Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 66 of 120
Found at i:7586350 original size:22 final size:22
Alignment explanation
Indices: 7586324--7586432 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 22
7586314 CTGCAAGTCA
* *
7586324 AAATTATGCTCGAAAGTCTTAG
1 AAATTATGCTCGGAGGTCTTAG
*
7586346 AAATTATGCCCGGAGGTCTTAG
1 AAATTATGCTCGGAGGTCTTAG
* * *
7586368 AGATTATGTTTGGAGGTCTTAG
1 AAATTATGCTCGGAGGTCTTAG
* *
7586390 AGATTATGC-CTAGAGGTCTT-G
1 AAATTATGCTC-GGAGGTCTTAG
*
7586411 AAAATTATG-TCCGAAGGTCTTA
1 -AAATTATGCT-CGGAGGTCTTA
7586433 AAGAATCGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.01
22 67 0.97
23 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
AAATTATGCTCGGAGGTCTTAG
Found at i:7586429 original size:44 final size:43
Alignment explanation
Indices: 7586323--7586432 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
7586313 ACTGCAAGTC
* *
7586323 AAAATTATG-CTCGAAAGTCTTAGAAATTATGCCCGGAGGTCTT
1 AAAATTATGTC-CGAAGGTCTTAGAAATTATGCCCAGAGGTCTT
* ** * * *
7586366 AGAGATTATGTTTGGAGGTCTTAGAGATTATGCCTAGAGGTCTT
1 A-AAATTATGTCCGAAGGTCTTAGAAATTATGCCCAGAGGTCTT
7586410 GAAAATTATGTCCGAAGGTCTTA
1 -AAAATTATGTCCGAAGGTCTTA
7586433 AAGAATCGAT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
43 1 0.02
44 50 0.96
45 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (43 bp):
AAAATTATGTCCGAAGGTCTTAGAAATTATGCCCAGAGGTCTT
Found at i:7586525 original size:37 final size:36
Alignment explanation
Indices: 7586431--7586539 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 36
7586421 CCGAAGGTCT
*
7586431 TAAAGAATCGATCGAGATAACATCGTAAGTCGAAAAA
1 TAAAGAATCGATCGAGATAACACCGTAAGTC-AAAAA
* * *
7586468 TAAAAAAAT-GATCGAAATAACACCATAAGTCAAGAAA
1 T-AAAGAATCGATCGAGATAACACCGTAAGTCAA-AAA
*
7586505 TAAAGAATCGATC-AGGATAACACTGTAAGTCAAAA
1 TAAAGAATCGATCGA-GATAACACCGTAAGTCAAAA
7586540 TTATATCCAG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
36 11 0.18
37 43 0.72
38 6 0.10
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (36 bp):
TAAAGAATCGATCGAGATAACACCGTAAGTCAAAAA
Found at i:7586574 original size:21 final size:22
Alignment explanation
Indices: 7586550--7586607 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
7586540 TTATATCCAG
*
7586550 AGGTTTTA-AAATTATGCTTAA
1 AGGTCTTAGAAATTATGCTTAA
* **
7586571 AGGTCTTAGAGATTATGCTTGG
1 AGGTCTTAGAAATTATGCTTAA
*
7586593 AGGTCTTAGAGATTA
1 AGGTCTTAGAAATTA
7586608 CGCCCGGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (22 bp):
AGGTCTTAGAAATTATGCTTAA
Found at i:7586585 original size:22 final size:22
Alignment explanation
Indices: 7586560--7586607 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
7586550 AGGTTTTAAA
7586560 ATTATGCTTAAAGGTCTTAGAG
1 ATTATGCTTAAAGGTCTTAGAG
**
7586582 ATTATGCTTGGAGGTCTTAGAG
1 ATTATGCTTAAAGGTCTTAGAG
7586604 ATTA
1 ATTA
7586608 CGCCCGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (22 bp):
ATTATGCTTAAAGGTCTTAGAG
Found at i:7586616 original size:22 final size:22
Alignment explanation
Indices: 7586571--7586622 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
7586561 TTATGCTTAA
* **
7586571 AGGTCTTAGAGATTATGCTTGG
1 AGGTCTTAGAGATTACGCCCGG
7586593 AGGTCTTAGAGATTACGCCCGG
1 AGGTCTTAGAGATTACGCCCGG
7586615 AGGTCTTA
1 AGGTCTTA
7586623 AAAATTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (22 bp):
AGGTCTTAGAGATTACGCCCGG
Found at i:7586629 original size:22 final size:22
Alignment explanation
Indices: 7586591--7586650 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
7586581 GATTATGCTT
* *
7586591 GGAGGTCTTAGAGATTACGCCC
1 GGAGGTCTTAAAAATTACGCCC
* *
7586613 GGAGGTCTTAAAAATTATGTCC
1 GGAGGTCTTAAAAATTACGCCC
* *
7586635 AGAGGTCTTACAAATT
1 GGAGGTCTTAAAAATT
7586651 GTAAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (22 bp):
GGAGGTCTTAAAAATTACGCCC
Found at i:7586873 original size:22 final size:22
Alignment explanation
Indices: 7586843--7586901 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7586833 AAAAATCTTT
*
7586843 TGCCTAGAGGTCTTGAAAG-TTA
1 TGCCCAGAGGTCTT-AAAGATTA
*
7586865 TGCCCAGAGGTCTTAGAGATTA
1 TGCCCAGAGGTCTTAAAGATTA
*
7586887 TGCCCAAAGGTCTTA
1 TGCCCAGAGGTCTTA
7586902 CAAATCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (22 bp):
TGCCCAGAGGTCTTAAAGATTA
Found at i:7586882 original size:127 final size:130
Alignment explanation
Indices: 7586614--7586915 Score: 342
Period size: 127 Copynumber: 2.3 Consensus size: 130
7586604 ATTACGCCCG
* * * * *
7586614 GAGGTCTTAAAAATTATGTCCAGAGGTCTTACAAAT-TGTAAAATTTTTGAATACTCCTCATACA
1 GAGGTCTTAGAGATTATGCCCAGAGGTCTTACAAATCT-TAAAATTTTTAAATACTCATCATACA
* * * * * * *
7586678 TTTGAGGCATTGAAACTTTGAAAATTTCAAAAATATTTTACTTGGAGGTCTTAAAAATTTTATCT
65 TTAGAGGCATAGAAACTTTGAAAATTTCAAAAATATTTTACCTAGAGGTCTTAAAAATTATACCC
7586743 A
130 A
*** * * *
7586744 GAGGTCTTAGAGATTATGCTTGGAGGTCTTACAAATCTCAAAATTTTTAAATGCTCAT-TTA-AT
1 GAGGTCTTAGAGATTATGCCCAGAGGTCTTACAAATCTTAAAATTTTTAAATACTCATCATACAT
* * * * * *
7586807 TAGAGGCATAGACACTTTGAAAATTT-AAAAATCTTTTGCCTAGAGGTCTTGAAAGTTATGCCCA
66 TAGAGGCATAGAAACTTTGAAAATTTCAAAAATATTTTACCTAGAGGTCTTAAAAATTATACCCA
*
7586871 GAGGTCTTAGAGATTATGCCCAAAGGTCTTACAAATCTTAAAATT
1 GAGGTCTTAGAGATTATGCCCAGAGGTCTTACAAATCTTAAAATT
7586916 AAAATGGATT
Statistics
Matches: 142, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 68 0.48
128 25 0.18
129 2 0.01
130 46 0.32
131 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (130 bp):
GAGGTCTTAGAGATTATGCCCAGAGGTCTTACAAATCTTAAAATTTTTAAATACTCATCATACAT
TAGAGGCATAGAAACTTTGAAAATTTCAAAAATATTTTACCTAGAGGTCTTAAAAATTATACCCA
Found at i:7586968 original size:84 final size:84
Alignment explanation
Indices: 7586870--7587031 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
7586860 AGTTATGCCC
* * * * * * *
7586870 AGAGGTCTTAGAGATTATGCCCAAAGGTCTTACAAATCTTAAAATTAAAATGGATTTAGCTCAGA
1 AGAGGACTTAGAGATTACGCCCAAAGGTCTTACAAATCTCAAAACTAAAATAGATTCAACTCA-A
7586935 AA-ACCTACGAATCCTGCTT
65 AAGACCTACGAATCCTGCTT
* ** *
7586954 AGAGGACTTAGAGATTACGCTCGTAGGTCTTATAAATCTCAAAACTAAAATAGATTCAACTCAAA
1 AGAGGACTTAGAGATTACGCCCAAAGGTCTTACAAATCTCAAAACTAAAATAGATTCAACTCAAA
*
7587019 AGACTTACGAATC
66 AGACCTACGAATC
7587032 TTGCCCAGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
83 3 0.05
84 62 0.95
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (84 bp):
AGAGGACTTAGAGATTACGCCCAAAGGTCTTACAAATCTCAAAACTAAAATAGATTCAACTCAAA
AGACCTACGAATCCTGCTT
Found at i:7588662 original size:13 final size:13
Alignment explanation
Indices: 7588644--7588668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7588634 ATTCTTTGGC
7588644 TTTCTTTTTTTTG
1 TTTCTTTTTTTTG
7588657 TTTCTTTTTTTT
1 TTTCTTTTTTTT
7588669 TAAAACATCT
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTCTTTTTTTTG
Found at i:7589208 original size:14 final size:12
Alignment explanation
Indices: 7589164--7589220 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
7589154 AGAAGAGATC
*
7589164 TTTTTATGTTTT
1 TTTTTATTTTTT
* *
7589176 TTTATGTTTTTACT
1 TTTTTATTTTT--T
7589190 TTTTTAGTTTTTT
1 TTTTTA-TTTTTT
7589203 TGTTTTATTTTTT
1 T-TTTTATTTTTT
7589216 TTTTT
1 TTTTT
7589221 GTGATGACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
12 12 0.33
13 9 0.25
14 10 0.28
15 5 0.14
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:7595891 original size:29 final size:30
Alignment explanation
Indices: 7595859--7595915 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7595849 GAGTTTTAAG
7595859 GGTTTA-AGGATTGGTTTTAGGG-TTTGAAA
1 GGTTTAGAGGATTGGTTTT-GGGATTTGAAA
**
7595888 GGTTTAGAGTTTTGGTTTTGGGATTTGA
1 GGTTTAGAGGATTGGTTTTGGGATTTGA
7595916 GATTTAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (30 bp):
GGTTTAGAGGATTGGTTTTGGGATTTGAAA
Found at i:7596009 original size:15 final size:15
Alignment explanation
Indices: 7595940--7596009 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
7595930 GTATTTCAAT
* *
7595940 TTTAAGGTTTTGAAA
1 TTTAGGGTTTAGAAA
* *
7595955 TTTAGGATTCAGAAA
1 TTTAGGGTTTAGAAA
* *
7595970 TTTAGGATTTCA-AAGG
1 TTTAGGGTTT-AGAA-A
7595986 TTT-GGGTTTAGAAA
1 TTTAGGGTTTAGAAA
7596000 TTTAGGGTTT
1 TTTAGGGTTT
7596010 CAATTTTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 4 0.09
15 35 0.81
16 4 0.09
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (15 bp):
TTTAGGGTTTAGAAA
Found at i:7596046 original size:29 final size:28
Alignment explanation
Indices: 7596014--7596098 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
7596004 GGGTTTCAAT
*
7596014 TTTAGAGTTTGGAGGTTTTAGTATTT-TAG
1 TTTAGAGTTTAG-GGTTTTAG-ATTTATAG
* *
7596043 TTTAAAGGTTTAGGGTTTTAGATTTATGG
1 TTTAGA-GTTTAGGGTTTTAGATTTATAG
* *
7596072 TTTAGAGGATTTAGGATTTTAGTTTTA
1 TTTAGA-G-TTTAGGGTTTTAGATTTA
7596099 GGGCTTTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 4 0.09
29 22 0.47
30 21 0.45
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.51
Consensus pattern (28 bp):
TTTAGAGTTTAGGGTTTTAGATTTATAG
Found at i:7596068 original size:22 final size:21
Alignment explanation
Indices: 7596037--7596114 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
