Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 104 of 113
Found at i:20506838 original size:19 final size:19
Alignment explanation
Indices: 20506799--20506841 Score: 77
Period size: 19 Copynumber: 2.2 Consensus size: 19
20506789 TTTTCTCTCC
20506799 TTTTCATTTTTTTTTATTT
1 TTTTCATTTTTTTTTATTT
20506818 TTTTCATTTTTTTATTATTT
1 TTTTCATTTTTTT-TTATTT
20506838 TTTT
1 TTTT
20506842 TTGTTCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTCATTTTTTTTTATTT
Found at i:20508901 original size:24 final size:25
Alignment explanation
Indices: 20508866--20508912 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
20508856 TAAAAAAATT
20508866 TTTACCTATG-AATTT-TATAAAAA
1 TTTACCTATGAAATTTCTATAAAAA
*
20508889 TTTACCATTTGAAATTTCTATAAA
1 TTTACC-TATGAAATTTCTATAAA
20508913 TTTCATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 5 0.25
26 6 0.30
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTACCTATGAAATTTCTATAAAAA
Found at i:20509047 original size:29 final size:28
Alignment explanation
Indices: 20508985--20509047 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
20508975 TTAATCATGC
*
20508985 AAAAATACTAAAAAAAACAAACACATAA
1 AAAAATACTAAAAAAAACAAAAACATAA
* * *
20509013 ATAAAATACTAAATAAAATAAAAATATCAA
1 A-AAAATACTAAAAAAAACAAAAACAT-AA
20509043 AAAAA
1 AAAAA
20509048 ATAGAAACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.16
Consensus pattern (28 bp):
AAAAATACTAAAAAAAACAAAAACATAA
Found at i:20509572 original size:31 final size:31
Alignment explanation
Indices: 20509501--20509572 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
20509491 CTGGAAACTC
* * * *
20509501 ACCAAAAAATTTAACCAGTATTGAAAAATTC
1 ACCAAAAAATTCAACCAGAATTAAAAAATTA
* *
20509532 ATCATAAAATTCAACC-GAAGTTAAAAAATTA
1 ACCAAAAAATTCAACCAGAA-TTAAAAAATTA
20509563 ACCAAAAAAT
1 ACCAAAAAAT
20509573 GGAAATTTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (31 bp):
ACCAAAAAATTCAACCAGAATTAAAAAATTA
Found at i:20512060 original size:23 final size:24
Alignment explanation
Indices: 20512029--20512081 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
20512019 TTTTTTTACA
*
20512029 TTTTATCATTGACCTAC-TTTCTT
1 TTTTTTCATTGACCTACTTTTCTT
20512052 TTTTTTCATTGACCTACTTTTCTT
1 TTTTTTCATTGACCTACTTTTCTT
20512076 TTTTTT
1 TTTTTT
20512082 TCTTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.13, C:0.19, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTTTTCATTGACCTACTTTTCTT
Found at i:20512232 original size:14 final size:15
Alignment explanation
Indices: 20512201--20512256 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
20512191 CTTCAAGGCT
20512201 AGATAAAAAATAGAA
1 AGATAAAAAATAGAA
* *
20512216 AGAT-AAAAATTGGA
1 AGATAAAAAATAGAA
*
20512230 AGAAAAGAAAAGTAGAA
1 AGATAA-AAAA-TAGAA
20512247 AGATGAAAAA
1 AGAT-AAAAA
20512257 CATTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.35
15 5 0.16
16 4 0.13
17 9 0.29
18 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (15 bp):
AGATAAAAAATAGAA
Found at i:20514741 original size:24 final size:25
Alignment explanation
Indices: 20514714--20514784 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
20514704 AAAAATTTAT
*
20514714 ATTTAATATATTATTAATATA-TAA
1 ATTTAATATATTATTAATAAATTAA
* *
20514738 ATTTTATATATTATCAATAAATTAA
1 ATTTAATATATTATTAATAAATTAA
* *
20514763 ATTAAATTATTTTATTAATAAA
1 ATTTAA-TATATTATTAATAAA
20514785 AGAAATTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.47
25 7 0.18
26 13 0.34
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATATATTATTAATAAATTAA
Found at i:20514782 original size:26 final size:26
Alignment explanation
Indices: 20514720--20514800 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
20514710 TTATATTTAA
* **
20514720 TATATTATTAATATA-TAAATTTTA-
1 TATATTATTAATAAATTAAATTAAAT
*
20514744 TATATTATCAATAAATTAAATTAAAT
1 TATATTATTAATAAATTAAATTAAAT
* **
20514770 TATTTTATTAATAAAAGAAATTAAAT
1 TATATTATTAATAAATTAAATTAAAT
*
20514796 GATAT
1 TATAT
20514801 AATTTTATTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
24 13 0.29
25 7 0.16
26 25 0.56
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (26 bp):
TATATTATTAATAAATTAAATTAAAT
Found at i:20514793 original size:31 final size:31
Alignment explanation
Indices: 20514756--20514815 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
20514746 TATTATCAAT
* *
20514756 AAATTAAATTAAATTATTTTATTAATAAAAG
1 AAATTAAATGAAATAATTTTATTAATAAAAG
*
20514787 AAATTAAATGATATAATTTTATTAATAAA
1 AAATTAAATGAAATAATTTTATTAATAAA
20514816 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
AAATTAAATGAAATAATTTTATTAATAAAAG
Found at i:20516950 original size:21 final size:21
Alignment explanation
Indices: 20516933--20516981 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20516923 AAGTTATATT
20516933 TATAAATAAATATTTTATTTA
1 TATAAATAAATATTTTATTTA
* * *
20516954 TATAATTAATTATTATA-TTA
1 TATAAATAAATATTTTATTTA
20516974 T-TAAATAA
1 TATAAATAA
20516982 TTAATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATAAATAAATATTTTATTTA
Found at i:20516969 original size:15 final size:15
Alignment explanation
Indices: 20516953--20517004 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
20516943 TATTTTATTT
*
20516953 ATATAATTAATTATT
1 ATATAATTAATTATA
*
20516968 ATATTATTAA--ATA
1 ATATAATTAATTATA
20516981 AT-TAATTAATTATA
1 ATATAATTAATTATA
*
20516995 ATTTAATTAA
1 ATATAATTAA
20517005 ATAATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 6 0.19
13 4 0.13
14 5 0.16
15 16 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATTAATTATA
Found at i:20516969 original size:19 final size:18
Alignment explanation
Indices: 20516929--20517003 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 18
20516919 TTTAAAGTTA
* *
20516929 TATTTATAAATAAATATTT
1 TATTTATAAATTAAT-TAT
20516948 TATTTATATAATTAATTAT
1 TATTTATA-AATTAATTAT
20516967 TATATTATTAAA-TAATTAAT
1 TAT-TTA-TAAATTAATT-AT
* *
20516987 TAATTATAATTTAATTA
1 TATTTATAAATTAATTA
20517004 AATAATTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.09
19 26 0.55
20 15 0.32
21 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTATAAATTAATTAT
Found at i:20516987 original size:27 final size:27
Alignment explanation
Indices: 20516956--20517012 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
20516946 TTTATTTATA
*
20516956 TAATTAATTATTATATT-ATTAAATAAT
1 TAATTAATTATAAT-TTAATTAAATAAT
20516983 TAATTAATTATAATTTAATTAAATAAT
1 TAATTAATTATAATTTAATTAAATAAT
20517010 TAA
1 TAA
20517013 ATTTACATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TAATTAATTATAATTTAATTAAATAAT
Found at i:20517004 original size:19 final size:18
Alignment explanation
Indices: 20516954--20517015 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
20516944 ATTTTATTTA
20516954 TATAATTAATT-ATTATAT
1 TATAATTAATTAATTA-AT
*
20516972 TATTAAATAATTAATTAAT
1 TA-TAATTAATTAATTAAT
*
20516991 TATAATTTAATTAAATAAT
1 TATAA-TTAATTAATTAAT
20517010 TA-AATT
1 TATAATT
20517016 TACATATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 25 0.66
20 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAATTAATTAATTAAT
Found at i:20517009 original size:8 final size:8
Alignment explanation
Indices: 20516955--20517014 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
20516945 TTTTATTTAT
20516955 ATAATT-A
1 ATAATTAA
* *
20516962 ATTATTAT
1 ATAATTAA
*
20516970 ATTATTAA
1 ATAATTAA
20516978 ATAATTAA
1 ATAATTAA
*
20516986 TTAATTATA
1 ATAATTA-A
20516995 ATTTAATTAA
1 A--TAATTAA
20517005 ATAATTAA
1 ATAATTAA
20517013 AT
1 AT
20517015 TTACATATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
7 5 0.12
8 29 0.67
9 1 0.02
10 2 0.05
11 6 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATAATTAA
Found at i:20517318 original size:19 final size:19
Alignment explanation
Indices: 20517272--20517320 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
20517262 ATTTAAAAAA
*
20517272 TAATTTTTAAATTATAATT
1 TAATTTTTAAATGATAATT
* *
20517291 AAATATTTAATATGAT-ATT
1 TAATTTTTAA-ATGATAATT
20517310 TAATTTTTAAA
1 TAATTTTTAAA
20517321 AATTTTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 1 0.04
19 19 0.79
20 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATTTTTAAATGATAATT
Found at i:20519279 original size:31 final size:31
Alignment explanation
Indices: 20519232--20519290 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
20519222 AGCTGACTTG
*
20519232 GTAGGAGTAACCTATGTAATAATTTATCATA
1 GTAGGAATAACCTATGTAATAATTTATCATA
* *
20519263 GTAGGAATAACTTATGTAATACTTTATC
1 GTAGGAATAACCTATGTAATAATTTATC
20519291 TTAATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (31 bp):
