Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 212 of 240
Found at i:64101150 original size:40 final size:41
Alignment explanation
Indices: 64101014--64101162 Score: 201
Period size: 41 Copynumber: 3.7 Consensus size: 41
64101004 TTTCTGGGCG
* * *
64101014 TTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGTCT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGTAT
*
64101055 TTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCGGGTAT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGTAT
* * ** *
64101096 TTAGCGGCGTTTTTTTAGAAGCACCGCTAATGCTC-TATTT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGTAT
*
64101136 TTAGCGGCGTTTTTTAAAAAGCGCCGC
1 TTAGCGGCGTTTTTTAAGAAGCGCCGC
64101163 AAAAAATATT
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 26 0.27
41 70 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGTAT
Found at i:64101202 original size:33 final size:34
Alignment explanation
Indices: 64101165--64101230 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
64101155 AGCGCCGCAA
64101165 AAAAT-ATTTTTAAGTTTTTTGGGTACATTATTT
1 AAAATAATTTTTAAGTTTTTTGGGTACATTATTT
64101198 AAAATAATTTTTAAGTTTTTTGGGTACATTATT
1 AAAATAATTTTTAAGTTTTTTGGGTACATTATT
64101231 GAGAGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 5 0.16
34 27 0.84
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (34 bp):
AAAATAATTTTTAAGTTTTTTGGGTACATTATTT
Found at i:64101919 original size:14 final size:14
Alignment explanation
Indices: 64101902--64101950 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
64101892 TATGGTTTAC
64101902 GGTTTAAGGGTTGG
1 GGTTTAAGGGTTGG
* *
64101916 GGTTTAAGGTTTAG
1 GGTTTAAGGGTTGG
* *
64101930 GATTTAGGGGTTAGG
1 GGTTTAAGGGTT-GG
64101945 GGTTTA
1 GGTTTA
64101951 GAGTTAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (14 bp):
GGTTTAAGGGTTGG
Found at i:64101920 original size:28 final size:29
Alignment explanation
Indices: 64101889--64101950 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
64101879 AGGGATTATT
*
64101889 GTTTATGGTTTACGG-TTTAAGGGTT-GGG
1 GTTTAAGGTTTA-GGATTTAAGGGTTAGGG
*
64101917 GTTTAAGGTTTAGGATTTAGGGGTTAGGG
1 GTTTAAGGTTTAGGATTTAAGGGTTAGGG
64101946 GTTTA
1 GTTTA
64101951 GAGTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 20 0.67
29 8 0.27
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.42
Consensus pattern (29 bp):
GTTTAAGGTTTAGGATTTAAGGGTTAGGG
Found at i:64102249 original size:14 final size:14
Alignment explanation
Indices: 64102239--64102272 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
64102229 GATTTAAGGT
64102239 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
*
64102253 TTAGGGGTTAGGAG
1 TTAGGGGTTAAGAG
64102267 TTAGGG
1 TTAGGG
64102273 ATCTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.47, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:64103030 original size:21 final size:21
Alignment explanation
Indices: 64103006--64103048 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
64102996 CCCATTTTAT
64103006 CCCC-AAATTTCCCCCGTAAAA
1 CCCCTAAATTTCCCCC-TAAAA
*
64103027 CCCCTAATTTTCCCCCTAAAA
1 CCCCTAAATTTCCCCCTAAAA
64103048 C
1 C
64103049 TCTTAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.44, G:0.02, T:0.23
Consensus pattern (21 bp):
CCCCTAAATTTCCCCCTAAAA
Found at i:64105729 original size:22 final size:22
Alignment explanation
Indices: 64105701--64105744 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
64105691 TCTAAAAAGC
*
64105701 GCCGCTAAAGGTCTTGGTCTTT
1 GCCGCTAAAGGTCTTGATCTTT
64105723 GCCGCTAAAGGTCTTGATCTTT
1 GCCGCTAAAGGTCTTGATCTTT
64105745 AGCGGCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (22 bp):
GCCGCTAAAGGTCTTGATCTTT
Found at i:64105783 original size:42 final size:43
Alignment explanation
Indices: 64105723--64105835 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 43
64105713 CTTGGTCTTT
*
64105723 GCCGCTAAAGGTCTTGATCTTTAGCGGCATTTGT-GGTAAAGC
1 GCCGCTAAAGGTCTTGATCTTTAGCGGCATTTGTGGGGAAAGC
* *
64105765 GCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGGAAAGC
1 GCCGCTAAAGGTCTTGATCTTTAGCGGCATTTGTGGGGAAAGC
* *
64105808 GCTGCTAAAGGTCTTGGTCTTTAGCGGC
1 GCCGCTAAAGGTCTTGATCTTTAGCGGC
64105836 GTTTTTGGCG
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 32 0.50
43 32 0.50
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
GCCGCTAAAGGTCTTGATCTTTAGCGGCATTTGTGGGGAAAGC
Found at i:64105829 original size:43 final size:42
Alignment explanation
Indices: 64105723--64105839 Score: 180
Period size: 43 Copynumber: 2.8 Consensus size: 42
64105713 CTTGGTCTTT
* *
64105723 GCCGCTAAAGGTCTTGATCTTTAGCGGCATTTGTGGTAAAGC
1 GCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGGGAAAGC
*
64105765 GCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGGAAAGC
1 GCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGT-GGGAAAGC
* *
64105808 GCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 GCCGCTAAAGGTCTTGATCTTTAGCGGCGTTT
64105840 TTGGCGGCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.31
Consensus pattern (42 bp):
GCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGGGAAAGC
Found at i:64112980 original size:17 final size:17
Alignment explanation
Indices: 64112944--64112981 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
64112934 TTTAAATTCT
64112944 TTTTAATATTTTTTAGA
1 TTTTAATATTTTTTAGA
64112961 TTTTATATATTTTTTA-A
1 TTTTA-ATATTTTTTAGA
64112978 TTTT
1 TTTT
64112982 TAAATAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAATATTTTTTAGA
Found at i:64112982 original size:18 final size:18
Alignment explanation
Indices: 64112943--64112984 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
64112933 GTTTAAATTC
64112943 TTTTTAATATTTTTTAGA
1 TTTTTAATATTTTTTAGA
64112961 -TTTTATATATTTTTTA-A
1 TTTTTA-ATATTTTTTAGA
64112978 TTTTTAA
1 TTTTTAA
64112985 ATAATGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTAATATTTTTTAGA
Found at i:64114999 original size:20 final size:20
Alignment explanation
Indices: 64114974--64115013 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64114964 AAATGGACAC
*
64114974 CAACAACCATCCACTACCAA
1 CAACAACAATCCACTACCAA
64114994 CAACAACAATCCACTACCAA
1 CAACAACAATCCACTACCAA
64115014 TTTTAAGCCA
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:0.47, C:0.42, G:0.00, T:0.10
Consensus pattern (20 bp):
CAACAACAATCCACTACCAA
Found at i:64119613 original size:20 final size:20
Alignment explanation
Indices: 64119588--64119627 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64119578 AAATGGACAC
*
64119588 CAACAACCATCCACTACCAA
1 CAACAACAATCCACTACCAA
64119608 CAACAACAATCCACTACCAA
1 CAACAACAATCCACTACCAA
64119628 TTTTAAGCCA
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:0.47, C:0.42, G:0.00, T:0.10
Consensus pattern (20 bp):
CAACAACAATCCACTACCAA
Found at i:64128130 original size:20 final size:20
Alignment explanation
Indices: 64128093--64128130 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64128083 AAAAAAAATG
*
64128093 TTTATAATATTATAGTTTCT
1 TTTATAATATAATAGTTTCT
64128113 TTTACTAATATAAT-GTTT
1 TTTA-TAATATAATAGTTT
64128131 TTATGCAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATATAATAGTTTCT
Found at i:64138222 original size:21 final size:21
Alignment explanation
Indices: 64138198--64138271 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
64138188 CATTATTTCT
*
64138198 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTATCC
64138219 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTATCC
* * * *
64138240 AATCTCACCACTAGAGTAACT
1 AATCTCACCGCTACAGTATCC
64138261 AATCTCACCGC
1 AATCTCACCGC
64138272 CACTATTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.31, C:0.35, G:0.09, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTATCC
Found at i:64139961 original size:7 final size:7
Alignment explanation
Indices: 64139949--64139973 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64139939 CGCCCTTCTT
64139949 TGCTCTC
1 TGCTCTC
64139956 TGCTCTC
1 TGCTCTC
64139963 TGCTCTC
1 TGCTCTC
64139970 TGCT
1 TGCT
64139974 GATTCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.40, G:0.16, T:0.44
Consensus pattern (7 bp):
TGCTCTC
Found at i:64141775 original size:16 final size:16
Alignment explanation
Indices: 64141754--64141807 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
64141744 TCAGGTTTGT
64141754 TCCCGAGCAGCTTAAG
1 TCCCGAGCAGCTTAAG
*
64141770 TCCC--G-AGCTTATCTG
1 TCCCGAGCAGCTTA--AG
64141785 TTCCCGAGCAGCTTAAG
1 -TCCCGAGCAGCTTAAG
64141802 TCCCGA
1 TCCCGA
64141808 AATTCTCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 6 0.20
14 1 0.03
15 1 0.03
16 14 0.47
17 1 0.03
18 1 0.03
19 6 0.20
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (16 bp):
TCCCGAGCAGCTTAAG
Found at i:64143262 original size:17 final size:17
Alignment explanation
Indices: 64143217--64143277 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
64143207 CAATATCTAA
* *
64143217 TTAAAAATATTTAATTT
1 TTAAATATATTAAATTT
64143234 TT--ATAT-TTAAATTT
1 TTAAATATATTAAATTT
64143248 TTAAATATATTAAATTT
1 TTAAATATATTAAATTT
64143265 TATAAATA-ATTAA
1 T-TAAATATATTAA
64143278 TATTAATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 9 0.24
15 3 0.08
16 4 0.11
17 16 0.42
18 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATATATTAAATTT
Found at i:64145834 original size:58 final size:58
Alignment explanation
Indices: 64145763--64145882 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
64145753 TGGAGGGGGG
* * * *
64145763 AAAAGTCATTATGCCT-AATATTTATATAGTTTTTGTAAGATCATGAAAGTATAAGGTT
1 AAAAGTCAATATG-CTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
*
64145821 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAGGGTT
1 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
64145879 AAAA
1 AAAA
64145883 ATTTCTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 2 0.04
58 54 0.96
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (58 bp):
AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
Found at i:64149356 original size:21 final size:21
Alignment explanation
Indices: 64149332--64149371 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64149322 ATATTTATGG
*
64149332 TAATATGATTTATTTTTATAA
1 TAATATGATATATTTTTATAA
* *
64149353 TAATTTTATATATTTTTAT
1 TAATATGATATATTTTTAT
64149372 TTTCTTACCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TAATATGATATATTTTTATAA
Found at i:64160166 original size:59 final size:59
Alignment explanation
Indices: 64160074--64160192 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
64160064 TTAATTATTT
64160074 ATAATCTTAATTCAACCTCCAAGTAGAAATGTAATTCAATCCAAATTCAATTAAACTAA
1 ATAATCTTAATTCAACCTCCAAGTAGAAATGTAATTCAATCCAAATTCAATTAAACTAA
64160133 ATAATCTTAATTCAACCTCCAAGTAGAAATGTAATTCAATCCAAATTCAATTAAACTAA
1 ATAATCTTAATTCAACCTCCAAGTAGAAATGTAATTCAATCCAAATTCAATTAAACTAA
64160192 A
1 A
64160193 AAAAATTAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.30
Consensus pattern (59 bp):
ATAATCTTAATTCAACCTCCAAGTAGAAATGTAATTCAATCCAAATTCAATTAAACTAA
Found at i:64165313 original size:21 final size:21
Alignment explanation
Indices: 64165265--64165314 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
64165255 ATAGAAGTTT
*
64165265 TAAAAAATTATAATTAAATTA
1 TAAAAAATTATAATGAAATTA
*
64165286 TATAAAATTAGTAATGAAATTA
1 TAAAAAATTA-TAATGAAATTA
*
64165308 AAAAAAA
1 TAAAAAA
64165315 ATATTTTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAAAAATTATAATGAAATTA
Found at i:64167484 original size:15 final size:15
Alignment explanation
Indices: 64167411--64167487 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
64167401 TTATTGAAAT
*
64167411 TATTTAAATAAAAAAA
1 TATTTAAAT-TAAAAA
*
64167427 TATTTAAATTAGAAA
1 TATTTAAATTAAAAA
* *
64167442 T-TATAAAAT-AAAA
1 TATTTAAATTAAAAA
*
64167455 TATTTCTAAACTAAAAA
1 TA-TT-TAAATTAAAAA
64167472 TATTTAAATTAAAAA
1 TATTTAAATTAAAAA
64167487 T
1 T
64167488 TATAAAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 17 0.35
16 16 0.33
17 6 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (15 bp):
TATTTAAATTAAAAA
Found at i:64167663 original size:8 final size:8
Alignment explanation
Indices: 64167650--64167707 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
64167640 AGACCCCAGC
64167650 TCTTTTTT
1 TCTTTTTT
64167658 TCTTTTTTT
1 TC-TTTTTT
*
64167667 TCTTCTTT
1 TCTTTTTT
*
64167675 TCTTTTTC
1 TCTTTTTT
64167683 TCTTTCTTT
1 TCTTT-TTT
*
64167692 TTTTCTCTTT
1 TCTT-T-TTT
64167702 TCTTTT
1 TCTTTT
64167708 CTGCTCGGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 19 0.46
9 14 0.34
10 8 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TCTTTTTT
Found at i:64167672 original size:12 final size:12
Alignment explanation
Indices: 64167652--64167709 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
64167642 ACCCCAGCTC
64167652 TTTTTTTCT-TT
1 TTTTTTTCTCTT
64167663 TTTTTCTTCT-TT
1 TTTTT-TTCTCTT
*
64167675 TCTTTTTCTCTTT
1 TTTTTTTCTC-TT
64167688 CTTTTTTTCTCTT
1 -TTTTTTTCTCTT
*
64167701 TTCTTTTCT
1 TTTTTTTCT
64167710 GCTCGGGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.22
12 18 0.45
13 4 0.10
14 9 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:64167675 original size:20 final size:20
Alignment explanation
Indices: 64167650--64167709 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
64167640 AGACCCCAGC
64167650 TCTTTTTTTCTTTTTTTTCT
1 TCTTTTTTTCTTTTTTTTCT
* *
64167670 TCTTTTCTTT-TTCTCTTTCT
1 TCTTTT-TTTCTTTTTTTTCT
*
64167690 T-TTTTTCTCTTTTCTTTTCT
1 TCTTTTTTTCTTTT-TTTTCT
64167710 GCTCGGGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 7 0.22
20 20 0.62
21 3 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTCTTTTTTTTCT
Found at i:64167686 original size:25 final size:27
Alignment explanation
Indices: 64167650--64167707 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
64167640 AGACCCCAGC
*
64167650 TCTTTTTTTCTTT-TTTTTCT-TCTTT
1 TCTTTTTCTCTTTCTTTTTCTCTCTTT
*
64167675 TCTTTTTCTCTTTCTTTTTTTCTCTTT
1 TCTTTTTCTCTTTCTTTTTCTCTCTTT
64167702 TCTTTT
1 TCTTTT
64167708 CTGCTCGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 12 0.41
26 6 0.21
27 11 0.38
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (27 bp):
TCTTTTTCTCTTTCTTTTTCTCTCTTT
Found at i:64168004 original size:10 final size:10
Alignment explanation
Indices: 64167989--64168017 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
64167979 TAAAAAAAAA
64167989 TTATTTTTTT
1 TTATTTTTTT
64167999 TTA-TTTTTT
1 TTATTTTTTT
64168008 TTATTTTTTT
1 TTATTTTTTT
64168018 CTTTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:64168155 original size:10 final size:10
Alignment explanation
Indices: 64168142--64168174 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
64168132 TCTCTCTTCT
64168142 TTTCTTCCTC
1 TTTCTTCCTC
64168152 TTTCTTCCTC
1 TTTCTTCCTC
64168162 TCTTCTT-CTC
1 T-TTCTTCCTC
64168172 TTT
1 TTT
64168175 TTTTTGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 15 0.68
11 5 0.23
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTCTTCCTC
Found at i:64168167 original size:21 final size:22
Alignment explanation
Indices: 64168125--64168174 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
64168115 TCTTCCCTGT
* *
64168125 TTCCTC-TTCTCTCTTCTTTTC
1 TTCCTCTTTCTCTCCTCTCTTC
64168146 TTCCTCTTTCT-TCCTCTCTTC
1 TTCCTCTTTCTCTCCTCTCTTC
64168167 TT-CTCTTT
1 TTCCTCTTT
64168175 TTTTTGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TTCCTCTTTCTCTCCTCTCTTC
Found at i:64168478 original size:59 final size:59
Alignment explanation
Indices: 64168400--64168556 Score: 187
Period size: 59 Copynumber: 2.6 Consensus size: 59
64168390 AGGTCCAAAG
* *
64168400 TGTAATTTCTAGAAAGTTTAAGGGTTAAAATG-AAATTTTAGGAAAGTT-TGGAGGTTAAAA-
1 TGTAATTT-TAAAAAGTTTAAGGGTCAAAATGTAAA-TTTAGGAAAGTTAT-GAGG-TAAAAT
* *
64168460 TGTAATTTTAAAAAGTTT-AGGGATGAAAATGTAAATTTAGGGAAGTTATGAGGTAAAAT
1 TGTAATTTTAAAAAGTTTAAGGG-TCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
* *
64168519 TGTAATTTTAAAAAGTTTAGGGGTCAAAATATAAATTT
1 TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTT
64168557 CAAATTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
58 9 0.10
59 62 0.72
60 15 0.17
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (59 bp):
TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
Found at i:64168488 original size:29 final size:28
Alignment explanation
Indices: 64168400--64168540 Score: 124
Period size: 30 Copynumber: 4.8 Consensus size: 28
64168390 AGGTCCAAAG
64168400 TGTAATTTCTAGAAAGTTTAAGGGTTAAAA
1 TGTAATTT-TAGAAAGTTT-AGGGTTAAAA
* *
64168430 TGAAATTTTAGGAAAGTTTGGAGGTTAAAA
1 TGTAATTTTA-GAAAGTTTAG-GGTTAAAA
* *
64168460 TGTAATTTTAAAAAGTTTAGGGATGAAAA
1 TGTAATTTTAGAAAGTTTAGGG-TTAAAA
* *
64168489 TGTAAATTTAGGGAAG-TTATGAGG-TAAAA
1 TGTAATTTTA-GAAAGTTTA-G-GGTTAAAA
*
64168518 TTGTAATTTTAAAAAGTTTAGGG
1 -TGTAATTTTAGAAAGTTTAGGG
64168541 GTCAAAATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.04
29 36 0.40
30 48 0.53
31 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.35
Consensus pattern (28 bp):
TGTAATTTTAGAAAGTTTAGGGTTAAAA
Found at i:64168556 original size:30 final size:29
Alignment explanation
Indices: 64168403--64168556 Score: 102
Period size: 30 Copynumber: 5.2 Consensus size: 29
64168393 TCCAAAGTGT
* *
64168403 AATTTCTAGAAAGTTTAAGGGTTAAAATGA
1 AATTT-TAGAAAGTTTAGGGGTTAAAATTA
64168433 AATTTTAGGAAAGTTT-GGAGGTTAAAATGT-
1 AATTTTA-GAAAGTTTAGG-GGTTAAAAT-TA
* * *
64168463 AATTTTAAAAAGTTTAGGGATGAAAATGTA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
* * *
64168493 AA-TTTAGGGAAG-TTATGAGG-TAAAATTGT
1 AATTTTA-GAAAGTTTA-GGGGTTAAAATT-A
* *
64168522 AATTTTAAAAAGTTTAGGGGTCAAAATATA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
64168552 AATTT
1 AATTT
64168557 CAAATTTTTT
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
28 1 0.01
29 39 0.41
30 55 0.57
31 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.35
Consensus pattern (29 bp):
AATTTTAGAAAGTTTAGGGGTTAAAATTA
Found at i:64168905 original size:80 final size:76
Alignment explanation
Indices: 64168728--64169126 Score: 391
Period size: 77 Copynumber: 5.1 Consensus size: 76
64168718 TTTTGTTTTT
* * * * *
64168728 ATTGAAAATAGCTCGGCGTGTGATCCGAATGCACAACTTACCTCTCAG-ATTATGAGTTGATCTT
1 ATTGAAAATACCTCGGCGTGTGA-CCCAA-GCTCAACTCACCTCTC-GCATTATGAGTTGATTTT
64168792 TG--AAAAATAGAA
63 TGAAAAAAATAGAA
* *
64168804 ATTGAAAAACACCTCGGCGTGTGACCCAAGACTCAACTCACCTCTCGCATTATGAGTTTATTTTT
1 ATTG-AAAATACCTCGGCGTGTGACCCAAG-CTCAACTCACCTCTCGCATTATGAGTTGATTTTT
64168869 GAAAAAAAAATAGAA
64 G--AAAAAAATAGAA
*
64168884 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTATCGCATTATGAGTTGATTTTT
1 ATTG-AAAATACCTCGGCGTGTGACCC-AAGCTCAACTCACCTCTCGCATTATGAGTTGA--TTT
*
64168949 TTGAAAAACAT--AA
62 TTGAAAAAAATAGAA
** * * * *
64168962 ATTGAAAATACCTTAGCGAGCT-ACCTGAGGCTCAACTGACCTCTCGCATTATGAGTTGATTTTT
1 ATTGAAAATACCTCGGCGTG-TGACC-CAAGCTCAACTCACCTCTCGCATTATGAGTTGA--TTT
64169026 TTGAAAAAACAT--AA
62 TTGAAAAAA-ATAGAA
*** * * *
64169040 ATTGAAAATACCTCAATGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG
1 ATTGAAAATACCTCGGCGTGTGACCC-AAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG
*
64169105 AAAAAAGTAGAA
65 AAAAAAATAGAA
64169117 ATTGAAAATA
1 ATTGAAAATA
64169127 ATTCTTGAAA
Statistics
Matches: 278, Mismatches: 28, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.01
76 49 0.18
77 87 0.31
78 60 0.22
80 70 0.25
81 3 0.01
82 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (76 bp):
ATTGAAAATACCTCGGCGTGTGACCCAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGA
AAAAAATAGAA
Found at i:64169041 original size:78 final size:78
Alignment explanation
Indices: 64168761--64169126 Score: 367
Period size: 78 Copynumber: 4.7 Consensus size: 78
64168751 TCCGAATGCA
* * * * * *
64168761 CAACTTACCTCTCAG-ATTATGAGTTGA--TCTTTG-AAAAATAGAAATTGAAAAACACCTCGGC
1 CAACTCACCTCTC-GCATTATGAGTTGATTTTTTTGAAAAAACATAAATTG-AAAATACCTCAGC
* *
64168822 GTG-TGACCCAAGACT
64 GTGCT-ACCCGAGGCT
* * *
64168837 CAACTCACCTCTCGCATTATGAGTT--TATTTTTGAAAAAAAAATAGAAATTGAAAAATACCTCG
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTG-AAAAAACAT--AAATTG-AAAATACCTCA
*
64168900 GCGTG-TGACCCGAAGCT
62 GCGTGCT-ACCCGAGGCT
* * *
64168917 CAACTCACCTATCGCATTATGAGTTGATTTTTTTG-AAAAACATAAATTGAAAATACCTTAGCGA
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATACCTCAGCGT
*
64168981 GCTACCTGAGGCT
66 GCTACCCGAGGCT
* **
64168994 CAACTGACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATACCTCAATGT
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATACCTCAGCGT
*
64169059 GCGACCCGAGGCT
66 GCTACCCGAGGCT
* * *
64169072 CAACTCACCTCTCGGATTATGAGTTGA--TTTTTGAAAAAAGTAGAAATTGAAAATA
1 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAA-CATAAATTGAAAATA
64169127 ATTCTTGAAA
Statistics
Matches: 250, Mismatches: 28, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
75 1 0.00
76 39 0.16
77 67 0.27
78 74 0.30
80 62 0.25
82 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (78 bp):
CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATACCTCAGCGT
GCTACCCGAGGCT
Found at i:64171939 original size:34 final size:34
Alignment explanation
Indices: 64171901--64171966 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
64171891 CTGCCATCGT
* *
64171901 GACATTCTTCTTGAGAGTGCGGGTGATTCCATCA
1 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
64171935 GACATTCTTCCTGAGAATGCGGGTGATTCCAT
1 GACATTCTTCCTGAGAATGCGGGTGATTCCAT
64171967 TATGTACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (34 bp):
GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
Found at i:64174989 original size:39 final size:39
Alignment explanation
Indices: 64174940--64175094 Score: 177
Period size: 39 Copynumber: 3.8 Consensus size: 39
64174930 ACAGTAATCA
* *
64174940 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAATA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAA----T--TG
*
64174985 GTAACAGTAACAGTATTCGACATACAAAGTGCCGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
*
64175024 GTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
* * * *
64175063 GTAACAGTAATAGTAGTCGGCACA-TAAGTGCC
1 GTAACAGTAACAGTATTCGACACACAAAGTGCC
64175095 TGATTAGTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
38 7 0.07
39 60 0.59
41 1 0.01
45 34 0.33
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
Found at i:64174995 original size:45 final size:44
Alignment explanation
Indices: 64174933--64175077 Score: 174
Period size: 45 Copynumber: 3.3 Consensus size: 44
64174923 CAAGTAAACA
*
64174933 GTAATCAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAAT-AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-G
*
64174979 GTAATAGTAACAGTAACAGTATTCGACATACAAAGTGCCGAA--
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
* *
64175021 -T--TGGTAACAGTAATAGTATTCGACACACAAAGTGCCGAATTG
