Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 25 of 27
Found at i:4352806 original size:2 final size:2
Alignment explanation
Indices: 4352799--4352825 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4352789 ATTACCATGC
4352799 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4352826 AATAGCTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4356086 original size:4 final size:4
Alignment explanation
Indices: 4356074--4356104 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
4356064 ATATATAAAA
4356074 TTAT ATTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TT
4356105 GATATTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:4356475 original size:2 final size:2
Alignment explanation
Indices: 4356463--4356517 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
4356453 CTTTATATTC
* * * * *
4356463 AT AT TT AT AT AT AT AT AT AT AT AT AT -T TT TT AT GT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4356504 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
4356518 AAATGTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (2 bp):
AT
Found at i:4356526 original size:25 final size:25
Alignment explanation
Indices: 4356474--4356524 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4356464 TATTTATATA
***
4356474 TATATATATATATATTTTTTATGTT
1 TATATATATATATATTTAAAATGTT
4356499 TATATATATATATATTATAAAATGTT
1 TATATATATATATATT-TAAAATGTT
4356525 ATTGGTGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATATATATTTAAAATGTT
Found at i:4357487 original size:22 final size:22
Alignment explanation
Indices: 4357446--4357487 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4357436 ATAGAAATCA
*
4357446 TATTTAAATTTAATATTTTATT
1 TATTTAAATTTAATAATTTATT
4357468 TATTTAAAATTTAA-AATTTA
1 TATTT-AAATTTAATAATTTA
4357488 ACCCTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTAAATTTAATAATTTATT
Found at i:4358566 original size:2 final size:2
Alignment explanation
Indices: 4358559--4358583 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4358549 TTAAATTTTA
4358559 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4358584 GTAGGATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4359801 original size:23 final size:24
Alignment explanation
Indices: 4359769--4359818 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
4359759 TTATTTAAAT
4359769 TTAATTATAAAAAAATATATAATA
1 TTAATTATAAAAAAATATATAATA
* * *
4359793 TTAA-TATAAAAATATTTTTAATA
1 TTAATTATAAAAAAATATATAATA
4359816 TTA
1 TTA
4359819 CTACTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAATTATAAAAAAATATATAATA
Found at i:4363019 original size:15 final size:16
Alignment explanation
Indices: 4362995--4363032 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4362985 GAAAGAGTTC
4362995 TAAATATTATAATT-T
1 TAAATATTATAATTAT
* *
4363010 TAAATTTTATATTTAT
1 TAAATATTATAATTAT
4363026 TAAATAT
1 TAAATAT
4363033 AAAAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAATATTATAATTAT
Found at i:4365736 original size:2 final size:2
Alignment explanation
Indices: 4365729--4365754 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4365719 TTAAAACAGC
4365729 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4365755 GTATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4366359 original size:2 final size:2
Alignment explanation
Indices: 4366352--4366384 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4366342 ACGTTCCTGG
4366352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4366385 GCACACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4366921 original size:47 final size:47
Alignment explanation
Indices: 4366869--4366961 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
4366859 ATTCATAACT
*
4366869 ATTTATTGATATTTCTAATTCACCTTCAACCCTTATTTAATTAATTA
1 ATTTATTGATATTTCAAATTCACCTTCAACCCTTATTTAATTAATTA
* ** *
4366916 ATTTATTGATATTTCAAATTTACCTTTGACTCTTATTTAATTAATT
1 ATTTATTGATATTTCAAATTCACCTTCAACCCTTATTTAATTAATT
4366962 TACTTAGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.52
Consensus pattern (47 bp):
ATTTATTGATATTTCAAATTCACCTTCAACCCTTATTTAATTAATTA
Found at i:4366974 original size:47 final size:47
Alignment explanation
Indices: 4366876--4366974 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
4366866 ACTATTTATT
* * **
4366876 GATATTTCTAATTCACCTTCAACCCTTATTTAATTAATTAATTTATT
1 GATATTTCAAATTCACCTTCAACCCTTATTTAATTAATTAACTTAGA
* ** * *
4366923 GATATTTCAAATTTACCTTTGACTCTTATTTAATTAATTTACTTAGA
1 GATATTTCAAATTCACCTTCAACCCTTATTTAATTAATTAACTTAGA
4366970 GATAT
1 GATAT
4366975 GACTAAGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.48
Consensus pattern (47 bp):
GATATTTCAAATTCACCTTCAACCCTTATTTAATTAATTAACTTAGA
Found at i:4370420 original size:2 final size:2
Alignment explanation
Indices: 4370413--4370450 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4370403 CTATGCCTAA
*
4370413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4370451 GCATTGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4376425 original size:23 final size:23
Alignment explanation
Indices: 4376389--4376435 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4376379 TAGTTACAAG
*
4376389 TTTAACTAAGTTTTTTTTATTATT
1 TTTAACTAAGTTTTTATTA-TATT
*
4376413 TTTAA-TAGGTTTTTATTATATT
1 TTTAACTAAGTTTTTATTATATT
4376435 T
1 T
4376436 AATTACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (23 bp):
TTTAACTAAGTTTTTATTATATT
Found at i:4378306 original size:4 final size:4
Alignment explanation
Indices: 4378297--4378329 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4378287 ACTCAACAAT
4378297 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
4378330 TTTTTGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:4378775 original size:2 final size:2
Alignment explanation
Indices: 4378768--4378811 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4378758 TCTCTTATTT
4378768 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4378810 TA
1 TA
4378812 CACTGATGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4380852 original size:2 final size:2
Alignment explanation
Indices: 4380845--4380885 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4380835 AGTAAGTCAG
**
4380845 TC TC TC TC TC TC TC TC TC TC TC AG TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4380886 GGGCATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.02, C:0.46, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:4382414 original size:2 final size:2
Alignment explanation
Indices: 4382402--4382441 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4382392 TAAATGAATC
*
4382402 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4382442 TAGATTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4388090 original size:15 final size:12
