Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 20 of 144
Found at i:5900868 original size:11 final size:11
Alignment explanation
Indices: 5900848--5900924 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
5900838 AGATAAATGT
*
5900848 TATTTAATTAA
1 TATTTTATTAA
5900859 TATTTTATTAA
1 TATTTTATTAA
* *
5900870 GATTTTTAGTATTA
1 TA-TTTTA-T-TAA
*
5900884 TTTTATTATTAA
1 TATT-TTATTAA
*
5900896 TTATTTGATTAA
1 -TATTTTATTAA
5900908 TATTTTATTAA
1 TATTTTATTAA
*
5900919 GATTTT
1 TATTTT
5900925 TAGTGTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
11 26 0.51
12 13 0.25
13 7 0.14
14 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:5900885 original size:23 final size:23
Alignment explanation
Indices: 5900859--5900940 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
5900849 ATTTAATTAA
5900859 TATTTTATTAAGATTTTTAGTAT
1 TATTTTATTAAGATTTTTAGTAT
* *
5900882 TATTTTATTATTA-ATTATTTGATTAA
1 TATTTTATTA--AGATT-TTT-AGTAT
*
5900908 TATTTTATTAAGATTTTTAGTGT
1 TATTTTATTAAGATTTTTAGTAT
*
5900931 TATTGTATTA
1 TATTTTATTA
5900941 TTAAATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
23 21 0.44
24 7 0.15
25 7 0.15
26 13 0.27
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TATTTTATTAAGATTTTTAGTAT
Found at i:5900892 original size:26 final size:26
Alignment explanation
Indices: 5900863--5900944 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
5900853 AATTAATATT
5900863 TTATTAAGATTTTTAGTATTATTTTA
1 TTATTAAGATTTTTAGTATTATTTTA
*
5900889 TTATT-A-ATTATTT-G-ATTAATATT-
1 TTATTAAGATT-TTTAGTATT-ATTTTA
* *
5900912 TTATTAAGATTTTTAGTGTTATTGTA
1 TTATTAAGATTTTTAGTATTATTTTA
5900938 TTATTAA
1 TTATTAA
5900945 ATGATTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
23 8 0.18
24 12 0.27
25 11 0.24
26 14 0.31
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (26 bp):
TTATTAAGATTTTTAGTATTATTTTA
Found at i:5900907 original size:49 final size:49
Alignment explanation
Indices: 5900847--5900944 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
5900837 TAGATAAATG
*
5900847 TTATTTAATTAATATTTTATTAAGATTTTTAGTATTATTTTATTATTAA
1 TTATTTAATTAATATTTTATTAAGATTTTTAGTATTATTGTATTATTAA
* *
5900896 TTATTTGATTAATATTTTATTAAGATTTTTAGTGTTATTGTATTATTAA
1 TTATTTAATTAATATTTTATTAAGATTTTTAGTATTATTGTATTATTAA
5900945 ATGATTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (49 bp):
TTATTTAATTAATATTTTATTAAGATTTTTAGTATTATTGTATTATTAA
Found at i:5906859 original size:23 final size:23
Alignment explanation
Indices: 5906833--5906877 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5906823 ATTTTAGCAC
5906833 ATCAAAGCATTAATATCTTCCCT
1 ATCAAAGCATTAATATCTTCCCT
*
5906856 ATCAAAGCATTAATGTCTTCCC
1 ATCAAAGCATTAATATCTTCCC
5906878 AATTTGTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (23 bp):
ATCAAAGCATTAATATCTTCCCT
Found at i:5915038 original size:121 final size:121
Alignment explanation
Indices: 5914824--5915071 Score: 469
Period size: 121 Copynumber: 2.0 Consensus size: 121
5914814 AGGGAGAGAG
*
5914824 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGTTGTACTTTTTCTTTTCACTATAACTAGGAA
1 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGCTGTACTTTTTCTTTTCACTATAACTAGGAA
*
5914889 AGAACCATGGCTTTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
66 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
5914945 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGCTGTACTTTTTCTTTTCACTATAACTAGGAA
1 TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGCTGTACTTTTTCTTTTCACTATAACTAGGAA
*
5915010 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGGTGAGCTATTTTGC
66 AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
5915066 TTGTTT
1 TTGTTT
5915072 CTGGTTAGAA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (121 bp):
TTGTTTATTTCAAGAATAGGCTGGACCTACCCTGCTGTACTTTTTCTTTTCACTATAACTAGGAA
AGAACCATGGCATTTCAAAATTCATTGCTATCCATGGAACAGATGAGCTATTTTGC
Found at i:5925489 original size:18 final size:18
Alignment explanation
Indices: 5925457--5925491 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5925447 AACGAATAAA
5925457 ATAACAAATTAAAAATAT
1 ATAACAAATTAAAAATAT
5925475 ATAA-AAATTATAAAATA
1 ATAACAAATTA-AAAATA
5925492 ATTTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAACAAATTAAAAATAT
Found at i:5925610 original size:22 final size:23
Alignment explanation
Indices: 5925560--5925610 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
5925550 AATTTATCGA
*
5925560 ATGAT-TTTAAATATATATATAT
1 ATGATATTTAAATATATATATAG
*
5925582 ATAATATTTAAAT-T-TACTATAG
1 ATGATATTTAAATATATA-TATAG
5925604 ATGATAT
1 ATGATAT
5925611 ACATATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (23 bp):
ATGATATTTAAATATATATATAG
Found at i:5931733 original size:15 final size:17
Alignment explanation
Indices: 5931706--5931740 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
5931696 AATTTCAGTA
5931706 ATTATTGTTATTTC-TC
1 ATTATTGTTATTTCTTC
5931722 ATTATT-TTATTTCTTC
1 ATTATTGTTATTTCTTC
5931738 ATT
1 ATT
5931741 TATCTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTATTGTTATTTCTTC
Found at i:5948998 original size:9 final size:9
Alignment explanation
Indices: 5948986--5949053 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
5948976 AAATAAAAAA
5948986 AATTCGGGT
1 AATTCGGGT
5948995 AATTCGGGT
1 AATTCGGGT
*
5949004 ATTTTTC-GGT
1 A--ATTCGGGT
**
5949014 AATTCGCTT
1 AATTCGGGT
*
5949023 AATTCGGTT
1 AATTCGGGT
5949032 AATTCGGGT
1 AATTCGGGT
5949041 AATTCGGGT
1 AATTCGGGT
5949050 AATT
1 AATT
5949054 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:5964410 original size:5 final size:5
Alignment explanation
Indices: 5964400--5964443 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
5964390 AAGAATTAAG
5964400 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
5964444 ATGTGTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:5964789 original size:40 final size:39
Alignment explanation
Indices: 5964672--5964800 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 39
5964662 TGAGACATTG
*
5964672 GGTGTCAAATTATTACTTCGAATATATTCGATGAGGCACT
1 GGTGTCAAATTATTACTTCGAAT-TATCCGATGAGGCACT
* ** * * *
5964712 AGGTG-CCAA-T-TTACTTCGGTTTAGCTGATGAGACACT
1 -GGTGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
*
5964749 GGATGTCAAATTATTACTTCGAATTATCCGATAAGGCACT
1 GG-TGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
*
5964789 GGGTGCCAAATT
1 -GGTGTCAAATT
5964801 GGTGTGTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
36 2 0.03
37 14 0.21
38 12 0.18
39 2 0.03
40 32 0.47
41 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
GGTGTCAAATTATTACTTCGAATTATCCGATGAGGCACT
Found at i:5965445 original size:13 final size:13
Alignment explanation
Indices: 5965427--5965451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5965417 TTGAATGATA
5965427 TTTTGATGATATG
1 TTTTGATGATATG
5965440 TTTTGATGATAT
1 TTTTGATGATAT
5965452 AATTGTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
TTTTGATGATATG
Found at i:5968972 original size:27 final size:27
Alignment explanation
Indices: 5968931--5969029 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
5968921 AAGTATATTA
*
5968931 TTTATATTAATATATTAATATTATAAAT
1 TTTATAATAA-ATATTAATATTATAAAT
* * * *
5968959 TTTATAATAAATATAAAAAGTAT-ATT
1 TTTATAATAAATATTAATATTATAAAT
* *
5968985 ATTTAT-ATTAATACTAATATTTATAAAT
1 -TTTATAATAAATATTAATA-TTATAAAT
5969013 TTTATAATTAAAT-TTAA
1 TTTATAA-TAAATATTAA
5969030 ATAAATAAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
26 11 0.21
27 23 0.43
28 15 0.28
29 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
TTTATAATAAATATTAATATTATAAAT
Found at i:5968975 original size:55 final size:54
Alignment explanation
Indices: 5968909--5969030 Score: 192
Period size: 55 Copynumber: 2.2 Consensus size: 54
5968899 TTGGTCCAAA
*
5968909 AATAAATATAAAAAGTATATTATTTATATTAATA-TATTAATATTATAAATTTTAT
1 AATAAATATAAAAAGTATATTATTTATATTAATACTAAT-AT-TTATAAATTTTAT
5968964 AATAAATATAAAAAGTATATTATTTATATTAATACTAATATTTATAAATTTTAT
1 AATAAATATAAAAAGTATATTATTTATATTAATACTAATATTTATAAATTTTAT
*
5969018 AATTAAATTTAAA
1 AA-TAAATATAAA
5969031 TAAATAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
54 15 0.24
55 45 0.71
56 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (54 bp):
AATAAATATAAAAAGTATATTATTTATATTAATACTAATATTTATAAATTTTAT
Found at i:5969517 original size:152 final size:152
Alignment explanation
Indices: 5969346--5969645 Score: 367
Period size: 151 Copynumber: 2.0 Consensus size: 152
5969336 TTATTTACTG
* *
5969346 TATTTTAGTTCATTATGTTTAAAATGTATTAATTTACTATATTTTTTAAATAAATTTTAAAAAAA
1 TATTTTAGTACATTATGTTTAAAATGTATTAATTTACTAT-GTTTTTAAATAAATTTTAAAAAAA
* * * **
5969411 -CTTTTATTTC-AGCCTTTTGTTCGTATTTTTTTCTTAGATTTTATTACTTT-AAAAAAAATACT
65 TC-CTTATTTCGA-CCCTTTATTCGTATTTTTTTCCGA-ATTTTATTACTTTCAAAAAAAATA-T
5969473 ATT-TTCTA-ATTTTATTATTTTACAT
126 ATTATTCTAGATTTTATTATTTTACAT
* * * * * *
5969498 TATTTTAGTACATTTTGTTTGAAATGTATTCATTTAGTGTGTTTTTAAATAAATTTTTAAAAAAT
1 TATTTTAGTACATTATGTTTAAAATGTATTAATTTACTATGTTTTTAAATAAATTTTAAAAAAAT
* *
5969563 CCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTTTTACTTTCAATAAAAATATATTAT
66 CCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTATTACTTTCAAAAAAAATATATTAT
*
5969628 TTTAGTATTTTATTATTT
131 TCTAG-ATTTTATTATTT
5969646 ATGTTCATAT
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
