Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 196 of 253
Found at i:64411990 original size:47 final size:47
Alignment explanation
Indices: 64411938--64412038 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 47
64411928 ACCTTGTGTG
* ** *
64411938 TCGTACTGTTACTA-TTACTTTGGTTTAATCCGATGAGGTACTAAGTA
1 TCGTACTGTTACTATTTACTTCGG-CAAAGCCGATGAGGTACTAAGTA
* *
64411985 TCGTACTGTTACTATTTTCTTCGGCAAAGCCGATGAGGTACTAAGTG
1 TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
64412032 TCGTACT
1 TCGTACT
64412039 AGTGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 40 0.85
48 7 0.15
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (47 bp):
TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
Found at i:64412242 original size:39 final size:39
Alignment explanation
Indices: 64412093--64412243 Score: 187
Period size: 39 Copynumber: 3.9 Consensus size: 39
64412083 TTAATAGTGG
64412093 TAAACTACTATACTGAATAATTGATAGTTACT-AAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTGAAA-AAC
* * * *
64412132 TAAATTACTATATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTGAAAAAC
** * *
64412171 TAAACTACTGCAATGAATATTTGATAGTTACTGAAAAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTGAAAAAC
* * *
64412210 TAAATTACTATACTGAATAACTGATTGTTACTGA
1 TAAACTACTATACTGAATAATTGATAGTTACTGA
64412244 TTACATATGA
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 91 0.98
40 2 0.02
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (39 bp):
TAAACTACTATACTGAATAATTGATAGTTACTGAAAAAC
Found at i:64428351 original size:16 final size:15
Alignment explanation
Indices: 64428321--64428354 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
64428311 TTAAACATGA
64428321 TAATAAAAATAAAAT
1 TAATAAAAATAAAAT
*
64428336 TAATAAAATTTAAAAT
1 TAATAAAA-ATAAAAT
64428352 TAA
1 TAA
64428355 AGTCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAAAATAAAAT
Found at i:64430239 original size:25 final size:25
Alignment explanation
Indices: 64430205--64430292 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
64430195 GGATTACCTA
* *
64430205 TAAGGCCTTTGTGGCAAACTCTTTG
1 TAAGACCTTTGTGGAAAACTCTTTG
* *
64430230 TAAGACCTTTTTGGAAAACTCTTTA
1 TAAGACCTTTGTGGAAAACTCTTTG
** * * *
64430255 TAAGGTCTTTATGGTAAACTCTCTG
1 TAAGACCTTTGTGGAAAACTCTTTG
64430280 TAA-AGCCTTTGTG
1 TAAGA-CCTTTGTG
64430293 ACGAGCTCTC
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (25 bp):
TAAGACCTTTGTGGAAAACTCTTTG
Found at i:64432169 original size:28 final size:28
Alignment explanation
Indices: 64432107--64432170 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
64432097 ATTAACAAGG
*
64432107 TAAATAAAAATATTTACTTAACTACAAA
1 TAAATTAAAATATTTACTTAACTACAAA
* **
64432135 -AATTTAAAATATTTTTTTACACTA-AAA
1 TAAATTAAAATATTTACTTA-ACTACAAA
64432162 TAAATTAAA
1 TAAATTAAA
64432171 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATTAAAATATTTACTTAACTACAAA
Found at i:64432170 original size:5 final size:5
Alignment explanation
Indices: 64432157--64432192 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
64432147 TTTTTTACAC
*
64432157 TAAAA TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
64432193 TAGAACACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:64432541 original size:9 final size:9
Alignment explanation
Indices: 64432527--64432567 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
64432517 ATTAATATTT
64432527 TAATTAAAC
1 TAATTAAAC
64432536 TAATTAAAC
1 TAATTAAAC
*
64432545 TAACTAAAC
1 TAATTAAAC
64432554 TAACTTAAAC
1 TAA-TTAAAC
64432564 TAAT
1 TAAT
64432568 GGACTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATTAAAC
Found at i:64438592 original size:6 final size:6
Alignment explanation
Indices: 64438573--64438628 Score: 94
Period size: 6 Copynumber: 9.0 Consensus size: 6
64438563 TTAAATCCTC
64438573 TTATCTT TTCATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTAT-TT TT-ATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
64438623 TTATTT
1 TTATTT
64438629 CAATTTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 40 0.83
7 6 0.12
8 2 0.04
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:64442511 original size:17 final size:17
Alignment explanation
Indices: 64442484--64442516 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64442474 TCACTACATT
64442484 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
64442502 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
64442517 TAAAATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:64444858 original size:22 final size:21
Alignment explanation
Indices: 64444830--64444870 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
64444820 AATGATTTTT
64444830 AATATTTTATAATATAAAATTA
1 AATATTTTAT-ATATAAAATTA
*
64444852 AATATTTTATATTTAAAAT
1 AATATTTTATATATAAAAT
64444871 AGTGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATATAAAATTA
Found at i:64445592 original size:42 final size:42
Alignment explanation
Indices: 64445533--64445619 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
64445523 ACTTATGTTA
64445533 GTTTCAAGTACGAGAGATTAACAATATTTTGCTTCTATTGTG
1 GTTTCAAGTACGAGAGATTAACAATATTTTGCTTCTATTGTG
64445575 GTTTCAAGTACGAGAGATTAACAATATTTTGCTTCTATTGTG
1 GTTTCAAGTACGAGAGATTAACAATATTTTGCTTCTATTGTG
64445617 GTT
1 GTT
64445620 GTCTAAGGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (42 bp):
GTTTCAAGTACGAGAGATTAACAATATTTTGCTTCTATTGTG
Found at i:64448847 original size:13 final size:13
Alignment explanation
Indices: 64448831--64448855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64448821 TAGGCCACAT
64448831 GGCCGTGTCCCTA
1 GGCCGTGTCCCTA
64448844 GGCCGTGTCCCT
1 GGCCGTGTCCCT
64448856 CACACGGTTG
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:0.04, C:0.40, G:0.32, T:0.24
Consensus pattern (13 bp):
GGCCGTGTCCCTA
Found at i:64451553 original size:16 final size:17
Alignment explanation
Indices: 64451522--64451555 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
64451512 TTTAATGTGA
64451522 TCCAAATATCATATTTT
1 TCCAAATATCATATTTT
*
64451539 TCCAAA-ATTATATTTT
1 TCCAAATATCATATTTT
64451555 T
1 T
64451556 GCACCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
TCCAAATATCATATTTT
Found at i:64461594 original size:17 final size:17
Alignment explanation
Indices: 64461572--64461610 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
64461562 TATAATTAAT
64461572 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
64461589 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
64461606 CTTAA
1 TTTAA
64461611 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:64461690 original size:58 final size:58
Alignment explanation
Indices: 64461581--64461692 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
64461571 TTTTAAAAGT
* * * * * * *
64461581 TTAATATATTTAAAATTTTAATATACTTAATATATATTTTTAATAGGTAAAAAAATTC
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
*
64461639 TTAATATATTTAAAATTTTAAAAAACTTAA-AAAAAATTTAAATATATTAAAAAA
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATA-AGTAAAAAA
64461693 TGTTAAGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
Found at i:64461731 original size:72 final size:72
Alignment explanation
Indices: 64461634--64461797 Score: 224
Period size: 72 Copynumber: 2.3 Consensus size: 72
64461624 TAGGTAAAAA
*
64461634 AATTCTTAATATATTTAA-AATTTTAAAAAACTTAAAAAAAATTTAAATATATTAAAAAATG-TT
1 AATT-TTAATAT-TTTAATATTTTTAAAAAACTTAAAAAAAA-TTAAATATATTAAAAAATGTTT
64461697 AAGTATAACC
63 AAGTATAACC
* * * **
64461707 AATTTTAATATTTTAATATTTTTAATATATTTTTAAAAAATTAAATATATTAAAAAATGTTTAAG
1 AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
64461772 TATAACC
66 TATAACC
*
64461779 AATTTTAAAATTTTAATAT
1 AATTTTAATATTTTAATAT
64461798 ATTCAATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
71 24 0.29
72 54 0.66
73 4 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (72 bp):
AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
TATAACC
Found at i:64461745 original size:71 final size:72
Alignment explanation
Indices: 64461669--64461819 Score: 259
Period size: 72 Copynumber: 2.1 Consensus size: 72
64461659 AAAAACTTAA
* * *
64461669 AAAAAATTTAAATATATTAAAAAATG-TTAAGTATAACCAATTTTAATATTTTAATATTTTTAAT
1 AAAAAA-TTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAAT
64461733 ATATTTTT
65 ATATTTTT
64461741 AAAAAATTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
1 AAAAAATTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
64461806 TATTTTT
66 TATTTTT
64461813 AAAAAAT
1 AAAAAAT
64461820 ATATTTTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
71 19 0.25
72 56 0.75
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (72 bp):
AAAAAATTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
TATTTTT
Found at i:64463090 original size:12 final size:12
Alignment explanation
Indices: 64463069--64463101 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64463059 TTGTAAAACA
64463069 TGTTAT-AAAAG
1 TGTTATAAAAAG
64463080 TGTTATAAAAAG
1 TGTTATAAAAAG
*
64463092 TGTTACAAAA
1 TGTTATAAAA
64463102 TATATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (12 bp):
TGTTATAAAAAG
Found at i:64480246 original size:26 final size:26
Alignment explanation
Indices: 64480217--64480322 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
64480207 TGGTACAAAT
64480217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64480243 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64480269 TGATAATGGGTTAGGT-AATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64480293 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64480319 TGAT
1 TGAT
64480323 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
24 17 0.23
25 11 0.15
26 45 0.62
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64480309 original size:50 final size:52
Alignment explanation
Indices: 64480217--64480322 Score: 180
Period size: 50 Copynumber: 2.1 Consensus size: 52
64480207 TGGTACAAAT
64480217 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
64480269 TGATAATGGGTTAGGT-AATGTT-CATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
64480319 TGAT
1 TGAT
64480323 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 30 0.58
51 6 0.12
52 16 0.31
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:64483465 original size:12 final size:12
Alignment explanation
Indices: 64483444--64483473 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
64483434 ACTCGGGGAA
64483444 GAGG-CGTGGTC
1 GAGGCCGTGGTC
64483455 GAGGCCGTGGTC
1 GAGGCCGTGGTC
64483467 GAGGCCG
1 GAGGCCG