Alignment explanation
Indices: 4388052--4388081 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
4388042 CCTTTCCTTC
4388052 TTCTGTATTGTTT
1 TTCT-TATTGTTT
4388065 TTCTTATTGTTT
1 TTCTTATTGTTT
4388077 TTCTT
1 TTCTT
4388082 CTCATTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.73
Consensus pattern (12 bp):
TTCTTATTGTTT
Found at i:4392261 original size:15 final size:16
Alignment explanation
Indices: 4392241--4392274 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4392231 TAATATATAC
4392241 TATTTATA-TTATCTA
1 TATTTATATTTATCTA
4392256 TATTTATATTTATCTA
1 TATTTATATTTATCTA
4392272 TAT
1 TAT
4392275 ATATTACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATATTTATCTA
Found at i:4394782 original size:12 final size:12
Alignment explanation
Indices: 4394762--4394805 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4394752 ATCTATAATA
*
4394762 ATTATTTTTATT
1 ATTAATTTTATT
4394774 ATTAATTTTATT
1 ATTAATTTTATT
* *
4394786 TTTAATATTATT
1 ATTAATTTTATT
*
4394798 TTTAATTT
1 ATTAATTT
4394806 CATCAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTAATTTTATT
Found at i:4394786 original size:18 final size:18
Alignment explanation
Indices: 4394763--4394801 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4394753 TCTATAATAA
*
4394763 TTATTTTTATTATTAATT
1 TTATTTTTAATATTAATT
*
4394781 TTATTTTTAATATTATTT
1 TTATTTTTAATATTAATT
4394799 TTA
1 TTA
4394802 ATTTCATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTAATATTAATT
Found at i:4395661 original size:4 final size:4
Alignment explanation
Indices: 4395654--4395678 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4395644 TATATATATA
4395654 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
4395679 TAGAGCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:4409541 original size:32 final size:32
Alignment explanation
Indices: 4409476--4409541 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
4409466 ATAAATTAGC
* *
4409476 ATAAATTTTGATATGTTTATAATTTATATTAT
1 ATAAATTTTGATATGTTTATAATTAATACTAT
4409508 ATAAATTTTGACATAT-TTTAT-ATTAATACTAT
1 ATAAATTTTG--ATATGTTTATAATTAATACTAT
4409540 AT
1 AT
4409542 TGTATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 21 0.70
33 5 0.17
34 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (32 bp):
ATAAATTTTGATATGTTTATAATTAATACTAT
Found at i:4410170 original size:4 final size:4
Alignment explanation
Indices: 4410161--4410190 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4410151 CGAAAAAGAC
4410161 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
4410191 ACCATTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:4415948 original size:2 final size:2
Alignment explanation
Indices: 4415943--4415971 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4415933 TATATATATA
4415943 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4415972 AGGGAATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4416815 original size:3 final size:3
Alignment explanation
Indices: 4416809--4416849 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4416799 GAAAAAAAAA
4416809 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4416850 ACGGTCGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4421066 original size:21 final size:20
Alignment explanation
Indices: 4421034--4421074 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
4421024 AAAAAAATTA
4421034 TTAAATTAAATTTAAATATT
1 TTAAATTAAATTTAAATATT
*
4421054 TTAATATTCAATTTAAATATT
1 TTAA-ATTAAATTTAAATATT
4421075 CTATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAATTAAATTTAAATATT
Found at i:4421082 original size:21 final size:21
Alignment explanation
Indices: 4421042--4421082 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4421032 TATTAAATTA
*
4421042 AATTTAAATATTTTAATATTC
1 AATTTAAATATTCTAATATTC
*
4421063 AATTTAAATATTCTATTATT
1 AATTTAAATATTCTAATATT
4421083 TTTAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTTAAATATTCTAATATTC
Found at i:4421218 original size:48 final size:49
Alignment explanation
Indices: 4421101--4421229 Score: 124
Period size: 48 Copynumber: 2.7 Consensus size: 49
4421091 TTTATTTGAA
* *
4421101 TATAAA-AAATAAATTTAAAATAAAATATAAAAACTAACTTTAATTTTT
1 TATAAATAAATAAATTTAAATTAAAAGATAAAAACTAACTTTAATTTTT
** *
4421149 TATAAATAAATAAACCT-AATTAAAAGATATCAAA-TAA-TTTAATTTTT
1 TATAAATAAATAAATTTAAATTAAAAGATA-AAAACTAACTTTAATTTTT
** *
4421196 TAT-GTTAAATTAAATTTAAATTATAAAAATAAAA
1 TATAAATAAA-TAAATTTAAATTA-AAAGATAAAA
4421230 CTTAATAAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
46 4 0.06
47 18 0.28
48 26 0.40
49 17 0.26
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (49 bp):
TATAAATAAATAAATTTAAATTAAAAGATAAAAACTAACTTTAATTTTT
Found at i:4422877 original size:12 final size:12
Alignment explanation
Indices: 4422860--4422884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4422850 CAATTAACTC
4422860 TATGTGTATATA
1 TATGTGTATATA
4422872 TATGTGTATATA
1 TATGTGTATATA
4422884 T
1 T
4422885 TTTATCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATGTGTATATA
Found at i:4425188 original size:19 final size:17
Alignment explanation
Indices: 4425152--4425185 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4425142 AGTATAACTG
*
4425152 ATGTTAAAATTATTTTT
1 ATGTCAAAATTATTTTT
4425169 ATGTCAAAATTATTTTT
1 ATGTCAAAATTATTTTT
4425186 TTAACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
ATGTCAAAATTATTTTT
Found at i:4426976 original size:21 final size:23
Alignment explanation
Indices: 4426923--4426976 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
4426913 ATAATAACTG
*
4426923 TATTAATTAAATTATTAAAAAATA
1 TATT-ATTAAAATATTAAAAAATA
* *
4426947 TATTTTTAAAATA-TAAATAA-A
1 TATTATTAAAATATTAAAAAATA
4426968 TATTATTAA
1 TATTATTAA
4426977 TTAAATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.35
22 6 0.23
23 7 0.27
24 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTATTAAAATATTAAAAAATA
Found at i:4426982 original size:24 final size:23
Alignment explanation
Indices: 4426923--4426983 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
4426913 ATAATAACTG
4426923 TATTAATTAAATTATTAAAAAATA
1 TATTAATTAAA-TATTAAAAAATA
*
4426947 TATT-TTTAAA-ATATAAATAAATA
1 TATTAATTAAATAT-TAAA-AAATA
4426970 TTATTAATTAAATA
1 -TATTAATTAAATA
4426984 ATAATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.07
22 4 0.13
23 10 0.33
24 8 0.27
25 5 0.17
26 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTAATTAAATATTAAAAAATA
Found at i:4435000 original size:1 final size:1
Alignment explanation
Indices: 4434994--4435018 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4434984 CCTAGTGAAT
4434994 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