GTAGGAATAACCTATGTAATAATTTATCATA
Found at i:20520336 original size:16 final size:16
Alignment explanation
Indices: 20520315--20520345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20520305 AATTTTTTTT
20520315 AAAAAAAAAAAAAAGC
1 AAAAAAAAAAAAAAGC
*
20520331 AAAAAAACAAAAAAG
1 AAAAAAAAAAAAAAG
20520346 TTGCCTCTAT
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:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGC
Found at i:20520836 original size:22 final size:22
Alignment explanation
Indices: 20520804--20520846 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20520794 GAAAAGATAG
*
20520804 AAGAAGGATCCGAATAGGAGAT
1 AAGAAGAATCCGAATAGGAGAT
20520826 AAGAAGAATCCGAATAGGAGA
1 AAGAAGAATCCGAATAGGAGA
20520847 AGAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.12
Consensus pattern (22 bp):
AAGAAGAATCCGAATAGGAGAT
Found at i:20522867 original size:59 final size:57
Alignment explanation
Indices: 20522656--20522994 Score: 416
Period size: 59 Copynumber: 5.8 Consensus size: 57
20522646 AAAAAAATAA
* *
20522656 AAATTTTCAAAAAGAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAATTTTC--AAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* * * *
20522716 AAATTTTCGAAAAA-GTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
*
20522772 AAATTTTCAAAAAA-AGTTTTTGA-GAGAAAGTTGAAAGTATCAATTTTCCTCGAAAAT
1 AAATTTTCAAAAAATA-TTTTTGAGGA-AAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* * *
20522829 AAAAGTTTTCAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTTCTTGAAAAT
1 -AAA-TTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* * *
20522888 AAATTTTTAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT
1 AAATTTTCAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
20522947 AAAGTTTCAAAATGATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTT
1 AAATTTTCAAAA-AATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT
20522995 TCCTGCACAA
Statistics
Matches: 247, Mismatches: 22, Indels: 22
0.85 0.08 0.08
Matches are distributed among these distances:
56 54 0.22
57 49 0.20
58 32 0.13
59 99 0.40
60 13 0.05
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (57 bp):
AAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:20522993 original size:27 final size:27
Alignment explanation
Indices: 20522906--20522995 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
20522896 AAAAAATAAA
20522906 TTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTTGA-GAAAAGTTGAAAGTATCAAT
* * * *
20522934 TTTCCTCGAAATTAAAGTTTCAAA--ATGATAT
1 TTT--TTGAGA--AAAG-TTGAAAGTATCA-AT
20522965 TTTTTGAGAAAAGTTGAAAGTATCAAT
1 TTTTTGAGAAAAGTTGAAAGTATCAAT
20522992 TTTT
1 TTTT
20522996 CCTGCACAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 17
0.65 0.11 0.24
Matches are distributed among these distances:
26 5 0.11
27 10 0.22
28 6 0.13
29 5 0.11
30 6 0.13
31 9 0.20
32 5 0.11
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (27 bp):
TTTTTGAGAAAAGTTGAAAGTATCAAT
Found at i:20523759 original size:20 final size:20
Alignment explanation
Indices: 20523734--20523773 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20523724 ACATCCTAAC
*
20523734 TTGTTGTGGCTCTCTTCATG
1 TTGTTGTGGCCCTCTTCATG
20523754 TTGTTGTGGCCCTCTTCATG
1 TTGTTGTGGCCCTCTTCATG
20523774 ACAATAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.23, G:0.25, T:0.47
Consensus pattern (20 bp):
TTGTTGTGGCCCTCTTCATG
Found at i:20528608 original size:10 final size:10
Alignment explanation
Indices: 20528595--20528621 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20528585 AGGTTTTTTT
20528595 TTTTTTTGAA
1 TTTTTTTGAA
20528605 TTTTTTTGAA
1 TTTTTTTGAA
20528615 TTTTTTT
1 TTTTTTT
20528622 TATTTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:20528627 original size:25 final size:21
Alignment explanation
Indices: 20528587--20528648 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
20528577 GCCGCTCCAG
* *
20528587 GTTTTTTT-TTTTTTTGAATT
1 GTTTTTTTATTTTTTTTATTT
**
20528607 -TTTTTGAATTTTTTTTATTT
1 GTTTTTTTATTTTTTTTATTT
20528627 GTTTTTTTATTTATTTTTATTT
1 GTTTTTTTATTT-TTTTTATTT
20528649 ATTTATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 10 0.30
21 9 0.27
22 9 0.27
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (21 bp):
GTTTTTTTATTTTTTTTATTT
Found at i:20528631 original size:22 final size:22
Alignment explanation
Indices: 20528606--20528648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20528596 TTTTTTGAAT
20528606 TTTTTTGAATTT-TTTTTATTTG
1 TTTTTT-AATTTATTTTTATTTG
*
20528628 TTTTTTTATTTATTTTTATTT
1 TTTTTTAATTTATTTTTATTT
20528649 ATTTATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (22 bp):
TTTTTTAATTTATTTTTATTTG
Found at i:20528649 original size:10 final size:10
Alignment explanation
Indices: 20528630--20528748 Score: 55
Period size: 10 Copynumber: 11.2 Consensus size: 10
20528620 TTTATTTGTT
20528630 TTTTTATTTA
1 TTTTTATTTA
20528640 TTTTTATTTA
1 TTTTTATTTA
*
20528650 TTTATTAGATTA
1 TTT-TTA-TTTA
*
20528662 GGCTTATTTAATATTC
1 ---TT-TTT-AT-TTA
20528678 TTTTTATCTTA
1 TTTTTAT-TTA
*
20528689 ATTTTATTT-
1 TTTTTATTTA
*
20528698 TTTTTGTTTTA
1 TTTTT-ATTTA
* *
20528709 CTTTTCTTTA
1 TTTTTATTTA
*
20528719 -TTTTATTTT
1 TTTTTATTTA
*
20528728 TTTTTAATT-
1 TTTTTATTTA
20528737 TTTTTATTTA
1 TTTTTATTTA
20528747 TT
1 TT
20528749 CTATTTTCTT
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
9 19 0.23
10 31 0.37
11 17 0.20
12 6 0.07
13 2 0.02
15 4 0.05
16 4 0.05
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:20528653 original size:14 final size:13
Alignment explanation
Indices: 20528614--20528655 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
20528604 ATTTTTTTGA
20528614 ATTTTTTTTATTT
1 ATTTTTTTTATTT
*
20528627 -GTTTTTTTATTT
1 ATTTTTTTTATTT
20528639 ATTTTTATTTATTT
1 ATTTTT-TTTATTT
20528653 ATT
1 ATT
20528656 AGATTAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:20528701 original size:20 final size:19
Alignment explanation
Indices: 20528673--20528760 Score: 61
Period size: 20 Copynumber: 4.6 Consensus size: 19
20528663 GCTTATTTAA
*
20528673 TATTCTTTTTATCTTAATTT
1 TATTTTTTTTAT-TTAATTT
* *
20528693 TATTTTTTTTGTTTTACTTT
1 TATTTTTTTT-ATTTAATTT
* * **
20528713 TCTTTATTTTATTTTTTTT
1 TATTTTTTTTATTTAATTT
* *
20528732 TAATTTTTTTATTT-ATTC
1 TATTTTTTTTATTTAATTT
*
20528750 TATTTTCTTTA
1 TATTTTTTTTA
20528761 AATAAAAATA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
18 11 0.21
19 17 0.33
20 23 0.44
21 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (19 bp):
TATTTTTTTTATTTAATTT
Found at i:20528720 original size:24 final size:24
Alignment explanation
Indices: 20528690--20528745 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
20528680 TTTATCTTAA
*
20528690 TTTTATTTT-TTTTGTTTTACTTT
1 TTTTATTTTATTTTGTTTTAATTT
*
20528713 TCTTTATTTTATTTTTTTTTAATTT
1 T-TTTATTTTATTTTGTTTTAATTT
20528738 TTTTATTT
1 TTTTATTT
20528746 ATTCTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 13 0.45
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTATTTTATTTTGTTTTAATTT
Found at i:20528844 original size:58 final size:57
Alignment explanation
Indices: 20528763--20528934 Score: 236
Period size: 58 Copynumber: 2.9 Consensus size: 57
20528753 TTTCTTTAAA
**
20528763 TAAAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAAGTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
20528821 TGAAAATCAAAGTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAAGTTCAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCT
* **
20528879 TAAAAATAAAATTTCAAAAAAAGGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAAATAAAAGTTCAAAAAAA-TATTTTT-GGGAAAAGTTGAAAGTATCAATTTT
20528935 TCTACACAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.02
58 68 0.68
59 28 0.28
60 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (57 bp):
TAAAAATAAAAGTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:20532830 original size:10 final size:10
Alignment explanation
Indices: 20532817--20532893 Score: 102
Period size: 10 Copynumber: 7.4 Consensus size: 10
20532807 AGAAAAGAGA
20532817 AAAAAATAAG
1 AAAAAATAAG
20532827 AAAAAATAAG
1 AAAAAATAAG
20532837 -AAAAATAAG
1 AAAAAATAAG
20532846 AAAAAAATAAG
1 -AAAAAATAAG
20532857 AAAAAAATAAG
1 -AAAAAATAAG
*
20532868 AAAAAAAAGGAG
1 AAAAAATA--AG
20532880 AAAAAATAAG
1 AAAAAATAAG
20532890 AAAA
1 AAAA
20532894 TGAAAAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.15
10 23 0.38
11 20 0.33
12 9 0.15
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
AAAAAATAAG
Found at i:20532893 original size:9 final size:9