64483474 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.10, C:0.23, G:0.53, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:64488364 original size:26 final size:26
Alignment explanation
Indices: 64488335--64488442 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
64488325 TGGTACAAAT
*
64488335 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64488361 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64488387 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64488413 TGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64488439 TGAT
1 TGAT
64488443 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64489945 original size:26 final size:26
Alignment explanation
Indices: 64489916--64489968 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
64489906 TTTACAGTTT
64489916 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
64489942 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
64489968 T
1 T
64489969 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:64493287 original size:44 final size:44
Alignment explanation
Indices: 64493228--64493315 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
64493218 TATATATGAG
* * * *
64493228 GCATCTGAGCTCGTTGAGTTAGTCTGAGTTCACT-ATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCA-TAATGGATGCGA
*
64493272 GCATCCGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
64493316 TACATGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
Found at i:64495306 original size:12 final size:12
Alignment explanation
Indices: 64495289--64495316 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
64495279 TATTTCACAT
64495289 TCATAAGACTTG
1 TCATAAGACTTG
64495301 TCATAAGACTTG
1 TCATAAGACTTG
64495313 TCAT
1 TCAT
64495317 TTGATGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (12 bp):
TCATAAGACTTG
Found at i:64507016 original size:15 final size:16
Alignment explanation
Indices: 64506989--64507019 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
64506979 AATTTATTTG
64506989 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
64507005 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
64507020 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:64510730 original size:117 final size:116
Alignment explanation
Indices: 64510489--64510730 Score: 278
Period size: 117 Copynumber: 2.1 Consensus size: 116
64510479 ATACTCAAAT
* *
64510489 CGAAT-AAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTTAAACGATTAAGTATAGAAAAT
1 CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
* * * * *
64510553 TGCCTTTATTAAAAACTATTTGGGAACAAAATGTTGAATAAAATACTTAAAT
66 TGCCTTTATTAAAAACAAGTTGAGAACAAAATG-TGAATAAAAAACTTAAAA
64510605 CGAATAAAAAAGACG-AACCCAATACGGTAAGGCACG-TTTTTTAAAACGATTAAGTATAGAAAA
1 CGAATAAAAAA-ACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAA
** * **
64510668 TTGTTTTTATGTTAAAACAAGTTGAGAATGCATTATG-GAATAAAAGAAC-TAAAA
65 TTGCCTTTAT-TAAAAACAAGTTGAGAA--CAAAATGTGAATAAAA-AACTTAAAA
*
64510722 CGATTAAAA
1 CGAATAAAA
64510731 TTTGGGGAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
116 39 0.36
117 58 0.54
118 5 0.05
119 5 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (116 bp):
CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
TGCCTTTATTAAAAACAAGTTGAGAACAAAATGTGAATAAAAAACTTAAAA
Found at i:64512771 original size:44 final size:44
Alignment explanation
Indices: 64512721--64513251 Score: 215
Period size: 44 Copynumber: 12.0 Consensus size: 44
64512711 CAAGGTTTGG
64512721 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * ** * *
64512765 TATCTTCAATATGCTCTGCTACGGCTTCAGAGAGATAAGA-CT-T
1 TATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGT
* * * * * ** * * *
64512808 GTAACTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGGTTTGT
1 -TATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGT
*
64512853 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATTGT
1 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTGT
* * * * ** * * *
64512898 AATCCTCCAGCCTTTTACC-CTACTACTTAGGGAGTTAA-AGCCTGCT
1 TATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA-TCTG-T
* ** *
64512944 CATCGTCTTCGATCTGCTCCGTTGCTGCTTAGGGAGATAAGATCTGT
1 --T-ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * * *
64512991 AATCTTC-AGCTTGCTCCACTGCTGCTCAGGGAGATAAGATCTAT
1 TATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * ** * * * *
64513035 AATCTTC-AGCTTGCTCCACTGTTGCTCAAGGAGATAA-AGCTTGC
1 TATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATC-TGT
* * * * * *
64513079 CATTTTCGATCCGCTCCACTATTGCTTAGGGAAATAGGATCTG-
1 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * * * **
64513122 TATTTTC-AGTTTGTTACC-CTATTGCTTAGGG-GTTAAGA-CTCAC
1 TATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-GT
* * * *
64513165 CATCTTTGATTTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
1 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * ** * * *
64513209 AATTTTCGATCCACTCCAATATTGCTTAGGGAGATAGGATCTG
1 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
64513252 CCGAAATTTA
Statistics
Matches: 368, Mismatches: 92, Indels: 54
0.72 0.18 0.11
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 67 0.18
44 201 0.55
45 38 0.10
46 21 0.06
47 5 0.01
48 21 0.06
49 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (44 bp):
TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
Found at i:64513294 original size:44 final size:46
Alignment explanation
Indices: 64513240--64513350 Score: 109
Period size: 44 Copynumber: 2.5 Consensus size: 46
64513230 TTGCTTAGGG
* * * *
64513240 AGATAGGATCTGCCGAAATTTAATCTGTTCCACTCCTGC-CAGC-G
1 AGATAAGATCTGCCGAAATTTAATCCGCTCCACTCCTGCTCAGCAA
* ** * *
64513284 GGATAAGATCTGCTAAAATTTGATCCGCTCCGCTCCTGCTCAGCAA
1 AGATAAGATCTGCCGAAATTTAATCCGCTCCACTCCTGCTCAGCAA
* *
64513330 AGATAATATCTACCGAAATTT
1 AGATAAGATCTGCCGAAATTT
64513351 GATCGCCCCG
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
44 31 0.61
45 4 0.08
46 16 0.31
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
AGATAAGATCTGCCGAAATTTAATCCGCTCCACTCCTGCTCAGCAA
Found at i:64513937 original size:26 final size:26
Alignment explanation
Indices: 64513908--64514015 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
64513898 TGATACAAAT
64513908 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64513934 TGATCATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64513960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64513986 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64514012 TGAT
1 TGAT
64514016 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64514606 original size:26 final size:26
Alignment explanation
Indices: 64514568--64514675 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
64514558 TGATACAAAT
*
64514568 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64514594 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64514620 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64514646 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64514672 TGAT
1 TGAT
64514676 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64514844 original size:660 final size:660
Alignment explanation
Indices: 64513575--64514896 Score: 2423
Period size: 660 Copynumber: 2.0 Consensus size: 660
64513565 ACATGTTTGG
*
64513575 TGTAACGCCCCAATTTTTGAGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
1 TGTAACGCCCCAATTTTCGAGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
**
64513640 CTAGAAGGCCCAAGCTTAAGATAGAACCCGTCAATTTTAGTTAATTTTTGTTCCATAAGAAAAAG
66 CTAGAAGGCCCAAGCTTAAGATAGAACCCAACAATTTTAGTTAATTTTTGTTCCATAAGAAAAAG
64513705 AGGGTGAAATTATGAAATAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGT
131 AGGGTGAAATTATGAAATAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGT
*
64513770 GGTCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAACCTCCCATTTTACATGAAGT
196 GGCCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAACCTCCCATTTTACATGAAGT
64513835 GGCCAGCCATCATGTTGTTGAAGACAAAATCTGCACTTGATATCCATAATTTATGGTACAAATTG
261 GGCCAGCCATCATGTTGTTGAAGACAAAATCTGCACTTGATATCCATAATTTATGGTACAAATTG
* *
64513900 ATACAAATTGATAATGGGTTAGGTAAATGTTCCATGATCATGGGTTAGGTAAATGTTTCATGATA
326 ATACAAATTGATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATA
64513965 ATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATGGGCATTTCATGTC
391 ATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATGGGCATTTCATGTC
*
64514030 TTTTGTATTAAAGAATTAAATGGATGAAATATGAAATTTTATTAAAAGAAAAAGGGGTGAAAAGA
456 TTTTGTATTAAAGAATTAAATGGATGAAATATAAAATTTTATTAAAAGAAAAAGGGGTGAAAAGA
*
64514095 ACAAAGTTTTGTCCATCTTTATTCATCATAGCCTAAAGTTAGAGAAGAGAAAGGAGAGGAGAAAG
521 ACAAAGTTTTGTCCATCTTTATTCATCATAGCCGAAAGTTAGAGAAGAGAAAGGAGAGGAGAAAG
64514160 CTCTTGAATGTTCGGTCACTTGGGGAAGAAAATTGAAGGTAAGTTCATGGTAGTTTGCTTCTATC
586 CTCTTGAATGTTCGGTCACTTGGGGAAGAAAATTGAAGGTAAGTTCATGGTAGTTTGCTTCTATC
64514225 TTGATGTTCA
651 TTGATGTTCA
* * *
64514235 TGTAACTCCCCAATTTTCGGGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCTT
1 TGTAACGCCCCAATTTTCGAGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
*
64514300 CTAGAAGGCCCAAGCTTAAGATAGAACCTAACAATTTTAGTTAATTTTTGTTCCATAAGAAAAA-
66 CTAGAAGGCCCAAGCTTAAGATAGAACCCAACAATTTTAGTTAATTTTTGTTCCATAAGAAAAAG
64514364 ATGGGTGAAATTATGAAAT-AGAACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAA
131 A-GGGTGAAATTATGAAATAAG-ACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAA
64514428 GTGGCCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAACCTCCCATTTTACATGAA
194 GTGGCCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAACCTCCCATTTTACATGAA
* *
64514493 GTGGCCAGCCATCATGTTGTTGTAGACAAAATGTGCACTTGATATCCATAATTTATGGTACAAAT
259 GTGGCCAGCCATCATGTTGTTGAAGACAAAATCTGCACTTGATATCCATAATTTATGGTACAAAT
64514558 TGATACAAATTGATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGA
324 TGATACAAATTGATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGA
*
64514623 TAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGATGGGCATTTCATG
389 TAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATGGGCATTTCATG
64514688 TCTTTTGTATTAAAGAATTAAATGGATGAAATATAAAATTTTATTAAAAGAAAAAGGGGTGAAAA
454 TCTTTTGTATTAAAGAATTAAATGGATGAAATATAAAATTTTATTAAAAGAAAAAGGGGTGAAAA
* *
64514753 GAACAAAGTTTTGTTCATCTTTGTTCATCATAGCCGAAAGTTAGAGAAGAGAAAGGAGAGGAGAA
519 GAACAAAGTTTTGTCCATCTTTATTCATCATAGCCGAAAGTTAGAGAAGAGAAAGGAGAGGAGAA
* * * *
64514818 AGTTCTTGAATGTTTGGTCGCTTGGGGAAGAAAATTGAAGGTAAGTTCATGGTAGTTTGTTTCTA
584 AGCTCTTGAATGTTCGGTCACTTGGGGAAGAAAATTGAAGGTAAGTTCATGGTAGTTTGCTTCTA
64514883 TCTTGATGTTCA
649 TCTTGATGTTCA
64514895 TG
1 TG
64514897 AGTTCTTCTT
