Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 90 of 216
Found at i:27728543 original size:37 final size:37
Alignment explanation
Indices: 27728487--27728565 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27728477 CCGAGCTCTA
* * *
27728487 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
27728524 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27728561 AAGAC
1 AAGAC
27728566 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27739185 original size:140 final size:140
Alignment explanation
Indices: 27738957--27739229 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 140
27738947 CTCGGCCATA
* * * * * *
27738957 TGACCCAAGTCAGAGAGTTACATGGGCACGGACACAGGCTCGGACACGGTTGTTTGTCCCTACTT
1 TGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTCGGACACGGTCGTTTGTCCATACTT
* * * * *
27739022 CGAATACCTACACGGCTTGAGACATAAGCATGTGTCTCAGCCGTGTGAGTCACACGGCCTGGCCA
66 CGAATACCCACACGGCCTGAGACATAAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGCCA
27739087 CATAGCTTTG
131 CATAGCTTTG
* * * *
27739097 TGACCAAAGTTAGAAAGTTACATGGGCACAGACATAGCCTGGGACATGGTCGTTTGTCCATACTT
1 TGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTCGGACACGGTCGTTTGTCCATACTT
* * ** * *
27739162 CGAATGCCCACACTGCCTGAGACATGGGCATGTATTTCAGCCATGTAAGTCACACGGCTTGGCCA
66 CGAATACCCACACGGCCTGAGACATAAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGCCA
27739227 CAT
131 CAT
27739230 GGCCGTGTAA
Statistics
Matches: 112, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
140 112 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.23
Consensus pattern (140 bp):
TGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTCGGACACGGTCGTTTGTCCATACTT
CGAATACCCACACGGCCTGAGACATAAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGCCA
CATAGCTTTG
Found at i:27745974 original size:30 final size:30
Alignment explanation
Indices: 27745940--27745998 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
27745930 CGCATGGCCG
27745940 TGTGTCACACACAGTTGAGACACACGCCCA
1 TGTGTCACACACAGTTGAGACACACGCCCA
27745970 TGTGTCACACACAGTTGAGACACACGCCC
1 TGTGTCACACACAGTTGAGACACACGCCC
27745999 GTGTCTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (30 bp):
TGTGTCACACACAGTTGAGACACACGCCCA
Found at i:27746267 original size:12 final size:13
Alignment explanation
Indices: 27746241--27746273 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
27746231 TTCACTCAAG
27746241 AAATACCTAATCA
1 AAATACCTAATCA
27746254 AAATACCT-ATCA
1 AAATACCTAATCA
27746266 AAGATACC
1 AA-ATACC
27746274 ACAATCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATACCTAATCA
Found at i:27748458 original size:13 final size:13
Alignment explanation
Indices: 27748440--27748464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27748430 TTAGTGCATC
27748440 TGTACTTTTAATA
1 TGTACTTTTAATA
27748453 TGTACTTTTAAT
1 TGTACTTTTAAT
27748465 TATTGGTAGA
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
TGTACTTTTAATA
Found at i:27749740 original size:98 final size:98
Alignment explanation
Indices: 27749569--27749765 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
27749559 GTGCAATAAA
* *
27749569 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
* *
27749634 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAAGCCCAAACACGGAATATTTCCTTT
*
27749667 ACTTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
*
27749732 CCTTTAAAAGCCCAAACACGGAATATTTCCTTT
66 CCTCTAAAAGCCCAAACACGGAATATTTCCTTT
27749765 A
1 A
27749766 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
CCTCTAAAAGCCCAAACACGGAATATTTCCTTT
Found at i:27749920 original size:103 final size:102
Alignment explanation
Indices: 27749810--27750132 Score: 253
Period size: 103 Copynumber: 3.1 Consensus size: 102
27749800 AATGCGTCAC
27749810 ATCCAATACGTTAGGACATTACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGA
1 ATCCAATACGTTAGGACATTAC-TGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGA
27749875 GAAATGCTCGATTATTGGATTTAACAAAGAAAATTGGA
65 GAAATGCTCGATTATTGGATTTAACAAAGAAAATTGGA
* ** * * *
27749913 ATCCAATACGTTAGGGCTCAATT-CCCTTGAAAATCCTAAATACA-GAATATTTCCTTTATTATT
1 ATCCAATACGTTA-GG-AC-ATTACTGTTG-AATTCC-CAATA-ATG-A-A-TT-C-TTATTTTT
* * ** *
27749976 T--TTAAA-AGAAAT-CTTC-ATT-TCGAGA---AATCAATG---CGT-CA
55 TGATTAAAGAGAAATGC-TCGATTATTG-GATTTAA-CAAAGAAAATTGGA
**
27750014 CATCCAATACGTTAGGACACAACATGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAG
1 -ATCCAATACGTTAGGACATTAC-TGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAG
*
27750079 AGAAATGCTCGATTATTGGATTTAACAAAGAAAATCGGA
