 TATTG
36077312 CAAAAGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (18 bp):
TATTGGAGGCAGAAGAGT
Found at i:36083595 original size:120 final size:119
Alignment explanation
Indices: 36083376--36083621 Score: 370
Period size: 120 Copynumber: 2.1 Consensus size: 119
36083366 GGACTAAGAT
36083376 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
* ** *
36083441 AATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 AATCCGGGCTAAGTCCCGAAGGCATTGGAACGAG-TAGCTAAATCC-GGTTAAATC
*
36083496 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
* * * *
36083561 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
66 -AATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTAAATCCGGTTAAATC
36083615 CCGAAGG
1 CCGAAGG
36083622 TACGTGATTC
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
119 16 0.14
120 97 0.84
121 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
AATCCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:36083602 original size:40 final size:40
Alignment explanation
Indices: 36083323--36083586 Score: 381
Period size: 40 Copynumber: 6.6 Consensus size: 40
36083313 TTGAATGATG
* * * * * *
36083323 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAA
**
36083363 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAA
36083403 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
36083443 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
36083483 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
*
36083523 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AA
* *
36083564 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36083587 TGAACGAGTA
Statistics
Matches: 209, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.00
40 199 0.95
41 9 0.04
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:36088307 original size:17 final size:17
Alignment explanation
Indices: 36088272--36088313 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
36088262 CCCTTATTTA
36088272 ATTTCCCTC-AAACTTTT
1 ATTTCCC-CAAAACTTTT
36088289 A-TTCCCCAAAACTTTTT
1 ATTTCCCCAAAAC-TTTT
36088306 ATTTCCCC
1 ATTTCCCC
36088314 CCTAAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 9 0.41
17 6 0.27
18 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTCCCCAAAACTTTT
Found at i:36089836 original size:51 final size:50
Alignment explanation
Indices: 36089612--36089836 Score: 195
Period size: 51 Copynumber: 4.4 Consensus size: 50
36089602 TTCGGTGGTT
* * * * *
36089612 TGCACATAGTACCACCCATGTGACCATTATC-ATCCGATACAGGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCA--AGCTATCCAATACACGTAGTAGCC
* * * * * *
36089663 TACACATAGTACTACACACGTGATCAAGCTTTCCAGTTCACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCAAGCTATCCAATACACGTAGTAGCC
* * * ** *
36089713 TGCATATAGTACTACACACAG-GACCAAGGCCATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACA-TGTGACCAA-GCTATCCAATACACGTAGTAGCC
* *
36089764 TGCACATAGTACTACAAATGTGACCATTATCTAT-CAATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCA--AGCTATCCAATACACGTAGTAGCC
*
36089815 TGCACTTAGTACTACACATGTG
1 TGCACATAGTACTACACATGTG
36089837 TTCATAGGTA
Statistics
Matches: 138, Mismatches: 30, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 37 0.27
51 95 0.69
52 3 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TGCACATAGTACTACACATGTGACCAAGCTATCCAATACACGTAGTAGCC
Found at i:36092937 original size:27 final size:27
Alignment explanation
Indices: 36092907--36093084 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36092897 ATATTGAGTC
* * * *
36092907 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36092934 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36092961 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36092989 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36093016 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36093043 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36093070 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36093085 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36093046 original size:82 final size:81
Alignment explanation