4435019 ATGGCGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:4436288 original size:18 final size:18
Alignment explanation
Indices: 4436267--4436307 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4436257 TCTCCACCAG
*
4436267 CACCATAGCCACCCCCAC
1 CACCAAAGCCACCCCCAC
* *
4436285 CACCAAAGCCACCTCCTC
1 CACCAAAGCCACCCCCAC
4436303 CACCA
1 CACCA
4436308 CCACCTCCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.59, G:0.05, T:0.07
Consensus pattern (18 bp):
CACCAAAGCCACCCCCAC
Found at i:4436320 original size:18 final size:18
Alignment explanation
Indices: 4436299--4436333 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4436289 AAAGCCACCT
4436299 CCTCCA-CCACCACCTCCG
1 CCTCCAGCC-CCACCTCCG
4436317 CCTCCAGCCCCACCTCC
1 CCTCCAGCCCCACCTCC
4436334 CCCACCACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.14, C:0.69, G:0.06, T:0.11
Consensus pattern (18 bp):
CCTCCAGCCCCACCTCCG
Found at i:4436453 original size:54 final size:54
Alignment explanation
Indices: 4436344--4436454 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 54
4436334 CCCACCACTC
* * * *
4436344 CCATATCCACCTCCATGAGCTCCTCCAGCACCATAACCTGCTCCACCTCCCCCA
1 CCATATCCACCTCCATGAGCTCCACCAGCACCACAACCTGCACCACCTCCACCA
* * ** *
4436398 CCATATCCACCTCCATGAGCTCCACCGGCTCCACCTCCTTCACCA-CTACCACCA
1 CCATATCCACCTCCATGAGCTCCACCAGCACCACAACCTGCACCACCT-CCACCA
4436452 CCA
1 CCA
4436455 CCTCCATATC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 45 0.96
ACGTcount: A:0.23, C:0.52, G:0.07, T:0.18
Consensus pattern (54 bp):
CCATATCCACCTCCATGAGCTCCACCAGCACCACAACCTGCACCACCTCCACCA
Found at i:4436966 original size:132 final size:136
Alignment explanation
Indices: 4436667--4436971 Score: 397
Period size: 132 Copynumber: 2.3 Consensus size: 136
4436657 CAATGGCATA
* ** * ** *
4436667 ACCACTACCGCCACCACTGCCGCCGCCATGCCCACCAGTGGGTCCACTTCCAGAACCGACACCTT
1 ACCACTACCCCCACCACCCCCGCCACCATGCCCACCAGCAGGTCCACATCCAGAACCGACACCTT
*
4436732 CTCCACTACCACCACCACTACCACTTCCATATCCGGCACCATGCTCACCTCCAGCACCATATGCA
66 CT-C-CTACCACCACCACTACCACTTCCATATCCGGAACCATGCTCACCTCCAGCACCATATGCA
4436797 GAACCGCC
129 GAACCGCC
* * * *
4436805 ACCA-TGACCCCCACCACCTCCACCTCCATGCCCACCAGCAGGTCCACATCCAGAGCC-AGCACC
1 ACCACT-ACCCCCACCACCCCCGCCACCATGCCCACCAGCAGGTCCACATCCAGAACCGA-CACC
* *
4436868 -T-T-CT-CCACCACCGCTACCACTTCCATATCCGGAAGCATGCTCACCTCCAGCACCATATGCA
64 TTCTCCTACCACCACCACTACCACTTCCATATCCGGAACCATGCTCACCTCCAGCACCATATGCA
4436929 GAACCGCC
129 GAACCGCC
*
4436937 ACCACTACCCCCACCACCCCCGCCACCATGTCCAC
1 ACCACTACCCCCACCACCCCCGCCACCATGCCCAC
4436972 TTGCAGCTCC
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
132 91 0.61
133 3 0.02
136 1 0.01
137 3 0.02
138 50 0.34
ACGTcount: A:0.24, C:0.50, G:0.12, T:0.14
Consensus pattern (136 bp):
ACCACTACCCCCACCACCCCCGCCACCATGCCCACCAGCAGGTCCACATCCAGAACCGACACCTT
CTCCTACCACCACCACTACCACTTCCATATCCGGAACCATGCTCACCTCCAGCACCATATGCAGA
ACCGCC
Found at i:4437744 original size:2 final size:2
Alignment explanation
Indices: 4437737--4437771 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4437727 TTCTATTGTG
4437737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4437772 ATAGTGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4438757 original size:2 final size:2
Alignment explanation
Indices: 4438750--4438785 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4438740 ACAGATGCAA
*
4438750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4438786 GCAGAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4439952 original size:7 final size:7
Alignment explanation
Indices: 4439940--4439969 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
4439930 AAAGTGGAGC
4439940 AGCAAAG
1 AGCAAAG
4439947 AGCAAAG
1 AGCAAAG
4439954 AGCAAAG
1 AGCAAAG
4439961 AGCAAAG
1 AGCAAAG
4439968 AG
1 AG
4439970 GGTGCATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.13, G:0.30, T:0.00
Consensus pattern (7 bp):
AGCAAAG
Found at i:4440469 original size:18 final size:18
Alignment explanation
Indices: 4440448--4440486 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4440438 CACCTCCATA
* *
4440448 ACCTCCACCATTTGCACC
1 ACCTCCACCATATCCACC
*
4440466 ACCTGCACCATATCCACC
1 ACCTCCACCATATCCACC
4440484 ACC
1 ACC
4440487 ATGGCCACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (18 bp):
ACCTCCACCATATCCACC
Found at i:4440540 original size:18 final size:18
Alignment explanation
Indices: 4440514--4440552 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4440504 CACCTCCATA
* *
4440514 ACCTCCACCATTTGCACC
1 ACCTCCACCATATCCACC
*
4440532 ACCTGCACCATATCCACC
1 ACCTCCACCATATCCACC
4440550 ACC
1 ACC
4440553 ATGGCCACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (18 bp):
ACCTCCACCATATCCACC
Found at i:4440630 original size:66 final size:66
Alignment explanation
Indices: 4440413--4440619 Score: 380
Period size: 66 Copynumber: 3.1 Consensus size: 66
4440403 AGGCTGATAG
*
4440413 CCACCACCATGGCCACCACCCTCACCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
1 CCACCACCATGGCCACCACCCTCGCCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
4440478 T
66 T
4440479 CCACCACCATGGCCACCACCCTCGCCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
1 CCACCACCATGGCCACCACCCTCGCCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
4440544 T
66 T
*
4440545 CCACCACCATGGCCACCACCCTCGCCACCTCCA-AATCCTCCACCATTTGCACCTCCTGCACCAT
1 CCACCACCATGGCCACCACCCTCGCCACCTCCATAA-CCTCCACCATTTGCACCACCTGCACCAT
4440609 AT
65 AT
4440611 CCACCACCA
1 CCACCACCA
4440620 CCTCCACCAC
Statistics
Matches: 138, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
65 2 0.01
66 136 0.99
ACGTcount: A:0.25, C:0.52, G:0.07, T:0.16
Consensus pattern (66 bp):
CCACCACCATGGCCACCACCCTCGCCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
T
Found at i:4440641 original size:27 final size:27
Alignment explanation
Indices: 4440611--4440675 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
4440601 TGCACCATAT
*
4440611 CCACCACCACCTCCACCACCA-GAACCG
1 CCACCACCACCACCACCACCATG-ACCG
*
4440638 CCACCACCACCACCACCACCATGACTG
1 CCACCACCACCACCACCACCATGACCG
4440665 CCACCACCACC
1 CCACCACCACC
4440676 GGAACCTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.60, G:0.06, T:0.05
Consensus pattern (27 bp):
CCACCACCACCACCACCACCATGACCG
Found at i:4440654 original size:66 final size:62
Alignment explanation
Indices: 4440413--4440655 Score: 261
Period size: 66 Copynumber: 3.7 Consensus size: 62
4440403 AGGCTGATAG
* *
4440413 CCACCACCATGGCCACCACCCTCACCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
1 CCACCACCATGGCCACCACCC-CGCCACCACC---ACCTCCACCATTTGCACCACCTGCACCATA
4440478 T
62 T
*
4440479 CCACCACCATGGCCACCACCCTCGCCACCTCCATAACCTCCACCATTTGCACCACCTGCACCATA
1 CCACCACCATGGCCACCACCC-CGCCACCACC---ACCTCCACCATTTGCACCACCTGCACCATA
4440544 T
62 T
* *