150 16 0.13
151 62 0.49
152 36 0.29
153 12 0.10
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (152 bp):
TATTTTAGTACATTATGTTTAAAATGTATTAATTTACTATGTTTTTAAATAAATTTTAAAAAAAT
CCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTATTACTTTCAAAAAAAATATATTAT
TCTAGATTTTATTATTTTACAT
Found at i:5969830 original size:152 final size:148
Alignment explanation
Indices: 5969653--5970007 Score: 491
Period size: 152 Copynumber: 2.4 Consensus size: 148
5969643 TTTATGTTCA
* * * *
5969653 TATTTCAGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCGGATTTTATTACTTTAAAAAAATATAATATTTTA
*
5969718 T-AGTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
65 TGA-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAATAATTTACTGTGTTTT
5969782 TTAAATAAATTTTAAAAAACCA-T
129 TTAAATAAA--TTAAAAAA--ATT
*
5969805 TATTTCGGCCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAAAATATAATATTTTA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTC-CGGATTTTATTACTTTAAAAAAATATAATATTTTA
* * *
5969870 TGATTTTATTATTTTACATTTTTTTAGTACATTATGTTTGAAATGTAATCATTTAGTGTGTTTTT
65 TGATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAATAATTTACTGTGTTTTT
*
5969935 TTAATAAATTAAAAAAATT
130 TAAATAAATTAAAAAAATT
* *
5969954 TATTTTGGCCCTTTGTTCGTATTTTTTAT-CGGACTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TCCGGATTTTATTACTTT-AA-AAAAA
5970008 AACACACTAA
Statistics
Matches: 184, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
148 16 0.09
149 28 0.15
150 14 0.08
151 1 0.01
152 124 0.67
153 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (148 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCGGATTTTATTACTTTAAAAAAATATAATATTTTAT
GATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAATAATTTACTGTGTTTTTT
AAATAAATTAAAAAAATT
Found at i:5969878 original size:238 final size:238
Alignment explanation
Indices: 5969415--5969883 Score: 732
Period size: 239 Copynumber: 2.0 Consensus size: 238
5969405 AAAAAACTTT
* **
5969415 TATTTCAGCCTTTTGTTCGTATTTTTTTCTTAGATTTTATTACTTTAAAAAAAATACTATTTTCT
1 TATTTCAGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAAATACTATTTTCT
* * *
5969480 AATTTTATTATTTTACATTATTTTAGTACATTTTGTTTGAAATGTATTCATTTAGTGTGTTTTTA
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTA
*
5969545 AATAAATTTTTAAAAAATCCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTTTTACTT
131 AATAAATTTTTAAAAAATCCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTATTACTT
*
5969610 TCAATAAAAATATATTATTTTAGTATTTTATTATTTATGTTCA
196 TCAATAAAAATATAATATTTTAGTATTTTATTATTTATGTTCA
*
5969653 TATTTCAGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTC
1 TATTTCAGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAA-ATACTATTTTC
*
5969718 TAGTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-TTTT
* * *
5969783 TAAATAAA-TTTTAAAAAA-CCATTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGGATTTTATT
129 TAAATAAATTTTTAAAAAATCC-TTATTTCGACCCTTTATTCGTATTTTTTTC-CGAATTTTATT
*
5969846 ACTTT-TA-AAAAATATAATATTTTA-TGATTTTATTATTT
192 ACTTTCAATAAAAATATAATATTTTAGT-ATTTTATTATTT
5969884 TACATTTTTT
Statistics
Matches: 212, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
237 1 0.00
238 79 0.37
239 106 0.50
240 26 0.12
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (238 bp):
TATTTCAGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAAATACTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTA
AATAAATTTTTAAAAAATCCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTATTACTT
TCAATAAAAATATAATATTTTAGTATTTTATTATTTATGTTCA
Found at i:5971384 original size:18 final size:20
Alignment explanation
Indices: 5971343--5971391 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
5971333 GAACTTTATT
5971343 TAATATTGTTATCAAATTTAA
1 TAATATT-TTATCAAATTTAA
5971364 TAATATTTTA-CAAATTT-A
1 TAATATTTTATCAAATTTAA
*
5971382 TAATTTTTTA
1 TAATATTTTA
5971392 AAAGAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 3 0.11
21 7 0.26
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATATTTTATCAAATTTAA
Found at i:5984593 original size:9 final size:9
Alignment explanation
Indices: 5984579--5984604 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5984569 TTATTAAGCA
5984579 AAAAAAAAG
1 AAAAAAAAG
5984588 AAAAAAAAG
1 AAAAAAAAG
5984597 AAAAAAAA
1 AAAAAAAA
5984605 AATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5984750 original size:13 final size:12
Alignment explanation
Indices: 5984718--5984755 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
5984708 CCTTTCCCCC
5984718 TCCCTTCTCTC-
1 TCCCTTCTCTCT
5984729 TCCCTTCTCTCT
1 TCCCTTCTCTCT
5984741 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
5984754 TC
1 TC
5984756 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:5985284 original size:23 final size:25
Alignment explanation
Indices: 5985241--5985290 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
5985231 TTATTAGTAC
5985241 TATTAGTATCACTATTATTATTATG
1 TATTAGTATCACTATTATTATTATG
*
5985266 TATTAGTAT-A-TATTTTTATTATG
1 TATTAGTATCACTATTATTATTATG
5985289 TA
1 TA
5985291 CGTGTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 14 0.58
24 1 0.04
25 9 0.38
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (25 bp):
TATTAGTATCACTATTATTATTATG
Found at i:5985297 original size:23 final size:23
Alignment explanation
Indices: 5985227--5985298 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
5985217 TTGTTATTTT
* * *
5985227 TATATTATTAGTA-CTATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
5985249 TCACTATTATTATTATGTATTAGTA
1 T-A-TATTATTATTATGTAGTAGTA
*
5985274 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
5985297 TA
1 TA
5985299 CATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.02
23 20 0.48
24 12 0.29
25 9 0.21
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.53
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:5985366 original size:25 final size:24
Alignment explanation
Indices: 5985319--5985366 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5985309 TATATTTTCA
*
5985319 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
5985343 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
5985367 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:5985679 original size:29 final size:31
Alignment explanation
Indices: 5985627--5985686 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
5985617 TGTACATACA
*
5985627 CATATATATATGTATAGACATACATA-TTTT
1 CATATATATATATATAGACATACATAGTTTT
* *
5985657 CATAT-TATATATATATACCTACATAGTTTT
1 CATATATATATATATAGACATACATAGTTTT
5985687 TTTTTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (31 bp):
CATATATATATATATAGACATACATAGTTTT
Found at i:5993824 original size:51 final size:49
Alignment explanation
Indices: 5993535--5994671 Score: 424
Period size: 51 Copynumber: 24.6 Consensus size: 49
5993525 TATCGATGAA
* * *
5993535 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG--AAA-AATTGGT
* * * * * * **
5993586 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AA-AATTGGT
* * * *
5993637 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAAT--TGGT
* * * * * * *
5993688 TACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAATTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAA--ATTGGT
* *
5993739 CACGTGTGTAGTACTATGAGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5993790 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5993833 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5993879 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5993922 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5993968 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994011 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994057 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994100 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994146 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994189 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994235 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994278 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994324 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994367 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994413 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994456 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
5994502 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
5994545 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
* *
5994591 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAATTGGT
5994641 CACGTGTGTAGTACTATGT-AGAGGCTACTAC
1 CACGTGTGTAGTACTATGTGA-AGGCTACTAC
5994672 ATGTATTGAA
Statistics
Matches: 792, Mismatches: 150, Indels: 289
0.64 0.12 0.23
Matches are distributed among these distances:
38 171 0.22
39 9 0.01
41 9 0.01
42 27 0.03
43 36 0.05
44 27 0.03
45 27 0.03
46 36 0.05
47 27 0.03
48 9 0.01
49 3 0.00
50 48 0.06
51 358 0.45
52 4 0.01
53 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
Found at i:5993855 original size:16 final size:17
Alignment explanation
Indices: 5993816--5993866 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5993806 TGTGAAGGCT
*
5993816 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5993833 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5993852 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5993867 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5993865 original size:89 final size:89