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-TG
* *
64175063 GTAACAGTAATAGTA
1 GTAATAGTAACAGTA
64175078 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
39 35 0.41
41 1 0.01
43 1 0.01
45 43 0.51
46 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (44 bp):
GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
Found at i:64178843 original size:9 final size:9
Alignment explanation
Indices: 64178831--64178863 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
64178821 TTTCTTATAC
64178831 TTCTTTAGT
1 TTCTTTAGT
64178840 TTCTTTTA-T
1 TTC-TTTAGT
64178849 TTCTTTAGT
1 TTCTTTAGT
64178858 TTCTTT
1 TTCTTT
64178864 TATTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.18
9 14 0.64
10 4 0.18
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (9 bp):
TTCTTTAGT
Found at i:64178883 original size:18 final size:18
Alignment explanation
Indices: 64178820--64178877 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
64178810 CTGTTGTTTT
* *
64178820 GTTTCTTATACTTCTTTA
1 GTTTCTTTTATTTCTTTA
64178838 GTTTCTTTTATTTCTTTA
1 GTTTCTTTTATTTCTTTA
64178856 GTTTCTTTTATTTACTTT-
1 GTTTCTTTTATTT-CTTTA
64178874 GTTT
1 GTTT
64178878 TATTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 33 0.89
19 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (18 bp):
GTTTCTTTTATTTCTTTA
Found at i:64179721 original size:27 final size:27
Alignment explanation
Indices: 64179689--64179745 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
64179679 ATGTCTTAAT
*
64179689 TAATTAAT-TTATTAAATAATATAATAA
1 TAATTAATATAATT-AATAATATAATAA
* *
64179716 TAATTAATATAATTTATAATTTAATAA
1 TAATTAATATAATTAATAATATAATAA
64179743 TAA
1 TAA
64179746 ATAAAACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATTAATATAATTAATAATATAATAA
Found at i:64186503 original size:44 final size:43
Alignment explanation
Indices: 64186369--64186569 Score: 176
Period size: 43 Copynumber: 4.7 Consensus size: 43
64186359 AATACTTTTT
* * * * *
64186369 TAAAAGTCATG-TTTTTAGTGGCGTTTGT-GAAAAAGTGGCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
** * *
64186410 TAAAAGTCAT--TCTTTATAGTAGTGTTTGTGGTAGAAGCGCCGC
1 TAAAAGTCATGATC-TT-TAGCGGCGTTTGTGGAAGAAGCGCCGC
* * **
64186453 TAAAAGTCGTGCTCTTTAGCGGCGTTTGTGGAAAGAAGCGTTGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGG-AAGAAGCGCCGC
* * * *
64186497 TAAAAGTCATGATCTTTAGCGGTGTTTTTCGAAGAAGTGCCGC
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
* *
64186540 TAAAATTAATGATCTTTAGCGGCGTTTGTG
1 TAAAAGTCATGATCTTTAGCGGCGTTTGTG
64186570 TTAGAAGCAC
Statistics
Matches: 127, Mismatches: 27, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
41 12 0.09
42 11 0.09
43 64 0.50
44 37 0.29
45 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAAAGTCATGATCTTTAGCGGCGTTTGTGGAAGAAGCGCCGC
Found at i:64186802 original size:44 final size:44
Alignment explanation
Indices: 64186751--64186859 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
64186741 GTCTGCTCCG
*
64186751 CTGCAACTTTA-GAGAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTCAGGA-AGATAAGGCTGGTGGCTTTAATCTGTTTCA
*
64186795 TTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
1 CTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
64186839 CTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGAAGATAAG
64186860 ATCTGCCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGGCTGGTGGCTTTAATCTGTTTCA
Found at i:64189696 original size:22 final size:23
Alignment explanation
Indices: 64189671--64189719 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
64189661 TTGAAGACAG
64189671 AATAAT-AAAAACAATTAAATAA
1 AATAATGAAAAACAATTAAATAA
* * *
64189693 AAT-ATGTAAAAGAATTAATTAA
1 AATAATGAAAAACAATTAAATAA
64189715 AATAA
1 AATAA
64189720 GCTCAGCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 19 0.86
23 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAATGAAAAACAATTAAATAA
Found at i:64191710 original size:3 final size:3
Alignment explanation
Indices: 64191702--64191753 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
64191692 CATCATTAAC
*
64191702 ATT ATT ATT ACT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64191749 ATT AT
1 ATT AT
64191754 CGTAATGCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:64192164 original size:19 final size:19
Alignment explanation
Indices: 64192113--64192168 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
64192103 TATGTTTCTA
*
64192113 ATATATATATA-TATATATT
1 ATAT-TATATACTTTATATT
*
64192132 ATATTTTATACTTTATATT
1 ATATTATATACTTTATATT
64192151 AT-TTATATACCTTTATAT
1 ATATTATATA-CTTTATAT
64192169 ACCTTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTATATACTTTATATT
Found at i:64192188 original size:10 final size:10
Alignment explanation
Indices: 64192152--64192180 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
64192142 CTTTATATTA
64192152 TTTATATACC
1 TTTATATACC
64192162 TTTATATACC
1 TTTATATACC
64192172 TTTATATAC
1 TTTATATAC
64192181 ATATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTATATACC
Found at i:64197710 original size:45 final size:45
Alignment explanation
Indices: 64197659--64198298 Score: 143
Period size: 44 Copynumber: 13.5 Consensus size: 45
64197649 TATTTTGCTA
* * * * *
64197659 CAACTTTAGGAAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTG
1 CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
* **
64197704 CAACTTTAGGGAGAT-AGGGCTGATGGCTTCAATCTGCTCCACTG
1 CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
* * * * * *
64197748 CAACTTCAGTAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTA
1 CAACTTTAGGAAGATAAGAT----C-TGA--TG--GCTTCAATCTGCTCCACTG
*** * ** * *
64197802 CAACGCCAGGAATATAAGATCTGCCGTCTTCAGTCTGCTCCACTG
1 CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
* * * *
64197847 CAACTTCAGGGAGATAAG-GCT-AGTGGCTTCAATATGCTCCACTG
1 CAACTTTAGGAAGATAAGATCTGA-TGGCTTCAATCTGCTCCACTG
** * * * *
64197891 CAACTCCAGAAAGATAAGATTCGCTATAATTTGTAGCTTTAATCTGTTCCACTG
1 CAACTTTAGGAAGATAAGA-T--C--TGA--TG--GCTTCAATCTGCTCCACTG
* * * ** * **
64197945 CAACGTCAGGGAA-ATAAGAT-TCACTATCTTCAGTCTGCTCCGTTG
1 CAACTTTA-GGAAGATAAGATCTGA-TGGCTTCAATCTGCTCCACTG
* * * * * *
64197990 CAACTTCAGGGAGATAAG-GCTGGTAGCTTCAATCTGCTTCACTG
1 CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
* * *
64198034 CAACTTCAGGAAGATAAGATCTGTCATAACTTGTAGCTTCAATCTTGTTCCACTA
1 CAACTTTAGGAAGATAAGATCTG-----A--TG--GCTTCAATC-TGCTCCACTG
* * * * * *
64198089 CAA-TGCTAGGGAA-ATAAGAT-TCATTGTCTTCAGTCTGCTTCGCTG
1 CAACT-TTA-GGAAGATAAGATCTGA-TGGCTTCAATCTGCTCCACTG
* * * * * *
64198134 TAACTTCA-GAGAGATAAGGT-TGGTGGCTTTAATCTGCTTCACTG
1 CAACTTTAGGA-AGATAAGATCTGATGGCTTCAATCTGCTCCACTG
* * * * *
64198178 CAACTTTAGAAAGATAAGATCTATCATAACTTGTAGCTTTAATCTGTTCCGCTG
1 CAACTTTAGGAAGATAAG----ATC-TGA--TG--GCTTCAATCTGCTCCACTG
* * * * * *
64198232 CAACTTCAGGGAGATAAG-GCTGGTGACTTCAATCTGCTCCATTG
1 CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
*
64198276 CAACTTCAGGAAGATAAGATCTG
1 CAACTTTAGGAAGATAAGATCTG
64198299 CCATAACTTG
Statistics
Matches: 426, Mismatches: 117, Indels: 104
0.66 0.18 0.16
Matches are distributed among these distances:
43 2 0.00
44 167 0.39
45 92 0.22
46 10 0.02
47 2 0.00
48 8 0.02
49 4 0.01
50 5 0.01
51 1 0.00
52 7 0.02
53 1 0.00
54 102 0.24
55 21 0.05
56 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
CAACTTTAGGAAGATAAGATCTGATGGCTTCAATCTGCTCCACTG
Found at i:64197886 original size:44 final size:45
Alignment explanation
Indices: 64197829--64198051 Score: 162
Period size: 44 Copynumber: 4.8 Consensus size: 45
64197819 GATCTGCCGT
* *
64197829 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-AGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * **
64197873 CTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGATTCGCTATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----GC--TAA---GTAG
* * * * ** * * *
64197927 CTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* ** *
64197972 CTTCAGTCTGCTCCGTTGCAACTTCAGGGAGATAAGGCT-GGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* *
64198016 CTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
64198052 ATCTGTCATA
Statistics
Matches: 133, Mismatches: 36, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
44 64 0.48
45 32 0.24
48 4 0.03
50 1 0.01
51 1 0.01
54 31 0.23
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
Found at i:64198076 original size:54 final size:50
Alignment explanation
Indices: 64197729--64198435 Score: 150
Period size: 44 Copynumber: 14.7 Consensus size: 50
64197719 AGGGCTGATG
* * ** *
64197729 GCTTCAATCTGCTCCACTGCAACTTCAGTAAGATAAGATCCACCATAATTTGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGAT--GTC-T-ACTTGTA
* * ** * * *
64197783 GCTTTAATCTG-TTCCACTACAACGCCAGGAATATAAGA--TCTGC-CGT-
1 GCTTCAATCTGCTT-CACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
* * * *
64197829 -CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG--G-CTA---GTG
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
* * * * * *
64197872 GCTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGATTCGCTATAATTTGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA-T-G-TCT-ACTTGTA
* *
64197926 GCTTTAATCTG-TTCCACTGCAACGTCAGGGAA-ATAAGAT-TC-AC---TA
1 GCTTCAATCTGCTT-CACTGCAACTTCA-GGAAGATAAGATGTCTACTTGTA
* * * ** * *
64197971 TCTTCAGTCTGCTCCGTTGCAACTTCAGGGAGATAAG--G----CTGGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
64198015 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATCTGTCATAACTTGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA--TGTC-T-ACTTGTA
* *
64198069 GCTTCAATCTTG-TTCCACTACAA-TGCTAGGGAA-ATAAGAT-TC-A-TTGT-
1 GCTTCAATC-TGCTT-CACTGCAACTTC-A-GGAAGATAAGATGTCTACTTGTA
* * * * *
64198116 -CTTCAGTCTGCTTCGCTGTAACTTCA-GAGAGATAAG--G--T--TGGTG
1 GCTTCAATCTGCTTCACTGCAACTTCAGGA-AGATAAGATGTCTACTTGTA
* * * *
64198159 GCTTTAATCTGCTTCACTGCAACTTTAGAAAGATAAGATCTATCATAACTTGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA--TGTC-T-ACTTGTA
* * * **
64198213 GCTTTAATCTG-TTCCGCTGCAACTTCAGGGAGATAAG--G-CT-GGTG-A
1 GCTTCAATCTGCTT-CACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
* * *
64198258 -CTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA--TGTC-T-ACTTGTA
* ** *
64198311 GCTTTAATCTG-TTCCACTGCAACGCCAGGGAA-ATAAGAT-T-TGC-TGT-
1 GCTTCAATCTGCTT-CACTGCAACTTCA-GGAAGATAAGATGTCTACTTGTA
* * * * *
64198357 -CATT-AGTCTGCTTCGCTGCAACTTCAGGGAGATAAG--G----CTGGTG
1 GC-TTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
* *
64198400 GCTTTAATCTGCTTCATTGCAACTTCAGGAAGATAA
1 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAA
64198436 AATCTGCCAT
Statistics
Matches: 477, Mismatches: 98, Indels: 166
0.64 0.13 0.22
Matches are distributed among these distances:
41 2 0.00
42 7 0.01
43 4 0.01
44 158 0.33
45 88 0.18
46 19 0.04
47 5 0.01
48 10 0.02
49 5 0.01
50 4 0.01
51 2 0.00
52 5 0.01
53 8 0.02
54 133 0.28
55 23 0.05
56 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATGTCTACTTGTA
Found at i:64198168 original size:144 final size:142
Alignment explanation
Indices: 64197590--64198293 Score: 715
Period size: 143 Copynumber: 4.9 Consensus size: 142
64197580 GAATTGGTAA
* ** * * * * *
64197590 CTTCAACCTGCTCCACTGCAACTTCAGGGATATAAGGTTTGC--AACTTGTAGCTTCAATCTATT
1 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCTGCATAACTTGTAGCTTTAATCTGTT
*** ** * ** *
64197653 TTGCTACAACTTTAGGAAAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGA
66 CCACTACAACGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* *
64197718 TAGGGCTGATGG
131 TAAGGCTGGTGG
* ** *
64197730 CTTCAATCTGCTCCACTGCAACTTCAGTAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGAT-CTGCATAACTTGTAGCTTTAATCTGT
*
64197795 TCCACTACAACGCCA-GGAATATAAGATCTGC-C-GTCTTCAGTCTGCTCCACTGCAACTTCAGG
65 TCCACTACAACGCTAGGGAA-ATAAGAT-T-CACTGTCTTCAGTCTGCTCCACTGCAACTTCAGG
*
64197857 GAGATAAGGCTAGTGG
127 GAGATAAGGCTGGTGG
* * *
64197873 CTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGAT-TCGCTATAATTTGTAGCTTTAATCTG
1 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCT-GC-ATAACTTGTAGCTTTAATCTG
* * **
64197937 TTCCACTGCAACG-TCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCGTTGCAACTTCAGGG
64 TTCCACTACAACGCT-AGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGG
*
64198001 AGATAAGGCTGGTAG
128 AGATAAGGCTGGTGG
* * *
64198016 CTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATCTGTCATAACTTGTAGCTTCAATCTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCTG-CATAACTTGTAGCTTTAATC-TG
* * * * * *
64198081 TTCCACTACAATGCTAGGGAAATAAGATTCATTGTCTTCAGTCTGCTTCGCTGTAACTTCAGAGA
64 TTCCACTACAACGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
64198146 GATAAGGTTGGTGG
129 GATAAGGCTGGTGG
* * * *
64198160 CTTTAATCTGCTTCACTGCAACTTTAGAAAGATAAGATCTATCATAACTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCT-GCATAACTTGTAGCTTTAATCTGT
* * * * ** ** * * * *
64198225 TCCGCTGCAAC-TTCAGGGAGATAAGGCT-GGTGACTTCAATCTGCTCCATTGCAACTTCAGGAA
65 TCCACTACAACGCT-AGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
64198288 GATAAG
129 GATAAG
64198294 ATCTGCCATA
Statistics
Matches: 473, Mismatches: 73, Indels: 34
0.82 0.13 0.06
Matches are distributed among these distances:
140 33 0.07
141 2 0.00
142 38 0.08
143 266 0.56
144 133 0.28
145 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (142 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCTGCATAACTTGTAGCTTTAATCTGTT
CCACTACAACGCTAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGGCTGGTGG
Found at i:64198215 original size:287 final size:284
Alignment explanation
Indices: 64197670--64198293 Score: 779
Period size: 287 Copynumber: 2.2 Consensus size: 284
64197660 AACTTTAGGA
* * * * *
64197670 AAATAAGATTTGCTGTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAGGGCTGATGGCTTCA
1 AAATAAGA-TTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGGCTGATAGCTTCA
* * *
64197735 ATCTGCTCCACTGCAACTTCAGTAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCAC
65 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAACTTGTAGCTTCAATCTGTTCCAC
*
64197800 TACAACGCCAGGAATATAAGATCTGCCGTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
130 TACAACGCCAGGAATATAAGATCT-CCGTCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAG
* *
64197865 GCTAGTGGCTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGATTCGCTATAATTTGTAGCTT
194 GCTAGTGGCTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGATTAGCTATAACTTGTAGCTT
64197930 TAATCTGTTCCACTGCAACGTCAGGG
259 TAATCTGTTCCACTGCAACGTCAGGG
* * *
64197956 AAATAAGATTCACTATCTTCAGTCTGCTCCGTTGCAACTTCAGGGAGATAAGGCTGGTAGCTTCA
1 AAATAAGATT-GCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGGCTGATAGCTTCA
* ***
64198021 ATCTGCTTCACTGCAACTTCAGGAAGATAAGATCTGTCATAACTTGTAGCTTCAATCTTGTTCCA
65 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAACTTGTAGCTTCAATC-TGTTCCA
* * * * * *
64198086 CTACAATGCTAGGGAA-ATAAGAT-TCATTGTCTTCAGTCTGCTTCGCTGTAACTTCAGAGAGAT
129 CTACAACGCCA-GGAATATAAGATCTC--CGTCTTCAGTCTGCTCCACTGCAACTTCAGAGAGAT
* * * * * ** *
64198149 AAGGTTGGTGGCTTTAATCTGCTTCACTGCAACTTTAGAAAGATAAGATCTATC-ATAACTTGTA
191 AAGGCTAGTGGCTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGAT-TAGCTATAACTTGTA
* *
64198213 GCTTTAATCTGTTCCGCTGCAACTTCAGGG
255 GCTTTAATCTGTTCCACTGCAACGTCAGGG
* ** * * *
64198243 AGATAAGGCTGGTGA-CTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAG
1 AAATAAGATTGCT-ATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAG
64198294 ATCTGCCATA
Statistics
Matches: 289, Mismatches: 42, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
285 3 0.01
286 139 0.48
287 141 0.49
288 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (284 bp):
AAATAAGATTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGGCTGATAGCTTCAA
TCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAACTTGTAGCTTCAATCTGTTCCACT
ACAACGCCAGGAATATAAGATCTCCGTCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGGC
TAGTGGCTTCAATATGCTCCACTGCAACTCCAGAAAGATAAGATTAGCTATAACTTGTAGCTTTA
ATCTGTTCCACTGCAACGTCAGGG
Found at i:64198304 original size:98 final size:98
Alignment explanation
Indices: 64198129--64198347 Score: 303
Period size: 98 Copynumber: 2.2 Consensus size: 98
64198119 CAGTCTGCTT
* * * * * * *
64198129 CGCTGTAACTTCAGAGAGATAAGGTTGGTGGCTTTAATCTGCTTCACTGCAACTTTAGAAAGATA
1 CGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAGAAAGATA
*
64198194 AGATCTATCATAACTTGTAGCTTTAATCTGTTC
66 AGATCTACCATAACTTGTAGCTTTAATCTGTTC
* *
64198227 CGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCATTGCAACTTCAGGAAGATA
1 CGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAGAAAGATA
*
64198292 AGATCTGCCATAACTTGTAGCTTTAATCTGTTC
66 AGATCTACCATAACTTGTAGCTTTAATCTGTTC
* ** *
64198325 CACTGCAACGCCAGGGAAATAAG
1 CGCTGCAACTTCAGGGAGATAAG
64198348 ATTTGCTGTC
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 106 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (98 bp):
CGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAGAAAGATA
AGATCTACCATAACTTGTAGCTTTAATCTGTTC
Found at i:64198423 original size:241 final size:242
Alignment explanation
Indices: 64197978--64198440 Score: 716
Period size: 241 Copynumber: 1.9 Consensus size: 242
64197968 CTATCTTCAG
* *
64197978 TCTGCTCCGTTGCAACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTTCACTGCAACTTCAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTCCACTGCAACTTCAG
* * *
64198043 GAAGATAAGATCTGTCATAACTTGTAGCTTCAATCTTGTTCCACTACAATGCTAGGGAAATAAGA
66 GAAGATAAGATCTGCCATAACTTGTAGCTTCAATCTTGTTCCACTACAACGCCAGGGAAATAAGA
* * *
64198108 TTCATTGTCTTCAGTCTGCTTCGCTGTAACTTCAGAGAGATAAGGTTGGTGGCTTTAATCTGCTT
131 TTCACTGTCTTCAGTCTGCTTCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTTAATCTGCTT
* *
64198173 CACTGCAACTTTAGAAAGATAAGATCTATCATAACTTGTAGCTTTAA
196 CACTGCAACTTCAGAAAGATAAAATCTATCATAACTTGTAGCTTTAA
* *
64198220 TCTGTTCCGCTGCAACTTCAGGGAGATAAGGCTGGT-GACTTCAATCTGCTCCATTGCAACTTCA
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTAG-CTTCAATCTGCTCCACTGCAACTTCA
* *
64198284 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAATC-TGTTCCACTGCAACGCCAGGGAAATAAG
65 GGAAGATAAGATCTGCCATAACTTGTAGCTTCAATCTTGTTCCACTACAACGCCAGGGAAATAAG
** *
64198348 ATTTGCTGTCATT-AGTCTGCTTCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGC
130 ATTCACTGTC-TTCAGTCTGCTTCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTTAATCTGC
* *
64198412 TTCATTGCAACTTCAGGAAGATAAAATCT
194 TTCACTGCAACTTCAGAAAGATAAAATCT
64198441 GCCATTATGA
Statistics
Matches: 200, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
241 106 0.53
242 94 0.47
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (242 bp):
TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATCTGCCATAACTTGTAGCTTCAATCTTGTTCCACTACAACGCCAGGGAAATAAGA
TTCACTGTCTTCAGTCTGCTTCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTTAATCTGCTT
CACTGCAACTTCAGAAAGATAAAATCTATCATAACTTGTAGCTTTAA
Found at i:64199305 original size:16 final size:15
Alignment explanation
Indices: 64199269--64199323 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 15
64199259 TGGCCTCTCC
64199269 TTTTTCTTTT-TCTTT
1 TTTTTCTTTTAT-TTT
64199284 TATTTTCTTTTATTTAT
1 T-TTTTCTTTTATTT-T
64199301 TTTTTCTTTTCATTTCT
1 TTTTTCTTTT-ATTT-T
64199318 TTTTTC
1 TTTTTC
64199324 GAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 20 0.57
17 14 0.40
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTATTTT
Found at i:64199330 original size:26 final size:26
Alignment explanation
Indices: 64199275--64199331 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
64199265 CTCCTTTTTC
* *
64199275 TTTTTCTTTTATTTTCTTTTATTTAT
1 TTTTTCTTTTATTTTCTTTTATTGAA
64199301 TTTTTCTTTTCA-TTTCTTTT-TTCGAA
1 TTTTTCTTTT-ATTTTCTTTTATT-GAA
64199327 TTTTT
1 TTTTT
64199332 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTTCTTTTATTTTCTTTTATTGAA
Found at i:64199445 original size:14 final size:15
Alignment explanation
Indices: 64199422--64199454 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
64199412 ATTAACACTT
*
64199422 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
64199436 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
64199451 TTCC
1 TTCC
64199455 CAGTTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:64201668 original size:26 final size:26
Alignment explanation
Indices: 64201639--64201703 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
64201629 ATTTGATATT
* *
64201639 TATAAATATTATAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
**
64201665 TATATTTATAAAAAATATTCTAAAAG
1 TATAAATATAAAAAATATTCTAAAAG
64201691 TAT--ATATAAAAAA
1 TATAAATATAAAAAA
64201704 GTTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 9 0.26
26 25 0.74
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (26 bp):
TATAAATATAAAAAATATTCTAAAAG
Found at i:64201695 original size:13 final size:13
Alignment explanation
Indices: 64201653--64201695 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
64201643 AATATTATAA
64201653 ATATTCTAAAAGT
1 ATATTCTAAAAGT
**
64201666 ATATT-TATAAAAA
1 ATATTCTA-AAAGT
64201679 ATATTCTAAAAGT
1 ATATTCTAAAAGT
64201692 ATAT
1 ATAT
64201696 ATAAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (13 bp):
ATATTCTAAAAGT
Found at i:64208945 original size:22 final size:22
Alignment explanation
Indices: 64208905--64208947 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
64208895 TTTTTATAGT
**
64208905 AAAATTAATATATTTTAATTAC
1 AAAATTAATATATGATAATTAC
*
64208927 AAAATTAATTTATGATAATTA
1 AAAATTAATATATGATAATTA
64208948 TTAAGATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAATTAATATATGATAATTAC
Found at i:64209538 original size:18 final size:19
Alignment explanation
Indices: 64209498--64209540 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
64209488 GTTTAAATTC
64209498 TTTTTAATATTTTTTTAGA
1 TTTTTAATATTTTTTTAGA
64209517 -TTTT-ATATATTTTTTA-A
1 TTTTTAATAT-TTTTTTAGA
64209534 TTTTTAA
1 TTTTTAA
64209541 ATAATGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 5 0.24
18 15 0.71
19 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTAATATTTTTTTAGA
Found at i:64210860 original size:14 final size:14
Alignment explanation
Indices: 64210843--64210878 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64210833 TCTCTTGATT
*
64210843 TCTCTCTTCTCTAC
1 TCTCTCTTCTCTAA
*
64210857 TCTCTTTTCTCTAA
1 TCTCTCTTCTCTAA
64210871 TCTCTCTT
1 TCTCTCTT
64210879 ATTCTTACTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTCTCTTCTCTAA
Found at i:64213730 original size:19 final size:20
Alignment explanation
Indices: 64213697--64213734 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
64213687 AAATCACTCC
*
64213697 AATAGATTTTTTAATTTTTT
1 AATAGATTTTATAATTTTTT
64213717 AATA-ATTTTATAATTTTT
1 AATAGATTTTATAATTTTT
64213735 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
AATAGATTTTATAATTTTTT