7596027 GGTTTTAGTA
7596037 TTTTAG-TTTAAAGGTTTAGGG
1 TTTTAGATTT-AAGGTTTAGGG
*
7596058 TTTTAGATTTATGGTTTAGAGG
1 TTTTAGATTTAAGGTTTAG-GG
* * *
7596080 ATTTAGGATTTTAGTTTTAGGG
1 TTTTA-GATTTAAGGTTTAGGG
*
7596102 CTTTAGAATTTAA
1 TTTTAG-ATTTAA
7596115 ATTTTAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
21 15 0.33
22 20 0.43
23 11 0.24
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (21 bp):
TTTTAGATTTAAGGTTTAGGG
Found at i:7597584 original size:36 final size:36
Alignment explanation
Indices: 7597543--7597619 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
7597533 AAGCTGTAAA
* * * *
7597543 GGTGGTTGTAGGGCTTTGGTGAGAGGACAAGACAAG
1 GGTGGTAGTAAGGCTTTAGTAAGAGGACAAGACAAG
* * *
7597579 GGTGGTAGTAAGGCTTTAGTAAGGGGACAGGACATG
1 GGTGGTAGTAAGGCTTTAGTAAGAGGACAAGACAAG
7597615 GGTGG
1 GGTGG
7597620 CAATGGTGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.08, G:0.45, T:0.22
Consensus pattern (36 bp):
GGTGGTAGTAAGGCTTTAGTAAGAGGACAAGACAAG
Found at i:7603653 original size:2 final size:2
Alignment explanation
Indices: 7603637--7603675 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
7603627 ATCATATAGA
*
7603637 AT AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7603676 CTACCTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7613610 original size:22 final size:22
Alignment explanation
Indices: 7613585--7613631 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7613575 GATAAAATAA
*
7613585 TGAGTTTTCAAATGAGAATATT
1 TGAGTTTTCAAATAAGAATATT
* *
7613607 TGAGTTTTTAAATAAGAATCTT
1 TGAGTTTTCAAATAAGAATATT
7613629 TGA
1 TGA
7613632 ATTGTGAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (22 bp):
TGAGTTTTCAAATAAGAATATT
Found at i:7613810 original size:43 final size:44
Alignment explanation
Indices: 7613739--7613821 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
7613729 TGAGAAGCTT
** *
7613739 TATTTATATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGTGCC
1 TATTTATATTTTTCAAAACTGTTAAGCCTCTGTTTAGAGGTGCC
7613783 TATTT-TATTTTTCAAAACTGTTAAGCCTCTGTTTAGAGG
1 TATTTATATTTTTCAAAACTGTTAAGCCTCTGTTTAGAGG
7613822 AGTTTTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (44 bp):
TATTTATATTTTTCAAAACTGTTAAGCCTCTGTTTAGAGGTGCC
Found at i:7615141 original size:19 final size:21
Alignment explanation
Indices: 7615119--7615162 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7615109 AAAAATAAAA
7615119 AATAAAA-TTT-AAAAATATT
1 AATAAAATTTTAAAAAATATT
7615138 AATAAAATTTTGAAAAAATATT
1 AATAAAATTTT-AAAAAATATT
7615160 AAT
1 AAT
7615163 TACCCAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
22 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATAAAATTTTAAAAAATATT
Found at i:7616102 original size:24 final size:24
Alignment explanation
Indices: 7616075--7616121 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7616065 AACAAATAAA
*
7616075 ATTTATCATCATTATAATTCTAAT
1 ATTTATAATCATTATAATTCTAAT
7616099 ATTTATAATCATTATAATTCTAA
1 ATTTATAATCATTATAATTCTAA
7616122 CATCTTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATAATCATTATAATTCTAAT
Found at i:7626316 original size:19 final size:17
Alignment explanation
Indices: 7626284--7626318 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
7626274 TTAAAATATT
7626284 AAAAAAATAATCAATAA
1 AAAAAAATAATCAATAA
7626301 AAAAAATATAATTCAATA
1 AAAAAA-ATAA-TCAATA
7626319 TCTCTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAAATAATCAATAA
Found at i:7626566 original size:14 final size:13
Alignment explanation
Indices: 7626542--7626577 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
7626532 TTAAATTTTA
7626542 AAAAAATAAATAAT
1 AAAAAA-AAATAAT
7626556 AAAATAAAAATAAT
1 AAAA-AAAAATAAT
7626570 AAAAAAAA
1 AAAAAAAA
7626578 TTTTGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:7626570 original size:17 final size:17
Alignment explanation
Indices: 7626543--7626575 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7626533 TAAATTTTAA
7626543 AAAAATAAATAATAAAAT
1 AAAAATAAATAA-AAAAT
7626561 AAAAAT-AATAAAAAA
1 AAAAATAAATAAAAAA
7626576 AATTTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAATAAAAAAT
Found at i:7626578 original size:18 final size:18
Alignment explanation
Indices: 7626543--7626576 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7626533 TAAATTTTAA
*
7626543 AAAAATAAATAATAAAAT
1 AAAAATAAATAAAAAAAT
7626561 AAAAAT-AATAAAAAAA
1 AAAAATAAATAAAAAAA
7626577 ATTTTGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATAAATAAAAAAAT
Found at i:7626762 original size:19 final size:18
Alignment explanation
Indices: 7626721--7626763 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7626711 TTTTTATTCA
*
7626721 AATAATTATAATTTTTTG
1 AATAATCATAATTTTTTG
* *
7626739 TATAATCATGATTTTTATG
1 AATAATCATAATTTTT-TG
7626758 AATAAT
1 AATAAT
7626764 AATTTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
AATAATCATAATTTTTTG
Found at i:7627969 original size:231 final size:230
Alignment explanation
Indices: 7627563--7628027 Score: 706
Period size: 231 Copynumber: 2.0 Consensus size: 230
7627553 TATTCCCTCT
* *
7627563 CCATGTGTACCAAGTTCCTTTAAGCCCAAGTCTGCCAATTATAGTCATTCATTGGCTCCCTAAAA
1 CCATGTG-ACCAAGTTCCTTTAAGCCCAAGTCTGCAAATTATAGTCATTCATTGCCTCCCTAAAA
* * * *
7627628 ACCTCAATCTGTGTTTCTGATGGCAAGCAGTTTTCACTTTCTCATTGTTGCGAAGAATTTTGTTG
65 ACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTTTCTCATTGTTACGAAGAATTTTGTTG
*
7627693 AAATCTACTAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTGAGAATCACCCATGAT
130 AAATCTACTAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCCATGAT
* * *
7627758 A-CTTCTCCTATTAGTTTCAAACTCCCATAAAAAAC
195 ATCTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
7627793 CCATGTG-CCAAGTTCCTTTAAAGCCCAAGTCTGACAAATTAT-GTCATTCATTGCCTCCCTACA
1 CCATGTGACCAAGTTCCTTT-AAGCCCAAGTCTG-CAAATTATAGTCATTCATTGCCTCCCTA-A
*
7627856 AAACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTCTTCTCATTGTTATGAAGAATTTTC
63 AAACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACT-TTCTCATTGTTACGAAGAATTTT-
* *
7627921 GTTG-AATCTCCTAAGCA-ACCCATGGTATTTGAGACTGGCCTTCTAGCCCTTTAAGAATCACCC
126 GTTGAAATCTACT-AGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCC
7627984 ATGATATTCTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
190 ATGATA-TCTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
7628026 CC
1 CC
7628028 GTTAATCTTC
Statistics
Matches: 214, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
228 12 0.06
229 31 0.14
230 52 0.24
231 78 0.36
232 8 0.04
233 33 0.15
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (230 bp):
CCATGTGACCAAGTTCCTTTAAGCCCAAGTCTGCAAATTATAGTCATTCATTGCCTCCCTAAAAA
CCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTTTCTCATTGTTACGAAGAATTTTGTTGA
AATCTACTAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCCATGATA
TCTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
Found at i:7631242 original size:10 final size:10
Alignment explanation
Indices: 7631229--7631254 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7631219 TGAAAAAAAT
7631229 AAAAAATAAA
1 AAAAAATAAA
7631239 AAAAAATAAA
1 AAAAAATAAA
7631249 AAAAAA
1 AAAAAA
7631255 GATGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:7633389 original size:12 final size:12
Alignment explanation
Indices: 7633372--7633403 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7633362 CCCATTTTCG
7633372 TCAACCTGCATT
1 TCAACCTGCATT
7633384 TCAACCTGCATT
1 TCAACCTGCATT
7633396 TCAACCTG
1 TCAACCTG
7633404 TTCTTGCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.31
Consensus pattern (12 bp):
TCAACCTGCATT
Found at i:7634770 original size:24 final size:24
Alignment explanation
Indices: 7634743--7634789 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7634733 AACAAATAAA
*
7634743 ATTTATCATCATTATAATTCTAAT
1 ATTTATAATCATTATAATTCTAAT
7634767 ATTTATAATCATTATAATTCTAA
1 ATTTATAATCATTATAATTCTAA
7634790 CATCTTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATAATCATTATAATTCTAAT
Found at i:7636361 original size:20 final size:20
Alignment explanation
Indices: 7636336--7636383 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
7636326 GTAAGCAGAG
*
7636336 ATAAAAATCCTTTTAAAAAA
1 ATAAAAATCCTTCTAAAAAA
*
7636356 ATAAAAATCCTTCTATAAAA
1 ATAAAAATCCTTCTAAAAAA
7636376 ATAAAAAT
1 ATAAAAAT
7636384 ATGTAAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAAATCCTTCTAAAAAA
Found at i:7645007 original size:19 final size:17
Alignment explanation
Indices: 7644975--7645009 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
7644965 TTACAATATT
7644975 AAAAAAATAATCAATAA
1 AAAAAAATAATCAATAA
7644992 AAAAAATATAATTCAATA
1 AAAAAA-ATAA-TCAATA
7645010 TCTCTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAAATAATCAATAA
Found at i:7645503 original size:62 final size:58
Alignment explanation
Indices: 7645395--7645520 Score: 128
Period size: 62 Copynumber: 2.1 Consensus size: 58
7645385 ACAGATATAA
* * * *
