Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 188 of 284
Found at i:63647619 original size:20 final size:20
Alignment explanation
Indices: 63647594--63647633 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
63647584 AATATTTTCC
*
63647594 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
63647614 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
63647634 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:63647639 original size:34 final size:35
Alignment explanation
Indices: 63647582--63647648 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
63647572 CAAACACTAG
*
63647582 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
63647617 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
63647649 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:63647640 original size:14 final size:14
Alignment explanation
Indices: 63647617--63647656 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
63647607 ACAGAAAAGT
*
63647617 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
63647631 AAATCATTTTACGG
1 AAAACATTTTACAG
63647645 AAAACATTTTAC
1 AAAACATTTTAC
63647657 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:63652697 original size:30 final size:30
Alignment explanation
Indices: 63652663--63652725 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
63652653 ACTTATTTTA
63652663 TTGTTAAATTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
* *
63652693 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
63652723 TTG
1 TTG
63652726 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGCAT
Found at i:63653433 original size:5 final size:5
Alignment explanation
Indices: 63653406--63653453 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
63653396 TTAACCCAAG
* **
63653406 AATAA AAGAA AAGGA AATAAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AA
63653454 ATGAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:63655455 original size:10 final size:10
Alignment explanation
Indices: 63655442--63655466 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63655432 AAACATAAGC
63655442 TATTTCTGAT
1 TATTTCTGAT
63655452 TATTTCTGAT
1 TATTTCTGAT
63655462 TATTT
1 TATTT
63655467 GAGGTTAACT
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TATTTCTGAT
Found at i:63660057 original size:24 final size:24
Alignment explanation
Indices: 63660030--63660078 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
63660020 CAACTGGGGT
63660030 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
63660054 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
63660078 T
1 T
63660079 CTTAAGTTTT
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:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
TGCATTTAAAGGATCTGAGATTGA
Found at i:63673781 original size:6 final size:6
Alignment explanation
Indices: 63673770--63673819 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
63673760 GGCGGAAATG
*
63673770 GTGGTT GTGGTT GTGGTT GTGGTT GTGGCT GTGGTT GTGGTT GTGGTT
1 GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT GTGGTT
63673818 GT
1 GT
63673820 TGAGAGAGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (6 bp):
GTGGTT
Found at i:63680096 original size:14 final size:16
Alignment explanation
Indices: 63680077--63680117 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
63680067 AATAAAAGAG
63680077 TAATTATCAT-GATA-
1 TAATTATCATAGATAT
* *
63680091 TAATTACCATATATAT
1 TAATTATCATAGATAT
63680107 TAATTATCATA
1 TAATTATCATA
63680118 ATTTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 10 0.45
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTATCATAGATAT
Found at i:63688772 original size:4 final size:4
Alignment explanation
Indices: 63688765--63688791 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63688755 ATATTAAGTA
63688765 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
63688792 AAAAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:63688985 original size:31 final size:31
Alignment explanation
Indices: 63688917--63688993 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
63688907 TTGGTCTATT
*
63688917 TCGGTACCTAAACTTGACACTTTTTTCTAAT
1 TCGGTACCTAAACTTGACACTTTTTTCTAAG
*
63688948 TTGGTACCTAAACTTGACAC-TTTTTCTTAAG
1 TCGGTACCTAAACTTGACACTTTTTTC-TAAG
*
63688979 TCGGTACTTAAACTT
1 TCGGTACCTAAACTT
63688994 TTTGGGAGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (31 bp):
TCGGTACCTAAACTTGACACTTTTTTCTAAG
Found at i:63699988 original size:28 final size:28
Alignment explanation
Indices: 63699937--63700005 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
63699927 AATAAACACC
* *
63699937 AAAATTTTATTTTTAAAATAAAAAATAA
1 AAAATATTATTTTAAAAATAAAAAATAA
63699965 AAAA-ATTATTTTAAAAATAAAAAAATAA
1 AAAATATTATTTTAAAAAT-AAAAAATAA
63699993 AAAATATATATTT
1 AAAATAT-TATTT
63700006 ATTATATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 12 0.33
28 17 0.47
29 2 0.06
30 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAATATTATTTTAAAAATAAAAAATAA
Found at i:63703439 original size:22 final size:21
Alignment explanation
Indices: 63703393--63703439 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
63703383 CACTAATTCT
*
63703393 TAATCTAATCGATTTGAACAC
1 TAATCTAATCGATTTGAACAA
63703414 TAATCTAATCTGATTTTGAA-AA
1 TAATCTAATC-GA-TTTGAACAA
63703436 TAAT
1 TAAT
63703440 ACAACAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (21 bp):
TAATCTAATCGATTTGAACAA
Found at i:63703955 original size:31 final size:31
Alignment explanation
Indices: 63703889--63703962 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
63703879 AAAACTTAAC
* *
63703889 AATTTAGTAACTTAAATAAAAACTTATGAAA
1 AATTTAATGACTTAAATAAAAACTTATGAAA
*
63703920 AATTTAATGACTTAAATAAAAACTT-TCGAAT
1 AATTTAATGACTTAAATAAAAACTTAT-GAAA
63703951 AATTTAATGACT
1 AATTTAATGACT
63703963 ATTTTATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (31 bp):
AATTTAATGACTTAAATAAAAACTTATGAAA
Found at i:63708556 original size:18 final size:18
Alignment explanation
Indices: 63708535--63708573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
63708525 CAATATACCC
63708535 TTTTT-TCTTTTTATATAT
1 TTTTTATCTTTTTA-ATAT
*
63708553 TTTTTATTTTTTTAATAT
1 TTTTTATCTTTTTAATAT
63708571 TTT
1 TTT
63708574 AAAAGAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATCTTTTTAATAT
Found at i:63708557 original size:17 final size:18
Alignment explanation
Indices: 63708535--63708573 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
63708525 CAATATACCC
*
63708535 TTTTTTCTTTTTAT-ATA
1 TTTTTTATTTTTATAATA
*
63708552 TTTTTTATTTTTTTAATA
1 TTTTTTATTTTTATAATA
63708570 TTTT
1 TTTT
63708574 AAAAGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTTATAATA
Found at i:63710366 original size:6 final size:6
Alignment explanation
Indices: 63710352--63710383 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
63710342 AACACAGTGG
*
63710352 AGGTAA AGGTGA AGGTGA AGGTGA AGGTGA AG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AG
63710384 ATGACAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.16
Consensus pattern (6 bp):
AGGTGA
Found at i:63710428 original size:13 final size:13
Alignment explanation
Indices: 63710410--63710437 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63710400 TTGGGTGAGC
63710410 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
63710423 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
63710436 AA
1 AA
63710438 AAAGAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:63710439 original size:8 final size:7
Alignment explanation
Indices: 63710410--63710438 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
63710400 TTGGGTGAGC
63710410 AAGAAAA
1 AAGAAAA
63710417 AAG-AAA
1 AAGAAAA
63710423 AAGAAAA
1 AAGAAAA
63710430 AAGAAAA
1 AAGAAAA
63710437 AA
1 AA
63710439 AAGAGAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:63715429 original size:18 final size:17
Alignment explanation
Indices: 63715386--63715431 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
63715376 CCGTTATGTC
63715386 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
63715401 CACGA-CGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
63715418 CGCGACCGCGACCG
1 CGCGACCGCGACCG
63715432 CAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
17 7 0.28
18 8 0.32
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:63718529 original size:3 final size:3
Alignment explanation
Indices: 63718521--63718548 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
63718511 AATTTGTTTG
63718521 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
63718549 TCTTAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:63721829 original size:35 final size:35
Alignment explanation
Indices: 63721789--63721858 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
63721779 AATATTTAAG
63721789 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
1 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
63721824 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
1 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
63721859 TGGTACACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (35 bp):
ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
Found at i:63722505 original size:30 final size:32
Alignment explanation
Indices: 63722464--63722537 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 32
63722454 GTGTTAAGTT
*
