Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 199 of 292
Found at i:59409631 original size:81 final size:83
Alignment explanation
Indices: 59409524--59409676 Score: 265
Period size: 81 Copynumber: 1.9 Consensus size: 83
59409514 TATATTTTTT
*
59409524 AAAAACGTTTGAATAAAAAATATTATAAAACATTTAAAATATTAT-AAA-AAATAATAAATAATT
1 AAAAACGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAACAATT
59409587 TAAAAAACAAATTTTTAA
66 TAAAAAACAAATTTTTAA
* *
59409605 AAAAATGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAACACTT
1 AAAAACGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAACAATT
59409670 TAAAAAA
66 TAAAAAA
59409677 ATAAATAATA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
81 44 0.66
82 3 0.04
83 20 0.30
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (83 bp):
AAAAACGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAACAATT
TAAAAAACAAATTTTTAA
Found at i:59409652 original size:10 final size:10
Alignment explanation
Indices: 59409621--59409653 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59409611 GTTTGAATAA
59409621 AAAATATTAT
1 AAAATATTAT
*
59409631 AAAACATT-T
1 AAAATATTAT
59409640 AAAATATTAT
1 AAAATATTAT
59409650 AAAA
1 AAAA
59409654 CAAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:59409694 original size:8 final size:8
Alignment explanation
Indices: 59409670--59409708 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
59409660 ATAAACACTT
59409670 TAAAAAAA
1 TAAAAAAA
*
59409678 T-AAATAA
1 TAAAAAAA
*
59409685 TAAACAAA
1 TAAAAAAA
59409693 TAAAAAAA
1 TAAAAAAA
59409701 TAAAAAAA
1 TAAAAAAA
59409709 GGACAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:59409696 original size:23 final size:24
Alignment explanation
Indices: 59409650--59409704 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
59409640 AAAATATTAT
* **
59409650 AAAACAAATAATAAACACTTTAAA
1 AAAATAAATAATAAACACAATAAA
59409674 AAAATAAATAATAAACA-AATAAA
1 AAAATAAATAATAAACACAATAAA
59409697 AAAATAAA
1 AAAATAAA
59409705 AAAAGGACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAATAAATAATAAACACAATAAA
Found at i:59409748 original size:30 final size:30
Alignment explanation
Indices: 59409712--59409772 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
59409702 AAAAAAAGGA
59409712 CAAAGAATCTGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
59409742 CAAAGAATCTGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
59409772 C
1 C
59409773 TCTACCAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (30 bp):
CAAAGAATCTGATAGCGCCAAATTGTTTGG
Found at i:59428865 original size:28 final size:28
Alignment explanation
Indices: 59428800--59428871 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
59428790 ATAGTGAATC
* *
59428800 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
59428829 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
59428857 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59428872 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:59436781 original size:28 final size:28
Alignment explanation
Indices: 59436716--59436787 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
59436706 ATAGTGAATC
* *
59436716 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
59436745 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
59436773 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59436788 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:59442846 original size:25 final size:25
Alignment explanation
Indices: 59442801--59442848 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
59442791 AAAAAAAAAA
*
59442801 TTGTTGTTTTTCTTTTGCTATTTTC
1 TTGTTGTTTTTCTTTTACTATTTTC
59442826 TTGTTGTTTTT-TTTTCACTATTT
1 TTGTTGTTTTTCTTTT-ACTATTT
59442849 CACTACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.73
Consensus pattern (25 bp):
TTGTTGTTTTTCTTTTACTATTTTC
Found at i:59442921 original size:17 final size:19
Alignment explanation
Indices: 59442888--59442922 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
59442878 ATTGTTTGGA
59442888 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
59442907 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
59442923 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:59443287 original size:22 final size:21
Alignment explanation
Indices: 59443248--59443305 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 21
59443238 CCTATAACTT
59443248 AAACTCTAATTAATCTAAATA
1 AAACTCTAATTAATCTAAATA
*
59443269 AAACTC---TTAAT-TATACTA
1 AAACTCTAATTAATCTA-AATA
*
59443287 AAACTTTAATTAATCTAAA
1 AAACTCTAATTAATCTAAA
59443306 CAAGTAGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
21 12 0.41
22 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
AAACTCTAATTAATCTAAATA
Found at i:59443842 original size:23 final size:23
Alignment explanation
Indices: 59443815--59443859 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
59443805 ATTATCATTC
59443815 ATCATAAACATACTCTACAACTT
1 ATCATAAACATACTCTACAACTT
59443838 ATCATAAACATACTCTACAACT
1 ATCATAAACATACTCTACAACT
59443860 GAGTTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCATAAACATACTCTACAACTT
Found at i:59444992 original size:26 final size:26
Alignment explanation
Indices: 59444963--59445019 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
59444953 GTAATGGTTT
59444963 TATAAAAATAAAATATTAAATTAAAC
1 TATAAAAATAAAATATTAAATTAAAC
** * * * *
59444989 TATATCAATTAAATCTTAAATTTAAG
1 TATAAAAATAAAATATTAAATTAAAC
59445015 TATAA
1 TATAA
59445020 TAAAATGATT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (26 bp):
TATAAAAATAAAATATTAAATTAAAC
Found at i:59450182 original size:16 final size:18
Alignment explanation
Indices: 59450146--59450188 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
59450136 AATTCAATTT
59450146 TTAATATCTTTTATCATAA
1 TTAATAT-TTTTATCATAA
59450165 TTAATATTTTT-T-ATAA
1 TTAATATTTTTATCATAA
59450181 TTAA-ATTT
1 TTAATATTT
59450189 AAAAATAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.17
16 8 0.33
17 1 0.04
18 4 0.17
19 7 0.29
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATATTTTTATCATAA
Found at i:59451378 original size:21 final size:20
Alignment explanation
Indices: 59451337--59451380 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
59451327 CTTATAACTG
*
59451337 TTTATATAATTTTACTATTT
1 TTTATATAATTTTAATATTT
59451357 TTTATAATAATTTGTAAT-TTT
1 TTTAT-ATAATTT-TAATATTT
59451378 TTT
1 TTT
59451381 TGACATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 13 0.62
22 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATATAATTTTAATATTT
Found at i:59453773 original size:2 final size:2
Alignment explanation
Indices: 59453766--59453801 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59453756 CTAAGTGCTT
59453766 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59453802 GCCGAAGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59455900 original size:16 final size:16
Alignment explanation
Indices: 59455879--59455911 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59455869 AAAAATTAAG
59455879 AATTATATTTGTATAT
1 AATTATATTTGTATAT
*
59455895 AATTATATTTTTATAT
1 AATTATATTTGTATAT
59455911 A
1 A
59455912 TATACATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATATTTGTATAT
Found at i:59459298 original size:23 final size:21
Alignment explanation
Indices: 59459249--59459300 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59459239 TTCGATGCTT
*
59459249 CTGAGAGATCCGAGGAATTGC
1 CTGAGAGATCCAAGGAATTGC
59459270 CTGAGAGATCCAAGGAATTGC
1 CTGAGAGATCCAAGGAATTGC
59459291 CT-AGGAGATC
1 CTGA-GAGATC
59459301 AAAGAGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (21 bp):
CTGAGAGATCCAAGGAATTGC
Found at i:59462867 original size:9 final size:10
Alignment explanation
Indices: 59462843--59462923 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
59462833 AATATGGCAA
59462843 AAAAAATTAT
1 AAAAAATTAT
59462853 AAAAAATTAT
1 AAAAAATTAT
* *
59462863 TAAAATTTAGT
1 AAAAAATTA-T
*
59462874 GAAAAA--AT
1 AAAAAATTAT
59462882 AAAAAATT-T
1 AAAAAATTAT
*
59462891 --TAAATTAT
1 AAAAAATTAT
* *
59462899 TAAAAATTAG
1 AAAAAATTAT
*
59462909 AAAAAAATAT
1 AAAAAATTAT
59462919 AAAAA
1 AAAAA
59462924 TCGTAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
7 5 0.09
8 7 0.13
9 2 0.04
10 35 0.65
11 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:59462899 original size:36 final size:36