64 AGAAATGCTCGATTATTGGATTTAACAAAGAAAATTGGA
*
27750118 ACCCAATACGTTAGG
1 ATCCAATACGTTAGG
27750133 GCTCAATTCC
Statistics
Matches: 163, Mismatches: 26, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
94 8 0.05
95 1 0.01
96 7 0.04
97 9 0.06
98 8 0.05
99 8 0.05
100 11 0.07
101 8 0.05
102 14 0.09
103 27 0.17
104 8 0.05
105 11 0.07
106 10 0.06
107 8 0.05
108 9 0.06
109 7 0.04
110 1 0.01
111 8 0.05
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (102 bp):
ATCCAATACGTTAGGACATTACTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAG
AAATGCTCGATTATTGGATTTAACAAAGAAAATTGGA
Found at i:27749976 original size:205 final size:205
Alignment explanation
Indices: 27749709--27750159 Score: 787
Period size: 205 Copynumber: 2.2 Consensus size: 205
27749699 AAGAAATCAC
* * * * * * *
27749709 ACCCAATACGTTAGGCCACAATT-CCTTTAAAAGCCCAAACACGGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACAGAATATTTCCTTTATTATTTT
** *
27749773 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACATTACGTGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACATGTTG
27749838 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
131 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
*
27749903 GAAAATTGGA
196 GAAAATCGGA
*
27749913 ATCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACAGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACAGAATATTTCCTTTATTATTTT
27749978 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACATGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACATGTTG
27750043 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
131 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
27750108 GAAAATCGGA
196 GAAAATCGGA
27750118 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATA
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATA
27750160 TGAGCATTAT
Statistics
Matches: 233, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
204 20 0.09
205 213 0.91
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (205 bp):
ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACAGAATATTTCCTTTATTATTTT
TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACATGTTG
AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
GAAAATCGGA
Found at i:27750635 original size:20 final size:20
Alignment explanation
Indices: 27750607--27750653 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27750597 ATATAGGTGT
* *
27750607 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
27750627 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
27750647 ATATATA
1 ATATATA
27750654 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:27752104 original size:44 final size:44
Alignment explanation
Indices: 27752031--27752370 Score: 222
Period size: 44 Copynumber: 7.8 Consensus size: 44
27752021 ACTTGCTTCA
* *
27752031 TTAATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAGGGTT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
* * * * *
27752074 TTAATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-GGGTT
* * * **
27752118 TTAATTTGCTCCACTGTAACTTCAGGGAAATAAGAT-TAGCCATT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG-GGTT
* * *
27752162 TTCAGTCTG-TCTCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTT
1 TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTAGGGTT
* * *
27752205 ACTTAGTCTGCTCCACTGCCACTTCAGGGAGATAAGA-CTA--GAT
1 --TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
*** ** * * *
27752248 GCGATCTGCT-CTTTGCAACTTCAGAGAGGTAAGATCT-GAGATT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG-GGTT
* * * *
27752291 TTAATCCGCTCCACTGCAACTTCAGGAAGATAGGAT-T-GTTGGCT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG--GGTT
27752335 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
27752371 TTTCCATCTT
Statistics
Matches: 225, Mismatches: 54, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
40 19 0.08
41 8 0.04
43 23 0.10
44 145 0.64
45 30 0.13
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
Found at i:27752439 original size:217 final size:217
Alignment explanation
Indices: 27752034--27752439 Score: 543
Period size: 217 Copynumber: 1.9 Consensus size: 217
27752024 TGCTTCATTA
*
27752034 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGGTTTTAATCCGCTCCACTACAACTTCAG
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGATTTTAATCCGCTCCACTACAACTTCAG
* * * *
27752099 GGAGATAGGATTATCGGCTTTAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTAGCCATTTT
66 GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCTT
* * ** * *
27752164 CAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCCACTT
131 CAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGAATACTTAATCTACTCCACTGCCACTT
27752229 CAGGGAGATAAGACTAGATGCG
196 CAGGGAGATAAGACTAGATGCG
* * *
27752251 ATCTGCTCTTTGCAACTTCAGAGAGGTAAGATCT-GAGATTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAG-GATTTTAATCCGCTCCACTACAACTTCA
* * * **
27752315 GGAAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCT
65 GGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCT
* *
27752380 TCAGTCTGCCTCACTACTACTT-AGG-GAGATAAGA-TCTGAA-ATCTTCAATCTATTCCACTG
130 TCAGTCTGCCTCACTACAACTTCAGGAG-GATAAGACT-TGAATA-CTT-AATCTACTCCACTG
27752440 TTGCCCAAGG
Statistics
Matches: 163, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
215 3 0.02
216 16 0.10
217 144 0.88
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (217 bp):
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGATTTTAATCCGCTCCACTACAACTTCAG
GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCTT
CAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGAATACTTAATCTACTCCACTGCCACTT
CAGGGAGATAAGACTAGATGCG
Found at i:27752479 original size:132 final size:132
Alignment explanation
Indices: 27752374--27752945 Score: 959
Period size: 132 Copynumber: 4.3 Consensus size: 132
27752364 ATAAGATTTT
*
27752374 CCATCTTC-AGTCTGC-CTCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCA
1 CCATCTTCGA-TCTGCTC-CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCA
* * * *
27752437 CTGTTGCCCAAGGAAGTAGAATTACTGGCTTTAATTTACTCCACTGTAACCACAGGGAGGTAAAA
64 CTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
27752502 TCTG
129 TCTG
* *
27752506 CCATCTTCGATCTGCTCGACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
*
27752571 GTTGTCCAGGGAAGTAGAGTTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
66 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
*
27752636 CG
131 TG
* *
27752638 CCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * *
27752703 TTTTTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
66 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
27752768 TG
131 TG
27752770 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* *
27752835 GTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATC
66 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
*
27752900 CG
131 TG
27752902 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
27752946 CTATTTTCAC
Statistics
Matches: 414, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 412 1.00
133 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
TG
Found at i:27757679 original size:11 final size:11
Alignment explanation
Indices: 27757663--27757690 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27757653 TGTATAATGC
27757663 AAACAATATTT
1 AAACAATATTT
27757674 AAACAATATTT
1 AAACAATATTT
27757685 AAACAA
1 AAACAA
27757691 GAAGATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (11 bp):
AAACAATATTT
Found at i:27758439 original size:102 final size:103
Alignment explanation
Indices: 27758330--27758649 Score: 290
Period size: 102 Copynumber: 3.1 Consensus size: 103
27758320 TGCGTCACAT
27758330 CCAATACGTTA-GACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
1 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
27758394 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
66 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
* * ** * * ** *
27758432 CCAATACGTTAGGGCTCAATTC-CCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTT--
1 CCAATACGTTAGGACACAA--CGTGTTG-AATTCC-CAATAATG-A-A-TT-C-TTATTTTTTGA
* ** * *
27758494 TTAAA-AGAAAT-CTTC-ATT-TTGAGA---AATCAATG--CGTCA-CAT
57 TTAAAGAGAAATGC-TCGATTATTG-GATTTAA-CAAAGAAAATCAGAAC
27758534 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
1 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
* *
27758599 AATGCTCGATTATTAGATTTAACAAAGAAAATCGGAAC
66 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
27758637 CCAATACGTTAGG
1 CCAATACGTTAGG
27758650 GCTTAATTCC
Statistics
Matches: 162, Mismatches: 30, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
94 8 0.05
95 1 0.01
96 7 0.04
97 9 0.06
98 7 0.04
99 7 0.04
100 10 0.06
101 5 0.03
102 31 0.19
103 22 0.14
104 5 0.03
105 10 0.06
106 8 0.05
107 7 0.04
108 9 0.06
109 7 0.04
110 1 0.01
111 8 0.05
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (103 bp):
CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
Found at i:27758626 original size:205 final size:204
Alignment explanation
Indices: 27758227--27758678 Score: 793
Period size: 205 Copynumber: 2.2 Consensus size: 204