Alignment explanation
Indices: 5993758--5994627 Score: 1740
Period size: 89 Copynumber: 9.8 Consensus size: 89
5993748 AGTACTATGA
5993758 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5993823 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5993847 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5993912 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5993936 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994001 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994025 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994090 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994114 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994179 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994203 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994268 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994292 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994357 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994381 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994446 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994470 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994535 GAACTGAAGGCTACTACGTGAACC
66 GAACTGAAGGCTACTACGTGAACC
5994559 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
5994624 GAAC
66 GAAC
5994628 CGTAAAACTT
Statistics
Matches: 781, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 781 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (89 bp):
GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
GAACTGAAGGCTACTACGTGAACC
Found at i:5993944 original size:16 final size:17
Alignment explanation
Indices: 5993905--5993955 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5993895 TGTGAAGGCT
*
5993905 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5993922 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5993941 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5993956 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994033 original size:16 final size:17
Alignment explanation
Indices: 5993994--5994044 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5993984 TGTGAAGGCT
*
5993994 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994011 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994030 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994045 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994122 original size:16 final size:17
Alignment explanation
Indices: 5994083--5994133 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994073 TGTGAAGGCT
*
5994083 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994100 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994119 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994134 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994211 original size:16 final size:17
Alignment explanation
Indices: 5994172--5994222 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994162 TGTGAAGGCT
*
5994172 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994189 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994208 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994223 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994300 original size:16 final size:17
Alignment explanation
Indices: 5994261--5994311 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994251 TGTGAAGGCT
*
5994261 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994278 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994297 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994312 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994389 original size:16 final size:17
Alignment explanation
Indices: 5994350--5994400 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994340 TGTGAAGGCT
*
5994350 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994367 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994386 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994401 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994478 original size:16 final size:17
Alignment explanation
Indices: 5994439--5994489 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994429 TGTGAAGGCT
*
5994439 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994456 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994475 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994490 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994567 original size:16 final size:17
Alignment explanation
Indices: 5994528--5994578 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
5994518 TGTGAAGGCT
*
5994528 ACTACGTGAACTGAAGG
1 ACTACGTGAACCGAAGG
5994545 CTACTACGTGAACCGAAGG
1 --ACTACGTGAACCGAAGG
5994564 CTACTACGTGAACCG
1 --ACTACGTGAACCG
5994579 TAAAAACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (17 bp):
ACTACGTGAACCGAAGG
Found at i:5994656 original size:50 final size:51
Alignment explanation
Indices: 5994559--5994671 Score: 203
Period size: 50 Copynumber: 2.2 Consensus size: 51
5994549 TACGTGAACC
5994559 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
5994610 GAAGGCTACTACGTGAACCGT-AAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
5994660 -AGAGGCTACTAC
1 GA-AGGCTACTAC
5994672 ATGTATTGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
49 1 0.02
50 39 0.64
51 21 0.34
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (51 bp):
GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
Found at i:5997561 original size:58 final size:58
Alignment explanation
Indices: 5997494--5997609 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
5997484 GAGTGCATCG
5997494 TGCTATTAAAAAATTGTTTAAAAATTAGAAACTTAGAATTTAAAAAAATAATTATTTA
1 TGCTATTAAAAAATTGTTTAAAAATTAGAAACTTAGAATTTAAAAAAATAATTATTTA
*
5997552 TGCTATTAAAAAATTGTTTAAAAATTAGAAACTTAGAATTTAAAAAATTAATTATTTA
1 TGCTATTAAAAAATTGTTTAAAAATTAGAAACTTAGAATTTAAAAAAATAATTATTTA
5997610 CCTTAAATTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (58 bp):
TGCTATTAAAAAATTGTTTAAAAATTAGAAACTTAGAATTTAAAAAAATAATTATTTA
Found at i:6001730 original size:18 final size:19
Alignment explanation
Indices: 6001707--6001750 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
6001697 TTTCTTCATA
6001707 TATAAAT-TCTGGAATTTT
1 TATAAATATCTGGAATTTT
* *
6001725 TATAAATATTTTGAATTTT
1 TATAAATATCTGGAATTTT
*
6001744 TAAAAAT
1 TATAAAT
6001751 GATTTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (19 bp):
TATAAATATCTGGAATTTT
Found at i:6001742 original size:19 final size:20
Alignment explanation
Indices: 6001718--6001765 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
6001708 ATAAATTCTG
*
6001718 GAATTTTTATAAAT-ATTTT
1 GAATTTTTAAAAATGATTTT
6001737 GAATTTTTAAAAATGATTTT
1 GAATTTTTAAAAATGATTTT
6001757 GAATATTTT
1 GAAT-TTTT
6001766 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
GAATTTTTAAAAATGATTTT
Found at i:6001744 original size:20 final size:20
Alignment explanation
Indices: 6001719--6001776 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
6001709 TAAATTCTGG
6001719 AATTTTTATAAATATTTTG-
1 AATTTTTATAAATATTTTGA
*
6001738 AATTTTTAAAAATGATTTTGA
1 AATTTTTATAAAT-ATTTTGA
*
6001759 ATATTTTTTTAAA-ATTTT
1 A-ATTTTTATAAATATTTT
6001777 TGTTAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 12 0.36
20 11 0.33
21 1 0.03
22 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTTTTATAAATATTTTGA
Found at i:6007916 original size:16 final size:17
Alignment explanation
Indices: 6007886--6007918 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6007876 ATATAATTAA
*
6007886 AATATATTAATTTATTT
1 AATATATTAAATTATTT
6007903 AATA-ATTAAATTATTT
1 AATATATTAAATTATTT
6007919 GTACAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATATTAAATTATTT
Found at i:6008269 original size:21 final size:20
Alignment explanation
Indices: 6008243--6008293 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
6008233 TTTAATTTTA
6008243 ACTTAAATTTAATACTTAATT
1 ACTTAAATTTAATAC-TAATT
*
6008264 ACTTAATTTTTTAATACTAATT
1 ACTTAA--ATTTAATACTAATT
6008286 AC-TAAATT
1 ACTTAAATT
6008294 ATTGTGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
21 9 0.35
22 7 0.27
23 8 0.31
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
ACTTAAATTTAATACTAATT
Found at i:6008287 original size:22 final size:23
Alignment explanation
Indices: 6008250--6008293 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6008240 TTAACTTAAA
*
6008250 TTTAATACTTAATTACTTAATTT
1 TTTAATACTTAATTACTAAATTT
6008273 TTTAATAC-TAATTACTAAATT
1 TTTAATACTTAATTACTAAATT
6008294 ATTGTGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATACTTAATTACTAAATTT
Found at i:6010834 original size:112 final size:112
Alignment explanation
Indices: 6010637--6010973 Score: 656
Period size: 112 Copynumber: 3.0 Consensus size: 112
6010627 TATACAAACA
*
6010637 TATCACTATATATTTAACACAAATTATTATTAACATGCCATATTTTATATAAAAATATACAACCT
1 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
6010702 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
66 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
6010749 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
1 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