4440545 CCACCACCATGGCCACCACCCTCGCCACCTCCAAATCCTCCACCATTTGCACCTCCTGCACCATA
1 CCACCACCATGGCCACCACCC-CGCCACCACC--A-CCTCCACCATTTGCACCACCTGCACCATA
4440610 T
62 T
*** *
4440611 CCACCACCACCTCCACCACCAGAACCGCCACCACCACCACCACCA
1 CCACCACCATGGCCACCACC----CCGCCACCACCACCTCCACCA
4440656 CCATGACTGC
Statistics
Matches: 164, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
65 2 0.01
66 151 0.92
67 1 0.01
69 9 0.05
70 1 0.01
ACGTcount: A:0.26, C:0.53, G:0.07, T:0.14
Consensus pattern (62 bp):
CCACCACCATGGCCACCACCCCGCCACCACCACCTCCACCATTTGCACCACCTGCACCATAT
Found at i:4440675 original size:3 final size:3
Alignment explanation
Indices: 4440611--4440658 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
4440601 TGCACCATAT
* ** *
4440611 CCA CCA CCA CCT CCA CCA CCA GAA CCG CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
4440659 TGACTGCCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.62, G:0.04, T:0.02
Consensus pattern (3 bp):
CCA
Found at i:4440828 original size:111 final size:109
Alignment explanation
Indices: 4440751--4441079 Score: 473
Period size: 111 Copynumber: 3.0 Consensus size: 109
4440741 CCCCACCACT
* *
4440751 CCCAGCACCACCACCTCCATGTCCTCTGGCTCCTCCATACCCAGCACCAGCACCAGCTCCACCTC
1 CCCAGCACCACCACCTCCATGTCCACCGGCTCCTCCATACCCAGCACCAGCACCAGCTCCACCTC
4440816 CTTCACCACCTCCACTTCCATATCCAGAAGCTCCACCTGCACTAC
66 CTTCACCACCTCCAC-TCCATATCCAGAAGCTCCACCTGCACTAC
* * *
4440861 CTCCACCACCACCACCTCCATGTCCACCGGCTTCTCCATACCCAGCACC-GCTACTAGCTCCACC
1 C-CCAGCACCACCACCTCCATGTCCACCGGCTCCTCCATACCCAGCACCAGC-ACCAGCTCCACC
*
4440925 TCCTTCACCACCTCCTCCTCCATATCCAGAAGCTCCACCTGCACTAC
64 TCCTTCACCACCTCC-ACTCCATATCCAGAAGCTCCACCTGCACTAC
* * * * *
4440972 CTCTGCCACCACCACCTCCATGTCCACCGG-TCCCTCCATAGCCAGGACCACCACCAGCTCCACC
1 CCCAG-CACCACCACCTCCATGTCCACCGGCT-CCTCCATACCCAGCACCAGCACCAGCTCCACC
*
4441036 TCCTTCACCACCTCCACTCCCATATCCAGAAGCTCCACCAGCAC
64 TCCTTCACCACCTCCACT-CCATATCCAGAAGCTCCACCTGCAC
4441080 CTCCTCCATG
Statistics
Matches: 196, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
110 7 0.04
111 187 0.95
112 2 0.01
ACGTcount: A:0.22, C:0.51, G:0.09, T:0.18
Consensus pattern (109 bp):
CCCAGCACCACCACCTCCATGTCCACCGGCTCCTCCATACCCAGCACCAGCACCAGCTCCACCTC
CTTCACCACCTCCACTCCATATCCAGAAGCTCCACCTGCACTAC
Found at i:4441035 original size:48 final size:50
Alignment explanation
Indices: 4440981--4441097 Score: 125
Period size: 48 Copynumber: 2.4 Consensus size: 50
4440971 CCTCTGCCAC
*
4440981 CACCACCTCCATGTCCACCGGTCC-CT-CCATAGCCAGGACCACCACCAG
1 CACCACCTCCATGTCCACCGGTCCACTCCCATAGCCAGAACCACCACCAG
* * ** * * *
4441029 CTCCACCTCCTTCACCACC--TCCACTCCCATATCCAGAAGCTCCACCAG
1 CACCACCTCCATGTCCACCGGTCCACTCCCATAGCCAGAACCACCACCAG
*
4441077 CACCTCCTCCATGTCCACCGG
1 CACCACCTCCATGTCCACCGG
4441098 CACCCCCATA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
46 3 0.06
47 2 0.04
48 47 0.90
ACGTcount: A:0.21, C:0.51, G:0.11, T:0.16
Consensus pattern (50 bp):
CACCACCTCCATGTCCACCGGTCCACTCCCATAGCCAGAACCACCACCAG
Found at i:4443129 original size:2 final size:2
Alignment explanation
Indices: 4443124--4443148 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4443114 ATATATATAT
4443124 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4443149 TCCACCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4447786 original size:2 final size:2
Alignment explanation
Indices: 4447779--4447817 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4447769 AAGATGTAAC
4447779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4447818 TGTGTGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4450582 original size:21 final size:19
Alignment explanation
Indices: 4450543--4450585 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4450533 AATGAATAAG
*
4450543 TAAAAAATTTATTATGTAA
1 TAAAAAATTTATTAAGTAA
4450562 TAAAAAATTTATCTTAAGTAA
1 TAAAAAATTTA--TTAAGTAA
4450583 TAA
1 TAA
4450586 TATTATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAAAAATTTATTAAGTAA
Found at i:4455942 original size:15 final size:16
Alignment explanation
Indices: 4455914--4455950 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4455904 TAGATTGAAA
4455914 ATTAAAATTTAATTTT
1 ATTAAAATTTAATTTT
4455930 ATTAAAA-TTAATTTT
1 ATTAAAATTTAATTTT
*
4455945 TTTAAA
1 ATTAAA
4455951 TATATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTAAAATTTAATTTT
Found at i:4458825 original size:1 final size:1
Alignment explanation
Indices: 4458819--4458847 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4458809 TTGTTTCTAG
4458819 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4458848 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:4460728 original size:16 final size:17
Alignment explanation
Indices: 4460707--4460738 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4460697 AAAGAAAAAA
4460707 AAGATTT-ATAAGATAG
1 AAGATTTAATAAGATAG
4460723 AAGATTTAATAAGATA
1 AAGATTTAATAAGATA
4460739 AATTTGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (17 bp):
AAGATTTAATAAGATAG
Found at i:4465974 original size:2 final size:2
Alignment explanation
Indices: 4465969--4465998 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4465959 AAATAGTACC
4465969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4465999 CACATGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4466421 original size:30 final size:30
Alignment explanation
Indices: 4466385--4466445 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4466375 TAAAAATTAA
4466385 TTAATATTAAAAACCTATTAAAGTATAAAT
1 TTAATATTAAAAACCTATTAAAGTATAAAT
** * *
4466415 TTAATATTAAAAATTTATTTAATTATAAAT
1 TTAATATTAAAAACCTATTAAAGTATAAAT
4466445 T
1 T
4466446 ATCAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAATATTAAAAACCTATTAAAGTATAAAT
Found at i:4466436 original size:18 final size:17
Alignment explanation
Indices: 4466413--4466475 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 17
4466403 TAAAGTATAA
4466413 ATTTAATATTAAAAATTT
1 ATTTAA-ATTAAAAATTT
*
4466431 ATTT-AATTATAAATTAT
1 ATTTAAATTAAAAATT-T
*
4466448 CAATTAAAAATTAAAAATTT
1 --ATT-TAAATTAAAAATTT
4466468 ATTTAAAT
1 ATTTAAAT
4466476 ATAATAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
16 9 0.25
17 6 0.17
18 7 0.19
19 3 0.08
20 1 0.03
21 10 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTAAATTAAAAATTT
Found at i:4470173 original size:15 final size:15
Alignment explanation
Indices: 4470144--4470186 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
4470134 TTTATATAAT
*
4470144 ATATT-ATTGATTAA
1 ATATTAATTAATTAA
4470158 ATATTAATTAATTAA
1 ATATTAATTAATTAA
4470173 ATATTAATTAATTA
1 ATATTAATTAATTA
4470187 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATTAATTAATTAA
Found at i:4471320 original size:13 final size:13
Alignment explanation