63722464 TTTGTATTTTTTGTATATTT-AGAATTTAG-TC
1 TTTG-ATTTTTTGTATATTTAAGAATTTAGCCC
* *
63722495 TTTGATTTTTTTTATTTTTAAGAATTTAGCCC
1 TTTGATTTTTTGTATATTTAAGAATTTAGCCC
*
63722527 TTTTATTTTTT
1 TTTGATTTTTT
63722538 AAAATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.35
31 13 0.35
32 11 0.30
ACGTcount: A:0.20, C:0.05, G:0.09, T:0.65
Consensus pattern (32 bp):
TTTGATTTTTTGTATATTTAAGAATTTAGCCC
Found at i:63727890 original size:14 final size:15
Alignment explanation
Indices: 63727871--63727899 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63727861 GTTTCCATTT
63727871 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
63727885 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
63727900 CTGCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:63728890 original size:14 final size:15
Alignment explanation
Indices: 63728863--63728891 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63728853 TGATTTGCAG
63728863 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
63728878 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
63728892 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:63733700 original size:20 final size:20
Alignment explanation
Indices: 63733666--63733703 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63733656 TCCCACATGG
63733666 TATAATGTAAAATAAAAGAA
1 TATAATGTAAAATAAAAGAA
63733686 TATAA-GTAAAGATAAAAG
1 TATAATGTAAA-ATAAAAG
63733704 CATCTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
TATAATGTAAAATAAAAGAA
Found at i:63733804 original size:12 final size:12
Alignment explanation
Indices: 63733787--63733813 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63733777 CATTGAAGGC
63733787 TCAAGATGAAAT
1 TCAAGATGAAAT
63733799 TCAAGATGAAAT
1 TCAAGATGAAAT
63733811 TCA
1 TCA
63733814 CTTCAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (12 bp):
TCAAGATGAAAT
Found at i:63739020 original size:17 final size:16
Alignment explanation
Indices: 63738998--63739044 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
63738988 CAATTAACTG
63738998 ACAAAATATATAAAAAT
1 ACAAAATA-ATAAAAAT
*
63739015 ACAAAA-AATATAAAT
1 ACAAAATAATAAAAAT
*
63739030 ATAAAATAATAAAAA
1 ACAAAATAATAAAAA
63739045 CGAACAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.46
16 8 0.31
17 6 0.23
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAAATAATAAAAAT
Found at i:63742075 original size:19 final size:18
Alignment explanation
Indices: 63742047--63742083 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
63742037 AAGTTGGATG
63742047 TTTTTCTTTTCTTCTCTTT
1 TTTTTCTTTTCTT-TCTTT
*
63742066 TTTTTGTTTTCTTTCTTT
1 TTTTTCTTTTCTTTCTTT
63742084 CTTGTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTCTTTCTTT
Found at i:63748425 original size:129 final size:129
Alignment explanation
Indices: 63748193--63748502 Score: 430
Period size: 129 Copynumber: 2.4 Consensus size: 129
63748183 AAAAATTTAT
* * * * *
63748193 GTCAGAATGAGATACAC-TTG-ACATGCCATGTGTAACTGT-TTGGTTATTCTATGCATTTTATC
1 GTCAGAATGAGGTACACATGGCACAT--CATGTGTAACTGTCTT-GTTATTTTGTACATTTTATC
* * *
63748255 AAAAAGCAAACTGGTCATTTTATTAAAAATCTCATTCATTTCTACTGTTAAGAATTGGTCCTTGA
63 AAAAAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGA
63748320 AC
128 AC
63748322 GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
1 GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
* * *
63748387 AAGCAAACTGGTCATTCTATTAAAAGTTTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAT
66 AAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAC
* **
63748451 GTCAGAATGAGGTACACATGGCATGA-CATGTGTAACTGTCTAATTATTTTGT
1 GTCAGAATGAGGTACACATGGCA-CATCATGTGTAACTGTCTTGTTATTTTGT
63748503 TAATGTCAGT
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
129 154 0.94
130 5 0.03
131 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (129 bp):
GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
AAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAC
Found at i:63750754 original size:26 final size:26
Alignment explanation
Indices: 63750725--63750813 Score: 65
Period size: 30 Copynumber: 3.2 Consensus size: 26
63750715 TGTTATATAT
63750725 ATATTATTATTTTTTAACAAATTTAC
1 ATATTATTATTTTTTAACAAATTTAC
* * *
63750751 ATATT-TT-TTTTATAAAATATCATGTTAT
1 ATATTATTATTTTTTAACA-A--AT-TTAC
63750779 ATATATATTATTATTTTTTAACAAATTTAC
1 ATAT-TATTA---TTTTTTAACAAATTTAC
63750809 ATATT
1 ATATT
63750814 TTTTTTATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 17
0.67 0.09 0.24
Matches are distributed among these distances:
24 8 0.17
25 3 0.06
26 5 0.11
27 2 0.04
28 7 0.15
29 2 0.04
30 9 0.19
31 2 0.04
33 1 0.02
34 8 0.17
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (26 bp):
ATATTATTATTTTTTAACAAATTTAC
Found at i:63750764 original size:58 final size:58
Alignment explanation
Indices: 63750674--63750858 Score: 345
Period size: 58 Copynumber: 3.2 Consensus size: 58
63750664 ATTTAAGATG
63750674 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
1 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
63750732 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
1 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
63750790 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATA-TAT
1 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
63750847 ATATTATTTTAA
1 -TATT-TTTTAA
63750859 AATTAAAAAA
Statistics
Matches: 125, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
57 3 0.02
58 116 0.93
59 6 0.05
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (58 bp):
TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
Found at i:63750871 original size:25 final size:26
Alignment explanation
Indices: 63750843--63750902 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
63750833 TTATATATAT
**
63750843 ATATATATTATTTTAAAAT-TAAAAA
1 ATATATAAAATTTTAAAATATAAAAA
*
63750868 ATATATAAAATTTTTAAATATAAAAA
1 ATATATAAAATTTTAAAATATAAAAA
*
63750894 TTA-ATAAAA
1 ATATATAAAA
63750903 AAATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATATAAAATTTTAAAATATAAAAA
Found at i:63750878 original size:17 final size:17
Alignment explanation
Indices: 63750856--63750902 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
63750846 TATATTATTT
63750856 TAAAATTAAAAAATATA
1 TAAAATTAAAAAATATA
***
63750873 TAAAATTTTTAAATATA
1 TAAAATTAAAAAATATA
63750890 -AAAATTAATAAAA
1 TAAAATTAA-AAAA
63750903 AAATATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAATATA
Found at i:63760959 original size:5 final size:5
Alignment explanation
Indices: 63760946--63760982 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
63760936 ACCTTTTTCT
63760946 TTTTCA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
63760983 GTCCACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:63761242 original size:29 final size:29
Alignment explanation
Indices: 63761173--63761246 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
63761163 TCACTATTAT
*
63761173 ATTGACTTAT-ATTTTA-TAGTTTTTAAG
1 ATTGAATTATAATTTTATTAGTTTTTAAG
* * * *
63761200 ATTAAATCAAAATTTTATTATTTTTTAAG
1 ATTGAATTATAATTTTATTAGTTTTTAAG
*
63761229 GTTGAATTATAATTTTAT
1 ATTGAATTATAATTTTAT
63761247 CATGTATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 24 0.67
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (29 bp):
ATTGAATTATAATTTTATTAGTTTTTAAG
Found at i:63770140 original size:105 final size:101
Alignment explanation
Indices: 63770007--63770223 Score: 290
Period size: 105 Copynumber: 2.1 Consensus size: 101
63769997 CATGGCCCTG
***
63770007 CCATGGTCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
* * * *
63770072 TCTATGGTCTTACACATGTATATATACTGCTATGGTCCAA
66 GCTATGGTCTT--ACAT-T-TAAACACTGCCATGGTCCAA
* * * * *
63770112 CCATGGTCTTACGTTCAAAGTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCTA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
63770177 GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
66 GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
63770213 CCATGGTCTTA
1 CCATGGTCTTA
63770224 TCCGTCAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
101 28 0.28
102 1 0.01
103 4 0.04
105 67 0.67
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
Found at i:63770196 original size:33 final size:33
Alignment explanation
Indices: 63770009--63770205 Score: 92
Period size: 33 Copynumber: 5.7 Consensus size: 33
63769999 TGGCCCTGCC
** * *
63770009 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* * * *
63770042 ATGGTCTTATCA-TCAAAATGACATAGCCCATCT
1 ATGGTCTTA-CATTTAAAATGCCATAACCCAGCT
* * *** * *
63770075 ATGGTCTTACACATGTATATATACTGCTATGGTCCAACC
1 ATGGTCTT--ACAT-T-TA-A-AATGCCATAACCCAGCT
* * * *
63770114 ATGGTCTTACGTTCAAAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* * *
63770147 ATGGTCTTTTCA-TTAAAATGCCATAGCCTAGCT
1 ATGGTC-TTACATTTAAAATGCCATAACCCAGCT
63770180 ATGGTCTTACATTTAAACACTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
63770206 GGTCCAACCA
Statistics
Matches: 118, Mismatches: 34, Indels: 22
0.68 0.20 0.13
Matches are distributed among these distances:
32 4 0.03
33 72 0.61
34 9 0.08
35 8 0.07
36 2 0.02
37 4 0.03
38 1 0.01
39 18 0.15
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:63773276 original size:16 final size:16
Alignment explanation
Indices: 63773257--63773287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63773247 TTAGAGAAGG
*
63773257 GGTAATGGTCCTCTAA
1 GGTAATGGTACTCTAA
63773273 GGTAATGGTACTCTA