Alignment explanation
Indices: 59462856--59462924 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
59462846 AAATTATAAA
* *
59462856 AAATTATTAAAATTTAGTGAAAAAATA-AAAAATTTT
1 AAATTATTAAAAATTAG-AAAAAAATATAAAAATTTT
59462892 AAATTATTAAAAATTAGAAAAAAATATAAAAAT
1 AAATTATTAAAAATTAGAAAAAAATATAAAAAT
59462925 CGTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (36 bp):
AAATTATTAAAAATTAGAAAAAAATATAAAAATTTT
Found at i:59464148 original size:20 final size:20
Alignment explanation
Indices: 59464123--59464160 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59464113 CCTCAGATTA
59464123 ATGTTAT-ATTTTAGTTACTT
1 ATGTTATCATTTT-GTTACTT
59464143 ATGTTATCATTTTGTTAC
1 ATGTTATCATTTTGTTAC
59464161 GAATTGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (20 bp):
ATGTTATCATTTTGTTACTT
Found at i:59466963 original size:17 final size:18
Alignment explanation
Indices: 59466941--59466999 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
59466931 AAAAAATCAC
59466941 TTAAAAATCAT-AAAAAT
1 TTAAAAATCATCAAAAAT
*
59466958 TTAAAAA-CCTCAAAAAT
1 TTAAAAATCATCAAAAAT
*
59466975 TTTAAAAT--TCAGAAAAT
1 TTAAAAATCATCA-AAAAT
59466992 TATAAAAA
1 T-TAAAAA
59467000 AATCATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 5 0.14
17 25 0.71
18 5 0.14
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (18 bp):
TTAAAAATCATCAAAAAT
Found at i:59469258 original size:3 final size:3
Alignment explanation
Indices: 59469252--59469301 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
59469242 ATTTTTTTTC
59469252 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
59469298 TAA T
1 TAA T
59469302 TAAAATAGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:59469365 original size:25 final size:25
Alignment explanation
Indices: 59469337--59469389 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
59469327 ACTTTGGAAA
*
59469337 TTTATAATT-TTTATTTAAAAATAGC
1 TTTATAATTATTTATATAAAAA-AGC
* *
59469362 TTTATATTTATTTATATAAATAAGC
1 TTTATAATTATTTATATAAAAAAGC
59469387 TTT
1 TTT
59469390 TATTATACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTATAATTATTTATATAAAAAAGC
Found at i:59480114 original size:15 final size:16
Alignment explanation
Indices: 59480091--59480120 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59480081 GGTTGAATCG
59480091 AATT-TTTTTATTTTA
1 AATTGTTTTTATTTTA
59480106 AATTGTTTTTATTTT
1 AATTGTTTTTATTTT
59480121 TAAAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTGTTTTTATTTTA
Found at i:59484142 original size:63 final size:61
Alignment explanation
Indices: 59484042--59484161 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 61
59484032 ATCCATGTAT
* * *
59484042 GAGAGCGTTAACGATTGAAACCATCAATGGTGAGGAAGAGTAAGTCATGAAGTGATAATGG
1 GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAGTCATGAAGTGATAATGG
*
59484103 GAGAGCGGTAACGAATTCGAAACCGTTC-ATGGGGAGGAAGAATAAGTCATGAAGTGATA
1 GAGAGCGGTAACG-ATT-GAAACC-ATCAATGGGGAGGAAGAATAAGTCATGAAGTGATA
59484162 TAATGGAAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 12 0.23
62 3 0.06
63 35 0.67
64 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.20
Consensus pattern (61 bp):
GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAGTCATGAAGTGATAATGG
Found at i:59484891 original size:15 final size:16
Alignment explanation
Indices: 59484861--59484891 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59484851 GGCATTATCA
59484861 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
59484877 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
59484892 CAATAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:59490202 original size:14 final size:14
Alignment explanation
Indices: 59490171--59490209 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
59490161 ATGTGAAGAA
59490171 TATTATTTAAAA-T
1 TATTATTTAAAATT
59490184 TATTATTTAAAATT
1 TATTATTTAAAATT
59490198 TATTA-TTAAAAT
1 TATTATTTAAAAT
59490210 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:59490345 original size:13 final size:14
Alignment explanation
Indices: 59490325--59490356 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59490315 AATATTAAAA
59490325 AATA-TAATATTTT
1 AATATTAATATTTT
59490338 -ATATTAATATTTT
1 AATATTAATATTTT
59490351 AATATT
1 AATATT
59490357 TTTAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:59490604 original size:14 final size:14
Alignment explanation
Indices: 59490585--59490616 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
59490575 CAAATATAGG
59490585 AAAATATTTTTAAT
1 AAAATATTTTTAAT
*
59490599 AAAATATTTTTCAT
1 AAAATATTTTTAAT
59490613 AAAA
1 AAAA
59490617 CCTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATATTTTTAAT
Found at i:59496166 original size:25 final size:25
Alignment explanation
Indices: 59496137--59496184 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
59496127 AAGTCACTTC
*
59496137 TATATTTTTATTTCTCA-TATTATCT
1 TATATTTATATTTC-CATTATTATCT
59496162 TATATTTATATTTCCATTATTAT
1 TATATTTATATTTCCATTATTAT
59496185 ACCATATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATATTTCCATTATTATCT
Found at i:59512066 original size:21 final size:21
Alignment explanation
Indices: 59512040--59512079 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59512030 CCGACGTCTG
*
59512040 CAACGTCCCATACCCCCACTA
1 CAACGTCCCACACCCCCACTA
*
59512061 CAACGTCCCACACCTCCAC
1 CAACGTCCCACACCCCCAC
59512080 AGTCCTCGTA
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:0.28, C:0.55, G:0.05, T:0.12
Consensus pattern (21 bp):
CAACGTCCCACACCCCCACTA
Found at i:59512626 original size:18 final size:17
Alignment explanation
Indices: 59512599--59512634 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
59512589 AGCCCCCCTC
59512599 TCCCCTCTCTCCTTTCT
1 TCCCCTCTCTCCTTTCT
*
59512616 TCCCTCTCTCTCTTTTCT
1 TCCC-CTCTCTCCTTTCT
59512634 T
1 T
59512635 TTTTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (17 bp):
TCCCCTCTCTCCTTTCT
Found at i:59513129 original size:23 final size:24
Alignment explanation
Indices: 59513103--59513152 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
59513093 TTGTATTTTC
59513103 ATATTATTAATAT-TATTATTATT
1 ATATTATTAATATATATTATTATT
* * *
59513126 ATA-TATTATTGTATATTTTTATT
1 ATATTATTAATATATATTATTATT
59513149 ATAT
1 ATAT
59513153 GCGTACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATATTATTAATATATATTATTATT
Found at i:59517438 original size:45 final size:45
Alignment explanation
Indices: 59517373--59517469 Score: 185
Period size: 45 Copynumber: 2.1 Consensus size: 45
59517363 TGTGGCAACT
59517373 ACGGAAGAAGACACTTTAGAAGATCATCCTTGGAAACTGAATTTTG
1 ACGG-AGAAGACACTTTAGAAGATCATCCTTGGAAACTGAATTTTG
59517419 ACGGAGAAGACACTTTAGAAGATCATCCTTGGAAACTGAATTTTG
1 ACGGAGAAGACACTTTAGAAGATCATCCTTGGAAACTGAATTTTG
59517464 ACGGAG
1 ACGGAG
59517470 CATCAAACGC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 47 0.92
46 4 0.08
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (45 bp):
ACGGAGAAGACACTTTAGAAGATCATCCTTGGAAACTGAATTTTG
Found at i:59520681 original size:44 final size:44
Alignment explanation
Indices: 59520650--59520769 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 44
59520640 TTTAGGCATC
59520650 AGTCTTATC-TCTCTGAGGTAGCAAGAGAGCAG-GTTAAAGATACA
1 AGTCTTATCTTC-CTGAGGTAGCAAG-GAGCAGAGTTAAAGATACA
* *
59520694 AGTCTTATCTTCCTGAGGTAGCAAGGAGCAGACTGAAA-ATTAC-
1 AGTCTTATCTTCCTGAGGTAGCAAGGAGCAGAGTTAAAGA-TACA
* *
59520737 AGATCTTATCTTCCT-AAGTAGTAATGGAGCAGA
1 AG-TCTTATCTTCCTGAGGTAGCAA-GGAGCAGA
59520770 TTGAAGACAG
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
43 16 0.24
44 49 0.73
45 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAGCAGAGTTAAAGATACA
Found at i:59520692 original size:177 final size:176
Alignment explanation
Indices: 59520380--59520866 Score: 633
Period size: 176 Copynumber: 2.8 Consensus size: 176
59520370 ATCAGTGAAT
* * *
59520380 TTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACAGTGAATCTTATCTCTATGT
1 TTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCTATGT
* * * * * *
59520445 ATCAGCAATAGAGCAGATTTAAGCCA-CTAGCCTTGTCTCCCT-AGAGTTGC-AGTGCAGCAGGC
66 ATCAGCAATAGAGCAGATTTTAGCCATC-AGCCTTATCTCTCTGAG-GTAGCAAGAG-AGCAGGT
* * * * *
59520507 TCAAGATACGAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAAATTGAAAA
128 TAAAGATACAAGTCTTATCTCCCTGAAGTAGCA-AGGAGCAAACTGAAAA