Indices: 4471302--4471333 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4471292 GAACAGAGCT
4471302 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
4471315 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
*
4471328 TGAAAA
1 AGAAAA
4471334 GTGGATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:4473394 original size:3 final size:3
Alignment explanation
Indices: 4473376--4473410 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
4473366 GATGGTGATC
* *
4473376 TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4473411 TTCCCCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4475700 original size:20 final size:20
Alignment explanation
Indices: 4475677--4475718 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4475667 AAAAAAAAAA
4475677 AAAAAATCCCAAAAGATCTT
1 AAAAAATCCCAAAAGATCTT
4475697 AAAAAATCCCAAAAGATCTT
1 AAAAAATCCCAAAAGATCTT
4475717 AA
1 AA
4475719 TGCTTATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAAATCCCAAAAGATCTT
Found at i:4490228 original size:22 final size:21
Alignment explanation
Indices: 4490200--4490266 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
4490190 GATATTAAAT
4490200 TAATATTTTATAATTAAAAAAA
1 TAATATTTTATAA-TAAAAAAA
* *
4490222 TAATATTATCATAATAAAAATA
1 TAATATT-TTATAATAAAAAAA
*
4490244 T-TTATTTTATATATAAATAAAA
1 TAATATTTTATA-ATAAA-AAAA
4490266 T
1 T
4490267 TTATATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 19 0.51
23 5 0.14
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATATTTTATAATAAAAAAA
Found at i:4501379 original size:3 final size:3
Alignment explanation
Indices: 4501371--4501406 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4501361 GGACGCTGAG
4501371 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
4501407 AAGGAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4505395 original size:2 final size:2
Alignment explanation
Indices: 4505382--4505451 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
4505372 TTGTAGCATC
*
4505382 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4505424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4505452 CATGCTGCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4509041 original size:26 final size:26
Alignment explanation
Indices: 4509008--4509057 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4508998 TAAATTTTTA
4509008 ATAAAATTTT-ATTAAAATACTTATTT
1 ATAAAATTTTAATTAAAATA-TTATTT
*
4509034 ATAAAATTTTAATTAATATATTAT
1 ATAAAATTTTAATTAAAATATTAT
4509058 AAATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAAAATTTTAATTAAAATATTATTT
Found at i:4509067 original size:26 final size:26
Alignment explanation
Indices: 4509007--4509067 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
4508997 TTAAATTTTT
*
4509007 AATAAAATTTTATTAAAATACTTATT
1 AATAAAATTTTATTAAAATACTTATA
* *
4509033 TATAAAATTTTAATTAATATA-TTATA
1 AATAAAATTTT-ATTAAAATACTTATA
*
4509059 AATATAATT
1 AATAAAATT
4509068 ATTTAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAAAATTTTATTAAAATACTTATA
Found at i:4509076 original size:14 final size:16
Alignment explanation
Indices: 4509047--4509085 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
4509037 AAATTTTAAT
4509047 TAATATATTATAAATA
1 TAATATATTATAAATA
4509063 TAAT-TATT-TAAATA
1 TAATATATTATAAATA
4509077 TAATA-ATTA
1 TAATATATTA
4509086 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.62
15 4 0.19
16 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATATTATAAATA
Found at i:4510862 original size:14 final size:17
Alignment explanation
Indices: 4510833--4510868 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4510823 TGATAATTTA
4510833 TAAAATTATATAATAT-
1 TAAAATTATATAATATC
4510849 TAAAATT-T-TAATATC
1 TAAAATTATATAATATC
4510864 TAAAA
1 TAAAA
4510869 CTACTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTATATAATATC
Found at i:4513859 original size:7 final size:7
Alignment explanation
Indices: 4513847--4513872 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4513837 TCACTTTCAC
4513847 CTTCTCT
1 CTTCTCT
4513854 CTTCTCT
1 CTTCTCT
4513861 CTTCTCT
1 CTTCTCT
4513868 CTTCT
1 CTTCT
4513873 TCCTCTTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTCT
Found at i:4513974 original size:36 final size:33
Alignment explanation
Indices: 4513932--4514006 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 33
4513922 CATACCATAT
*
4513932 TCATATTT-ATATTATTTATTATATTTTAATTTTATA
1 TCATATTTCA-ATTATTT-TT-TATTATAA-TTTATA
4513968 TCATATTTCAATTATTTTTTATTATAATTTATA
1 TCATATTTCAATTATTTTTTATTATAATTTATA
*
4514001 TTATAT
1 TCATAT
4514007 AATCATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 11 0.31
34 7 0.19
35 2 0.06
36 15 0.42
37 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (33 bp):
TCATATTTCAATTATTTTTTATTATAATTTATA
Found at i:4514015 original size:39 final size:39
Alignment explanation
Indices: 4513941--4514016 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
4513931 TTCATATTTA
* * *
4513941 TATTATTTATTATATTTTAATTTTATATCATATTTCAAT
1 TATTATTTATTATAATTTAATATTATATAATATTTCAAT
*
4513980 TATTTTTTATTATAATTT-ATATTATATAATCATTTCA
1 TATTATTTATTATAATTTAATATTATATAAT-ATTTCA
4514017 CATTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 10 0.31
39 22 0.69
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (39 bp):
TATTATTTATTATAATTTAATATTATATAATATTTCAAT
Found at i:4521444 original size:31 final size:30
Alignment explanation
Indices: 4521402--4521493 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
4521392 TATTTTTATT
4521402 ATATTCAAATAAGTTTATAATATTTAATTTAC
1 ATATT-AAATAA-TTTATAATATTTAATTTAC
* * *
4521434 ATATTAAATAAATTTTTAACATTTAATTTAT
1 ATATTAAAT-AATTTATAATATTTAATTTAC
* *
4521465 AT-TTAAATAATTAATTAATCTTTAATTTA
1 ATATTAAATAATTTA-TAATATTTAATTTA
4521494 TATCAAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 4 0.08
30 18 0.35
31 22 0.43
32 7 0.14
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (30 bp):
ATATTAAATAATTTATAATATTTAATTTAC
Found at i:4521473 original size:30 final size:30
Alignment explanation
Indices: 4521370--4521496 Score: 111
Period size: 30 Copynumber: 4.3 Consensus size: 30
4521360 AATTTTTATC
*
4521370 ATTT-TATTTAAATAAATTTTT-ATATTT-
1 ATTTATATTTAAATAAATTTTTAACATTTA
* * * * *
4521397 TTATTATATTCAAATAAGTTTATAATATTTA
1 AT-TTATATTTAAATAAATTTTTAACATTTA
*
4521428 ATTTACATATTAAATAAATTTTTAACATTTA
1 ATTTATAT-TTAAATAAATTTTTAACATTTA
*
4521459 ATTTATATTTAAAT-AATTAATTAATC-TTTA
1 ATTTATATTTAAATAAATT-TTTAA-CATTTA
4521489 ATTTATAT
1 ATTTATAT
4521497 CAAAATAAGC
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.02
29 18 0.22
30 33 0.41
31 27 0.33
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTTATATTTAAATAAATTTTTAACATTTA
Found at i:4521489 original size:61 final size:60
Alignment explanation