7645395 ATTTTTATTCAAATAATTATAATTTTTTGTATGATCATGACCTTTA-TAAATAATAATTT
1 ATTTATATTCAAATAATTATAATTTATTATATGATAATGACCTTTATTAAA-AATAA-TT
* **
7645454 ATTTATATTCAAATAATCATAATAATTTATTATATGATAATTATTTTTATTTAAAAATAATT
1 ATTTATATTCAAATAAT--T-ATAATTTATTATATGATAATGACCTTTA-TTAAAAATAATT
7645516 ATTTA
1 ATTTA
7645521 AAATATAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 16 0.29
61 1 0.02
62 29 0.53
63 5 0.09
64 4 0.07
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (58 bp):
ATTTATATTCAAATAATTATAATTTATTATATGATAATGACCTTTATTAAAAATAATT
Found at i:7645517 original size:14 final size:15
Alignment explanation
Indices: 7645500--7645528 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7645490 ATAATTATTT
7645500 TTATTTAAAA-ATAA
1 TTATTTAAAATATAA
7645514 TTATTTAAAATATAA
1 TTATTTAAAATATAA
7645529 ATAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATTTAAAATATAA
Found at i:7645695 original size:36 final size:36
Alignment explanation
Indices: 7645647--7645717 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
7645637 GTTTTCTCCG
*
7645647 CCATCACGCTATGTTTCATTGCTGTCCTCGAGACCA
1 CCATCACACTATGTTTCATTGCTGTCCTCGAGACCA
7645683 CCATCACACTATGTTTCATTGCTGTCCTCGAGACC
1 CCATCACACTATGTTTCATTGCTGTCCTCGAGACC
7645718 CAAAATACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (36 bp):
CCATCACACTATGTTTCATTGCTGTCCTCGAGACCA
Found at i:7646700 original size:231 final size:235
Alignment explanation
Indices: 7646288--7646756 Score: 775
Period size: 231 Copynumber: 2.0 Consensus size: 235
7646278 TTCCCCTACT
*
7646288 CCATGTGTACCAAGTTCCTTTAAAGCCCAAGTCTGACAAATTATAGTCATTCATTGCCTCCCTAA
1 CCATGTG-ACCAAGTTCCTTTAAAGCCCAAGTCTAACAAATTATAGTCATTCATTGCCTCCCTAA
* * * * *
7646353 AAACCTCAATCTGTGTTTCTGATGGCAAGCAGTTCTCACTTTTCTCATTGTTGCGAAGAATTTTG
65 AAACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTCTTCTCATTGTTACGAAGAATTTCG
*
7646418 TTGAAATCTACTAAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTGAGAATCACCCA
130 TTGAAATCTACTAAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCCA
* *
7646483 TGATACAC-T-T-CTATTAGTTTCAAACTCCCATAAAAAAC
195 TGATACACTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
7646521 CCATGTG-CCAAGTTCCTTTAAAGCCCAAGTCTAACAAATTATAGTCATTCATTGCCTCCCTAAA
1 CCATGTGACCAAGTTCCTTTAAAGCCCAAGTCTAACAAATTATAGTCATTCATTGCCTCCCTAAA
*
7646585 AACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTCTTCTCATTGTTATGAAGAATTTCGT
66 AACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTCTTCTCATTGTTACGAAGAATTTCGT
* *
7646650 TGAAATCTCCTAAGCACACCCATGGTATTTGAGACTGGCCTTCTAGCCCTTTAAGAATCACCCAT
131 TGAAATCTACTAAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCCAT
**
7646715 GATATTCTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
196 GATACACTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
7646755 CC
1 CC
7646757 GTTAATCTCC
Statistics
Matches: 219, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
231 182 0.83
232 1 0.00
233 8 0.04
234 28 0.13
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (235 bp):
CCATGTGACCAAGTTCCTTTAAAGCCCAAGTCTAACAAATTATAGTCATTCATTGCCTCCCTAAA
AACCTCAATCCGTGTCTCTGATGGCAAGCAGTTCTCACTCTTCTCATTGTTACGAAGAATTTCGT
TGAAATCTACTAAGCACACCCATGGTATTTGAGACTGGCCTGCTAGCCCTTTAAGAATCACCCAT
GATACACTTATCCTACTAGCTTCAAACTCCCATAAAAAAC
Found at i:7651284 original size:23 final size:25
Alignment explanation
Indices: 7651258--7651315 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
7651248 CATTTATCAT
7651258 TATTTTAAATT-ATT-ATAAAAATA
1 TATTTTAAATTAATTAATAAAAATA
* **
7651281 TATTTTACATTAATTAATAAATTTA
1 TATTTTAAATTAATTAATAAAAATA
*
7651306 TAATTTAAAT
1 TATTTTAAAT
7651316 AACACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 10 0.36
24 3 0.11
25 15 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTTTAAATTAATTAATAAAAATA
Found at i:7651338 original size:28 final size:27
Alignment explanation
Indices: 7651293--7651359 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
7651283 TTTTACATTA
*
7651293 ATTAATAAATTTATAATTTAAATAACAC
1 ATTAA-AAATTTATAATTCAAATAACAC
* * *
7651321 ATTAAAAATTTTTAAATTCAAATATCAT
1 ATTAAAAATTTAT-AATTCAAATAACAC
*
7651349 ATTAAATATTT
1 ATTAAAAATTT
7651360 CACTATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTAAAAATTTATAATTCAAATAACAC
Found at i:7652212 original size:21 final size:21
Alignment explanation
Indices: 7652180--7652219 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7652170 TGCCAACTTT
7652180 CCCTAGCTCTCTCCCTCCTGA
1 CCCTAGCTCTCTCCCTCCTGA
*
7652201 CCCTA-CTCCTCTTCCTCCT
1 CCCTAGCT-CTCTCCCTCCT
7652220 TATTTTCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.07, C:0.55, G:0.05, T:0.33
Consensus pattern (21 bp):
CCCTAGCTCTCTCCCTCCTGA
Found at i:7653555 original size:3 final size:3
Alignment explanation
Indices: 7653547--7653575 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7653537 TCCAAAACAA
7653547 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7653576 ATAAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7657239 original size:15 final size:16
Alignment explanation
Indices: 7657205--7657239 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7657195 TTCTAAATTC
7657205 TTTTAAATTATTTATA
1 TTTTAAATTATTTATA
*
7657221 TTTTAAGTTATTT-TA
1 TTTTAAATTATTTATA
7657236 TTTT
1 TTTT
7657240 CATTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTAAATTATTTATA
Found at i:7657493 original size:16 final size:14
Alignment explanation
Indices: 7657461--7657488 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7657451 GAGTATATTA
7657461 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
7657475 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
7657489 TTATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTTAATTTT
Found at i:7657498 original size:21 final size:23
Alignment explanation
Indices: 7657458--7657500 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
7657448 TTTGAGTATA
*
7657458 TTAATTTTTTTAATTTTATTTTT
1 TTAATTTTTTTAATTATATTTTT
7657481 TTAA-TTTTTT-ATTATATTTT
1 TTAATTTTTTTAATTATATTTT
7657501 AAGTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (23 bp):
TTAATTTTTTTAATTATATTTTT
Found at i:7658029 original size:30 final size:31
Alignment explanation
Indices: 7657995--7658065 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
7657985 TATTTTTTGA
* * *
7657995 GGTAAAATGGCCATTTTA-TATATTAGAAAG
1 GGTAAAATGACCATTTTACAATATTAAAAAG
*
7658025 GGTAAAATGATCATTTTACAATATTAAAAAG
1 GGTAAAATGACCATTTTACAATATTAAAAAG
7658056 GTGTCAAAAT
1 G-GT-AAAAT
7658066 ATAATCTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.47
31 11 0.32
32 2 0.06
33 5 0.15
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (31 bp):
GGTAAAATGACCATTTTACAATATTAAAAAG
Found at i:7664521 original size:16 final size:16
Alignment explanation
Indices: 7664502--7664536 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7664492 TGTGATAACA
*
7664502 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
7664518 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
7664534 TAT
1 TAT
7664537 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:7672221 original size:15 final size:15
Alignment explanation
Indices: 7672201--7672239 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
7672191 GGTTGGGGTG
7672201 AAGGCTCCCTTTGTA
1 AAGGCTCCCTTTGTA
7672216 AAGGCTCCCTTTGTA
1 AAGGCTCCCTTTGTA
7672231 AAGGCTCCC
1 AAGGCTCCC
7672240 CTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (15 bp):
AAGGCTCCCTTTGTA
Found at i:7672465 original size:4 final size:4
Alignment explanation
Indices: 7672452--7672501 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
7672442 ATAATTTTAT
* *
7672452 TTAA TT-A TTAA TTAA TTAA TTAT TTATA ATAA -TAA TTAA TTTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA-A TTAA TTAA TTAA -TTAA TTAA
7672500 TT
1 TT
7672502 CTAAATGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
3 6 0.15
4 27 0.69
5 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:7672500 original size:16 final size:16
Alignment explanation
Indices: 7672426--7672500 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
7672416 TCTTTTTTTA
7672426 TAATTTAATTTTAATAA-
1 TAATTTAA--TTAATAAT
*
7672443 TAATTTTATT--TAAT
1 TAATTTAATTAATAAT
7672457 T-A-TTAATTAATTAAT
1 TAATTTAATTAA-TAAT
*
7672472 T-ATTTATAATAATAAT
1 TAATTTA-ATTAATAAT
7672488 TAATTTAATTAAT
1 TAATTTAATTAAT
7672501 TCTAAATGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
12 5 0.11
13 4 0.09
14 1 0.02
15 8 0.17
16 13 0.28
17 16 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTTAATTAATAAT
Found at i:7672512 original size:29 final size:28
Alignment explanation
Indices: 7672453--7672516 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
7672443 TAATTTTATT
* **
7672453 TAATTATTAATTAATTAATTATTTATAA
1 TAATAATTAATTAATTAATTATAAATAA
* *
7672481 TAATAATTAATTTAATTAATTCTAAATGA
1 TAATAATTAA-TTAATTAATTATAAATAA
7672510 TAATAAT
1 TAATAAT
7672517 AACAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TAATAATTAATTAATTAATTATAAATAA