1 GGTAATGGTACTCTA
63773288 TGATGTTAGA
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:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
GGTAATGGTACTCTAA
Found at i:63775664 original size:104 final size:103
Alignment explanation
Indices: 63775479--63775669 Score: 249
Period size: 104 Copynumber: 1.8 Consensus size: 103
63775469 CATCTGCCGA
** **
63775479 ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATGCTACCGAAAATTAAAACTTACCA
1 ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATACAAAAAATTAAAACTTACCA
* *
63775544 ACAAGTATTGAATGCAGTGACAGTAACAATGGCAGAAT
66 ACAAATATTGAATGCAGCGACAGTAACAATGGCAGAAT
* * *
63775582 ATATAAATATTCATGTTATTTGCATTGTATCAGTTTCAAAATAATACAAAAAAATTAAAGC-TAC
1 ATAT-AATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATAC-AAAAAATTAAAACTTAC
* **
63775646 CAATAAATATTGGGTGCAGCGACA
64 CAACAAATATTGAATGCAGCGACA
63775670 ATAGTGGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
103 4 0.05
104 60 0.81
105 10 0.14
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (103 bp):
ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATACAAAAAATTAAAACTTACCA
ACAAATATTGAATGCAGCGACAGTAACAATGGCAGAAT
Found at i:63776720 original size:52 final size:52
Alignment explanation
Indices: 63776642--63776746 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
63776632 TTTGACACAC
63776642 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
1 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
63776694 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
1 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
63776746 G
1 G
63776747 CCAAGCTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.27
Consensus pattern (52 bp):
GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
Found at i:63778711 original size:39 final size:42
Alignment explanation
Indices: 63778648--63778738 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 42
63778638 TAAAAAGTAT
*
63778648 TTATATTAAAAAAAACTACTATAAATATAATGAAT-GTTTTA
1 TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
* *
63778689 TTATATTAAAAAACAC-A-TATAAATATAATAAATATTTTTA
1 TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
*
63778729 TTTTATTAAA
1 TTATATTAAA
63778739 TATAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 15 0.33
40 15 0.33
41 15 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (42 bp):
TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
Found at i:63778739 original size:27 final size:28
Alignment explanation
Indices: 63778708--63778761 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
63778698 AAAACACATA
63778708 TAAATATAA-TAAATATTTT-TATTTTAT
1 TAAATATAATTAAA-ATTTTATATTTTAT
63778735 TAAATATAATTTAAAATTTTATATTTT
1 TAAATATAA-TTAAAATTTTATATTTT
63778762 GGGTTGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.38
28 5 0.21
29 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TAAATATAATTAAAATTTTATATTTTAT
Found at i:63788049 original size:20 final size:20
Alignment explanation
Indices: 63788024--63788062 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63788014 TTCATCTCAT
63788024 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
63788044 GCATCGCATTATATGCATT
1 GCATCGCATCATATGCATT
63788063 TAAGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:63796250 original size:50 final size:50
Alignment explanation
Indices: 63796196--63796555 Score: 345
Period size: 50 Copynumber: 7.2 Consensus size: 50
63796186 AAAGCTACGG
63796196 CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
*** * * * * * *
63796246 CGGCGGATCTTACTT-CCTTAGTAGTGC-AGTAGAACAGATTGAAGCTACGA
1 CGGCGGATCTGGTTTCCCTGA-TATTGCAATTA-AAAAGATTGAAGCCACAA
*
63796296 CAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
*** * * * * * *
63796346 CGGCGGATCTTACTT-CCTTAGTAGTGC-AGTAGAACAGATTGAAGCTACGA
1 CGGCGGATCTGGTTTCCCTGA-TATTGCAATTA-AAAAGATTGAAGCCACAA
*
63796396 CAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
*** * * * * * *
63796446 CGGCGGATCTTACTT-CCTTAGTAGTGC-AGTAGAACAGATTGAAGCTACGA
1 CGGCGGATCTGGTTTCCCTGA-TATTGCAATTA-AAAAGATTGAAGCCACAA
*
63796496 CAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
1 CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
*
63796546 CGGCAGATCT
1 CGGCGGATCT
63796556 TACGGTGCGG
Statistics
Matches: 237, Mismatches: 61, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
49 21 0.09
50 195 0.82
51 21 0.09
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (50 bp):
CGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAA
Found at i:63796302 original size:100 final size:100
Alignment explanation
Indices: 63796126--63796629 Score: 794
Period size: 100 Copynumber: 5.1 Consensus size: 100
63796116 GGTTGAAAAG
* * ** *
63796126 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTAAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
* *
63796191 TACGGCGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
63796226 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
63796291 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
63796326 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
63796391 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
63796426 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
63796491 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
63796526 TAAAAAGATTGAAGCCACAACGGCAGATCTTA----C---G--GTGCGGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
** * * * *
63796582 TATAACGGTGGATCTGGTTTCCCTGACATTGCAGT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
63796617 TAAATAA-ATTGAA
1 TAAA-AAGATTGAA
63796630 AATTTCAGAT
Statistics
Matches: 388, Mismatches: 15, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
91 60 0.15
92 2 0.01
93 1 0.00
96 1 0.00
100 324 0.84
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGC
TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:63800468 original size:24 final size:24
Alignment explanation
Indices: 63800440--63800488 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
63800430 TTTCTAGAAG
* *
63800440 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
63800464 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
63800488 A
1 A
63800489 CTTGACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:63801641 original size:22 final size:22
Alignment explanation
Indices: 63801616--63801657 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63801606 TTAATCTGAT
*
63801616 ATATCAATTATATTGATATAAA
1 ATATCAATTATATTAATATAAA
* *
63801638 ATATTATTTATATTAATATA
1 ATATCAATTATATTAATATA
63801658 TATTTAACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATCAATTATATTAATATAAA
Found at i:63820852 original size:18 final size:18
Alignment explanation
Indices: 63820829--63820885 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
63820819 CCCAACTACT
*
63820829 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
63820847 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
63820865 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
63820883 GTA
1 GTA
63820886 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:63823156 original size:19 final size:19
Alignment explanation
Indices: 63823132--63823169 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
63823122 TTGATGTTGG
63823132 GGATAATGACTAATAGTTT
1 GGATAATGACTAATAGTTT
63823151 GGATAATGACTAATAGTTT
1 GGATAATGACTAATAGTTT
63823170 TCTTGCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
GGATAATGACTAATAGTTT
Found at i:63829051 original size:3 final size:3
Alignment explanation
Indices: 63829037--63829129 Score: 109
Period size: 3 Copynumber: 31.3 Consensus size: 3
63829027 CCTGTCATTG
* * * *
63829037 TTA TTT TTA TTA TTA TTA -AA CTAA TT- TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
63829081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63829129 T
1 T
63829130 GTATATCTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
2 3 0.04
3 72 0.94
4 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:63829243 original size:12 final size:12
Alignment explanation
Indices: 63829226--63829259 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
63829216 ATATTTTATA
63829226 ATCTATATACAT
1 ATCTATATACAT
63829238 ATCTATAT--AT
1 ATCTATATACAT
63829248 ATCTATATACAT
1 ATCTATATACAT
63829260 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (12 bp):
ATCTATATACAT
Found at i:63833243 original size:15 final size:15
Alignment explanation
Indices: 63833223--63833251 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63833213 TACATCAACC
63833223 CCATCCTTATCTCCG
1 CCATCCTTATCTCCG
63833238 CCATCCTTATCTCC
1 CCATCCTTATCTCC
63833252 TGCACCTCCT
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:0.14, C:0.48, G:0.03, T:0.34
Consensus pattern (15 bp):
CCATCCTTATCTCCG
Found at i:63833704 original size:15 final size:15
Alignment explanation
Indices: 63833684--63833712 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63833674 AACATCAACC
63833684 CCATCCTTATCTCCG
1 CCATCCTTATCTCCG
63833699 CCATCCTTATCTCC
1 CCATCCTTATCTCC
63833713 TGCACCTCCT
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:0.14, C:0.48, G:0.03, T:0.34
Consensus pattern (15 bp):
CCATCCTTATCTCCG
Found at i:63833726 original size:461 final size:461
Alignment explanation
Indices: 63832864--63833785 Score: 1745
Period size: 461 Copynumber: 2.0 Consensus size: 461
63832854 GCAAATCGCC