Statistics
Matches: 639, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
659 3 0.00
660 636 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (660 bp):
TGTAACGCCCCAATTTTCGAGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
CTAGAAGGCCCAAGCTTAAGATAGAACCCAACAATTTTAGTTAATTTTTGTTCCATAAGAAAAAG
AGGGTGAAATTATGAAATAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGT
GGCCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAACCTCCCATTTTACATGAAGT
GGCCAGCCATCATGTTGTTGAAGACAAAATCTGCACTTGATATCCATAATTTATGGTACAAATTG
ATACAAATTGATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATA
ATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATGGGCATTTCATGTC
TTTTGTATTAAAGAATTAAATGGATGAAATATAAAATTTTATTAAAAGAAAAAGGGGTGAAAAGA
ACAAAGTTTTGTCCATCTTTATTCATCATAGCCGAAAGTTAGAGAAGAGAAAGGAGAGGAGAAAG
CTCTTGAATGTTCGGTCACTTGGGGAAGAAAATTGAAGGTAAGTTCATGGTAGTTTGCTTCTATC
TTGATGTTCA
Found at i:64520116 original size:46 final size:45
Alignment explanation
Indices: 64520066--64520241 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
64520056 TGGTGGAGCA
64520066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
64520112 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
64520159 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
64520205 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64520242 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 66 0.60
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:64520222 original size:93 final size:93
Alignment explanation
Indices: 64520063--64520233 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
64520053 GGATGGTGGA
*
64520063 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
64520128 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
64520156 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
64520220 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
64520234 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:64524575 original size:26 final size:26
Alignment explanation
Indices: 64524546--64524653 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
64524536 TGGTACAAAT
64524546 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
64524572 TGATAATGGATTAGGTAAATATTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
64524598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64524624 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64524650 TGAT
1 TGAT
64524654 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64539701 original size:36 final size:36
Alignment explanation
Indices: 64539654--64539725 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
64539644 ATGAGTTAAT
64539654 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
1 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
64539690 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
1 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
64539726 ATAAAATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.14
Consensus pattern (36 bp):
CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
Found at i:64539969 original size:16 final size:16
Alignment explanation
Indices: 64539956--64540000 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
64539946 TAAAAATATA
64539956 AAATAAATAAAATAAAT
1 AAATAAATAAAAT-AAT
*
64539973 AAAT-AATACAATAAT
1 AAATAAATAAAATAAT
*
64539988 ACATAAATAAAAT
1 AAATAAATAAAAT
64540001 TCCAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 4 0.17
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAATAAAATAAT
Found at i:64540281 original size:17 final size:18
Alignment explanation
Indices: 64540261--64540294 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64540251 ACTAAAGGGA
64540261 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
64540278 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
64540295 TTGCGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:64543659 original size:18 final size:20
Alignment explanation
Indices: 64543636--64543672 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64543626 ATGATATTAA
64543636 TTATTA-AAAA-AATTTTTT
1 TTATTATAAAATAATTTTTT
64543654 TTATTATAAAATAATTTTT
1 TTATTATAAAATAATTTTT
64543673 GATTGTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTATAAAATAATTTTTT
Found at i:64551686 original size:25 final size:25
Alignment explanation
Indices: 64551648--64551708 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
64551638 ACCAAACAAA
*
64551648 CCTTTGTGGCGAATTCTCTATAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
* * *
64551673 CCTTTATGGTGAATTCTTTGTAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
*
64551698 TCTTTGTGGTG
1 CCTTTGTGGTG
64551709 TATTATCTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.43
Consensus pattern (25 bp):
CCTTTGTGGTGAATTCTCTATAAAG
Found at i:64551728 original size:25 final size:25
Alignment explanation
Indices: 64551694--64551756 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
64551684 AATTCTTTGT
*
64551694 AAAGTCTTTGTGGTGTATTATCTGG
1 AAAGTCTTTGTGGTGTATAATCTGG
*
64551719 GAAG-CTTTTGTGGTGTATAATCTGG
1 AAAGTC-TTTGTGGTGTATAATCTGG
64551744 AAAGTCTTTGTGG
1 AAAGTCTTTGTGG
64551757 CATATTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.30, T:0.41
Consensus pattern (25 bp):
AAAGTCTTTGTGGTGTATAATCTGG
Found at i:64568262 original size:51 final size:50
Alignment explanation
Indices: 64568165--64568266 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 50
64568155 AGAACTAAGT
* * *
64568165 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATAGGAAGCTCTTATTGAAACCAGA-CAATAAAGTAATA
* *
64568216 TATCCGGATGAAATAGGAAGTTCTTATTGAAGCCAGA-ATATCAAAGTAATA
1 TATCCGGATGAAATAGGAAGCTCTTATTGAAACCAGACA-AT-AAAGTAATA
64568267 ATTCTGGATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
49 1 0.02
50 2 0.05
51 41 0.93
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (50 bp):
TATCCGGATGAAATAGGAAGCTCTTATTGAAACCAGACAATAAAGTAATA
Found at i:64571023 original size:13 final size:13
Alignment explanation
Indices: 64571005--64571044 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
64570995 GCTCGGCAGG
64571005 GACACGCCCGTGT
1 GACACGCCCGTGT
64571018 GACACGCCCGTGT
1 GACACGCCCGTGT
64571031 GACACGCCCGTGT
1 GACACGCCCGTGT
64571044 G
1 G
64571045 CGATTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:64574409 original size:12 final size:12
Alignment explanation
Indices: 64574392--64574417 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64574382 ACTCAAGAAG
64574392 TAATCATGAATA
1 TAATCATGAATA
64574404 TAATCATGAATA
1 TAATCATGAATA
64574416 TA
1 TA
64574418 GTTAAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATCATGAATA
Found at i:64583185 original size:31 final size:31
Alignment explanation
Indices: 64583144--64583207 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
64583134 CCTTTTCATA
*
64583144 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
64583175 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
64583206 TT
1 TT
64583208 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:64583452 original size:24 final size:24
Alignment explanation
Indices: 64583420--64583495 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
64583410 GGCCTAGCTT
*
64583420 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
64583444 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
64583468 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
64583491 CTTTT
1 CTTTT
64583496 TCACTTCCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:64583476 original size:23 final size:23
Alignment explanation
Indices: 64583422--64583494 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
64583412 CCTAGCTTCT
*
64583422 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64583445 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
64583469 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64583492 TTT
1 TTT
64583495 TTCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:64583591 original size:20 final size:20
Alignment explanation
Indices: 64583545--64583585 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
64583535 TTATGAATAC
64583545 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64583565 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
64583585 A
1 A
64583586 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64591229 original size:31 final size:31
Alignment explanation
Indices: 64591188--64591251 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64591178 CCTTTTCATA
* *
64591188 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAACCT
**
64591219 TTTCAAATTTCATATTACTGGGCCGAAACCT
1 TTTCAAATTTCATAACACTGGGCCGAAACCT
64591250 TT
1 TT
64591252 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAACCT
Found at i:64591497 original size:24 final size:24
Alignment explanation
Indices: 64591465--64591539 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
64591455 GCCTAGCCTT
*
64591465 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
64591489 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
64591513 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
64591536 TTTT
1 TTTT
64591540 TCACTTCCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 23 0.47
24 26 0.53
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:64591520 original size:23 final size:23
Alignment explanation
Indices: 64591466--64591538 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
64591456 CCTAGCCTTT
*
64591466 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64591489 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
64591513 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64591536 TTT
1 TTT
64591539 TTCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:64591635 original size:20 final size:20
Alignment explanation
Indices: 64591589--64591629 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
64591579 TTATGAATAC
64591589 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64591609 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
64591629 A
1 A
64591630 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64597753 original size:19 final size:20
Alignment explanation
Indices: 64597729--64597775 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
64597719 CCTTATATAA
64597729 TTTAATTAA-TA-TTGTAAAC
1 TTTAATTAATTACTT-TAAAC
64597748 TTTAATTAATTACTTTAAAC
1 TTTAATTAATTACTTTAAAC
64597768 -TTAATTAA
1 TTTAATTAA
64597776 CATAACACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.65
20 7 0.27