6010814 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
66 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
6010861 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
1 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
*
6010926 TCAATACCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
66 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
6010973 T
1 T
6010974 TTTGGGTATA
Statistics
Matches: 223, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 223 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (112 bp):
TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
Found at i:6015238 original size:5 final size:5
Alignment explanation
Indices: 6015228--6015252 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6015218 GAGACGAACA
6015228 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
6015253 AAATATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:6016926 original size:39 final size:38
Alignment explanation
Indices: 6016867--6016943 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 38
6016857 CAATTACTTA
* *
6016867 AATTTTGATTTCAAATTATTTATTTTTGAATGTTATAT
1 AATTTTGATTTCAAAATATTTATTTTTGAATATTATAT
*
6016905 AATTTATGATTTTAAAATATTTATTTTTGAATATTATAT
1 AATTT-TGATTTCAAAATATTTATTTTTGAATATTATAT
6016944 GTTTTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 5 0.14
39 30 0.86
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (38 bp):
AATTTTGATTTCAAAATATTTATTTTTGAATATTATAT
Found at i:6018590 original size:16 final size:16
Alignment explanation
Indices: 6018569--6018620 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
6018559 TTTGGTTCGC
6018569 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
6018585 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
6018601 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6018617 TGTA
1 TGTA
6018621 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6018760 original size:24 final size:24
Alignment explanation
Indices: 6018733--6018781 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6018723 CTAAAATGAC
6018733 TAGAATACCCTTAGCATAAATTTG
1 TAGAATACCCTTAGCATAAATTTG
6018757 TAGAATACCCTTAGCATAAATTTG
1 TAGAATACCCTTAGCATAAATTTG
6018781 T
1 T
6018782 TTTAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (24 bp):
TAGAATACCCTTAGCATAAATTTG
Found at i:6018956 original size:157 final size:157
Alignment explanation
Indices: 6018767--6019083 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
6018757 TAGAATACCC
*
6018767 TTAGCATAAATTTGTTTTAGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
6018832 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATCTATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
6018897 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
6018924 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
6018989 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
6019054 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
6019081 TTA
1 TTA
6019084 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTAGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:6019054 original size:16 final size:16
Alignment explanation
Indices: 6019017--6019058 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6019007 TTAATCATAT
*
6019017 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6019033 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6019048 TTAAAATATAT
1 TTAAAATATAT
6019059 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6019065 original size:14 final size:15
Alignment explanation
Indices: 6019026--6019067 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6019016 TTTAAACATA
*
6019026 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6019041 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6019055 A-TATAATTTAATA
1 ATTATAATTAAATA
6019068 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6019143 original size:107 final size:109
Alignment explanation
Indices: 6019015--6019230 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
6019005 ATTTAATCAT
6019015 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
6019080 ATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
6019123 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
6019187 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
6019231 CTATAAAATA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 97 0.92
108 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (109 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
Found at i:6019163 original size:16 final size:16
Alignment explanation
Indices: 6019120--6019165 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6019110 CATAATATAG
*
6019120 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
6019136 ATTATT-AAATATATT
1 ATAATTAAAATATATT
6019151 ATAATTAAAATATAT
1 ATAATTAAAATATAT
6019166 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:6019172 original size:14 final size:15
Alignment explanation
Indices: 6019120--6019174 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
6019110 CATAATATAG
6019120 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
6019136 ATTATTAAATATATT
1 ATAATTAAATATATT
6019151 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
6019164 ATAATTTAATA
1 ATAATTAAATA
6019175 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:6019223 original size:37 final size:35
Alignment explanation
Indices: 6019054--6019223 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
6019044 ATAATTAAAA
*
6019054 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
6019091 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
6019127 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
6019161 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
6019198 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
6019224 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:6019533 original size:28 final size:26
Alignment explanation
Indices: 6019475--6019538 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
6019465 TAATACTATA
6019475 TAATATAATTTAAAATAATTATTATT
1 TAATATAATTTAAAATAATTATTATT
*
6019501 AAATATAATTTAAAA-AATATATATAATT
1 TAATATAATTTAAAATAAT-TAT-T-ATT
*
6019529 TAATAAAATT
1 TAATATAATT
6019539 CTTAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 3 0.09
26 17 0.53
27 1 0.03
28 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATATAATTTAAAATAATTATTATT
Found at i:6031208 original size:86 final size:86
Alignment explanation
Indices: 6031098--6031441 Score: 643
Period size: 86 Copynumber: 4.0 Consensus size: 86
6031088 AAAAGCTCAA
* * * *
6031098 CTATTAATCCTCATTTGTAATCACTCATTCCGAAATAACAAAATACTTTTAAAACAATTACTCAA
1 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
6031163 AAGTTCTATTATTTTCTTGTG
66 AAGTTCTATTATTTTCTTGTG
6031184 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
1 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
6031249 AAGTTCTATTATTTTCTTGTG
66 AAGTTCTATTATTTTCTTGTG
6031270 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
1 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
6031335 AAGTTCTATTATTTTCTTGTG
66 AAGTTCTATTATTTTCTTGTG
6031356 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
1 CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
*
6031421 AAATTCTATTATTTTCTTGTG
66 AAGTTCTATTATTTTCTTGTG
6031442 ATTTTTCTGT
Statistics
Matches: 253, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 253 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (86 bp):
CTATTAACCCCCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTTAAAACAATTACTCAA
AAGTTCTATTATTTTCTTGTG
Found at i:6041102 original size:44 final size:44
Alignment explanation
Indices: 6041039--6041130 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
6041029 GCATCACAGG
6041039 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
1 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
* * *
6041083 GGTTCGAGGGGTATGACGACTCTTGAGAACTGCAGGAGAATGGT
1 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
6041127 GGTT
1 GGTT
6041131 GCGACATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (44 bp):
GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
Found at i:6041500 original size:13 final size:14
Alignment explanation
Indices: 6041479--6041511 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6041469 AATATTATTT
6041479 TTTTATTTTATAA-A
1 TTTT-TTTTATAATA
6041493 TTTTTTTTATAATA
1 TTTTTTTTATAATA
6041507 TTTTT
1 TTTTT
6041512 GAAGGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTTTTATAATA
Found at i:6053082 original size:19 final size:18
Alignment explanation
Indices: 6053057--6053109 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
6053047 TATATATACT
6053057 AAATAAATTAATAATAAA
1 AAATAAATTAATAATAAA
* *
6053075 ATAATAAAATAATATTTAAA
1 A-AATAAATTAATA-ATAAA
*
6053095 AATTAAATTAA-AATA
1 AAATAAATTAATAATA
6053110 TTAATAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 19 0.68
20 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATTAATAATAAA
Found at i:6060171 original size:22 final size:20
Alignment explanation
Indices: 6060124--6060183 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
6060114 CTTCATATTG
6060124 ATTTTTAAAATTTTTAATAT
1 ATTTTTAAAATTTTTAATAT
*
6060144 ATTTTTTAAAATTTTTATTGAAT