63832864 CCTTTTTCGGAATCCTGGAGCTACAACCCACTGATGCAGGCTATAATACGGCGGACATCACTTCC
1 CCTTTTTCGGAATCCTGGAGCTACAACCCACTGATGCAGGCTATAATACGGCGGACATCACTTCC
63832929 AACTTAACTCAATTTGATACTATTTGGGAGAGTTTGATGGACAGAGTGGTGAGCAAGGCTTCCAG
66 AACTTAACTCAATTTGATACTATTTGGGAGAGTTTGATGGACAGAGTGGTGAGCAAGGCTTCCAG
* *
63832994 CGGGTCTTCTACTAAGTATGCAACCGGGGAAGCAGATTTTACAGCATTCCAAACGATACATGCAC
131 CGGGTCTTCTACTAAGTATGCAACCAGGGAAGCAGATTTTACAGAATTCCAAACGATACATGCAC
*
63833059 TTATGCAGTGCACTCCAGATTTATCACACAAGGACTGTGATTCCTGCCTAAGGCAATCCGTGAGT
196 TAATGCAGTGCACTCCAGATTTATCACACAAGGACTGTGATTCCTGCCTAAGGCAATCCGTGAGT
63833124 AACTATGAAAGCTGTTGCCGTGGAAAGCAGGGAGGTTATGTTCAGAAGCCTAACTGTTGGTTCAG
261 AACTATGAAAGCTGTTGCCGTGGAAAGCAGGGAGGTTATGTTCAGAAGCCTAACTGTTGGTTCAG
*
63833189 ATGGGATTTGTATCCTTTCTATACTACATCAACCCCATCCTTATCTCCGCCATCCTTATCTCCTG
326 ATGGGATTTGTATCCTTTCTATACAACATCAACCCCATCCTTATCTCCGCCATCCTTATCTCCTG
63833254 CACCTCCTTCCCCATATATAAAAGGTATGTAGGCATCTTCTACATGACTCATGAGTAAATTGAAT
391 CACCTCCTTCCCCATATATAAAAGGTATGTAGGCATCTTCTACATGACTCATGAGTAAATTGAAT
63833319 TAAATT
456 TAAATT
*
63833325 CCTTTTTCGGAATCCTGGAGCTACAACCCACTGATGCAGGCTATAATACGGGGGACATCACTTCC
1 CCTTTTTCGGAATCCTGGAGCTACAACCCACTGATGCAGGCTATAATACGGCGGACATCACTTCC
63833390 AACTTAACTCAATTTGATACTATTTGGGAGAGTTTGATGGACAGAGTGGTGAGCAAGGCTTCCAG
66 AACTTAACTCAATTTGATACTATTTGGGAGAGTTTGATGGACAGAGTGGTGAGCAAGGCTTCCAG
** *
63833455 CGGGTCTTCTACTAAGTATGCAACCAGGGAAGCAGATTTTACAGAATTCCAAACGATATTTGCGC
131 CGGGTCTTCTACTAAGTATGCAACCAGGGAAGCAGATTTTACAGAATTCCAAACGATACATGCAC
* * *
63833520 TAATGCAGTGCACTCCAGATTTATCACACAAGGATTGTGATTCTTGCCTAAGGCAATCTGTGAGT
196 TAATGCAGTGCACTCCAGATTTATCACACAAGGACTGTGATTCCTGCCTAAGGCAATCCGTGAGT
63833585 AACTATGAAAGCTGTTGCCGTGGAAAGCAGGGAGGTTATGTTCAGAAGCCTAACTGTTGGTTCAG
261 AACTATGAAAGCTGTTGCCGTGGAAAGCAGGGAGGTTATGTTCAGAAGCCTAACTGTTGGTTCAG
63833650 ATGGGATTTGTATCCTTTCTATACAACATCAACCCCATCCTTATCTCCGCCATCCTTATCTCCTG
326 ATGGGATTTGTATCCTTTCTATACAACATCAACCCCATCCTTATCTCCGCCATCCTTATCTCCTG
63833715 CACCTCCTTCCCCATATATAAAAGGTATGTAGGCATCTTCTACATGACTCATGAGTAAATTGAAT
391 CACCTCCTTCCCCATATATAAAAGGTATGTAGGCATCTTCTACATGACTCATGAGTAAATTGAAT
63833780 TAAATT
456 TAAATT
63833786 AAAATTAGAA
Statistics
Matches: 450, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
461 450 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (461 bp):
CCTTTTTCGGAATCCTGGAGCTACAACCCACTGATGCAGGCTATAATACGGCGGACATCACTTCC
AACTTAACTCAATTTGATACTATTTGGGAGAGTTTGATGGACAGAGTGGTGAGCAAGGCTTCCAG
CGGGTCTTCTACTAAGTATGCAACCAGGGAAGCAGATTTTACAGAATTCCAAACGATACATGCAC
TAATGCAGTGCACTCCAGATTTATCACACAAGGACTGTGATTCCTGCCTAAGGCAATCCGTGAGT
AACTATGAAAGCTGTTGCCGTGGAAAGCAGGGAGGTTATGTTCAGAAGCCTAACTGTTGGTTCAG
ATGGGATTTGTATCCTTTCTATACAACATCAACCCCATCCTTATCTCCGCCATCCTTATCTCCTG
CACCTCCTTCCCCATATATAAAAGGTATGTAGGCATCTTCTACATGACTCATGAGTAAATTGAAT
TAAATT
Found at i:63835299 original size:15 final size:14
Alignment explanation
Indices: 63835278--63835313 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
63835268 ATAATCCTTA
*
63835278 ATAATTATCTTAAT
1 ATAATTATCCTAAT
63835292 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
63835307 ATAATTA
1 ATAATTA
63835314 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:63835924 original size:16 final size:16
Alignment explanation
Indices: 63835880--63835925 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
63835870 ATTTTTTCTT
*
63835880 TTTTATTTATTT-TGA
1 TTTTATTTATTTATTA
63835895 TTTTGATTTATTTATTA
1 TTTT-ATTTATTTATTA
63835912 TTTATATTT-TTTAT
1 TTT-TATTTATTTAT
63835926 GCTTTAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.15
16 13 0.48
17 9 0.33
18 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTTATTA
Found at i:63836964 original size:5 final size:5
Alignment explanation
Indices: 63836954--63837017 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
63836944 AGTAATAAAT
* * *
63836954 AATAA AATAA AATAA AGTAATA AATAA AGT-A AATAA AGT-A AATAA AATAA
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AATAA AATAA
63837004 AAT-A AAT-A AATAA A
1 AATAA AATAA AATAA A
63837018 TAATAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
4 14 0.29
5 29 0.60
6 2 0.04
7 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:63836981 original size:4 final size:4
Alignment explanation
Indices: 63836947--63837024 Score: 72
Period size: 4 Copynumber: 18.5 Consensus size: 4
63836937 CCAAATAAGT
63836947 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AATA AAGTA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AA-TA
63836994 AATAA AATAA AATA AATA AATA AAT- AATA AA
1 AAT-A AAT-A AATA AATA AATA AATA AATA AA
63837025 AATTGGGTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
3 7 0.11
4 33 0.50
5 26 0.39
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:63836988 original size:9 final size:9
Alignment explanation
Indices: 63836974--63837017 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
63836964 AATAAAGTAA
63836974 TAAATAAAG
1 TAAATAAAG
63836983 TAAATAAAG
1 TAAATAAAG
*
63836992 TAAATAAAA
1 TAAATAAAG
63837001 TAAAATAAA-
1 T-AAATAAAG
63837010 TAAATAAA
1 TAAATAAA
63837018 TAATAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 7 0.21
9 19 0.58
10 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (9 bp):
TAAATAAAG
Found at i:63846757 original size:22 final size:21
Alignment explanation
Indices: 63846728--63846771 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
63846718 TTTGGGAGCG
63846728 AAATGAGCGAAAAA-CGAACAA
1 AAATGAGC-AAAAATCGAACAA
*
63846749 AAATCGAGCAAAAATCGGACAA
1 AAAT-GAGCAAAAATCGAACAA
63846771 A
1 A
63846772 TAGAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.59, C:0.16, G:0.18, T:0.07
Consensus pattern (21 bp):
AAATGAGCAAAAATCGAACAA
Found at i:63846844 original size:30 final size:30
Alignment explanation
Indices: 63846809--63846866 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
63846799 CTTAGCATTT
* * *
63846809 CCACACAGGTTGGGCACACGCCCGTGTGAG
1 CCACACAGGCTGGACACACGCCCATGTGAG
*
63846839 CCACACTGGCTGGACACACGCCCATGTG
1 CCACACAGGCTGGACACACGCCCATGTG
63846867 CCAGCTCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACAGGCTGGACACACGCCCATGTGAG
Found at i:63853171 original size:46 final size:46
Alignment explanation
Indices: 63852942--63853172 Score: 381
Period size: 46 Copynumber: 5.0 Consensus size: 46
63852932 ACATTGTTAT
* * *
63852942 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
63852988 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
**
63853034 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
63853080 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
63853126 AACTCAGTATGGTTTTCTTCACTGAAACACCATAGCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
63853172 A
1 A
63853173 TTTTGCCATG
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:63858351 original size:46 final size:44
Alignment explanation
Indices: 63858298--63858403 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 44
63858288 TGATAAGCGA
* *
63858298 TGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
1 TGACAAAGTGATAAGTGGTA-CACTAGCCACACTTATCTGATC-AG
* *
63858344 TGACAAAGTGACAAGTGGTACCCTAGCCACACTTATCTGATCAG
1 TGACAAAGTGATAAGTGGTACACTAGCCACACTTATCTGATCAG
*
63858388 GGAC-AAGTGATAAGTG
1 TGACAAAGTGATAAGTG
63858404 ATCATACGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
43 11 0.20
44 5 0.09
45 19 0.35
46 19 0.35
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (44 bp):
TGACAAAGTGATAAGTGGTACACTAGCCACACTTATCTGATCAG
Found at i:63861060 original size:3 final size:3
Alignment explanation
Indices: 63861052--63861078 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63861042 TGATAAAATT
63861052 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
63861079 TAAGTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63870670 original size:41 final size:43
Alignment explanation
Indices: 63870602--63870687 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 43
63870592 CCGAATATAA
*
63870602 TAAATATATATTTTTTATTTTTATTTTTAATTTTAAAATACTT
1 TAAAAATATATTTTTTATTTTTATTTTTAATTTTAAAATACTT
* * *
63870645 TAAAAATATTTTTTTTA-TTTT-TTTTTATTTTTAAAATATTT
1 TAAAAATATATTTTTTATTTTTATTTTTAATTTTAAAATACTT
63870686 TA
1 TA
63870688 TTTTGTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 20 0.51
42 4 0.10
43 15 0.38
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (43 bp):
TAAAAATATATTTTTTATTTTTATTTTTAATTTTAAAATACTT
Found at i:63870858 original size:41 final size:42
Alignment explanation
Indices: 63870782--63870879 Score: 180
Period size: 41 Copynumber: 2.4 Consensus size: 42
63870772 ATATTTCGGG
63870782 CCGGGCCGGGCCCGGGCCTAAGAGTCGGGCTGAAATTTTTTT
1 CCGGGCCGGGCCCGGGCCTAAGAGTCGGGCTGAAATTTTTTT
63870824 CCGGGCCGGGCCCGGGCC-AAGAGTCGGGCTGAAATTTTTTT
1 CCGGGCCGGGCCCGGGCCTAAGAGTCGGGCTGAAATTTTTTT
*
63870865 GCGGGCCGGGCCCGG
1 CCGGGCCGGGCCCGG
63870880 CCCATGGACA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.67
42 18 0.33
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (42 bp):
CCGGGCCGGGCCCGGGCCTAAGAGTCGGGCTGAAATTTTTTT
Found at i:63873008 original size:31 final size:32
Alignment explanation
Indices: 63872970--63873031 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 32
63872960 CCAAAACAGG
*
63872970 CTTTTAGCGGCGCTTT-TTAGCGCCGCAAATA
1 CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
63873001 CTTTTAGCGGCGCTTTGATAAGCGCCGCAAA
1 CTTTTAGCGGCGCTTT-ATAAGCGCCGCAAA