21 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTAATTAATTACTTTAAAC
Found at i:64597955 original size:307 final size:308
Alignment explanation
Indices: 64597362--64597974 Score: 953
Period size: 307 Copynumber: 2.0 Consensus size: 308
64597352 CTTATCCGTG
* *
64597362 AGAAAGAATGAAGATGATGAGAAAATATCTCATTTTTTTCCTTTTAAATTCCTTATATACCTTAA
1 AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
* * * *
64597427 TTAATATTTTAAATTTTAATTAATTACTTTAAACTTGATTAACTTAACACTAAGCTTAATTAAGC
66 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACACTAAGCTTAATTAAGC
* *
64597492 AACATAAGTGGAGAATGTTGTGATCTACCACCAAAATTCCATATAAAAAGGTAAATTTTCCATAT
131 AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATTCCATATAAAAAGGTAAATTTGCCATAT
* *
64597557 TGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTACGCTTTAGTCCTT
196 TGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTAAGCTTTAATCCTT
*
64597622 GCACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
261 ACACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
* * *
64597670 AGAAATAATGAAGATGATGGGAAAATATCTCA-TCTTTTCCTTTTAAATTCCTTATATAATTTAA
1 AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
**
64597734 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACACTAAGCTTAATTAATT
66 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACACTAAGCTTAATTAAGC
* * *
64597799 AACATAAGTGGGGAATGTTTTCCTCTACCACCAAAATTCCATATAAAAAGGGT-AATTTGCCATA
131 AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATTCCATATAAAAA-GGTAAATTTGCCATA
* * * * **
64597863 TTGATCCCTTAGAAAACTAATAATCTGTAGTGGTTAATCTTTTACCACTTTTAAGCTTTAAAT-C
195 TTGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTAAGCTTT-AATCC
*
64597927 TTACACCTTAATTAACTATCATTTCAATAAATTTTCAGATCAAAATTT
259 TTACACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTT
64597975 AGTACAACAC
Statistics
Matches: 277, Mismatches: 26, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
307 242 0.87
308 35 0.13
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (308 bp):
AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACACTAAGCTTAATTAAGC
AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATTCCATATAAAAAGGTAAATTTGCCATAT
TGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTAAGCTTTAATCCTT
ACACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
Found at i:64606886 original size:47 final size:47
Alignment explanation
Indices: 64606832--64607216 Score: 520
Period size: 47 Copynumber: 8.1 Consensus size: 47
64606822 TTAGGATCTT
** * * *
64606832 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
64606879 ATGTGATGAATGTGAACCTGTATATATATATGAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATAT--GTGATAAGGCCGAATGGCCA
* * *
64606932 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64606979 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
64607026 ATGTGATGAATGTGAACATG-AGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCA-TATATGTGATAAGGCCGAATGGCCA
* *
64607073 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64607120 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
64607167 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64607214 ATG
1 ATG
64607217 CGAAATGTGT
Statistics
Matches: 308, Mismatches: 22, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
47 259 0.84
49 6 0.02
51 8 0.03
52 1 0.00
53 34 0.11
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:64606959 original size:23 final size:23
Alignment explanation
Indices: 64606932--64607006 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
64606922 CGAATGGCCA
64606932 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
64606955 ATGTG-TGATAAGGCTG-A-ATGGCCA
1 ATGTGATG--AATG-TGAACAT-GCGT
64606979 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
64607002 ATGTG
1 ATGTG
64607007 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:64607321 original size:46 final size:46
Alignment explanation
Indices: 64607190--64607326 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
64607180 GAACATGTAT
* *
64607190 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
64607236 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * **
64607282 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATAAGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
64607327 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:64607539 original size:37 final size:37
Alignment explanation
Indices: 64607509--64607656 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
64607499 GTGGTGACTA
*
64607509 TGTCCGGGTAAGACCTGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
64607546 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
*
64607583 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * *
64607620 TG-CCTGGGTAAGACCTGATAACTTCGTGTGGAGATTT
1 TGTCC-GGGTAAGACCCGATGACTACGTGTGGAGATTT
64607657 CATCTGAGCT
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 2 0.02
37 102 0.98
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:64609228 original size:40 final size:40
Alignment explanation
Indices: 64608925--64609215 Score: 474
Period size: 40 Copynumber: 7.3 Consensus size: 40
64608915 TGAGAGTTAT
*
64608925 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
64608965 ATATATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
64609005 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
64609045 ATATATCCGGGCTAAGTTTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
64609085 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
64609125 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
64609165 ATATGTCCGGGCTAAGTTCCGAAGAGCAATCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
64609205 ATATATCCGGG
1 ATATATCCGGG
64609216 TTAAACCTCG
Statistics
Matches: 235, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 235 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:64609356 original size:57 final size:57
Alignment explanation
Indices: 64609247--64609381 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 57
64609237 GCTAGAATTA
*
64609247 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAGATCAG-CAG
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGTCAG
* ** * *
64609303 TTGAGGCACTAG-GTGTGCGAGTTCTTTAA-TCGAGCGCTATGTGTGCGAAATCAGTCAG
1 -TGAGGCACT-GTGTGTGCAAGTTCTCCAACT-GAGCACTATGTGTGCCAAATCAGTCAG
*
64609361 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
64609382 GTGTTTCATG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
55 1 0.02
56 12 0.18
57 48 0.74
58 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGTCAG
Found at i:64613084 original size:47 final size:47
Alignment explanation
Indices: 64613030--64613413 Score: 500
Period size: 47 Copynumber: 8.1 Consensus size: 47
64613020 TTAGGATCTT
* ** * * *
64613030 ATGTGATGAATATGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
64613077 ATGTGATGAATGTGAACCTGTATATATATATGAGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATAT--GTGATAAGGCCGAATGGCCA
* *
64613130 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64613177 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
64613224 ATGTGATGAATGTGAACATG-AGATGTGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64613270 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64613317 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
64613364 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64613411 ATG
1 ATG
64613414 CGAAATGTGT
Statistics
Matches: 303, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
46 43 0.14
47 211 0.70
49 7 0.02
51 8 0.03
52 1 0.00
53 33 0.11
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:64613160 original size:25 final size:25
Alignment explanation
Indices: 64613131--64613208 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
64613121 GAATGGCCAA
64613131 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
*
64613156 TGTGAT-AAGGCTG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
*
64613178 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCATATG
64613203 TGTGAT
1 TGTGAT
64613209 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 16 0.39
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:64613447 original size:187 final size:185
Alignment explanation
Indices: 64613105--64613459 Score: 507
Period size: 187 Copynumber: 1.9 Consensus size: 185
64613095 TGTATATATA
* ** * *
64613105 TATGAGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGA
1 TATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGA
* * *
64613170 ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGA-GAAT
*
64613235 GTGAACATGAGATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCG
130 GTG-ACATGAGATGTATGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
64613292 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGA
1 TATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGA
* * *
64613357 ATGGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AATG
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGAGAATG
* *
64613421 TG-TATGAGATAGATATGAGGTAAAGCCGAATGGCTAATG
131 TGACATGAGAT-G-TATGA--TAAAGCCGAATGGCCAATG
64613460 CAAAACGTGT
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
183 7 0.05
184 1 0.01
185 10 0.07
187 131 0.88
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.25
Consensus pattern (185 bp):
TATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGCGAGAATG
TGACATGAGATGTATGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:64613454 original size:140 final size:140
Alignment explanation
Indices: 64613030--64613422 Score: 529
Period size: 140 Copynumber: 2.8 Consensus size: 140
64613020 TTAGGATCTT
* ** * *
64613030 ATGTGATGAATATGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
* *
64613095 TGTATATATATATGAGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTG
65 ---ATGTATATAT--GTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCATATGTGTG
*
64613160 ATAAGGCTGAATGGCCA
124 ATAAGGCCGAATGGCCA
* * *
64613177 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
64613242 TG-AGATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCATATGTGTGATAAGG
64613306 CCGAATGGCCA
130 CCGAATGGCCA
*
64613317 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
64613382 TGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AATGTG
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGAGAATGTG
64613423 TATGAGATAG
Statistics
Matches: 220, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
139 6 0.03
140 126 0.57
141 26 0.12
142 4 0.02
143 2 0.01
146 1 0.00
147 55 0.25