Alignment explanation
Indices: 20532799--20532872 Score: 69
Period size: 9 Copynumber: 7.7 Consensus size: 9
20532789 AACAATGGAT
*
20532799 GAAAAATGA
1 GAAAAATAA
*
20532808 GAAAAGAGAA
1 GAAAA-ATAA
20532818 -AAAAATAA
1 GAAAAATAA
20532826 GAAAAAATAA
1 G-AAAAATAA
20532836 GAAAAATAA
1 GAAAAATAA
20532845 GAAAAAAATAA
1 G--AAAAATAA
20532856 GAAAAAAATAA
1 G--AAAAATAA
20532867 GAAAAA
1 GAAAAA
20532873 AAAGGAGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
8 3 0.05
9 23 0.40
10 11 0.19
11 20 0.35
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (9 bp):
GAAAAATAA
Found at i:20532902 original size:9 final size:9
Alignment explanation
Indices: 20532800--20532909 Score: 57
Period size: 11 Copynumber: 11.4 Consensus size: 9
20532790 ACAATGGATG
20532800 AAAAATGAGA
1 AAAAATGA-A
*
20532810 AAAGA-GAA
1 AAAAATGAA
*
20532818 AAAAATAAGA
1 AAAAATGA-A
20532828 AAAAAT-AA
1 AAAAATGAA
20532836 GAAAAATAAGAA
1 -AAAAAT--GAA
20532848 AAAAATAAGAA
1 AAAAAT--GAA
20532859 AAAAATAAGAAA
1 AAAAAT--G-AA
*
20532871 AAAAAGGAGA
1 AAAAATGA-A
20532881 AAAAAT-AA
1 AAAAATGAA
*
20532889 GAAAATGAA
1 AAAAATGAA
20532898 AAAAAT-AA
1 AAAAATGAA
20532906 AAAA
1 AAAA
20532910 GAAGATTCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
8 18 0.21
9 19 0.23
10 18 0.21
11 20 0.24
12 9 0.11
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (9 bp):
AAAAATGAA
Found at i:20532909 original size:10 final size:11
Alignment explanation
Indices: 20532814--20532893 Score: 114
Period size: 11 Copynumber: 7.5 Consensus size: 11
20532804 ATGAGAAAAG
20532814 AGAAAAAAATA
1 AGAAAAAAATA
20532825 AG-AAAAAATA
1 AGAAAAAAATA
20532835 AG--AAAAATA
1 AGAAAAAAATA
20532844 AGAAAAAAATA
1 AGAAAAAAATA
20532855 AGAAAAAAATA
1 AGAAAAAAATA
20532866 AGAAAAAAA-A
1 AGAAAAAAATA
*
20532876 GGAGAAAAAATA
1 AGA-AAAAAATA
20532888 AGAAAA
1 AGAAAA
20532894 TGAAAAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.14
10 13 0.21
11 38 0.60
12 3 0.05
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (11 bp):
AGAAAAAAATA
Found at i:20533109 original size:138 final size:140
Alignment explanation
Indices: 20532935--20533212 Score: 470
Period size: 138 Copynumber: 2.0 Consensus size: 140
20532925 AAACCTGAAA
*
20532935 GGGTGATTTTGGTAGGAAAAAAAAAAAGATCCAGGTCAAATGGCTCACATGAATAAAAGATCAAA
1 GGGTGATTTTGGTAGGAAAAAAAAAAAGATCCAGGTCAAATGACTCACATGAATAAAAGATCAAA
* * *
20533000 GACATCTGAAGATCCCTCAAAGACT-GGACAGAGTTCATCAAGCTCAAGATTACTTCAACAGTAA
66 GACATCTGAAGATCCCTCAAAGACTGGGACAGAGTTCACCAAGCTCAAGATGACTTCAACAATAA
20533064 ATGGAATGAG
131 ATGGAATGAG
* *
20533074 GGGTGATTTTGGTA-GCAAAAAAAAAAGATCCAGGTCAAATGACTCACATGAATGAAAGATCAAA
1 GGGTGATTTTGGTAGGAAAAAAAAAAAGATCCAGGTCAAATGACTCACATGAATAAAAGATCAAA
* *
20533138 GACATCTGAAGATCCCTCAAAGACTGGGGCAGAGTTCGCCAAGCTCAAGATGACTTCAACAATAA
66 GACATCTGAAGATCCCTCAAAGACTGGGACAGAGTTCACCAAGCTCAAGATGACTTCAACAATAA
20533203 ATGGAATGAG
131 ATGGAATGAG
20533213 TTTTTGAACA
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
138 72 0.55
139 58 0.45
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (140 bp):
GGGTGATTTTGGTAGGAAAAAAAAAAAGATCCAGGTCAAATGACTCACATGAATAAAAGATCAAA
GACATCTGAAGATCCCTCAAAGACTGGGACAGAGTTCACCAAGCTCAAGATGACTTCAACAATAA
ATGGAATGAG
Found at i:20534290 original size:42 final size:42
Alignment explanation
Indices: 20534244--20534356 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
20534234 ATGATTGTCA
* *
20534244 AGGAGTAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
20534286 AGGAGCAATTTACTTCTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
20534328 AGGAGCAATTTACTTTTCCAAAGTCGTGG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGG
20534357 AGCAATTTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:20534365 original size:26 final size:26
Alignment explanation
Indices: 20534329--20534382 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
20534319 TCTGTTTAGA
20534329 GGAGCAATTTACTTTTCCAAAGTCGT
1 GGAGCAATTTACTTTTCCAAAGTCGT
20534355 GGAGCAATTTACTTTTCCAAAGTCGT
1 GGAGCAATTTACTTTTCCAAAGTCGT
20534381 GG
1 GG
20534383 TGCCTCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (26 bp):
GGAGCAATTTACTTTTCCAAAGTCGT
Found at i:20534396 original size:68 final size:67
Alignment explanation
Indices: 20534287--20534423 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 67
20534277 TCTGTTTAGA
20534287 GGAGCAATTTACTTCTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
1 GGAGCAATTTACTTCTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGT
20534352 CGT
65 CGT
* * *
20534355 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTC
1 GGAGCAATTTACTTCTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
20534420 GT
66 GT
20534422 GG
1 GG
20534424 TGCCTCTGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 11 0.17
68 55 0.83
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (67 bp):
GGAGCAATTTACTTCTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
GT
Found at i:20534424 original size:41 final size:41
Alignment explanation
Indices: 20534355--20534663 Score: 498
Period size: 41 Copynumber: 7.5 Consensus size: 41
20534345 CCAAAGTCGT
20534355 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGA
*
20534397 GGAGTAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
20534438 GGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGA
*
20534480 GGAGTAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGA
*
20534521 GGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
* *
20534562 GGAGCTATTTA-TTTTCCAAACTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGA
*
20534603 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGA
20534645 GGAGCAATTTA-TTTTCAAA
1 GGAGCAATTTACTTTTCAAA
20534664 AGTTGTGGAG
Statistics
Matches: 251, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
40 10 0.04
41 146 0.58
42 95 0.38
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:20534451 original size:109 final size:110
Alignment explanation
Indices: 20534245--20534465 Score: 381
Period size: 110 Copynumber: 2.0 Consensus size: 110
20534235 TGATTGTCAA
* *
20534245 GGAGTAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTCCAAAGT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTCCAAAGT
20534310 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT
* *
20534355 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTT-TTCAAAGT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTCCAAAGT
* *
20534419 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGT
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT
20534464 GG
1 GG
20534466 TGCCTCTGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
109 52 0.50
110 53 0.50
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (110 bp):
GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTCCAAAGT
CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT
Found at i:20534500 original size:83 final size:83
Alignment explanation
Indices: 20534355--20534671 Score: 532
Period size: 83 Copynumber: 3.8 Consensus size: 83
20534345 CCAAAGTCGT
20534355 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTT-CAAAGT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTA-TTTTCCAAAGT
20534419 CGTGGTGCCTCTGTTTAGA
65 CGTGGTGCCTCTGTTTAGA
*
20534438 GGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTCCAAAGTC
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTCCAAAGTC
20534503 GTGGTGCCTCTGTTTAGA
66 GTGGTGCCTCTGTTTAGA
*
20534521 GGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCT-ATTTATTTTCCAAACT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG-TAATTTATTTTCCAAAGT
20534584 CGTGGTGCCTCTGTTTAGA
65 CGTGGTGCCTCTGTTTAGA
* * * * *
20534603 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAAGTT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTCCAAAGTC
20534668 GTGG
66 GTGG
20534672 AGCAATTTAT
Statistics
Matches: 221, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
82 81 0.37
83 140 0.63
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (83 bp):
GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATTTTCCAAAGTC
GTGGTGCCTCTGTTTAGA
Found at i:20534619 original size:124 final size:123
Alignment explanation
Indices: 20534355--20534799 Score: 580
Period size: 124 Copynumber: 3.7 Consensus size: 123
20534345 CCAAAGTCGT
* * *
20534355 GGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTC
1 GGAGCAATTTA-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* * *
20534420 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
65 GTGGAGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAACTCGTGGTGCCTCTGTTTAGA