Found at i:7673099 original size:22 final size:22
Alignment explanation
Indices: 7673058--7673100 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7673048 TAAAATATTT
* *
7673058 TGCCTGGAGATCTTATAGATTA
1 TGCCTGGAGATATTAGAGATTA
*
7673080 TGCCTGGAGGTATTAGAGATT
1 TGCCTGGAGATATTAGAGATT
7673101 CTATCTGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (22 bp):
TGCCTGGAGATATTAGAGATTA
Found at i:7673222 original size:22 final size:22
Alignment explanation
Indices: 7673191--7673255 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
7673181 TTGCCTAGAG
*
7673191 GTCTTGGAGATTATGCTCAAAA
1 GTCTTAGAGATTATGCTCAAAA
** *
7673213 GTCTTAGAGATTATGCTTGAAG
1 GTCTTAGAGATTATGCTCAAAA
7673235 GTCTTAGAGATTATGC-CAAAA
1 GTCTTAGAGATTATGCTCAAAA
7673256 AATTTTACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (22 bp):
GTCTTAGAGATTATGCTCAAAA
Found at i:7673609 original size:103 final size:104
Alignment explanation
Indices: 7673430--7673633 Score: 306
Period size: 103 Copynumber: 2.0 Consensus size: 104
7673420 AAATTATGCC
*
7673430 TAGAAGTCTTAAACATTATGCTCGAAAGTCTTACAAATTTCAACATCTTTAAATGCTCCTCATAT
1 TAGAAGTCTTAAACATTATGCTCGAAAGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATAT
*
7673495 CAAAGGCATTGAAAC-TTAGAAATTTAAAATGTTTTGCT
66 CAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCT
* * *
7673533 TAGAAGTCTTAGAA-ATTATG-TCCGAAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTTAT
1 TAGAAGTCTTA-AACATTATGCT-CGAAAGTCTTACAAATCTCAACATCTTTAAATGCTCCTCAT
* *
7673596 ATTAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTT
64 ATCAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTT
7673634 ATCCGAAGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
102 1 0.01
103 69 0.76
104 21 0.23
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (104 bp):
TAGAAGTCTTAAACATTATGCTCGAAAGTCTTACAAATCTCAACATCTTTAAATGCTCCTCATAT
CAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCT
Found at i:7673796 original size:22 final size:22
Alignment explanation
Indices: 7673771--7673825 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
7673761 AATCTCAATC
* *
7673771 GTGCTAGCTAAATTGCGCTTAG
1 GTGCCAGCTAAATTGAGCTTAG
* *
7673793 GTGCCAGTTAATTTGAGCTTAG
1 GTGCCAGCTAAATTGAGCTTAG
* *
7673815 ATGCCAACTAA
1 GTGCCAGCTAA
7673826 TCTAGGCTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (22 bp):
GTGCCAGCTAAATTGAGCTTAG
Found at i:7674127 original size:18 final size:18
Alignment explanation
Indices: 7674104--7674154 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
7674094 TTCCATTAAA
* *
7674104 TGATGCAAATGTAAATGT
1 TGATGCGAATGCAAATGT
7674122 TGATGCGAATGCAAATGT
1 TGATGCGAATGCAAATGT
*
7674140 TAATGCGAATGCAAA
1 TGATGCGAATGCAAA
7674155 AATGTGAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (18 bp):
TGATGCGAATGCAAATGT
Found at i:7675658 original size:11 final size:11
Alignment explanation
Indices: 7675644--7675684 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
7675634 CTTTTCCTCC
7675644 CTTTTTTTTCT
1 CTTTTTTTTCT
7675655 CTTTCTTTTTCT
1 CTTT-TTTTTCT
*
7675667 C--TTCTTTCT
1 CTTTTTTTTCT
7675676 CTTTTTTTT
1 CTTTTTTTT
7675685 TTTGAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 9 0.36
12 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:7683853 original size:2 final size:2
Alignment explanation
Indices: 7683846--7683870 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7683836 GGGAAGACTC
7683846 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7683871 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7684274 original size:22 final size:22
Alignment explanation
Indices: 7684221--7684274 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
7684211 GATGGGTGTA
*
7684221 TGGTGGGTATGGGTGATAGGTG
1 TGGTGGGTATGAGTGATAGGTG
** **
7684243 CCGTATGTATGAGTGATAGGTG
1 TGGTGGGTATGAGTGATAGGTG
7684265 TGGTGGGTAT
1 TGGTGGGTAT
7684275 AAGGCTGGGC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.46, T:0.33
Consensus pattern (22 bp):
TGGTGGGTATGAGTGATAGGTG
Found at i:7687042 original size:128 final size:130
Alignment explanation
Indices: 7686880--7687376 Score: 406
Period size: 131 Copynumber: 3.8 Consensus size: 130
7686870 CTACATTTGT
* *
7686880 ACAACAACAAAAAT-TTATT-ATGAAAATTTATTTTATTTGTAATGATTTTTCAACGTCGTTACT
1 ACAACAAC-AAAATGTTGTTGA-GAAAATTT-TTTTATTTGAAATGATTTTTCAACGTCGTTACT
* * ** *
7686943 TAAGTTATTTTTTAATATTTTATAGAACGACAAATAAAAGTTGTTGCGAAAACTTTTATCATATT
63 TAAGTTATTTTTTAATATTTTATAGAACGACAAA-AAAAGTTGTTACAAAAAAATTTATAATATT
*
7687008 TGTA
127 CGTA
* * * *
7687012 ACGACAACAAAATGTTG-T-AG-CAATTTTTTTATTTAAAATGATTTTTCAACGTCGATACTTAA
1 ACAACAACAAAATGTTGTTGAGAAAATTTTTTTATTTGAAATGATTTTTCAACGTCGTTACTTAA
* *
7687074 CTTA-TTTTTAATATTTTATATAACGACAAAAAAAGTTGTTACAAAAAAATTTATAATATTCGTA
66 GTTATTTTTTAATATTTTATAGAACGACAAAAAAAGTTGTTACAAAAAAATTTATAATATTCGTA
* * * * * ** * **
7687138 ACAATAACAAAATGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAATATTGTTGGTTA
1 ACAACAACAAAATGTTGTTGAGAAAA-TTTTTTTATTTGAAATGATTTTTCAACGTCGTTACTTA
* ** * * * * *
7687203 AGTTTTTTTTTAATATTTTAT-GCAACGACAAAAATTGTTATTA-TAAAAACTCTTATCATATTT
65 AGTTATTTTTTAATATTTTATAG-AACGACAAAAAAAGTTGTTACAAAAAAAT-TTATAATATTC
*
7687266 ATA
128 GTA
* * * * * * *
7687269 ACAATAA-AAAATTATTGTTGCA-AAAACTTATTTTATTT-ACAATAATTTTTCAATGTCATTGC
1 ACAACAACAAAA-TGTTGTTG-AGAAAA-TTTTTTTATTTGA-AATGATTTTTCAACGTCGTTAC
* * * *
7687331 CTAAGTTATTTTTTTAATATTTTGTACAACGA-TAAAAAAGTTGTTA
62 TTAAGTTA-TTTTTTAATATTTTATAGAACGACAAAAAAAGTTGTTA
7687377 AAATTTTTTT
Statistics
Matches: 296, Mismatches: 56, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
126 43 0.15
127 26 0.09
128 37 0.12
129 7 0.02
130 42 0.14
131 112 0.38
132 29 0.10
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (130 bp):
ACAACAACAAAATGTTGTTGAGAAAATTTTTTTATTTGAAATGATTTTTCAACGTCGTTACTTAA
GTTATTTTTTAATATTTTATAGAACGACAAAAAAAGTTGTTACAAAAAAATTTATAATATTCGTA
Found at i:7687264 original size:131 final size:132
Alignment explanation
Indices: 7687078--7687499 Score: 350
Period size: 131 Copynumber: 3.2 Consensus size: 132
7687068 ACTTAACTTA
* * *
7687078 TTTTTAATATTTTATATAACGACAAAAAAAGTTGTTACAAAAAAATTTATAATATTCGTAACAAT
1 TTTTTAATATTTTATACAACGACAAAAAAAGTTATTACAAAAAAATTTATAATATTCATAACAAT
* ** * * * ** **
7687143 AACAAAA-TGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAATATTGTTGGTTAAGTT
66 AA-AAAATTATTGTTGCAAAAACTTATTTTATTTACAATAATTTTTCAATATCATTGCCTAAGTT
7687207 -TT
130 ATT
* ** * * * *
7687209 TTTTTAATATTTTATGCAACGACAAAAATTGTTATTA-TAAAAACTCTTATCATATTTATAACAA
1 TTTTTAATATTTTATACAACGACAAAAAAAGTTATTACAAAAAAAT-TTATAATATTCATAACAA
*
7687273 TAAAAAATTATTGTTGCAAAAACTTATTTTATTTACAATAATTTTTCAATGTCATTGCCTAAGTT
65 TAAAAAATTATTGTTGCAAAAACTTATTTTATTTACAATAATTTTTCAATATCATTGCCTAAGTT
7687338 ATT
130 ATT
* * * **** * ** **
7687341 TTTTTAATATTTTGTACAACGA-TAAAAAAGTTGTTA-AAATTTTTTTTATCATATTTGTAATGA
1 TTTTTAATATTTTATACAACGACAAAAAAAGTTATTACAAA-AAAATTTATAATATTCATAACAA
* ** * * * * * * * * *
7687404 TAAAAAATTATTATTATAAAAAATTGTTTTATTTACAATAATCTCTCATTGTCATGGCTTAATTT
65 TAAAAAATTATTGTTGCAAAAACTTATTTTATTTACAATAATTTTTCAATATCATTGCCTAAGTT
7687469 ATT
130 ATT
*
7687472 TTATTTAATATTTTTATACAAGGACAAA
1 TT-TTTAATA-TTTTATACAACGACAAA
7687500 TTAAGTTGTT
Statistics
Matches: 235, Mismatches: 49, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
130 10 0.04
131 182 0.77
132 30 0.13
133 11 0.05
134 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (132 bp):
TTTTTAATATTTTATACAACGACAAAAAAAGTTATTACAAAAAAATTTATAATATTCATAACAAT
AAAAAATTATTGTTGCAAAAACTTATTTTATTTACAATAATTTTTCAATATCATTGCCTAAGTTA
TT
Found at i:7689186 original size:32 final size:32
Alignment explanation
Indices: 7689150--7689211 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
7689140 TGACAATATA
*
7689150 ACTTTAATTTCCATAAGCATCTAATAATTATG
1 ACTTTAATTTCCATAAGCACCTAATAATTATG
* *
7689182 ACTTTAATTTCCTTAAGTACCTAATAATTA
1 ACTTTAATTTCCATAAGCACCTAATAATTA
7689212 AGCAGTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (32 bp):
ACTTTAATTTCCATAAGCACCTAATAATTATG
Found at i:7692038 original size:295 final size:293
Alignment explanation
Indices: 7691474--7692069 Score: 797
Period size: 295 Copynumber: 2.0 Consensus size: 293
7691464 CTTTTTAAAC
* * *
7691474 ATGATAAATTTTTTGCTTTGATCTCTATTTTAGCAAATCTCTATTTTATATTTTGTTTTCCATCG
1 ATGATAAATTTTTAGCTTGGATCTCTATTTTAGCAAATCTCTATTTTATATTTTGTTTTCCACCG
* * * * * * ** * *
7691539 TAATTTGTTGTTTTATTTGTGGGTATATTTTTTTCCAAGTGATTTATGGTTTACTACCAGAGATC
66 TAATTTGTTGCTTTATCTATGGGCAAATTTATTTCCAAGCAATTTATGGTTCACAACCAGAGATC
* * * *
7691604 ATGCTTCCAAGTTTGTCATCATCGATAGTAAAACTTAGTAGTGGTTCAAAACCATAAATCATTTA
131 ATGCTTCCAAGTATGTCATCATCGAGAGTAAAACTTAATAGTGGTTCAAAACCATAAATCATATA
* **
7691669 TTTTACTATTTTTCATTTTTTTAAAGCATTATCGTTCAACAAATCAACTTTTTGTTTTATAAGAT
196 TTTTACTATTTTTCATTTTTTTAAAGCATTATCATTCAACAAATCAACCCTTTGTTTTATAAGAT
7691734 ATATGTTTTCTATTTAGTT-TTGATCATAGTTTG
261 ATATGTTTTCTATTTAGTTCTT-ATCATAGTTTG
* * * *
7691767 ATGATAAATGTTTTCAGCTTGGATCTTTATTTTGGTAAATCTCTATTTTATATTTTGTTTTCGAC