Found at i:64220272 original size:12 final size:12
Alignment explanation
Indices: 64220257--64220307 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
64220247 ATTTTGTACT
64220257 ATATTTACCTAA
1 ATATTTACCTAA
64220269 ATATTTACCTAA
1 ATATTTACCTAA
*
64220281 AT-TTTA--TACT
1 ATATTTACCTA-A
64220291 ATATTTACCTAA
1 ATATTTACCTAA
64220303 ATATT
1 ATATT
64220308 AATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 2 0.06
11 8 0.24
12 19 0.58
13 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTACCTAA
Found at i:64220985 original size:33 final size:35
Alignment explanation
Indices: 64220946--64221019 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 35
64220936 AATAGTTTTT
*
64220946 ATATTTTTTTATTTAAAACA-ATTT-TGAAA-ATAA
1 ATATTTTTTTATTGAAAACATATTTAT-AAATATAA
64220979 ATA-TTTTTTATTGAAAACATATTTATAAATATAA
1 ATATTTTTTTATTGAAAACATATTTATAAATATAA
64221013 ATATTTT
1 ATATTTT
64221020 CTACTTAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 15 0.42
33 10 0.28
34 8 0.22
35 3 0.08
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (35 bp):
ATATTTTTTTATTGAAAACATATTTATAAATATAA
Found at i:64222811 original size:128 final size:128
Alignment explanation
Indices: 64222577--64222946 Score: 521
Period size: 128 Copynumber: 2.9 Consensus size: 128
64222567 TGCTGTACTG
* *** * *
64222577 GCAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAG-AATC
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AACAAGTAGTGGAGCAGACAGAAGAAAT-
* * *
64222641 CAATCCTATCT-CTCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTACCTCTTTGAAAT
64 CAATCCTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAAT
64222705 T
128 T
64222706 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
64222771 ATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
66 ATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
* *
64222834 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAA-TAGTGGAGTAGACAGATGAAATC
1 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAA-CAAGTAGTGGAGCAGACAGAAGAAATC
* * * * ** *
64222898 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACCAAAACCACAAATCT
65 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCT
64222947 CATCCCATAG
Statistics
Matches: 220, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
128 178 0.81
129 42 0.19
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (128 bp):
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCA
ATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTGAAATT
Found at i:64222836 original size:44 final size:44
Alignment explanation
Indices: 64222650--64222847 Score: 117
Period size: 44 Copynumber: 4.6 Consensus size: 44
64222640 CCAATCCTAT
* * *
64222650 CTCTCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTAC
1 CTCTCTGAAATTGCAGTGGAGCAGATTAAAACCACAGATCTTAC
* * *** * *
64222694 CTCTTTGAAATTGCAGTAGAGCAGA-TCGCATC-CAG-TCTTAT
1 CTCTCTGAAATTGCAGTGGAGCAGATTAAAACCACAGATCTTAC
* * * * * * *
64222735 CTCCCT-AACA-AGTAGTGGAGCAGA-CAGAAGA-AATCA-ATCCTAT
1 CTCTCTGAA-ATTGCAGTGGAGCAGATTA-AA-ACCA-CAGATCTTAC
*
64222778 CTC-CTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTAC
1 CTCTC-TGAAATTGCAGTGGAGCAGATTAAAACCACAGATCTTAC
*
64222822 CTCTCTGAAATTGCAGTAGAGCAGAT
1 CTCTCTGAAATTGCAGTGGAGCAGAT
64222848 CGCATCCAGT
Statistics
Matches: 111, Mismatches: 30, Indels: 26
0.66 0.18 0.16
Matches are distributed among these distances:
40 13 0.12
41 10 0.09
42 5 0.05
43 17 0.15
44 64 0.58
45 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
CTCTCTGAAATTGCAGTGGAGCAGATTAAAACCACAGATCTTAC
Found at i:64224579 original size:26 final size:26
Alignment explanation
Indices: 64224549--64224610 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
64224539 TCCTATGCTA
*
64224549 TTTATTTTGAAATTCTTTATATTTTT-
1 TTTATTTTGAAACTCTTT-TATTTTTG
** *
64224575 TTTATTTCAAAACTGTTTTATTTTTG
1 TTTATTTTGAAACTCTTTTATTTTTG
64224601 TTTATTTTGA
1 TTTATTTTGA
64224611 GTTTCTATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.23, C:0.05, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTATTTTGAAACTCTTTTATTTTTG
Found at i:64225425 original size:12 final size:12
Alignment explanation
Indices: 64225410--64225460 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
64225400 ATTTTGTACT
64225410 ATATTTACCTAA
1 ATATTTACCTAA
64225422 ATATTTACCTAA
1 ATATTTACCTAA
*
64225434 AT-TTTA--TACT
1 ATATTTACCTA-A
64225444 ATATTTACCTAA
1 ATATTTACCTAA
64225456 ATATT
1 ATATT
64225461 AATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 2 0.06
11 8 0.24
12 19 0.58
13 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTACCTAA
Found at i:64229173 original size:71 final size:72
Alignment explanation
Indices: 64229067--64229199 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 72
64229057 CAATCAACGC
** * *
64229067 TGGGCGCAAAACATTGTCGGTTTATCTGACAAGTGCAGGGCGCATCTATCA-TCAGT-TTATCCA
1 TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTAT-AGTCAGTATTATCCA
64229130 ACTAGCTT
65 ACTAGCTT
* * *
64229138 TGGGCGTAAAACATTGTTGGAGTATCCGACCAGTGCAGGGCACATCTATAGTCAGTATTATC
1 TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTATAGTCAGTATTATC
64229200 GACCAACAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
70 1 0.02
71 47 0.89
72 5 0.09
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (72 bp):
TGGGCGCAAAACATTGTCGGAGTATCCGACAAGTGCAGGGCACATCTATAGTCAGTATTATCCAA
CTAGCTT
Found at i:64231331 original size:41 final size:41
Alignment explanation
Indices: 64231213--64231331 Score: 136
Period size: 41 Copynumber: 2.9 Consensus size: 41
64231203 ATTTAACATA
64231213 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCT-AATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGAATTCAG
* ** * *
64231254 ATCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-AT
1 TTCACCGGCACTTAGCCTGCTAGGTTTAAA-CCTGAATTCAG
64231295 TTCACCGGC-CTTAAGCCTGCTAGGTTTTAAACCTGAA
1 TTCACCGGCACTT-AGCCTGCTAGG-TTTAAACCTGAA
64231332 AATTTCAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.08
41 51 0.78
42 9 0.14
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTAAACCTGAATTCAG
Found at i:64231605 original size:34 final size:33
Alignment explanation
Indices: 64231527--64231605 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 33
64231517 AAGAATTTTA
*
64231527 CATATATATATA-TTTACCTATTCGAAACTAAC
1 CATATATATATATTTTACATATTCGAAACTAAC
* * * *
64231559 TATACATGTATATTTGTACATATTC-AATACTACC
1 CATATATATATATTT-TACATATTCGAA-ACTAAC
64231593 CATATATATATAT
1 CATATATATATAT
64231606 ATAAACTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
32 9 0.25
33 4 0.11
34 23 0.64
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (33 bp):
CATATATATATATTTTACATATTCGAAACTAAC
Found at i:64232713 original size:17 final size:17
Alignment explanation
Indices: 64232693--64232726 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64232683 ATTATTAAGA
* *
64232693 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
64232710 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
64232727 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:64232840 original size:18 final size:17
Alignment explanation
Indices: 64232812--64232846 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64232802 ATTATTAAGA
*
64232812 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
64232829 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
64232847 TTAATAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:64233202 original size:43 final size:43
Alignment explanation
Indices: 64233141--64233227 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
64233131 CACCGTCTTC
64233141 ATCATCATCTTCCCCTCTCTCCCTTTTTTGCATATATCTCAGA
1 ATCATCATCTTCCCCTCTCTCCCTTTTTTGCATATATCTCAGA
64233184 ATCATCATCTTCCCCTCTCTCCCTTTTTTGCATATATCTCAGA
1 ATCATCATCTTCCCCTCTCTCCCTTTTTTGCATATATCTCAGA
64233227 A
1 A
64233228 GAGGAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (43 bp):
ATCATCATCTTCCCCTCTCTCCCTTTTTTGCATATATCTCAGA
Found at i:64236851 original size:100 final size:100
Alignment explanation
Indices: 64236661--64237381 Score: 980
Period size: 100 Copynumber: 7.2 Consensus size: 100
64236651 ATCTCTTTGG
* * *** *
64236661 CATTACAGTGAAATAGATTGAAGCTACAACAACAAATCTTACTTCCCTAGCGGTGTAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* *
64236726 GATTGAAGCTACAACGGCGAATCTTGTTTCCCTGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
*
64236761 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAATA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* * *
64236826 GATTGAAGCTACGACGGTGACTCTTGTTTCCCTGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * *
64236861 CATTGCAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTATAGTGGAACC
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* *
64236926 GATTGAAGCTACGACAGCGAATCTTATTTCCCCGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * * * *
64236961 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCAGTGTAATGGAATA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
*
64237026 GATTGAAGCTACGACAGCGAATCTTGTTTCCCCGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * *
64237061 CATTACAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* * * *
64237126 AATTGAAGCTACGATGGCAAATCTTGTTTCCCCAA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
** * * * *
64237161 TTTTGCAGTTAAATAGATTGAAGCTACAAC-GACGAATCTTAATTCCCTGGCGATGTAGTGAAAC
1 CATTGCAGTTAAATAGATTGAAGCTACAACAG-TGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
* *
64237225 AGATTGAAGCTACGATGGTGAATCTTGTTTCCCC-A
65 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * * * * * *
64237260 -ATTGTAGTTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCTCTGGCAGTGCAGTGGAACG
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
**
64237324 GATTGAAGCTACGACGGCGAATCTTACTTCCCCGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
*
64237359 CATTGCAGTTAAACAGATTGAAG
1 CATTGCAGTTAAATAGATTGAAG
64237382 ATGGCGAATC
Statistics
Matches: 549, Mismatches: 68, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
98 81 0.15
99 4 0.01
100 464 0.85
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (100 bp):
CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
Found at i:64237366 original size:50 final size:50
Alignment explanation
Indices: 64236661--64237381 Score: 509
Period size: 50 Copynumber: 14.5 Consensus size: 50
64236651 ATCTCTTTGG
* ** * *
64236661 CATTACAGTGAAATAGATTGAAGCTACAACAACAAATCTTACTTCCCT-A
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
** * * * *
64236710 GCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGA
1 -CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * * *
64236761 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGG
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
** * * * * * *
64236811 CGGTGTAGTGGAATAGATTGAAGCTACGACGGTGACTCTTGTTTCCCTGA
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * *
64236861 CATTGCAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGG
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
** ** * ** * * *
64236911 CGGTATAGTGGAACCGATTGAAGCTACGACAGCGAATCTTATTTCCCCGA
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * *
64236961 CATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTG-
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCC-TGA
* * * * * * * *
64237011 CAGTGTAATGGAATAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * *
64237061 CATTACAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-A
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
** * * * * * * * * **
64237110 GCGGTGTAGTGGAACAAATTGAAGCTACGATGGCAAATCTTGTTTCCCCAA
1 -CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
** * * * *
64237161 TTTTGCAGTTAAATAGATTGAAGCTACAACGACGAATCTTAATTCCCTGG
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * * * * *
64237211 CGA-TGTAGTGAAACAGATTGAAGCTACGATGGTGAATCTTGTTTCCC-CA
1 C-ATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * * * * * *
64237260 -ATTGTAGTTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCTCTGG
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* * ** * * *
64237309 CAGTGCAGTGGAACGGATTGAAGCTACGACGGCGAATCTTACTTCCCCGA
1 CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
* *
64237359 CATTGCAGTTAAACAGATTGAAG
1 CATTGCAGTGAAATAGATTGAAG
64237382 ATGGCGAATC
Statistics
Matches: 498, Mismatches: 164, Indels: 18
0.73 0.24 0.03
Matches are distributed among these distances:
47 1 0.00
48 34 0.07
49 2 0.00
50 458 0.92
51 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (50 bp):
CATTGCAGTGAAATAGATTGAAGCTACAACGGCGAATCTTATTTCCCTGA
Found at i:64237449 original size:44 final size:45
Alignment explanation
Indices: 64237387--64237508 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 45
64237377 TGAAGATGGC
* * * *
64237387 GAATCTTATCTCCTTGAAGATGCAGTAGAGCAGATT-GAAGCAAA
1 GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAA
* * * *
64237431 GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCATA
1 GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAA
*
64237476 G-ATCTTATCTCTCTGAAGTTGCA-TAGAGCAGAT
1 GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
64237509 CGCATATGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 8 0.12
44 51 0.78
45 6 0.09
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (45 bp):
GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAA
Found at i:64238341 original size:30 final size:32
Alignment explanation
Indices: 64238281--64238343 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
64238271 CACTTATTTT
*
64238281 CACCTATGCTGAATGCATACACATAAATATAAC
1 CACCTATGCCGAATGCA-ACACATAAATATAAC
* *
64238314 CACCTATGCCGAATGCAACATATATATATA
1 CACCTATGCCGAATGCAACACATAAATATA
64238344 TACATATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATAAC
Found at i:64238608 original size:41 final size:41
Alignment explanation
Indices: 64238563--64238755 Score: 309
Period size: 41 Copynumber: 4.7 Consensus size: 41
64238553 GCTCTTAGCA
*
64238563 TGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64238604 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64238645 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64238686 TGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTAAGCC
* * * *
64238727 TGCTAGACGTAAAGTCTGAATTATGTCAC
1 TGCTAGACTTATAGTCTGAAATGTGTCAC
64238756 TAACGATAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 135 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
Found at i:64240307 original size:13 final size:13
Alignment explanation
Indices: 64240289--64240313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64240279 CCATCGAATG
64240289 CACACAAAATAAA
1 CACACAAAATAAA
64240302 CACACAAAATAA
1 CACACAAAATAA
64240314 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:64246018 original size:30 final size:32
Alignment explanation
Indices: 64245958--64246020 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
64245948 CACTTATTTT
*
64245958 CACCTATGCTGAATGCATACACATAAATATAAC
1 CACCTATGCCGAATGCA-ACACATAAATATAAC
* *
64245991 CACCTATGCCGAATGCAACATATATATATA
1 CACCTATGCCGAATGCAACACATAAATATA
64246021 TACATATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATAAC
Found at i:64246285 original size:41 final size:41
Alignment explanation
Indices: 64246240--64246432 Score: 309
Period size: 41 Copynumber: 4.7 Consensus size: 41
64246230 GCTCTTAGCA
*
64246240 TGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64246281 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64246322 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
64246363 TGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTAAGCC
1 TGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTAAGCC
* * * *
64246404 TGCTAGACGTAAAGTCTGAATTATGTCAC
1 TGCTAGACTTATAGTCTGAAATGTGTCAC
64246433 TAACGATAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 135 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
TGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTAAGCC
Found at i:64247984 original size:13 final size:13
Alignment explanation
Indices: 64247966--64247990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64247956 CCATCGAATG
64247966 CACACAAAATAAA
1 CACACAAAATAAA
64247979 CACACAAAATAA
1 CACACAAAATAA
64247991 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:64248171 original size:44 final size:44
Alignment explanation
Indices: 64248076--64248172 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
64248066 CAGCATACAG
*
64248076 TCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAGCCAATAA
1 TCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAACCAATAA
* * *
64248120 TCCTATCTCCCTGAA-ATTGCAGTGGAGCAGATT-AAACCCATAGA
1 TCTTATCTCCCTGAAGA-TGCAATGGAGCAGATTGAAACCAATA-A
64248164 TCTTATCTC
1 TCTTATCTC
64248173 TTTGAAGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 8 0.17
44 38 0.83
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAACCAATAA
Found at i:64248250 original size:41 final size:40
Alignment explanation
Indices: 64248165--64248253 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
64248155 ACCCATAGAT
* ** * *
64248165 CTTATCTCTTTGAAGTTCCAGAGAGCAGATCGTATATAGT
1 CTTATCTCTTTGAAGTTCCAGAGAACAGATCACATACAGC
* * *
64248205 CTTATCTCTTTGAAGTTGCAGTTGAACAGATCACATCCAGC
1 CTTATCTCTTTGAAGTTCCAG-AGAACAGATCACATACAGC
64248246 CTTATCTC
1 CTTATCTC
64248254 CCTGTGTAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 20 0.50
41 20 0.50
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (40 bp):
CTTATCTCTTTGAAGTTCCAGAGAACAGATCACATACAGC
Found at i:64248378 original size:88 final size:88
Alignment explanation
Indices: 64248241--64248427 Score: 259
Period size: 88 Copynumber: 2.1 Consensus size: 88
64248231 CAGATCACAT
** * ** * *
64248241 CCAGCCTTATCTCCCTGTGTAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCT-TCCTGTAT
1 CCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTAAAAAATAGCAGATCTTG-CTGTCCTGTAC
64248305 TGGCAGCAAAGCAGATCGAAGACA
65 TGGCAGCAAAGCAGATCGAAGACA
* *
64248329 CCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTAAAAAATAGCAGATCTTGCTGTCTTGTACT
1 CCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTAAAAAATAGCAGATCTTGCTGTCCTGTACT
*
64248394 GGCAGCGAAGCAGATCGAAGACA
66 GGCAGCAAAGCAGATCGAAGACA
*
64248417 CCAGCTTTATC
1 CCAGCCTTATC
64248428 GCATTGAAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 2 0.02
88 85 0.98
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
CCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTAAAAAATAGCAGATCTTGCTGTCCTGTACT
GGCAGCAAAGCAGATCGAAGACA
Found at i:64248742 original size:100 final size:100
Alignment explanation
Indices: 64248615--64249226 Score: 762
Period size: 100 Copynumber: 6.1 Consensus size: 100
64248605 ATTACAGTGG
** * * *
64248615 AATAGATTGAAGCTACAACGGCAAATCTTACATT-TCTAGTGGTCTAGTGGAACAGATTGAAGCT
1 AATAGATTGAAGCTACAACGGTGAATCTTAC-TTCCCTAGCGGTGTAGTGGAACAGATTGAAGCT
* *
64248679 ACAACGGCGAATCTTGTTTCCCTAACATTGCAGCTA
65 ACGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
* * * *
64248715 AGTAGATTGAAGCTACAACGGTTAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
*
64248780 CGACGGC-AACTCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGCGAA-TCTTGTTTCCCTAACATTGCAGTTA
* * * * *
64248815 AATATATTGAAGCTACAATGGTGAATCTTACTTCCCTGGCGGTATAGTGGAACCGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
** * **
64248880 CGACAACGAATCTTATTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
* * * * *
64248915 AATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCGGTGTAATGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
* *
64248980 CGACAGCGAATCTTGTTT-CCTCAACATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCT-AACATTGCAGTTA
*
64249015 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
64249080 CGACGGCGAATCTTGTTTCCCCAATATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
*** * * * * *
64249115 AATAGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGATGTAGTGAAACGGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
** **
64249180 CGACGGCGAATCTTACTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
*
64249215 AACAGATTGAAG
1 AATAGATTGAAG
64249227 ATGGCGAATC
Statistics
Matches: 447, Mismatches: 60, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
99 6 0.01
100 437 0.98
101 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCTAACATTGCAGTTA
Found at i:64249150 original size:50 final size:50
Alignment explanation
Indices: 64248668--64249226 Score: 264
Period size: 50 Copynumber: 11.2 Consensus size: 50
64248658 CTAGTGGAAC
* * * * * *
64248668 AGATTGAAGCTACAACGGCGAATCTTGTTTCCCTAACATTGCAGCTAAGT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* ** * *** ** ** **
64248718 AGATTGAAGCTACAACGGTTAATCTTACTTCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * * ** *
64248768 AGATTGAAGCTACGACGGC-AACTCTTGTTTCCCTGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAA-TCTTATTTCCCCAACATTACAGTTAAAT
* ** * * *** ** * ** *
64248818 ATATTGAAGCTACAATGGTGAATCTTACTTCCCTGGCGGTATAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * * * *
64248868 CGATTGAAGCTACGACAACGAATCTTATTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * *** * **
64248918 AGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCGGTGTA-A-TGGAAT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAAC-AT-TACAGTTAAAT
* * *
64248968 AGATTGAAGCTACGACAGCGAATCTTGTTTCCTCAACATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * * * * ** ** ** *
64249018 AGATTGAAGCTACAACGGTGAATCTTACTTCCCTAGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * * * *
64249068 AAATTGAAGCTACGACGGCGAATCTTGTTTCCCCAATATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
* * *** * *
64249118 AGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGATGT--AGTGAAAC
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAAC-AT-TACAGTTAAAT
* * * * * * *
64249168 GGATTGAAGCTACGACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
64249218 AGATTGAAG
1 AGATTGAAG
64249227 ATGGCGAATC
Statistics
Matches: 371, Mismatches: 128, Indels: 20
0.71 0.25 0.04
Matches are distributed among these distances:
48 3 0.01
49 6 0.02
50 354 0.95
51 6 0.02
52 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTATTTCCCCAACATTACAGTTAAAT
Found at i:64249377 original size:40 final size:44
Alignment explanation
Indices: 64249238--64249478 Score: 194
Period size: 44 Copynumber: 5.6 Consensus size: 44
64249228 TGGCGAATCC
* * *
64249238 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAA--ATA-ATCC
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATT-AA--AATCATAGATCT
*
64249282 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCATAGATCT
* * **