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGTATATATGTGATAAGGCCGAATGGCCAATGTGAGAATGTGAACATGCATATGTGTGATAAGGC
CGAATGGCCA
Found at i:64613523 original size:46 final size:46
Alignment explanation
Indices: 64613387--64613523 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
64613377 GAACATGTAT
* *
64613387 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
64613433 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
64613479 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
64613524 TGCATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:64613736 original size:37 final size:37
Alignment explanation
Indices: 64613706--64613854 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
64613696 GTGGTGACTA
*
64613706 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
64613743 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
* *
64613780 TGTCTGGGTAAAACTCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
* * *
64613817 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
64613854 T
1 T
64613855 ATCTGAGCTA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (37 bp):
TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
Found at i:64614707 original size:39 final size:39
Alignment explanation
Indices: 64614664--64614834 Score: 297
Period size: 39 Copynumber: 4.4 Consensus size: 39
64614654 TGTTACAACT
*
64614664 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
64614703 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
* * *
64614742 TTAGCCCGGATATAACACCAGCATGAATGCCTTTGAGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
64614781 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
*
64614820 TTAGCCTGGATATAA
1 TTAGCCCGGATATAA
64614835 TTCTCCATTA
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 124 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
Found at i:64627227 original size:27 final size:27
Alignment explanation
Indices: 64627131--64627240 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
64627121 GCATGGCTGT
* * *
64627131 CAGAACAGATAA-TGTGACAGAGTCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
* *
64627157 CAGATACAGATAATCGTGGCAAAGCCAC
1 CAGAT-CAGATAATTGTGGCAGAGCCAC
*
64627185 TAGA-CAGA-AATATGTGGCAGAGCCAC
1 CAGATCAGATAAT-TGTGGCAGAGCCAC
*
64627211 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
64627238 CAG
1 CAG
64627241 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
25 3 0.04
26 23 0.33
27 27 0.39
28 16 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCAGAGCCAC
Found at i:64627658 original size:8 final size:8
Alignment explanation
Indices: 64627642--64627673 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
64627632 CCCAAAATAC
64627642 CGACTTTT
1 CGACTTTT
*
64627650 CGACATTT
1 CGACTTTT
64627658 CGACTTTT
1 CGACTTTT
64627666 CGACTTTT
1 CGACTTTT
64627674 GCCAATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.47
Consensus pattern (8 bp):
CGACTTTT
Found at i:64635044 original size:28 final size:28
Alignment explanation
Indices: 64634999--64635103 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
64634989 CTGCCAGAAT
* *
64634999 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGATAC
* *
64635026 AGATAATCGTGGCAGAGTCACCAGA-AC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
64635053 AGA-AATATGTGGTAGAGCCACCAGAT-C
1 AGATAAT-TGTGGCAGAGCCACCAGATAC
*
64635080 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
64635104 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 45 0.67
28 19 0.28
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGATAC
Found at i:64643495 original size:22 final size:23
Alignment explanation
Indices: 64643470--64643523 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
64643460 TCAACTTGAT
*
64643470 GAGCTTACTATTT-AGCTCAATA
1 GAGCTTACGATTTCAGCTCAATA
*
64643492 GAGCTTACCGGTTTCAGCTCAATA
1 GAGCTTA-CGATTTCAGCTCAATA
64643516 GAGCTTAC
1 GAGCTTAC
64643524 CGTTTATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 16 0.57
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (23 bp):
GAGCTTACGATTTCAGCTCAATA
Found at i:64645483 original size:46 final size:46
Alignment explanation
Indices: 64645433--64645598 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
64645423 GCATCCAAAT
64645433 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
* * * * * *
64645479 TCGTTAAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAAC
* * *
64645526 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
64645572 TCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCGTTGAGTTGAGTCCGAGTTCACTTA
64645599 GGGGCGGGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 52 0.54
47 27 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
Found at i:64645582 original size:93 final size:93
Alignment explanation
Indices: 64645423--64645593 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64645413 GGATGGTTGA
* * *
64645423 GCATCCAAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
*
64645488 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
64645516 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
64645581 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64645594 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:64654803 original size:23 final size:23
Alignment explanation
Indices: 64654773--64654824 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
64654763 TGAAGTGTGC
64654773 CATATCTTTGCTTCGAGATACAA
1 CATATCTTTGCTTCGAGATACAA
*
64654796 CATATCTTTGCTTCGAGATACAG
1 CATATCTTTGCTTCGAGATACAA
64654819 CATATC
1 CATATC
64654825 ACGGGTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (23 bp):
CATATCTTTGCTTCGAGATACAA
Found at i:64664961 original size:40 final size:40
Alignment explanation
Indices: 64664924--64665146 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
64664914 GCTACTCGTT
*
64664924 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
64664964 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
64665004 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
64665043 CAAATGCCTTC-GGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAACTCGCA
* * * * *
64665084 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
64665125 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
64665147 AGACATCATT
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 72 0.46
41 52 0.33
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:64665089 original size:80 final size:80
Alignment explanation
Indices: 64664924--64665142 Score: 214
Period size: 79 Copynumber: 2.7 Consensus size: 80
64664914 GCTACTCGTT
** *
64664924 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
64664989 ATTTAGTAACTAGCA
66 ATTTAGTAACTAGCA
* * * **
64665004 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
64665066 GGATATTAGTATCTCGCA
64 GGAT-TTAGTAACTAGCA
* * * * * *
64665084 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
64665143 GCCCAGACAT
Statistics
Matches: 115, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
78 4 0.03
79 40 0.35
80 36 0.31
81 23 0.20
82 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTAGCA
Found at i:64665109 original size:120 final size:120
Alignment explanation
Indices: 64664924--64665146 Score: 292
Period size: 120 Copynumber: 1.9 Consensus size: 120
64664914 GCTACTCGTT
* *
64664924 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
64664989 ATTTAGTAAC-TAGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTTGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGAAATTAGTATCTTGCA
* * * **
64665043 CAAATGCCTTC-GGATCTTAGTCCGGATATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
64665106 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCC
64665147 AGACATCATT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 24 0.27
120 45 0.51
121 17 0.19
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTATCTTGCA
Found at i:64668117 original size:23 final size:23
Alignment explanation
Indices: 64668091--64668175 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
64668081 GACTCACCAC
*
64668091 AGCTCGTATGAGCTTACCGATTT
1 AGCTCATATGAGCTTACCGATTT
* *
64668114 AGCTCATAAGAGCTTA-CTATTT
1 AGCTCATATGAGCTTACCGATTT
* *
64668136 CAACTCAT-TGGAGCTTACCGATTC
1 -AGCTCATAT-GAGCTTACCGATTT
64668160 AGCTCA-ATAGAGCTTA
1 AGCTCATAT-GAGCTTA
64668176 TTGTTCAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
22 5 0.10
23 40 0.82
24 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCTCATATGAGCTTACCGATTT
Found at i:64668172 original size:46 final size:46
Alignment explanation
Indices: 64668100--64668227 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
64668090 CAGCTCGTAT
* * *
64668100 GAGCTTACCGATTTAGCTC-ATAAGAGCTTACTATTTCAACTCATTG
1 GAGCTTACCGATTCAGCTCAAT-AGAGCTTACTATTTCAACTCAATA
64668146 GAGCTTACCGATTCAGCTCAATAGAGCTTA-T-TGTTCAACTCAATA
1 GAGCTTACCGATTCAGCTCAATAGAGCTTACTAT-TTCAACTCAATA
* *
64668191 GAGCTTATCGTTTTCAGCTCAATAGAGCTTACTATTT
1 GAGCTTACCG-ATTCAGCTCAATAGAGCTTACTATTT
64668228 ATCATATCGG
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.01
45 20 0.28
46 45 0.62
47 5 0.07
48 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCAATAGAGCTTACTATTTCAACTCAATA
Found at i:64668187 original size:22 final size:22
Alignment explanation
Indices: 64668134--64668221 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 22
64668124 AGCTTACTAT
* * **
64668134 TTCAACTCATTGGAGCTTACCG
1 TTCAACTCAATAGAGCTTATTG
*
64668156 ATTCAGCTCAATAGAGCTTATTG
1 -TTCAACTCAATAGAGCTTATTG
*
64668179 TTCAACTCAATAGAGCTTATCGTT
1 TTCAACTCAATAGAGCTTAT--TG
*
64668203 TTCAGCTCAATAGAGCTTA
1 TTCAACTCAATAGAGCTTA
64668222 CTATTTATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.35
23 17 0.31
24 19 0.35
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (22 bp):
TTCAACTCAATAGAGCTTATTG
Found at i:64668211 original size:24 final size:22
Alignment explanation
Indices: 64668157--64668221 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
64668147 AGCTTACCGA
64668157 TTCAGCTCAATAGAGCTTATTG
1 TTCAGCTCAATAGAGCTTATTG
* *
64668179 TTCAACTCAATAGAGCTTATCGTT
1 TTCAGCTCAATAGAGCTTAT--TG
64668203 TTCAGCTCAATAGAGCTTA
1 TTCAGCTCAATAGAGCTTA
64668222 CTATTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTATTG
Found at i:64675785 original size:13 final size:13
Alignment explanation
Indices: 64675764--64675795 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64675754 TAATATGTCC
*
64675764 ATTAACTTAGTCA
1 ATTAGCTTAGTCA
64675777 ATTAGCTTAGTCA
1 ATTAGCTTAGTCA
64675790 ATTAGC
1 ATTAGC
64675796 AAATAAGGCC