59520557 TTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGAC-GACGAATCTTATCTCTATG
1 TTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACAG-CGAATCTTATCTCTATG
* *
59520621 TATCAGCAAT-GTAGCAGATTTTAGGCATCAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
65 TATCAGCAATAG-AGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* * *
59520685 AAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAGCAGACTGAAAA
129 AAAGATACAAGTCTTATCTCCCTGAAGTAGCAAGGAGCAAACTGAAAA
* * * * * *
59520733 TTACAGATCTTATCTTCCTAAGTAGTAATGGAGCAGATTGAAGACAGCGAATCTTATCTCCATAT
1 TTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCTATGT
* * *
59520798 ATCGGCAATAGAACAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGA
66 ATCAGCAATAGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
59520863 AGAT
131 AGAT
59520867 TGTAGTCATA
Statistics
Matches: 273, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
176 134 0.49
177 133 0.49
178 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (176 bp):
TTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCTATGT
ATCAGCAATAGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
AGATACAAGTCTTATCTCCCTGAAGTAGCAAGGAGCAAACTGAAAA
Found at i:59527159 original size:45 final size:45
Alignment explanation
Indices: 59527055--59527169 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 45
59527045 TATTTAATTA
**
59527055 ATTTTTAAAATTTAAAAATT-TCAAAAAATATATAAAAAAACTAT
1 ATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAAAACTAT
** * *
59527099 -TTTTTAAAAAATAAAAGTTATTTAAAAATAT-TAAAAAAATTAAT
1 ATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAAAACT-AT
*
59527143 ATTTTTAAAATTTAAAAATTAATTAAA
1 ATTTTTAAAATTTAAAAATTATTTAAA
59527170 TATTGATGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 25 0.43
44 11 0.19
45 22 0.38
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (45 bp):
ATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAAAACTAT
Found at i:59529411 original size:20 final size:20
Alignment explanation
Indices: 59529383--59529425 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59529373 AAAATGGTTT
* *
59529383 AAACTTTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
*
59529403 AAACATTTTTAAATCGATTG
1 AAACATTTTTAAATCAATTG
59529423 AAA
1 AAA
59529426 AATTGTTCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:59536585 original size:17 final size:19
Alignment explanation
Indices: 59536558--59536595 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
59536548 AAAGTATCAC
59536558 TTTCATATCAA-TTAAGTG
1 TTTCATATCAACTTAAGTG
59536576 TTTC-TATCAACTTAAGTG
1 TTTCATATCAACTTAAGTG
59536594 TT
1 TT
59536596 AAATATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTCATATCAACTTAAGTG
Found at i:59539255 original size:26 final size:26
Alignment explanation
Indices: 59539219--59539354 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
59539209 TGATACAAAT
59539219 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59539245 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59539271 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59539297 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59539323 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
59539349 TGATAA
1 TGATAA
59539355 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:59544526 original size:2 final size:2
Alignment explanation
Indices: 59544519--59544557 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
59544509 TTATTGTTTC
59544519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59544558 TTCGACACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59546636 original size:31 final size:30
Alignment explanation
Indices: 59546579--59546638 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
59546569 TATTATTATG
*
59546579 TGATAATAATATAAGTAATATTAATTAATA
1 TGATAATAATATAAGTAAAATTAATTAATA
59546609 TGATAAT-ATATTAATGTAAAATTAATTAAT
1 TGATAATAATA-TAA-GTAAAATTAATTAAT
59546639 TTATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.42
Consensus pattern (30 bp):
TGATAATAATATAAGTAAAATTAATTAATA
Found at i:59551696 original size:2 final size:2
Alignment explanation
Indices: 59551684--59551731 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
59551674 TGCAACAATC
* * * *
59551684 AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59551726 AT AT AT
1 AT AT AT
59551732 GCATATGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59551737 original size:6 final size:6
Alignment explanation
Indices: 59551685--59551753 Score: 66
Period size: 6 Copynumber: 11.5 Consensus size: 6
59551675 GCAACAATCA
* * * * * * *
59551685 TATATG TATATA TATATA TATATG TATATA TGTATA TATGTA TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
59551733 CATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TAT
59551754 TTATGTATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:59551762 original size:8 final size:8
Alignment explanation
Indices: 59551693--59551761 Score: 75
Period size: 8 Copynumber: 8.4 Consensus size: 8
59551683 CATATATGTA
*
59551693 TATATATA
1 TATATATG
59551701 TATATATG
1 TATATATG
59551709 TATATATG
1 TATATATG
59551717 TATATATG
1 TATATATG
59551725 TATATATG
1 TATATATG
* *
59551733 CATATGTATA
1 --TATATATG
*
59551743 TGTATATG
1 TATATATG
*
59551751 TATTTATG
1 TATATATG
59551759 TAT
1 TAT
59551762 TAAACTTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 45 0.88
10 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:59560008 original size:592 final size:592
Alignment explanation
Indices: 59558877--59560063 Score: 2018
Period size: 592 Copynumber: 2.0 Consensus size: 592
59558867 ATAAGTAGAT
59558877 ATGAATACTCTCTTGCCCTCTAAAAATTCAAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
1 ATGAATACTCTCTTGCCCTCTAAAAATTCAAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
* * *
59558942 CTACAAGGTCAAGTTTATACAATAAGTGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAA
66 CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTACCAA
59559007 GCTATTAAGGATATGAATTATGTCCTACGATACTGTGTTTTTACAAAGGATGTGTGGTTAGCTTT
131 GCTATTAAGGATATGAATTATGTCCTACGATACTGTGTTTTTACAAAGGATGTGTGGTTAGCTTT
* * *
59559072 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATTAATGGCTATCATGGATGTTTG
196 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAACGGCTATCATGAATGTTTG
* * *
59559137 AAAATCATTCTGTGAATAAAAGAACTGAGATTGCAGTTGTGTTGTAGGCTATTTGGCATACTAGA
261 AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTATAGGCTATCTGGCATACTAGA
*
59559202 AATAAGATGCTACATAAGGGTACAAACGAGAAGGTGGAGGATTTGGATGCTTTTGTCTGAGGTTA
326 AATAAGATGCTACATAAGGGTACAAACGAGAAGGTAGAGGATTTGGATGCTTTTGTCTGAGGTTA
* * *
59559267 CTATGCGAAGATTAAAGCGCTGGCTGAAAGTATATATTTGTCTCCTCCACCTCAAATTGTTCGCT
391 CTATGCAAAAATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
* *
59559332 AATGCCTTCTGTCGACATATCTTGTCAAGATAAAAGTTGATGCTAGCTTTTCTCTTGCATAGAGA
456 AATCCCTTCTGTCGACATATCTTGTCAAGATAAAAATTGATGCTAGCTTTTCTCTTGCATAGAGA
* * *
59559397 AAGGCATGTTCAAGAGTAATCATTTGGGACGGATATGGACAAATTATGGGGGTGTTATAGTATTT
521 AAGGCATGTTCAAGAGTAATCATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCT
*
59559462 AATACGC
586 AATACAC
* ** *
59559469 ATGAATGCTCTCTTGCCCTCTAAAAATTTGAATTGGTATGTGGAAATTCCTAAAACACTTTTTGC
1 ATGAATACTCTCTTGCCCTCTAAAAATTCAAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
* *
59559534 CTATAAGATCAAGTTTATACAATAAGCGTATTGCAAATGATCCTTTGTGTCTTAGATGTTACCAA
66 CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTACCAA
*
59559599 GCTATTAAGGATATGAATTATGTCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTT
131 GCTATTAAGGATATGAATTATGTCCTACGATACTGTGTTTTTACAAAGGATGTGTGGTTAGCTTT
*
59559664 ACATTATGTTAGCTTAGGAAATAATGAACAGATCAACTTTCATGAACGGCTATCATGAATGTTTG
196 ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAACGGCTATCATGAATGTTTG
* * * *
59559729 AAAATTATTCTATGAATAAAAGAATTGAGATTGCAGTTGTGTTATAGGCTATCTGGTATGCTAGA
261 AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTATAGGCTATCTGGCATACTAGA
* * * *
59559794 AATAAGCTGCTACATAAGGGTATAAACGAGAGGGTAGAGGATTTGGTTGCTTTTGT-TCGAGGTT
326 AATAAGATGCTACATAAGGGTACAAACGAGAAGGTAGAGGATTTGGATGCTTTTGTCT-GAGGTT
59559858 ACTATGCAAAAATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGC
390 ACTATGCAAAAATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGC
*
59559923 TAATCCCTTCTGTCGACATCTCTTGTCAAGATAAAAATTGATGCTAGCTTTTC-CTTTGCATAGA