63873032 AGATGCCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 16 0.57
33 12 0.43
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (32 bp):
CTTTTAGCGGCGCTTTATAAGCGCCGCAAATA
Found at i:63873159 original size:43 final size:42
Alignment explanation
Indices: 63873112--63873256 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
63873102 AGACTAAGAG
* *
63873112 CTTTAGCGGCGTTTTTAAT-AGAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTT-ATGA-AAGCGCCGCTATAGATCAGG-GT
* *
63873155 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGTTATAGATCAGGGT
1 CTTTAGCGGCGTTTTT-ATGAAAGCGCCGCTATAGATCAGGGT
* * * *
63873198 CTGTAGCGGCGTTTTTTATGTAAGCGCCGCTATAGATCATGGC
1 CTTTAGCGGCG-TTTTTATGAAAGCGCCGCTATAGATCAGGGT
*
63873241 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
63873257 CCCAAAAACG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.05
43 74 0.86
44 8 0.09
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTATGAAAGCGCCGCTATAGATCAGGGT
Found at i:63873269 original size:43 final size:43
Alignment explanation
Indices: 63873222--63873444 Score: 157
Period size: 43 Copynumber: 5.1 Consensus size: 43
63873212 TTTATGTAAG
* * * *
63873222 CGCCGCTATAGATCATGGCCTTTAGCGGCGCTTTTCCCAAAAA
1 CGCCGCAATAGACCCTGACCTTTAGCGGCGCTTTTCCCAAAAA
* ** *
63873265 CGCCGCAATAGACCCTGACCTATAGCGGCATTTTTCCCACAAA
1 CGCCGCAATAGACCCTGACCTTTAGCGGCGCTTTTCCCAAAAA
* * * ** *
63873308 CGCCGCAATAGACCCTGATCTTTAGCGGCGCTTCTGCCGCAAG
1 CGCCGCAATAGACCCTGACCTTTAGCGGCGCTTTTCCCAAAAA
* * * * *
63873351 CGCCACTAA-AGACCCGGATCTATAGCGGCGCTTAT-CCAGAAAA
1 CGCCGC-AATAGACCCTGACCTTTAGCGGCGCTTTTCCCA-AAAA
* * * *
63873394 TGCCGCTAA-ATACCCTTG-TCTATATAGCGGCGCTTTTACCAAAAA
1 CGCCGC-AATAGACCC-TGACCT-T-TAGCGGCGCTTTTCCCAAAAA
63873439 CGCCGC
1 CGCCGC
63873445 TAAATTTGGC
Statistics
Matches: 144, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
42 2 0.01
43 115 0.80
44 3 0.02
45 21 0.15
46 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
CGCCGCAATAGACCCTGACCTTTAGCGGCGCTTTTCCCAAAAA
Found at i:63873778 original size:21 final size:21
Alignment explanation
Indices: 63873752--63873863 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
63873742 TTTGACGCTG
63873752 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
63873773 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
63873794 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
63873815 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
63873836 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
63873857 ATCTGCT
1 CTCTGCT
63873864 CTAAGCTGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:63873925 original size:66 final size:66
Alignment explanation
Indices: 63873835--63873978 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 66
63873825 CTCGCTGCCG
* **
63873835 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATT
1 CCTCAGCTTCTCCCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-ATT
63873898 GAA
64 GAA
* * * *
63873901 CCTCAGCTTCTCCCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCCCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
63873966 A
66 A
*
63873967 CATCAGCTTCTC
1 CCTCAGCTTCTC
63873979 TTGATGTTGC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 63 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCCCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
A
Found at i:63873997 original size:66 final size:66
Alignment explanation
Indices: 63873874--63874004 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
63873864 CTAAGCTGCT
* * *
63873874 GCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCCCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCATTGAACATCAGCTTCTCCCGATGCTGCATCCGCTTTAAGTTGT
63873939 A
66 A
* ** * *
63873940 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTTGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCATTGAACATCAGCTTCTCCCGATGCTGCATCCGCTTTAAGTTG
63874004 T
65 T
63874005 GTAATTTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCATTGAACATCAGCTTCTCCCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:63875750 original size:21 final size:21
Alignment explanation
Indices: 63875724--63875777 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
63875714 TTTGACGCTG
63875724 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
63875745 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
63875766 CTCTGCTTCCCT
1 CTCTGCTTCCCT
63875778 TGCTGCAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.04, C:0.44, G:0.13, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:63875787 original size:21 final size:21
Alignment explanation
Indices: 63875724--63875836 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
63875714 TTTGACGCTG
**
63875724 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
63875745 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
63875766 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
63875787 CTGTTCTTCTCTCACTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
63875808 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
63875829 ATCTGCTT
1 CTCTGCTT
63875837 TAAGCTGCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.04, C:0.42, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:63875897 original size:66 final size:66
Alignment explanation
Indices: 63875807--63875972 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
63875797 CTCACTGCCG
* * * *
63875807 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCAGGAGTTCTTCATATCTTT-GTT
63875870 GAA
64 GAA
* * *
63875873 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCAGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCAGGAGTTCTTCATATCTTTGTTGA
63875938 A
66 A
* * * *
63875939 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
63875973 TTGTGTAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCAGGAGTTCTTCATATCTTTGTTGA
A
Found at i:63881426 original size:16 final size:16
Alignment explanation
Indices: 63881405--63881438 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63881395 ATAGTTAAGC
63881405 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
63881421 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
63881437 TA
1 TA
63881439 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:63881470 original size:25 final size:25
Alignment explanation
Indices: 63881419--63881474 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
63881409 TAAGTTATGT
* *
63881419 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
63881444 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
63881469 ATTATG
1 ATTATG
63881475 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:63881488 original size:9 final size:9
Alignment explanation
Indices: 63881476--63881673 Score: 78
Period size: 9 Copynumber: 22.7 Consensus size: 9
63881466 AAAATTATGC
63881476 TATGTAAGT
1 TATGTAAGT
63881485 TATGTAAGT
1 TATGTAAGT
* **
63881494 CACATAAGT
1 TATGTAAGT
63881503 TATGTAAG-
1 TATGTAAGT
* * *
63881511 -AAGTTATT
1 TATGTAAGT
63881519 TATGTAAGT
1 TATGTAAGT
*
63881528 TAT-TTA-T
1 TATGTAAGT
* *
63881535 TATGAAAAT
1 TATGTAAGT
*
63881544 TAAGTAAGT
1 TATGTAAGT
*
63881553 TATGTAATT
1 TATGTAAGT
*
63881562 TACG--A-T
1 TATGTAAGT
63881568 TAATGTAAGT
1 T-ATGTAAGT
*
63881578 TATGTACGT
1 TATGTAAGT
63881587 TATGTAAG-
1 TATGTAAGT
63881595 T-TGTAAGT
1 TATGTAAGT
*
63881603 TATGTATA-A
1 TATGTA-AGT
63881612 TAT-TAA-T
1 TATGTAAGT
**
63881619 TAACTAAGT
1 TATGTAAGT
* *
63881628 TATGTCATT
1 TATGTAAGT
*
63881637 TATGTATCATAT
1 TATGTA--A-GT
63881649 TAATGTAAGT
1 T-ATGTAAGT
*
63881659 TATGTAATT
1 TATGTAAGT
63881668 TATGTA
1 TATGTA
63881674 TATTAACTAA
Statistics
Matches: 137, Mismatches: 35, Indels: 34
0.67 0.17 0.17
Matches are distributed among these distances:
6 2 0.01
7 20 0.15
8 10 0.07
9 91 0.66
10 5 0.04
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:63881604 original size:16 final size:16
Alignment explanation
Indices: 63881547--63881608 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
63881537 TGAAAATTAA
63881547 GTAAGTTATGTAA-TT
1 GTAAGTTATGTAAGTT
*
63881562 -TACGATTAATGTAAGTTAT
1 GTAAG-TT-ATGTAAG-T-T
*
63881581 GTACGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
63881597 GTAAGTTATGTA
1 GTAAGTTATGTA
63881609 TAATATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 18 0.46
17 1 0.03
18 8 0.21
19 3 0.08
20 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:63881640 original size:34 final size:34
Alignment explanation
Indices: 63881596--63881748 Score: 183
Period size: 34 Copynumber: 4.7 Consensus size: 34
63881586 TTATGTAAGT
* *
63881596 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
63881630 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
63881661 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
63881692 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
63881726 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
63881749 GTAAGTTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
31 33 0.33
33 2 0.02
34 57 0.56
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:63881658 original size:56 final size:58
Alignment explanation
Indices: 63881596--63881881 Score: 188
Period size: 62 Copynumber: 4.7 Consensus size: 58
63881586 TTATGTAAGT
* *
63881596 TGTAAGTTATGTA-TA-ATATTAATTAACTAAGTTATGTCATTTATGTATCATATTAA
1 TGTAAGTTATGTATTATATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAA
* * * *
63881652 TGTAAGTTATGTAATTTATGTATATTAACTAATTAATTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGT-A-TTA--TATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAA
* * * * * *
63881714 TTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTATGT-ATAATAT-TA-ATTAATT
1 -T--GTAAGTTATGT-A-TTATATATTA-ATTAA-CTAAGTTATGTAAT-TTATGTATAAT-ATT
63881776 AA
57 AA
* * *
63881778 -GTTATGTCATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAA
1 TG-TAAGTTATGTAT-TAT-ATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAA
* * *
63881838 TGTAAGTAATGTAATTTATGTATATTAACTAATTAAGTTATGTA
1 TGTAAGTTATGT-A-TTA--TATATTAATTAACTAAGTTATGTA
63881882 TAATATTTAA
Statistics
Matches: 176, Mismatches: 30, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
56 12 0.07
57 1 0.01
59 16 0.09
60 25 0.14
61 17 0.10
62 57 0.32
63 9 0.05
64 12 0.07
65 27 0.15
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.48
Consensus pattern (58 bp):
TGTAAGTTATGTATTATATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAA
Found at i:63881708 original size:96 final size:96
Alignment explanation
Indices: 63881596--63881881 Score: 458
Period size: 96 Copynumber: 3.0 Consensus size: 96
63881586 TTATGTAAGT
*
63881596 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
*
63881661 TGTAATTTATGTATATTAACTAATTAATTTA
66 TGTAATTTATGTATATTAACTAATTAAGTTA
*
63881692 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
*
63881757 TGT-A--TA---ATATTAATTAATTAAGTTA
66 TGTAATTTATGTATATTAACTAATTAAGTTA
* * * *
63881782 TGTCATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAAGTAA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
63881847 TGTAATTTATGTATATTAACTAATTAAGTTA
66 TGTAATTTATGTATATTAACTAATTAAGTTA
63881878 TGTA
1 TGTA
63881882 TAATATTTAA
Statistics
Matches: 173, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
90 80 0.46
91 1 0.01
93 4 0.02
95 1 0.01
96 87 0.50
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.48
Consensus pattern (96 bp):
TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTCATTTATGTATAATATTAATGTAAGTTA
TGTAATTTATGTATATTAACTAATTAAGTTA
Found at i:63881797 original size:34 final size:34
Alignment explanation
Indices: 63881747--63881881 Score: 174
Period size: 34 Copynumber: 4.1 Consensus size: 34
63881737 TATAATATTA
*
63881747 ATGTAAGTTATGTATAATATTAATTAATTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
* *
63881781 ATGTCATTTATGTATAATATTAATTAACTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
* *
63881815 ATGTAATTTATGTATAATATTAA-T--GTAAGTA
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
*
63881846 ATGTAATTTATG--T-ATATTAACTAATTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
63881877 ATGTA
1 ATGTA
63881882 TAATATTTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
28 7 0.08
29 2 0.02
31 27 0.30
33 1 0.01
34 53 0.59
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (34 bp):
ATGTAATTTATGTATAATATTAATTAATTAAGTT
Found at i:63882498 original size:24 final size:24
Alignment explanation
Indices: 63882466--63882518 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
63882456 AGTATTTTAT
63882466 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
* *
63882490 AATATAATATTAATTTTAGTTAGA
1 AATATAATATTAATTTTAGATACA
63882514 AATAT
1 AATAT
63882519 TATACAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:63882964 original size:17 final size:17
Alignment explanation
Indices: 63882944--63882981 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
63882934 TTAAAGTTCA
63882944 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
63882961 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
63882978 CAAG
1 CAAG
63882982 TTCCTGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:63883269 original size:33 final size:33
Alignment explanation
Indices: 63883222--63883289 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
63883212 ATATACATAT
*
63883222 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
63883255 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
63883288 AT
1 AT
63883290 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:63883530 original size:14 final size:16
Alignment explanation
Indices: 63883511--63883549 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
63883501 AATTGGGAAA
63883511 TTGGGGAA-AAT-ACT
1 TTGGGGAAGAATAACT
63883525 TTGGGGAAGAATAACT
1 TTGGGGAAGAATAACT
*
63883541 TGGGGGAAG
1 TTGGGGAAG
63883550 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 11 0.50
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.23
Consensus pattern (16 bp):
TTGGGGAAGAATAACT
Found at i:63884384 original size:22 final size:22
Alignment explanation
Indices: 63884359--63884401 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
63884349 TCTAAACCAC
63884359 TAACCCTTAAACCCCTAACCCG
1 TAACCCTTAAACCCCTAACCCG
63884381 TAACCCTTAAACCCCTAACCC
1 TAACCCTTAAACCCCTAACCC
63884402 TATATCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.19
Consensus pattern (22 bp):
TAACCCTTAAACCCCTAACCCG
Found at i:63884826 original size:61 final size:62
Alignment explanation
Indices: 63884731--63884855 Score: 216
Period size: 61 Copynumber: 2.0 Consensus size: 62
63884721 AAAACTAATT
63884731 AATCTAATAACTTAAACTCTAACATAACCGTTGAAACCCTAAACC-CCAAATCCATAACCCC
1 AATCTAATAACTTAAACTCTAACATAACCGTTGAAACCCTAAACCGCCAAATCCATAACCCC
*
63884792 AATCTAATAACTTAAACTCTAACATAACCGTTGAAACCCTAAACCTGGCCCAATCCATAACCCC
1 AATCTAATAACTTAAACTCTAACATAACCGTTGAAACCCTAAACC--GCCAAATCCATAACCCC
63884856 CTAACCCTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
61 45 0.75
64 15 0.25
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.22
Consensus pattern (62 bp):
AATCTAATAACTTAAACTCTAACATAACCGTTGAAACCCTAAACCGCCAAATCCATAACCCC
Found at i:63884900 original size:37 final size:38
Alignment explanation
Indices: 63884857--63884928 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
63884847 CATAACCCCC
* * *
63884857 TAACCCTTTACCCCTAAAT-CCCCTAACCCCTAAAGCA
1 TAACCCTTAAACCCTAAATCCCCCTAACACCTAAAGCA
63884894 TAACCCTTAAACCCTAAATCCCCCTAACACCTAAA
1 TAACCCTTAAACCCTAAATCCCCCTAACACCTAAA
63884929 CCTTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (38 bp):
TAACCCTTAAACCCTAAATCCCCCTAACACCTAAAGCA
Found at i:63885786 original size:41 final size:41
Alignment explanation
Indices: 63885696--63886055 Score: 386
Period size: 41 Copynumber: 8.8 Consensus size: 41
63885686 TTTTGTTACT
* * * ** *
63885696 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGT-TAATAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGA-GC
* * * ** *
63885737 ATTCGCGGCGCTTAGATACAAACGCCGCTAAAGATAGGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
* * * *
63885778 ATTAGCGGCGCATATATAAAAACGCCGCTAAA-AACTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC-CGAGC
* * * * *
63885819 ATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACCCGTAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCG-AGC
* * *
63885861 ATTAGCGGCGCTTAGACGAAAACGCTGCTAAAGACTCGGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-TCCGAGC
* * *
63885903 ATTAGCGGCGCTTAGACGAAAACGCCGCTATAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
*
63885944 ATTAGC-G-GCTTAGACAAAAACGCCGCTATAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
* *
63885983 ATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
63886024 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
63886056 TGTTTAAAAA
Statistics
Matches: 274, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.13
40 3 0.01
41 162 0.59
42 71 0.26
43 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
Found at i:63885881 original size:42 final size:41
Alignment explanation
Indices: 63885736--63886053 Score: 397
Period size: 41 Copynumber: 7.8 Consensus size: 41
63885726 AAGGTTAATA
* * * * ***
63885736 CATTCGCGGCGCTTAGATACAAACGCCGCTAAAGATAGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* * * * * * *
63885777 AATTAGCGGCGCATATATAAAAACGCCGCTAAAAACTCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* * *
63885818 CATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACCCGTAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCG-AG
* * * *
63885860 CATTAGCGGCGCTTAGACGAAAACGCTGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGAC-CCGAG
*
63885902 CATTAGCGGCGCTTAGACGAAAACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
*
63885943 CATTAGC-G-GCTTAGACAAAAACGCCGCTATAGATCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
63885982 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
63886023 CATTAGCGGCGCTTAGACAAAAACGCCGCTA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTA
63886054 AATGTTTAAA
Statistics
Matches: 245, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.15
40 2 0.01
41 135 0.55
42 70 0.29
43 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.16
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
Found at i:63898845 original size:20 final size:19
Alignment explanation
Indices: 63898800--63898845 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
63898790 AATACGTGTG
*
63898800 AAATTAAAATAAATAAATA
1 AAATTAAAATAAATAAAAA
**
63898819 AGTTTAAATATAAATAAAAA
1 AAATTAAA-ATAAATAAAAA
63898839 AAATTAA
1 AAATTAA
63898846 CTGGTTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATTAAAATAAATAAAAA
Found at i:63903252 original size:21 final size:21
Alignment explanation