Indices: 36092928--36093083 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36092918 TGCTATATAA
* *
36092928 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36092993 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36093010 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36093074 CACTTAGTGC
65 CACTTAGTGC
36093084 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36100779 original size:49 final size:51
Alignment explanation
Indices: 36100689--36100881 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 51
36100679 GACCATTATC
* ** *
36100689 ATCCGATACACGTAGTAGCCAACACATAGTACTACACACGTGATCAA-GCA
1 ATCCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGGCA
* * * *
36100739 TTTCGATTCACATAGTAGCCTGGACATA-TACTACACACGTGACCAAGGCA
1 ATCCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGGCA
* * * *
36100789 ATCCGGTACACATAGTAGCCTGCACATAGTACTATCA-ATGTGACCATTA-TCT
1 ATCCGATACACATAGTAGCCTGCACATAGTACTA-CACACGTGACCA--AGGCA
* * *
36100841 AT-CGATACACGTAGTAACCTGCACTTAGTACTACACACGTG
1 ATCCGATACACATAGTAGCCTGCACATAGTACTACACACGTG
36100882 TTCATAGGTA
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
49 17 0.15
50 49 0.42
51 44 0.38
52 5 0.04
53 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (51 bp):
ATCCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGGCA
Found at i:36100850 original size:51 final size:50
Alignment explanation
Indices: 36100658--36100881 Score: 188
Period size: 51 Copynumber: 4.4 Consensus size: 50
36100648 TTCAGTGGTT
* * * * *
36100658 TGCACATAGTACCACCCATGTGACCATTATC-ATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCA--AGCTATCCGATACACATAGTAGCC
** * * *
36100709 AACACATAGTACTACACACGTGATCAAGC-ATTTCGATTCACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCAAGCTA-TCCGATACACATAGTAGCC
* * *
36100759 TGGACATA-TACTACACACGTGACCAAGGCAATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCAA-GCTATCCGATACACATAGTAGCC
* * * *
36100809 TGCACATAGTACTATCA-ATGTGACCATTATCTAT-CGATACACGTAGTAACC
1 TGCACATAGTACTA-CACACGTGACCA--AGCTATCCGATACACATAGTAGCC
*
36100860 TGCACTTAGTACTACACACGTG
1 TGCACATAGTACTACACACGTG
36100882 TTCATAGGTA
Statistics
Matches: 139, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
49 20 0.14
50 48 0.35
51 65 0.47
52 5 0.04
53 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TGCACATAGTACTACACACGTGACCAAGCTATCCGATACACATAGTAGCC
Found at i:36102352 original size:21 final size:21
Alignment explanation
Indices: 36102326--36102366 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
36102316 ACTATTTATG
36102326 TTTGTTGATTTCCCATTAATA
1 TTTGTTGATTTCCCATTAATA
36102347 TTTGTTGATTTCCCATTAAT
1 TTTGTTGATTTCCCATTAAT
36102367 TTCTTGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTTGATTTCCCATTAATA
Found at i:36108515 original size:21 final size:21
Alignment explanation
Indices: 36108490--36108542 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
36108480 TAGGGGCATA
36108490 TAAGTGCAATTCAGGGGTATCG
1 TAAGTGCAATTCAGGGGTA-CG
*
36108512 -AAGTACAA--CAGGGGTACG
1 TAAGTGCAATTCAGGGGTACG
36108530 TAAGTGCAATTCA
1 TAAGTGCAATTCA
36108543 ATGTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.08
19 15 0.58
21 9 0.35
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (21 bp):
TAAGTGCAATTCAGGGGTACG
Found at i:36108525 original size:40 final size:39
Alignment explanation
Indices: 36108416--36108542 Score: 119
Period size: 40 Copynumber: 3.2 Consensus size: 39
36108406 ACGTATGTGT
* *
36108416 AATTCGGGGGTACCAAAGTACATATAGGGGCACAAAAGTGC
1 AATTCAGGGGTA-CAAAGTACA-ATAGGGGCACATAAGTGC
* * * * *
36108457 AATTTAGGGGTACCACAGAAAAATAGGGGCATATAAGTGC
1 AATTCAGGGGTA-CAAAGTACAATAGGGGCACATAAGTGC
* * * *
36108497 AATTCAGGGGTATCGAAGTACAACAGGGGTACGTAAGTGC
1 AATTCAGGGGTA-CAAAGTACAATAGGGGCACATAAGTGC
36108537 AATTCA
1 AATTCA
36108543 ATGTATAATT
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
40 52 0.75
41 17 0.25
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (39 bp):
AATTCAGGGGTACAAAGTACAATAGGGGCACATAAGTGC
Found at i:36109323 original size:19 final size:20
Alignment explanation