455 TAATCCCTTCTGTCGACATATCTTGTCAAGATAAAAATTGATGCTAGCTTTTCTC-TTGCATAGA
59559987 GAAAGGCATGTTCAAGAGTAATCATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTAT
519 GAAAGGCATGTTCAAGAGTAATCATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTAT
59560052 CTAATACAC
584 CTAATACAC
59560061 ATG
1 ATG
59560064 TGATTAATGT
Statistics
Matches: 557, Mismatches: 36, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
591 2 0.00
592 555 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (592 bp):
ATGAATACTCTCTTGCCCTCTAAAAATTCAAATTGCTATGTGGAAATTCCTAAAACACTTTTTGC
CTACAAGATCAAGTTTATACAATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTACCAA
GCTATTAAGGATATGAATTATGTCCTACGATACTGTGTTTTTACAAAGGATGTGTGGTTAGCTTT
ACATTATGTTAGCTCAGGAAATAATGAACAGATCAACTTTCATGAACGGCTATCATGAATGTTTG
AAAATCATTCTATGAATAAAAGAACTGAGATTGCAGTTGTGTTATAGGCTATCTGGCATACTAGA
AATAAGATGCTACATAAGGGTACAAACGAGAAGGTAGAGGATTTGGATGCTTTTGTCTGAGGTTA
CTATGCAAAAATTAAAGCGCTGGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCT
AATCCCTTCTGTCGACATATCTTGTCAAGATAAAAATTGATGCTAGCTTTTCTCTTGCATAGAGA
AAGGCATGTTCAAGAGTAATCATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCT
AATACAC
Found at i:59564476 original size:46 final size:46
Alignment explanation
Indices: 59564423--59564598 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59564413 TATTTGGGCA
59564423 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
59564469 TCCGAACTCGTTGAGTTGAGTCCGAGCTC-CTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
59564516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59564562 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59564599 GCAGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 66 0.59
47 32 0.29
48 3 0.03
50 4 0.04
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59564578 original size:93 final size:93
Alignment explanation
Indices: 59564419--59564587 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
59564409 GGGATATTTG
* *
59564419 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59564484 TTGAGTCCGAGCTCCTGAGATGTAACTA
66 TTGAGTCCGAGCTCCTGAGATGTAACTA
*
59564512 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59564577 TTGAGTCCGAG
66 TTGAGTCCGAG
59564588 TTCACTTATG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGCTCCTGAGATGTAACTA
Found at i:59575763 original size:20 final size:20
Alignment explanation
Indices: 59575740--59575780 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
59575730 GCTGGCCACA
59575740 ACATGTTTAAGCATAATCAC
1 ACATGTTTAAGCATAATCAC
59575760 ACATGTTTAAGCATAATCAC
1 ACATGTTTAAGCATAATCAC
59575780 A
1 A
59575781 TAATATGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
ACATGTTTAAGCATAATCAC
Found at i:59580559 original size:21 final size:22
Alignment explanation
Indices: 59580535--59580580 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
59580525 AAAGTTAAAT
59580535 TTTATTATTAACAAAT-TTTAG
1 TTTATTATTAACAAATATTTAG
**
59580556 TTTATTATTAATTAATATTTAG
1 TTTATTATTAACAAATATTTAG
59580578 TTT
1 TTT
59580581 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTATTATTAACAAATATTTAG
Found at i:59580760 original size:14 final size:13
Alignment explanation
Indices: 59580737--59580783 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
59580727 TGAAATTGAA
59580737 TATTTTAAATTTT
1 TATTTTAAATTTT
59580750 TATTTTGAAATTTT
1 TATTTT-AAATTTT
*
59580764 TACTTTAAATTTT
1 TATTTTAAATTTT
59580777 TATTTTA
1 TATTTTA
59580784 TTCTAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
TATTTTAAATTTT
Found at i:59583375 original size:20 final size:21
Alignment explanation
Indices: 59583333--59583389 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
59583323 TGAATTTTAA
*
59583333 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
59583355 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTGTTTATTTT
**
59583375 ATATTCATATTTGTT
1 ATATAAATATTTGTT
59583390 CGCTATCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 16 0.50
21 4 0.12
22 12 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:59583599 original size:87 final size:87
Alignment explanation
Indices: 59583504--59583755 Score: 303
Period size: 87 Copynumber: 2.9 Consensus size: 87
59583494 TGAAATAAAA
* * * *
59583504 ATTAAAATTGAATAAAATCTATTTTGGGATTTATTCCCGCTG-TTCAAC-AGATTTTATTCTATT
1 ATTAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCTGATT-AACTA-ATTTTATTCCAAT
* *
59583567 TTTTATTTTATTTCCAAAATAAGT
64 TTTGATTTTATTTCCAAAACAAGT
** *
59583591 ATTAAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGTTGATTAACTAATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCTGATTAACTAATTTTATTCCAATTT
* *
59583656 TGATTTTGTTTCCAAAACGAGT
66 TGATTTTATTTCCAAAACAAGT
* * * * *
59583678 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCTCTCCGTTTAA-TGAATTTTATTCCAATT
1 ATTAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCTGATTAACT-AATTTTATTCCAATT
*
59583742 TTGATTTTTTTTCC
65 TTGATTTTATTTCC
59583756 CAAATGAGAA
Statistics
Matches: 142, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 138 0.97
88 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (87 bp):
ATTAAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCTGATTAACTAATTTTATTCCAATTT
TGATTTTATTTCCAAAACAAGT
Found at i:59584047 original size:91 final size:95
Alignment explanation
Indices: 59583906--59584091 Score: 236
Period size: 91 Copynumber: 2.0 Consensus size: 95
59583896 CTCATTTTGA
* * *
59583906 AAATAAAATAAAAAATGGAATGAAATCTATTGAAGGACAGTAATAAATCCCGGAACAGATTTTAT
1 AAATAAAAT-AAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTAT
* *
59583971 TTAACTTTAATTCTTGTTTGGAAATAAAATG
65 TCAACTTTAATTCTTATTTGGAAATAAAATG
* *
59584002 AAATAAAAT-AAAAT-GAATGAAATCCGTTGAA-G-CAGGAATAAATCCCGAAAGAGATTTTATT
1 AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
* * * *
59584063 CAATTTTTATTTTTATTTTGAAATAAAAT
66 CAACTTTAATTCTTATTTGGAAATAAAAT
59584092 ACAATTCGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
91 49 0.62
92 1 0.01
93 15 0.19
94 5 0.06
96 9 0.11
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (95 bp):
AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
CAACTTTAATTCTTATTTGGAAATAAAATG
Found at i:59584489 original size:22 final size:22
Alignment explanation
Indices: 59584450--59584508 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
59584440 GTTTTAAGAA
*
59584450 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
59584471 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
59584493 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
59584509 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:59584525 original size:26 final size:24
Alignment explanation
Indices: 59584479--59584538 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
59584469 ATTTGTTTTA
*
59584479 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
59584503 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
59584529 TTTTTTATTT
1 ATATTTATTT
59584539 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:59588689 original size:19 final size:19
Alignment explanation
Indices: 59588650--59588689 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59588640 TTAAAAATTA
*
59588650 ATTTTTTTATATTTAATAT
1 ATTTTTTTATATTTAAAAT
59588669 ATTTTTTTA-ATTTCAAAAT
1 ATTTTTTTATATTT-AAAAT
59588688 AT
1 AT
59588690 ATGGTGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTTATATTTAAAAT
Found at i:59590370 original size:4 final size:4
Alignment explanation
Indices: 59590361--59590404 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
59590351 TAATAATAAT
*
59590361 AATA AATA AATA AATA AATA AATA AATA AATA AATA GATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
59590405 GAAGGGCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:59590550 original size:3 final size:3
Alignment explanation
Indices: 59590542--59590686 Score: 91
Period size: 3 Copynumber: 47.0 Consensus size: 3
59590532 TATATGAATA
* *
59590542 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AGTT AAGT AGGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T A--AT AAT
* * * * * * *
59590590 AAT AAT AGT ACATT AAC AAG ACA- AAT AAT -AT AAT AAC AGT GAT AGT
1 AAT AAT AAT A-A-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
59590636 ATT AA- AGAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59590681 AAT AAT
1 AAT AAT
59590687 CTAAACTTTG
Statistics