Indices: 63903210--63903257 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
63903200 CATCCTTATC
* *
63903210 TCCTCCACCCTCACCTGTTAG
1 TCCTCCACCCCCACCTGCTAG
* *
63903231 TTCTCCACCCCCAGCTGCTAG
1 TCCTCCACCCCCACCTGCTAG
63903252 TCCTCC
1 TCCTCC
63903258 GCCACAGTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.12, C:0.50, G:0.10, T:0.27
Consensus pattern (21 bp):
TCCTCCACCCCCACCTGCTAG
Found at i:63904888 original size:112 final size:113
Alignment explanation
Indices: 63904741--63904974 Score: 282
Period size: 113 Copynumber: 2.1 Consensus size: 113
63904731 GATTCACAAA
*
63904741 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCG-TTT-ATTGAGTTTTTGGGCCATTAGCGGCGT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTG-GTTTTTGGGCCATTAGCGGCGT
*
63904804 TTT-TACAAAAGCGCC-CTAATGCTCCTG-TCTTTAGCGGCG-TTTTCTGAG
65 TTTCT-CAAAAGCGCCGCTAATGAT-CTGTTCTTTAGCGGCGTTTTTCTG-G
* * * * *
63904852 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTTGGGCCTTTAGCGGCGT
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGT
* * * *
63904917 TTTCTTAAAAGCGCCGCTAATGATTTGTTTTTTAGCGGCGTTTTTCTGT
65 TTTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
63904966 AAGCGCCGC
1 AAGCGCCGC
63904975 TAATAGTAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
111 15 0.14
112 15 0.14
113 37 0.35
114 31 0.30
115 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (113 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGTT
TTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
Found at i:63905358 original size:18 final size:21
Alignment explanation
Indices: 63905312--63905360 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
63905302 TAGTTCGACT
63905312 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
63905333 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
63905351 AAATTAATAT
1 AAATTAATAT
63905361 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:63905644 original size:15 final size:16
Alignment explanation
Indices: 63905626--63905656 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63905616 GCTTTAAGAC
63905626 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
63905641 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
63905657 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:63906023 original size:14 final size:14
Alignment explanation
Indices: 63905948--63906025 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
63905938 TCGGATGTAA
*
63905948 GGGTTTGTGGTTTG
1 GGGTTTGGGGTTTG
63905962 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
* * *
63905976 GGATTTGGGTTTTT
1 GGGTTTGGGGTTTG
* * * *
63905990 GAGTTTAGAGTTTA
1 GGGTTTGGGGTTTG
**
63906004 ATGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
63906018 GGGTTTGG
1 GGGTTTGG
63906026 AAATTTAAGG
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (14 bp):
GGGTTTGGGGTTTG
Found at i:63906847 original size:230 final size:230
Alignment explanation
Indices: 63906443--63906951 Score: 761
Period size: 230 Copynumber: 2.2 Consensus size: 230
63906433 AAGAAAACGG
*
63906443 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* * * ** *
63906508 CGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
*
63906573 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
* * **
63906638 AACGTCGCAAACTCGAAATGGTGTTACGAAAAATGA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
*
63906674 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
*
63906739 CAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
* * *
63906803 AAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
*
63906868 AACGCCGCAAAATCGAAATGGTGTTACGGAAAACAA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
* *** *
63906904 CGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 CGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
63906952 ATTTGCATTA
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
230 159 0.63
231 89 0.35
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (230 bp):
CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTCTTTGTTAC
AGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTTA
AAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATAA
ACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
Found at i:63907303 original size:19 final size:19
Alignment explanation
Indices: 63907281--63907324 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
63907271 CAGACATCTC
*
63907281 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
63907300 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
63907319 CCCCAA
1 CCCCAA
63907325 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:63908863 original size:20 final size:20
Alignment explanation
Indices: 63908838--63908899 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
63908828 TACAATTTCT
63908838 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
63908858 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
63908877 TAACTTATATCATGTTAAGA
1 TAACTTATATAATATTAAGA
63908897 TAA
1 TAA
63908900 AAAATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:63908982 original size:19 final size:18
Alignment explanation
Indices: 63908958--63909048 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
63908948 TTTAACTTAC
63908958 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
63908977 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
* * * *
63908996 -ACATA-ATA-AC-TTAC
1 AACTTACAAATACATAAT
63909010 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
63909029 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
63909048 A
1 A
63909049 CATAATAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
14 2 0.04
15 6 0.11
16 1 0.02
17 2 0.04
18 8 0.15
19 35 0.65
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
AACTTACAAATACATAAT
Found at i:63908982 original size:26 final size:26
Alignment explanation
Indices: 63908938--63909300 Score: 592
Period size: 26 Copynumber: 14.2 Consensus size: 26
63908928 CATTTGACTG
*
63908938 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
63908963 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63908989 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
63909015 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63909041 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
63909067 ACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTT
*
63909092 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63909118 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
63909144 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
63909169 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63909195 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
63909221 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
63909246 ACACAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63909271 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
63909297 ACAT
1 ACAT
63909301 TTAACTTACA
Statistics
Matches: 315, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
25 102 0.32
26 213 0.68
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:63909099 original size:77 final size:77
Alignment explanation
Indices: 63908942--63909300 Score: 650
Period size: 77 Copynumber: 4.7 Consensus size: 77
63908932 TGACTGACAT
* * *
63908942 AATACAT-TTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAAC
1 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAAC
63909006 TTACAACTTACAC
65 TTACAACTTACAC
63909019 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
63909084 TGCAACTTACAC
66 TACAACTTACAC
63909096 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
63909161 TACAACTTACAC
66 TACAACTTACAC
63909173 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
63909238 TACAACTTACAC
66 TACAACTTACAC
*
63909250 AATACAT-TTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
63909301 TTAACTTACA
Statistics
Matches: 275, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
76 43 0.16
77 183 0.67
78 49 0.18
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (77 bp):
AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
TACAACTTACAC
Found at i:63909262 original size:18 final size:18
Alignment explanation
Indices: 63909241--63909328 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
63909231 TTTAACTTAC
63909241 AACTTACACAATACATTT
1 AACTTACACAATACATTT
*
63909259 AACTTACAACTTACATAATACATAAT
1 AACTT---AC--AC--AATACAT-TT
*
63909285 AACTTACA-ACTTACATTT
1 AACTTACACA-ATACATTT
*
63909303 AACTTACATAATACATTT
1 AACTTACACAATACATTT
63909321 AACTTACA
1 AACTTACA
63909329 TAACTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
18 30 0.54
19 6 0.11
21 3 0.05
23 4 0.07
25 7 0.12
26 6 0.11
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACACAATACATTT
Found at i:63909308 original size:11 final size:10
Alignment explanation
Indices: 63909292--63909345 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
63909282 AATAACTTAC
63909292 AACTTACATTT
1 AACTTACA-TT
63909303 AACTTACA-T
1 AACTTACATT
63909312 AA--TACATTT
1 AACTTACA-TT
63909321 AACTTACA-T
1 AACTTACATT
63909330 AACTTACA-T
1 AACTTACATT
63909339 AACTTAC
1 AACTTAC
63909346 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:63909329 original size:18 final size:18
Alignment explanation
Indices: 63909266--63909331 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
63909256 TTTAACTTAC
*