1 A-TTTTTAAAATTTTTAAT--AT
* *
6060167 ATTTTTATAATTATTAA
1 ATTTTTAAAATTTTTAA
6060184 ATTATTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 13 0.39
23 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTAAAATTTTTAATAT
Found at i:6068620 original size:18 final size:18
Alignment explanation
Indices: 6068597--6068689 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
6068587 CCCAACTACT
* *
6068597 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTACC
*
6068615 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
6068633 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
6068651 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
6068669 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6068687 GTA
1 GTA
6068690 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6068655 original size:36 final size:36
Alignment explanation
Indices: 6068597--6068689 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
6068587 CCCAACTACT
* *
6068597 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
6068633 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
6068669 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
6068690 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:6072911 original size:20 final size:20
Alignment explanation
Indices: 6072875--6072912 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6072865 TATATATAGA
*
6072875 TATGTAAACAAATTATAAAC
1 TATGTAAACAAAATATAAAC
6072895 TATGTATAA-AAAATATAA
1 TATGTA-AACAAAATATAA
6072913 GGGTGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATGTAAACAAAATATAAAC
Found at i:6072990 original size:37 final size:37
Alignment explanation
Indices: 6072944--6073014 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
6072934 AAATATGTAC
*
6072944 GTATCTATGTATATATATATGTATAAATTACAAAAAT
1 GTATCTATGTATATATATATATATAAATTACAAAAAT
* *
6072981 GTATGTATGTATATATGTATATATAAATTACAAA
1 GTATCTATGTATATATATATATATAAATTACAAA
6073015 GTATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (37 bp):
GTATCTATGTATATATATATATATAAATTACAAAAAT
Found at i:6073113 original size:3 final size:3
Alignment explanation
Indices: 6073107--6073140 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6073097 ATAATGATGA
6073107 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6073141 CAAGATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6078972 original size:20 final size:19
Alignment explanation
Indices: 6078940--6078984 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
6078930 CTCTTGCTAT
6078940 TTTTTTATGAATTTTATGGG
1 TTTTTTATGAATTTT-TGGG
6078960 CTTTTTTAT-AATTTTTGGG
1 -TTTTTTATGAATTTTTGGG
6078979 TTTTTT
1 TTTTTT
6078985 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 6 0.25
21 8 0.33
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (19 bp):
TTTTTTATGAATTTTTGGG
Found at i:6078988 original size:20 final size:21
Alignment explanation
Indices: 6078939--6078985 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
6078929 TCTCTTGCTA
6078939 TTTTTTTATGAATTTTATGGG
1 TTTTTTTATGAATTTTATGGG
*
6078960 CTTTTTTAT-AATTTT-TGGG
1 TTTTTTTATGAATTTTATGGG
6078979 TTTTTTT
1 TTTTTTT
6078986 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 6 0.25
21 8 0.33
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.68
Consensus pattern (21 bp):
TTTTTTTATGAATTTTATGGG
Found at i:6079208 original size:24 final size:22
Alignment explanation
Indices: 6079159--6079201 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
6079149 ATTGATGGCC
6079159 AAATTTAACTTAAAAAAAGAAT
1 AAATTTAACTTAAAAAAAGAAT
*
6079181 AAATATTAACTTAACAAAAGA
1 AAAT-TTAACTTAAAAAAAGA
6079202 TGTAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (22 bp):
AAATTTAACTTAAAAAAAGAAT
Found at i:6079604 original size:23 final size:24
Alignment explanation
Indices: 6079576--6079621 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6079566 TAAAATCATT
6079576 AAATAT-TAAATT-AAAAATAATAG
1 AAATATAT-AATTAAAAAATAATAG
*
6079599 AAATATATATTTAAAAAATAATA
1 AAATATATAATTAAAAAATAATA
6079622 ATATAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATATAATTAAAAAATAATAG
Found at i:6088594 original size:29 final size:30
Alignment explanation
Indices: 6088555--6088624 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
6088545 CTTTTATGTG
*
6088555 ATTAAATTTTTTA-ATTAAACTTTGAATTTT-
1 ATTAAA-TTTTTACACT-AACTTTGAATTTTA
*
6088585 ATTAAA-TTTTACCACTAACTTTGATTTTTA
1 ATTAAATTTTTA-CACTAACTTTGAATTTTA
6088615 ATTAAATTTT
1 ATTAAATTTT
6088625 ATAACTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 5 0.15
29 12 0.35
30 14 0.41
31 3 0.09
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (30 bp):
ATTAAATTTTTACACTAACTTTGAATTTTA
Found at i:6093991 original size:64 final size:64
Alignment explanation
Indices: 6093912--6094040 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
6093902 TTTAATTCTC
6093912 AACTCAGCTACAACTGAATCATCATCAACCAAAGACAATTGGGCATTCATAGCTCGCAAAGAAA
1 AACTCAGCTACAACTGAATCATCATCAACCAAAGACAATTGGGCATTCATAGCTCGCAAAGAAA
6093976 AACTCAGCTACAACTGAATCATCATCAACCAAAGACAATTGGGCATTCATAGCTCGCAAAGAAA
1 AACTCAGCTACAACTGAATCATCATCAACCAAAGACAATTGGGCATTCATAGCTCGCAAAGAAA
6094040 A
1 A
6094041 CAAAGATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.19
Consensus pattern (64 bp):
AACTCAGCTACAACTGAATCATCATCAACCAAAGACAATTGGGCATTCATAGCTCGCAAAGAAA
Found at i:6097727 original size:105 final size:105
Alignment explanation
Indices: 6097545--6097755 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
6097535 GATCTTGAGG
*
6097545 TTGATAGTGTGATACGTCTCCGACCAAATCCGACCTCTGAGCTCTTAACACTACAAAATAGGGGA
1 TTGATAGTGTGATACGTCTCCGACCAAATCCGACCTCTGAGCTCTTAACACTACAAAACAGGGGA
6097610 AAAGGAACACGGGGTAAGCACTTTGTGCTTAGTAAGTTCA
66 AAAGGAACACGGGGTAAGCACTTTGTGCTTAGTAAGTTCA
*
6097650 TTGATAGTGTGATACGTTTCCGACCAAATCCGACCTCTGAGCTCTTAACACTACAAAACAGGGGA
1 TTGATAGTGTGATACGTCTCCGACCAAATCCGACCTCTGAGCTCTTAACACTACAAAACAGGGGA
6097715 AAAGGAACACGGGGTAAGCACTTTGTGCTTAGTAAGTTCA
66 AAAGGAACACGGGGTAAGCACTTTGTGCTTAGTAAGTTCA
6097755 T
1 T
6097756 GCAACAAGAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (105 bp):
TTGATAGTGTGATACGTCTCCGACCAAATCCGACCTCTGAGCTCTTAACACTACAAAACAGGGGA
AAAGGAACACGGGGTAAGCACTTTGTGCTTAGTAAGTTCA
Found at i:6105611 original size:13 final size:13
Alignment explanation
Indices: 6105593--6105622 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6105583 TTAAAAGCTA
6105593 AATTCAGAAAAAC
1 AATTCAGAAAAAC
6105606 AATTCAGAAAAAC
1 AATTCAGAAAAAC
6105619 AATT
1 AATT
6105623 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:6110592 original size:5 final size:5
Alignment explanation
Indices: 6110582--6110610 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6110572 AAGTTGTTAG
6110582 ATATA ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATAT
6110611 TAAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:6117108 original size:15 final size:14
Alignment explanation
Indices: 6117080--6117113 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6117070 GTCTATATAC
6117080 TTTAATTTTTTATT
1 TTTAATTTTTTATT
6117094 TTTAATTTTTATATT
1 TTTAATTTTT-TATT
6117109 TTTAA
1 TTTAA
6117114 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTAATTTTTTATT
Found at i:6117112 original size:8 final size:7
Alignment explanation
Indices: 6117080--6117113 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6117070 GTCTATATAC
6117080 TTTAATT
1 TTTAATT
*
6117087 TTTTATT
1 TTTAATT
6117094 TTTAATT
1 TTTAATT
6117101 TTTATATT
1 TTTA-ATT
6117109 TTTAA
1 TTTAA
6117114 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTAATT
Found at i:6118465 original size:34 final size:33
Alignment explanation
Indices: 6118393--6118456 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
6118383 ATAGTTTTTA
*
6118393 TTTATTATTTAACATAATATCAATTATAATGAAT
1 TTTATTATTTAACATAATATAAATTATAATG-AT
*
6118427 TTTATTATTTAATATAAATATAAATT-TAAT
1 TTTATTATTTAACAT-AATATAAATTATAAT
6118457 TGTCTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (33 bp):
TTTATTATTTAACATAATATAAATTATAATGAT
Found at i:6126954 original size:5 final size:5
Alignment explanation
Indices: 6126944--6126968 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6126934 AAAATTATAA
6126944 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
6126969 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:6127097 original size:22 final size:21
Alignment explanation
Indices: 6127072--6127119 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
6127062 TTTTTATCGC
*
6127072 TTAAATTATAATTTTATTATT
1 TTAAATTAAAATTTTATTATT
*
6127093 ATTAATTTAAAATTTTATTATT
1 -TTAAATTAAAATTTTATTATT
6127115 TTAAA
1 TTAAA
6127120 GACACCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATTAAAATTTTATTATT
Found at i:6129461 original size:16 final size:16
Alignment explanation
Indices: 6129426--6129463 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6129416 ACGTTAAAGA
*
6129426 AATTACAATTCATTGT
1 AATTACAATTCATTGC
6129442 AATTACAATCTCATT-C
1 AATTACAAT-TCATTGC
6129458 AATTAC
1 AATTAC
6129464 TCTATTCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTACAATTCATTGC
Found at i:6137810 original size:17 final size:17
Alignment explanation
Indices: 6137788--6137821 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6137778 CAAATATAAA
* *
6137788 GATTAAATCTCAAATTT
1 GATTAAAACTAAAATTT