27758217 AAGAAATCAC
* * *
27758227 ACCCAATACGTTAGAG-TACAATT-CCTTTAAAATCCCAAACT-CGGAATATTTCCTTTATTATT
1 ACCCAATACGTTAGGGCT-CAATTCCCTTGAAAATCCTAAA-TACGGAATATTTCCTTTATTATT
27758289 TTTAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGACACAACGTGTT
64 TTTAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGACACAACGTGTT
*
27758354 GAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAA
129 GAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAA
27758419 AGAAAATCAGA
194 AGAAAATCAGA
27758430 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
*
27758495 TAAAAGAAATCTTCATTTTGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTA-GACACAACGTGTTG
27758560 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAA
130 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAA
*
27758625 GAAAATCGGA
195 GAAAATCAGA
*
27758635 ACCCAATACGTTAGGGCTTAATTCCCTTGAAAATCCTAAATACG
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACG
27758679 AGCATTATCT
Statistics
Matches: 238, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
203 21 0.09
204 87 0.37
205 130 0.55
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (204 bp):
ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGACACAACGTGTTGA
ATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAAG
AAAATCAGA
Found at i:27759161 original size:20 final size:20
Alignment explanation
Indices: 27759133--27759179 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27759123 ATATATGTGT
* *
27759133 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
27759153 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
27759173 ATATATA
1 ATATATA
27759180 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:27759172 original size:58 final size:55
Alignment explanation
Indices: 27759018--27759196 Score: 147
Period size: 58 Copynumber: 3.2 Consensus size: 55
27759008 ATAAAGAAAA
* *
27759018 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACACGTAC
1 ATATATATATAAATTAT-AAAATAT-GATAGAAAGTATAATATATATATACACGTAC
* * * * * **
27759075 ATATATATGTAAATTA-ATAAATATAGACCATAAAG-ATAATGAT-TGCATATATATGTGT
1 ATATATATATAAATTATA-AAATAT-GA-TAGAAAGTATAAT-ATAT--ATATACACGTAC
27759133 ATATATATATAAATTATAAAATATGTATAGAAAGTAT-A-ATATATAT--ACGTAC
1 ATATATATATAAATTATAAAATATG-ATAGAAAGTATAATATATATATACACGTAC
27759185 ATATATATATAA
1 ATATATATATAA
27759197 GGTAACAAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
52 15 0.15
54 4 0.04
55 3 0.03
56 14 0.14
57 28 0.29
58 32 0.33
59 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (55 bp):
ATATATATATAAATTATAAAATATGATAGAAAGTATAATATATATATACACGTAC
Found at i:27759238 original size:114 final size:114
Alignment explanation
Indices: 27759018--27759239 Score: 281
Period size: 110 Copynumber: 2.0 Consensus size: 114
27759008 ATAAAGAAAA
*
27759018 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACACGTACATATATAT
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATA-ACGTACATATATAT
* * * * * *
27759083 GTAAATTAATAAATATAGACCATAAAGATAATGATTGCATATATATGTGT
65 ATAAAGTAACAAATATAGACCATAAACATAATAATTACATATATATGTGT
* *
27759133 ATATATATATAAATTAT-AAAATATGTATAGAAAGTAT-A-ATATATAT-ACGTACATATATATA
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATAACGTACATATATATA
* * *
27759194 TAAGGTAACAAATATATACATCATAAACATAATAATTACACATATA
66 TAAAGTAACAAATATAGAC--CATAAACATAATAATTACATATATA
27759240 AGCTTAAAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
110 29 0.31
112 29 0.31
113 1 0.01
114 18 0.19
115 16 0.17
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (114 bp):
ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATAACGTACATATATATA
TAAAGTAACAAATATAGACCATAAACATAATAATTACATATATATGTGT
Found at i:27763823 original size:13 final size:13
Alignment explanation
Indices: 27763805--27763859 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
27763795 AGCACACATG
*
27763805 AAACATATCTTTA
1 AAACATATCTTGA
* *
27763818 AAACATAACTTAA
1 AAACATATCTTGA
*
27763831 AAAAATATCTTGA
1 AAACATATCTTGA
*
27763844 AAATATATCTTGA
1 AAACATATCTTGA
27763857 AAA
1 AAA
27763860 TAGACTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (13 bp):
AAACATATCTTGA
Found at i:27765156 original size:20 final size:20
Alignment explanation
Indices: 27765131--27765176 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
27765121 ACGAAGAACG
27765131 GAGAAATCAGTCAAGCCACA
1 GAGAAATCAGTCAAGCCACA
*
27765151 GAGAAATCAGTCAAGCCACG
1 GAGAAATCAGTCAAGCCACA
27765171 GAGAAA
1 GAGAAA
27765177 CACCGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.09
Consensus pattern (20 bp):