Indices: 4521377--4521493 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 60
4521367 ATCATTTTAT
* * *
4521377 TTAAATAAATTTTTATATTTTTATTATATTCAAATAAGTTTATAATATTTAATTTACATA
1 TTAAATAAATTTTTACATTTATATTATATTCAAATAAGTTAATAATATTTAATTTACATA
* *
4521437 TTAAATAAATTTTTAACATTTA-ATTTATATTTAAATAA-TTAATTAATCTTTAATTTA
1 TTAAATAAATTTTT-ACATTTATA-TTATATTCAAATAAGTTAA-TAATATTTAATTTA
4521494 TATCAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
60 18 0.37
61 31 0.63
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (60 bp):
TTAAATAAATTTTTACATTTATATTATATTCAAATAAGTTAATAATATTTAATTTACATA
Found at i:4521503 original size:60 final size:60
Alignment explanation
Indices: 4521379--4521513 Score: 134
Period size: 61 Copynumber: 2.2 Consensus size: 60
4521369 CATTTTATTT
* * * *
4521379 AAATAAATTTTT-ATATTTTTATTATATTCAAATAAGTTTATAATATTTAATTTACATATT
1 AAATAAATTTTTAACATTTATATTATATTCAAATAAGTTAATAATATTTAATTTA-ATATA
* *
4521439 AAATAAATTTTTAACATTTA-ATTTATATTTAAATAA-TTAATTAATCTTTAATTT-ATATCA
1 AAATAAATTTTTAACATTTATA-TTATATTCAAATAAGTTAA-TAATATTTAATTTAATAT-A
**
4521499 AAATAAGCTTTTAAC
1 AAATAAATTTTTAAC
4521514 TTAAATAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 4 0.06
60 29 0.46
61 30 0.48
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (60 bp):
AAATAAATTTTTAACATTTATATTATATTCAAATAAGTTAATAATATTTAATTTAATATA
Found at i:4521946 original size:2 final size:2
Alignment explanation
Indices: 4521941--4521976 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4521931 AAAAAATACA
*
4521941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4521977 TAGAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4527182 original size:21 final size:21
Alignment explanation
Indices: 4527158--4527271 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 21
4527148 CATCGAACTA
*
4527158 AATATAATTTTGATAATTTTT
1 AATATAATTTTGATAATATTT
* *
4527179 AATATAATTTT-A-ATTTTTT
1 AATATAATTTTGATAATATTT
* * *
4527198 GATATAATTTTAATAACATTT
1 AATATAATTTTGATAATATTT
* *
4527219 -ATAATAATCTTGATAA-CTTT
1 AAT-ATAATTTTGATAATATTT
* *
4527239 -AGAT-A-TTTGATAATATTA
1 AATATAATTTTGATAATATTT
4527257 AATATAATTTTGATA
1 AATATAATTTTGATA
4527272 TATAATTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
17 7 0.10
18 3 0.04
19 21 0.29
20 9 0.12
21 33 0.45
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
AATATAATTTTGATAATATTT
Found at i:4527202 original size:19 final size:19
Alignment explanation
Indices: 4527158--4527211 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
4527148 CATCGAACTA
*
4527158 AATATAATTTTGATAATTTTT
1 AATATAATTTT-A-ATTTTTT
4527179 AATATAATTTTAATTTTTT
1 AATATAATTTTAATTTTTT
*
4527198 GATATAATTTTAAT
1 AATATAATTTTAAT
4527212 AACATTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 19 0.61
20 1 0.03
21 11 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
AATATAATTTTAATTTTTT
Found at i:4527659 original size:74 final size:73
Alignment explanation
Indices: 4527533--4527673 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 73
4527523 AAAATATTTA
* * *
4527533 ATAATAAACTATTTTATTGAAATAAATAATATTGATTTATTATATCAGTACCACTAGGAAAACAT
1 ATAACAAACTATTTTATTGAAATAAATAATATTGATATATTATATCAGTACCACTACG-AAACAT
4527598 GCCTGTCTT
65 GCCTGTCTT
4527607 ATAACAAACTATTTTATTGAAATAAATAATATTGATATATTATATCCA-TACCACTACGAAACAT
1 ATAACAAACTATTTTATTGAAATAAATAATATTGATATATTATAT-CAGTACCACTACGAAACAT
4527671 GCC
65 GCC
4527674 ACTCTAATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
73 9 0.14
74 52 0.83
75 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (73 bp):
ATAACAAACTATTTTATTGAAATAAATAATATTGATATATTATATCAGTACCACTACGAAACATG
CCTGTCTT
Found at i:4527858 original size:2 final size:2
Alignment explanation
Indices: 4527851--4527888 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4527841 TCGTTTTTAA
4527851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4527889 TAATACCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4530143 original size:13 final size:14
Alignment explanation
Indices: 4530121--4530152 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4530111 GTAGTTTAAA
4530121 ATTT-TTTAAATTT
1 ATTTATTTAAATTT
4530134 -TTTATTTAAATTT
1 ATTTATTTAAATTT
4530147 ATTTAT
1 ATTTAT
4530153 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTATTTAAATTT
Found at i:4530192 original size:16 final size:17
Alignment explanation
Indices: 4530149--4530192 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4530139 TTAAATTTAT
4530149 TTATAA-ATTAAAATAA
1 TTATAATATTAAAATAA
*
4530165 TTAT--TTTTAAAAT-A
1 TTATAATATTAAAATAA
4530179 TTATAATATTAAAA
1 TTATAATATTAAAA
4530193 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTATAATATTAAAATAA
Found at i:4530204 original size:17 final size:18
Alignment explanation
Indices: 4530173--4530207 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4530163 AATTATTTTT
4530173 AAAATATTATAATATTAA
1 AAAATATTATAATATTAA
*
4530191 AAAATATT-TTATATTAA
1 AAAATATTATAATATTAA
4530208 TATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATATTATAATATTAA
Found at i:4539481 original size:31 final size:31
Alignment explanation
Indices: 4539443--4539504 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4539433 CTGGGTCCTT
4539443 TGCGCAGCATATTTCTTAAGGTGAATTGATG
1 TGCGCAGCATATTTCTTAAGGTGAATTGATG
4539474 TGCGCAGCATATTTCTTAAGGTGAATTGATG
1 TGCGCAGCATATTTCTTAAGGTGAATTGATG
4539505 AAATATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (31 bp):
TGCGCAGCATATTTCTTAAGGTGAATTGATG
Found at i:4556476 original size:19 final size:17
Alignment explanation
Indices: 4556468--4556505 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
4556458 ATAATTAAAT
4556468 TTAATATTATAAATTAA
1 TTAATATTATAAATTAA
*
4556485 TTAATATT-T-ATTTAA
1 TTAATATTATAAATTAA
4556500 TTAATA
1 TTAATA
4556506 AAAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 1 0.05
17 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTATAAATTAA
Found at i:4557434 original size:19 final size:18
Alignment explanation
Indices: 4557392--4557437 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
4557382 TAATAATATT
4557392 AAAT-AATTT-ATACATA
1 AAATAAATTTCATACATA
*
4557408 AAATAAATTTCATATATA
1 AAATAAATTTCATACATA
4557426 AATATAAATTTC
1 AA-ATAAATTTC
4557438 GTTGTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 8 0.31
19 9 0.35
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAATTTCATACATA
Found at i:4563207 original size:4 final size:4
Alignment explanation
Indices: 4563198--4563230 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
4563188 TGGTTAGGGA
*
4563198 TTTC TTTC TTTC TTTC TTTC TTTC TGTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
4563231 CAATACTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:4563556 original size:2 final size:2