6137805 GATTAAAACTAAAATTT
1 GATTAAAACTAAAATTT
6137822 AACCTTCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (17 bp):
GATTAAAACTAAAATTT
Found at i:6144736 original size:34 final size:34
Alignment explanation
Indices: 6144696--6144763 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
6144686 ATCCATTACA
*
6144696 AAACTTTATAATAAATTCATTAAACCCTAATGCT
1 AAACTTTACAATAAATTCATTAAACCCTAATGCT
6144730 AAACTTTACAATAAATTCATTAAACCCTAATGCT
1 AAACTTTACAATAAATTCATTAAACCCTAATGCT
6144764 TTGCCCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (34 bp):
AAACTTTACAATAAATTCATTAAACCCTAATGCT
Found at i:6147772 original size:31 final size:32
Alignment explanation
Indices: 6147717--6147780 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
6147707 AAGTACATGA
*
6147717 CCAAAGTGAACCTACTTGCTAAGTTC-AGGGG
1 CCAAAGTGAACCTACTTGCCAAGTTCAAGGGG
* * *
6147748 CCAATGTGGACCTATTTGCCAAGTTCAAGGGG
1 CCAAAGTGAACCTACTTGCCAAGTTCAAGGGG
6147780 C
1 C
6147781 GAAAATTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (32 bp):
CCAAAGTGAACCTACTTGCCAAGTTCAAGGGG
Found at i:6156100 original size:11 final size:11
Alignment explanation
Indices: 6156084--6156114 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6156074 GCCTCGGGAT
6156084 GTTTTTAAAGA
1 GTTTTTAAAGA
6156095 GTTTTTAAAGA
1 GTTTTTAAAGA
*
6156106 ATTTTTAAA
1 GTTTTTAAA
6156115 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (11 bp):
GTTTTTAAAGA
Found at i:6168363 original size:61 final size:61
Alignment explanation
Indices: 6168268--6168387 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
6168258 AACTCAGTTA
*
6168268 AGTGACAAAATTTTTAGTAACCAAAAGTTGATAGCACAGGAACTAAATTATTTGATCCTCG
1 AGTGACAAAATTTTTAGTAACCAAAAGTTGATAGCAAAGGAACTAAATTATTTGATCCTCG
*
6168329 AGTGACAAAATTTTTAGTAA-CACAAAGTTGATAGCAAATGAACTAAATTATTTGATCCT
1 AGTGACAAAATTTTTAGTAACCA-AAAGTTGATAGCAAAGGAACTAAATTATTTGATCCT
6168388 TACAATTTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 2 0.04
61 54 0.96
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (61 bp):
AGTGACAAAATTTTTAGTAACCAAAAGTTGATAGCAAAGGAACTAAATTATTTGATCCTCG
Found at i:6171698 original size:22 final size:21
Alignment explanation
Indices: 6171660--6171700 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6171650 ATAAAAGATG
* *
6171660 TAATTTTTTTTTTAAATAATA
1 TAATTTTTTTGTAAAATAATA
6171681 TAATTTATTTTGTAAAATAA
1 TAATTT-TTTTGTAAAATAA
6171701 GAACATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TAATTTTTTTGTAAAATAATA
Found at i:6175449 original size:22 final size:21
Alignment explanation
Indices: 6175398--6175450 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6175388 AAATAAAAAA
*
6175398 TAAATTAATTTAGATAATATT
1 TAAATAAATTTAGATAATATT
*
6175419 TAAATAAATTTATATAATTATAT
1 TAAATAAATTTAGATAA-TAT-T
6175442 T-AATAAATT
1 TAAATAAATT
6175451 ATTTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.54
22 11 0.39
23 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATAAATTTAGATAATATT
Found at i:6175517 original size:23 final size:21
Alignment explanation
Indices: 6175474--6175533 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
6175464 AATGCACATG
*
6175474 AAATATTTTAAAGT-ATTAAATA
1 AAATA-TTTAAA-TAATGAAATA
6175496 AAATAATTTAATATAATGAAATA
1 AAAT-ATTTAA-ATAATGAAATA
6175519 AAATATTTAAATAAT
1 AAATATTTAAATAAT
6175534 TTAATATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 5 0.15
22 16 0.47
23 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AAATATTTAAATAATGAAATA
Found at i:6175542 original size:23 final size:23
Alignment explanation
Indices: 6175488--6175591 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 23
6175478 ATTTTAAAGT
6175488 ATTAAATAAAATAATTTAATATA
1 ATTAAATAAAATAATTTAATATA
*
6175511 ATGAAATAAAAT-ATTTAA-ATA
1 ATTAAATAAAATAATTTAATATA
* * * *
6175532 ATTTAATATAATAATGT-ATAAA
1 ATTAAATAAAATAATTTAATATA
6175554 ATATAAATTAGAAATATATTTTAA-ATA
1 AT-TAAA-TA-AAATA-A-TTTAATATA
6175581 ATTAATATAAA
1 ATTAA-ATAAA
6175592 TAAAAGTATT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
21 13 0.21
22 13 0.21
23 14 0.23
24 2 0.03
25 6 0.10
26 6 0.10
27 7 0.11
28 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTAAATAAAATAATTTAATATA
Found at i:6175561 original size:31 final size:31
Alignment explanation
Indices: 6175484--6175561 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 31
6175474 AAATATTTTA
*
6175484 AAGTATTAAATA-AAATAATTTAATATAATG
1 AAGTATAAAATATAAATAATTTAATATAATG
6175514 AA--ATAAAATATTTAAATAATTTAATATAAT-
1 AAGTATAAAATA--TAAATAATTTAATATAATG
6175544 AATGTATAAAATATAAAT
1 AA-GTATAAAATATAAAT
6175562 TAGAAATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
28 7 0.17
30 4 0.10
31 22 0.54
33 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (31 bp):
AAGTATAAAATATAAATAATTTAATATAATG
Found at i:6178450 original size:91 final size:91
Alignment explanation
Indices: 6178312--6178519 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
6178302 TTGATTTTAG
* *
6178312 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
6178377 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
6178404 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
6178469 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
6178495 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
6178520 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:6178488 original size:26 final size:28
Alignment explanation
Indices: 6178434--6178494 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6178424 TATTATCAAG
* *
6178434 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
6178462 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
6178488 AATTATA
1 AATTATA
6178495 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:6178494 original size:44 final size:43
Alignment explanation
Indices: 6178352--6178494 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
6178342 GAATTTTATG
* *
6178352 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
6178396 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
6178443 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
6178487 AAATTATA
1 AAATTATA
6178495 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:6178564 original size:27 final size:25
Alignment explanation
Indices: 6178509--6178565 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
6178499 TTCATATAAG
* * **
6178509 AAAATTTATTAGTTATAATTATTTT
1 AAAATTTATTAATCATAATTATTAC
6178534 AAAATTTATTAAATCATATATTATTAC
1 AAAATTTATT-AATCATA-ATTATTAC
6178561 AAAAT
1 AAAAT
6178566 ACCCATTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 10 0.38
26 5 0.19
27 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
AAAATTTATTAATCATAATTATTAC
Found at i:6180630 original size:442 final size:436
Alignment explanation
Indices: 6179611--6181586 Score: 1828
Period size: 442 Copynumber: 4.5 Consensus size: 436
6179601 CTGTTATAAG
* * * * * *
6179611 TATTTAATATTTAATTGCTTGCGTTCCATGAGTCTAACCAGACGTAGTCAGGTGTCTACCTTTGA
1 TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAGA
* * * ** *
6179676 TATGATGGTAGGGACTGTTACATGTCTGGAATATGAAAGATAGGGAAGGAATCAATGGTTTGGGT
66 TATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGGT
* * * *
6179741 TTCCTATCTAACTATTAGCCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATTTGTTTGGTT
131 TTCCAATCTATCTATTAGCCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTTAGTT
*
6179806 ATTACTTGAGCTACATCTGGACACTACATCTCTCAACAACTC--TACT-TCAGTAGTCAATCTAT
196 ATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTTTA-TAT-AGTAGTCAATCTAT
* * ** * * **
6179868 GCATTCTAGTATGAA-GCTGTTCTTATTTTGGATACA-TGGA-CCACTCCTGTGAATC----TG-
259 ACATTCAAGTATGAAGGCCATCCTTATTTTGGATATAGTGGATCCA-TGTTGTGAATCTGTTTGT
* * * ***** * * *
6179925 -TTCTAAGAGATAGTAAAGCAAATGATAGTGATGTGGTTTAGGGGAGAAAATAGC--AGCAATAT
323 TTTTTAAGGGATAGTGAAGCAAATGATA---ATAACACTT-----A-AATAT-GCTTTGGAA-A-
* * * * * *
6179987 TTAGTT-GCTCGCTATTCTTAAAGCAACTTATTTTGAATATTGATGCATTTATAGATGTTTGTCT
376 -TACTTCG-T-GC--TTCTT-----TA--TCTTTTGAATATAGATGCATTT-TAGTTGTTTATCT
* *
6180051 ATGAACTGT
428 ATAAACTAT
* * * * * * *
6180060 TATTTAATATTTAGTTATTTGCGTTCCATGATTCTAACCAGACATAGTCAGGTGTCTACCTTTGA
1 TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAGA
* * * *
6180125 TATGGTTGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGTAGTTGATGGTTTGGGT
66 TATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGGT
* * *
6180190 TTCCATTCTATCTGTT-GTACATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTCT-G
131 TTCCAATCTATCTATTAG-CCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTT-TAG
* * *
6180253 TTATTACTTGAGCTACATCTGGACATTACATCTCTCAACACCTCTTTATATATGCAGCCAATCTA
194 TTATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTTTATATA-GTAGTCAATCTA
* *
6180318 TACATTCAAGTATGAAGGTCATCCTTATTTTGGACATAGTGGATCGCATGTTGTGAATCTGTTTG
258 TACATTCAAGTATGAAGGCCATCCTTATTTTGGATATAGTGGATC-CATGTTGTGAATCTGTTTG
* *
6180383 TTTTTTTAACGGGATACTGAA-CAAATTATAATAACACTTAATATATGCGTTTGGAAATACTTCC
322 -TTTTTTAA-GGGATAGTGAAGCAAATGATAATAACACTTAA-ATATGC-TTTGGAAATACTT--
* *
6180447 CGTGCTTCTTTATCTTTTGAATACAGATGCATTTTA-TTGTTTATCTGTAAACTAT
381 CGTGCTTCTTTATCTTTTGAATATAGATGCATTTTAGTTGTTTATCTATAAACTAT
*
6180502 TATTTAATATTTTGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAGA
1 TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAGA
* *
6180567 TTTGATGGTAGGGACTGTTACATGTCTGGAAAATAGAAGATAGGGAAGGAGTTGATAGTTTGGGT
66 TATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGGT
* *
6180632 TTCCAATCTATCTATTAGCCATCCCTTGAAAGAGTCCATCGTTGCCCAGTACTATTTGTTTAGTT
131 TTCCAATCTATCTATTAGCCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTTAGTT
**
6180697 ATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTC--TACTCCAGTAGTCAA-CTTAT
196 ATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTTTA-TATAGTAGTCAATC-TAT
* * ** * *
6180759 GCATTCTAGTATG-AGGCCATTTTTATTTTGGATAT-GTTGA-CCACT-TCTATGAATCTGTTTG
259 ACATTCAAGTATGAAGGCCATCCTTATTTTGGATATAGTGGATCCA-TGT-TGTGAATCTGTTTG
* * * * * * *
6180820 ----TTAAGAGATAGTAAAGCAAATGATAGTAACACTT-AA-ATGC-TT--CAATTCTT-AT-AT
322 TTTTTTAAGGGATAGTGAAGCAAATGATAATAACACTTAAATATGCTTTGGAAATACTTCGTGCT
* * * * * *
6180874 TAAC-TTA--TTTTGAATATTGGTACATTTTTAGTTGTTTGTTTATGAACTAT
387 T--CTTTATCTTTTGAATATAGATGCA-TTTTAGTTGTTTATCTATAAACTAT
* * * *
6180924 TATTTAATATTTAGTTG--T-T-T---ACG-TTCC-A-C-GA-GTAGTTAGGTGTCTACCTTGGA
1 TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAG-
* * * *
6180977 ATATGATTGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGAAAGTAGTTGATGGTTTGGG
65 ATATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGG
* *
6181042 TTTCCAATCTATCTATTAGCCATCCCCTTGAACGAGTCCATCGTTGGCCAGTACTATGTGTTTAG
130 TTTCCAATCTATCTATTAGCCAT-CCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTTAG
** * * * *
6181107 TTATTACTCAAGCTACATCTGGGCACTACATCTCTCAAAACCTCTTTCTATCAGTATTCAATCTA
194 TTATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTTTATAT-AGTAGTCAATCTA
* * * **
6181172 TACATCCAAGCATGAAGGCCATCCTTATTTTGGATATAGTGGATCACGTGTTGCAAATCTGTTTG
258 TACATTCAAGTATGAAGGCCATCCTTATTTTGGATATAGTGGATC-CATGTTGTGAATCTGTTTG
* *
6181237 TTTTCTAAAGGGGTAGTGAAGCAAATGATAATAACACTTAACATATGCATTTGGAAATACTTTCT
322 TTTT-TTAAGGGATAGTGAAGCAAATGATAATAACACTTAA-ATATGC-TTTGGAAATAC-TTC-
* * **
6181302 GTGCTT-TTGTATCTTTTGAATATAGATGCATTTTTGGTGTTTATCTGGAAAC---
382 GTGCTTCTT-TATCTTTTGAATATAGATGCATTTTAGTTGTTTATCTATAAACTAT
*
6181354 TA-TT-A-A--TAGTTGTTTGTCTCCCATGAG-CCTAACCAGACGTAGTCAGGTGTCTACCTTAG
1 TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCC-AACCAGACGTAGTCAGGTGTCTACCTTAG
* **
6181413 ATTTGATGGTAGTAACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGG
65 ATATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGG
* * * **
6181478 TTTCCAATCTATCTATTAGCCATCCCTTGATGGAGTCCATCGTTGCCCAGTACCA-GTCTAAAGT
130 TTTCCAATCTATCTATTAGCCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTTAGT
* *
6181542 TGTTATTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTT
195 TATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTT
6181587 AAGTAGTCCT
Statistics
Matches: 1266, Mismatches: 181, Indels: 175
0.78 0.11 0.11
Matches are distributed among these distances:
410 19 0.02
411 84 0.07
412 79 0.06
413 2 0.00
414 24 0.02
415 23 0.02
416 4 0.00
417 13 0.01
418 3 0.00
419 1 0.00
420 14 0.01
421 7 0.01
422 64 0.05
423 2 0.00
424 1 0.00
425 16 0.01
427 6 0.00
428 2 0.00
429 11 0.01
430 5 0.00
431 10 0.01
432 27 0.02
433 17 0.01
434 60 0.05
435 29 0.02
436 86 0.07
437 34 0.03
438 4 0.00
439 19 0.02
440 22 0.02
441 3 0.00
442 227 0.18
443 3 0.00
444 19 0.02
446 1 0.00
448 1 0.00
449 212 0.17
450 3 0.00
451 32 0.03
452 22 0.02
453 10 0.01
454 12 0.01
455 6 0.00
458 6 0.00
461 13 0.01
462 8 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (436 bp):
TATTTAATATTTAGTTGTTTGTGTCCCATGAGTCCAACCAGACGTAGTCAGGTGTCTACCTTAGA
TATGATGGTAGGGACTGTTACATGTCTGGAAAATAAAAGATAGGGAAGGAGTTGATAGTTTGGGT
TTCCAATCTATCTATTAGCCATCCCTTGAAGGAGTCCATCGTTGCCCAGTACTATGTGTTTAGTT
ATTACTTGAGCTACATCTGGACACTACATCTCTCAACACCTCTTTATATAGTAGTCAATCTATAC
ATTCAAGTATGAAGGCCATCCTTATTTTGGATATAGTGGATCCATGTTGTGAATCTGTTTGTTTT
TTAAGGGATAGTGAAGCAAATGATAATAACACTTAAATATGCTTTGGAAATACTTCGTGCTTCTT
TATCTTTTGAATATAGATGCATTTTAGTTGTTTATCTATAAACTAT
Found at i:6194073 original size:20 final size:20
Alignment explanation
Indices: 6194023--6194073 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
6194013 AATGATTTGA
*
6194023 TAATAATTTTTGTTATTTAT
1 TAATAATTTTTGTTATCTAT
* * *
6194043 TTAGAAATTTT-TTATCCTAT
1 TAATAATTTTTGTTAT-CTAT
6194063 TAATAATTTTT
1 TAATAATTTTT
6194074 ACAATAATTA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (20 bp):
TAATAATTTTTGTTATCTAT
Found at i:6194083 original size:19 final size:19
Alignment explanation
Indices: 6194061--6194098 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6194051 TTTTTATCCT
*
6194061 ATTAATAATTTTTACAATA
1 ATTAATAATTTTTAAAATA
*
6194080 ATTAATATTTTTTAAAATA
1 ATTAATAATTTTTAAAATA
6194099 TAAATTACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTAATAATTTTTAAAATA
Found at i:6198409 original size:27 final size:28
Alignment explanation
Indices: 6198370--6198423 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
6198360 ATTGAATACG
* *
6198370 AAGGAGGTTGCTAAGTGCTGATTCCCCC
1 AAGGAGGTTGCTAAGTACCGATTCCCCC
6198398 AAGG-GGTTGCTAAGTACCGATTCCCC
1 AAGGAGGTTGCTAAGTACCGATTCCCC
6198424 GACTCATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (28 bp):
AAGGAGGTTGCTAAGTACCGATTCCCCC
Found at i:6198528 original size:75 final size:74
Alignment explanation
Indices: 6198398--6198566 Score: 248
Period size: 75 Copynumber: 2.3 Consensus size: 74
6198388 TGATTCCCCC
* * * * *
6198398 AAGGGGTTGCTAAGTACCGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGCTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
6198463 TTAAATGTG
66 TTAAATGTG
* * *
6198472 AAATGGGCTGCTAAGTGCTGATTCCCCGAATTACTGGTGGTTGCTAAGTGCTGATCCTACCGTAT
1 -AAGGGGCTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTAT
6198537 CTTAAATGTG
65 CTTAAATGTG
*
6198547 AAGGGGTTGCTAAGTGCTGA
1 AAGGGGCTGCTAAGTGCTGA
6198567 ATCCATCGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 18 0.21
75 66 0.79
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (74 bp):
AAGGGGCTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTG
Found at i:6223427 original size:105 final size:101
Alignment explanation
Indices: 6223244--6223460 Score: 256
Period size: 105 Copynumber: 2.1 Consensus size: 101
6223234 AATTGATGAA
* * **
6223244 TAAGACCATGGTTGGACCATGAAAATGTTTATATGTAAGACCATAGCTGAGTTATGACATTTTAA
1 TAAGACCATGGTTGGACCATGAAAATGTATATATGTAAGACCATAGCTGAGCTATGACATCCTAA
* * *
6223309 TGAAAAGATCATAACTGGGTTATGGCACTT-TGAATG
66 TGAAAAGACCATAACTGGGTCATGGCA-TTACGAATG
* * * *
6223345 TAAGACCATGGTTGGACCATGGCAGTAAATGTATATGTGTAAGGCCATAGCTGGGCTATGGCATC
1 TAAGACCATGGTTGGACCAT-G-A--AAATGTATATATGTAAGACCATAGCTGAGCTATGACATC
* * *
6223410 CTGATGATAAGACCATAACTGGGTCATGGCATTACGAGTG
62 CTAATGAAAAGACCATAACTGGGTCATGGCATTACGAATG
6223450 TAAGACCATGG
1 TAAGACCATGG
6223461 CAGGGCCATG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 20 0.21
102 1 0.01
103 1 0.01
104 2 0.02
105 73 0.75
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGAAAATGTATATATGTAAGACCATAGCTGAGCTATGACATCCTAA
TGAAAAGACCATAACTGGGTCATGGCATTACGAATG
Found at i:6225548 original size:17 final size:16
Alignment explanation
Indices: 6225474--6225550 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 16
6225464 AACATAAAAC
6225474 TTAAAAAATATATATTAAT
1 TTAAAAAAT-TATA--AAT
* *
6225493 TAAAAAAATTATAAAAAA
1 TTAAAAAATTAT--AAAT
*
6225511 TT-ATAAATTATAAAT
1 TTAAAAAATTATAAAT
*
6225526 TTAAAAAATTATAATT
1 TTAAAAAATTATAAAT
6225542 CTTAAAAAA
1 -TTAAAAAA
6225551 ACTCTAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 5 0.11
16 11 0.23
17 16 0.34
18 6 0.13
19 8 0.17
20 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAAATTATAAAT
Found at i:6227479 original size:19 final size:20
Alignment explanation
Indices: 6227453--6227503 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
6227443 ATACTTCATC
*
6227453 ATTATTTTTTTAATTTTTAA
1 ATTATTTTTTGAATTTTTAA
*
6227473 A-TATTTTTAGAATTTTTAA
1 ATTATTTTTTGAATTTTTAA
6227492 ATTATTTTTTGA
1 ATTATTTTTTGA
6227504 CGAAACATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
ATTATTTTTTGAATTTTTAA
Found at i:6232689 original size:21 final size:21
Alignment explanation
Indices: 6232663--6232703 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6232653 AGACGAGCAA
* *
6232663 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6232684 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6232704 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6240962 original size:18 final size:19
Alignment explanation
Indices: 6240935--6240972 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6240925 TTTTAAATTT
*
6240935 TTTTATAAA-TATTTGGAA
1 TTTTAAAAATTATTTGGAA
*
6240953 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTGGAA
6240972 T
1 T
6240973 ATTTTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATTATTTGGAA
Found at i:6245355 original size:11 final size:11
Alignment explanation
Indices: 6245341--6245373 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
6245331 TACATGAACT
6245341 ATAAATTTTAA
1 ATAAATTTTAA
6245352 ATAAATTTTAA
1 ATAAATTTTAA
6245363 ATAAATTTTAA
1 ATAAATTTTAA
6245374 GTAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAAATTTTAA
Found at i:6246470 original size:22 final size:22
Alignment explanation
Indices: 6246443--6246484 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6246433 CAGCTCGTAT
6246443 GAGCTTACCGTTTCAGCTCACG