64249326 TATCTCTCTGAAGTTGCA-TAGAGTAGATT-GCAT-ATAG-TCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCATAGATCT
* ** * ** *
64249366 TATCTCCCTGAAGATGCAGCGGAGCAGATTGAAGCCAATA-ATCC
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATC-ATAGATCT
* * * * *
64249410 TATCTCCCTGAAATTGCAGCACAGCGGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCATAGATCT
*
64249454 TATCTCTCTGAAGTTGCAG-AGAGCA
1 TATCTCCCTGAAGTTGCAGTAGAGCA
64249479 TATCGCATTG
Statistics
Matches: 157, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
40 19 0.12
41 14 0.09
42 2 0.01
43 21 0.13
44 101 0.64
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCATAGATCT
Found at i:64249466 original size:128 final size:128
Alignment explanation
Indices: 64249238--64249476 Score: 397
Period size: 128 Copynumber: 1.9 Consensus size: 128
64249228 TGGCGAATCC
* **
64249238 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
* * *
64249303 GAGCAGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCATAGAGTAGATTGCATATAGTCT
66 CAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATTGCATATAGTCT
* *
64249366 TATCTCCCTGAAGATGCAGCGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAATTGCAGCA
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
*
64249431 CAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAG
66 CAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAG
64249477 CATATCGCAT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 102 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (128 bp):
TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAGCA
CAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATTGCATATAGTCT
Found at i:64250394 original size:16 final size:17
Alignment explanation
Indices: 64250373--64250406 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
64250363 TTTCCTTTGC
64250373 TTCTTTT-GGTTTTTTT
1 TTCTTTTCGGTTTTTTT
64250389 TTCTTTTCGGTTTTTTT
1 TTCTTTTCGGTTTTTTT
64250406 T
1 T
64250407 CTATACTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (17 bp):
TTCTTTTCGGTTTTTTT
Found at i:64251074 original size:3 final size:3
Alignment explanation
Indices: 64251066--64251131 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
64251056 ATTAATTGGT
64251066 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TGTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A
* *
64251112 CTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
64251132 TTTTTTATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 1 0.02
3 54 0.96
4 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:64256974 original size:27 final size:28
Alignment explanation
Indices: 64256924--64256976 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
64256914 AATATTAAGT
64256924 TAAACAATAATAAAATAAAGAAAATAGA
1 TAAACAATAATAAAATAAAGAAAATAGA
*
64256952 TAAA-AATTATAAAATATAA-AAAATA
1 TAAACAATAATAAAATA-AAGAAAATA
64256977 TATATGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (28 bp):
TAAACAATAATAAAATAAAGAAAATAGA
Found at i:64270541 original size:9 final size:9
Alignment explanation
Indices: 64270527--64270643 Score: 108
Period size: 9 Copynumber: 12.3 Consensus size: 9
64270517 ATGTATTAGT
64270527 TAAGTTATG
1 TAAGTTATG
64270536 TAAGTTGTTATG
1 TAA---GTTATG
*
64270548 TACGTTATG
1 TAAGTTATG
* *
64270557 TGAGATATG
1 TAAGTTATG
*
64270566 TAAATTATG
1 TAAGTTATG
64270575 TAAGTTATG
1 TAAGTTATG
*
64270584 TGAGTTATG
1 TAAGTTATG
64270593 TAAGTTGTTATG
1 TAA---GTTATG
*
64270605 TAAATTATG
1 TAAGTTATG
*
64270614 TAAGTTATA
1 TAAGTTATG
*
64270623 TGAGTTATG
1 TAAGTTATG
64270632 TAAGTTATG
1 TAAGTTATG
64270641 TAA
1 TAA
64270644 TTTCTTTAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
9 69 0.80
12 17 0.20
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:64270605 original size:39 final size:39
Alignment explanation
Indices: 64270562--64270637 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
64270552 TTATGTGAGA
*
64270562 TATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGT
1 TATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTGT
64270601 TATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 TATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
64270638 ATGTAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (39 bp):
TATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTGT
Found at i:64270631 original size:57 final size:57
Alignment explanation
Indices: 64270529--64270641 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
64270519 GTATTAGTTA
** * *
64270529 AGTTATGTAAGTTGTTATGTACGTTATGTGAGATATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGTG
* * *
64270586 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGT
64270642 AATTTCTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGTG
Found at i:64271095 original size:241 final size:242
Alignment explanation
Indices: 64270668--64271772 Score: 2097
Period size: 241 Copynumber: 4.6 Consensus size: 242
64270658 GATCAATATC
64270668 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
64270733 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
64270798 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
* *
64270863 GATAATAAATATTCAATAGTAAATGAGCTCGATAGAAA-TTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
*
64270909 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
* *
64270974 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGGATATTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
64271039 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGAACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
64271104 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
*
64271151 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTATTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
64271216 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
64271281 TTTTACAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
64271346 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAA-TTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
64271392 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
64271457 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
64271522 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
64271587 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
64271634 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
64271699 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
64271764 ATTTAAAAT
131 TTTTAAAAT
64271773 CTGATGGAGC
Statistics
Matches: 844, Mismatches: 18, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
241 464 0.55
242 380 0.45
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (242 bp):
AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
Found at i:64271578 original size:483 final size:483
Alignment explanation
Indices: 64270668--64271772 Score: 2129
Period size: 483 Copynumber: 2.3 Consensus size: 483
64270658 GATCAATATC
64270668 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
64270733 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTTCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
64270798 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
64270863 GATAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTCAAGTATTTTTGAATTTTTTA
196 GATAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTCAAGTATTTTTGAATTTTTTA
64270928 AGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAA
261 AGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAA
*
64270993 GGCAACCCGTCAGGTTTCCAGCCTATATACTTTGGATATTTAAAATTTTTAAAATAAGGTTGGAG
326 GGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATATTTAAAATTTTTAAAATAAGGTTGGAG
64271058 AGAAGGTCAGATATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTAATAAATATTCAATAG
391 AGAAGGTCAGATATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTAATAAATATTCAATAG
64271123 TAAATAAGCTCGATAGAAATTTTTTTCA
456 TAAATAAGCTCGATAGAAATTTTTTTCA
*
64271151 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTATTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
64271216 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
64271281 TTTTACAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
64271346 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTCAAGTATTTTTGAATTTTTTA
196 GATAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTCAAGTATTTTTGAATTTTTTA
*
64271411 AGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAA
261 AGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAA
*
64271476 GGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATTTTTAAAATAAGGTTGGAG
326 GGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATATTTAAAATTTTTAAAATAAGGTTGGAG
*
64271541 AGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAG
391 AGAAGGTCAGATATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTAATAAATATTCAATAG
64271606 TAAATAAGCTCGATAGAAATTTTTTTCA
456 TAAATAAGCTCGATAGAAATTTTTTTCA
64271634 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
64271699 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
64271764 ATTTAAAAT
131 TTTTAAAAT
64271773 CTGATGGAGC
Statistics
Matches: 611, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
483 611 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (483 bp):
AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
GATAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTCAAGTATTTTTGAATTTTTTA
AGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAA
GGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATATTTAAAATTTTTAAAATAAGGTTGGAG
AGAAGGTCAGATATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTAATAAATATTCAATAG
TAAATAAGCTCGATAGAAATTTTTTTCA
Found at i:64280369 original size:13 final size:13
Alignment explanation
Indices: 64280351--64280384 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
64280341 TTAGGGTTAG
64280351 GGGGAAAATTTTA
1 GGGGAAAATTTTA
*
64280364 GGGGAAAGTTTTA
1 GGGGAAAATTTTA
64280377 GGGGAAAA
1 GGGGAAAA
64280385 ACACTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (13 bp):
GGGGAAAATTTTA
Found at i:64280989 original size:26 final size:25
Alignment explanation
Indices: 64280960--64281014 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
64280950 TATTTAAAAG
*
64280960 AATTAGATAAAATTTGAAATATTGA
1 AATTAGATAAAATTTCAAATATTGA
** *
64280985 TAATTATTTAAAATTTCAAATCTTGA
1 -AATTAGATAAAATTTCAAATATTGA
64281011 AATT
1 AATT
64281015 TATTCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (25 bp):
AATTAGATAAAATTTCAAATATTGA
Found at i:64280998 original size:19 final size:20
Alignment explanation
Indices: 64280948--64280998 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
64280938 AAATTTAACT
*
64280948 ATTATTTAAAAGAATTAGATA
1 ATTATTTAAAA-TATTAGATA
* *
64280969 A-AATTTGAAATATT-GATA
1 ATTATTTAAAATATTAGATA
64280987 ATTATTTAAAAT
1 ATTATTTAAAAT
64280999 TTCAAATCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 7 0.29
21 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTATTTAAAATATTAGATA
Found at i:64281017 original size:26 final size:27
Alignment explanation
Indices: 64280967--64281034 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
64280957 AAGAATTAGA
*
64280967 TAAAATTTGAAATATTGATAATTATT-
1 TAAAATTTGAAATCTTGATAATTATTC
*
64280993 TAAAATTTCAAATCTTGA-AATTTATTC
1 TAAAATTTGAAATCTTGATAA-TTATTC
64281020 T-AAATTTGAAATCTT
1 TAAAATTTGAAATCTT
64281035 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