Matches: 112, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
2 5 0.04
3 96 0.86
4 8 0.07
5 2 0.02
6 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:59590957 original size:3 final size:3
Alignment explanation
Indices: 59590943--59590996 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
59590933 ATAATGACAG
* * *
59590943 TAA TAG TAA TAA TAA TAAA TAA TAAA TAA TAC TAG TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
59590989 TAA TAA TA
1 TAA TAA TA
59590997 GTAAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:59590972 original size:17 final size:16
Alignment explanation
Indices: 59590950--59590996 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
59590940 CAGTAATAGT
59590950 AATAATAATAAATAATA
1 AATAATAAT-AATAATA
* *
59590967 AATAATACTAGT-A-A
1 AATAATAATAATAATA
59590981 AATAATAATAATAATA
1 AATAATAATAATAATA
59590997 GTAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 3 0.12
17 8 0.33
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:59590981 original size:20 final size:20
Alignment explanation
Indices: 59590949--59591015 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
59590939 ACAGTAATAG
*
59590949 TAATAATAATAAATAATAAA
1 TAATAATAGTAAATAATAAA
*
59590969 TAATACTAGTAAAATAAT-AA
1 TAATAATAGT-AAATAATAAA
59590989 TAATAATAGTAAA-AA-AAA
1 TAATAATAGTAAATAATAAA
*
59591007 TAAAAATAG
1 TAATAATAG
59591016 CAATGAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.29
19 3 0.07
20 19 0.46
21 7 0.17
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (20 bp):
TAATAATAGTAAATAATAAA
Found at i:59594253 original size:27 final size:27
Alignment explanation
Indices: 59594221--59594272 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
59594211 TACTATGGAT
*
59594221 TAAAATTATATTTTAATCTAAAATTGA
1 TAAAATTATAATTTAATCTAAAATTGA
* **
59594248 TAAAATTTTAATTTCGTCTAAAATT
1 TAAAATTATAATTTAATCTAAAATT
59594273 ATTTGATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAAATTATAATTTAATCTAAAATTGA
Found at i:59595004 original size:19 final size:20
Alignment explanation
Indices: 59594961--59595006 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
59594951 TCATACTAAT
*
59594961 TTTTTTTTAATTTTTATGAA
1 TTTTTTATAATTTTTATGAA
*
59594981 -CTTTTATAATTTTT-TGAA
1 TTTTTTATAATTTTTATGAA
59594999 TTTTTTAT
1 TTTTTTAT
59595007 TTTGAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTTATAATTTTTATGAA
Found at i:59595011 original size:14 final size:15
Alignment explanation
Indices: 59594992--59595021 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
59594982 TTTTATAATT
59594992 TTTTGAAT-TTTTTA
1 TTTTGAATATTTTTA
59595006 TTTTGAATATTTTTA
1 TTTTGAATATTTTTA
59595021 T
1 T
59595022 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTGAATATTTTTA
Found at i:59595671 original size:29 final size:28
Alignment explanation
Indices: 59595600--59595682 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
59595590 CAACAACAAC
*
59595600 TAAAATTTT-AATTCTTTTATTAAAATAT
1 TAAAATTTTAAATT-ATTTATTAAAATAT
*
59595628 TAAAA--ATAACTATTATTTATTAAAATAAT
1 TAAAATTTTAA--ATTATTTATTAAAAT-AT
*
59595657 TAAAATTTTAAATTATTAATTAAAAT
1 TAAAATTTTAAATTATTTATTAAAAT
59595683 TTTATCTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 16 0.36
29 24 0.53
31 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAATTTTAAATTATTTATTAAAATAT
Found at i:59602628 original size:24 final size:24
Alignment explanation
Indices: 59602599--59602645 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
59602589 GTAAAAGCCG
59602599 ATAGAGTCGCACCTAAAAGGTAAT
1 ATAGAGTCGCACCTAAAAGGTAAT
59602623 ATAGAGTCGCACCTAAAAGGTAA
1 ATAGAGTCGCACCTAAAAGGTAA
59602646 GATAACCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (24 bp):
ATAGAGTCGCACCTAAAAGGTAAT
Found at i:59604598 original size:22 final size:22
Alignment explanation
Indices: 59604573--59604616 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59604563 TAGTCATATA
59604573 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
59604595 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
59604617 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:59604652 original size:13 final size:14
Alignment explanation
Indices: 59604636--59604677 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
59604626 TTTTAATTTT
59604636 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
59604649 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
59604664 ATTTTAAATAATAT
1 ATTTT-AATAATAT
59604678 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:59604662 original size:16 final size:16
Alignment explanation
Indices: 59604640--59604676 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
59604630 AATTTTATTT
59604640 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
59604657 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
59604672 TAATA
1 TAATA
59604677 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:59604729 original size:15 final size:15
Alignment explanation
Indices: 59604709--59604765 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59604699 ATTCAATATT
59604709 AATATTTTAATAATA
1 AATATTTTAATAATA
*
59604724 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
59604743 AATATATTAATAATA
1 AATATTTTAATAATA
*
59604758 AATGTTTT
1 AATATTTT
59604766 GTAGTACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:59604738 original size:19 final size:19
Alignment explanation
Indices: 59604711--59604747 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59604701 TCAATATTAA
*
59604711 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
59604730 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
59604748 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:59605239 original size:14 final size:14
Alignment explanation
Indices: 59605220--59605257 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
59605210 CTAAAAAAAT
*
59605220 AAATTATTTTTTAA
1 AAATTATTTTTCAA
*
59605234 AAATTATTTTTCGA
1 AAATTATTTTTCAA
59605248 AAATTATTTT
1 AAATTATTTT
59605258 GAATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:59620081 original size:38 final size:40
Alignment explanation
Indices: 59620031--59620201 Score: 195
Period size: 46 Copynumber: 4.0 Consensus size: 40
59620021 CTGATATGAA
59620031 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
59620070 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
**
59620113 AAATGTGTAAGGTCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
59620161 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
59620200 AT
1 AT
59620202 AGAAAATGAG
Statistics
Matches: 118, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
38 36 0.31
39 3 0.03
41 2 0.02
43 2 0.02
45 1 0.01
46 73 0.62
48 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:59620137 original size:46 final size:46
Alignment explanation
Indices: 59620070--59620240 Score: 254
Period size: 46 Copynumber: 3.7 Consensus size: 46
59620060 TGGCAACCTG
59620070 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
** *
59620116 TGTGTAAGGTCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
59620162 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
59620208 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
59620241 TCACGTCAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 112 0.99
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:59620546 original size:23 final size:25
Alignment explanation
Indices: 59620501--59620547 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
59620491 AATAAATATA
*
59620501 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
59620526 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
59620548 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:59622157 original size:23 final size:25
Alignment explanation
Indices: 59622112--59622158 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
59622102 AATAAATATA
*
59622112 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
59622137 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
59622159 ATGAATGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:59625271 original size:69 final size:69
Alignment explanation
Indices: 59625160--59625290 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
59625150 TCATACGCAG
* * *
59625160 TCAGTGTAGTTAGCAGATATATGGCGAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