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:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (13 bp):
ATTAGCTTAGTCA
Found at i:64676009 original size:33 final size:33
Alignment explanation
Indices: 64675971--64676079 Score: 132
Period size: 33 Copynumber: 3.3 Consensus size: 33
64675961 GGTGTACATT
**
64675971 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
64676004 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTAA
* * * *
64676037 CCTTTCCAACT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
64676069 CCTTTTCAAGT
1 CCTTTTCAAGT
64676080 TGTTCCACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
32 28 0.43
33 36 0.55
34 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:64677794 original size:29 final size:29
Alignment explanation
Indices: 64677762--64677857 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
64677752 CATGAGAATG
64677762 ACATGAGATATGATGAACTTATGGTAAGA
1 ACATGAGATATGATGAACTTATGGTAAGA
* * * **
64677791 ACATGTGTATATATATATGCACACATGAG-AATG-
1 ACA--TG-AGATAT-GATGAACTTATG-GTAA-GA
*
64677824 ACATGAGATATGATGAACTTGTGGTAAGA
1 ACATGAGATATGATGAACTTATGGTAAGA
64677853 ACATG
1 ACATG
64677858 TGTATATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 16
0.64 0.15 0.21
Matches are distributed among these distances:
28 2 0.04
29 17 0.35
30 5 0.10
31 4 0.08
32 5 0.10
33 13 0.27
34 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (29 bp):
ACATGAGATATGATGAACTTATGGTAAGA
Found at i:64677824 original size:62 final size:62
Alignment explanation
Indices: 64677752--64677868 Score: 225
Period size: 62 Copynumber: 1.9 Consensus size: 62
64677742 ACATCGAACT
64677752 CATGAGAATGACATGAGATATGATGAACTTATGGTAAGAACATGTGTATATATATATGCACA
1 CATGAGAATGACATGAGATATGATGAACTTATGGTAAGAACATGTGTATATATATATGCACA
*
64677814 CATGAGAATGACATGAGATATGATGAACTTGTGGTAAGAACATGTGTATATATAT
1 CATGAGAATGACATGAGATATGATGAACTTATGGTAAGAACATGTGTATATATAT
64677869 GAAGAATAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (62 bp):
CATGAGAATGACATGAGATATGATGAACTTATGGTAAGAACATGTGTATATATATATGCACA
Found at i:64683036 original size:59 final size:61
Alignment explanation
Indices: 64682955--64683071 Score: 139
Period size: 62 Copynumber: 1.9 Consensus size: 61
64682945 ACCACTTTAA
* * ** *
64682955 TATTAAATTAACATAATATTTA-T-CAAGATAAATATTGGATTATATTTAATATTAAATCT
1 TATTAAAATAACAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
64683014 TATTAAAATAATAGAATGTTTATCTACAAGATGAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAACAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
64683072 GATAATCACT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 18 0.38
61 1 0.02
62 28 0.60
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (61 bp):
TATTAAAATAACAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:64685916 original size:20 final size:21
Alignment explanation
Indices: 64685874--64685917 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64685864 GCCAATGCTT
*
64685874 TTATTAAAAATTAAATATAAA
1 TTATAAAAAATTAAATATAAA
*
64685895 TTATAAAAAATTAAA-ATCAA
1 TTATAAAAAATTAAATATAAA
64685915 TTA
1 TTA
64685918 AATCTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TTATAAAAAATTAAATATAAA
Found at i:64686065 original size:29 final size:29
Alignment explanation
Indices: 64686020--64686109 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
64686010 TATAAATTTG
*
64686020 TAAAATTTTATAAAAATCGTAAAAAAAATA
1 TAAAATTATAT-AAAATCGTAAAAAAAATA
*
64686050 TAAAA-TATATAGAAAT-ATAAAAAAAATTA
1 TAAAATTATATA-AAATCGTAAAAAAAA-TA
* * *
64686079 TAAAATTTTATAAAATCGTAAGAAAATTA
1 TAAAATTATATAAAATCGTAAAAAAAATA
64686108 TA
1 TA
64686110 CAAAATGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
28 10 0.20
29 23 0.46
30 17 0.34
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (29 bp):
TAAAATTATATAAAATCGTAAAAAAAATA
Found at i:64686104 original size:21 final size:20
Alignment explanation
Indices: 64686080--64686119 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64686070 AAAAAATTAT
* *
64686080 AAAATTTTATAAAATCGTAAG
1 AAAATTATACAAAAT-GTAAG
64686101 AAAATTATACAAAATGTAA
1 AAAATTATACAAAATGTAA
64686120 ATAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTATACAAAATGTAAG
Found at i:64686939 original size:21 final size:21
Alignment explanation
Indices: 64686913--64686968 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
64686903 TTTTCAAATC
*
64686913 GAGTTGAGTAAAATGAAGTTT
1 GAGTTGAGTAAAATGAAATTT
*
64686934 GAGTTGAGTGAAATGAAATTT
1 GAGTTGAGTAAAATGAAATTT
* * *
64686955 AAGTCGAGTCAAAT
1 GAGTTGAGTAAAAT
64686969 CGAGTGACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.30
Consensus pattern (21 bp):
GAGTTGAGTAAAATGAAATTT
Found at i:64695882 original size:176 final size:175
Alignment explanation
Indices: 64695388--64696041 Score: 668
Period size: 176 Copynumber: 3.7 Consensus size: 175
64695378 CTGGTGACTT
* * * * * * *
64695388 AAATCTGCCCCATTGCCAATACATGGAGATAAGATTCGCCATCCTCAATCTGCTCCGCAACTACC
1 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
* * * * * *
64695453 TAGGGAGATAAGATCTTCAATCTTCAGTCTTCTTCC-TTGCTACATCAGGAATATAAGACTACAA
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGAAGATAAGACTACAA
* * *
64695517 TCGCCAACCTGCTCTCTTGCTACTTCAGAGAGGTAAGG-TCAGTGGTA
130 TTG-CAACCTGCTCTATTGCTACTTCAGAGAGATAAGGCT-AGTGGTA
* * * * * *
64695564 AAATCTGCTCCATTTCCGATACATGGAGATAAGATTCACCGTCTTCGATCTGCTCCCCTACTGCT
1 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
* * * * ** *
64695629 TAGAGATATAAAATCTTCAATTTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAAT
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTACAAT
64695694 TGCCAACCTGCTCTATTGCTACCTT-AGAGAGATAAGGCTAGTGGTA
131 TG-CAACCTGCTCTATTGCTA-CTTCAGAGAGATAAGGCTAGTGGTA
64695740 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
1 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
* * * **
64695805 TAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAT
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGAC-TACA-
* * * * * * * *
64695870 ATTG-AGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGACTT
129 ATTGCAACCTGCTCTATTGCTACTTCAGAGAGATAAGGCTAGTG-GTA
* * ** * * * * * * * * *
64695917 AAATTTGCTCCGTTGCCGGTACATAGAGATAAGACTCGTCGTCTTTGGTTTATTCCACTACTGCT
1 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
* * * * *
64695982 TAGAGAAATAAGACCTGCAATCTTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGACT
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACT
64696042 TGTTATGATC
Statistics
Matches: 404, Mismatches: 67, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
175 5 0.01
176 283 0.70
177 112 0.28
178 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (175 bp):
AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCTACTGCT
TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTACAAT
TGCAACCTGCTCTATTGCTACTTCAGAGAGATAAGGCTAGTGGTA
Found at i:64695888 original size:44 final size:45
Alignment explanation
Indices: 64695806--64695905 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
64695796 GCTACTGCTT
* * *
64695806 AGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCACTGCAACCTC
1 AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
** *
64695851 AGGGAGATAAGA-CTTGTATATTGAGCCTGCTCCACTGCAACTTC
1 AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
64695895 AGGGAGATAAG
1 AGGGAGATAAG
64695906 GCTGGTGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 37 0.76
45 12 0.24
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
Found at i:64696320 original size:64 final size:64
Alignment explanation
Indices: 64696219--64696410 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
64696209 TTCATGTATC
* *
64696219 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTA
* *
64696283 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCGCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTA
* ** *
64696347 ATGCTTATGTAAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTGGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTA
64696411 TTATGAATGA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTA
Found at i:64697563 original size:10 final size:10
Alignment explanation
Indices: 64697550--64697595 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
64697540 TCTTCTTCTT
64697550 TTTTTTTTGA
1 TTTTTTTTGA
64697560 TTTTTTTTGA
1 TTTTTTTTGA
64697570 TTTATTTTT--
1 TTT-TTTTTGA
*
64697579 TTTATTTTGA
1 TTTTTTTTGA
64697589 TTTTTTT
1 TTTTTTT
64697596 AAAAATTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 4 0.13
9 3 0.10
10 19 0.61
11 5 0.16
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:64697567 original size:14 final size:15
Alignment explanation
Indices: 64697548--64697595 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
64697538 TTTCTTCTTC
64697548 TTTTTT-TTTTGATT
1 TTTTTTATTTTGATT
64697562 TTTTTTGA-TTT-ATT
1 TTTTTT-ATTTTGATT
64697576 TTTTTTATTTTGATT
1 TTTTTTATTTTGATT
64697591 TTTTT
1 TTTTT
64697596 AAAAATTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 18 0.60
15 11 0.37
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTTGATT
Found at i:64703231 original size:6 final size:6
Alignment explanation
Indices: 64703220--64703251 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
64703210 GTATAATTAC
*
64703220 AAAAAT AAAAAT AAAAAT AAAAAT AAACAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
64703252 TATCATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:64705202 original size:79 final size:82
Alignment explanation
Indices: 64705091--64705275 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
64705081 GCTACTCGTT
* *
64705091 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACCCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTC-GGATCTTAACCC
* *
64705154 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
64705171 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCG
* *
64705234 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64705251 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64705276 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64705275 original size:40 final size:40
Alignment explanation
Indices: 64705072--64705275 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64705062 CGGAATTTAA
** *
64705072 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
64705112 CCGGTTATAGTAACCCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64705152 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64705191 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64705231 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64705271 CCGGA