1 ATGATAAAT-TTTT-AGCTTGGATCTCTATTTTAGCAAATCTCTATTTTATATTTTGTTTTCCAC
* *
7691832 CGTAATTTGTTGACTTT-TCTATGGGCAAATTTATTTCTAGGCAATTTATGGTTCACAACCAGAG
64 CGTAATTTGTTG-CTTTATCTATGGGCAAATTTATTTCCAAGCAATTTATGGTTCACAACCAGAG
** *
7691896 ATCATGCTTCCAAGTATGTCATCATCGACGA-TAAAACTTAATAG-GGTTCAAATTCATAGATCA
128 ATCATGCTTCCAAGTATGTCATCATCGA-GAGTAAAACTTAATAGTGGTTCAAAACCATAAATCA
* * *
7691959 TATATTTTACTCTATTTTCATGTTTTTTAAAGCATTATTATTCAGC-AATCAACCCTTTGTTTTA
192 TATATTTTACTAT-TTTTCAT-TTTTTTAAAGCATTATCATTCAACAAATCAACCCTTTGTTTTA
*
7692023 TAAGATCTATGTTTTCTATTTAGTTCTTATCATAGTTTG
255 TAAGATATATGTTTTCTATTTAGTTCTTATCATAGTTTG
7692062 ATGATAAA
1 ATGATAAA
7692070 GGTATTTGAC
Statistics
Matches: 263, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
293 9 0.03
294 31 0.12
295 196 0.75
296 27 0.10
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (293 bp):
ATGATAAATTTTTAGCTTGGATCTCTATTTTAGCAAATCTCTATTTTATATTTTGTTTTCCACCG
TAATTTGTTGCTTTATCTATGGGCAAATTTATTTCCAAGCAATTTATGGTTCACAACCAGAGATC
ATGCTTCCAAGTATGTCATCATCGAGAGTAAAACTTAATAGTGGTTCAAAACCATAAATCATATA
TTTTACTATTTTTCATTTTTTTAAAGCATTATCATTCAACAAATCAACCCTTTGTTTTATAAGAT
ATATGTTTTCTATTTAGTTCTTATCATAGTTTG
Found at i:7692253 original size:30 final size:30
Alignment explanation
Indices: 7692219--7692275 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7692209 GGATGGTGTG
* * * *
7692219 AAGGTGGCCAAATGTTTTAGGGTATATGGC
1 AAGGTGGCAAAAAGTTTCAAGGTATATGGC
7692249 AAGGTGGCAAAAAGTTTCAAGGTATAT
1 AAGGTGGCAAAAAGTTTCAAGGTATAT
7692276 AATCAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (30 bp):
AAGGTGGCAAAAAGTTTCAAGGTATATGGC
Found at i:7692900 original size:100 final size:102
Alignment explanation
Indices: 7692724--7692971 Score: 271
Period size: 100 Copynumber: 2.5 Consensus size: 102
7692714 CAAAAAAGGT
* *
7692724 TTTTGTAACCAAATTTTATGATTGTTAAAATGAAATTAAAACAATGACATTTAATCATTACAACA
1 TTTTGTAACCAAATTTTATGGTTGTTAAAAAGAAATTAAAACAATGACATTTAATCATTACAACA
* *
7692789 TATCTTTTAT-AAC-CAA-AATTATTGTTACT-TAAGTA-
66 TATCTTATATAAACGCAATAA-TATAGTTA-TGTAAG-AG
* ** * *
7692824 TTTTGTAACCAACTTTTATGGTTGTTGAAAAAGAGTTTAATA-AATGACATTTAATCGTTACGAA
1 TTTTGTAACCAAATTTTATGGTTGTT-AAAAAGAAATTAAAACAATGACATTTAATCATTAC-AA
*
7692888 -ATATGTTATATAAACGCAATAATATAGTTATGTAAGAG
64 CATATCTTATATAAACGCAATAATATAGTTATGTAAGAG
* * *
7692926 TTTTGTAACCAAATTTTATAGTTG-CAAAAA-AAGTTAAAACAATGAC
1 TTTTGTAACCAAATTTTATGGTTGTTAAAAAGAAATTAAAACAATGAC
7692972 GTTATGAAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
99 6 0.05
100 62 0.50
101 18 0.15
102 36 0.29
103 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (102 bp):
TTTTGTAACCAAATTTTATGGTTGTTAAAAAGAAATTAAAACAATGACATTTAATCATTACAACA
TATCTTATATAAACGCAATAATATAGTTATGTAAGAG
Found at i:7692958 original size:102 final size:100
Alignment explanation
Indices: 7692766--7692958 Score: 223
Period size: 102 Copynumber: 1.9 Consensus size: 100
7692756 AAATTAAAAC
* *
7692766 AATGACATTTAATCATTACAACATATCTTTTATAACCAAAATTATTGTTACTTAAGTATTTTGTA
1 AATGACATTTAATCATTACAACATATCTTATATAACCAAAATTATAGTTACTTAAGTATTTTGTA
* * ***
7692831 ACCAACTTTTATGGTTGTTGAAAAAGAGTTTAATA
66 ACCAAATTTTATAGTTGCAAAAAAAGAGTTTAATA
* *
7692866 AATGACATTTAATCGTTACGAA-ATATGTTATATAAACGCAATAA-TATAGTTA-TGTAAG-AGT
1 AATGACATTTAATCATTAC-AACATATCTTATAT-AAC-CAA-AATTATAGTTACT-TAAGTA-T
7692927 TTTGTAACCAAATTTTATAGTTGCAAAAAAAG
60 TTTGTAACCAAATTTTATAGTTGCAAAAAAAG
7692959 TTAAAACAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
100 27 0.35
101 7 0.09
102 42 0.54
103 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (100 bp):
AATGACATTTAATCATTACAACATATCTTATATAACCAAAATTATAGTTACTTAAGTATTTTGTA
ACCAAATTTTATAGTTGCAAAAAAAGAGTTTAATA
Found at i:7698070 original size:104 final size:106
Alignment explanation
Indices: 7697888--7698080 Score: 309
Period size: 106 Copynumber: 1.8 Consensus size: 106
7697878 AAGTAAAGGG
* * *
7697888 AAAAACTATAATAAAGATGGAACTATTAGTTCAATTGAATTTAGACATATATAAATTAATAATCT
1 AAAAACTATAATAAACATAGAACTATTAATTCAATTGAATTTAGACATATATAAATTAATAATCT
7697953 TTACTTAATAATTTGTTTATGGAAAAACAAAAATTTAGAAA
66 TTACTTAATAATTTGTTTATGGAAAAACAAAAATTTAGAAA
* * * *
7697994 AAAAATTATAATAAACATAGAAGTATTAATTTAGTTGAATTTAGACAT-T-TAAATTAATAATCT
1 AAAAACTATAATAAACATAGAACTATTAATTCAATTGAATTTAGACATATATAAATTAATAATCT
7698057 TTACTTAATAATTTGTTTATGGAA
66 TTACTTAATAATTTGTTTATGGAA
7698081 GAAAATAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 38 0.47
105 1 0.01
106 41 0.51
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (106 bp):
AAAAACTATAATAAACATAGAACTATTAATTCAATTGAATTTAGACATATATAAATTAATAATCT
TTACTTAATAATTTGTTTATGGAAAAACAAAAATTTAGAAA
Found at i:7700793 original size:40 final size:41
Alignment explanation
Indices: 7700749--7700834 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
7700739 CATATGCTTC
7700749 ATGAGACATTGAAAAAGCTATATAACTATGAA-TACCAACA
1 ATGAGACATTGAAAAAGCTATATAACTATGAACTACCAACA
** * * *
7700789 ATGAGGTATTGAAAAAGTTATATAATTATGAACTACCAATA
1 ATGAGACATTGAAAAAGCTATATAACTATGAACTACCAACA
7700830 ATGAG
1 ATGAG
7700835 TGCTTTCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 28 0.70
41 12 0.30
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (41 bp):
ATGAGACATTGAAAAAGCTATATAACTATGAACTACCAACA
Found at i:7704854 original size:27 final size:26
Alignment explanation
Indices: 7704822--7704880 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 26
7704812 AAAACAAAAA
7704822 AAAAAAAAAAAAAACGAGACATACGATTT
1 AAAAAAAAAAAAAA--AGACATAC-ATTT
*
7704851 AAAAAAAAAAAAAAAGACATACCTTT
1 AAAAAAAAAAAAAAAGACATACATTT
7704877 AAAA
1 AAAA
7704881 GTATATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.24
27 8 0.28
29 14 0.48
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAGACATACATTT
Found at i:7704965 original size:28 final size:28
Alignment explanation
Indices: 7704925--7704992 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
7704915 TAACAAATTA
* *
7704925 GATCTTCGATTTGTAAACAATTTGTTTG
1 GATCATCGATTTGTAAACAATTTGGTTG
7704953 GATCATCGATTTGTAAACAATTTGGTTG
1 GATCATCGATTTGTAAACAATTTGGTTG
7704981 GATCA--GATTTGT
1 GATCATCGATTTGT
7704993 CAATTGGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.18
28 31 0.82
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (28 bp):
GATCATCGATTTGTAAACAATTTGGTTG
Found at i:7705064 original size:15 final size:16
Alignment explanation
Indices: 7705044--7705085 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7705034 AATAGAATCA
7705044 ATTTTGGTTTTGG-TT
1 ATTTTGGTTTTGGATT
*
7705059 ATTTTGGGTTTGGATT
1 ATTTTGGTTTTGGATT
*
7705075 ACTTTGAGTTT
1 ATTTTG-GTTT
7705086 AAATCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 7 0.32
17 3 0.14
ACGTcount: A:0.12, C:0.02, G:0.26, T:0.60
Consensus pattern (16 bp):
ATTTTGGTTTTGGATT
Found at i:7706196 original size:348 final size:348
Alignment explanation
Indices: 7705559--7706253 Score: 1266
Period size: 348 Copynumber: 2.0 Consensus size: 348
7705549 CGTATTAGAC
*
7705559 ACCGGATACATGTTTGTCAAATTTGAAGCATTTAATAGGTTTTTTATTTATATTACTTTAATATA
1 ACCGGATACATGTTTGTCAAATTTGAAGCATTTAATAGGTTTTTTATTTATATTAATTTAATATA
* * *
7705624 AATGTACAAAAAGTATTTTTAACTTTTAATCACAATATACAATTACATATTTAATATAATCATAT
66 AATGTACAAAAAGTATTTTAAACTTTTAATAACAATACACAATTACATATTTAATATAATCATAT
*
7705689 AAATTTTTTAAAATATTTATCTATGATAAACTTTTAATATGCAATTATTTTTATATTAATAATAT
131 AAATTTTTTAAAATATTTATCTAAGATAAACTTTTAATATGCAATTATTTTTATATTAATAATAT
*
7705754 AATTACAATATAAATAATCATTTTAGTATAATTGAAGCTCATTATATAATTTATTCTAAATTGCA
196 AACTACAATATAAATAATCATTTTAGTATAATTGAAGCTCATTATATAATTTATTCTAAATTGCA
**
7705819 TGATTAAAAATTAATTATATAATTATAACCTAAACATAACATATATGCATAACTCAATAGCTTAT
261 TGATTAAAAATTAATTATATAATTATAACCTAAACATAACATATATAAATAACTCAATAGCTTAT
7705884 TTATATACTTTATTCTTAATCAT
326 TTATATACTTTATTCTTAATCAT
*
7705907 ACCGGATACATGTTTGTCAAATTTGAAGCATTTAATAGGTTTTTTATTTATTTTAATTTAATATA
1 ACCGGATACATGTTTGTCAAATTTGAAGCATTTAATAGGTTTTTTATTTATATTAATTTAATATA
*
7705972 AATGTACAAAAAGTATTTTAAACTTTTAATAATAATACACAATTACATATTTAATATAATCATAT
66 AATGTACAAAAAGTATTTTAAACTTTTAATAACAATACACAATTACATATTTAATATAATCATAT
* *
7706037 -AATTTTTTAAAAATATTTATTTAAGATAGACTTTTAATATGCAATTATTTTTATATTAATAATA
131 AAATTTTTT-AAAATATTTATCTAAGATAAACTTTTAATATGCAATTATTTTTATATTAATAATA
7706101 TAACTACAATATAAATAATCATTTTAGTATAATTGAAGCTCATTATATAATTTATTCTAAATTGC
195 TAACTACAATATAAATAATCATTTTAGTATAATTGAAGCTCATTATATAATTTATTCTAAATTGC
7706166 ATGATTAAAAATTAATTATATAATTATAACCTAAACATAACATATATAAATAACTCAATAGCTTA
260 ATGATTAAAAATTAATTATATAATTATAACCTAAACATAACATATATAAATAACTCAATAGCTTA
7706231 TTTATATACTTTATTCTTAATCA
325 TTTATATACTTTATTCTTAATCA
7706254 CAGGAGAATT
Statistics
Matches: 334, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
347 8 0.02
348 326 0.98
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (348 bp):
ACCGGATACATGTTTGTCAAATTTGAAGCATTTAATAGGTTTTTTATTTATATTAATTTAATATA
AATGTACAAAAAGTATTTTAAACTTTTAATAACAATACACAATTACATATTTAATATAATCATAT
AAATTTTTTAAAATATTTATCTAAGATAAACTTTTAATATGCAATTATTTTTATATTAATAATAT
AACTACAATATAAATAATCATTTTAGTATAATTGAAGCTCATTATATAATTTATTCTAAATTGCA