GAGAAATCAGTCAAGCCACA
Found at i:27774653 original size:7 final size:7
Alignment explanation
Indices: 27774643--27774668 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27774633 TTTTTTTTTT
27774643 TTTTGCA
1 TTTTGCA
27774650 TTTTGCA
1 TTTTGCA
27774657 TTTTGCA
1 TTTTGCA
27774664 TTTTG
1 TTTTG
27774669 GTGAAGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (7 bp):
TTTTGCA
Found at i:27779242 original size:14 final size:15
Alignment explanation
Indices: 27779220--27779296 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
27779210 CAATCAAACA
27779220 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
27779234 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
27779249 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
27779269 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
27779283 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
27779297 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:27779261 original size:20 final size:20
Alignment explanation
Indices: 27779236--27779275 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27779226 AATATTTTCC
*
27779236 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
27779256 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
27779276 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:27779281 original size:34 final size:35
Alignment explanation
Indices: 27779224--27779290 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27779214 CAAACACCAG
*
27779224 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
27779259 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27779291 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27779297 original size:14 final size:14
Alignment explanation
Indices: 27779259--27779298 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27779249 ACAGAAAAGT
*
27779259 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
27779273 AAATCATTTTACGG
1 AAAACATTTTACAG
27779287 AAAACATTTTAC
1 AAAACATTTTAC
27779299 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:27780365 original size:20 final size:20
Alignment explanation
Indices: 27780340--27780397 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
27780330 TTTATATATT
*
27780340 TAAAATTATTATTTTTAATC
1 TAAAATTATTATTTTTAAAC
*
27780360 TAAAATT-TTAGTTTTCAAAC
1 TAAAATTATTA-TTTTTAAAC
27780380 -AAAATTATAATATTTTTA
1 TAAAATTAT--TATTTTTA
27780398 GGAATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTATTATTTTTAAAC
Found at i:27781863 original size:11 final size:11
Alignment explanation
Indices: 27781849--27781882 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27781839 TCAATTATTT
27781849 TCTCAATTTCC
1 TCTCAATTTCC
* *
27781860 TCTCAAATTGC
1 TCTCAATTTCC
27781871 TCTCAATTTCC
1 TCTCAATTTCC
27781882 T
1 T
27781883 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:27781877 original size:22 final size:22
Alignment explanation
Indices: 27781849--27781898 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
27781839 TCAATTATTT
27781849 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
27781871 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
27781893 TCTCAA
1 TCTCAA
27781899 ATCTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:27781959 original size:51 final size:51
Alignment explanation
Indices: 27781860--27781959 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
27781850 CTCAATTTCC
*
27781860 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCTATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * *
27781911 TCTC-AATCTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAAT-TGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATATTT
27781960 TAAATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 5 0.12
51 38 0.88
ACGTcount: A:0.26, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:27787572 original size:21 final size:21
Alignment explanation
Indices: 27787546--27787601 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
27787536 AATAATAGTG
*
27787546 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
27787567 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
27787588 GCGATGAGATTAGA
1 GCGGTGAGATTAGA
27787602 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:27791569 original size:29 final size:29
Alignment explanation
Indices: 27791527--27792285 Score: 1189
Period size: 29 Copynumber: 25.9 Consensus size: 29
27791517 ATATATATAT
*
27791527 ATATTTTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791556 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