1 CCGGA
64705276 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64708803 original size:26 final size:27
Alignment explanation
Indices: 64708731--64708794 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
64708721 TGTAACCCTA
* * *
64708731 TGTTTACTATCCCGACGGACTACCCCG
1 TGTTTACTGTCTCGACAGACTACCCCG
* *
64708758 TGTTTACTGTCTCGATAGACTA-CCTG
1 TGTTTACTGTCTCGACAGACTACCCCG
64708784 TGTTTACTGTC
1 TGTTTACTGTC
64708795 CTGGCAGACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (27 bp):
TGTTTACTGTCTCGACAGACTACCCCG
Found at i:64709067 original size:43 final size:43
Alignment explanation
Indices: 64708951--64709057 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
64708941 ATTTATTCAA
* * *
64708951 AAAAACGCCGCGAAAAGTCATGGCTTTTAACGGTGTTTGTGGG
1 AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
64708994 AAAAGCACCGCTTAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
*
64709037 AAAAACGCGGCTAAAAGTCAT
1 AAAAACGCCGCTAAAAGTCAT
64709058 AACCTTTAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:64709915 original size:23 final size:23
Alignment explanation
Indices: 64709884--64711019 Score: 858
Period size: 23 Copynumber: 49.7 Consensus size: 23
64709874 AAATAAGTAC
* *
64709884 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
64709907 TTAAGCACTTCAATTTACTGCAT
1 TTAAACACTTCAATTTACAGCAT
* ** *
64709930 TTAAAAACTTCAATTTGTAGCAC
1 TTAAACACTTCAATTTACAGCAT
* *
64709953 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
64709977 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
64709999 TTAAACACCTCAA-TTATAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
64710021 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * ** *
64710044 CTAAACACTTCAATTTGCAATAC
1 TTAAACACTTCAATTTACAGCAT
* *
64710067 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
64710090 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710113 TTAAACATTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710136 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
64710160 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
64710182 TTAAACACCTCAA-TTATAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
64710204 -TAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
64710226 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
64710249 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
64710272 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710295 TCAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710318 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
64710342 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710364 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
64710388 TT-TACA-TGTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
64710410 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
64710432 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
64710455 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
64710478 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710501 TTAAGCACATCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
64710524 TTAAACACTTCAACTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710547 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
64710571 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710593 TTAAACACTTTAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
64710617 TT-AGCA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
64710639 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
64710661 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
64710684 GTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
64710707 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
64710730 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710753 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
64710777 TT-AACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710799 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
64710823 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
64710845 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
64710867 TAAAACA-TCTCAATATCCAGCCA-
1 TTAAACACT-TCAATTTACAG-CAT
* * * *
64710890 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
64710913 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710936 TTAAGCATTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
64710959 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
64710982 TCAAACACTTCAGTTTACAGCAGT
1 TTAAACACTTCAATTTACAGCA-T
*
64711006 TT-AACACCTCAATT
1 TTAAACACTTCAATT
64711020 AACAATATTT
Statistics
Matches: 879, Mismatches: 180, Indels: 108
0.75 0.15 0.09
Matches are distributed among these distances:
21 11 0.01
22 97 0.11
23 745 0.85
24 26 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:64710547 original size:229 final size:228
Alignment explanation
Indices: 64710069--64711003 Score: 1181
Period size: 229 Copynumber: 4.1 Consensus size: 228
64710059 TGCAATACTT
* * * * *
64710069 AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACATTTCAATTTGCAGC
1 AAACACTTCAATTTGCAGCATTCAAACACTTCAATTTACAGCATTT-AACACTTCAATTTACAGC
* * * *
64710134 ATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAAACACCTCAATTAT
65 ATTTAAACACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTAC
64710199 AGCGAT-AAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
130 AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
64710263 TTGCAACATTTAAGCACTTCAATTTACAGCATTC
195 TTGCAACATTTAAGCACTTCAATTTACAGCATTC
*
64710297 AAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGC
1 AAACACTTCAATTTGCAGCATTCAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAGC
* *
64710362 ATTTAAGCACTTCAATTTGCAGCACTTTTACATGTCAATTAACAACATTTATACACCTCAATTAC
65 ATTTAAACACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTAC
*
64710427 AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACTTAAACACTTCAAT
130 AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAAT
* *
64710492 TTGCAACATTTAAGCACATCAATTTACAGCATTT
195 TTGCAACATTTAAGCACTTCAATTTACAGCATTC
* * *
64710526 AAACACTTCAACTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGC
1 AAACACTTCAATTTGCAGCATTCAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTACAGC
*
64710591 ATTTAAACACTTTAATTTGCAGCAC-TTTAGCATCTCAATTAACAACATTTATACACCTCAATTA
65 ATTTAAACACTTCAATTTGCAGCACTTTTA-CATCTCAATTAACAACATTTATACACCTCAATTA
* * ** * *
64710655 CAGCGATAAAACATCTCAATGTCCAACAAGTAAACACTTCAATTTGCAACATTTAAGCACTTCAA
129 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAA
* * *
64710720 TTTACAGCATTTAAACACTTCAATTTACAGCATTC
194 TTTGCAACATTTAAGCACTTCAATTTACAGCATTC
* * *
64710755 AAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTACAACATTTAAGCACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCA-TTCAAACACTTCAATTTACAGCATTTAA-CACTTCAATTTACAG
** * * * * * *
64710819 CACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCA
64 CA-TTTAAACACT-TCAATTTGCAGCACTTT-TACATCTCAATTAACAAC-ATTTATACACCTCA
* * * * * ** * *
64710879 ATATCCAGCCACT-AAACA-CTTCAATTTGCAG-TACTTAAACACTTCAATTTGCAACATTTAAG
125 AT-TACAGCGA-TAAAACATC-TCAATGTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAA
* * * *
64710941 CATTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTC
186 CACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTC
* *
64710984 AAACACTTCAGTTTACAGCA
1 AAACACTTCAATTTGCAGCA
64711004 GTTTAACACC
Statistics
Matches: 636, Mismatches: 57, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
228 147 0.23
229 481 0.76
230 8 0.01
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (228 bp):
AAACACTTCAATTTGCAGCATTCAAACACTTCAATTTACAGCATTTAACACTTCAATTTACAGCA
TTTAAACACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACA
GCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATT
TGCAACATTTAAGCACTTCAATTTACAGCATTC
Found at i:64714414 original size:21 final size:21
Alignment explanation
Indices: 64714390--64714453 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
64714380 AAACCTAACA
**
64714390 CTTAACCCATAACCCCTAAGT
1 CTTAACCCATAACCCCTAAAC
* *
64714411 CTTAAACCC-CAACCCTTAAAC
1 CTT-AACCCATAACCCCTAAAC
* *
64714432 CATAACCCATAATCCCTAAAC
1 CTTAACCCATAACCCCTAAAC
64714453 C
1 C
64714454 CATAATCCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 5 0.15
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.20
Consensus pattern (21 bp):
CTTAACCCATAACCCCTAAAC
Found at i:64714455 original size:15 final size:15
Alignment explanation
Indices: 64714421--64714468 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
64714411 CTTAAACCCC
* *
64714421 AACCCTTAAACCAT-
1 AACCCATAATCCATA
*
64714435 AACCCATAATCCCTA
1 AACCCATAATCCATA
64714450 AACCCATAATCCATA
1 AACCCATAATCCATA
64714465 AACC
1 AACC
64714469 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:64714473 original size:22 final size:21
Alignment explanation
Indices: 64714424--64714497 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
64714414 AAACCCCAAC
*
64714424 CCTTAAACCATAACCCATAAT
1 CCTTAAACCATAACCCATAAA
* *
64714445 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAACCCATAAA
** *
64714467 CCTTAAAATAGTAACTCATAAA
1 CCTTAAACCA-TAACCCATAAA
*
64714489 CATTAAACC
1 CCTTAAACC
64714498 CTTAACCAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
CCTTAAACCATAACCCATAAA
Found at i:64714780 original size:15 final size:15
Alignment explanation
Indices: 64714758--64714807 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
64714748 AAACTACCCT
*
64714758 TAAA-CCATGATCCC
1 TAAACCCATAATCCC
64714772 TAAACCCATAATCCC
1 TAAACCCATAATCCC
*
64714787 TAAACCCATAATCCA
1 TAAACCCATAATCCC
64714802 TAAACC
1 TAAACC
64714808 TTAAAATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 4 0.12
15 29 0.88
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:64715249 original size:16 final size:17
Alignment explanation
Indices: 64715213--64715246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64715203 ATCGAGCATT
*
64715213 AGCGGCGTTTTTAAAAA
1 AGCGGCATTTTTAAAAA
64715230 AGCGGCATTTTTAAAAA
1 AGCGGCATTTTTAAAAA
64715247 GCGCTGCTAA
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:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (17 bp):
AGCGGCATTTTTAAAAA
Found at i:64715372 original size:40 final size:39
Alignment explanation
Indices: 64715306--64715413 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 39
64715296 AAATTCTTTT
* * *
64715306 GCGGCGTTTTTAAAAAAACGCAGCTAAAGATCG-AGCAT-TA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAG-T-GTA-CATATA