TGATTAAAAATTAATTATATAATTATAACCTAAACATAACATATATAAATAACTCAATAGCTTAT
TTATATACTTTATTCTTAATCAT
Found at i:7710441 original size:22 final size:22
Alignment explanation
Indices: 7710411--7710458 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
7710401 GTTGTTGTTG
* * * *
7710411 TTTTTCATTTTTTTTTTTTTAC
1 TTTTCCATTTCTTTTTTCTTAA
7710433 TTTTCCATTTCTTTTTTCTTAA
1 TTTTCCATTTCTTTTTTCTTAA
7710455 TTTT
1 TTTT
7710459 TATAAACCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCCATTTCTTTTTTCTTAA
Found at i:7717242 original size:167 final size:167
Alignment explanation
Indices: 7716966--7717305 Score: 671
Period size: 167 Copynumber: 2.0 Consensus size: 167
7716956 AAGATTGTTA
7716966 CTCTTTAATTATGTTGTTTCATCAAATATCACTTCCTTAAGTAAGAATATACCTTTTTGAATCAT
1 CTCTTTAATTATGTTGTTTCATCAAATATCACTTCCTTAAGTAAGAATATACCTTTTTGAATCAT
7717031 TAAGGATAAATTGGTTCATTTGAATGATTACATTTTTCATTCTAATAGAAACAATTTTTTATGTT
66 TAAGGATAAATTGGTTCATTTGAATGATTACATTTTTCATTCTAATAGAAACAATTTTTTATGTT
7717096 TCAAAAAATTATAATTTTTCACTAAAGTAGTCGGTTG
131 TCAAAAAATTATAATTTTTCACTAAAGTAGTCGGTTG
7717133 CTCTTTAATTATGTTGTTTCATCAAATATCACTTCCTTAAGTAAGAATATACCTTTTTGAATCAT
1 CTCTTTAATTATGTTGTTTCATCAAATATCACTTCCTTAAGTAAGAATATACCTTTTTGAATCAT
7717198 TAAGGATAAATTGGTTCATTTGAATGATTACATTTTTCATTCTAATAGAAACAATTTTTTATGTT
66 TAAGGATAAATTGGTTCATTTGAATGATTACATTTTTCATTCTAATAGAAACAATTTTTTATGTT
7717263 TCAAAAAATTATAATTTTTCACTAAAGTAGTCGGTTG
131 TCAAAAAATTATAATTTTTCACTAAAGTAGTCGGTTG
*
7717300 CCCTTT
1 CTCTTT
7717306 TATATTTTCT
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 172 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (167 bp):
CTCTTTAATTATGTTGTTTCATCAAATATCACTTCCTTAAGTAAGAATATACCTTTTTGAATCAT
TAAGGATAAATTGGTTCATTTGAATGATTACATTTTTCATTCTAATAGAAACAATTTTTTATGTT
TCAAAAAATTATAATTTTTCACTAAAGTAGTCGGTTG
Found at i:7720023 original size:14 final size:13
Alignment explanation
Indices: 7719999--7720040 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7719989 AAATTTTATA
*
7719999 TTTATTTTAATTT
1 TTTAGTTTAATTT
7720012 TGTTAGTTTAA-TT
1 T-TTAGTTTAATTT
*
7720025 TTTGGTTTAATTT
1 TTTAGTTTAATTT
7720038 TTT
1 TTT
7720041 TAGTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
14 8 0.32
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (13 bp):
TTTAGTTTAATTT
Found at i:7720041 original size:14 final size:14
Alignment explanation
Indices: 7719999--7720044 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
7719989 AAATTTTATA
*
7719999 TTTATTTTAATTTT
1 TTTAGTTTAATTTT
*
7720013 GTTAGTTTAA--TT
1 TTTAGTTTAATTTT
*
7720025 TTTGGTTTAATTTT
1 TTTAGTTTAATTTT
7720039 TTTAGT
1 TTTAGT
7720045 CAAAAAAGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 10 0.40
14 15 0.60
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.70
Consensus pattern (14 bp):
TTTAGTTTAATTTT
Found at i:7720719 original size:16 final size:16
Alignment explanation
Indices: 7720700--7720740 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
7720690 ATTAATATTA
7720700 TATTTGCATAATAATT
1 TATTTGCATAATAATT
* *
7720716 TATTTGCTTAATATTT
1 TATTTGCATAATAATT
7720732 TATTTGCAT
1 TATTTGCAT
7720741 TATTAGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (16 bp):
TATTTGCATAATAATT
Found at i:7720752 original size:32 final size:32
Alignment explanation
Indices: 7720691--7720753 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
7720681 ATTTGCATGA
**
7720691 TTAATATTATATTTGCATAATAATTTATTTGC
1 TTAATATTATATTTGCATAATAAGATATTTGC
* * *
7720723 TTAATATTTTATTTGCATTATTAGATATTTG
1 TTAATATTATATTTGCATAATAAGATATTTG
7720754 TGTGATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (32 bp):
TTAATATTATATTTGCATAATAAGATATTTGC
Found at i:7720784 original size:20 final size:20
Alignment explanation
Indices: 7720761--7720853 Score: 114
Period size: 20 Copynumber: 4.7 Consensus size: 20
7720751 TTGTGTGATT
*
7720761 TATTAATATATTTGCATGAC
1 TATTAATTTATTTGCATGAC
* *
7720781 TATTAATATGTTTGCATGAC
1 TATTAATTTATTTGCATGAC
* * *
7720801 TATTAATTTATATACATGAT
1 TATTAATTTATTTGCATGAC
*
7720821 TATTAATTTATTTGCATGAT
1 TATTAATTTATTTGCATGAC
*
7720841 TATCAATTTATTT
1 TATTAATTTATTT
7720854 ATTTGTGTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (20 bp):
TATTAATTTATTTGCATGAC
Found at i:7720928 original size:12 final size:12
Alignment explanation
Indices: 7720913--7720946 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7720903 TATTTGCATG
7720913 ATTTATATTATT
1 ATTTATATTATT
*
7720925 ATTTGTATTATT
1 ATTTATATTATT
7720937 ATTATATATT
1 ATT-TATATT
7720947 TAATTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:7720976 original size:20 final size:20
Alignment explanation
Indices: 7720901--7721029 Score: 74
Period size: 20 Copynumber: 6.6 Consensus size: 20
7720891 TAATTGCATG
7720901 TTTATTTGCATGATT-TATA
1 TTTATTTGCATGATTATATA
* *
7720920 TTATTATTTGTATTATTAT-TA
1 -T-TTATTTGCATGATTATATA
* *
7720941 TATATTT--A--ATTGTATA
1 TTTATTTGCATGATTATATA
7720957 TTTATTTGCATGATTATATA
1 TTTATTTGCATGATTATATA
* * * * *
7720977 TATAATTACAT-ATTTTACA
1 TTTATTTGCATGATTATATA
*
7720996 CTATTAATTGCATGATTATATA
1 -T-TTATTTGCATGATTATATA
*
7721018 TTTAATTGCATG
1 TTTATTTGCATG
7721030 TCTATTTGCA
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
15 4 0.05
16 8 0.10
17 1 0.01
18 1 0.01
19 11 0.13
20 29 0.35
21 23 0.27
22 7 0.08
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTATTTGCATGATTATATA
Found at i:7721155 original size:19 final size:19
Alignment explanation
Indices: 7721109--7721156 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
7721099 TTATATATTT
7721109 ATATGAT-TATTATTGCATA
1 ATATGATAT-TTATTGCATA
* * *
7721128 ATTTTATATTTATTGCATG
1 ATATGATATTTATTGCATA
7721147 ATATGATATT
1 ATATGATATT
7721157 ATATATTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATGATATTTATTGCATA
Found at i:7721167 original size:25 final size:23
Alignment explanation
Indices: 7721126--7721186 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 23
7721116 TATTATTGCA
*
7721126 TAATTTTATATTTATTGCATGAT
1 TAATATTATATTTATTGCATGAT
*
7721149 ATGATATTATATATTATTGCATGAT
1 -TAATATTATAT-TTATTGCATGAT
7721174 TAATATTATATTT
1 TAATATTATATTT
7721187 GAATGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 19 0.58
25 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (23 bp):
TAATATTATATTTATTGCATGAT
Found at i:7721185 original size:19 final size:20
Alignment explanation
Indices: 7721114--7721182 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 20
7721104 TATTTATATG
* *
7721114 ATTATTATTGCATAATT-TT
1 ATTATTATTGCATGATTAAT
7721133 A-TATTTATTGCATGATATGATATT
1 ATTA-TTATTGCATGAT-T-A-A-T
7721157 ATATATTATTGCATGATTAAT
1 AT-TATTATTGCATGATTAAT
7721178 ATTAT
1 ATTAT
7721183 ATTTGAATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
18 2 0.05
19 12 0.30
20 4 0.10
21 3 0.08
22 1 0.03
23 1 0.03
24 3 0.08
25 12 0.30
26 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (20 bp):
ATTATTATTGCATGATTAAT
Found at i:7721341 original size:20 final size:20
Alignment explanation
Indices: 7721289--7721345 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
7721279 TGAATGGTTT
* * *
7721289 TTAATATATTTGTATGGTAT
1 TTAATATATTTGCATGATAA
*
7721309 TTTATAT-TATTGCATGATAA
1 TTAATATAT-TTGCATGATAA
7721329 TTAATATATTTGCATGA
1 TTAATATATTTGCATGA
7721346 CATTCTTGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (20 bp):
TTAATATATTTGCATGATAA
Found at i:7726615 original size:21 final size:21
Alignment explanation
Indices: 7726591--7726640 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7726581 AAAAAAAAGT
7726591 AAAAAAACAAA-AAATGGAAAA
1 AAAAAAACAAAGAAA-GGAAAA
7726612 AAAAAAGA-AAAGAAAGGAAAA
1 AAAAAA-ACAAAGAAAGGAAAA
*
7726633 AAGAAAAC
1 AAAAAAAC
7726641 TTAAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAACAAAGAAAGGAAAA
Found at i:7726638 original size:28 final size:27
Alignment explanation
Indices: 7726566--7726639 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
7726556 AGAGGTGTGC
*
7726566 AAAAAAC-AAAAAGCAAAAAAAAAGTA
1 AAAAAACAAAAAAGAAAAAAAAAAGTA
7726592 AAAAAACAAAAAATGGAAAAAAAAAAG-A
1 AAAAAACAAAAAA--GAAAAAAAAAAGTA
*
7726620 AAAGAAAGGAAAAAAGAAAA
1 AAA-AAA-CAAAAAAGAAAA
7726640 CTTAAACTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 7 0.17
27 5 0.12
28 9 0.22
29 14 0.34
30 6 0.15
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.03
Consensus pattern (27 bp):
AAAAAACAAAAAAGAAAAAAAAAAGTA
Found at i:7728291 original size:86 final size:86
Alignment explanation
Indices: 7728195--7728697 Score: 498
Period size: 86 Copynumber: 5.9 Consensus size: 86
7728185 TCCAAAGTTG
* * *
7728195 AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTTCCAAAGTTCCAAAGTCTCAATTATGGAGGAGC
1 AAGCCTTAGTTGTGGGGGAGTATTTTA-TTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGC
*
7728260 ATTTTGTTTTCCAAAAG-TTCA
65 ATTTTATTTTCCAAAAGTTTCA
* * * * *
7728281 AAGCCATAGTTGTGGGGAAGAATTTTATTTTT-CAAAGTTCCAAGGCCTCAGTTATGGGGGACCA
1 AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGCA
* *
7728345 TTTTCTTTTTCAAAAGTTTCA
66 TTTTATTTTCCAAAAGTTTCA
** * * *
7728366 TAA-CCTTAGTTGCCGGGGAGCATTTTA-TTTTCCAAAGTTCCAAAGCCTCAATTATGGGGGATC
1 -AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGC
* *
7728429 ATTTTATTTTTCTAAAGTTTCA
65 ATTTTATTTTCCAAAAGTTTCA
* * *
7728451 AAGCCTTAGATATGGGGGAATATTATT-TTTTTCCAAAGTTCCAAAGCCTCAGTTAT-GGGGAGC
1 AAGCCTTAGTTGTGGGGGAGTATT-TTATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGC
*
7728514 ATTTTTTTTTTCCAAAAGTTTCA
65 A-TTTTATTTTCCAAAAGTTTCA
* **** * * * * * * ***
7728537 AAGTCTTAGTTGCAATGGAGCACTTTTAATTTTT-CAAACTTCTAAGGCTTCAGTTGTGGAAAAG
1 AAGCCTTAGTTGTGGGGGAGTA-TTTT-ATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAG
* * *
7728601 CATTTTATTTTTCAAAAATTCCA
64 CATTTTATTTTCCAAAAGTTTCA
* * * * * *
7728624 AAACCTCAGTTGTGGGGAAGTATTTTATTTTTCAAAAGTTCCAAAGCCTCATTTATGGGGGAGAA
1 AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGCA
7728689 TTTTATTTT
66 TTTTATTTT
7728698 ATTTTTTTGA
Statistics
Matches: 333, Mismatches: 72, Indels: 24
0.78 0.17 0.06
Matches are distributed among these distances:
84 47 0.14
85 104 0.31
86 122 0.37
87 50 0.15
88 10 0.03
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (86 bp):
AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTCCAAAGTTCCAAAGCCTCAGTTATGGGGGAGCA
TTTTATTTTCCAAAAGTTTCA
Found at i:7728313 original size:43 final size:41
Alignment explanation
Indices: 7728195--7728697 Score: 341
Period size: 43 Copynumber: 11.7 Consensus size: 41
7728185 TCCAAAGTTG
* *
7728195 AAGCCTTAGTTGTGGGGGAGTATTTTATTTTTTCCAAAGTTCCA
1 AAGCCTCAGTTGT-GGGGAGCATTTTA-TTTTT-CAAAGTTCCA
* * * * *
7728239 AAGTCTCAATTATGGAGGAGCATTTTGTTTTCCAAAAGTT-CA
1 AAGCCTCAGTTGTGG-GGAGCATTTTATTTTTC-AAAGTTCCA
*
7728281 AAGCCAT-AGTTGTGGGGAAGAATTTTATTTTTCAAAGTTCCA
1 AAGCC-TCAGTTGTGGGG-AGCATTTTATTTTTCAAAGTTCCA
* * * * *
7728323 AGGCCTCAGTTATGGGGGACCATTTTCTTTTTCAAAAGTTTCA
1 AAGCCTCAGTTGT-GGGGAGCATTTTATTTTTC-AAAGTTCCA
* * *
7728366 TAA-CCTTAGTTGCCGGGGAGCATTTTATTTTCCAAAGTTCCA
1 -AAGCCTCAGTTG-TGGGGAGCATTTTATTTTTCAAAGTTCCA
* * * *
7728408 AAGCCTCAATTATGGGGGATCATTTTATTTTTCTAAAGTTTCA
1 AAGCCTCAGTTGT-GGGGAGCATTTTATTTTTC-AAAGTTCCA
* **
7728451 AAGCCTTAGATATG-GGGGAATATTATT-TTTTTCCAAAGTTCCA
1 AAGCCTCAG-T-TGTGGGGAGCATT-TTATTTTT-CAAAGTTCCA
* * *
7728494 AAGCCTCAGTTATGGGGAGCATTTTTTTTTTCCAAAAGTTTCA
1 AAGCCTCAGTTGTGGGGAGCATTTTATTTTT-C-AAAGTTCCA
* * *** * *
7728537 AAGTCTTAGTTGCAATGGAGCACTTTTAATTTTTCAAACTTCTA
1 AAGCCTCAGTTG-TGGGGAGCA-TTTT-ATTTTTCAAAGTTCCA
* * ** *
7728581 AGGCTTCAGTTGTGGAAAAGCATTTTATTTTTCAAAAATTCCA
1 AAGCCTCAGTTGTGG-GGAGCATTTTATTTTTC-AAAGTTCCA
* *
7728624 AAACCTCAGTTGTGGGGAAGTATTTTATTTTTCAAAAGTTCCA
1 AAGCCTCAGTTGTGGGG-AGCATTTTATTTTTC-AAAGTTCCA
* * *
7728667 AAGCCTCATTTATGGGGGAGAATTTTATTTT
1 AAGCCTCAGTTGT-GGGGAGCATTTTATTTT
7728698 ATTTTTTTGA
Statistics
Matches: 355, Mismatches: 77, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
41 14 0.04
42 102 0.29
43 177 0.50
44 51 0.14
45 6 0.02
46 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (41 bp):
AAGCCTCAGTTGTGGGGAGCATTTTATTTTTCAAAGTTCCA
Found at i:7729638 original size:16 final size:16
Alignment explanation
Indices: 7729617--7729659 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
7729607 ATAATATTAT
7729617 ATTTGCATGATAATTC
1 ATTTGCATGATAATTC
* * * *
7729633 ATTTGCTTAATATTTT
1 ATTTGCATGATAATTC
7729649 ATTTGCATGAT
1 ATTTGCATGAT
7729660 TAGTATATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (16 bp):
ATTTGCATGATAATTC
Found at i:7729703 original size:20 final size:20
Alignment explanation
Indices: 7729678--7729724 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7729668 TTGTGTGATT
7729678 TATTAATATA-TTTGCATGAC
1 TATTAATA-AGTTTGCATGAC
*
7729698 TATTAATAAGTTTGCATGAT
1 TATTAATAAGTTTGCATGAC
7729718 TATTAAT
1 TATTAAT
7729725 TTATCTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (20 bp):
TATTAATAAGTTTGCATGAC
Found at i:7729928 original size:32 final size:32
Alignment explanation
Indices: 7729853--7729921 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
7729843 TAGTTGTATT
*
7729853 ATTATATATTTAATGGTATGTTTATTTGCATG
1 ATTATATATTTAATGGTATGTCTATTTGCATG
*
7729885 ATTATATATTTAATTGTATGTCTATTTGCATG
1 ATTATATATTTAATGGTATGTCTATTTGCATG
7729917 ATTAT
1 ATTAT
7729922 TAATTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (32 bp):
ATTATATATTTAATGGTATGTCTATTTGCATG
Found at i:7730040 original size:25 final size:24
Alignment explanation
Indices: 7730011--7730058 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
7730001 TGATTTTTAT
* *
7730011 TTATTGTATGATATGATATTATATG
1 TTATTGCATGAT-TAATATTATATG
7730036 TTATTGCATGATTAATATTATAT
1 TTATTGCATGATTAATATTATAT
7730059 TTGAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (24 bp):
TTATTGCATGATTAATATTATATG
Found at i:7730190 original size:18 final size:18
Alignment explanation
Indices: 7730161--7730231 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 18
7730151 CATGAATGGT
*
7730161 TATTAATATATTTGCATGG
1 TATT-ATATATTTGCATGA
*
7730180 TATTTTATATTATTGCATGA
1 TATTATATA-T-TTGCATGA
7730200 TAATTAATATATTTGCATGA
1 T-ATT-ATATATTTGCATGA
7730220 TATTATATATTT
1 TATTATATATTT
7730232 AAATGATTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.27
19 8 0.18
20 17 0.38
21 4 0.09
22 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:7730237 original size:18 final size:20
Alignment explanation
Indices: 7730196--7730238 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
7730186 ATATTATTGC
**
7730196 ATGATAATTAATATATTTGC
1 ATGATAATTAATATATTTAA
7730216 ATGAT-ATT-ATATATTTAA
1 ATGATAATTAATATATTTAA
7730234 ATGAT
1 ATGAT
7730239 TGTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 3 0.14
20 5 0.24
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (20 bp):
ATGATAATTAATATATTTAA
Found at i:7733758 original size:19 final size:20
Alignment explanation
Indices: 7733734--7733772 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
7733724 TTTATTTTAT
7733734 AAAATT-TAAAATATATAAA
1 AAAATTATAAAATATATAAA
7733753 AAAATTAATAAAATATATAA
1 AAAATT-ATAAAATATATAA
7733773 TTAGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTATAAAATATATAAA
Found at i:7735506 original size:13 final size:12
Alignment explanation
Indices: 7735477--7735506 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
7735467 AATAAACTTT
7735477 TTTAAGAAAAAA
1 TTTAAGAAAAAA
7735489 TTTAAGAAAAAA
1 TTTAAGAAAAAA
7735501 TGTTAA
1 T-TTAA
7735507 AATTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (12 bp):
TTTAAGAAAAAA
Found at i:7735548 original size:25 final size:25
Alignment explanation
Indices: 7735497--7735544 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
7735487 AATTTAAGAA
*
7735497 AAAATGTTAAAATTATTATAATAAT
1 AAAATGTTAAAATTAATATAATAAT
*
7735522 AAAAT-TTAAAATTAATATCATAA
1 AAAATGTTAAAATTAATATAATAA
7735545 ATAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATGTTAAAATTAATATAATAAT
Found at i:7735570 original size:31 final size:31
Alignment explanation
Indices: 7735513--7735601 Score: 74
Period size: 31 Copynumber: 2.9 Consensus size: 31
7735503 TTAAAATTAT
* * *
7735513 TATAATAATAAAATT-TAAAATTAATATCATAA
1 TATAATATTTAAATTATAAAA-AAATAT-ATAA
* * *
7735545 -ATAATTTTTAAATTATAACAAAATATTTAA
1 TATAATATTTAAATTATAAAAAAATATATAA
* *
7735575 TATAATATTTAACTTTTAAAAAAATAT
1 TATAATATTTAAATTATAAAAAAATAT
7735602 TTAAATTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
30 3 0.07
31 38 0.84
32 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TATAATATTTAAATTATAAAAAAATATATAA
Found at i:7735602 original size:31 final size:31
Alignment explanation
Indices: 7735545--7735605 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7735535 AATATCATAA
* *
7735545 ATAATTTTTAAATTATAACAAAATATTTAAT
1 ATAATATTTAAATTATAAAAAAATATTTAAT
* *
7735576 ATAATATTTAACTTTTAAAAAAATATTTAA
1 ATAATATTTAAATTATAAAAAAATATTTAA
7735606 ATTATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAATATTTAAATTATAAAAAAATATTTAAT
Found at i:7735849 original size:38 final size:35
Alignment explanation
Indices: 7735776--7735850 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 35
7735766 TTTACAATAA
*
7735776 ATTAAATGTTATTCACGAGATTAATCCTAAGATTT
1 ATTAAATGTTATTCACGAGATTAATCCTAAAATTT
* *
7735811 ATTAAGTGTTATTCACGATGAGATTAATCTTAAAATTT
1 ATTAAATGTTATTCAC---GAGATTAATCCTAAAATTT
7735849 AT
1 AT
7735851 GATTTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 15 0.44
38 19 0.56
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (35 bp):
ATTAAATGTTATTCACGAGATTAATCCTAAAATTT
Found at i:7739049 original size:3 final size:3
Alignment explanation
Indices: 7739041--7739079 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
7739031 ATGCAAAGAA
7739041 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
7739080 ATAAATACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7741432 original size:75 final size:76
Alignment explanation
Indices: 7741290--7741441 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 76
