Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 157 of 208
Found at i:47783312 original size:15 final size:15
Alignment explanation
Indices: 47783267--47783313 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47783257 CCAATATCTC
47783267 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47783282 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47783297 GATACCCATATCTTT
1 GATACCCATATCTTT
47783312 GA
1 GA
47783314 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:47798545 original size:37 final size:37
Alignment explanation
Indices: 47798502--47798578 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
47798492 ATTCCAAAAA
* *
47798502 TAATA-TTATTTTAATA-TATTTAATATTAAATTT-AAAT
1 TAATATTTATCTTAATAGTATTT--TATT-AATTTAATAT
47798539 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
47798576 TAA
1 TAA
47798579 AGTGATTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 5 0.14
37 15 0.43
38 10 0.29
39 5 0.14
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (37 bp):
TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
Found at i:47798611 original size:67 final size:69
Alignment explanation
Indices: 47798521--47798648 Score: 201
Period size: 67 Copynumber: 1.9 Consensus size: 69
47798511 TTTAATATAT
*
47798521 TTAATATTAAATTTAAATTAATATTTATCTTAATAG-TAT-TT-TATTAATTTAATATTAAAGTG
1 TTAATATTAAATTTAAATTAATATTTATCTT-ATAGATATATTATAATAATTTAATATTAAAGTG
47798583 ATTAC
65 ATTAC
47798588 TTAATATTAAA-TTAAATTAAATATTTATCTTATAGATATATTATAATAATTTAATATTAAA
1 TTAATATTAAATTTAAATT-AATATTTATCTTATAGATATATTATAATAATTTAATATTAAA
47798649 TTTAATCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
66 11 0.20
67 26 0.46
68 2 0.04
69 17 0.30
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (69 bp):
TTAATATTAAATTTAAATTAATATTTATCTTATAGATATATTATAATAATTTAATATTAAAGTGA
TTAC
Found at i:47798642 original size:50 final size:48
Alignment explanation
Indices: 47798588--47798705 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 48
47798578 AAGTGATTAC
47798588 TTAATATTAAATTAAATTAAATATTTATCTT-ATAGATATATTATAATAAT
1 TTAATATTAAATT-AATTAAATATTTATCTTGATA-A-ATATTATAATAAT
* *
47798638 TTAATATTAAATTTAATCT-AATATTTATCTTGATAAGTATTATATTAAT
1 TTAATATTAAA-TTAAT-TAAATATTTATCTTGATAAATATTATAATAAT
* *
47798687 TTAATCTTAAAGTAATTAA
1 TTAATATTAAATTAATTAA
47798706 GTTTAATTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.02
48 5 0.08
49 21 0.35
50 27 0.45
51 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (48 bp):
TTAATATTAAATTAATTAAATATTTATCTTGATAAATATTATAATAAT
Found at i:47804253 original size:37 final size:35
Alignment explanation
Indices: 47804171--47804259 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 35
47804161 TTTAATAAAT
*
47804171 TTAATATTAAATTAA-ATTAAATTCTTAGCTTAATA
1 TTAATATT-AATTAATATTAAATTATTAGCTTAATA
* * *
47804206 TTATTTTTAATGTAATATTAAATTAATTATCTTAATA
1 TTAATATTAAT-TAATATTAAATT-ATTAGCTTAATA
47804243 TTAATATTAATTTAATA
1 TTAATATTAA-TTAATA
47804260 CTTATCTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 3 0.07
35 9 0.20
36 8 0.18
37 23 0.52
38 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (35 bp):
TTAATATTAATTAATATTAAATTATTAGCTTAATA
Found at i:47804302 original size:61 final size:58
Alignment explanation
Indices: 47804220--47804352 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 58
47804210 TTTTAATGTA
* * *
47804220 ATATTAAATTAAT-TATCTTAATATT-AATATTAATTTAATACTTATCTTATAGATAAATATT
1 ATATTAATTTAATAGAT-TTAATATTAAAT-TTAATCTAATACTTATC-T-T-GATAAATATT
* * *
47804281 CTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATACTTATCTTGATAAATATT
47804339 ATATTAATTTAATA
1 ATATTAATTTAATA
47804353 CTAAAGTGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 22 0.35
59 1 0.02
60 1 0.02
61 34 0.54
62 5 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (58 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATACTTATCTTGATAAATATT
Found at i:47805281 original size:10 final size:9
Alignment explanation
Indices: 47805266--47805304 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
47805256 ATATATTTGT
47805266 TTTATAATTA
1 TTTAT-ATTA
*
47805276 TTTATAATA
1 TTTATATTA
47805285 TTTATATTA
1 TTTATATTA
47805294 TGTTATATTA
1 T-TTATATTA
47805304 T
1 T
47805305 AAGTTTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATATTA
Found at i:47809131 original size:18 final size:18
Alignment explanation
Indices: 47809104--47809140 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47809094 AAGAGAAAGG
*
47809104 AAAATAAAATTAAAATTA
1 AAAATAAAATCAAAATTA
*
47809122 AAAATTAAATCAAAATTA
1 AAAATAAAATCAAAATTA
47809140 A
1 A
47809141 CAACAATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAAAATCAAAATTA
Found at i:47821560 original size:29 final size:29
Alignment explanation
Indices: 47821524--47821581 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47821514 TTCACTTTCA
47821524 ACTGATAGTAACCCGATCTCAAATCAATC
1 ACTGATAGTAACCCGATCTCAAATCAATC
47821553 ACTGATAGTAACCCGATCTCAAATCAATC
1 ACTGATAGTAACCCGATCTCAAATCAATC
47821582 TTTGAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.24
Consensus pattern (29 bp):
ACTGATAGTAACCCGATCTCAAATCAATC
Found at i:47823419 original size:21 final size:22
Alignment explanation
Indices: 47823390--47823430 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
47823380 ACTCCTTTCA
47823390 AACCTAAAAATTCAGTTGCACC
1 AACCTAAAAATTCAGTTGCACC
47823412 AACC-AAAAATTCAGTTGCA
1 AACCTAAAAATTCAGTTGCA
47823431 TCATACTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (22 bp):
AACCTAAAAATTCAGTTGCACC
Found at i:47829716 original size:5 final size:5
Alignment explanation
Indices: 47829706--47829744 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
47829696 TTTGTTTTAT
47829706 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
47829745 CTTAATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:47830804 original size:46 final size:46
Alignment explanation
Indices: 47830646--47830806 Score: 173
Period size: 46 Copynumber: 3.5 Consensus size: 46
47830636 GGTTCCATGG
* * * * * * *
47830646 TGTCTTTCAGCCATGGTCTTATTTA-TTCCCAACTTGATGCCA-AA
1 TGTCTTTCAACTATGGTCTTATTCATTTTCCATCATGTTGCCATAA
* * * *
47830690 TTGTCTTTCAACCATGGTCTTAATCATTTTCCATCGTGTTGTCATAA
1 -TGTCTTTCAACTATGGTCTTATTCATTTTCCATCATGTTGCCATAA
* *
47830737 TGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGTTGCCATAG
1 TGTCTTTCAACTATGGTCTTATTCATTTTCCATCATGTTGCCATAA
*
47830783 TGTCTTTCAAATATGGTCTTATTC
1 TGTCTTTCAACTATGGTCTTATTC
47830807 GTTTGATTTG
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
45 22 0.22
46 75 0.76
47 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (46 bp):
TGTCTTTCAACTATGGTCTTATTCATTTTCCATCATGTTGCCATAA
Found at i:47830841 original size:45 final size:45
Alignment explanation
Indices: 47830784--47830897 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
47830774 TTGCCATAGT
* * * * * **
47830784 GTCTTTCAAATATGGTCTTATTCGTTTGATTTGTGATACCATGGC
1 GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATACCATAAC
* *
47830829 GTCTTTCAAATATGGTTTTACTCGATAGAATCGTGATGCCATAAC
1 GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATACCATAAC
*
47830874 GTATTTCAAATATGGTCTTACTCG
1 GTCTTTCAAATATGGTCTTACTCG
47830898 CTTCTGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (45 bp):
GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATACCATAAC
Found at i:47831388 original size:16 final size:16
Alignment explanation
Indices: 47831364--47831394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47831354 TCCCATGAAT
*
47831364 TTTACTCCTTTAACAA
1 TTTAATCCTTTAACAA
47831380 TTTAATCCTTTAACA
1 TTTAATCCTTTAACA
47831395 TTAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAATCCTTTAACAA
Found at i:47837540 original size:46 final size:47
Alignment explanation
Indices: 47837420--47837772 Score: 200
Period size: 45 Copynumber: 7.8 Consensus size: 47
47837410 GATCGGAGGG
* * * * * * *
47837420 TGCCAT-GGTGTCTTTCAACCATGGTCTTATTTATTCT-CGACTTGA
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
* * *
47837465 TGTCA-AAATGTCTTTCAACCATGGTCTTATTCATTTTCCGTCATGT
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
** * * *
47837511 TTTCATAG-TGTCTTTAAACTATGGTCTTATTCATTTTTCGTCGTGT
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
* *** *
47837557 TGCCATAGAT-TCTTTCAACTATGGTCTTATTC-GTTTGATTCATGA
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
* *** * ***
47837602 TGTCATA-ACACCTTTCAACTATGGTCTTATTTA-TTTAATTCATGAT
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATG-T
* * * * * *
47837648 T-TCATA-ACGTCTTTCAACTATGTTCTTACTC-TTTTCTGGT-ATGA
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTC-CGTCATGT
* * * *
47837692 TGTCATAG-TGTCTTTCAATTATGGTATTATTTA-TTTCCGGTACA-G-
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCC-GT-CATGT
*
47837737 TGCCATA-ATGTCTTTCAACTATGGTCTTAATCATTT
1 TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTT
47837773 CCTTTAACCC
Statistics
Matches: 241, Mismatches: 50, Indels: 33
0.74 0.15 0.10
Matches are distributed among these distances:
44 2 0.01
45 161 0.67
46 75 0.31
47 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (47 bp):
TGCCATAGATGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
Found at i:47846654 original size:59 final size:58
Alignment explanation
Indices: 47846581--47846779 Score: 197
Period size: 59 Copynumber: 3.3 Consensus size: 58
47846571 AATACTAAGA
*
47846581 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
* ** * * * * * *
47846640 ATTTTATAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGA
1 ATTTTATA-TATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-T
*
47846701 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
47846760 ATTTTATAATATTATATATT
1 ATTTTAT-ATATTATATATT
47846780 ATAATTTTAG
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
58 12 0.11
59 43 0.40
60 16 0.15
61 26 0.24
62 11 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTTTATATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:47846703 original size:120 final size:120
Alignment explanation
Indices: 47846559--47846801 Score: 468
Period size: 120 Copynumber: 2.0 Consensus size: 120
47846549 TGCTACAATC