27791585 ATATATTTTTTATTTTTAAACTACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
27791614 ATATATATTTTTTTATTTTTAAAATGCACTAC
1 --ATATA-TTTTTTATTTTTAAAATACACTAC
*
27791646 ATATATTTTTTATTTTTAAAATACACTAAAT
1 ATATATTTTTTATTTTTAAAATACACT--AC
27791677 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791706 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791735 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
27791765 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791794 ATAT-TTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791822 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
27791851 ATATATTTTTTATTTTTAAAATGCACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791880 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791909 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
27791939 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATAT-TTTTTATTTTTAAAATACACTAC
27791969 ATATATTTTTTA--TTT----TACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27791992 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27792021 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27792050 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27792079 ATAT-TTTTTTA-TTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27792106 ATATATATATTTTATTTTTAAAATACACTAC
1 ATATAT-T-TTTTATTTTTAAAATACACTAC
* * *
27792137 AAATA-TATATATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
27792165 ATATATATTTTTTTTATTTTTAAAATACACTTA-
1 --ATATA--TTTTTTATTTTTAAAATACAC-TAC
27792198 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
*
27792228 ATATATTTTTTTATTTTTAGAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
27792258 ATATATATTTTTTATTTTTAAAATACAC
1 --ATATATTTTTTATTTTTAAAATACAC
27792286 AAATACAATG
Statistics
Matches: 685, Mismatches: 17, Indels: 54
0.91 0.02 0.07
Matches are distributed among these distances:
23 20 0.03
25 3 0.00
27 23 0.03
28 56 0.08
29 306 0.45
30 152 0.22
31 78 0.11
32 27 0.04
33 18 0.03
34 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATATTTTTTATTTTTAAAATACACTAC
Found at i:27792398 original size:17 final size:17
Alignment explanation
Indices: 27792376--27792410 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27792366 CCATTCCCAT
*
27792376 TTCCCCACTTCTACCGA
1 TTCCCCACTTCCACCGA
*
27792393 TTCCCCTCTTCCACCGA
1 TTCCCCACTTCCACCGA
27792410 T
1 T
27792411 CAAAGTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.49, G:0.06, T:0.31
Consensus pattern (17 bp):
TTCCCCACTTCCACCGA
Found at i:27792432 original size:79 final size:79
Alignment explanation
Indices: 27792317--27792472 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
27792307 TCCCAATCTT
* *
27792317 CCCTCTTCTACCGATCAAAGTCCCAAACCCTATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
1 CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
*
27792382 ACTTCTACCGATTC
66 ACTTCCACCGATTC
* *
27792396 CCCTCTTCCACCGATCAAAGTCCCAAACCCCGTGCCCTCCTCCCATTTCCCATTCCCATTTCCCC
1 CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
*
27792461 TCTTCCACCGAT
66 ACTTCCACCGAT
27792473 CAAAGTCCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.19, C:0.48, G:0.06, T:0.28
Consensus pattern (79 bp):
CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
ACTTCCACCGATTC
Found at i:27794554 original size:17 final size:17
Alignment explanation
Indices: 27794532--27794571 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27794522 TTGATATCCA
27794532 ATCTTTCTGATACCAAT
1 ATCTTTCTGATACCAAT
* *
27794549 ATCTTTTTGATACCCAT
1 ATCTTTCTGATACCAAT
27794566 ATCTTT
1 ATCTTT
27794572 GACTTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (17 bp):
ATCTTTCTGATACCAAT
Found at i:27798085 original size:17 final size:17
Alignment explanation
Indices: 27798065--27798108 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
27798055 ATTTTGATAA
*
27798065 CCATATCTTTTTTATAC
1 CCATATCTTTCTTATAC
27798082 CCATATCTTTCTTATAC
1 CCATATCTTTCTTATAC
27798099 CCATATCTTT
1 CCATATCTTT
27798109 GACTTTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (17 bp):
CCATATCTTTCTTATAC
Found at i:27799610 original size:22 final size:22
Alignment explanation
Indices: 27799587--27799676 Score: 67
Period size: 21 Copynumber: 4.1 Consensus size: 22
27799577 CACAACCAAG
*
27799587 AACAAAGCAAAAAGGAGGGGAGA
1 AACAAA-CAAAAACGAGGGGAGA
* *
27799610 AACCAACAAAAACGA-GGGACA
1 AACAAACAAAAACGAGGGGAGA
* * * *
27799631 AACCAATAAGAAC-AAGGGAGA
1 AACAAACAAAAACGAGGGGAGA
* * *
27799652 AACCAACAAGAACAAGGGGAGA