1 TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
59625225 GCAT
66 GCAT
* *
59625229 TCAGTGCAGTTAGTAGATACATGGCAAATCCTGGTAAAGAACATTGGAAAGCAGTTCAGTGG
1 TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGG
59625291 ATTTTAATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (69 bp):
TCAGTGCAGTTAGCAGATACATGGCAAATCCCGGTAAAGAACATTGGAAAGCAGTTCAGTGGTAT
GCAT
Found at i:59634413 original size:26 final size:26
Alignment explanation
Indices: 59634377--59634454 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
59634367 GATTGTCACC
59634377 TTGTTTAACTGCCGATAGTTAACACA
1 TTGTTTAACTGCCGATAGTTAACACA
59634403 TTGTTTAACTGCCGATAGTTAACACA
1 TTGTTTAACTGCCGATAGTTAACACA
*
59634429 TTGTTTAACTGCCGATAGTCAACACA
1 TTGTTTAACTGCCGATAGTTAACACA
59634455 CAATCTCATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (26 bp):
TTGTTTAACTGCCGATAGTTAACACA
Found at i:59637600 original size:34 final size:34
Alignment explanation
Indices: 59637556--59637620 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
59637546 GCCGGCTTGT
59637556 CAAAACTATTAGCAATCGAGCTTATTCTTCGGTA
1 CAAAACTATTAGCAATCGAGCTTATTCTTCGGTA
*
59637590 CAAAATTATTAGCAATCGAGCTTATTCTTCG
1 CAAAACTATTAGCAATCGAGCTTATTCTTCG
59637621 TAAACTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (34 bp):
CAAAACTATTAGCAATCGAGCTTATTCTTCGGTA
Found at i:59640796 original size:32 final size:32
Alignment explanation
Indices: 59640758--59640818 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
59640748 ATTTATACAC
59640758 TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
1 TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
59640790 TTTAGTCCCTAAGTTCAAAACTAACAATT
1 TTTAGTCCCTAAGTTCAAAACTAACAATT
59640819 TTCACTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (32 bp):
TTTAGTCCCTAAGTTCAAAACTAACAATTCAT
Found at i:59643837 original size:42 final size:41
Alignment explanation
Indices: 59643791--59643924 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 41
59643781 CAGAAAAATC
** * *
59643791 GAAGCAATCATACTGACATGTAAGTGCATTATCGGATGTACT
1 GAAGCAAT-ATACTGACACATAAGTGCATCATCGGATATACT
*
59643833 GAAGCAAATATACTGACACATAAGTGCATCATTGGATATACT
1 GAAGC-AATATACTGACACATAAGTGCATCATCGGATATACT
** * * *
59643875 GAAGCAAATATGA-TGACACATAAGTGCGCCATTGGATATGCC
1 GAAGC-AATAT-ACTGACACATAAGTGCATCATCGGATATACT
59643917 GAAGCAAT
1 GAAGCAAT
59643925 TATATTGGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
41 3 0.04
42 74 0.91
43 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (41 bp):
GAAGCAATATACTGACACATAAGTGCATCATCGGATATACT
Found at i:59645253 original size:41 final size:41
Alignment explanation
Indices: 59645196--59645328 Score: 187
Period size: 41 Copynumber: 3.2 Consensus size: 41
59645186 AAGGGCTTTA
* *
59645196 TGCCTAGCAGGCTTTGTGTCGGTGTATAATATCAGGCCTAT
1 TGCCTAGCAAGCTTTGTGCCGGTGTATAATATCAGGCCTAT
*
59645237 TGCCTAGCAAGCTTTGTGCCGGTGTAAAATATCAGGCCTAT
1 TGCCTAGCAAGCTTTGTGCCGGTGTATAATATCAGGCCTAT
* * * *
59645278 TGCCTATC-AGCCTTTGTGCCGGTGAATTATATCAGGCTTAT
1 TGCCTAGCAAG-CTTTGTGCCGGTGTATAATATCAGGCCTAT
59645319 TGCCTAGCAA
1 TGCCTAGCAA
59645329 ATTTTATGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.02
41 78 0.96
42 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAAGCTTTGTGCCGGTGTATAATATCAGGCCTAT
Found at i:59646840 original size:42 final size:42
Alignment explanation
Indices: 59646770--59646911 Score: 151
Period size: 42 Copynumber: 3.4 Consensus size: 42
59646760 AGGTGTTACA
* * * * *
59646770 ATAAGTGCATTATCGAATAAA-CTGAAGCAAATATATTGGAAC
1 ATAAGTGCATCATCGGATAAATC-GAAGCAAATATACTAGCAC
* * * *
59646812 ATAAATGCATCATCGGATATATCGAAGCAATTATACTAGCAT
1 ATAAGTGCATCATCGGATAAATCGAAGCAAATATACTAGCAC
** * *
59646854 ATAAGTGCATCATAAGATAAATCAAAGTAAATATACTAGCAC
1 ATAAGTGCATCATCGGATAAATCGAAGCAAATATACTAGCAC
59646896 ATAAGTGCATCATCGG
1 ATAAGTGCATCATCGG
59646912 CTAATCAAAG
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 79 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (42 bp):
ATAAGTGCATCATCGGATAAATCGAAGCAAATATACTAGCAC
Found at i:59647979 original size:18 final size:18
Alignment explanation
Indices: 59647956--59648013 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
59647946 ATGACTTTTA
*
59647956 AATAATTTTTTATTAAAT
1 AATAATATTTTATTAAAT
*
59647974 AATAATATTTTAATAAAT
1 AATAATATTTTATTAAAT
*
59647992 AATAATATTTTATTAATT
1 AATAATATTTTATTAAAT
59648010 AATA
1 AATA
59648014 TTATAATAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATAATATTTTATTAAAT
Found at i:59648253 original size:114 final size:114
Alignment explanation
Indices: 59648053--59648281 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
59648043 ATCTTATTTC
59648053 TTTTTCACGTAAAACAAAGGGGGGAAAGAAAAAGAAAATTTCTTCTATCATTTTCCTTCAAATTC
1 TTTTTCACGTAAAACAAAGGGGGGAAAGAAAAAGAAAATTTCTTCTATCATTTTCCTTCAAATTC
59648118 AAGTGTAAGGTATGGTTTTTCTTCAAAAAAAATTTAGATTTTGAATCAT
66 AAGTGTAAGGTATGGTTTTTCTTCAAAAAAAATTTAGATTTTGAATCAT
59648167 TTTTTCACGTAAAACAAAGGGGGGAAAGAAAAAGAAAATTTCTTCTATCATTTTCCTTCAAATTC
1 TTTTTCACGTAAAACAAAGGGGGGAAAGAAAAAGAAAATTTCTTCTATCATTTTCCTTCAAATTC
*
59648232 AAGTGTAAGGTATGGTTTTTCTTCAAAAAAATTTTAGATTTTGAATCAT
66 AAGTGTAAGGTATGGTTTTTCTTCAAAAAAAATTTAGATTTTGAATCAT
59648281 T
1 T
59648282 GAAGCCTGCT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (114 bp):
TTTTTCACGTAAAACAAAGGGGGGAAAGAAAAAGAAAATTTCTTCTATCATTTTCCTTCAAATTC
AAGTGTAAGGTATGGTTTTTCTTCAAAAAAAATTTAGATTTTGAATCAT
Found at i:59650517 original size:23 final size:22
Alignment explanation
Indices: 59650469--59650521 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
59650459 TTAATTAAGC
* *
59650469 TTAATTAATCATAATTTATTAT
1 TTAATTAAACATAATTTATTAA
59650491 TTAATTAAACA-AATTTTGATTAA
1 TTAATTAAACATAA-TTT-ATTAA
59650514 TTAATTAA
1 TTAATTAA
59650522 CCTTAAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 13 0.48
23 12 0.44
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTAAACATAATTTATTAA
Found at i:59651612 original size:18 final size:18
Alignment explanation
Indices: 59651571--59651637 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
59651561 AAGTTTATAA
*
59651571 ATTTTAAATTTTTTTAAT
1 ATTTTTAATTTTTTTAAT
*
59651589 AATTTTAATGTTTTTT-AT
1 ATTTTTAAT-TTTTTTAAT
*
59651607 ATTTTT-ATTTTTACTAATT
1 ATTTTTAATTTTT-TTAA-T
59651626 ATCTTTTAATTT
1 AT-TTTTAATTT
59651638 CATAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 4 0.10
17 3 0.08
18 15 0.38
19 9 0.23
20 4 0.10
21 4 0.10
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
ATTTTTAATTTTTTTAAT
Found at i:59659950 original size:105 final size:105
Alignment explanation
Indices: 59659768--59659980 Score: 399
Period size: 105 Copynumber: 2.0 Consensus size: 105
59659758 GGTGAATATA
59659768 GCCGAAGAGGTTAAGCACGTGGAGTGCCAAAATAGGGATCATGATAGAGGCAAGAATAAGAGGGA
1 GCCGAAGAGGTTAAGCACGTGGAGTGCCAAAATAGGGATCATGATAGAGGCAAGAATAAGAGGGA
*
59659833 TTCAGAGCCATCTAGTTCTGTTTAGAGGCTTAAAAAATAG
66 TTCAGAGCCATCTAGTTCTATTTAGAGGCTTAAAAAATAG
*
59659873 GCCGAAGAGGTTAAGCAGGTGGAGTGCCAAAATAGGGATCATGATAGAGGCAAGAATAAGAGGGA
1 GCCGAAGAGGTTAAGCACGTGGAGTGCCAAAATAGGGATCATGATAGAGGCAAGAATAAGAGGGA
*
59659938 TTTAGAGCCATCTAGTTCTATTTAGAGGCTTAAAAAATAG
66 TTCAGAGCCATCTAGTTCTATTTAGAGGCTTAAAAAATAG
59659978 GCC
1 GCC
59659981 AGACCTGATA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (105 bp):
GCCGAAGAGGTTAAGCACGTGGAGTGCCAAAATAGGGATCATGATAGAGGCAAGAATAAGAGGGA
TTCAGAGCCATCTAGTTCTATTTAGAGGCTTAAAAAATAG
Found at i:59666573 original size:13 final size:13
Alignment explanation
Indices: 59666552--59666583 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59666542 AATTTGATAT
*
59666552 TGAGAATCAATAA
1 TGAGGATCAATAA
59666565 TGAGGATCAATAA
1 TGAGGATCAATAA
59666578 TGAGGA
1 TGAGGA
59666584 GACAATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (13 bp):
TGAGGATCAATAA
Found at i:59669766 original size:38 final size:38
Alignment explanation
Indices: 59669723--59669918 Score: 275
Period size: 38 Copynumber: 5.2 Consensus size: 38
59669713 AACACACTAG
*
59669723 ACAGAAGCTCATAAGAGCTTATCCAACCGAAACACCAA
1 ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
****
59669761 ACAGAAGCTCATAAGAGCTAATCCAACCGATTTTCCAA
1 ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
* *
59669799 ATAGAAGCTCATAAGAGCTAATCCAACCAAAACACCAA
1 ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
* * *
59669837 ACAGAAGCTCATAAGAGCTGATCCAACCGAATCGCCAA