47846559 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
47846624 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
47846679 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
47846744 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
47846799 ATA
1 ATA
47846802 TTTTATTAAA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:47846723 original size:18 final size:17
Alignment explanation
Indices: 47846701--47846835 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
47846691 AATACTAAGA
47846701 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
47846718 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
47846734 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
47846748 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
47846767 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
47846783 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
47846801 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
47846818 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
47846836 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:47846754 original size:26 final size:25
Alignment explanation
Indices: 47846716--47846855 Score: 85
Period size: 26 Copynumber: 5.5 Consensus size: 25
47846706 ATTAAATTAT
*
47846716 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
47846742 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * *
47846768 ATATTATATATTATAATTTTAGTAAATTC
1 ATATTAT-T-TTA-AATTATATTTAA-TA
*
47846797 ATA-TATTTT--ATTA-AATT-AT-
1 ATATTATTTTAAATTATATTTAATA
*
47846816 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
47846842 ATAATTATGTTAAA
1 AT-ATTATTTTAAA
47846856 ATATGATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.03
20 4 0.05
21 3 0.03
22 2 0.02
23 7 0.08
24 3 0.03
25 7 0.08
26 30 0.34
27 13 0.15
28 11 0.13
29 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:47846773 original size:15 final size:15
Alignment explanation
Indices: 47846729--47846784 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
47846719 TTTTTGTTAA
*
47846729 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
47846744 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
47846755 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
47846770 ATTATATATTATAAT
1 ATTATATTTTATAAT
47846785 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:47846802 original size:41 final size:40
Alignment explanation
Indices: 47846637--47846820 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 40
47846627 TATTTTAAAT
* *
47846637 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
47846678 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
47846715 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
47846757 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
47846798 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
47846821 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 43 0.39
42 14 0.13
43 6 0.05
44 6 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:47847050 original size:44 final size:45
Alignment explanation
Indices: 47846992--47847088 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
47846982 CTATTACACC
47846992 TCCATT-CTATTCAACCAAACACAAT-A-TTACTATTACGCCTCTAT
1 TCCATTAC-ATTCAACCAAACA-AATGATTTACTATTACGCCTCTAT
* * *
47847036 TTCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAAATGATTTACTATTACGCCTCTAT
47847081 TCCATTAC
1 TCCATTAC
47847089 GCCTCTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 19 0.41
45 25 0.54
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAAATGATTTACTATTACGCCTCTAT
Found at i:47847745 original size:11 final size:11
Alignment explanation
Indices: 47847729--47847753 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47847719 AAACTAGAAA
47847729 TAATTTCAATT
1 TAATTTCAATT
47847740 TAATTTCAATT
1 TAATTTCAATT
47847751 TAA
1 TAA
47847754 CTGAATTTTT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTTCAATT
Found at i:47847804 original size:17 final size:17
Alignment explanation
Indices: 47847769--47847801 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47847759 TTTTTCTAAC
47847769 AAAATTTAACTGAAATT
1 AAAATTTAACTGAAATT
47847786 AAAATTTAACT-AAATT
1 AAAATTTAACTGAAATT
47847802 TAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATTTAACTGAAATT
Found at i:47850418 original size:22 final size:23
Alignment explanation
Indices: 47850390--47850434 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47850380 ATCCAATCTT
47850390 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
47850412 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
47850435 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:47854660 original size:21 final size:21
Alignment explanation
Indices: 47854620--47854660 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47854610 GAGGGAAAGT
*
47854620 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAATTTTGA
47854641 GGGAAA-AGTAAAAATATTTG
1 GGGAAAGAGTAAAAAT-TTTG
47854661 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (21 bp):
GGGAAAGAGTAAAAATTTTGA
Found at i:47854712 original size:9 final size:9
Alignment explanation
Indices: 47854698--47854734 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47854688 TATAGTTTGA
47854698 TATTCGAAT
1 TATTCGAAT
47854707 TATTCGAAT
1 TATTCGAAT
*
47854716 TATTCGAGT
1 TATTCGAAT
47854725 TATTCGAAT
1 TATTCGAAT
47854734 T
1 T
47854735 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47861631 original size:16 final size:16
Alignment explanation
Indices: 47861610--47861642 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47861600 ATTTTAATTC
47861610 AGTCTATCAATATGGT
1 AGTCTATCAATATGGT
47861626 AGTCTATCAATATGGT
1 AGTCTATCAATATGGT
47861642 A
1 A
47861643 CTCGTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (16 bp):
AGTCTATCAATATGGT
Found at i:47861828 original size:33 final size:33
Alignment explanation
Indices: 47861785--47861859 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
47861775 TTTAAGAATC
*
47861785 TATTAAAAATACTTAAATTAACATATACATATA
1 TATTTAAAATACTTAAATTAACATATACATATA
47861818 TATTTAAAATACTTAAATTAACATATACATATA
1 TATTTAAAATACTTAAATTAACATATACATATA
47861851 TATTTAAAA
1 TATTTAAAA
47861860 GAAAACATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (33 bp):
TATTTAAAATACTTAAATTAACATATACATATA
Found at i:47877044 original size:304 final size:305
Alignment explanation
Indices: 47876494--47877110 Score: 1011
Period size: 304 Copynumber: 2.0 Consensus size: 305
47876484 AGCTTCACAT
* * *
47876494 TCTAAAATAAGGAAATCCACAGAAAAATAAATTTATCTACTCTTACTAGCACATAGTCAATTTTA
1 TCTAAAATAAGAAAATCCACAGAAAAATAAATTTATCTACTCTTACCAACACATAGTCAATTTTA
* * *
47876559 CCTTCCGAATGTGCGTAGGATCGATCAGTTAGTTGCAACGTAACAGTAGTAGGTCTTGCTTTCCT
66 CCTTCCGAATGTGCGTAGGATCGATCAGCTAGTTGCAACATAACAGTAGTAGGTCTTACTTTCCT
*
47876624 AACTTCCTGAAAATAGACGTAGGCATTAGATTTACACTCACTTCTAAATCACATAATGCCTTACC
131 AACTTCCTGAAAATAGACGTAGGCATTAGATTTAAACTCACTTCTAAATCACATAATGCCTTACC
** *
47876689 AACATAATGATTTCCAATTGAACATGGGATAGTGAAACTCCCTGGGTCATTCAACTTTGGAGGTA
196 AACATAATGATTTCCAATTGAACATAAGATAGTGAAACTCCCTGGGTCATTCAACTTTAGAGGTA
*
47876754 ATTTATTCATCAACATTGTTGTTCACCCTTTAATGAGAGCAACTG
261 ATTTATTCATCAACATTGTTGTTCACCCTTTAATGAGAGCAACAG
*** *
47876799 TCTAAAATAAGAAAATTTGCAGAAAAATAAATTTATCTACTCTTACCAACACATATTCAATTTTA
1 TCTAAAATAAGAAAATCCACAGAAAAATAAATTTATCTACTCTTACCAACACATAGTCAATTTTA
* * * *
47876864 CCTTCCGGATGTGCGTAGGATCGATCAGCTAGTTGCAACATAACCGTAGTA-GTCTTATTTTTCT
66 CCTTCCGAATGTGCGTAGGATCGATCAGCTAGTTGCAACATAACAGTAGTAGGTCTTACTTTCCT
* * *
47876928 AACTTCTTGAAAATAGACGTAGGCATTAGATTTAAACTCGCTTTTAAATCACATAATGCCTTACC
131 AACTTCCTGAAAATAGACGTAGGCATTAGATTTAAACTCACTTCTAAATCACATAATGCCTTACC
47876993 AACATAATGATTTCCAATTGAACATAAGATAGTGAAACTCCCTGGGTCATTCAACTTTAGAGGTA
196 AACATAATGATTTCCAATTGAACATAAGATAGTGAAACTCCCTGGGTCATTCAACTTTAGAGGTA
*
47877058 ATTTATTCATCAACATTGTTGTTCACCCTTTAGTGAGAGCAACAG
261 ATTTATTCATCAACATTGTTGTTCACCCTTTAATGAGAGCAACAG
*
47877103 TCTCAAAT
1 TCTAAAAT
47877111 TCTCCCAATC
Statistics
Matches: 288, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
304 183 0.64
305 105 0.36
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (305 bp):
TCTAAAATAAGAAAATCCACAGAAAAATAAATTTATCTACTCTTACCAACACATAGTCAATTTTA
CCTTCCGAATGTGCGTAGGATCGATCAGCTAGTTGCAACATAACAGTAGTAGGTCTTACTTTCCT
AACTTCCTGAAAATAGACGTAGGCATTAGATTTAAACTCACTTCTAAATCACATAATGCCTTACC
AACATAATGATTTCCAATTGAACATAAGATAGTGAAACTCCCTGGGTCATTCAACTTTAGAGGTA
ATTTATTCATCAACATTGTTGTTCACCCTTTAATGAGAGCAACAG
Found at i:47880431 original size:17 final size:17
Alignment explanation
Indices: 47880409--47880458 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
47880399 TCTCAGATTT
47880409 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
47880426 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
47880443 TGATACCCATATCTTT
1 TGATACCCATATCTTT
47880459 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:47885059 original size:17 final size:17
Alignment explanation
Indices: 47885037--47885086 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
47885027 TCTCAGATTT
47885037 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
**
47885054 TGATACCTGTATCTTTC
1 TGATACCCATATCTTTC
47885071 TGATACCCATATCTTT
1 TGATACCCATATCTTT
47885087 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:47887348 original size:69 final size:69
Alignment explanation
Indices: 47887200--47887351 Score: 209
Period size: 69 Copynumber: 2.2 Consensus size: 69
47887190 AATAAATAGT
* ** *
47887200 TAGAGCAAACCTCCCAACTGTCATATTAAGGTTCTCAGGTGAAGAGCCACAACCTTCAAAACAGT
1 TAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCTCAGGAAAAGAGCCACAACCTCCAAAACAGT
47887265 TACA
66 TACA
* *
47887269 TAGAGCAAAGCTCCCAATTGTCATATTAAGGTT-TACAGGAAAAGAGCCACAACCTCCAAAATAG
1 TAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCT-CAGGAAAAGAGCCACAACCTCCAAAACAG
47887333 TTAGCA
65 TTA-CA
*
47887339 -AGAGTAAAGCTCC
1 TAGAGCAAAGCTCC
47887352 TAGTTGTGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 1 0.01
69 71 0.96
70 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (69 bp):
TAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCTCAGGAAAAGAGCCACAACCTCCAAAACAGT