* *
64715346 GCGGCGTTTTTTAATAAGCGCCGCTAAATGTGTACCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAA-GTGTACATATA
64715386 GCGGCG-TTTTTAAAAAGCGCCGCTAAAG
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAG
64715414 CCACTAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 1 0.02
39 23 0.39
40 34 0.58
41 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (39 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAAAGTGTACATATA
Found at i:64715511 original size:40 final size:40
Alignment explanation
Indices: 64715461--64715608 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 40
64715451 AAAATCTTTT
* * * *
64715461 GCGGCATTTTTAAAAAAACGCTGCTAAAGAT-TGAGCAT-TA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGT-A-CATATA
* * * *
64715501 GCGGCGTTTTTTAATAAGTGCCGCTAAAGGTGTACCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGTACATATA
*
64715541 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGTACCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGTACATATA
*
64715581 GCGGTGTTTTT-AAAAAGCGCCGCTAAAG
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAG
64715609 CCACTAAAAG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
39 19 0.20
40 74 0.79
41 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGTACATATA
Found at i:64715512 original size:155 final size:155
Alignment explanation
Indices: 64715230--64715569 Score: 536
Period size: 155 Copynumber: 2.2 Consensus size: 155
64715220 TTTTTAAAAA
* * **
64715230 AGCGGCATTTTTAAAAAGCGCTGCTAAAGCCACTAAAAGCTCAATACAAAACGAAGCCGTTTTGT
1 AGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGAAGCCGTTTTAC
* *
64715295 AAAATTCTTTTGCGGCGTTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAA
66 AAAAATCTTTTGCGGCATTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAA
*
64715360 TAAGCGCCGCTAAATGTGTACCTAT
131 TAAGCGCCGCTAAAGGTGTACCTAT
* ****
64715385 AGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGATTTTGTTTTAC
1 AGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGAAGCCGTTTTAC
* *
64715450 AAAAATCTTTTGCGGCATTTTTAAAAAAACGCTGCTAAAGATTGAGCATTAGCGGCGTTTTTTAA
66 AAAAATCTTTTGCGGCATTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAA
*
64715515 TAAGTGCCGCTAAAGGTGTACCTAT
131 TAAGCGCCGCTAAAGGTGTACCTAT
64715540 AGCGGCGTTTTTAAAAAAGCGCCGCTAAAG
1 AGCGGCGTTTTT-AAAAAGCGCCGCTAAAG
64715570 GTGTACCTAT
Statistics
Matches: 169, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
155 152 0.90
156 17 0.10
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (155 bp):
AGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGAAGCCGTTTTAC
AAAAATCTTTTGCGGCATTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAA
TAAGCGCCGCTAAAGGTGTACCTAT
Found at i:64715607 original size:39 final size:39
Alignment explanation
Indices: 64715499--64715608 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 39
64715489 GATTGAGCAT
* *
64715499 TAGCGGCGTTTTTTAATAAGTGCCGCTAAAGGTGTACCTA
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTAAAGGTGTACCTA
64715539 TAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTGTACCTA
1 TAGCGGCGTTTTT-AAAAAGCGCCGCTAAAGGTGTACCTA
*
64715579 TAGCGGTGTTTTTAAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAG
64715609 CCACTAAAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 22 0.33
40 44 0.67
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTGTACCTA
Found at i:64715644 original size:195 final size:193
Alignment explanation
Indices: 64715306--64715759 Score: 623
Period size: 195 Copynumber: 2.3 Consensus size: 193
64715296 AAATTCTTTT
* * * * *
64715306 GCGGCG-TTTTTAAAAAAACGCAGCTAAAGATCG-AGC-ATTAGCGGCGTTTTTTAATAAGCGCC
1 GCGGCGCTTTTT-AAAAAACGCCGCTAAAGGT-GTACCTA-TAGCGGCGTTTTTAAAAAAGCGCC
*
64715368 GCTAAATGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACA
63 GCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACA
** * * * *
64715433 AAACGATTTTGTTTTACAAAAATCTTTTGC-G-GCATTTTTAAAAAAACGCTGCTAAAGATTGAG
128 AAACGACGTCGTTTTACAAAAATCTTTTGCTGCGC-TTTCT--AAAAACGCCGCT-AAGATCGAG
64715496 CATTA
189 CATTA
* * **
64715501 GCGGCGTTTTTTAATAAGTGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAAGCGCCGCT
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAAGCGCCGCT
*
64715566 AAAGGTGTACCTATAGCGGTGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAA
66 AAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAA
* *
64715631 CGACGTCGTTTTACAAAACTCTTTTGCTGCGCTTTCTGAAAACGCCGCTAAGATCGAGCATTA
131 CGACGTCGTTTTACAAAAATCTTTTGCTGCGCTTTCTAAAAACGCCGCTAAGATCGAGCATTA
*
64715694 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAATAAA-CGCCGCT
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAAGCGCCGCT
64715758 AA
66 AA
64715760 TGCTCGATCT
Statistics
Matches: 231, Mismatches: 23, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
192 9 0.04
193 65 0.28
194 11 0.05
195 133 0.58
196 11 0.05
197 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (193 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAAGCGCCGCT
AAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAA
CGACGTCGTTTTACAAAAATCTTTTGCTGCGCTTTCTAAAAACGCCGCTAAGATCGAGCATTA
Found at i:64715779 original size:39 final size:38
Alignment explanation
Indices: 64715670--64715800 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 38
64715660 CGCTTTCTGA
* * *
64715670 AAACGCCGCTAAGATCGAGCATTAGCGGCGCTTTTTAAA
1 AAACGCCGCTAAGATCGACCTTTAGCGGCG-TTTTTAAT
* *
64715709 AAACGCCGCTAAAGGT-GTACCTATAGCGGCGTTTTTAAT
1 AAACGCCGCT-AAGATCG-ACCTTTAGCGGCGTTTTTAAT
* * * *
64715748 AAACGCCGCTAATGCTCGATCTTTAGAGGCGTTTTTCATT
1 AAACGCCGCTAA-GATCGACCTTTAGCGGCGTTTTT-AAT
64715788 CAAACGCCGCTAA
1 -AAACGCCGCTAA
64715801 AAACCTATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.03
39 45 0.59
40 17 0.22
41 12 0.16
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (38 bp):
AAACGCCGCTAAGATCGACCTTTAGCGGCGTTTTTAAT
Found at i:64720168 original size:13 final size:13
Alignment explanation
Indices: 64720150--64720174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64720140 ATTTAAAAGA
64720150 TTACATAATCAAT
1 TTACATAATCAAT
64720163 TTACATAATCAA
1 TTACATAATCAA
64720175 ATCAAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:64725852 original size:74 final size:74
Alignment explanation
Indices: 64725763--64725921 Score: 273
Period size: 74 Copynumber: 2.1 Consensus size: 74
64725753 GGACATAGGT
* * *
64725763 TTAGCTCGAACGAGTAACTTAATGTTGTTTTAAAATTTTAGCTCAGACAGGTAACTTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
64725828 TTTATATTA
66 TTTATATTA
* *
64725837 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGACGGGTAACCTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
64725902 TTTATATTA
66 TTTATATTA
64725911 TTAGCTCGAAC
1 TTAGCTCGAAC
64725922 AAGCAATTGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (74 bp):
TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
TTTATATTA
Found at i:64725892 original size:37 final size:37
Alignment explanation
Indices: 64725761--64725893 Score: 123
Period size: 37 Copynumber: 3.6 Consensus size: 37
64725751 TAGGACATAG
*
64725761 GTTTAGCTCGAACGAGTAACTTAATGTTGTTTTAAAA
1 GTTTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAA
* * *
64725798 TTTTAGCTC-AGAC-AGGTAACTTGATATG-TG-TTT-ATA
1 GTTTAGCTCGA-ACGA-GTAACCT-A-ATGTTGTTTTAAAA
*
64725834 TTATTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAA
1 GT-TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAA
* *
64725872 GTTTAGCTCGGACGGGTAACCT
1 GTTTAGCTCGAACGAGTAACCT
64725894 GATATGTGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
35 3 0.04
36 9 0.11
37 56 0.71
38 8 0.10
39 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (37 bp):
GTTTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAA
Found at i:64725915 original size:37 final size:37
Alignment explanation
Indices: 64725800--64725918 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 37
64725790 TTTTAAAATT
* * *
64725800 TTAGCTCAGACAGGTAACTTGATATGTGTTTATATTA
1 TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
* * **
64725837 TTAGCTCGAACGAGTAACCT-A-ATGTTGTTT-TAAAA
1 TTAGCTCGGACGGGTAACCTGATATG-TGTTTATATTA
64725872 GTTTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
1 --TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
64725911 TTAGCTCG
1 TTAGCTCG
64725919 AACAAGCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
35 6 0.09
36 6 0.09
37 41 0.63
38 6 0.09
39 6 0.09
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (37 bp):
TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
Found at i:64729832 original size:49 final size:49
Alignment explanation
Indices: 64729775--64729996 Score: 321
Period size: 47 Copynumber: 4.7 Consensus size: 49
64729765 GTATATTTGA
* *
64729775 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
64729824 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
64729871 ATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
64729920 ATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
*
64729967 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
64729997 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
47 94 0.60
48 1 0.01
49 61 0.39
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:64729888 original size:96 final size:96
Alignment explanation
Indices: 64729775--64729996 Score: 385
Period size: 96 Copynumber: 2.3 Consensus size: 96
64729765 GTATATTTGA
64729775 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
64729840 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAACGTG
*
64729871 ATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
64729936 ATATATGTGATAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCGAATGGCCAACGTG
*
64729967 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
64729997 TCCCGAAGGG
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
94 10 0.08
95 1 0.01
96 109 0.91
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATGGCCAACGTG
Found at i:64730165 original size:37 final size:37
Alignment explanation
Indices: 64730115--64730259 Score: 209
Period size: 37 Copynumber: 3.9 Consensus size: 37
64730105 CCGAGCTCTA
* *
64730115 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
64730152 AAGACCCGATGACTACGTGTGGATATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
64730189 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * * * *
64730226 AAGACCCGATAATTTCGTGTGGAGAATTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
64730260 AGCTAAAGGT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Done.