TAAAATTTGAAATCTTGATAATTATTC
Found at i:64281497 original size:29 final size:28
Alignment explanation
Indices: 64281431--64281520 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
64281421 TAATTAAATC
* * *
64281431 CCTT-AACCCCTAACCCATATCCCTTTAA
1 CCTTAAACCCATAACCCATA-ACCATTAA
*
64281459 CCATTAAACCCATAACCCATGACCATTAA
1 CC-TTAAACCCATAACCCATAACCATTAA
* *
64281488 TCCTTAAACCCATAATCCATAACCCTTAA
1 -CCTTAAACCCATAACCCATAACCATTAA
64281517 CCTT
1 CCTT
64281521 TACCCACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.12
29 31 0.60
30 15 0.29
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.27
Consensus pattern (28 bp):
CCTTAAACCCATAACCCATAACCATTAA
Found at i:64281514 original size:22 final size:22
Alignment explanation
Indices: 64281456--64281516 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
64281446 CATATCCCTT
*
64281456 TAACCATTAAACCCAT-AACCCA
1 TAACCATT-AACCCTTAAACCCA
* *
64281478 TGACCATTAATCCTTAAACCCA
1 TAACCATTAACCCTTAAACCCA
64281500 TAATCCA-TAACCCTTAA
1 TAA-CCATTAACCCTTAA
64281517 CCTTTACCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 5 0.16
22 24 0.75
23 3 0.09
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.25
Consensus pattern (22 bp):
TAACCATTAACCCTTAAACCCA
Found at i:64281930 original size:28 final size:29
Alignment explanation
Indices: 64281890--64281944 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
64281880 AATAAATTGT
*
64281890 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
64281919 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
64281945 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:64282159 original size:113 final size:115
Alignment explanation
Indices: 64281949--64282173 Score: 276
Period size: 113 Copynumber: 2.0 Consensus size: 115
64281939 CATAAAATAC
*
64281949 TTTTTGCGGCGTTTTTATAAGAAACGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
1 TTTTTGCGGCGTTTTCATAAGAAACGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
** ***
64282014 GCCGCTAATGTCACTAAGGTTTAAAACAAAACGACAGCGTCTTGCTGTTT
66 GCCGCTAATGAAACTAAGGGCCAAAACAAAACGACAGCGTCTTGCTGTTT
* * * * * *
64282064 TTTTTGCGGCGTTTTCCTAA-AACCGCCTCTAATACTCA-ACCTTTAGTGGCGTTTTT-TGAAAA
1 TTTTTGCGGCGTTTTCATAAGAAACGCCGCTAATACT-AGACCTATAGCGGCGTTTTTATAAAAA
* ** *
64282126 CGCCGCTAATGAAACTAAGGGCCGAAAGGAAACGACTGCGTCTTGCTG
65 CGCCGCTAATGAAACTAAGGGCCAAAACAAAACGACAGCGTCTTGCTG
64282174 AAATTATTAG
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
113 44 0.47
114 30 0.32
115 19 0.20
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (115 bp):
TTTTTGCGGCGTTTTCATAAGAAACGCCGCTAATACTAGACCTATAGCGGCGTTTTTATAAAAAC
GCCGCTAATGAAACTAAGGGCCAAAACAAAACGACAGCGTCTTGCTGTTT
Found at i:64282279 original size:40 final size:39
Alignment explanation
Indices: 64282231--64282330 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
64282221 TTGCGGCGTT
*
64282231 TTTTATAAAAGCGCCGCTAATG-CTCGATCTATAGCGGCG
1 TTTTATAAAAACGCCGCTAATGTCT-GATCTATAGCGGCG
* *
64282270 CTTTTATAAAAACGCCGCTAATGTCTTATCTATAGTGGCG
1 -TTTTATAAAAACGCCGCTAATGTCTGATCTATAGCGGCG
64282310 TTTGT-TAAGAAACGCCGCTAA
1 TTT-TATAA-AAACGCCGCTAA
64282331 AAACGCTGCG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
39 6 0.11
40 46 0.85
41 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (39 bp):
TTTTATAAAAACGCCGCTAATGTCTGATCTATAGCGGCG
Found at i:64285561 original size:13 final size:13
Alignment explanation
Indices: 64285543--64285577 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
64285533 TTTCAATACT
64285543 AATAAAAATTAAA
1 AATAAAAATTAAA
* *
64285556 AATAAATATTTAA
1 AATAAAAATTAAA
64285569 AATAAAAAT
1 AATAAAAAT
64285578 GGCATGAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAAAATTAAA
Found at i:64285750 original size:16 final size:16
Alignment explanation
Indices: 64285718--64285757 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
64285708 AGGCATAGTA
64285718 TAATATTTTTAA-TTTT
1 TAAT-TTTTTAACTTTT
64285734 TAATTTTTGTAACTTTT
1 TAATTTTT-TAACTTTT
64285751 TAATTTT
1 TAATTTT
64285758 ATTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 11 0.50
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TAATTTTTTAACTTTT
Found at i:64287723 original size:213 final size:212
Alignment explanation
Indices: 64287332--64288322 Score: 1506
Period size: 213 Copynumber: 4.7 Consensus size: 212
64287322 CAATGGCAGT
* *
64287332 AAACAA-GTTCTCACAGTTGTTCAATCTCAAATCCTTAAGACCAATAAGATTGTCAATTGAGGAT
1 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
*
64287396 GGTAATTCCTTCAAAGCCGTTTTGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGAT
66 GGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGAT
* * * * *
64287461 TTCTGGAAAAATTTCCAATCTCGAGCAGCCTTTAAGTATGAATCTCTCAAGAGATTTCAATTTAT
131 TTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAAG-ATAAAACTCTCAAGAGATTTCAATTTAT
*
64287526 AAAAGCTGCCAGGAAGGC
195 AAAGGCTGCCAGGAAGGC
*
64287544 AAACAAGGTTTTCACATTTGTTCAATCTCAAATCCTCAAGGA-CAATAAGATTGTCAATTGAGGA
1 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAA-GACCAATAAGATTGTCAATTGAGGA
64287608 TGGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGA
65 TGGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGA
*
64287673 TTTTTGGAAAAATCTCCAATCTCGAGCAACCTTCAAGATCAAAACTCTCAAGAGATTTCAATTTA
130 TTTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAAGAT-AAAACTCTCAAGAGATTTCAATTTA
*
64287738 TAAAGGCTGTCAGGAAGGC
194 TAAAGGCTGCCAGGAAGGC
* *
64287757 AAACAAGGTTTTCACATTTGTTCAATCTCAAATCCTCAAGAACAATAAGATTGTCAATTGAGGAT
1 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
64287822 GGTAATTCCTTCAAAGCCG-TTCTGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGA
66 GGTAATTCCTTCAAAGCCGTTTC-GCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGA
64287886 TTTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAAGATCAAAACTCTCAAGAGATTTCAATTTA
130 TTTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAAGAT-AAAACTCTCAAGAGATTTCAATTTA
64287951 TAAAGGCTGCCAGGAAGGC
194 TAAAGGCTGCCAGGAAGGC
64287970 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
1 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
* * ** *
64288035 GGTAATTCCTTCAAAGCCGTTTTGCTTAAATTAAG-ACTCGTCAACCTCTCCATGGTCTCTAAGA
66 GGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGC-TTAACCTCTCCATGGTCTCTAAGA
* * * *
64288099 TTTCGGGAAAAATCTCCAATCTCGAGCAACCTTGAATTG-TGAATCTCTCAAGAGATTTCAATTT
130 TTTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAA--GATAAAACTCTCAAGAGATTTCAATTT
*
64288163 ATAAAGGCTGTCAGGAAGGC
193 ATAAAGGCTGCCAGGAAGGC
* * * * *
64288183 AAACAAGGTTTTCACAATTGTACAATATCAAATTCTGAAGACCAATAAGATTGTCAATTGAGGAT
1 AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
* * ** *** * * * * *
64288248 GGTAATTTCTTCAAAGCCGTTCCATTTAAATCAAGATTCCTCAACCTTTCCATAGTGTCCAAGAT
66 GGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGAT
64288313 TTCTGGAAAA
131 TTCTGGAAAA
64288323 CTACACAGAT
Statistics
Matches: 724, Mismatches: 45, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
212 15 0.02
213 702 0.97
214 6 0.01
215 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (212 bp):
AAACAAGGTTTTCACAGTTGTTCAATCTCAAATCCTCAAGACCAATAAGATTGTCAATTGAGGAT
GGTAATTCCTTCAAAGCCGTTTCGCTTAAATCAAGAAAGCTTAACCTCTCCATGGTCTCTAAGAT
TTCTGGAAAAATCTCCAATCTCGAGCAACCTTCAAGATAAAACTCTCAAGAGATTTCAATTTATA
AAGGCTGCCAGGAAGGC
Found at i:64289028 original size:18 final size:17
Alignment explanation
Indices: 64288994--64289029 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
64288984 TGCACGTAAT
*
64288994 ATTATATAATTAAAATA
1 ATTATATAATAAAAATA
64289011 ATTATATAAATAAAAATA
1 ATTATAT-AATAAAAATA
64289029 A
1 A
64289030 AAATGATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTATATAATAAAAATA
Found at i:64289315 original size:16 final size:17
Alignment explanation
Indices: 64289276--64289314 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
64289266 GGTCTAAAAA
64289276 AATTTTGCATTTACTAAT
1 AATTTTGCATTTAC-AAT
64289294 AATTTTGCATTTA-AAT
1 AATTTTGCATTTACAAT
64289310 -ATTTT
1 AATTTT
64289315 TTTTCTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 3 0.14
18 13 0.62
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (17 bp):
AATTTTGCATTTACAAT
Found at i:64294042 original size:18 final size:18
Alignment explanation
Indices: 64293999--64294054 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
64293989 TCACGTCAAC
*
64293999 AATTAAATAATTTTTAAAA
1 AATTAAA-AATATTTAAAA
*
64294018 ATTTTAAAAATATTTAAAA
1 A-ATTAAAAATATTTAAAA
*
64294037 AATTAAAATTA-TTAAAA
1 AATTAAAAATATTTAAAA
64294054 A
1 A
64294055 GTATAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.22
18 8 0.25
19 12 0.38
20 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAAAAATATTTAAAA
Found at i:64294062 original size:18 final size:17
Alignment explanation
Indices: 64294007--64294054 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
64293997 ACAATTAAAT
* *
64294007 AATTTTTAAAAATTTTAA
1 AATTATTAAAAA-ATTAA
*
64294025 AAATATTTAAAAAATTAA
1 AATTA-TTAAAAAATTAA
64294043 AATTATTAAAAA
1 AATTATTAAAAA
64294055 GTATAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 7 0.28
18 11 0.44
19 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTATTAAAAAATTAA
Found at i:64298176 original size:20 final size:21
Alignment explanation
Indices: 64298148--64298196 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
64298138 ATATATCATT
*
64298148 ATTTTATTTGATTCTAAT-AA
1 ATTTGATTTGATTCTAATCAA
*
64298168 ATTTGATTTGATTTTAATCAA
1 ATTTGATTTGATTCTAATCAA
64298189 A-TTGATTT
1 ATTTGATTT
64298197 AATTGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTTGATTTGATTCTAATCAA
Found at i:64304155 original size:32 final size:32
Alignment explanation
Indices: 64304119--64304183 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
64304109 TGTATGCATT
64304119 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
64304151 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
64304183 T
1 T
64304184 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:64305657 original size:26 final size:26
Alignment explanation
Indices: 64305628--64305680 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
64305618 TTTACAGTTT
64305628 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
64305654 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
64305680 T
1 T
64305681 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:64307721 original size:23 final size:24
Alignment explanation
Indices: 64307677--64307722 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
64307667 TTAAATCTTA
**
64307677 AAAATAAAAAATTTATGTTATCAT
1 AAAATAAAAAATTTATAATATCAT
*
64307701 AAAATAAAAAGTTTA-AATATCA
1 AAAATAAAAAATTTATAATATCA
64307723 ACAAACTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATAAAAAATTTATAATATCAT
Found at i:64314775 original size:107 final size:108
Alignment explanation
Indices: 64314575--64314790 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 108
64314565 AAAAAACACG
64314575 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
64314640 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
*
64314683 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
*
64314747 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
64314790 T
1 T
64314791 TTTTTTAAAA
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 93 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Done.