1 ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
* * *
59669875 ACAAAAGCTCATAAGAGCTGATCCAACCGAAACGCCAA
1 ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
59669913 ACAGAA
1 ACAGAA
59669919 AGTATAACAC
Statistics
Matches: 139, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 139 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (38 bp):
ACAGAAGCTCATAAGAGCTAATCCAACCGAAACACCAA
Found at i:59670897 original size:24 final size:23
Alignment explanation
Indices: 59670853--59670897 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
59670843 TTATTTTATT
* **
59670853 TTACTAATTATCTCTTTATTAAA
1 TTACTAATTACCTCTCAATTAAA
59670876 TTACTAATTTACCTCTCAATTA
1 TTACTAA-TTACCTCTCAATTA
59670898 TACATGCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (23 bp):
TTACTAATTACCTCTCAATTAAA
Found at i:59680026 original size:19 final size:19
Alignment explanation
Indices: 59679983--59680022 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
59679973 TACAAAAATG
*
59679983 AAATTCAAAATAATTTCTA
1 AAATTCAAAATAATTTATA
59680002 AAATTCAAAAT-ATTTATA
1 AAATTCAAAATAATTTATA
59680020 AAA
1 AAA
59680023 ATTCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTCAAAATAATTTATA
Found at i:59684180 original size:51 final size:50
Alignment explanation
Indices: 59684021--59684177 Score: 242
Period size: 51 Copynumber: 3.1 Consensus size: 50
59684011 ACTTCTGATC
* *
59684021 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
59684072 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
59684122 AGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
59684173 AGTGA
1 AGTGA
59684178 TAAATGTGAT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 45 0.46
51 52 0.54
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:59686956 original size:22 final size:22
Alignment explanation
Indices: 59686922--59686972 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
59686912 TTGATACAAG
*
59686922 ATTTTAATATTTTAAATTAATT
1 ATTTTTATATTTTAAATTAATT
**
59686944 -TTTTTATATTTTTATCTTAATT
1 ATTTTTATA-TTTTAAATTAATT
59686966 ATTTTTA
1 ATTTTTA
59686973 CTTTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 11 0.46
23 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTATATTTTAAATTAATT
Found at i:59686986 original size:22 final size:22
Alignment explanation
Indices: 59686938--59686979 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59686928 ATATTTTAAA
* *
59686938 TTAATTTTTTTATATTTTTATC
1 TTAATTATTTTATACTTTTATC
59686960 TTAATTATTTT-TACTTTTAT
1 TTAATTATTTTATACTTTTAT
59686980 TTATAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTAATTATTTTATACTTTTATC
Found at i:59687437 original size:30 final size:30
Alignment explanation
Indices: 59687380--59687437 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
59687370 AACAGAAAAG
* * *
59687380 AACAAAAGAAAATTATTGCTTATAAATGTC
1 AACAAAAGAAAATAATGGCTTAAAAATGTC
59687410 AACAAAAGAAAATCAATGGC-TAAAAATG
1 AACAAAAGAAAAT-AATGGCTTAAAAATG
59687438 GAGTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (30 bp):
AACAAAAGAAAATAATGGCTTAAAAATGTC
Found at i:59694356 original size:2 final size:2
Alignment explanation
Indices: 59694349--59694381 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59694339 ACATAGCAAG
59694349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59694382 GCCCTACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59695451 original size:25 final size:23
Alignment explanation
Indices: 59695414--59695459 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
59695404 TGATTAGGTC
59695414 AATGCAGTATTTTTCAGAAAAACAT
1 AATGCAGTATTTTT-A-AAAAACAT
59695439 AATGCAG-ATTTTTTAAAAAAC
1 AATGCAGTA-TTTTTAAAAAAC
59695460 TTCCTACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 2 0.10
25 12 0.60
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
AATGCAGTATTTTTAAAAAACAT
Found at i:59697502 original size:23 final size:22
Alignment explanation
Indices: 59697467--59697520 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
59697457 CGGGCCCGAA
*
59697467 TACAAATAACCCAAAACCCAGT
1 TACAAATAACCCAAAACCCAAT
* **
59697489 TACAACTAGACCCACTACCCAAT
1 TACAAATA-ACCCAAAACCCAAT
59697512 TAC-AATAAC
1 TACAAATAAC
59697521 TAAACCTACC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 10 0.38
23 14 0.54
ACGTcount: A:0.46, C:0.33, G:0.04, T:0.17
Consensus pattern (22 bp):
TACAAATAACCCAAAACCCAAT
Found at i:59698481 original size:12 final size:13
Alignment explanation
Indices: 59698443--59698569 Score: 92
Period size: 12 Copynumber: 10.2 Consensus size: 13
59698433 CATTTTTTAA
59698443 TATTATTTATTAT
1 TATTATTTATTAT
* **
59698456 T-GTATTTACCAT
1 TATTATTTATTAT
*
59698468 TATT-TATATTAT
1 TATTATTTATTAT
59698480 TATTA-TTATTAT
1 TATTATTTATTAT
59698492 TATTA-TTATTAT
1 TATTATTTATTAT
59698504 TATTA-TTATTAT
1 TATTATTTATTAT
*
59698516 TATTA-TTAGTA-
1 TATTATTTATTAT
59698527 TATGT-TTTATTAT
1 TAT-TATTTATTAT
*
59698540 TATGTATATATTTAT
1 TAT-TATTTA-TTAT
*
59698555 GTAGTA-TTATTAT
1 -TATTATTTATTAT
59698568 TA
1 TA
59698570 GTCGTTTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
11 3 0.03
12 66 0.71
13 11 0.12
14 5 0.05
15 6 0.06
16 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:59698482 original size:3 final size:3
Alignment explanation
Indices: 59698474--59698569 Score: 113
Period size: 3 Copynumber: 30.7 Consensus size: 3
59698464 CCATTATTTA
59698474 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
59698522 TAG TA- TAT GTTT TAT TAT TAT GTAT ATATT TAT GTAG TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT -TAT -TA-T TAT -TAT TAT TAT TAT
59698568 TA
1 TA
59698570 GTCGTTTTTA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.02
3 68 0.83
4 11 0.13
5 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:59698484 original size:15 final size:15
Alignment explanation
Indices: 59698442--59698569 Score: 78
Period size: 15 Copynumber: 8.8 Consensus size: 15
59698432 CCATTTTTTA
59698442 ATATTATTTATTATTGT
1 ATATTA-TTATTATT-T
**
59698459 AT-TTACCATTATTT
1 ATATTATTATTATTT
59698473 ATATTATTATTA-TT
1 ATATTATTATTATTT
59698487 ATTATTATTATTA-TT
1 A-TATTATTATTATTT
59698502 ATTATTATTATTA-TT
1 A-TATTATTATTATTT
* *
59698517 ATTATTAGTA-TATGT
1 A-TATTATTATTATTT
*
59698532 -T-TTATTATTATGT
1 ATATTATTATTATTT
*
59698545 ATA-TA-T-TTATGT
1 ATATTATTATTATTT
59698557 AGTATTATTATTA
1 A-TATTATTATTA
59698570 GTCGTTTTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
12 12 0.13
13 9 0.10
14 13 0.14
15 52 0.55
16 6 0.06
17 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (15 bp):
ATATTATTATTATTT
Found at i:59698716 original size:22 final size:22
Alignment explanation
Indices: 59698679--59698726 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
59698669 ATTAATTTAT
59698679 TATTATTATATATTATTACGTATA
1 TATTATTATATATTATTA-GT-TA
59698703 TATT-TTA-ATATTATTAGTTA
1 TATTATTATATATTATTAGTTA
59698723 TATT
1 TATT
59698727 CTTTTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 2 0.08
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATTATTATATATTATTAGTTA
Found at i:59698876 original size:22 final size:22
Alignment explanation
Indices: 59698851--59698917 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
59698841 TCATTTCTAA
59698851 TATATATATATTGTATATGTTT
1 TATATATATATTGTATATGTTT
*
59698873 TATATATAT-TATGTATATATTT
1 TATATATATAT-TGTATATGTTT
59698895 T-TA-ATATTATTAGTTATATGTTT
1 TATATATA-TATT-G-TATATGTTT
59698918 CTTATACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 5 0.13
22 22 0.58
23 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TATATATATATTGTATATGTTT
Found at i:59698988 original size:26 final size:24
Alignment explanation
Indices: 59698937--59699015 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 24
59698927 TTCCAGGTAC
* * * *
59698937 ATAT-TTTTTATATCATCTTATGT
1 ATATATTTTAATACCATATTATAT
* *
59698960 ATATATTCTTAAATACTATGTTATAT
1 ATATATT-TT-AATACCATATTATAT
59698986 ATAT-TTTTAATACCATATATATAT
1 ATATATTTTAATACCATAT-TATAT
59699010 ATATAT
1 ATATAT
59699016 ATTATTATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
23 12 0.27
24 13 0.30
25 5 0.11
26 14 0.32
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (24 bp):
ATATATTTTAATACCATATTATAT
Found at i:59698995 original size:24 final size:24
Alignment explanation
Indices: 59698959--59699013 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