TACA
Found at i:47888944 original size:69 final size:69
Alignment explanation
Indices: 47888860--47889259 Score: 435
Period size: 69 Copynumber: 5.8 Consensus size: 69
47888850 AATGCATGAA
* * *
47888860 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGCTCCCAGC
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
47888925 TGTC
66 TGTC
* ** * *
47888929 ATATTAAGGTTCGCAGGCGAAGAGCCATAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCTAGT
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
47888994 TGTC
66 TGTC
** ** * *
47888998 ATATTAAGGTTCATAGGCGAAGAGTCGCAACCTCCAAAACAGTTAGCAAGAGCAAAGCTCCCAAT
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
47889063 TGTC
66 TGTC
* * * * *
47889067 ATATTAAGATTTGCAGGCGAAGAA-CGCAACCTCCAAAACAATTACCGAAAGCAAAGCTCCCAG-
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
47889130 TGATC
66 TG-TC
* * * * * * *
47889135 ATATTAACGTTCACAGGCGAAGAGCCGTAACCTCCAAAATAGTTAGCGAGAACAAAGCTCCCAGG
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
* *
47889200 TATT
66 TGTC
* * ** * * * * * *
47889204 ATATAAAGGTTCGAAGATGAAGAACCACAACCTTCAAGACATTTAGTGAAAGCAAA
1 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAA
47889260 ACTCTCTGTT
Statistics
Matches: 272, Mismatches: 56, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
67 2 0.01
68 55 0.20
69 214 0.79
70 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (69 bp):
ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
TGTC
Found at i:47889226 original size:137 final size:137
Alignment explanation
Indices: 47888860--47889259 Score: 462
Period size: 137 Copynumber: 2.9 Consensus size: 137
47888850 AATGCATGAA
* * *
47888860 ATATTAAGGTTCGCAGGCGAAGAACCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGCTCCCAGC
1 ATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAGC
* * ** *
47888925 TGTCATATTAAGGTTCGCAGGCGAAGAGCCATAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCC
66 TGTCATATTAAGGTTCGCAGGCGAAGAACCA-AACCTCCAAAACAATTACCGAAAGCAAAGCTCC
*
47888990 TAGTTGTC
130 CAGTTGTC
* * * **
47888998 ATATTAAGGTTCATAGGCGAAGAGTCGCAACCTCCAAAACAGTTAGCAAGAGCAAAGCTCCCAAT
1 ATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAGC
* *
47889063 TGTCATATTAAGATTTGCAGGCGAAGAACGC-AACCTCCAAAACAATTACCGAAAGCAAAGCTCC
66 TGTCATATTAAGGTTCGCAGGCGAAGAAC-CAAACCTCCAAAACAATTACCGAAAGCAAAGCTCC
47889127 CAG-TGATC
130 CAGTTG-TC
* * * * *
47889135 ATATTAACGTTCACAGGCGAAGAGCCGTAACCTCCAAAATAGTTAGCGAGAACAAAGCTCCCAGG
1 ATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAGC
* * * * ** * * * **
47889200 TATTATATAAAGGTTCGAAGATGAAGAACCACAACCTTCAAGACATTTAGTGAAAGCAAA
66 TGTCATATTAAGGTTCGCAGGCGAAGAACCA-AACCTCCAAAACAATTACCGAAAGCAAA
47889260 ACTCTCTGTT
Statistics
Matches: 220, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
136 3 0.01
137 110 0.50
138 106 0.48
139 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (137 bp):
ATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAGC
TGTCATATTAAGGTTCGCAGGCGAAGAACCAAACCTCCAAAACAATTACCGAAAGCAAAGCTCCC
AGTTGTC
Found at i:47904135 original size:31 final size:33
Alignment explanation
Indices: 47904087--47904148 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
47904077 GAGAGAGGTG
47904087 AAGTTGGCACCTTGGAGG-GTTGACTTCAATCA
1 AAGTTGGCACCTTGGAGGTGTTGACTTCAATCA
*
47904119 AAGTTGGC-TCTTGGAGGTGTTGACTTCAAT
1 AAGTTGGCACCTTGGAGGTGTTGACTTCAAT
47904149 TTATGTACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (33 bp):
AAGTTGGCACCTTGGAGGTGTTGACTTCAATCA
Found at i:47907608 original size:8 final size:8
Alignment explanation
Indices: 47907595--47907620 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47907585 ATTTATTAGC
47907595 TTTTATTA
1 TTTTATTA
47907603 TTTTATTA
1 TTTTATTA
47907611 TTTTATTA
1 TTTTATTA
47907619 TT
1 TT
47907621 ACAATTTTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:47915625 original size:27 final size:27
Alignment explanation
Indices: 47915595--47915852 Score: 288
Period size: 27 Copynumber: 9.5 Consensus size: 27
47915585 GTATAACAAC
*
47915595 CATTTTATCCTATTGGGGTATTTCGGT
1 CATTTTACCCTATTGGGGTATTTCGGT
* *
47915622 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATTGGGGTATTTCGGT
*
47915649 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATTGGGGTATTTCGGT
* *
47915676 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATTGGGGTATTTCGGT
*
47915703 CATTTTACCTTA-TGAGGGTATTTCGGT
1 CATTTTACCCTATTG-GGGTATTTCGGT
* * *
47915730 CATTTTACCCTATGGGGGTTATTTTGAT
1 CATTTTACCCTATTGGGG-TATTTCGGT
* *
47915758 CATTTTATCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATTGGGGTATTTCGGT
* * *
47915785 TATTTTACCCTA-TGAGGGTATGTCGAT
1 CATTTTACCCTATTG-GGGTATTTCGGT
* * **
47915812 TATTTTATCCTA-TGAGGGTATTTTAGT
1 CATTTTACCCTATTG-GGGTATTTCGGT
47915839 CATTTTACCCTATT
1 CATTTTACCCTATT
47915853 TTGGAGTCTC
Statistics
Matches: 197, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 170 0.86
28 25 0.13
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.45
Consensus pattern (27 bp):
CATTTTACCCTATTGGGGTATTTCGGT
Found at i:47915653 original size:54 final size:54
Alignment explanation
Indices: 47915595--47915851 Score: 340
Period size: 54 Copynumber: 4.7 Consensus size: 54
47915585 GTATAACAAC
* *
47915595 CATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGAT
* * *
47915649 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGAT
47915703 CATTTTA-CCT-TATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTTATTTTGAT
1 CATTTTATCCTAT-TG-GGGTATTTCGGTCATTTTACCCTATGGGGG-TATTTTGAT
* * * * *
47915758 CATTTTATCCTATAGGGGTATTTCGGTTATTTTACCCTATGAGGGTATGTCGAT
1 CATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGAT
* **
47915812 TATTTTATCCTA-TGAGGGTATTTTAGTCATTTTACCCTAT
1 CATTTTATCCTATTG-GGGTATTTCGGTCATTTTACCCTAT
47915852 TTTGGAGTCT
Statistics
Matches: 182, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
52 1 0.01
53 5 0.03
54 128 0.70
55 43 0.24
56 4 0.02
57 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.45
Consensus pattern (54 bp):
CATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGAT
Found at i:47915796 original size:109 final size:108
Alignment explanation
Indices: 47915595--47915851 Score: 365
Period size: 109 Copynumber: 2.4 Consensus size: 108
47915585 GTATAACAAC
*
47915595 CATTTTATCCTATTG-GGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCC
1 CATTTTATCCTA-TGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCC
* * * * *
47915659 TATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGGT
65 TATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATGTCGAT
* *
47915703 CATTTTA-CCTTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTTATTTTGATCATTTTATC
1 CATTTTATCC-TATGAGGGTATTTCGGTCATTTTACCCTATAGGGG-TATTTTGATCATTTTACC
*
47915767 CTATAGGGGTATTTCGGTTATTTTACCCTATGAGGGTATGTCGAT
64 CTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATGTCGAT
* **
47915812 TATTTTATCCTATGAGGGTATTTTAGTCATTTTACCCTAT
1 CATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTAT
47915852 TTTGGAGTCT
Statistics
Matches: 133, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
107 4 0.03
108 38 0.29
109 89 0.67
110 2 0.02
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.45
Consensus pattern (108 bp):
CATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCT
ATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATGTCGAT
Found at i:47919918 original size:15 final size:15
Alignment explanation
Indices: 47919873--47919923 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
47919863 GAAAAATAAG
47919873 AAATATTATGTGTT-
1 AAATATTATGTGTTA
* *
47919887 AAATGTT-T-TAATTA
1 AAATATTATGT-GTTA
47919901 AAATATTATGTGTTA
1 AAATATTATGTGTTA
47919916 AAATATTA
1 AAATATTA
47919924 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 12 0.41
15 12 0.41
16 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
AAATATTATGTGTTA
Found at i:47920821 original size:26 final size:26
Alignment explanation
Indices: 47920765--47920815 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
47920755 AATATCAGAC
*
47920765 CTTGAGCCGGTGTTGATTTAGCATGT
1 CTTGAGCCGGTGTTGATTTAGCAAGT
*
47920791 CTTGAGCCTGTGCTT-ATTTAGCAAG
1 CTTGAGCCGGTG-TTGATTTAGCAAG
47920816 CTTTGAACCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (26 bp):
CTTGAGCCGGTGTTGATTTAGCAAGT
Found at i:47941269 original size:25 final size:25
Alignment explanation
Indices: 47941235--47941286 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47941225 TATTTCAACC
47941235 TAAGTTCAGAGAAGAATTCGTTATT
1 TAAGTTCAGAGAAGAATTCGTTATT
47941260 TAAGTTCAGAGAAGAATTCGTTATT
1 TAAGTTCAGAGAAGAATTCGTTATT
47941285 TA
1 TA
47941287 CTATAATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (25 bp):
TAAGTTCAGAGAAGAATTCGTTATT
Found at i:47954707 original size:50 final size:50
Alignment explanation
Indices: 47954612--47954835 Score: 285
Period size: 50 Copynumber: 4.5 Consensus size: 50
47954602 CATGTCTCGG
* ** * * *
47954612 ACATGGTCTTACATGGGATGTTCTCATAC-CAGTGCCCATGGCATGTCCCAGA
1 ACATGGTCTTACAGGGGA-CCTCTCAT-CTCGGTGCCAATGCCATGTCCCA-A
*
47954664 A-ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAA
1 ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAA
*
47954713 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACT-CCATGTCCCAA
1 ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAA-TGCCATGTCCCAA
*
47954763 ACATGGTCTTACATGGGG-CCTCTCATCTCGGTGCCAATGCCATGTCCCAG
1 ACATGGTCTTACA-GGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAA
*
47954813 ACATGGTCTTACATGGGACCTCT
1 ACATGGTCTTACAGGGGACCTCT
47954836 TTACCCAAAT
Statistics
Matches: 154, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
49 7 0.05
50 128 0.83
51 18 0.12
52 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAA
Found at i:47954774 original size:100 final size:100
Alignment explanation
Indices: 47954653--47954835 Score: 316
Period size: 100 Copynumber: 1.8 Consensus size: 100
47954643 GTGCCCATGG
47954653 CATGTCCCAGAAATGGTCTTAC-GGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
1 CATGTCCCAGAAATGGTCTTACAGGGGG-CCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