* *
20534480 GGAGTAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
1 GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
* *
20534545 TGGTGCCTCTGTTTAGAGGAGCTATTTATTTTCCAAACTCGTGGTGCCTCTGTTTAGA
66 TGGAGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAACTCGTGGTGCCTCTGTTTAGA
*
20534603 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAA---
1 GGAGCAATTTA-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* *
20534664 ----AG--T-TG--T---GGAGCAATTTATTTTCAAAATTCGTGGTGCCTCTGTTTAGA
65 GTGGAGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAACTCGTGGTGCCTCTGTTTAGA
* * *
20534711 AGAGCAATTTATTTTCAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTATGTTTCTCAAAGT
1 GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTC-CAAAGT
*
20534776 CGTTGAGCCTCTGTTTAGAGGAGC
64 CGTGGAGCCTCTGTTTAGAGGAGC
20534800 TTTGGTAAAA
Statistics
Matches: 285, Mismatches: 16, Indels: 38
0.84 0.05 0.11
Matches are distributed among these distances:
107 40 0.14
108 48 0.17
109 3 0.01
110 4 0.01
111 1 0.00
113 2 0.01
114 1 0.00
116 1 0.00
117 2 0.01
119 1 0.00
120 2 0.01
122 1 0.00
123 45 0.16
124 119 0.42
125 15 0.05
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (123 bp):
GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCG
TGGAGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAACTCGTGGTGCCTCTGTTTAGA
Found at i:20534710 original size:66 final size:67
Alignment explanation
Indices: 20534603--20534732 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 67
20534593 TCTGTTTAGA
*
20534603 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAAGTT
1 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGTT
20534668 GT
66 GT
*
20534670 GGAGCAATTTA-TTTTCAAAATTCGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGT
1 GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGT
20534733 CGTGATGCCT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 50 0.82
67 11 0.18
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (67 bp):
GGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCAAAAGTT
GT
Found at i:20534728 original size:41 final size:41
Alignment explanation
Indices: 20534670--20534799 Score: 188
Period size: 41 Copynumber: 3.1 Consensus size: 41
20534660 CAAAAGTTGT
*
20534670 GGAGCAATTTATTTTCAAAATTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGA
* *
20534711 AGAGCAATTTATTTTCAAAAGTCGTGATGCCTCTGTTTAGA
1 GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGA
* * *
20534752 GGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGA
1 GGAGCAATTTAT-TTTC-AAAAGTCGTGGTGCCTCTGTTTAGA
20534795 GGAGC
1 GGAGC
20534800 TTTGGTAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 49 0.62
42 4 0.05
43 26 0.33
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (41 bp):
GGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:20534820 original size:8 final size:8
Alignment explanation
Indices: 20534807--20534846 Score: 71
Period size: 8 Copynumber: 4.9 Consensus size: 8
20534797 AGCTTTGGTA
20534807 AAAAAAAC
1 AAAAAAAC
20534815 AAAAAAAC
1 AAAAAAAC
20534823 AAAAAAAC
1 AAAAAAAC
20534831 AAAAAACAC
1 AAAAAA-AC
20534840 AAAAAAA
1 AAAAAAA
20534847 TGACAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:20535067 original size:3 final size:3
Alignment explanation
Indices: 20535059--20535089 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20535049 AGTTATATAT
20535059 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20535090 TTTTGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20535068 original size:14 final size:13
Alignment explanation
Indices: 20535051--20535086 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
20535041 ATGTATATAG
20535051 TTATATATTTATTA
1 TTAT-TATTTATTA
20535065 TTATTATATTATTA
1 TTATTAT-TTATTA
20535079 TTATTATT
1 TTATTATT
20535087 ATTTTTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:20535180 original size:18 final size:18
Alignment explanation
Indices: 20535146--20535179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20535136 TCTGTTAATT
*
20535146 TTATCTGATTCTTTTTTA
1 TTATCTAATTCTTTTTTA
20535164 TTATCTAATT-TTTTTT
1 TTATCTAATTCTTTTTT
20535180 TTCTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATCTAATTCTTTTTTA
Found at i:20535188 original size:40 final size:41
Alignment explanation
Indices: 20535144--20535235 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
20535134 TATCTGTTAA
*
20535144 TTTTATCTGATTCTTTT-TTATTATCTAATT-TTTTT-TTTCT
1 TTTTATCTGATTCTTTTCTAATTATCT-ATTATTTTTATTT-T
20535184 TTTTATCCT-A-TCTTTTCTAATTATCTATTATTTTTATTTT
1 TTTTAT-CTGATTCTTTTCTAATTATCTATTATTTTTATTTT
*
20535224 TTTTATTTGATT
1 TTTTATCTGATT
20535236 TTGGAAGGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
39 10 0.23
40 28 0.64
41 6 0.14
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (41 bp):
TTTTATCTGATTCTTTTCTAATTATCTATTATTTTTATTTT
Found at i:20536070 original size:10 final size:9
Alignment explanation
Indices: 20536042--20536099 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 9
20536032 CCGCTCCAGG
20536042 TTTTTTT-T
1 TTTTTTTAT
**
20536050 TTTTTGAAT
1 TTTTTTTAT
20536059 TTTTTTTCAT
1 TTTTTTT-AT
*
20536069 TTTCTTTATT
1 TTTTTTTA-T
20536079 TTTTTTTAT
1 TTTTTTTAT
20536088 TTGTTTTTAT
1 TT-TTTTTAT
20536098 TT
1 TT
20536100 ATTTATTAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 5 0.12
9 10 0.25
10 25 0.62
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.83
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:20536094 original size:14 final size:13
Alignment explanation
Indices: 20536043--20536103 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 13
20536033 CGCTCCAGGT
20536043 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTT--A
*
20536058 TTTTTTTTCATTTTC
1 TTTTTTTT--TTTTA
20536073 TTTATTTTTTTTTA
1 TTT-TTTTTTTTTA
*
20536087 TTTGTTTTTATTTA
1 TTT-TTTTTTTTTA
20536101 TTT
1 TTT
20536104 ATTAGATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 19 0.49
15 11 0.28
16 5 0.13
17 4 0.10
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:20536096 original size:20 final size:19
Alignment explanation
Indices: 20536057--20536099 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
20536047 TTTTTTTTGA
20536057 ATTTTTTTTCATTTTCTTT
1 ATTTTTTTTCATTTTCTTT
* *
20536076 ATTTTTTTTTATTTGTTTTT
1 ATTTTTTTTCATTT-TCTTT
20536096 ATTT
1 ATTT
20536100 ATTTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (19 bp):
ATTTTTTTTCATTTTCTTT
Found at i:20536173 original size:9 final size:9
Alignment explanation
Indices: 20536151--20536210 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
20536141 TTTTTTTTGG
*
20536151 TTTACTTTTC
1 TTTA-TTTTT
20536161 TTTATTTTT
1 TTTATTTTT
20536170 TTTATTTTT
1 TTTATTTTT
20536179 ATTTATTTTT
1 -TTTATTTTT
*
20536189 TTTATTTAT
1 TTTATTTTT
* *
20536198 TCTATTTTC
1 TTTATTTTT
20536207 TTTA
1 TTTA
20536211 AATAAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
9 30 0.70
10 13 0.30
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATTTTT
Found at i:20536178 original size:19 final size:19
Alignment explanation
Indices: 20536151--20536200 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
20536141 TTTTTTTTGG
*
20536151 TTTACTTTTCTTTATTTTT
1 TTTATTTTTCTTTATTTTT
*
20536170 TTTATTTTTATTTATTTTT
1 TTTATTTTTCTTTATTTTT
20536189 TTTATTTATTCT
1 TTTATTT-TTCT
20536201 ATTTTCTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTTCTTTATTTTT
Found at i:20536187 original size:18 final size:18
Alignment explanation
Indices: 20536151--20536210 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
20536141 TTTTTTTTGG
* *
20536151 TTTACTTTTCTTTATTTTT
1 TTTATTTTTATTTA-TTTT
20536170 TTTATTTTTATTTATTTT
1 TTTATTTTTATTTATTTT
*
20536188 TTT-TATTTATTCTATTTT
1 TTTATTTTTATT-TATTTT
20536206 CTTTA
1 -TTTA
20536211 AATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 7 0.20
18 13 0.37
19 15 0.43
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTTATTTATTTT
Found at i:20536189 original size:17 final size:18
Alignment explanation
Indices: 20536163--20536210 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
20536153 TACTTTTCTT
20536163 TATTTTTTTTATTTTTATT-
1 TATTTTTTTTA--TTTATTC
20536182 TATTTTTTTTATTTATTC
1 TATTTTTTTTATTTATTC
*
20536200 TATTTTCTTTA
1 TATTTTTTTTA
20536211 AATAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 11 0.41
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (18 bp):
TATTTTTTTTATTTATTC
Found at i:20536192 original size:28 final size:29
Alignment explanation