Alignment explanation
Indices: 4563549--4563582 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4563539 ATATGGGTGC
4563549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4563583 GCTTTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4564675 original size:21 final size:21
Alignment explanation
Indices: 4564651--4564691 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4564641 TTTGAATTAT
*
4564651 AATATTAAAAATAAATAATAA
1 AATAATAAAAATAAATAATAA
*
4564672 AATAATAAAAATAAGTAATA
1 AATAATAAAAATAAATAATA
4564692 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAATAAAAATAAATAATAA
Found at i:4567936 original size:2 final size:2
Alignment explanation
Indices: 4567929--4567967 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4567919 AACCTATGGA
4567929 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4567968 AACAGTGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4569099 original size:28 final size:30
Alignment explanation
Indices: 4569062--4569137 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 30
4569052 TTTAAATAAA
4569062 ATAATAAATTTTTATATTTTTATTATAT-TT
1 ATAAT-AATTTTTATATTTTTATTATATATT
*
4569092 AT-ATAATTTTTA-ATTTTTATTTTATATT
1 ATAATAATTTTTATATTTTTATTATATATT
4569120 ATAATAATTTTTATATTT
1 ATAATAATTTTTATATTT
4569138 AAATAGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 12 0.29
28 12 0.29
29 12 0.29
30 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATAATAATTTTTATATTTTTATTATATATT
Found at i:4569116 original size:29 final size:28
Alignment explanation
Indices: 4569062--4569137 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 28
4569052 TTTAAATAAA
4569062 ATAATAAATTTTTATATTTTTATTATATT
1 ATAAT-AATTTTTATATTTTTATTATATT
4569091 -TATATAATTTTTA-ATTTTTATTTTATATT
1 ATA-ATAATTTTTATATTTTTA--TTATATT
4569120 ATAATAATTTTTATATTT
1 ATAATAATTTTTATATTT
4569138 AAATAGTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.17
28 10 0.24
29 19 0.45
30 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATAATAATTTTTATATTTTTATTATATT
Found at i:4575392 original size:3 final size:3
Alignment explanation
Indices: 4575384--4575443 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
4575374 TTCCACTCTG
4575384 ATT ATT ATT ATT ATT 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
4575432 ATT ATT ATT ATT
1 ATT ATT ATT ATT
4575444 TCAAAGTGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4576219 original size:2 final size:2
Alignment explanation
Indices: 4576214--4576238 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4576204 AACTCCTATT
4576214 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4576239 TATATATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4576831 original size:13 final size:13
Alignment explanation
Indices: 4576813--4576839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4576803 ATCTTAATGC
4576813 TTCCTGCAAAAAT
1 TTCCTGCAAAAAT
4576826 TTCCTGCAAAAAT
1 TTCCTGCAAAAAT
4576839 T
1 T
4576840 CTCAAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TTCCTGCAAAAAT
Found at i:4577168 original size:2 final size:2
Alignment explanation
Indices: 4577161--4577186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4577151 TGCAAAATAC
4577161 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4577187 CTTTGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4579108 original size:2 final size:2
Alignment explanation
Indices: 4579103--4579143 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4579093 AGAATAAAAG
* *
4579103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4579144 AACTGGACGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4582010 original size:2 final size:2
Alignment explanation
Indices: 4582003--4582041 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4581993 CTTATTAGCA
4582003 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4582042 TAGAGCTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4587536 original size:35 final size:35
Alignment explanation
Indices: 4587491--4587557 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
4587481 CCATTTAACT
*
4587491 TAGCTAAACACTTTATCAAAATGTAAAAGGGCGAA
1 TAGCTAAACACTTAATCAAAATGTAAAAGGGCGAA
*
4587526 TAGCTTAACACTTAATCAAAATGTAAAAGGGC
1 TAGCTAAACACTTAATCAAAATGTAAAAGGGC
4587558 AAAGCCGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (35 bp):
TAGCTAAACACTTAATCAAAATGTAAAAGGGCGAA
Found at i:4587596 original size:6 final size:6
Alignment explanation
Indices: 4587585--4587610 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4587575 GGAAAGAAAG
4587585 GGTAAA GGTAAA GGTAAA GGTAAA GG
1 GGTAAA GGTAAA GGTAAA GGTAAA GG
4587611 CAAGGCTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (6 bp):
GGTAAA
Found at i:4605128 original size:14 final size:14
Alignment explanation
Indices: 4605081--4605131 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
4605071 TATAACATCT
4605081 TAAATATGATTATGATA
1 TAAATAT-ATTA--ATA
4605098 TAAA-ATA-TAATA
1 TAAATATATTAATA
*
4605110 CAAATATATTAATA
1 TAAATATATTAATA
4605124 TAAATATA
1 TAAATATA
4605132 CGAATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 6 0.20
13 3 0.10
14 14 0.47
15 1 0.03
16 2 0.07
17 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (14 bp):
TAAATATATTAATA
Found at i:4607875 original size:24 final size:23
Alignment explanation
Indices: 4607830--4607875 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4607820 AAATTATAAA
*
4607830 TATTAAAATTTAATTTTTAAATC
1 TATTAAAATTTAATTTTAAAATC
4607853 TATT-AAATGTTATATTTTAAAAT
1 TATTAAAAT-TTA-ATTTTAAAAT
4607876 TAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAAAATTTAATTTTAAAATC
Found at i:4608367 original size:2 final size:2
Alignment explanation
Indices: 4608360--4608385 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4608350 GGTAGCTACA
4608360 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4608386 TTGGAATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4610763 original size:2 final size:2
Alignment explanation
Indices: 4610756--4610784 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4610746 TGGGCAGCTG
4610756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4610785 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4611401 original size:19 final size:18
Alignment explanation
Indices: 4611369--4611415 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
4611359 TATCTTAATT
*
4611369 AATAATTAATA-TTTAAA
1 AATAATTAAGATTTTAAA
4611386 ATATAAGTTAAGATTTTAAA
1 A-ATAA-TTAAGATTTTAAA
4611406 AATAAATTAA
1 AAT-AATTAA
4611416 TTTTTGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 11 0.44
20 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AATAATTAAGATTTTAAA