59698949 TCATCTTATG
* *
59698959 TATATATTCTTAAATACTATGT-TA
1 TATATATTCTT-AATACCATATATA
*
59698983 TATATATTTTTAATACCATATATA
1 TATATATTCTTAATACCATATATA
59699007 TATATAT
1 TATATAT
59699014 ATATTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATATTCTTAATACCATATATA
Found at i:59702954 original size:22 final size:22
Alignment explanation
Indices: 59702927--59702971 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
59702917 ATTTATGACT
59702927 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
59702949 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
59702971 A
1 A
59702972 TTCATCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:59710473 original size:44 final size:44
Alignment explanation
Indices: 59710418--59710573 Score: 208
Period size: 44 Copynumber: 3.5 Consensus size: 44
59710408 ATGCCTAAAA
*
59710418 AAAAAGAGATCAAGGTGAAAACCCAAAAAAGGTGTCTTGATGAAC
1 AAAAA-AGATCAAGGTGAAAACCCAAAAAAGGCGTCTTGATGAAC
*
59710463 AAAAAAGATCAAGGTGAAAACCC-GAAAAGGACGTCTTGATGAAC
1 AAAAAAGATCAAGGTGAAAACCCAAAAAAGG-CGTCTTGATGAAC
* * *
59710507 AAAAAAGATCAATGTGAAAACCCAAAAAGGGCGTCTTGATTAAC
1 AAAAAAGATCAAGGTGAAAACCCAAAAAAGGCGTCTTGATGAAC
* *
59710551 ACAAAAGAT-TAGGATGAAAACCC
1 AAAAAAGATCAAGG-TGAAAACCC
59710574 GAAAGGGCGT
Statistics
Matches: 99, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
43 8 0.08
44 81 0.82
45 10 0.10
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (44 bp):
AAAAAAGATCAAGGTGAAAACCCAAAAAAGGCGTCTTGATGAAC
Found at i:59711452 original size:75 final size:75
Alignment explanation
Indices: 59711351--59711550 Score: 257
Period size: 75 Copynumber: 2.7 Consensus size: 75
59711341 TGATGTTCTT
* *
59711351 ATTTCTGT-TTTC--AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGTCTCAAGACAAGTTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAGACAAGCTGA
59711413 GGT-ATTTTCA
66 GGTAATTTT-A
* * * *
59711423 ATTTCTGTCTTTCAAAAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAGACAAGCTGA
59711488 GGTAATTTTA
66 GGTAATTTTA
* * * *
59711498 ATTTTTGTTCATT-AAAAACATCAACTCATATTGTGAGATGTGAGTTGAGCCTC
1 ATTTCTG-TCTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTC
59711551 GGGTTACACG
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
72 8 0.07
73 4 0.04
75 91 0.81
76 9 0.08
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (75 bp):
ATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAGACAAGCTGA
GGTAATTTTA
Found at i:59711628 original size:64 final size:64
Alignment explanation
Indices: 59711517--59711646 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
59711507 CATTAAAAAC
* * * * * * *
59711517 ATCAACTCATATTGTGAGATGTGAGTTGAGCCTCGGGTTACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGTCACACGCTGAGGTATTTTCAATTTCT
* *
59711581 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGTCAGATGCTGAGGTATTTTCAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGTCACACGCTGAGGTATTTTCAATTTCT
59711645 AT
1 AT
59711647 TTTTTTAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (64 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGTCACACGCTGAGGTATTTTCAATTTCT
Found at i:59711768 original size:15 final size:16
Alignment explanation
Indices: 59711736--59711769 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59711726 TCAAATTCTA
59711736 TTTTTAATTTCTGTTT
1 TTTTTAATTTCTGTTT
59711752 TTTTTAATTTCTGTTT
1 TTTTTAATTTCTGTTT
59711768 TT
1 TT
59711770 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTCTGTTT
Found at i:59712036 original size:55 final size:56
Alignment explanation
Indices: 59711923--59712070 Score: 237
Period size: 56 Copynumber: 2.7 Consensus size: 56
59711913 TCTATTCGCC
*
59711923 AAAAATCGACTCATATTGTGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
1 AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
59711979 AAAAATCGACTCATATTGCGAGAAGT-AGGTTGAGCCTTTTAGTCTCT-ATTTTTCA
1 AAAAATCGACTCATATTGCGAGAAGTGA-GTTGAGCCTTTTAGTCTCTGATTTTTCA
* * *
59712034 AAAACTCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCT
59712071 CAGGTCACAA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
55 41 0.48
56 45 0.52
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (56 bp):
AAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAGTCTCTGATTTTTCA
Found at i:59712291 original size:19 final size:19
Alignment explanation
Indices: 59712267--59712309 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
59712257 TTGAAATTAC
59712267 AAGTTGTAGCGGAACCCTG
1 AAGTTGTAGCGGAACCCTG
59712286 AAGTTGTAGCGGAACCCTG
1 AAGTTGTAGCGGAACCCTG
59712305 AAGTT
1 AAGTT
59712310 TTAGTGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (19 bp):
AAGTTGTAGCGGAACCCTG
Found at i:59713776 original size:3 final size:3
Alignment explanation
Indices: 59713770--59713869 Score: 55
Period size: 3 Copynumber: 32.7 Consensus size: 3
59713760 CATTTTTTAA
* *
59713770 TAT TATT TAT TAT T-T TATT TAC CAT TAT T-T ATAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * ** *
59713816 TAT TAT TAG TA- TAT GTTT TAT TAT TAT GTA- TAT GCT TAT GTAG TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT
59713862 TAT TAT TA
1 TAT TAT TA
59713870 GTCGTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
2 7 0.09
3 54 0.73
4 13 0.18
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:59714015 original size:22 final size:24
Alignment explanation
Indices: 59713978--59714026 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
59713968 TATTAATTTT
59713978 TATTATTATATATTATTACG-TATA
1 TATTATTATATATTATTA-GTTATA
59714002 TATT-TTA-ATATTATTAGTTATA
1 TATTATTATATATTATTAGTTATA
59714024 TAT
1 TAT
59714027 CTTTTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 3 0.12
24 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATTATATATTATTAGTTATA
Found at i:59714179 original size:22 final size:22
Alignment explanation
Indices: 59714154--59714219 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
59714144 ATCATTTCTA
59714154 ATATATATATTGTATATGTTTT
1 ATATATATATTGTATATGTTTT
*
59714176 ATATATAT-TATGTATATATTTT
1 ATATATATAT-TGTATATGTTTT
59714198 -TA-ATATTATTAGTTATATGTTT
1 ATATATA-TATT-G-TATATGTTT
59714220 CTTATACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 21 0.57
23 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (22 bp):
ATATATATATTGTATATGTTTT
Found at i:59714267 original size:25 final size:25
Alignment explanation
Indices: 59714166--59714318 Score: 77
Period size: 25 Copynumber: 6.2 Consensus size: 25
59714156 ATATATATTG
* *
59714166 TATATGTTTTATAT-ATATTATGTA
1 TATATTTTTTATATCATATTATATA
*
59714190 TATATTTTTAATAT--TATTAGT-TA
1 TATATTTTTTATATCATATTA-TATA
* * **
59714213 TATGTTTCTTATA-C-TATTCCAGGTA
1 TATATTTTTTATATCATATT--ATATA
* * *
59714238 CATATTTTTTATATCATCTTATGTA
1 TATATTTTTTATATCATATTATATA
* * *
59714263 TATA-TTCTTAAATACTATGTTATATA
1 TATATTTTTTATAT-C-ATATTATATA
* *
59714289 TATATTTTTAATACCATATTATATA
1 TATATTTTTTATATCATATTATATA
59714314 TATAT
1 TATAT
59714319 ATTATTATTA
Statistics
Matches: 98, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
23 21 0.21
24 20 0.20
25 35 0.36
26 14 0.14
27 8 0.08
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATTTTTTATATCATATTATATA
Found at i:59714335 original size:25 final size:27
Alignment explanation
Indices: 59714261--59714325 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
59714251 TCATCTTATG
* * *
59714261 TATATATTCTTAAATACTATGTTATATA
1 TATATATTATT-AATACCATATTATATA
59714289 TATAT-TT-TTAATACCATATTATATA
1 TATATATTATTAATACCATATTATATA
59714314 TATATATTATTA
1 TATATATTATTA
59714326 TTACATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 19 0.58
26 4 0.12
27 5 0.15
28 5 0.15
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATATTATTAATACCATATTATATA
Found at i:59714373 original size:42 final size:42
Alignment explanation
Indices: 59714288--59714380 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
59714278 TATGTTATAT
* *
59714288 ATATATTTTTAATACCATATTATATATATATATTATTATTAC
1 ATATATTTTTAATACCATATTATATATATATAATATTAGTAC
* *
59714330 ATTTATTTTT-ATACC-TATTATATTTATTATTAATATTAGTAC
1 ATATATTTTTAATACCATATTATATATA-TA-TAATATTAGTAC
59714372 ATATATTTT
1 ATATATTTT
59714381 ATTATACGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 10 0.23
41 7 0.16
42 27 0.61
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (42 bp):
ATATATTTTTAATACCATATTATATATATATAATATTAGTAC
Done.