47954717 GGTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
65 GGTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
* *
47954753 CATGTCCCA-AACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAGACAT
1 CATGTCCCAGAA-ATGGTCTTACAGGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAAACAT
47954817 GGTCTTACATGGGACCTCT
65 GGTCTTACATGGGACCTCT
47954836 TTACCCAAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
99 2 0.03
100 73 0.92
101 4 0.05
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (100 bp):
CATGTCCCAGAAATGGTCTTACAGGGGGCCTCTCATCTCGGTGCCAATGCCATGTCCCAAACATG
GTCTTACATGGGACCTCTCATCTCGGTGCCAACTC
Found at i:47956408 original size:78 final size:78
Alignment explanation
Indices: 47956262--47956413 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 78
47956252 CATGAGCCGA
* * * * * *
47956262 TGTTTATTTAGCAGGCCTTGAGTAAGTGTTTGTTTAGCAGGCTTTGACCAGTTGATTACTTAGTA
1 TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
47956327 GGCTTTGAGCTGG
66 GGCTTTGAGCTGG
* * * * * *
47956340 TGTTTATTTAGCAGGCTTTGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCA
1 TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
47956405 GGCTTTGAG
66 GGCTTTGAG
47956414 TCGGTGAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (78 bp):
TGTTTATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCA
GGCTTTGAGCTGG
Found at i:47956419 original size:26 final size:26
Alignment explanation
Indices: 47956262--47956413 Score: 171
Period size: 26 Copynumber: 5.8 Consensus size: 26
47956252 CATGAGCCGA
* *
47956262 TGTTTATTTAGCAGGCCTTGAG-TAAG
1 TGTTTATTTAGCAGGCTTTGAGCT-GG
* * * *
47956288 TGTTTGTTTAGCAGGCTTTGACCAGT
1 TGTTTATTTAGCAGGCTTTGAGCTGG
* * *
47956314 TGATTACTTAGTAGGCTTTGAGCTGG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
**
47956340 TGTTTATTTAGCAGGCTTTGAGCCAG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
* *
47956366 TGATTATTTAGCAGGCCTTGAGCTGG
1 TGTTTATTTAGCAGGCTTTGAGCTGG
47956392 TGTTTATTTAGCAGGCTTTGAG
1 TGTTTATTTAGCAGGCTTTGAG
47956414 TCGGTGAAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCTTTGAGCTGG
Found at i:47956426 original size:26 final size:25
Alignment explanation
Indices: 47956265--47956432 Score: 147
Period size: 26 Copynumber: 6.5 Consensus size: 25
47956255 GAGCCGATGT
* ** *
47956265 TTATTTAGCAGGCCTTGAGTAAGTGT
1 TTATTTAGCAGGCTTTGAG-CGGTGA
* * *
47956291 TTGTTTAGCAGGCTTTGACCAGTTGA
1 TTATTTAGCAGGCTTTGAGC-GGTGA
* * *
47956317 TTACTTAGTAGGCTTTGAGCTGGTGT
1 TTATTTAGCAGGCTTTGAGC-GGTGA
*
47956343 TTATTTAGCAGGCTTTGAGCCAGTGA
1 TTATTTAGCAGGCTTTGAG-CGGTGA
* *
47956369 TTATTTAGCAGGCCTTGAGCTGGTGT
1 TTATTTAGCAGGCTTTGAGC-GGTGA
47956395 TTATTTAGCAGGCTTTGAGTCGGTGA
1 TTATTTAGCAGGCTTTGAG-CGGTGA
**
47956421 AAATTTAGCAGG
1 TTATTTAGCAGG
47956433 TACTATGTAC
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
25 1 0.01
26 110 0.97
27 2 0.02
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.38
Consensus pattern (25 bp):
TTATTTAGCAGGCTTTGAGCGGTGA
Found at i:47956427 original size:52 final size:52
Alignment explanation
Indices: 47956254--47956432 Score: 218
Period size: 52 Copynumber: 3.4 Consensus size: 52
47956244 TATCAGGCCA
* * * *
47956254 TGAGCCGATGTTTATTTAGCAGGCCTTGAG-TAAGTGTTTGTTTAGCAGGCTT
1 TGAGCCGGTGATTATTTAGCAGGCCTTGAGCT-GGTGTTTATTTAGCAGGCTT
* * * *
47956306 TGA-CCAGTTGATTACTTAGTAGGCTTTGAGCTGGTGTTTATTTAGCAGGCTT
1 TGAGCC-GGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
*
47956358 TGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
1 TGAGCCGGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
* **
47956410 TGAGTCGGTGAAAATTTAGCAGG
1 TGAGCCGGTGATTATTTAGCAGG
47956433 TACTATGTAC
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.02
52 103 0.95
53 3 0.03
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (52 bp):
TGAGCCGGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
Found at i:47956427 original size:78 final size:78
Alignment explanation
Indices: 47956267--47956432 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
47956257 GCCGATGTTT
* * * * * *
47956267 ATTTAGCAGGCCTTGAGTAAGTGTTTGTTTAGCAGGCTTTGACCAGTTGATTACTTAGTAGGCTT
1 ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
***
47956332 TGAGCTGGTGTTT
66 TGAGCTGGTGAAA
* * * * * *
47956345 ATTTAGCAGGCTTTGAGCCAGTGATTATTTAGCAGGCCTTGAGCTGGTGTTTATTTAGCAGGCTT
1 ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
47956410 TGAG-TCGGTGAAA
66 TGAGCT-GGTGAAA
47956423 ATTTAGCAGG
1 ATTTAGCAGG
47956433 TACTATGTAC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
77 1 0.01
78 71 0.99
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (78 bp):
ATTTAGCAGGCCTTGAGCAAGTGATTATTTAGCAGGCCTTGACCAGGTGATTACTTAGCAGGCTT
TGAGCTGGTGAAA
Found at i:47960321 original size:10 final size:10
Alignment explanation
Indices: 47960306--47960350 Score: 90
Period size: 10 Copynumber: 4.5 Consensus size: 10
47960296 ATAGCGCTGG
47960306 AAAATTACTA
1 AAAATTACTA
47960316 AAAATTACTA
1 AAAATTACTA
47960326 AAAATTACTA
1 AAAATTACTA
47960336 AAAATTACTA
1 AAAATTACTA
47960346 AAAAT
1 AAAAT
47960351 CCTCTGTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTACTA
Found at i:47964115 original size:41 final size:40
Alignment explanation
Indices: 47964057--47964190 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 40
47964047 TAGCGGCACA
* * *
47964057 TATGTGTAATTCAGGGGTACTAAAGTACAAACAGGGACATG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACA-G
*
47964098 TATATGCAATTTAGGGGTA-TCGAAGTACAAACAAGGGTAC-G
1 TATGTGCAATTTAGGGGTACT-GAAGTACAAAC-AGGG-ACAG
* * *
47964139 TATGTGCAATTTAGGGGTACTGGAGTACAAATAGGGGCACG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACA-G
47964180 TATGTGCAATT
1 TATGTGCAATT
47964191 CATAGAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 66 0.84
42 5 0.06
43 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (40 bp):
TATGTGCAATTTAGGGGTACTGAAGTACAAACAGGGACAG
Found at i:47964156 original size:21 final size:21
Alignment explanation
Indices: 47964132--47964190 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
47964122 GTACAAACAA
47964132 GGGTACGTATGTGCAATTTAG
1 GGGTACGTATGTGCAATTTAG
* * *
47964153 GGGTACTGGA-GTACAA-ATAG
1 GGGTAC-GTATGTGCAATTTAG
*
47964173 GGGCACGTATGTGCAATT
1 GGGTACGTATGTGCAATT
47964191 CATAGAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 11 0.39
22 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.34, T:0.27
Consensus pattern (21 bp):
GGGTACGTATGTGCAATTTAG
Found at i:47967269 original size:12 final size:12
Alignment explanation
Indices: 47967252--47967288 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
47967242 GCGCATGAAT
47967252 ATAAAAATAATA
1 ATAAAAATAATA
*
47967264 ATAAAAAAAATA
1 ATAAAAATAATA
*
47967276 ATAATAATAATA
1 ATAAAAATAATA
47967288 A
1 A
47967289 ATAATGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:47967274 original size:15 final size:16
Alignment explanation
Indices: 47967249--47967293 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
47967239 CATGCGCATG
47967249 AATATAAAAATAATAAT
1 AATA-AAAAATAATAAT
47967266 AA-AAAAAATAATAAT
1 AATAAAAAATAATAAT
*
47967281 AATAATAAATAAT
1 AATAAAAAATAAT
47967294 GATACAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 14 0.54
16 10 0.38
17 2 0.08
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAAAAATAATAAT
Found at i:47967798 original size:19 final size:19
Alignment explanation
Indices: 47967774--47967865 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
47967764 AATCATATCT
*
47967774 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
47967793 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47967812 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47967831 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47967850 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47967866 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47967827 original size:38 final size:38
Alignment explanation
Indices: 47967751--47967865 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
47967741 AAATTAAATC
* *
47967751 TCTAAGATTACAAAATCATATCTTCTAAGATTGTATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
47967793 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
47967831 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
47967866 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 53 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:47968562 original size:44 final size:42
Alignment explanation
Indices: 47968511--47968621 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 42
47968501 GATCTGCTCT
*
47968511 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAG-GAGATAAGATAT-TGACTTTAATCCACTCCA
* * * * *
47968555 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAGTCTACTTCA
1 CTGCAACTTCA-GGAGATAAGA-TATTGACTTTAATCCACTCCA
47968599 CTGCAACTTCAGGTAGATAAGAT
1 CTGCAACTTCAGG-AGATAAGAT
47968622 TCGCCATCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.05
44 50 0.88
45 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
CTGCAACTTCAGGAGATAAGATATTGACTTTAATCCACTCCA
Found at i:47968696 original size:44 final size:45
Alignment explanation
Indices: 47968549--47968708 Score: 115
Period size: 44 Copynumber: 3.6 Consensus size: 45
47968539 ATTTTAATCC
* *
47968549 ACTCCACTGCAACTTCAGG-GAGAT-AGGATTATTGGC-T-TTAGTCT
1 ACTCCACTGCAACTTCAGGAG-GATAAGGA-T-TCGCCATCTTAGTCT
*
47968593 ACTTCACTGCAACTTCAGGTA-GATAA-GATTCGCCATCTTCAGTCT
1 ACTCCACTGCAACTTCAGG-AGGATAAGGATTCGCCATCTT-AGTCT
* * * *
47968638 AC-CTCACTACAACTTCAGGAGGATAAGGCTT--TCTTACTTAGTCT
1 ACTC-CACTGCAACTTCAGGAGGATAAGGATTCGCCAT-CTTAGTCT
47968682 ACTCCACTGCAACTTCAGG-GAGATAAG
1 ACTCCACTGCAACTTCAGGAG-GATAAG
47968709 ACTAGATGCG
Statistics
Matches: 95, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 55 0.58
45 31 0.33
46 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
ACTCCACTGCAACTTCAGGAGGATAAGGATTCGCCATCTTAGTCT
Found at i:47968841 original size:217 final size:217
Alignment explanation
Indices: 47968460--47968854 Score: 630
Period size: 217 Copynumber: 1.8 Consensus size: 217
47968450 TGATTTCTTG
* *
47968460 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCCCAATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCAATGCGATCTGCTCTCTGCAACTTCAGAG