7741280 GAGCATGTAG
7741290 AAAAACTAAAATGAAGTCCTTTTGTGGTGTAGTTTGGGGCATCGACATAGCGTATATATTTCTTA
1 AAAAACTAAAATGAAGTCCTTTTGTGGTGTAGTTTGGGGCATCGACATAGCGTATATATTTCTTA
7741355 TTCATCTCTTT
66 TTCATCTCTTT
*
7741366 AAAAACTAAAATGAAGTCCTTTTGTGGTGTAG-TTGGGGCATCGACATAGCGTATTTATTTCTTA
1 AAAAACTAAAATGAAGTCCTTTTGTGGTGTAGTTTGGGGCATCGACATAGCGTATATATTTCTTA
7741430 TTCATCTCTTT
66 TTCATCTCTTT
7741441 A
1 A
7741442 CCAATAGTGT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 43 0.57
76 32 0.43
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (76 bp):
AAAAACTAAAATGAAGTCCTTTTGTGGTGTAGTTTGGGGCATCGACATAGCGTATATATTTCTTA
TTCATCTCTTT
Found at i:7741460 original size:34 final size:34
Alignment explanation
Indices: 7741411--7741476 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
7741401 GGGCATCGAC
*
7741411 ATAGCGTATTTATTTCTTATTCATCTCTTTACCA
1 ATAGCGTATTCATTTCTTATTCATCTCTTTACCA
* *
7741445 ATAGTGTATTCATTTCTTATTCATCTTTTTAC
1 ATAGCGTATTCATTTCTTATTCATCTCTTTAC
7741477 TAAGAGAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.06, T:0.53
Consensus pattern (34 bp):
ATAGCGTATTCATTTCTTATTCATCTCTTTACCA
Found at i:7742267 original size:1 final size:1
Alignment explanation
Indices: 7742256--7742299 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
7742246 TTATAATTAA
* * * *
7742256 TTTTTTCTTTTTCTTTCTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7742300 GCAACTCAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:7742274 original size:10 final size:9
Alignment explanation
Indices: 7742256--7742296 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
7742246 TTATAATTAA
7742256 TTTTTTCTT
1 TTTTTTCTT
7742265 TTTCTTTC-T
1 TTT-TTTCTT
7742274 TTTTTTCTT
1 TTTTTTCTT
7742283 TTTTTT-TT
1 TTTTTTCTT
7742291 TTTTTT
1 TTTTTT
7742297 TTTGCAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.40
9 14 0.47
10 4 0.13
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:7742280 original size:12 final size:11
Alignment explanation
Indices: 7742257--7742299 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
7742247 TATAATTAAT
7742257 TTTTTCTTTTTC
1 TTTTT-TTTTTC
7742269 TTTCTTTTTTTC
1 TTT-TTTTTTTC
7742281 TTTTTTTTTT-
1 TTTTTTTTTTC
7742291 TTTTTTTTT
1 TTTTTTTTT
7742300 GCAACTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.30
11 7 0.23
12 12 0.40
13 2 0.07
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:7744285 original size:21 final size:21
Alignment explanation
Indices: 7744261--7744301 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7744251 TAAACATGAT
*
7744261 ATATACAAAGAACAATATAAC
1 ATATACAAAGAACAACATAAC
7744282 ATATACAAAGAACAACATAA
1 ATATACAAAGAACAACATAA
7744302 AAGGGTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (21 bp):
ATATACAAAGAACAACATAAC
Found at i:7748679 original size:21 final size:21
Alignment explanation
Indices: 7748653--7748696 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7748643 CACTAAGAGT
* *
7748653 ATCCAAAGTAGCAATCACACC
1 ATCCAAAGCAGCAACCACACC
*
7748674 ATCCAAAGCAGCAACCATACC
1 ATCCAAAGCAGCAACCACACC
7748695 AT
1 AT
7748697 TCAGTGATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (21 bp):
ATCCAAAGCAGCAACCACACC
Found at i:7748801 original size:27 final size:24
Alignment explanation
Indices: 7748739--7748801 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 24
7748729 AATGACTAGA
*
7748739 GTAGCAGTCACACCACCTAAAAATG
1 GTAGCA-TCACACCACCAAAAAATG
*
7748764 GTA-CATCCACACCATCCAAATAAATT
1 GTAGCAT-CACACCA-CCAAA-AAATG
7748790 GTAGCACTCACA
1 GTAGCA-TCACA
7748802 AATTTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 1 0.03
24 9 0.29
25 7 0.23
26 7 0.23
27 6 0.19
28 1 0.03
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (24 bp):
GTAGCATCACACCACCAAAAAATG
Found at i:7758465 original size:16 final size:16
Alignment explanation
Indices: 7758444--7758496 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
7758434 TAGTAAGGAG
7758444 ATGCACATAAATCAAC
1 ATGCACATAAATCAAC
** *
7758460 ATGCACA-AAA-GGAG
1 ATGCACATAAATCAAC
7758474 ATGCACATAAATCAAC
1 ATGCACATAAATCAAC
7758490 ATGCACA
1 ATGCACA
7758497 AAAGAGATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 15 0.52
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (16 bp):
ATGCACATAAATCAAC
Found at i:7758474 original size:30 final size:30
Alignment explanation
Indices: 7758438--7758504 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
7758428 GTACGCTAGT
7758438 AAGGAGATGCACATAAATCAACATGCACAA
1 AAGGAGATGCACATAAATCAACATGCACAA
7758468 AAGGAGATGCACATAAATCAACATGCACAA
1 AAGGAGATGCACATAAATCAACATGCACAA
7758498 AA-GAGAT
1 AAGGAGAT
7758505 ATACACGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.14
30 32 0.86
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (30 bp):
AAGGAGATGCACATAAATCAACATGCACAA
Found at i:7762185 original size:12 final size:12
Alignment explanation
Indices: 7762170--7762194 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7762160 TCTGTTAATT
7762170 ATTTCATTAAAA
1 ATTTCATTAAAA
7762182 ATTTCATTAAAA
1 ATTTCATTAAAA
7762194 A
1 A
7762195 ACTATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTCATTAAAA
Found at i:7763200 original size:21 final size:23
Alignment explanation
Indices: 7763175--7763223 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
7763165 GAAAAAAAAT
*
7763175 AAAAAATTTTTGTTATTTA-ATG
1 AAAAATTTTTTGTTATTTAGATG
7763197 AAAAATGTTTTTTGTTATTTAGATG
1 AAAAA--TTTTTTGTTATTTAGATG
7763222 AA
1 AA
7763224 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
AAAAATTTTTTGTTATTTAGATG
Found at i:7763520 original size:44 final size:46
Alignment explanation
Indices: 7763457--7763560 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 46
7763447 TTATTCTTCT
* * * *
7763457 ATATTAATATTTTA-AAATATTTAAAATAGTATTA-CTATTCTTAAA
1 ATATTTATATTTTATTAATA-TTAAAATAGTAATATCTATTATTAAA
*
7763502 ATA-TTAT-TTTTATTAATATTAAAATAGTAATATTTATTATTAAA
1 ATATTTATATTTTATTAATATTAAAATAGTAATATCTATTATTAAA
7763546 ATATTTATATTTTAT
1 ATATTTATATTTTAT
7763561 ATTGAAAGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 18 0.36
44 19 0.38
45 7 0.14
46 6 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (46 bp):
ATATTTATATTTTATTAATATTAAAATAGTAATATCTATTATTAAA
Found at i:7763544 original size:21 final size:21
Alignment explanation
Indices: 7763518--7763557 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7763508 TTTTTATTAA
7763518 TATTAAAATAGTAATATTTAT
1 TATTAAAATAGTAATATTTAT
* *
7763539 TATTAAAATATTTATATTT
1 TATTAAAATAGTAATATTT
7763558 TATATTGAAA
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:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAAAATAGTAATATTTAT
Found at i:7763563 original size:21 final size:20
Alignment explanation
Indices: 7763512--7763563 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
7763502 ATATTATTTT
*
7763512 TATTAATATTAAAATAGTAA
1 TATTTATATTAAAATAGTAA
* *
7763532 TATTTATTATTAAAATATTTA
1 TATTTA-TATTAAAATAGTAA
7763553 TATTTTATATT
1 TA-TTTATATT
7763564 GAAAGTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTTATATTAAAATAGTAA
Found at i:7763776 original size:7 final size:7
Alignment explanation
Indices: 7763764--7763799 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
7763754 AATAAAAATA
7763764 TTATTAT
1 TTATTAT
7763771 TTATTAT
1 TTATTAT
7763778 TTATTAT
1 TTATTAT
7763785 TTATTAT
1 TTATTAT
7763792 TTATTAT
1 TTATTAT
7763799 T
1 T
7763800 AAAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTAT
Found at i:7763782 original size:34 final size:34
Alignment explanation
Indices: 7763713--7763783 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 34
7763703 TCATATTAAG
**
7763713 AAAATAATATTAATATATTATTTAACATTAATTATT
1 AAAATAATAAAAATATATTATTT-A-ATTAATTATT
*
7763749 AAAATAATAAAAATATTATTATTT-ATTATTTATT
1 AAAATAATAAAAATA-TATTATTTAATTAATTATT
7763783 A
1 A
7763784 TTTATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 10 0.32
36 13 0.42
37 8 0.26
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (34 bp):
AAAATAATAAAAATATATTATTTAATTAATTATT
Found at i:7763786 original size:51 final size:50
Alignment explanation
Indices: 7763728--7763828 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
7763718 AATATTAATA
* *
7763728 TATTATTTAACATTAATTATTAAAATAATAAAAATATTATTATTTATTATT
1 TATTATTTAACATTAATTATTAAAATAAT-AAAATAATACTATTTATTATT
** * *
7763779 TATTATTTATTATTTATTATTAAAATAATAATATAATACTATTTATTATT
1 TATTATTTAACATTAATTATTAAAATAATAAAATAATACTATTTATTATT
7763829 GAAATATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 18 0.41
51 26 0.59
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (50 bp):
TATTATTTAACATTAATTATTAAAATAATAAAATAATACTATTTATTATT
Found at i:7765862 original size:13 final size:13
Alignment explanation
Indices: 7765831--7765856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7765821 CTACCTACCC
7765831 ATAAAAAAATCAA
1 ATAAAAAAATCAA
7765844 ATAAAAAAATCAA
1 ATAAAAAAATCAA
7765857 TCAAAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATCAA
Done.