Indices: 36109288--36109331 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36109278 TTTTTCTTTT
* *
36109288 CTTTT-TTTATTATATTA-A
1 CTTTTATTTACTAAATTACA
36109306 CTTTTATTTACTAAATTACA
1 CTTTTATTTACTAAATTACA
36109326 CTTTTA
1 CTTTTA
36109332 ACCTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (20 bp):
CTTTTATTTACTAAATTACA
Found at i:36113518 original size:15 final size:15
Alignment explanation
Indices: 36113498--36113528 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36113488 TATGTTTCAG
36113498 CAGGCTTGAATGACC
1 CAGGCTTGAATGACC
36113513 CAGGCTTGAATGACC
1 CAGGCTTGAATGACC
36113528 C
1 C
36113529 TCTCTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (15 bp):
CAGGCTTGAATGACC
Found at i:36115843 original size:40 final size:41
Alignment explanation
Indices: 36115757--36115850 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 41
36115747 AGGTACGTAT
** * * *
36115757 GTGCAATTCAGGGGTACTTAAGTACAAATAGGGGCATGTAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACGAAA
*
36115798 GTGCAATTCAGGTGTACCGAAGTAC-AATAAGGGCACGAAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACGAAA
*
36115838 GTGCAATTTAGGG
1 GTGCAATTCAGGG
36115851 TATAATTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 23 0.51
41 22 0.49
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACGAAA
Found at i:36120015 original size:45 final size:45
Alignment explanation
Indices: 36119957--36120126 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 45
36119947 CGGATATTGT
* * **
36119957 TGGAAATATAGGTGGATGCTATGTGCTGATTCCACCAGATATTAA
1 TGGAAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAA
* * *
36120002 TGGAAATAAAGGTGGTTGCTATGTGCTGATTTCATCGGATACCAA
1 TGGAAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAA
** *
36120047 TGGTTATATAGGTGGTTGCTATGTGCTGATTTCACCCGGA-ACC-A
1 TGGAAATATAGGTGGTTGCTATGTGCTGATTTCA-CCAGATACCAA
* * * *
36120091 TTGAGTATAAAGGTGGTTGCTATGTGCCGATTTCAC
1 TGGA-AATATAGGTGGTTGCTATGTGCTGATTTCAC
36120127 AAAGTACTAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 4 0.04
45 100 0.93
46 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (45 bp):
TGGAAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAA
Found at i:36120139 original size:45 final size:45
Alignment explanation
Indices: 36120007--36120152 Score: 152
Period size: 45 Copynumber: 3.2 Consensus size: 45
36119997 ATTAATGGAA
** *
36120007 ATAAAGGTGGTTGCTATGTGCTGATTTCATCGGA-TACCAATG-GTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA-CAAAGTACCATTGAG-T
* *** *
36120052 ATATAGGTGGTTGCTATGTGCTGATTTCACCCGGAACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACAAAGTACCATTGAGT
* * *
36120097 ATAAAGGTGGTTGCTATGTGCCGATTTCACAAAGTACTATTGACT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACAAAGTACCATTGAGT
*
36120142 ATAAGGGTGGT
1 ATAAAGGTGGT
36120153 GTTGTGTACT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 82 0.98
46 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACAAAGTACCATTGAGT
Found at i:36136659 original size:27 final size:27
Alignment explanation
Indices: 36136621--36136722 Score: 159
Period size: 27 Copynumber: 3.8 Consensus size: 27
36136611 ACAAGAAAAT
*
36136621 GGAAGCCTTTGTGGTAATCTATGATAA
1 GGAAGCCTTTGTGGCAATCTATGATAA
*
36136648 GGAAGCCTTTGTGGAAATCTATGATAA
1 GGAAGCCTTTGTGGCAATCTATGATAA
* *
36136675 GGAAGCTTTTGTGGCAATCTATGAAAA
1 GGAAGCCTTTGTGGCAATCTATGATAA
*
36136702 TGAAGCCTTTGTGGCAATCTA
1 GGAAGCCTTTGTGGCAATCTA
36136723 CGAAGAGAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
GGAAGCCTTTGTGGCAATCTATGATAA
Found at i:36137103 original size:8 final size:8
Alignment explanation
Indices: 36137090--36137115 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36137080 TATAAACTGA
36137090 AAAGAAAT
1 AAAGAAAT
36137098 AAAGAAAT
1 AAAGAAAT
36137106 AAAGAAAT
1 AAAGAAAT
36137114 AA
1 AA
36137116 TGAGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAGAAAT
Found at i:36151607 original size:54 final size:54
Alignment explanation
Indices: 36151525--36151627 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
36151515 ATGAGACAAT
36151525 GGTTTTGTGTTGCGACATCCTTGACAGTTTTCCGTTGTCACAACATCGATGTTG