1 GAGCTTACCGTTTCAGCTCACG
6246465 GAGCTTACCGTTTCAGCTCA
1 GAGCTTACCGTTTCAGCTCA
6246485 ATAGAGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (22 bp):
GAGCTTACCGTTTCAGCTCACG
Found at i:6246495 original size:23 final size:22
Alignment explanation
Indices: 6246443--6246496 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
6246433 CAGCTCGTAT
*
6246443 GAGCTTACCGTTTCAGCTCACG
1 GAGCTTACCGTTTCAGCTCACA
*
6246465 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTC-ACA
6246488 GAGCTTACC
1 GAGCTTACC
6246497 ATTTATTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (22 bp):
GAGCTTACCGTTTCAGCTCACA
Found at i:6246817 original size:25 final size:25
Alignment explanation
Indices: 6246763--6246819 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
6246753 GGAAAAAAAT
* * **
6246763 TGATATAAATGTTATATGATTTACA
1 TGATTTAAAAGTTATATGAAATACA
6246788 TGATTTAAAAGTTATATGAAATACA
1 TGATTTAAAAGTTATATGAAATACA
6246813 TGATTTA
1 TGATTTA
6246820 CATGGATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (25 bp):
TGATTTAAAAGTTATATGAAATACA
Found at i:6249211 original size:17 final size:18
Alignment explanation
Indices: 6249189--6249222 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6249179 ACAACTTCTA
*
6249189 TTAAAT-TATAATTATTT
1 TTAAATATATAACTATTT
6249206 TTAAATATATAACTATT
1 TTAAATATATAACTATT
6249223 ACAACTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATATATAACTATTT
Found at i:6255358 original size:21 final size:21
Alignment explanation
Indices: 6255332--6255371 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6255322 TACGGATTTG
* *
6255332 ATAACAGATTCGAATAAGATC
1 ATAACAGATCCAAATAAGATC
6255353 ATAACAGATCCAAATAAGA
1 ATAACAGATCCAAATAAGA
6255372 AATAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (21 bp):
ATAACAGATCCAAATAAGATC
Found at i:6257368 original size:6 final size:6
Alignment explanation
Indices: 6257357--6257387 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
6257347 TATTAATTAC
6257357 ATGCAG ATGCAG ATGCAG ATGCAG ATTGCAG
1 ATGCAG ATGCAG ATGCAG ATGCAG A-TGCAG
6257388 TGAGTGTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (6 bp):
ATGCAG
Found at i:6260089 original size:13 final size:14
Alignment explanation
Indices: 6260071--6260099 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6260061 TAAATTTTGA
6260071 AAAATATAAAA-TT
1 AAAATATAAAACTT
6260084 AAAATATAAAACTT
1 AAAATATAAAACTT
6260098 AA
1 AA
6260100 GCTCTAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAACTT
Found at i:6262440 original size:25 final size:23
Alignment explanation
Indices: 6262408--6262460 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
6262398 AACTTTATTT
*
6262408 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
*
6262432 CTTATTATTATTTCCATTATTCTA
1 -TTATTATTAATTCCATTATTCTA
6262456 TTATT
1 TTATT
6262461 TCTTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 3 0.12
25 18 0.69
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:6264164 original size:170 final size:170
Alignment explanation
Indices: 6263837--6264174 Score: 651
Period size: 169 Copynumber: 2.0 Consensus size: 170
6263827 CCTCGTGCGA
*
6263837 AACCGACTCCCGAACTCATTTTTCTGAATTTCGTAGACCAAAATCGTTGTTTTAATAAAATTAAA
1 AACCGACTCCAGAACTCATTTTTCTGAATTTCGTAGACCAAAATCGTTGTTTTAATAAAATTAAA
*
6263902 TCATTTATTAAAAAAAACAACCACTTTTTGAGGTGACCCGATCACACCTCATCAAAAAGGATTGG
66 TCATTTATTAAAAAAAACAACCACTTTTTGAGGTGACCCGATCACACCTCATCAAAAAGAATTGG
6263967 TGGCGACTCCCGTTTTCATTCTTTTTTTTTTAAATCCAAT
131 TGGCGACTCCCGTTTTCATTCTTTTTTTTTTAAATCCAAT
6264007 AACCGACTCCAGAACTCATTTTTCTGAATTTCGTAGACCAAAATCGTTGTTTTAATAAAATTAAA
1 AACCGACTCCAGAACTCATTTTTCTGAATTTCGTAGACCAAAATCGTTGTTTTAATAAAATTAAA
6264072 TCATTTATT-AAAAAAACAACCACTTTTTGAGGTGACCCGATCACACCTCATCAAAAAGAATTGG
66 TCATTTATTAAAAAAAACAACCACTTTTTGAGGTGACCCGATCACACCTCATCAAAAAGAATTGG
6264136 TGGCGACTCCCGTTTTCATTCTTTTTTTTTTAAATCCAA
131 TGGCGACTCCCGTTTTCATTCTTTTTTTTTTAAATCCAA
6264175 GTCGACCCCG
Statistics
Matches: 166, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
169 93 0.56
170 73 0.44
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (170 bp):
AACCGACTCCAGAACTCATTTTTCTGAATTTCGTAGACCAAAATCGTTGTTTTAATAAAATTAAA
TCATTTATTAAAAAAAACAACCACTTTTTGAGGTGACCCGATCACACCTCATCAAAAAGAATTGG
TGGCGACTCCCGTTTTCATTCTTTTTTTTTTAAATCCAAT
Found at i:6275874 original size:60 final size:60
Alignment explanation
Indices: 6275776--6275895 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
6275766 ATCATGTCAT
* * *
6275776 CCTAAACACTAGGCATAAATAGGTCCATGAAATGGATTTTGCAGGTCATGCTCCCCAGAG
1 CCTAAACACTAGGCATAAATAGGTCCATGAAATAGATTTTACAGGTCATGATCCCCAGAG
6275836 CCTAAACACTAGGCATAAATAGGTCCATGAAATAGATTTTACAGGTCATGATCCCCAGAG
1 CCTAAACACTAGGCATAAATAGGTCCATGAAATAGATTTTACAGGTCATGATCCCCAGAG
6275896 GACAGATCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (60 bp):
CCTAAACACTAGGCATAAATAGGTCCATGAAATAGATTTTACAGGTCATGATCCCCAGAG
Found at i:6276019 original size:44 final size:44
Alignment explanation
Indices: 6275969--6276450 Score: 275
Period size: 44 Copynumber: 10.9 Consensus size: 44
6275959 AAGCAGATCT
* *
6275969 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
1 TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
* ** * * * *
6276013 TATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT-GCAGATTT
1 TGTCTTCCTATATTG-GCGTGAAGTAGATCGAAGATAGCAGGTTC
* * * * * *
6276056 TGTCTTCCCATATTGGAGGCGAAGTAGATCGCAGAAAGCA-GATC
1 TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGGTTC
* *
6276100 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
1 -TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
* ** * * * *
6276145 TATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT-GCAGATTT
1 TGTCTTCCTATATTG-GCGTGAAGTAGATCGAAGATAGCAGGTTC
* * * * *
6276188 TGTCTTCCCATATTGGAGGCGAAGTAGATCGCAGAAAGCAGG-TC
1 TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGGTTC
* * *
6276232 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCC
1 -TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
* * ** *
6276277 TATCTTCCTATATTGGTAG-GAAGGGGATCGAAGAT-GCA-GATC
1 TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGGTTC
* * * * * * *
6276319 TTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAAAGCA-GATC
1 -TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGGTTC
* * * * * *
6276364 TTATCTTCATGTATTGCCGTGAAGTAGATCGAAGATTGCA-GATC
1 -TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
* * * * *
6276408 TTGCCTTCCTGTATATGGCAGAGAAGCAGATCGAAGATGGCAG
1 -TGTCTTCCTATAT-TGGC-GTGAAGTAGATCGAAGATAGCAG
6276451 ATTTTACCTC
Statistics
Matches: 330, Mismatches: 89, Indels: 35
0.73 0.20 0.08
Matches are distributed among these distances:
42 2 0.01
43 58 0.18
44 190 0.58
45 61 0.18
46 19 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGGTTC
Found at i:6276417 original size:132 final size:132
Alignment explanation
Indices: 6275949--6276404 Score: 813
Period size: 132 Copynumber: 3.5 Consensus size: 132
6275939 GGATGGATTG
6275949 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
1 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
6276014 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
66 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
6276079 GT
131 GT
6276081 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
1 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
6276146 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
66 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
6276211 GT
131 GT
* *
6276213 AGATCGCAGAAAGCAGGTCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCT
1 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
* * * * * *
6276278 ATCTTCCTATATTGGTAGGAAGGGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAA
66 ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
6276343 GT
131 GT
* * *
6276345 AGATCGCAGAAAGCAGATCTTATCTTCATGTATTGCCGTGAAGTAGATCGAAGATTGCAG
1 AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
6276405 ATCTTGCCTT
Statistics
Matches: 312, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 312 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
AGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTTCT
ATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATTTTGTCTTCCCATATTGGAGGCGAA
GT
Found at i:6276569 original size:43 final size:43
Alignment explanation
Indices: 6276516--6276725 Score: 131
Period size: 43 Copynumber: 4.8 Consensus size: 43
6276506 GTATTTGGCA
* **
6276516 GTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGT
1 GTGGAGTAGATTAAAGACGACAGATCTTATCTCCCTAAGCAGT
* * * * * * **
6276559 GTGGAGTAGATCAAAGACGGCAGATTTTACCTCCCTGACCACA
1 GTGGAGTAGATTAAAGACGACAGATCTTATCTCCCTAAGCAGT
* * * * *
6276602 GTGGAGTACATTGAAGCCGATA-A-CTCTATCTCCCTGTATTTGGCA--
1 GTGGAGTAGATTAAAGACGACAGATCT-TATCTCCC--TA---AGCAGT
* **
6276647 GTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGT
1 GTGGAGTAGATTAAAGACGACAGATCTTATCTCCCTAAGCAGT
* * * *
6276690 GTGGAGTAGATCAAAGACGGCAGATTTTACCTCCCT
1 GTGGAGTAGATTAAAGACGACAGATCTTATCTCCCT
6276726 GACTACAGTG
Statistics
Matches: 120, Mismatches: 37, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
41 4 0.03
42 8 0.07
43 77 0.64
44 3 0.03
45 15 0.12
46 9 0.08
47 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
GTGGAGTAGATTAAAGACGACAGATCTTATCTCCCTAAGCAGT
Done.