Indices: 20536151--20536205 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
20536141 TTTTTTTTGG
* *
20536151 TTTACTTTTCTTTATTTTTTTTATTTTTA
1 TTTACTTTTCTTTATTTATTCTATTTTTA
*
20536180 TTTA-TTTTTTTTATTTATTCTATTTT
1 TTTACTTTTCTTTATTTATTCTATTTT
20536206 CTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTACTTTTCTTTATTTATTCTATTTTTA
Found at i:20536565 original size:59 final size:57
Alignment explanation
Indices: 20536213--20536562 Score: 484
Period size: 58 Copynumber: 5.9 Consensus size: 57
20536203 TTTCTTTAAA
* *
20536213 TAAAAATAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTT-CAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
20536271 TAAAAATAAATTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCAAAAAAAA--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
20536330 TGAAAATTAAAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 T-AAAAAT-AAA-TTTCAAAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
** *
20536391 TAAAAATAAATTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCAAAAAAA-AATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
20536449 TAAAAATCAAAGTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAATTTCAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
20536507 TAAAAATAAAATTTCAAAAAAAAAGTTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAAAT-AAATTTCAAAAAAAAA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
20536563 TCTACACAAG
Statistics
Matches: 260, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
57 8 0.03
58 115 0.44
59 79 0.30
60 10 0.04
61 36 0.14
62 12 0.05
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (57 bp):
TAAAAATAAATTTCAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:20540480 original size:13 final size:13
Alignment explanation
Indices: 20540462--20540487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20540452 CTCAAAAAAA
20540462 ATATTTTATTTTT
1 ATATTTTATTTTT
20540475 ATATTTTATTTTT
1 ATATTTTATTTTT
20540488 TTCCAAATTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:20540557 original size:19 final size:18
Alignment explanation
Indices: 20540535--20540574 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
20540525 ACACATAAAT
20540535 AAAATACTAAATAAAATAA
1 AAAATACTAAA-AAAATAA
20540554 AAAATACTAAAAAAATAA
1 AAAATACTAAAAAAATAA
20540572 AAA
1 AAA
20540575 TGGCTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATACTAAAAAAATAA
Found at i:20540566 original size:28 final size:27
Alignment explanation
Indices: 20540502--20540574 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
20540492 AAATTTAATC
*
20540502 ATACAAAAATACTAAAAAAATAAACAC
1 ATACAAAAATACTAAAAAAATAAACAA
*
20540529 ATAAATAAAATACTAAATAAAATAAA-AA
1 ATACA-AAAATACTAAA-AAAATAAACAA
*
20540557 ATACTAAAAA-AATAAAAA
1 ATAC-AAAAATACTAAAAA
20540575 TGGCTCAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.05
27 9 0.23
28 19 0.49
29 9 0.23
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (27 bp):
ATACAAAAATACTAAAAAAATAAACAA
Found at i:20540574 original size:17 final size:18
Alignment explanation
Indices: 20540531--20540575 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
20540521 ATAAACACAT
20540531 AAAT-AAAATACTAAATA
1 AAATAAAAATACTAAATA
20540548 AAATAAAAAATACTAAA-A
1 AAAT-AAAAATACTAAATA
20540566 AAATAAAAAT
1 AAATAAAAAT
20540576 GGCTCAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 11 0.42
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAAAATACTAAATA
Found at i:20541731 original size:43 final size:43
Alignment explanation
Indices: 20541597--20542054 Score: 420
Period size: 41 Copynumber: 10.9 Consensus size: 43
20541587 TACTCAAATT
* ** * *
20541597 TCCTCTAAATAGAGGCTCAATAACTTTGAAAAATAAAATTAGGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAT-AAATAAAGC
* **
20541641 TCCTCTAAGCAGAGGCTCAACGACTTCAAAAAAATAAATAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTT-TGAAAAATAAATAAAGC
* * *
20541685 TCATCTAAACAGAGGTTCAATGACTTTGAAAAATAAATAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * * *
20541728 TCATCTAATCAGAGGCTCCACAACTTTGAAAAATAAATAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * * *
20541771 TCATCTAATCAGAGGCTCCAC-AGCTTTGAAAAAT--A-AAGGC
1 TCCTCTAAACAGAGGCTCAACGA-CTTTGAAAAATAAATAAAGC
*
20541811 TCCTCTAAACAAAGGCTCAACGACTTTGAAAAAT-AA-AAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * * *
20541852 TCCTCTAAATAAAGGTTCAACAACTTTG--AAA-AAATAAATGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAA-GC
** * * *
20541893 TCCTCTAATTAGAGGCTCAACAACTTTGAAAAATAAAT--GGT
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * *
20541934 TCCTCTAAACAAAGGCTCAATGACTTTGAAAAAT-AA-AATGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * * * *
20541975 TCCTCTAAATAGAGGCCCAATGGCTTTGAAAAATAAATAAAGT
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
* * * *
20542018 TCCTCTAATCAAAGGCTCCACAACTTTGAAAAATAAA
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAA
20542055 AGCTCCTTGA
Statistics
Matches: 346, Mismatches: 54, Indels: 29
0.81 0.13 0.07
Matches are distributed among these distances:
39 5 0.01
40 37 0.11
41 120 0.35
42 3 0.01
43 120 0.35
44 55 0.16
45 6 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (43 bp):
TCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATAAAGC
Found at i:20542383 original size:21 final size:21
Alignment explanation
Indices: 20542359--20542437 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 21
20542349 ACATCCAACA
*
20542359 TTTAAAGATTCTCATTTGAAT
1 TTTAAAGATTCTCATTTGAAG
* * *
20542380 TTTAGAGATTCACATTTAAAAG
1 TTTAAAGATTCTCATTT-GAAG
* *
20542402 TTCAAAGCTTCTCATTTG-AG
1 TTTAAAGATTCTCATTTGAAG
* * *
20542422 TTCAAAGGTTCACATT
1 TTTAAAGATTCTCATT
20542438 CAATAAATCT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.35
21 15 0.33
22 15 0.33
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (21 bp):
TTTAAAGATTCTCATTTGAAG
Found at i:20543733 original size:8 final size:8
Alignment explanation
Indices: 20543722--20543767 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
20543712 TCCTTTTCAT
20543722 TTTTTTTA
1 TTTTTTTA
20543730 TTTTTTTA
1 TTTTTTTA
20543738 TTTTTTTA
1 TTTTTTTA
* *
20543746 TTTTCTCA
1 TTTTTTTA
*
20543754 -TTTTTCA
1 TTTTTTTA
20543761 TTTTTTT
1 TTTTTTT
20543768 TCTTCTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:20543780 original size:23 final size:24
Alignment explanation
Indices: 20543729--20543784 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
20543719 CATTTTTTTT
* *
20543729 ATTTTTTTATTTTTTTATTTTCTC
1 ATTTTTTCATTTTTTTATCTTCTC
20543753 A-TTTTTCATTTTTTT-TCTTCTC
1 ATTTTTTCATTTTTTTATCTTCTC
20543775 ATTTTTTCAT
1 ATTTTTTCAT
20543785 CCGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.24
23 21 0.72
24 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (24 bp):
ATTTTTTCATTTTTTTATCTTCTC
Found at i:20543784 original size:8 final size:8
Alignment explanation
Indices: 20543715--20543784 Score: 56
Period size: 8 Copynumber: 8.9 Consensus size: 8
20543705 TTTTCTCTCC
20543715 TTTTCATTT
1 TTTTCA-TT
*
20543724 TTTTTATT
1 TTTTCATT
*
20543732 TTTTTATT
1 TTTTCATT
*
20543740 TTTTTATT
1 TTTTCATT
*
20543748 TTCTCA-T
1 TTTTCATT
20543755 TTTTCATT
1 TTTTCATT
20543763 TTTT--TT
1 TTTTCATT
*
20543769 CTTCTCATT
1 -TTTTCATT
20543778 TTTTCAT
1 TTTTCAT
20543785 CCGTTAGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.04
7 9 0.18
8 33 0.65
9 7 0.14
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCATT
Found at i:20545962 original size:28 final size:27
Alignment explanation
Indices: 20545901--20545962 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
20545891 TTTAATCATG
*
20545901 CAAAAATACTAAAAAAATAAACACATA
1 CAAAAATACTAAAAAAATAAACAAATA
*
20545928 AATAAAATACTAAATAAAATAAA-AAATA
1 CA-AAAATACTAAA-AAAATAAACAAATA
20545956 TCAAAAA
1 -CAAAAA
20545963 ATTAGAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.03
28 19 0.66
29 9 0.31
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.18
Consensus pattern (27 bp):
CAAAAATACTAAAAAAATAAACAAATA
Found at i:20551703 original size:24 final size:25
Alignment explanation
Indices: 20551676--20551746 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
20551666 AAAAATTTAT
*
20551676 ATTTAATATATTATTAATATA-TAA
1 ATTTAATATATTATTAATAAATTAA
* *
20551700 ATTTTATATATTATCAATAAATTAA
1 ATTTAATATATTATTAATAAATTAA
* *
20551725 ATTAAATTATTTTATTAATAAA
1 ATTTAA-TATATTATTAATAAA
20551747 AGAAATTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.47
25 7 0.18
26 13 0.34
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATATATTATTAATAAATTAA
Found at i:20551744 original size:26 final size:26
Alignment explanation
Indices: 20551643--20551762 Score: 77
Period size: 26 Copynumber: 4.7 Consensus size: 26
20551633 AGATTAAGGG
* *
20551643 ATTAACATATAAATTATTTTTTTAA-AA
1 ATTAA-AT-TAAATTATATTATTAATAA
* * *
20551670 ATTTATATTTAA-TATATTATTAATAT
1 A-TTAAATTAAATTATATTATTAATAA
** *
20551696 A-TAAATTTTA-TATATTATCAATAA
1 ATTAAATTAAATTATATTATTAATAA
*
20551720 ATTAAATTAAATTATTTTATTAATAA
1 ATTAAATTAAATTATATTATTAATAA
** *
20551746 AAGAAATTAAATGATAT
1 ATTAAATTAAATTATAT
20551763 AATTTTATTA
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
24 20 0.28
25 16 0.22
26 30 0.42
27 3 0.04
28 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTAAATTAAATTATATTATTAATAA
Found at i:20551755 original size:31 final size:31
Alignment explanation
Indices: 20551718--20551777 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
20551708 TATTATCAAT
* *
20551718 AAATTAAATTAAATTATTTTATTAATAAAAG
1 AAATTAAATGAAATAATTTTATTAATAAAAG
*
20551749 AAATTAAATGATATAATTTTATTAATAAA
1 AAATTAAATGAAATAATTTTATTAATAAA
20551778 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
AAATTAAATGAAATAATTTTATTAATAAAAG
Found at i:20553984 original size:18 final size:19
Alignment explanation
Indices: 20553942--20553999 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
20553932 ATATTATTAA
*
20553942 ATAA-TTAAATAAAAAATT
1 ATAATTTAATTAAAAAATT
20553960 ATAATTTAATTAAAAAATT
1 ATAATTTAATTAAAAAATT
20553979 A-AATTTACATATAATAAAATT
1 ATAATTTA-AT-TAA-AAAATT
20554000 TAAACTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 10 0.29
19 16 0.46
20 3 0.09
21 6 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATTTAATTAAAAAATT
Found at i:20554019 original size:22 final size:20
Alignment explanation
Indices: 20553951--20554019 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 20
20553941 AATAATTAAA
*
20553951 TAAAAAATTATAATT-TAA-T
1 TAAAAAATTA-AATTAAAATT
* * *
20553970 TAAAAAATTAAATTTACATA
1 TAAAAAATTAAATTAAAATT
20553990 TAATAAAATTTAAACTTAAAATT
1 TAA-AAAA-TTAAA-TTAAAATT
20554013 TAAAAAA
1 TAAAAAA
20554020 AAAAATTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 3 0.08
21 4 0.10
22 9 0.23
23 8 0.21
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAATTAAATTAAAATT
Found at i:20554484 original size:31 final size:29
Alignment explanation
Indices: 20554412--20554484 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
20554402 AATTAATAAA
* *
20554412 TTTATAATTTATATATCATATTAAAAATT
1 TTTATAATTTAAATATCACATTAAAAATT
* *
20554441 TTTAAAATTTAAATATCACATTAAATATTT
1 TTTATAATTTAAATATCACATTAAA-AATT
20554471 TATTATAATTTAAA
1 T-TTATAATTTAAA
20554485 ACTATTAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.59
30 4 0.11
31 11 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATAATTTAAATATCACATTAAAAATT
Found at i:20554655 original size:29 final size:31
Alignment explanation
Indices: 20554613--20554670 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
20554603 GATTCATATA
*
20554613 TTATATTATATATTTT-TT-TAATTTAAATT
1 TTATATTAAATATTTTATTATAATTTAAATT
20554642 TTATATTAAATATTTTATTATAATTTAAA
1 TTATATTAAATATTTTATTATAATTTAAA
20554671 ACCTATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 15 0.58
30 2 0.08
31 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTATATTAAATATTTTATTATAATTTAAATT
Found at i:20554996 original size:15 final size:15
Alignment explanation
Indices: 20554976--20555005 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20554966 CATGTTGTAA
20554976 AATAATTTACATCTT
1 AATAATTTACATCTT
*
20554991 AATAATTTATATCTT
1 AATAATTTACATCTT
20555006 TATATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTTACATCTT
Found at i:20557523 original size:21 final size:22
Alignment explanation
Indices: 20557499--20557540 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
20557489 ATTAAATTTG
*
20557499 TATAAAAGATAAT-AATAATAA
1 TATAAAAAATAATCAATAATAA
20557520 TATAAAAAATAATCAATAATA
1 TATAAAAAATAATCAATAATA
20557541 TTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
TATAAAAAATAATCAATAATAA
Found at i:20558885 original size:24 final size:24
Alignment explanation
Indices: 20558858--20558919 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
20558848 CGATGATTTT
**
20558858 AAATATGATATAATAATATCATAA
1 AAATATGATATAATAATAAAATAA
* * *
20558882 AAATATAATATAAAAATAAAATAT
1 AAATATGATATAATAATAAAATAA
20558906 AAATATGATATAAT
1 AAATATGATATAAT
20558920 TTAAAATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATATGATATAATAATAAAATAA
Found at i:20558894 original size:13 final size:13
Alignment explanation
Indices: 20558878--20558933 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
20558868 TAATAATATC
20558878 ATAAAAATATAAT
1 ATAAAAATATAAT
*
20558891 ATAAAAATAAAAT
1 ATAAAAATATAAT
20558904 ATAAATATGATATAAT
1 ATAAA-A--ATATAAT
* *
20558920 TTAAAATTATAAT
1 ATAAAAATATAAT
20558933 A
1 A
20558934 ATTATTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 23 0.66
14 1 0.03
15 1 0.03
16 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
ATAAAAATATAAT
Found at i:20559031 original size:30 final size:31
Alignment explanation
Indices: 20558978--20559039 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
20558968 TATATTTTAT
20558978 ATTTTTATATAAATAAAATTATG-ATACATA
1 ATTTTTATATAAATAAAATTATGAATACATA
* *
20559008 ATTTTTATATAAA-ACATTATATGAATACATA
1 ATTTTTATATAAATAAAAT-TATGAATACATA
20559039 A
1 A
20559040 ATTATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 17 0.61
31 8 0.29
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTTTTATATAAATAAAATTATGAATACATA
Found at i:20561457 original size:15 final size:18
Alignment explanation
Indices: 20561416--20561459 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
20561406 ATTTGATAAC
20561416 ATTAAA-ATAATATTATA
1 ATTAAATATAATATTATA
20561433 ATTAAATATAATATTA-A
1 ATTAAATATAATATTATA
20561450 A-T-AATATAAT
1 ATTAAATATAAT
20561460 TAGAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.31
16 1 0.04
17 8 0.31
18 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAAATATAATATTATA
Found at i:20562747 original size:28 final size:28
Alignment explanation
Indices: 20562716--20562783 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
20562706 TTTTTAATGA
*
20562716 TTTAAAATTTTTTAGTATGTTTCA-GA-TT
1 TTTAAAATTTTTTA--ATGTTTCATAATTT
* *
20562744 TTTAAAACTTTTTAATTTTTCATAATTT
1 TTTAAAATTTTTTAATGTTTCATAATTT
20562772 TTTAAAATTTTT
1 TTTAAAATTTTT
20562784 GGAATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 7 0.21
27 1 0.03
28 26 0.76
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTTTTAATGTTTCATAATTT
Found at i:20562803 original size:29 final size:28
Alignment explanation
Indices: 20562743--20562848 Score: 76
Period size: 29 Copynumber: 3.8 Consensus size: 28
20562733 TGTTTCAGAT
* **
20562743 TTTTAAAACTTTTTAATTTTTCATAATT
1 TTTTAAAACTTTTTAATTTTTCAAAAAA
20562771 TTTTAAAA-TTTTTGGAATTTTTCAAAAAA
1 TTTTAAAACTTTTT--AATTTTTCAAAAAA
* * *
20562800 TTTT-AGATTTTTCTAA-TTTTC-AAAAG
1 TTTTAAAACTTTT-TAATTTTTCAAAAAA
*
20562826 TTTTCAAAAATTTTTAGATTTTT
1 TTTT-AAAACTTTTTA-ATTTTT
20562849 TTTAACTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
26 8 0.13
27 12 0.19
28 19 0.30
29 23 0.37
30 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTAAAACTTTTTAATTTTTCAAAAAA
Found at i:20562811 original size:37 final size:37
Alignment explanation
Indices: 20562770--20562848 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
20562760 TTTTCATAAT
*** *
20562770 TTTTTAAAATTTTTGGAATTTTTCAAAAAATTTTAGA
1 TTTTTAAAATTTTCAAAAGTTTTCAAAAAATTTTAGA
** *
20562807 TTTTTCTAATTTTCAAAAGTTTTCAAAAATTTTTAGA
1 TTTTTAAAATTTTCAAAAGTTTTCAAAAAATTTTAGA
20562844 TTTTT
1 TTTTT
20562849 TTTAACTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.54
Consensus pattern (37 bp):
TTTTTAAAATTTTCAAAAGTTTTCAAAAAATTTTAGA
Found at i:20562930 original size:8 final size:8
Alignment explanation
Indices: 20562914--20563010 Score: 50
Period size: 9 Copynumber: 10.5 Consensus size: 8
20562904 AAAATTATCC
20562914 TTTTATAAA
1 TTTT-TAAA
20562923 TTTTTAAA
1 TTTTTAAA
20562931 TTTTTTTAAAA
1 --TTTTT-AAA
* *
20562942 TTTTTGGAT
1 TTTTT-AAA
20562951 TTTTTAATAAA
1 TTTTT-A--AA
20562962 TTTTTAAGA
1 TTTTTAA-A
20562971 TTTTTAAGA
1 TTTTTAA-A
*
20562980 TTTTTTTGAAT
1 --TTTTT-AAA
20562991 TTTTTAAA
1 TTTTTAAA
20562999 TTTTTAAA
1 TTTTTAAA
20563007 TTTT
1 TTTT
20563011 AATTGTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
8 19 0.27
9 30 0.42
10 6 0.08
11 14 0.20