1 GGTTTTGTGTTGCGACATCCTTGACAGTTTTCCGTTGTCACAACATCGATGTTG
* *
36151579 GGTTTTGTGTTGTGACATCCTTGACAGTTTTCCGTTGTCACGACATCGA
1 GGTTTTGTGTTGCGACATCCTTGACAGTTTTCCGTTGTCACAACATCGA
36151628 GGTTCGATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (54 bp):
GGTTTTGTGTTGCGACATCCTTGACAGTTTTCCGTTGTCACAACATCGATGTTG
Found at i:36155261 original size:27 final size:27
Alignment explanation
Indices: 36155209--36155280 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
36155199 GGTGTAAATG
* *
36155209 AATGGAATCCTTTGTGGCTATATCTGT
1 AATGGAAACCTTTGTGGCTATATCTGA
*
36155236 AATGGAAGCCTTTGTGGCTA-ACTCTGA
1 AATGGAAACCTTTGTGGCTATA-TCTGA
*
36155263 AAAGGAACACCTTTGTGG
1 AATGGAA-ACCTTTGTGG
36155281 GACAGTCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 29 0.74
28 9 0.23
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (27 bp):
AATGGAAACCTTTGTGGCTATATCTGA
Found at i:36156101 original size:43 final size:43
Alignment explanation
Indices: 36156067--36156403 Score: 370
Period size: 43 Copynumber: 7.8 Consensus size: 43
36156057 AGGTCATGTT
* * *
36156067 CTATAGCGGCGCTTTTATAAAAAACGCCGCTAAAGAACATGAC
1 CTATAGCGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
*
36156110 CTGTAGCGGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
1 CTATAGC-GGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
* *
36156154 CTTTAGCGGCACTTTTATCACAATCGCCGCTAAAGAACATGAC
1 CTATAGCGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
* * * * * *
36156197 CTTTAACAGCGCTTTTATCACAAACACCACTAAAGAACATGAC
1 CTATAGCGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
* * * *
36156240 CTTTAACGGCGCTTTTATCACAAACGCCACTAAAGAACATGAC
1 CTATAGCGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
* * * *
36156283 CTTTAGCGGTC-CTTTTATCACAAACACCACTAAAGAACATGAC
1 CTATAGCGG-CGCTTTTATCACAATCGCCGCTAAAGAACATGAC
* * * *
36156326 CTTTAGCAGCGCCTTTTTTCACAAACGCCGCTAAAGAACATGAC
1 CTATAGCGGCG-CTTTTATCACAATCGCCGCTAAAGAACATGAC
* * ** * *
36156370 CTTTAGCGACATTTTTTTCACAAACGCCGCTAAA
1 CTATAGCGGCGCTTTTATCACAATCGCCGCTAAA
36156404 AGTACCGTTT
Statistics
Matches: 266, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.00
43 188 0.71
44 77 0.29
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
CTATAGCGGCGCTTTTATCACAATCGCCGCTAAAGAACATGAC
Found at i:36156255 original size:86 final size:86
Alignment explanation
Indices: 36156070--36156377 Score: 456
Period size: 86 Copynumber: 3.6 Consensus size: 86
36156060 TCATGTTCTA
* * * *
36156070 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGAACATGACCTGTAGCGGGCGCTTTTATCACAAT
1 TAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGC-GGCGCTTTTATCACAAA
* *
36156135 CGCCGCTAAAGAACATGACCTT
65 CACCACTAAAGAACATGACCTT
* * * *
36156157 TAGCGGCACTTTTATCACAATCGCCGCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAAC
1 TAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
36156222 ACCACTAAAGAACATGACCTT
66 ACCACTAAAGAACATGACCTT
* *
36156243 TAACGGCGCTTTTATCACAAACGCCACTAAAGAACATGACCTTTAGCGGTC-CTTTTATCACAAA
1 TAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGG-CGCTTTTATCACAAA
36156307 CACCACTAAAGAACATGACCTT
65 CACCACTAAAGAACATGACCTT
* *
36156329 TAGCAGCGCCTTTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCG
1 TAGCGGCG-CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCG
36156378 ACATTTTTTT
Statistics
Matches: 199, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
86 119 0.60
87 80 0.40
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (86 bp):
TAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
ACCACTAAAGAACATGACCTT
Found at i:36156419 original size:129 final size:129
Alignment explanation
Indices: 36156075--36156403 Score: 471
Period size: 130 Copynumber: 2.5 Consensus size: 129
36156065 TTCTATAGCG
* * * *
36156075 GCGCTTTTATAAAAAACGCCGCTAAAGAACATGACCTGTAGCGGGCGCTTTTATCACAATCGCCG
1 GCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGC-GGCGCTTTTATCACAAACGCCG
* * *
36156140 CTAAAGAACATGACCTTTAGCGGCACTTTTATCACAATCGCCGCTAAAGAACATGACCTTTAACA
65 CTAAAGAACATGACCTTTAGCGGCACTTTTATCACAAACACCACTAAAGAACATGACCTTTAACA