* *
47968525 AGATAAGATATGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAG
66 AGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
* * * *
47968590 TCTACTTCACTGCAACTTCAGGTAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
131 TATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
47968655 GGAGGATAAGGCTTTCTTACTT
196 GGAGGATAAGGCTTTCTTACTT
* * *
47968677 AGTCTACTCCACTGCAACTTCAGGGAGATAA-GACTAGATGCGATCTGCTCTTTGCAACTTTAGA
1 AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCA-ATGCGATCTGCTCTCTGCAACTTCAGA
* * *
47968741 GAGATAAGATCTGTGATTTTAATCCGCTCCACTACGACTTCAGGGAGATAGGATTATTGGCTTTA
65 GAGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTA
* *
47968806 ATATGCTCCACTGTAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCT
130 ATATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCT
47968855 TTTAAATTGC
Statistics
Matches: 161, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
216 3 0.02
217 158 0.98
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
AGTCTACTCCACTGCAACTTCAGGGAGATAAGGACCAATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
TATACTCCACTGCAACTTAAGGGAGATAAGATTCGCCATCTTCAGTCTACCTCACTACAACTTCA
GGAGGATAAGGCTTTCTTACTT
Found at i:47969252 original size:44 final size:44
Alignment explanation
Indices: 47969202--47969323 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
47969192 ATCTGCTATG
* *
47969202 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATA
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATA
*
47969246 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATA
* *
47969290 TTTAACCTATTCCACTACTG-TCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCTC-AGGGAGATAGG
47969324 GCTGGGGTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.01
44 65 0.94
45 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATA
Found at i:47969382 original size:88 final size:88
Alignment explanation
Indices: 47969323--47969636 Score: 538
Period size: 88 Copynumber: 3.6 Consensus size: 88
47969313 AGGGAGATAG
* * * **
47969323 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTATTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
47969388 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
47969411 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
47969476 TCCGCTGCAACCCAGGGAGGTAA
66 TCCACTGCAACCCAGGGAGGCAA
*
47969499 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
47969564 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
*
47969587 GGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
47969637 TTATCTTCAC
Statistics
Matches: 215, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 215 1.00
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:47969455 original size:44 final size:44
Alignment explanation
Indices: 47969400--47969631 Score: 162
Period size: 44 Copynumber: 5.3 Consensus size: 44
47969390 CACTGCAACC
*
47969400 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * * ****
47969444 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * *
47969488 CAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * * ****
47969532 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* *
47969576 CAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
47969620 CAGGAAGGCAAG
1 CAGGAAGGCAAG
47969632 ATCTGTTATC
Statistics
Matches: 126, Mismatches: 58, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 34 0.27
44 57 0.45
45 35 0.28
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:47975934 original size:16 final size:16
Alignment explanation
Indices: 47975913--47975943 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47975903 ATATAAAAAT
47975913 AAAAATAAAAATAATA
1 AAAAATAAAAATAATA
*
47975929 AAAAATAATAATAAT
1 AAAAATAAAAATAAT
47975944 GATACAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATAAAAATAATA
Found at i:47976445 original size:19 final size:19
Alignment explanation
Indices: 47976398--47976493 Score: 129
Period size: 19 Copynumber: 4.8 Consensus size: 19
47976388 AAATTAAATC
*
47976398 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
47976418 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
47976440 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
47976459 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
47976478 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
47976494 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 52 0.75
22 7 0.10
23 10 0.14
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:47987382 original size:27 final size:27
Alignment explanation
Indices: 47987336--47987412 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
47987326 GTGAGAATGA
47987336 CACTTCGGTGCAAATCAGTGATAGTGG
1 CACTTCGGTGCAAATCAGTGATAGTGG
* * *
47987363 CACTTTGGTGCAACTTAGTGATAGTGG
1 CACTTCGGTGCAAATCAGTGATAGTGG
* * * *
47987390 CACCTCGATGCAATTCAATGATA
1 CACTTCGGTGCAAATCAGTGATA
47987413 ATGTCTTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (27 bp):
CACTTCGGTGCAAATCAGTGATAGTGG
Found at i:47994863 original size:16 final size:18
Alignment explanation
Indices: 47994830--47994863 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
47994820 TAATATACAC
47994830 AAAAATTATCATAGTTTT
1 AAAAATTATCATAGTTTT
47994848 AAAAA-TATCA-AGTTTT
1 AAAAATTATCATAGTTTT
47994864 GTTGTCTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (18 bp):
AAAAATTATCATAGTTTT
Found at i:48000182 original size:27 final size:27
Alignment explanation
Indices: 48000104--48000182 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
48000094 AAGCAGTCCA
* * *
48000104 TTTAAAGTTCGCCTCAAAGGTTATTCT
1 TTTAGAGTTCACCACAAAGGTTATTCT
* * * *
48000131 TTCAGAATTCACCACAATGGCTATTCT
1 TTTAGAGTTCACCACAAAGGTTATTCT
48000158 TTTAGAGTTCACCACAAAGGTTATT
1 TTTAGAGTTCACCACAAAGGTTATT
48000183 GATCTATCGT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (27 bp):
TTTAGAGTTCACCACAAAGGTTATTCT
Found at i:48004205 original size:17 final size:18
Alignment explanation
Indices: 48004164--48004206 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48004154 CAAGATAAAA
*
48004164 ATAATTAAACAAAAATTGT
1 ATAA-TAAACAAAAATAGT
48004183 AT-ATAAAC-AAAATAGT
1 ATAATAAACAAAAATAGT
48004199 ATAATAAA
1 ATAATAAA
48004207 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 1 0.05
19 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAAACAAAAATAGT
Found at i:48005956 original size:45 final size:44
Alignment explanation
Indices: 48005843--48006348 Score: 183
Period size: 45 Copynumber: 11.7 Consensus size: 44
48005833 GGAATTGGTG
* * * *
48005843 CTTCAATCTACTCCACTGCCA-TGCCAGGGAAATAAGATTTGCTGT
1 CTTCAATCTACTCCACTGCAACT-TCAGGG-AATAAGACTTGCTAT
* *
48005888 CTTCAGTCTACTCCACCGCAACTTCATGGGAATAAGACTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCA-GGGAATAAGACTTGCTAT
* ** ** **
48005933 CTTCAATCCACTCCACTGCAACTTCAGGGAGAT-AGGGTTATTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * ** *
48005977 CTTTAATCTGCTCCACTGTAACTTCAAAGAGATAAGAC---CT-G
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * ** **
48006018 C--C-ATCTACCCCACT-CTAACTTCAGGGGGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGC-AACTTCA-GGGAATAAGACTTGCTAT
* * *
48006059 CTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGA-TTCGCCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTT-GCTAT
* * * *
48006104 ATTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAG-GGAATAAGACTTGCTAT
* * * ** **
48006149 CTTCAATCCACTCTACTGCAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * *
48006193 CTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAAGA--T-CT-T
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTTGCTAT
* * * * ** **
48006234 C--C-ATCTACCCCACTGTAACTTCAGGGGGATAGGA-TTATTGG
1 CTTCAATCTACTCCACTGCAACTTCA-GGGAATAAGACTTGCTAT
* * * * *
48006275 CTTTAATCTACTCCACTGCAACTTTAGGGAGTTAAGA-TTCACCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGA-ATAAGACTT-GCTAT
* * *
48006320 CTTCAGTCTGCCCCACTGCAACTTCAGGG
1 CTTCAATCTACTCCACTGCAACTTCAGGG
48006349 GGATAAGATC
Statistics
Matches: 339, Mismatches: 94, Indels: 56
0.69 0.19 0.11
Matches are distributed among these distances:
38 43 0.13
39 5 0.01
40 2 0.01
41 6 0.02
42 2 0.01
43 6 0.02
44 123 0.36
45 143 0.42
46 9 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAATAAGACTTGCTAT
Found at i:48006000 original size:44 final size:44
Alignment explanation
Indices: 48005937--48006305 Score: 204
Period size: 44 Copynumber: 8.6 Consensus size: 44
48005927 TGCTATCTTC
* *
48005937 AATCCACTCCACTGCAACTTCAGGGAGATAGGGTTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
* * ** *
48005981 AATCTGCTCCACTGTAACTTCAAAGAGATA-AG--ACCT-GC---
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTA-TTGGCTTT
* * *
48006019 CATCTACCCCACT-CTAACTTCAGGGGGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGC-AACTTCAGGGAGATAGAG-TTATTGGCTTT
* *
48006063 AATCTACTCCACTGCAACTTCAAGGAGATA-AG--ATTCGCCATATT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATT-GGC-T-TT
* * * * ** ** *
48006107 CAGTCTGCCCCACTGCAACTTCAGTGGA-ATAAGACTTGCTATCTTC
1 -AATCTACTCCACTGCAACTTCAG-GGAGAT-AGAGTTATTGGCTTT
* *
48006153 AATCCACTCTACTGCAACTTCAGGGAGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAG-TTATTGGCTTT
* * * *
48006197 AAGCTGCTCTACTGCAACTTCAGGGAGATA-AG--A-T--CTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
* * * *
48006235 CATCTACCCCACTGTAACTTCAGGGGGATAG-GATTATTGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAGAG-TTATTGGCTTT
*
48006279 AATCTACTCCACTGCAACTTTAGGGAG
1 AATCTACTCCACTGCAACTTCAGGGAG
48006306 TTAAGATTCA
Statistics
Matches: 236, Mismatches: 58, Indels: 62
0.66 0.16 0.17
Matches are distributed among these distances:
38 50 0.21
40 2 0.01
41 11 0.05
42 4 0.02
43 2 0.01
44 116 0.49
45 42 0.18
46 5 0.02
47 2 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAGAGTTATTGGCTTT
Found at i:48006227 original size:216 final size:216
Alignment explanation
Indices: 48005889--48006356 Score: 740
Period size: 216 Copynumber: 2.2 Consensus size: 216
48005879 ATTTGCTGTC
* * *
48005889 TTCAGTCTACTCCACCGCAACTTCA-TGGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCA
1 TTCAGTCTGCCCCACTGCAACTTCAGT-GGAATAAGACTTGCTATCTTCAATCCACTCCACTGCA
* * *
48005953 ACTTCAGGGAGATAGGGTTATTGGCTTTAATCTGCTCCACTGTAACTTCAAAGAGATAAGACCTG
65 ACTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTG
48006018 CCATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTT
130 CCATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTT
*
48006083 CAAGGAGATAAGATTCGCCATA
195 CAAGGAGATAAGATTCACCATA
*
48006105 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCTACTGCAA
1 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCAA
* ** * *
48006170 CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAAGATCTTC
66 CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTGC
* *
48006235 CATCTACCCCACTGTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTT
131 CATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
* * *
48006300 AGGGAGTTAAGATTCACCATC
196 AAGGAGATAAGATTCACCATA
* *
48006321 TTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGA
1 TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGA
48006357 TCTGTAGTTT
Statistics
Matches: 231, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 230 1.00
217 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (216 bp):
TTCAGTCTGCCCCACTGCAACTTCAGTGGAATAAGACTTGCTATCTTCAATCCACTCCACTGCAA
CTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCCACTGCAACTTCAAAGAGATAAGACCTGC
CATCTACCCCACTCTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTC
AAGGAGATAAGATTCACCATA
Found at i:48006320 original size:82 final size:82
Alignment explanation
Indices: 48006163--48006321 Score: 230
Period size: 82 Copynumber: 1.9 Consensus size: 82
48006153 AATCCACTCT
* *
48006163 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTGCTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
*
48006228 GATCTTCCATCTACCCC
66 GATCTACCATCTACCCC
* * * * *
48006245 ACTGTAACTTCAGGGGGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAGGGAGTTAA
1 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
48006310 GAT-TCACCATCT
66 GATCT-ACCATCT
48006322 TCAGTCTGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 67 0.99
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (82 bp):
ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAAGCTACTCCACTGCAACTTCAGGGAGATAA
GATCTACCATCTACCCC
Found at i:48018850 original size:17 final size:18
Alignment explanation
Indices: 48018809--48018851 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48018799 CAAGATAAAA
*
48018809 ATAATTAAACAAAAATTGT
1 ATAA-TAAACAAAAATAGT
48018828 AT-ATAAAC-AAAATAGT
1 ATAATAAACAAAAATAGT
48018844 ATAATAAA
1 ATAATAAA
48018852 AATATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 1 0.05
19 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAAACAAAAATAGT
Found at i:48020192 original size:6 final size:6
Alignment explanation
Indices: 48020181--48020216 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
48020171 GGCTAGACTA
48020181 GATTTG GATTTG GATTTGG GTATTTG GATTTG GATT
1 GATTTG GATTTG GATTT-G G-ATTTG GATTTG GATT
48020217 AATGTAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 20 0.71
7 4 0.14
8 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GATTTG
Found at i:48020227 original size:20 final size:20
Alignment explanation
Indices: 48020184--48020227 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
48020174 TAGACTAGAT
** *
48020184 TTGGATTTGGATTTGGGTAT
1 TTGGATTTGGATTAAGGTAA
*
48020204 TTGGATTTGGATTAATGTAA
1 TTGGATTTGGATTAAGGTAA
48020224 TTGG
1 TTGG
48020228 GCCACATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (20 bp):
TTGGATTTGGATTAAGGTAA
Found at i:48029228 original size:2 final size:2
Alignment explanation
Indices: 48029221--48029247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48029211 CACATTGCTT
48029221 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
48029248 TTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:48031855 original size:114 final size:113
Alignment explanation
Indices: 48031687--48031956 Score: 271
Period size: 114 Copynumber: 2.4 Consensus size: 113
48031677 TTCTATGCTT
* *
48031687 CTTTCATTTCTTTAGTGGCGCTTTTAAAAAAAT-GCCGCAATAGAACATGATTTAGCGGCGC-AA
1 CTTTCATTTCTTTAGTGGCGC-TTTAATAAAATCGCCGCAATAGAACAGGATTTAGCGGCGCTAA
* * *
48031750 TATAGAAAACGCCGCAAAAGAATTTGAGCTAA-ACGGCTTCGTTTTTTTTTC
65 TATAG-AAACGCCGCAAAAGAATTTCAG-TAATACGACTTCG-TTTTATTTC
* ** * * *
48031801 CTTTTATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAG-ATGGGCCTTTAGCTGCGCTTA
1 CTTTCATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAGAACAGG-ATTTAGCGGCGCTAA
* * *
48031865 TGTAGAAATGCCGCAAAATAATTTCAGTAATACGACTTCGTTTTATTTC
65 TATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
* * * * *
48031914 CATTTGATTTTTTTTGTGGCGC-TTACTAACAAACGCCGCAATA
1 C-TTTCATTTCTTTAGTGGCGCTTTAATAA-AATCGCCGCAATA
48031957 TAACGCTCTT
Statistics
Matches: 131, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
113 30 0.23
114 96 0.73
115 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (113 bp):
CTTTCATTTCTTTAGTGGCGCTTTAATAAAATCGCCGCAATAGAACAGGATTTAGCGGCGCTAAT
ATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
Found at i:48032414 original size:27 final size:27
Alignment explanation
Indices: 48032376--48032429 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48032366 TATTATTTTG
*
48032376 TGATTAGAGTTTTGAGTTTAGGGTTTA
1 TGATTAGAGTTTAGAGTTTAGGGTTTA
* *
48032403 TGATGTAG-GTTTAGTGTTTTGGGTTTA
1 TGAT-TAGAGTTTAGAGTTTAGGGTTTA
48032430 GGGTTTGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
TGATTAGAGTTTAGAGTTTAGGGTTTA
Found at i:48032444 original size:21 final size:20
Alignment explanation
Indices: 48032420--48032474 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
48032410 GGTTTAGTGT
*
48032420 TTTGGGTTTAGGGTTTGGGAG
1 TTTGGGTTTAGGATTTGGG-G
*
48032441 TTTGAGGTTTAAGATTTGGGG
1 TTTG-GGTTTAGGATTTGGGG
48032462 TTTGGGGTTTAGG
1 TTT-GGGTTTAGG
48032475 CCACTTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (20 bp):
TTTGGGTTTAGGATTTGGGG
Found at i:48034627 original size:45 final size:44
Alignment explanation
Indices: 48034576--48034679 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
48034566 TTTGAAAACT
*
48034576 ATGTTAAGCTATGTTAAAC-A-TTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAA--ACA-TTTTGA
*
48034621 ATGTTAAGCTATGTTAAGCTATGTTTTGAATGTTAAACATTTTGA
1 ATGTTAAGCTATGTTAAACTA-GTTTTGAATGTTAAACATTTTGA
48034666 ATGTTAAGCATATG
1 ATGTTAAGC-TATG
48034680 AGTTTCTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
45 33 0.62
46 7 0.13
48 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (44 bp):
ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAAACATTTTGA
Found at i:48034636 original size:10 final size:10
Alignment explanation
Indices: 48034621--48034645 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48034611 ATAGTTTTGA
48034621 ATGTTAAGCT
1 ATGTTAAGCT
48034631 ATGTTAAGCT
1 ATGTTAAGCT
48034641 ATGTT
1 ATGTT
48034646 TTGAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
ATGTTAAGCT
Found at i:48035029 original size:14 final size:14
Alignment explanation
Indices: 48035009--48035065 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
48034999 AGCGTATTTA
48035009 ATATTATTGATATT
1 ATATTATTGATATT
* *
48035023 TTATTATT--T-TA
1 ATATTATTGATATT
48035034 ATATTATTGATATT
1 ATATTATTGATATT
*
48035048 ATATTATTTAT-TT
1 ATATTATTGATATT
48035061 ATATT
1 ATATT
48035066 TTCAGCGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 8 0.23
12 1 0.03
13 8 0.23
14 18 0.51
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (14 bp):
ATATTATTGATATT
Found at i:48035039 original size:25 final size:25
Alignment explanation
Indices: 48035005--48035056 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
48034995 TTTCAGCGTA
*
48035005 TTTAATATTATTGATATTTTATTAT
1 TTTAATATTATTGATATTATATTAT
48035030 TTTAATATTATTGATATTATATTAT
1 TTTAATATTATTGATATTATATTAT
48035055 TT
1 TT
48035057 ATTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAATATTATTGATATTATATTAT
Found at i:48035871 original size:9 final size:9
Alignment explanation
Indices: 48035857--48036236 Score: 147
Period size: 9 Copynumber: 44.4 Consensus size: 9
48035847 ACTATCACAT
48035857 CTTACATAA
1 CTTACATAA
*
48035866 CTTACATAG
1 CTTACATAA
*
48035875 CTTA-ATTA
1 CTTACATAA
*
48035883 --TACTTAA
1 CTTACATAA
*
48035890 CTTACATTA
1 CTTACATAA
*
48035899 --TACACAA
1 CTTACATAA
48035906 CTTACATAA
1 CTTACATAA
*
48035915 CTTTCATTATACA
1 C-TT-A-CATA-A
*
48035928 CATACATAA
1 CTTACATAA
48035937 CTTACATATA
1 CTTACATA-A
*
48035947 -ATACATAA
1 CTTACATAA
*
48035955 CTTGCATAA
1 CTTACATAA
* *
48035964 TTTTCAT-A
1 CTTACATAA
*
48035972 -GTACATAA
1 CTTACATAA
48035980 CTTACATAA
1 CTTACATAA
*
48035989 --TA-TTGAA
1 CTTACAT-AA
48035996 CTTACATAA
1 CTTACATAA
* *
48036005 TTTTCATAA
1 CTTACATAA
48036014 --TACATAA
1 CTTACATAA
* *
48036021 GTTACTTAA
1 CTTACATAA
* *
48036030 TTTTCATAA
1 CTTACATAA
* *
48036039 --TAAAAAA
1 CTTACATAA
48036046 CTTACATAA
1 CTTACATAA
48036055 CTTACATAA
1 CTTACATAA
* *
48036064 TTTTCATAA
1 CTTACATAA
48036073 CTTACATAA
1 CTTACATAA
48036082 CTT--AT-A
1 CTTACATAA
* *
48036088 CAGTACATAG
1 C-TTACATAA
48036098 CTTACATAA
1 CTTACATAA
* *
48036107 TTTTCATAA
1 CTTACATAA
48036116 --TACATAA
1 CTTACATAA
48036123 CTTACATAA
1 CTTACATAA
48036132 -TTGATCATAA
1 CTT-A-CATAA
48036142 --TACA-ACA
1 CTTACATA-A
48036149 CTTACATAA
1 CTTACATAA
*
48036158 -TT-CACAA
1 CTTACATAA
48036165 CTTACATAA
1 CTTACATAA
*
48036174 -TATTCATAA
1 CT-TACATAA
48036183 --TACATAA
1 CTTACATAA
48036190 CTTACATAA
1 CTTACATAA
* *
48036199 TTTTCATAA
1 CTTACATAA
*
48036208 --TAAATAA
1 CTTACATAA
48036215 CTTACATAA
1 CTTACATAA
*
48036224 CTTACATAG
1 CTTACATAA
48036233 CTTA
1 CTTA
48036237 ATTATACTTA
Statistics
Matches: 274, Mismatches: 57, Indels: 80
0.67 0.14 0.19
Matches are distributed among these distances:
6 6 0.02
7 52 0.19
8 13 0.05
9 181 0.66
10 14 0.05
11 2 0.01
12 4 0.01
13 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (9 bp):
CTTACATAA
Found at i:48035922 original size:25 final size:25
Alignment explanation
Indices: 48035887--48035988 Score: 95
Period size: 25 Copynumber: 4.1 Consensus size: 25