63909266 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
63909285 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
63909303 AACTTACATAATACATTT
1 AACTTACATAATACATTT
63909321 AACTTACATAA
1 AACTTACATAA
63909332 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:63914822 original size:21 final size:21
Alignment explanation
Indices: 63914796--63914866 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
63914786 CTACAACTTA
* *
63914796 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
63914817 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
63914838 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
63914859 AAGCAGAG
1 AAGCAGAG
63914867 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:63915109 original size:14 final size:14
Alignment explanation
Indices: 63915090--63915123 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
63915080 ATTGCTATTG
63915090 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
63915104 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
63915118 TTTGCT
1 GTTGCT
63915124 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:63915290 original size:43 final size:40
Alignment explanation
Indices: 63915188--63915561 Score: 318
Period size: 42 Copynumber: 9.0 Consensus size: 40
63915178 CGTTTTTGTA
* *
63915188 TAAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTG
** * *
63915228 TAAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAG
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTG
* * *
63915269 AAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-
1 --TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTG
** *
63915310 TCCCTTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
1 T---AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTG
** *
63915355 TCTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTG
** * *
63915397 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTG
** * *
63915439 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTG
** * *
63915481 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTG
** * *
63915523 TCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTT
1 TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
63915562 TTGTTTGTAA
Statistics
Matches: 307, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.12
41 3 0.01
42 232 0.76
43 32 0.10
44 3 0.01
45 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTG
Found at i:63915341 original size:42 final size:42
Alignment explanation
Indices: 63915277--63915563 Score: 504
Period size: 42 Copynumber: 6.8 Consensus size: 42
63915267 AGAAAAAAAA
**
63915277 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
63915319 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
*
63915361 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
63915403 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
63915445 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
63915487 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
63915529 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
63915564 GTTTGTAAAC
Statistics
Matches: 238, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
42 233 0.98
43 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:63915436 original size:126 final size:126
Alignment explanation
Indices: 63915191--63915562 Score: 507
Period size: 126 Copynumber: 3.0 Consensus size: 126
63915181 TTTTGTATAA
* * * ** ** *
63915191 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG--TTTGTAAAAATGCCACTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
******* *
63915254 TTTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
66 TTTAGCGGCG-TTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
63915316 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
**
63915381 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
66 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
* *
63915442 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
* *
63915507 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
66 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
63915563 TGTTTGTAAA
Statistics
Matches: 222, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 31 0.14
126 156 0.70
127 35 0.16
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:63920465 original size:42 final size:42
Alignment explanation
Indices: 63920402--63920542 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 42
63920392 GAAACTCATG
* *
63920402 AGAGCTAAACAAAAACTCATAAGGGTTGAACGAAAGCTCGTA
1 AGAGCTAAACAGAAACTCATAAGGGTTAAACGAAAGCTCGTA
* * **
63920444 AGAGCTGAACAGAAACCCATAAGGGTTAAATAAAAGCTC--A
1 AGAGCTAAACAGAAACTCATAAGGGTTAAACGAAAGCTCGTA
* * * * *
63920484 ATGGAGCTGAACGGAAACTCATATGAGTTAAACGAAAGCTCGTG
1 A--GAGCTAAACAGAAACTCATAAGGGTTAAACGAAAGCTCGTA
*
63920528 AGAGCTAAACGGAAA
1 AGAGCTAAACAGAAA
63920543 GTAAACATGA
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
42 78 0.96
44 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.16
Consensus pattern (42 bp):
AGAGCTAAACAGAAACTCATAAGGGTTAAACGAAAGCTCGTA
Found at i:63920466 original size:21 final size:21
Alignment explanation
Indices: 63920384--63920466 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
63920374 AAGCCCGAAG
* *
63920384 GCTGAATAGAAACTCATGAGA
1 GCTGAACAGAAACTCATAAGA
* * *
63920405 GCTAAACAAAAACTCATAAGG
1 GCTGAACAGAAACTCATAAGA
* *
63920426 GTTGAAC-GAAAGCTCGTAAGA
1 GCTGAACAGAAA-CTCATAAGA
*
63920447 GCTGAACAGAAACCCATAAG
1 GCTGAACAGAAACTCATAAG
63920467 GGTTAAATAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 3 0.06
21 40 0.85
22 4 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAACTCATAAGA
Found at i:63920517 original size:21 final size:22
Alignment explanation
Indices: 63920476--63920543 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
63920466 GGGTTAAATA
*
63920476 AAAGCTCAATG-GAGCTGAACGG
1 AAAGCTC-ATGAGAGCTAAACGG
*
63920498 AAA-CTCAT-ATGAGTTAAAC-G
1 AAAGCTCATGA-GAGCTAAACGG
*
63920518 AAAGCTCGTGAGAGCTAAACGG
1 AAAGCTCATGAGAGCTAAACGG
63920540 AAAG
1 AAAG
63920544 TAAACATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 6 0.16
21 22 0.59
22 9 0.24
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (22 bp):
AAAGCTCATGAGAGCTAAACGG
Found at i:63922876 original size:34 final size:35
Alignment explanation
Indices: 63922832--63922898 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
63922822 CAGTAAAATA
*
63922832 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
63922866 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
63922899 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:63925280 original size:10 final size:10
Alignment explanation
Indices: 63925266--63925436 Score: 95
Period size: 10 Copynumber: 17.4 Consensus size: 10
63925256 AAAAAATATG
63925266 AAAATTTATA
1 AAAATTTATA
*
63925276 TAAATTTATA
1 AAAATTTATA
63925286 AAAATTTA-A
1 AAAATTTATA
*
63925295 AAAA-TCATA
1 AAAATTTATA
63925304 AAAATTTAT-
1 AAAATTTATA
* *
63925313 AAAAGTAATA
1 AAAATTTATA
** *
63925323 AAAACATATTT
1 AAAATTTA-TA
63925334 AAAATGTT-TA
1 AAAAT-TTATA
63925344 AAAATTTATA
1 AAAATTTATA
** *
63925354 AAAACGTATT
1 AAAATTTATA
63925364 AAAATTCTATA
1 AAAATT-TATA
*
63925375 AAAA-TCAT-
1 AAAATTTATA
*
63925383 AAAATTATAAA
1 AAAATT-TATA
** *
63925394 AAAAAGTATT
1 AAAATTTATA
*
63925404 AAAATTGATA
1 AAAATTTATA
* *
63925414 TAAACTTATA
1 AAAATTTATA
63925424 AAAA-TTATA
1 AAAATTTATA
63925433 AAAA
1 AAAA
63925437 CAATATATAA
Statistics
Matches: 117, Mismatches: 34, Indels: 21
0.68 0.20 0.12
Matches are distributed among these distances:
8 6 0.05
9 31 0.26
10 63 0.54
11 16 0.14
12 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAATTTATA
Found at i:63925291 original size:20 final size:19
Alignment explanation
Indices: 63925256--63925436 Score: 107
Period size: 20 Copynumber: 9.3 Consensus size: 19
63925246 TGACAAGTTG
* *
63925256 AAAAAATATGAAAATTTAT
1 AAAAATTATAAAAATTTAT
*
63925275 ATAAATTTATAAAAATTTA-
1 A-AAAATTATAAAAATTTAT
*
63925294 AAAAATCATAAAAATTTAT
1 AAAAATTATAAAAATTTAT
* * **
63925313 AAAAGTAATAAAAACATATT
1 AAAAATTATAAAAATTTA-T
* *
63925333 TAAAATGTTTAAAAATTTAT
1 AAAAAT-TATAAAAATTTAT
* *
63925353 AAAAACGTATTAAAATTCTAT
1 AAAAA-TTATAAAAATT-TAT
* *
63925374 AAAAATCAT-AAAATTATAAA
1 AAAAATTATAAAAATT-T-AT
* * *
63925394 AAAAAGTATTAAAATTGAT
1 AAAAATTATAAAAATTTAT
*
63925413 ATAAACTTATAAAAA-TTAT
1 A-AAAATTATAAAAATTTAT
63925432 AAAAA
1 AAAAA
63925437 CAATATATAA
Statistics
Matches: 121, Mismatches: 32, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
18 18 0.15
19 29 0.24
20 52 0.43
21 22 0.18
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAATTTAT
Found at i:63925297 original size:28 final size:28
Alignment explanation
Indices: 63925257--63925386 Score: 77
Period size: 28 Copynumber: 4.4 Consensus size: 28
63925247 GACAAGTTGA
* * * *
63925257 AAAAATATGAAAATTTATATAAATTTAT
1 AAAAATATAAAAAATCATAAAAATTTAT
*
63925285 AAAAATTTAAAAAATCATAAAAATTTAT
1 AAAAATATAAAAAATCATAAAAATTTAT
* *
63925313 AAAAGTAATAAAAACAT-ATTTAAAATGTT-T
1 AAAAAT-ATAAAAA-ATCA-TAAAAAT-TTAT
* *
63925343 AAAAATTTATAAAAA-CGTATTAAAATTCTAT
1 AAAAATATA-AAAAATC--ATAAAAATT-TAT
63925374 AAAAATCATAAAA
1 AAAAAT-ATAAAA
63925387 TTATAAAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
28 28 0.35
29 11 0.14
30 26 0.32
31 13 0.16
32 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAAATATAAAAAATCATAAAAATTTAT
Done.