12 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:20562965 original size:29 final size:28
Alignment explanation
Indices: 20562923--20563010 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
20562913 CTTTTATAAA
*
20562923 TTTTTAAATTTTTTTAAAATTTTT-GGATT
1 TTTTTAAA--TTTTTAAAATTTTTAAGATT
*
20562952 TTTTAATAAATTTTTAAGATTTTTAAGATT
1 TTTT--TAAATTTTTAAAATTTTTAAGATT
* *
20562982 TTTTTGAATTTTTTAAATTTTTAA-ATT
1 TTTTTAAATTTTTAAAATTTTTAAGATT
20563009 TT
1 TT
20563011 AATTGTTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.10
28 17 0.33
29 17 0.33
30 8 0.16
31 4 0.08
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (28 bp):
TTTTTAAATTTTTAAAATTTTTAAGATT
Found at i:20563012 original size:15 final size:16
Alignment explanation
Indices: 20562992--20563028 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20562982 TTTTTGAATT
*
20562992 TTTTAAATTTTTA-AA
1 TTTTAAATTGTTATAA
20563007 TTTT-AATTGTTATAA
1 TTTTAAATTGTTATAA
20563022 TTTTAAA
1 TTTTAAA
20563029 AATATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 10 0.53
16 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTTAAATTGTTATAA
Found at i:20563052 original size:32 final size:34
Alignment explanation
Indices: 20563006--20563077 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
20562996 AAATTTTTAA
* *
20563006 ATTTTAATTGTTATAA-TTTTAAAAATATATCAT
1 ATTTTTATTGTTATAATTTTTAAAAATAAATCAT
* *
20563039 -TTTTTATTTTTATAATTTTTTAAAATAAATCAT
1 ATTTTTATTGTTATAATTTTTAAAAATAAATCAT
20563072 ATTTTT
1 ATTTTT
20563078 TAAAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.39
33 15 0.45
34 5 0.15
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (34 bp):
ATTTTTATTGTTATAATTTTTAAAAATAAATCAT
Found at i:20564717 original size:24 final size:26
Alignment explanation
Indices: 20564668--20564730 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
20564658 AAATAATTTT
*
20564668 TAATTTTTAA-TAATACCAAATATAA
1 TAATTTTTAATTAATACAAAATATAA
*
20564693 TAATTTTTAATTACTA-AAAAT-TAA
1 TAATTTTTAATTAATACAAAATATAA
* *
20564717 TGAGTTTTAATTAA
1 TAATTTTTAATTAA
20564731 ATAAAATGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
25 14 0.44
26 4 0.12
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (26 bp):
TAATTTTTAATTAATACAAAATATAA
Found at i:20566842 original size:30 final size:29
Alignment explanation
Indices: 20566791--20566858 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
20566781 TTTTGTTAAT
*
20566791 TTTTTATAATTTAAATTTTCTTTTATTTTGC
1 TTTTT-TAAGTTAAATTTTCTTTT-TTTTGC
* **
20566822 TTTTTTAAGTTAATTTTTCTTTTTTTTTT
1 TTTTTTAAGTTAAATTTTCTTTTTTTTGC
20566851 TTTTTTAA
1 TTTTTTAA
20566859 ATTGCAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 12 0.36
30 16 0.48
31 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (29 bp):
TTTTTTAAGTTAAATTTTCTTTTTTTTGC
Found at i:20567909 original size:49 final size:49
Alignment explanation
Indices: 20567827--20567925 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
20567817 GTATTAAAAG
* * *
20567827 TTTATTTTCAATAAAAATGACGTGGATGTATCGAAGTCATTGATTTATT
1 TTTATTTTCAATAAAAATGACGTGGATGCATCGAAGCCATTCATTTATT
* * * *
20567876 TTTATTTTCAATAAAGATGATGTTGATGCATCGAAGCCGTTCATTTATT
1 TTTATTTTCAATAAAAATGACGTGGATGCATCGAAGCCATTCATTTATT
20567925 T
1 T
20567926 CCTGTTGAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (49 bp):
TTTATTTTCAATAAAAATGACGTGGATGCATCGAAGCCATTCATTTATT
Found at i:20569795 original size:26 final size:26
Alignment explanation
Indices: 20569757--20569811 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
20569747 TTTTTTTTAC
*
20569757 AAAAAAGATAACAAT-TTAAAAATTA
1 AAAAAAAATAACAATATTAAAAATTA
*
20569782 AAAAAAAATAAACAATCATTAAAATTTA
1 AAAAAAAAT-AACAAT-ATTAAAAATTA
20569810 AA
1 AA
20569812 CTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 6 0.24
28 11 0.44
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAAAAATAACAATATTAAAAATTA
Found at i:20576664 original size:2 final size:2
Alignment explanation
Indices: 20576657--20576691 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20576647 ATCATTACAG
20576657 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20576692 TTGCTGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:20581316 original size:22 final size:22
Alignment explanation
Indices: 20581291--20581353 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
20581281 TTTTTTAAAA
20581291 TAAAATTATGAAATTTTCACAT
1 TAAAATTATGAAATTTTCACAT
* *
20581313 TAAAATATAT-AATATTCTCAAAT
1 TAAAAT-TATGAA-ATTTTCACAT
20581336 T-AAA-TATG-AATTTTCACA
1 TAAAATTATGAAATTTTCACA
20581354 AATGATATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
22 11 0.32
23 12 0.35
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (22 bp):
TAAAATTATGAAATTTTCACAT
Found at i:20582586 original size:29 final size:28
Alignment explanation
Indices: 20582547--20582613 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
20582537 GCACTTAAAA
* *
20582547 TAAAACTATTTATTATTTATATTAATATT-T
1 TAAAA-TATTTAATA-TAATATTAAT-TTCT
*
20582577 TAAAATATTTAATATAATATTACTTTCT
1 TAAAATATTTAATATAATATTAATTTCT
20582605 TAAAATATT
1 TAAAATATT
20582614 AAAAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 18 0.55
29 8 0.24
30 5 0.15
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (28 bp):
TAAAATATTTAATATAATATTAATTTCT
Found at i:20583038 original size:23 final size:21
Alignment explanation
Indices: 20582982--20583038 Score: 51
Period size: 23 Copynumber: 2.4 Consensus size: 21
20582972 GAAAGATTTT
20582982 TAATATTAATTTTTTAATTAAAA
1 TAATATT--TTTTTTAATTAAAA
*
20583005 TCAAAATTTTTTTTTAATTATATAA
1 T-AATA-TTTTTTTTAATTA-A-AA
20583030 TAATATTTT
1 TAATATTTT
20583039 AGGTGAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 16 0.57
24 7 0.25
25 5 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTTTTTTTAATTAAAA
Found at i:20584111 original size:20 final size:22
Alignment explanation
Indices: 20584081--20584157 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
20584071 TTATATATAT
20584081 TTATATATATTTAATAA-ATAAA
1 TTAT-TATATTTAATAATATAAA
*
20584103 TT-TTATATTAAATAATATAAA
1 TTATTATATTTAATAATATAAA
20584124 TTATTAT-TTTAGATTAAT-TAAAA
1 TTATTATATTTA-A-TAATAT-AAA
*
20584147 TTAATATATTT
1 TTATTATATTT
20584158 TTATTGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 11 0.24
21 11 0.24
22 8 0.17
23 13 0.28
24 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATTATATTTAATAATATAAA
Found at i:20584127 original size:19 final size:19
Alignment explanation
Indices: 20584086--20584125 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
20584076 TATATTTATA
*
20584086 TATATTTAATAAATAAATTT
1 TATATTAAATAAATAAA-TT
20584106 TATATTAAATAATATAAATT
1 TATATTAAATAA-ATAAATT
20584126 ATTATTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATTAAATAAATAAATT
Found at i:20584134 original size:27 final size:26
Alignment explanation
Indices: 20584094--20584178 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 26
20584084 TATATATTTA
*
20584094 ATAAA-TAAATTTTATATTAAATAAT
1 ATAAATTATATTTTATATTAAATAAT
* * *
20584119 ATAAATTATTATTTTAGATTAATTAAA
1 ATAAATTA-TATTTTATATTAAATAAT
* *
20584146 ATTAA-TATATTTT-TATTGAAAAAAT
1 ATAAATTATATTTTATATT-AAATAAT
*
20584171 ATATATTA
1 ATAAATTA
20584179 CATATTAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
24 3 0.07
25 18 0.40
26 6 0.13
27 18 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
ATAAATTATATTTTATATTAAATAAT
Found at i:20584511 original size:46 final size:46
Alignment explanation
Indices: 20584434--20584521 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
20584424 ATTTTTACTT
* *
20584434 AAAATATTAAATTATTAATAAAAATATTTTTAATAATTTTAATTTA
1 AAAATATTAAAATATAAATAAAAATATTTTTAATAATTTTAATTTA
* *
20584480 AAAATATATAAAATATAAATATAAATA-TTTTAATATTTTTAA
1 AAAATAT-TAAAATATAAATAAAAATATTTTTAATAATTTTAA
20584522 ACATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 21 0.57
47 16 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (46 bp):
AAAATATTAAAATATAAATAAAAATATTTTTAATAATTTTAATTTA
Found at i:20590682 original size:17 final size:18
Alignment explanation
Indices: 20590649--20590683 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20590639 AAATTAAATA
*
20590649 AAAATATTTTTTGTTAAT
1 AAAATAATTTTTGTTAAT
20590667 AAAATAATTTTT-TTAAT
1 AAAATAATTTTTGTTAAT
20590684 TAAGTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AAAATAATTTTTGTTAAT
Found at i:20598558 original size:17 final size:18
Alignment explanation
Indices: 20598528--20598571 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
20598518 TAAATATTAG
*
20598528 ATTTAATAATTTATTT-TA