* * * *
36156205 GCGCTTTTATCACAAACACCACTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACGCCAC
1 GCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGC
*
36156270 TAAAGAACATGACCTTTAGCGGTC-CTTTTATCACAAACACCACTAAAGAACATGACCTTTAGCA
66 TAAAGAACATGACCTTTAGCGG-CACTTTTATCACAAACACCACTAAAGAACATGACCTTTAACA
* * ** *
36156334 GCGCCTTTTTTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACATTTTTTTCACAAACGCCG
1 GCG-CTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
36156399 CTAAA
65 CTAAA
36156404 AGTACCGTTT
Statistics
Matches: 176, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
129 82 0.47
130 94 0.53
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (129 bp):
GCGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGC
TAAAGAACATGACCTTTAGCGGCACTTTTATCACAAACACCACTAAAGAACATGACCTTTAACA
Found at i:36162152 original size:9 final size:9
Alignment explanation
Indices: 36162138--36162216 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
36162128 TAAGTATAAT
36162138 TAAGTTATG
1 TAAGTTATG
36162147 TAAGTTATG
1 TAAGTTATG
* * *
36162156 ATATGATATA
1 -TAAGTTATG
*
36162166 T-ATTTATG
1 TAAGTTATG
36162174 T-A-TTATG
1 TAAGTTATG
*
36162181 CAAGTTATG
1 TAAGTTATG
*
36162190 TGAGTTATG
1 TAAGTTATG
*
36162199 TGAGTTATG
1 TAAGTTATG
36162208 TAAGTTATG
1 TAAGTTATG
36162217 ATATGATATA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
7 5 0.09
8 6 0.11
9 39 0.70
10 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:36162290 original size:9 final size:9
Alignment explanation
Indices: 36162273--36162356 Score: 107
Period size: 9 Copynumber: 9.2 Consensus size: 9
36162263 TAATTCTCTA
36162273 AAGTTATGT
1 AAGTTATGT
*
36162282 AAATTATGT
1 AAGTTATGT
36162291 AAGTTATGAT
1 AAGTTATG-T
36162301 ATAGTTAT-T
1 A-AGTTATGT
36162310 AAGTTATGT
1 AAGTTATGT
36162319 AAGTTATGT
1 AAGTTATGT
*
36162328 GAGTTATGT
1 AAGTTATGT
* *
36162337 AAATTATAT
1 AAGTTATGT
36162346 AAGTTATGT
1 AAGTTATGT
36162355 AA
1 AA
36162357 ATTTTGATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 6 0.09
9 50 0.78
10 2 0.03
11 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (9 bp):
AAGTTATGT
Found at i:36162296 original size:18 final size:18
Alignment explanation
Indices: 36162273--36162397 Score: 121
Period size: 18 Copynumber: 6.9 Consensus size: 18
36162263 TAATTCTCTA
36162273 AAGTTATGTAAATTATGT
1 AAGTTATGTAAATTATGT
*
36162291 AAGTTATGATATAGTTAT-T
1 AAGTTATG-TA-AATTATGT
*
36162310 AAGTTATGTAAGTTATGT
1 AAGTTATGTAAATTATGT
* *
36162328 GAGTTATGTAAATTATAT
1 AAGTTATGTAAATTATGT
36162346 AAGTTATGTAAATT-T-T
1 AAGTTATGTAAATTATGT
* * * *
36162362 GATTTGATATATATTTATGT
1 AAGTT-ATGTA-AATTATGT
36162382 AAGTTATGTAAATTAT
1 AAGTTATGTAAATTAT
36162398 ATATTAATTT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
16 4 0.05
17 11 0.13
18 47 0.54
19 16 0.18
20 9 0.10
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (18 bp):
AAGTTATGTAAATTATGT
Found at i:36162829 original size:66 final size:66
Alignment explanation
Indices: 36162755--36162902 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
36162745 ATAAAATCAG
* * *
36162755 TAATTTATTAAATTAAATAAAAAATTGACAATTTATTCACATAAAATCAAATAAACTAATCAAAC
1 TAATTTATTCAATTAAATAAAAAATCGACAATTTATTCACATAAAACCAAATAAACTAATCAAAC
36162820 A
66 A
** * * * *
36162821 TAATTTATTCAATTAAATCGAAAATCGATAATTTCTTCACATTAAACCGAATAAACTAATCAAAC
1 TAATTTATTCAATTAAATAAAAAATCGACAATTTATTCACATAAAACCAAATAAACTAATCAAAC
36162886 A
66 A
36162887 TAATTTATTCAATTAA
1 TAATTTATTCAATTAA
36162903 TCTAATATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.34
Consensus pattern (66 bp):
TAATTTATTCAATTAAATAAAAAATCGACAATTTATTCACATAAAACCAAATAAACTAATCAAAC
A
Found at i:36163081 original size:8 final size:9
Alignment explanation
Indices: 36163057--36163091 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
36163047 TCAAACATAT
36163057 GGTGGGGGC
1 GGTGGGGGC
36163066 GGTGGGGGC
1 GGTGGGGGC
36163075 GGTGGGGGC
1 GGTGGGGGC
*
36163084 AGTGGGGG
1 GGTGGGGG
36163092 TATTGCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.03, C:0.09, G:0.77, T:0.11
Consensus pattern (9 bp):
GGTGGGGGC
Done.