Found at i:4614623 original size:18 final size:18
Alignment explanation
Indices: 4614597--4614635 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4614587 TGAAAGTATG
4614597 TCTTCATTTCTCTTTCT-T
1 TCTTCATTT-TCTTTCTCT
*
4614615 TCTTTATTTTCTTTCTCT
1 TCTTCATTTTCTTTCTCT
4614633 TCT
1 TCT
4614636 ATTCACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCATTTTCTTTCTCT
Found at i:4618214 original size:113 final size:113
Alignment explanation
Indices: 4618016--4618242 Score: 339
Period size: 113 Copynumber: 2.0 Consensus size: 113
4618006 AATGCACCAG
* * * *
4618016 AACAGTGATAAACTGATAATGTAATACTAAAGAATAATAATGGAGAATAGTCTTGGGAGTAGCAT
1 AACAGTCATAAACTGATAATGTAATACTAAAGAATAATAATGGAGAAGAGTCTTGGGAATAGCAC
*
4618081 ACAGGAGAGGAACTGTAGCAGGCTTACAAAAGGTTGTACTCTAGCTCT
66 ACAGGAGAGGAACTGTAGCAGGCTTACAAAAGGCTGTACTCTAGCTCT
* * *
4618129 AACAGTCATAAACTGATAATGTAATGCTCAATAATAATAATGGAGAAGAGTCTTGGGAAT-GCCA
1 AACAGTCATAAACTGATAATGTAATACTAAAGAATAATAATGGAGAAGAGTCTTGGGAATAG-CA
* * *
4618193 CACAGGATAGGATCTGTAGCAGGCTTACAAAATGCTGTACTCTAGCTCT
65 CACAGGAGAGGAACTGTAGCAGGCTTACAAAAGGCTGTACTCTAGCTCT
4618242 A
1 A
4618243 GCTCTAGCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
112 1 0.01
113 101 0.99
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (113 bp):
AACAGTCATAAACTGATAATGTAATACTAAAGAATAATAATGGAGAAGAGTCTTGGGAATAGCAC
ACAGGAGAGGAACTGTAGCAGGCTTACAAAAGGCTGTACTCTAGCTCT
Found at i:4618243 original size:6 final size:6
Alignment explanation
Indices: 4618232--4618264 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
4618222 AAATGCTGTA
4618232 CTCTAG CTCTAG CTCTAG CTCTAG CTCTAG CTC
1 CTCTAG CTCTAG CTCTAG CTCTAG CTCTAG CTC
4618265 CAGCAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.36, G:0.15, T:0.33
Consensus pattern (6 bp):
CTCTAG
Found at i:4621823 original size:29 final size:31
Alignment explanation
Indices: 4621764--4621828 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
4621754 TTATATAAAA
* *
4621764 TTAAA-AAAAATATATTTATATAATTATA-T
1 TTAAATAAAAATATATTTATATAATAACATT
4621793 TTAAATAAAAAT-TATTTAT-TAAATAACATT
1 TTAAATAAAAATATATTTATAT-AATAACATT
4621823 TTAAAT
1 TTAAAT
4621829 TGAATGTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.55
30 13 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (31 bp):
TTAAATAAAAATATATTTATATAATAACATT
Found at i:4626677 original size:2 final size:2
Alignment explanation
Indices: 4626635--4626662 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4626625 TGCTGGATAC
4626635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4626663 GCTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4627963 original size:24 final size:24
Alignment explanation
Indices: 4627936--4627986 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4627926 TATAAATAAA
4627936 TAATA-TAAATTCGTTTAAGTTTTT
1 TAATAGTAAATT-GTTTAAGTTTTT
* * *
4627960 TAATAGTATATTTTTTAATTTTTT
1 TAATAGTAAATTGTTTAAGTTTTT
4627984 TAA
1 TAA
4627987 AAAATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (24 bp):
TAATAGTAAATTGTTTAAGTTTTT
Found at i:4627993 original size:23 final size:24
Alignment explanation
Indices: 4627949--4627994 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4627939 TATAAATTCG
**
4627949 TTTAAGTTTTTTAATAGTATATTT
1 TTTAAGTTTTTTAATAAAATATTT
*
4627973 TTTAATTTTTTTAA-AAAATATT
1 TTTAAGTTTTTTAATAAAATATT
4627995 ATTCTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTAAGTTTTTTAATAAAATATTT
Found at i:4632288 original size:122 final size:122
Alignment explanation
Indices: 4632133--4632369 Score: 429
Period size: 122 Copynumber: 1.9 Consensus size: 122
4632123 GAGAGGATCC
*
4632133 ACCAAAGAGTAGGATCGAGTTTATTAATAATCCTACTCGTCATTACACCATCATGATTTCCAGCT
1 ACCAAAGAGTAGGATCGAGTTTATTAATAATCCTACTCGGCATTACACCATCATGATTTCCAGCT
*
4632198 GTATAGAGAACTTAAAGCATACCACAGTCATATTACTCACCAATTCACCAAAGACAA
66 GTATAGAGAACTTAAAGCATACCACAGTCACATTACTCACCAATTCACCAAAGACAA
* *
4632255 ACCAAAGAGTAGGATTGAGTTTATTAATAATCCTACTTGGCATTACACCATCATGATTTCCAGCT
1 ACCAAAGAGTAGGATCGAGTTTATTAATAATCCTACTCGGCATTACACCATCATGATTTCCAGCT
*
4632320 GTATAGAGAACTTAAAGCATACCACAGTTACATTACTCACCAATTCACCA
66 GTATAGAGAACTTAAAGCATACCACAGTCACATTACTCACCAATTCACCA
4632370 GCAGTTACTG
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (122 bp):
ACCAAAGAGTAGGATCGAGTTTATTAATAATCCTACTCGGCATTACACCATCATGATTTCCAGCT
GTATAGAGAACTTAAAGCATACCACAGTCACATTACTCACCAATTCACCAAAGACAA
Found at i:4636539 original size:6 final size:6
Alignment explanation
Indices: 4636528--4636556 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4636518 GGGGAAGGGA
4636528 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
4636557 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:4637263 original size:18 final size:20
Alignment explanation
Indices: 4637242--4637287 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
4637232 TTATTATATA
4637242 ATTTTTAAAA-TAAAT-AAT
1 ATTTTTAAAAGTAAATAAAT
*
4637260 A-TTTTAAAAGTATATAAAT
1 ATTTTTAAAAGTAAATAAAT
4637279 ATTTTTAAA
1 ATTTTTAAA
4637288 TATATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 4 0.17
20 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTTAAAAGTAAATAAAT
Found at i:4637291 original size:18 final size:18
Alignment explanation
Indices: 4637211--4637298 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
4637201 AAATTATATG
*
4637211 TAAA-ATATAAATAATTAT
1 TAAATATATAAAT-ATTTT
* *
4637229 TAATTAT-TATATAATTTT
1 TAAATATATAAAT-ATTTT
*
4637247 TAAA-ATAAATAATATTTT
1 TAAATATATA-AATATTTT
*
4637265 AAAAGTATATAAATATTTT
1 TAAA-TATATAAATATTTT
*
4637284 TAAATATATATATAT
1 TAAATATATAAATAT
4637299 AATAAAAGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
18 34 0.62
19 15 0.27
20 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
TAAATATATAAATATTTT
Found at i:4637293 original size:20 final size:19
Alignment explanation
Indices: 4637242--4637295 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
4637232 TTATTATATA
*
4637242 ATTTTTAAAATAAAT-AAT
1 ATTTTTAAAATATATAAAT
4637260 A-TTTTAAAAGTATATAAAT
1 ATTTTTAAAA-TATATAAAT
4637279 ATTTTTAAATATATATA
1 ATTTTTAAA-ATATATA
4637296 TATAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 8 0.26
18 5 0.16
19 4 0.13
20 13 0.42
21 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTTTTAAAATATATAAAT
Found at i:4637305 original size:37 final size:36
Alignment explanation
Indices: 4637242--4637315 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
4637232 TTATTATATA
**
4637242 ATTTTTAAAATAAATAATATTTTAAAAGTATATAAAT
1 ATTTTTAAAATAAATAATATAATAAAAGTATA-AAAT
* *
4637279 ATTTTT-AAATATATATATATAATAAAAGTTTAAAAT
1 ATTTTTAAAATAAATA-ATATAATAAAAGTATAAAAT
4637315 A
1 A
4637316 CATAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (36 bp):
ATTTTTAAAATAAATAATATAATAAAAGTATAAAAT
Done.