1 ATTTAA-AAATTATTTATA
20598546 ATTTAAAAATTATTTATA
1 ATTTAAAAATTATTTATA
20598564 ATATTAAA
1 AT-TTAAA
20598572 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAAAATTATTTATA
Found at i:20599890 original size:6 final size:6
Alignment explanation
Indices: 20599879--20599951 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
20599869 AATTTTAATT
* * *
20599879 AATAAA ATTAAA AATAAA AA-ACAT AATAAA TATAAA AATAAA AATAAAA
1 AATAAA AATAAA AATAAA AATA-AA AATAAA AATAAA AATAAA AAT-AAA
*
20599928 TATATAAA AACGAAA AATAAA AAT
1 -A-ATAAA AA-TAAA AATAAA AAT
20599952 TAAGTTACTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 1 0.02
6 36 0.68
7 10 0.19
8 4 0.08
9 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:20599929 original size:23 final size:23
Alignment explanation
Indices: 20599883--20599949 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
20599873 TTAATTAATA
20599883 AAAT-TAAAAATAAAAA-ACATAAT
1 AAATATAAAAATAAAAATA-A-AAT
20599906 AAATATAAAAATAAAAATAAAAT
1 AAATATAAAAATAAAAATAAAAT
*
20599929 --ATATAAAAACGAAAAATAAAA
1 AAATATAAAAA-TAAAAATAAAA
20599950 ATTAAGTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 9 0.22
22 10 0.25
23 7 0.17
24 13 0.32
25 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (23 bp):
AAATATAAAAATAAAAATAAAAT
Found at i:20602863 original size:29 final size:29
Alignment explanation
Indices: 20602821--20602877 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
20602811 TTTACCCTAG
20602821 AGTAGATAAGTGTCAATTATCAGGGTTGA
1 AGTAGATAAGTGTCAATTATCAGGGTTGA
*
20602850 AGTAGATAAGTGTCAATTATCAGTGTTG
1 AGTAGATAAGTGTCAATTATCAGGGTTG
20602878 GGATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (29 bp):
AGTAGATAAGTGTCAATTATCAGGGTTGA
Found at i:20606063 original size:7 final size:7
Alignment explanation
Indices: 20606054--20606103 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
20606044 TAATAAAATC
*
20606054 ATATATC
1 ATATATA
20606061 ATATATA
1 ATATATA
20606068 ATATATA
1 ATATATA
20606075 ATATATA
1 ATATATA
20606082 ATATTATA
1 ATA-TATA
*
20606090 TTATA-A
1 ATATATA
20606096 GATATATA
1 -ATATATA
20606104 GTTATCTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.78
8 7 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
ATATATA
Found at i:20608643 original size:18 final size:18
Alignment explanation
Indices: 20608620--20608655 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20608610 AAGTTATTTA
* *
20608620 AATTATTATAAATTTATT
1 AATTATTAAAAAATTATT
20608638 AATTATTAAAAAATTATT
1 AATTATTAAAAAATTATT
20608656 TATTTATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTAAAAAATTATT
Found at i:20608757 original size:29 final size:30
Alignment explanation
Indices: 20608720--20608779 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
20608710 AATTCACAAA
* *
20608720 TTTATAATTCAAATGTTACATTAAA-AATT
1 TTTAAAATTCAAATATTACATTAAATAATT
* *
20608749 TTTAAAATTTAAATATTAGATTAAATAATT
1 TTTAAAATTCAAATATTACATTAAATAATT
20608779 T
1 T
20608780 ATTTTAATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAAAATTCAAATATTACATTAAATAATT
Found at i:20608916 original size:13 final size:13
Alignment explanation
Indices: 20608898--20608927 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20608888 TTGCTTTTTT
*
20608898 AATAAAAAATAAA
1 AATAAAAAAAAAA
20608911 AATAAAAAAAAAA
1 AATAAAAAAAAAA
20608924 AATA
1 AATA
20608928 CCAATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AATAAAAAAAAAA
Found at i:20609105 original size:3 final size:3
Alignment explanation
Indices: 20609091--20609132 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
20609081 TATTTCAGTT
*
20609091 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20609133 ATATATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:20609498 original size:13 final size:14
Alignment explanation
Indices: 20609468--20609499 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
20609458 ACCCATACCC
20609468 AAACAGAAACACAA
1 AAACAGAAACACAA
20609482 AAACAGAAACA-AA
1 AAACAGAAACACAA
20609495 AAACA
1 AAACA
20609500 AAGACAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.75, C:0.19, G:0.06, T:0.00
Consensus pattern (14 bp):
AAACAGAAACACAA
Found at i:20610148 original size:9 final size:10
Alignment explanation
Indices: 20610131--20610158 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
20610121 GGTAAAAAAA
20610131 AATTTTTTTT
1 AATTTTTTTT
20610141 AATTTTTTTT
1 AATTTTTTTT
20610151 AATTTTTT
1 AATTTTTT
20610159 ATATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:20616808 original size:17 final size:17
Alignment explanation
Indices: 20616786--20616826 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
20616776 GAACACCAAT
*
20616786 GACCATTTATGTCCTTA
1 GACCATTTATGTCCCTA
20616803 GACCATTTATGTCCCTA
1 GACCATTTATGTCCCTA
*
20616820 GTCCATT
1 GACCATT
20616827 CCCTTATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (17 bp):
GACCATTTATGTCCCTA
Found at i:20620912 original size:18 final size:19
Alignment explanation
Indices: 20620883--20620918 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20620873 TTTGGAAATA
*
20620883 TTTTAATAAAATTTTTTAT
1 TTTTAATAAAATTATTTAT
20620902 TTTTAAT-AAATTATTTA
1 TTTTAATAAAATTATTTA
20620919 GTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAATAAAATTATTTAT
Found at i:20621532 original size:28 final size:25
Alignment explanation
Indices: 20621481--20621532 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
20621471 ATTTTTATCT
* *
20621481 ATAATAAAATAAAAAAATACAAAAC
1 ATAATAAAATAAAAAAACAAAAAAC
20621506 ATAATAAATATATATAAAAACAAAAAA
1 ATAATAAA-ATA-A-AAAAACAAAAAA
20621533 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 1 0.05
28 10 0.45
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (25 bp):
ATAATAAAATAAAAAAACAAAAAAC
Found at i:20621535 original size:26 final size:26
Alignment explanation
Indices: 20621481--20621539 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
20621471 ATTTTTATCT
*
20621481 ATAATAAA-ATAAAAAAATACAAAAC
1 ATAATAAATATAAAAAAATACAAAAA
*
20621506 ATAATAAATATATATAAAA-ACAAAAA
1 ATAATAAATATA-AAAAAATACAAAAA
20621532 ATAA-AAAT
1 ATAATAAAT
20621540 TAAGTTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.40
26 13 0.43
27 5 0.17
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (26 bp):
ATAATAAATATAAAAAAATACAAAAA
Found at i:20622291 original size:15 final size:16
Alignment explanation
Indices: 20622264--20622293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20622254 AAATTATAAT
20622264 TAAAATAATTAATTTA
1 TAAAATAATTAATTTA
20622280 TAAAATAA-TAATTT
1 TAAAATAATTAATTT
20622294 TTATCTCGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATAATTAATTTA
Found at i:20626533 original size:4 final size:4
Alignment explanation
Indices: 20626515--20626591 Score: 68
Period size: 4 Copynumber: 19.0 Consensus size: 4
20626505 TAAATTTCTA
* * * *
20626515 TATT TATC T-TT TATT TATT TATT TATT TTTGT TCTT TATT TATTT TATC
1 TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TATT TA-TT TATT
*
20626564 T-CT TATT TATT TATTT TATT TATT TATT
1 TATT TATT TATT TA-TT TATT TATT TATT
20626592 GTTATAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
3 3 0.05
4 45 0.76
5 11 0.19
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:20626536 original size:45 final size:40
Alignment explanation
Indices: 20626480--20626578 Score: 94
Period size: 41 Copynumber: 2.4 Consensus size: 40
20626470 CCTTTCATTT
*
20626480 TCTTA-TT-TTTATTAGTTTTTTTTATTAAATTTCTATATTTATC
1 TCTTATTTATTTATTA-TTTTTGTTATT-AA-TT-TAT-TTTATC
* * *
20626523 TTTTATTTATTTATTTATTTTTGTTCTTTATTTATTTTATC
1 TCTTATTTATTTA-TTATTTTTGTTATTAATTTATTTTATC
20626564 TCTTATTTATTTATT
1 TCTTATTTATTTATT
20626579 TTATTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
40 2 0.04
41 18 0.38
42 3 0.06
43 6 0.12
44 3 0.06
45 13 0.27
46 3 0.06
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (40 bp):
TCTTATTTATTTATTATTTTTGTTATTAATTTATTTTATC
Found at i:20626552 original size:17 final size:16
Alignment explanation
Indices: 20626509--20626591 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 16
20626499 TTTTATTAAA
*
20626509 TTTCTATATTTATCTTTT
1 TTTCTTTATTTA--TTTT
*
20626527 ATTTATTTATTTATTTT
1 -TTTCTTTATTTATTTT
20626544 TGTTCTTTATTTA-TTT
1 T-TTCTTTATTTATTTT
*
20626560 TATCTCTTATTTATTTAT
1 TTTCT-TTATTTATTT-T
*
20626578 TTTATTTATTTATT
1 TTTCTTTATTTATT
20626592 GTTATAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.06
16 12 0.22
17 25 0.46
18 4 0.07
19 10 0.19
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTCTTTATTTATTTT
Done.