48035877 TAATTATACT
48035887 TAACTTACATTATACACAACTTACA
1 TAACTTACATTATACACAACTTACA
*
48035912 TAACTTTCATTATACAC-A--TACA
1 TAACTTACATTATACACAACTTACA
* *
48035934 TAACTTACATATAATACATAACTTGCA
1 TAACTTACAT-T-ATACACAACTTACA
* * *
48035961 TAATTTTCA-TAGTACATAACTTACA
1 TAACTTACATTA-TACACAACTTACA
48035986 TAA
1 TAA
48035989 TATTGAACTT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
22 13 0.20
23 1 0.02
24 7 0.11
25 33 0.52
27 10 0.16
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (25 bp):
TAACTTACATTATACACAACTTACA
Found at i:48036004 original size:41 final size:41
Alignment explanation
Indices: 48035929--48036199 Score: 178
Period size: 41 Copynumber: 6.4 Consensus size: 41
48035919 CATTATACAC
*
48035929 ATACATAACTTACATATAATACATAACTTGCATAATTTTCATA
1 ATACATAACTTAC--ATAATACATAACTTACATAATTTTCATA
* *
48035972 GTACATAACTTACATAATA-TTGAACTTACATAATTTTCATA
1 ATACATAACTTACATAATACAT-AACTTACATAATTTTCATA
* * * * * * *
48036013 ATACATAAGTTACTTAATTTTCATAA--TAAAAAACTTACATA
1 ATACATAACTTACATAA--TACATAACTTACATAATTTTCATA
* * * *
48036054 ACTTACATAATTTTCATAACTTACATAACTT--ATACA-GTACATA
1 A--TACATAACTTACATAA--TACATAACTTACATA-ATTTTCATA
* * * *
48036097 GCTTACATAATTTTCATAATACATAACTTACATAATTGATCATA
1 --ATACATAACTTACATAATACATAACTTACATAATT-TTCATA
* * *
48036141 ATACA-ACACTTACATAATTCACAACTTACATAATATTCATA
1 ATACATA-ACTTACATAATACATAACTTACATAATTTTCATA
48036182 ATACATAACTTACATAAT
1 ATACATAACTTACATAAT
48036200 TTTCATAATA
Statistics
Matches: 181, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 82 0.45
42 29 0.16
43 62 0.34
44 6 0.03
45 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.37
Consensus pattern (41 bp):
ATACATAACTTACATAATACATAACTTACATAATTTTCATA
Found at i:48036081 original size:43 final size:41
Alignment explanation
Indices: 48036034--48036124 Score: 103
Period size: 43 Copynumber: 2.2 Consensus size: 41
48036024 ACTTAATTTT
*
48036034 CATAA-TAAAAAACTTACATAACTTACATAATTTTCATAACTTA
1 CATAACTAAAAAA-GTACATAACTTACATAATTTTCATAA--TA
* * * *
48036077 CATAACTTATACAGTACATAGCTTACATAATTTTCATAATA
1 CATAACTAAAAAAGTACATAACTTACATAATTTTCATAATA
48036118 CATAACT
1 CATAACT
48036125 TACATAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.21
43 29 0.69
44 4 0.10
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (41 bp):
CATAACTAAAAAAGTACATAACTTACATAATTTTCATAATA
Found at i:48036119 original size:16 final size:16
Alignment explanation
Indices: 48035857--48036223 Score: 99
Period size: 16 Copynumber: 22.6 Consensus size: 16
48035847 ACTATCACAT
*
48035857 CTTACATAACTTACATAG
1 CTTACATAA--TACATAA
* *
48035875 CTTA-ATTATACTTAA
1 CTTACATAATACATAA
* *
48035890 CTTACATTATACACAA
1 CTTACATAATACATAA
* *
48035906 CTTACATAACTTTCATTA
1 CTTACATAA--TACATAA
*
48035924 --TACA-CATACATAA
1 CTTACATAATACATAA
48035937 CTTACATATAATACATAA
1 CTTAC--ATAATACATAA
*
48035955 CTTGCATAAT---T--
1 CTTACATAATACATAA
*
48035966 -TT-CATAGTACATAA
1 CTTACATAATACATAA
*
48035980 CTTACATAATA-TTGAA
1 CTTACATAATACAT-AA
*
48035996 CTTACATAATTTTCATAA
1 CTTACATAA--TACATAA
*
48036014 --TACATAAGTTACTTAA
1 CTTACATAA--TACATAA
* * * *
48036030 TTTTCATAATAAAAAA
1 CTTACATAATACATAA
48036046 CTTACATAACTTACATAA
1 CTTACATAA--TACATAA
* *
48036064 TTTTCATAACTTACATAA
1 CTTACATAA--TACATAA
* * * *
48036082 CTTATACAGTACATAG
1 CTTACATAATACATAA
*
48036098 CTTACATAATTTTCATAA
1 CTTACATAA--TACATAA
48036116 --TACATAACTTACATAA
1 CTTACATAA--TACATAA
48036132 -TTGATCATAATACA-ACA
1 CTT-A-CATAATACATA-A
* *
48036149 CTTACATAATTCACAA
1 CTTACATAATACATAA
48036165 CTTACATAATATTCATAA
1 CTTACATAATA--CATAA
48036183 --TACATAACTTACATAA
1 CTTACATAA--TACATAA
* * *
48036199 TTTTCATAATAAATAA
1 CTTACATAATACATAA
48036215 CTTACATAA
1 CTTACATAA
48036224 CTTACATAGC
Statistics
Matches: 260, Mismatches: 52, Indels: 76
0.67 0.13 0.20
Matches are distributed among these distances:
9 5 0.02
10 2 0.01
12 1 0.00
13 6 0.02
15 16 0.06
16 138 0.53
17 12 0.05
18 74 0.28
19 6 0.02
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (16 bp):
CTTACATAATACATAA
Found at i:48036151 original size:26 final size:25
Alignment explanation
Indices: 48035973--48036159 Score: 159
Period size: 25 Copynumber: 7.4 Consensus size: 25
48035963 ATTTTCATAG
*
48035973 TACATAACTTA-CATAATA-TTGAACT
1 TACATAA-TTATCATAATACAT-AACT
* *
48035998 TACATAATTTTCATAATACATAAGT
1 TACATAATTATCATAATACATAACT
* * * *
48036023 TACTTAATTTTCATAATAAAAAACT
1 TACATAATTATCATAATACATAACT
*
48036048 TACATAACTTA-CATAATTTTCATAACT
1 TACATAA-TTATCATAA--TACATAACT
* * *
48036075 TACATAACTTAT-ACAGTACATAGCT
1 TACATAA-TTATCATAATACATAACT
*
48036100 TACATAATTTTCATAATACATAACT
1 TACATAATTATCATAATACATAACT
48036125 TACATAATTGATCATAATACA-ACACT
1 TACATAATT-ATCATAATACATA-ACT
48036151 TACATAATT
1 TACATAATT
48036160 CACAACTTAC
Statistics
Matches: 132, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.04
25 83 0.63
26 25 0.19
27 19 0.14
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (25 bp):
TACATAATTATCATAATACATAACT
Found at i:48036181 original size:25 final size:25
Alignment explanation
Indices: 48036153--48036223 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
48036143 ACAACACTTA
* *
48036153 CATAATTCACAACTTACATAATATT
1 CATAATACATAACTTACATAATATT
*
48036178 CATAATACATAACTTACATAATTTT
1 CATAATACATAACTTACATAATATT
*
48036203 CATAATAAATAACTTACATAA
1 CATAATACATAACTTACATAA
48036224 CTTACATAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (25 bp):
CATAATACATAACTTACATAATATT
Found at i:48041661 original size:21 final size:20
Alignment explanation
Indices: 48041632--48041683 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
48041622 GCTACAACTT
*
48041632 AAAGAAGAGGCGGCAGCGAGG
1 AAAGCAGAGGCGGCAGCGA-G
*
48041653 AAAGCAGAGGCTGCAGCGAG
1 AAAGCAGAGGCGGCAGCGAG
48041673 AGAAGCAGAGG
1 A-AAGCAGAGG
48041684 TTCAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.38, C:0.15, G:0.44, T:0.02
Consensus pattern (20 bp):
AAAGCAGAGGCGGCAGCGAG
Found at i:48042207 original size:43 final size:43
Alignment explanation
Indices: 48042078--48042260 Score: 156
Period size: 43 Copynumber: 4.3 Consensus size: 43
48042068 TCATGTTCTA
* * * * **
48042078 TAGCGGCGTTTGTGGAAAAAATCGCCGCTAAAGAACATTATTTT
1 TAGCGGCGTTTGTTG-TAAAAGCGCCGCTAAAGAACATGACCTT
* * * * *
48042122 TAGCTGCATTTG-TGGAGAAAGGGCCGCTAAATG-TCATGACCTT
1 TAGCGGCGTTTGTTGTA-AAAGCGCCGCTAAA-GAACATGACCTT
* * *
48042165 TAGCAGCGTTTGTTGTAAAAGCGCCGCTAAAGAATATTACCTT
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
* * **
48042208 TAGTGGCGTTT-TTTTTGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
48042250 TAGCGGCGTTT
1 TAGCGGCGTTT
48042261 ATTTCTGTAA
Statistics
Matches: 110, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
42 38 0.35
43 58 0.53
44 14 0.13
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:48044490 original size:16 final size:15
Alignment explanation
Indices: 48044452--48044497 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
48044442 ATCATTAAGG
48044452 TTTAAT-TTTATATAT
1 TTTAATATTTAT-TAT
48044467 TTTAATATTTATTAT
1 TTTAATATTTATTAT
48044482 TTTACATATTTATTAT
1 TTTA-ATATTTATTAT
48044498 ACATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATATTTATTAT
Found at i:48044642 original size:47 final size:47
Alignment explanation
Indices: 48044584--48044676 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
48044574 ACATACAAAA
*
48044584 ATTATTATTTACTTTTCCTGTTAATAAAATTTTAATATAAATATGCT
1 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
48044631 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
1 ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGC
48044677 AAGACTAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (47 bp):
ATTATTATTTACTTTTCCTATTAATAAAATTTTAATATAAATATGCT
Found at i:48046758 original size:6 final size:6
Alignment explanation
Indices: 48046743--48046772 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
48046733 TGGAGTTAGG
*
48046743 ATCTGA ATCTGT ATCTGT ATCTGT ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
48046773 TTTGCATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
ATCTGT
Found at i:48048874 original size:9 final size:9
Alignment explanation
Indices: 48048862--48048900 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
48048852 TCAATTCAGT
*
48048862 TAATTAGGG
1 TAATTCGGG
48048871 TAATTCGGG
1 TAATTCGGG
*
48048880 TAATTCGGT
1 TAATTCGGG
48048889 TAATTCGGG
1 TAATTCGGG
48048898 TAA
1 TAA
48048901 GTCAGCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:48048910 original size:18 final size:18
Alignment explanation
Indices: 48048871--48048911 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
48048861 TTAATTAGGG
* * *
48048871 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAAGTCAGC
48048889 TAATTCGGGTAAGTCAGC
1 TAATTCGGGTAAGTCAGC
48048907 TAATT
1 TAATT
48048912 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (18 bp):
TAATTCGGGTAAGTCAGC
Found at i:48048910 original size:27 final size:27
Alignment explanation
Indices: 48048854--48048911 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
48048844 GTAGTGATTC
* * *
48048854 AATTCAGTTAATTAGGGTAATTCGGGT
1 AATTCAGTTAATTAGGGTAAGTCAGCT
* *
48048881 AATTCGGTTAATTCGGGTAAGTCAGCT
1 AATTCAGTTAATTAGGGTAAGTCAGCT
48048908 AATT
1 AATT
48048912 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (27 bp):
AATTCAGTTAATTAGGGTAAGTCAGCT
Found at i:48051721 original size:62 final size:58
Alignment explanation
Indices: 48051617--48051743 Score: 182
Period size: 62 Copynumber: 2.1 Consensus size: 58
48051607 ATCACTTTAA
* * *
48051617 TATTAAATTAGTATAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAATTAAATTTAATATTAAATC
*
48051675 TTATTAAATTAGTAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAATC
1 -TATTAAATTAGTAGAATACTTA--TA-AAGATAAACATTAAATTAAATTTAATATTAAATC
48051737 TATTAAA
1 TATTAAA
48051744 ATAATATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 20 0.33
61 9 0.15
62 32 0.52
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (58 bp):
TATTAAATTAGTAGAATACTTATAAAGATAAACATTAAATTAAATTTAATATTAAATC
Found at i:48055871 original size:3 final size:3
Alignment explanation
Indices: 48055863--48055908 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
48055853 GTAGACAGGG
48055863 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48055909 GTAGGGGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48056595 original size:22 final size:23
Alignment explanation
Indices: 48056570--48056629 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
48056560 AATTTGATAC
* *
48056570 AATTTTAATAACAAT-TAATTTT
1 AATTTTAATAAAAATAGAATTTT
48056592 AATTTTAATAAAAATAGAATTTT
1 AATTTTAATAAAAATAGAATTTT
*
48056615 AGTTTTAATTAAAAA
1 AATTTTAA-TAAAAA
48056630 ACGGCCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 14 0.42
23 13 0.39
24 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTTTAATAAAAATAGAATTTT
Found at i:48062120 original size:19 final size:20
Alignment explanation
Indices: 48062098--48062135 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48062088 GGGCAAACTT
*
48062098 TTAATTAAAT-AAATAAAAC
1 TTAAATAAATAAAATAAAAC
48062117 TTAAATAAATAAAATAAAA
1 TTAAATAAATAAAATAAAA
48062136 ATAATGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAATAAATAAAATAAAAC
Found at i:48062122 original size:15 final size:15
Alignment explanation
Indices: 48062102--48062130 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48062092 AAACTTTTAA
48062102 TTAAATAAATAAAAC
1 TTAAATAAATAAAAC
48062117 TTAAATAAATAAAA
1 TTAAATAAATAAAA
48062131 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAATAAATAAAAC
Found at i:48063113 original size:40 final size:40
Alignment explanation
Indices: 48063056--48063280 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
48063046 GAAAATTTCT
* *
48063056 CTGAATGCATATACGTGCCCTTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * **
48063096 CTGAATGCAAATGCGTGCCCCTGTTTGTACTTCGGTATTC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
48063136 CTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
48063176 CTAAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
48063216 CTGAATGCACATATGTGCCCCTATTTGTACTTCGGTATCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
48063256 TTAAATGCACATGCATGCCCCTGTT
1 CTGAATGCACATACGTGCCCCTGTT
48063281 CTGCATCTAT
Statistics
Matches: 157, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:48063272 original size:120 final size:120
Alignment explanation
Indices: 48063059--48063280 Score: 374
Period size: 120 Copynumber: 1.9 Consensus size: 120
48063049 AATTTCTCTG
* * *
48063059 AATGCATATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATGCGTGCCCCTGTTTGT
1 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
*
48063124 ACTTCGGTATTCCTGAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
66 ACTTCGGTATTCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
* *
48063179 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTGT
1 AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
48063244 ACTTCGGTA-TCCTTAAATGCACATGCATGCCCCTGTT
66 ACTTCGGTATTCC-TAAATGCACATGCATGCCCCTGTT
48063281 CTGCATCTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.03
120 92 0.97
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (120 bp):
AATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCAAATACGTGCCCCTATTTGT
ACTTCGGTATTCCTAAATGCACATGCATGCCCCTGTTTGTACTTTGATACCCCTA
Found at i:48067185 original size:20 final size:20
Alignment explanation
Indices: 48067132--48067187 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
48067122 CTAGTATTTC
*
48067132 AGACAAGATGCCAGTATTGT
1 AGACAAGCTGCCAGTATTGT
* **
48067152 GGACAAGCCACCAG-AGTTGT
1 AGACAAGCTGCCAGTA-TTGT
48067172 AGACAAGCTGCCAGTA
1 AGACAAGCTGCCAGTA
48067188 CTTCCTCCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (20 bp):
AGACAAGCTGCCAGTATTGT
Found at i:48068718 original size:16 final size:16
Alignment explanation
Indices: 48068697--48068750 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
48068687 TTTGGTTCGC
48068697 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
48068713 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
*
48068729 TGTAATGGAACAGAGG
1 TGTAATGGAATAGAGG
*
48068745 CGTAAT
1 TGTAAT
48068751 AGTAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:48069115 original size:14 final size:14
Alignment explanation
Indices: 48069072--48069115 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
48069062 TAATACTATA
48069072 AAATATAATTTAA-
1 AAATATAATTTAAT
*
48069085 AAATAATAA-TTATT
1 AAAT-ATAATTTAAT
48069099 AAATATAATTTAAT
1 AAATATAATTTAAT
48069113 AAA
1 AAA
48069116 ATTATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATATAATTTAAT
Found at i:48078571 original size:14 final size:14
Alignment explanation
Indices: 48078552--48078583 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48078542 CATCGATGAA
*
48078552 GACCACGATGAGCT
1 GACCACGACGAGCT
48078566 GACCACGACGAGCT
1 GACCACGACGAGCT
48078580 GACC
1 GACC
48078584 TAGATACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.09
Consensus pattern (14 bp):
GACCACGACGAGCT
Found at i:48082447 original size:26 final size:26
Alignment explanation
Indices: 48082379--48082456 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
48082369 AACACAACTC
* *
48082379 TTATGAGCGTCTCGATATATA-GCTCT
1 TTATGAGCTTCTCGAT-TAAAGGCTCT
*
48082405 TTGTGAGCTTCTCGATTAAAGGCTCT
1 TTATGAGCTTCTCGATTAAAGGCTCT
* *
48082431 TTATGAGTTTC-CTGATTAATGGCTCT
1 TTATGAGCTTCTC-GATTAAAGGCTCT
48082457 CCGAAGCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (26 bp):
TTATGAGCTTCTCGATTAAAGGCTCT
Found at i:48090380 original size:3 final size:3
Alignment explanation
Indices: 48090372--48090412 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
48090362 GAAGGAAGAG
* * *
48090372 GAT GAT GAT GAT GAT GAT GAT AAT GAT GAG GAT GAG GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
48090413 GACCTTGGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:48093718 original size:5 final size:5
Alignment explanation
Indices: 48093710--48093754 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
48093700 AGTTTCCCTT
48093710 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
1 CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA CCATA
48093755 ATCATGCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CCATA
Found at i:48096438 original size:54 final size:54
Alignment explanation
Indices: 48096364--48096473 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
48096354 TCGTCTTAAT
* *
48096364 TGTTGGAATACTGCTTCTTTTGAAT-ATATATTTTTATGTTTAAATCAATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCAT-TATTTATATGTTTAAATCAACTGTTA
* * *
48096418 TGTTGGAATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGACTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATC-ATTATTTATATGTTTAAATCAACTGTTA
48096473 T
1 T
48096474 ATAGCACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 24 0.49
55 23 0.47
56 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (54 bp):
TGTTGGAATACTGCTTCTTTTGAATCATTATTTATATGTTTAAATCAACTGTTA
Found at i:48101761 original size:9 final size:9
Alignment explanation
Indices: 48101739--48101792 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
48101729 TGGTTAAAAA
48101739 TTAACCGA-
1 TTAACCGAT
48101747 TTAACCGAT
1 TTAACCGAT
48101756 TTAACCGAT
1 TTAACCGAT
48101765 TTAACCGA-
1 TTAACCGAT
*
48101773 TTAATCGAT
1 TTAACCGAT
48101782 TTAACCGAT
1 TTAACCGAT
48101791 TT
1 TT
48101793 TCTATATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
8 15 0.36
9 27 0.64
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (9 bp):
TTAACCGAT
Found at i:48101761 original size:17 final size:17
Alignment explanation
Indices: 48101738--48101791 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
48101728 TTGGTTAAAA
48101738 ATTAACCGA-TTAACCG
1 ATTAACCGATTTAACCG
48101754 ATTTAACCGATTTAACCG
1 A-TTAACCGATTTAACCG
*
48101772 ATTAATCGATTTAACCG
1 ATTAACCGATTTAACCG
48101789 ATT
1 ATT
48101792 TTCTATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 1 0.03
17 26 0.74
18 8 0.23
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (17 bp):
ATTAACCGATTTAACCG
Found at i:48101768 original size:26 final size:26
Alignment explanation
Indices: 48101739--48101792 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
48101729 TGGTTAAAAA
48101739 TTAACCGATTAACCGATTTAACCGAT
1 TTAACCGATTAACCGATTTAACCGAT
*
48101765 TTAACCGATTAATCGATTTAACCGAT
1 TTAACCGATTAACCGATTTAACCGAT
48101791 TT
1 TT
48101793 TCTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (26 bp):
TTAACCGATTAACCGATTTAACCGAT
Found at i:48101809 original size:17 final size:18
Alignment explanation
Indices: 48101789--48101830 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
48101779 GATTTAACCG
48101789 ATTTT-CTATATAATGTT
1 ATTTTGCTATATAATGTT
48101806 ATTTTATTGCTATATAATGTT
1 A--TT-TTGCTATATAATGTT
48101827 ATTT
1 ATTT
48101831 AACCGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 1 0.05
18 1 0.05
19 4 0.19
20 2 0.10
21 13 0.62
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTGCTATATAATGTT
Found at i:48102467 original size:13 final size:13
Alignment explanation
Indices: 48102445--48102474 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48102435 TTGTTAGAGA
*
48102445 TTTAGTCTTTAGT
1 TTTAGACTTTAGT
48102458 TTTAGACTTTAGT
1 TTTAGACTTTAGT
48102471 TTTA
1 TTTA
48102475 TTGGATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
TTTAGACTTTAGT
Found at i:48102529 original size:44 final size:44
Alignment explanation
Indices: 48102460--48102622 Score: 229
Period size: 44 Copynumber: 3.5 Consensus size: 44
48102450 TCTTTAGTTT
48102460 TAGACTTTAGTTTTATTG-GATTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAG-TTTATTGAG-TTGGTAAATGGTAATTGGGTTTGGG
48102505 TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
*
48102549 TAGACTTTAGTTTATTGGGTTGGTACTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTA-----TT-G-AGTTGGTAAATGGTAATTGGGTTTGGG
48102600 TAGACTTTAGTTTATTGAGTTGG
1 TAGACTTTAGTTTATTGAGTTGG
48102623 GTAATTGAGT
Statistics
Matches: 108, Mismatches: 2, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
44 51 0.47
45 12 0.11
46 2 0.02
49 2 0.02
50 1 0.01
51 40 0.37
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.44
Consensus pattern (44 bp):
TAGACTTTAGTTTATTGAGTTGGTAAATGGTAATTGGGTTTGGG
Done.