1 AACAAACAAAAACGAGGGGAGA
27799674 AAC
1 AAC
27799677 TGTTGTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 33 0.58
22 18 0.32
23 5 0.09
ACGTcount: A:0.57, C:0.17, G:0.26, T:0.01
Consensus pattern (22 bp):
AACAAACAAAAACGAGGGGAGA
Found at i:27799628 original size:21 final size:22
Alignment explanation
Indices: 27799602--27799676 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
27799592 AGCAAAAAGG
*
27799602 AGGGGAGAAACCAACAAAAACG
1 AGGGGAGAAACCAACAAAAACA
* * *
27799624 A-GGGACAAACCAATAAGAACA
1 AGGGGAGAAACCAACAAAAACA
*
27799645 A-GGGAGAAACCAACAAGAACA
1 AGGGGAGAAACCAACAAAAACA
27799666 AGGGGAGAAAC
1 AGGGGAGAAAC
27799677 TGTTGTTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 36 0.78
22 10 0.22
ACGTcount: A:0.55, C:0.17, G:0.27, T:0.01
Consensus pattern (22 bp):
AGGGGAGAAACCAACAAAAACA
Found at i:27803271 original size:54 final size:50
Alignment explanation
Indices: 27803108--27803296 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
27803098 AGTGAAAGTG
* * *
27803108 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGT
* * * * *
27803159 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GGT
* * * *
27803209 TTGATCACATGTGTGGTACTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 ATGGTCACA--TGT-GTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
27803262 AATGGTCACATGTGTAGTACTATGTGCAGGCTACT
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACT
27803297 GTGTGAACCG
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 27 0.24
52 3 0.03
53 5 0.04
54 37 0.33
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
Found at i:27803318 original size:105 final size:103
Alignment explanation
Indices: 27803116--27803305 Score: 256
Period size: 105 Copynumber: 1.8 Consensus size: 103
27803106 TGATGGTCAC
* * *
27803116 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTATG
1 GTGTGTACTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTACTATG
* * *
27803181 TGCAGGCTACTATGCGTACCAGATAGTTTTGATCACAT
66 TGCAGGCTACTATGCGAACCAGATAATATTGATCACAT
* *
27803219 GTGTGGTACTACTATGTGCAGGCTACTACGTGTATCGG-ATGGTAATGGTCACATGTGTAGTACT
1 GTGT-GTACTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAGTACT
* *
27803283 ATGTGCAGGCTACTGTGTGAACC
63 ATGTGCAGGCTACTATGCGAACC
27803306 GAACATCATT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
103 8 0.11
104 31 0.41
105 37 0.49
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (103 bp):
GTGTGTACTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGCGAACCAGATAATATTGATCACAT
Found at i:27813788 original size:31 final size:30
Alignment explanation
Indices: 27813751--27813819 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
27813741 ATGTTAATGG
* *
27813751 GTGACTGATTTGTCACTTTTTGATAATGTT-A
1 GTGACTGATTTGTCA-TTTTTCA-AAAGTTGA
* *
27813782 GTGACTGTTTTGTTATTTTTCAAAAGTTGA
1 GTGACTGATTTGTCATTTTTCAAAAGTTGA
27813812 GTGACTGA
1 GTGACTGA
27813820 ATTGAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (30 bp):
GTGACTGATTTGTCATTTTTCAAAAGTTGA
Found at i:27813801 original size:172 final size:174
Alignment explanation
Indices: 27813513--27813826 Score: 429
Period size: 172 Copynumber: 1.8 Consensus size: 174
27813503 AGTTAATTAA
* *
27813513 CCACATTAGCTAATTTATTGGCCACGTCACCTGTCTCATTAGGCCACTAACGGAAAATGTTAATG
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCACTAACAGAAAATGTTAATG
* * * * *
27813578 GATGATTGATTTGTCTCTTTTCGGTAACGTTAGTGATTGATTAGCTATTTTT-TAAAGTTAAGTG
66 GATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAGTG
27813642 ACTGAATTGAAACTTTGCCTCAACCAGCGTGACAAGTTAACTGG
131 ACTGAATTGAAACTTTGCCTCAACCAGCGTGACAAGTTAACTGG
* * *
27813686 CCACGTTAGCTAGTTAATTGGCCACGTCACCT-TC-CTGTTAGGCC-CGTAACAGAAAATGTTAA
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTC-ATTAGGCCAC-TAACAGAAAATGTTAA
* * * * * * *
27813748 TGGGTGACTGATTTGTCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTCAAAAGTTGAG
64 TGGATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAG
27813813 TGACTGAATTGAAA
129 TGACTGAATTGAAA
27813827 ATAGAGTGAT
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
171 2 0.02
172 68 0.56
173 51 0.42
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (174 bp):
CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCACTAACAGAAAATGTTAATG
GATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAGTG
ACTGAATTGAAACTTTGCCTCAACCAGCGTGACAAGTTAACTGG
Found at i:27817190 original size:23 final size:23
Alignment explanation
Indices: 27817164--27817238 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
27817154 TAAGTGCCAT
27817164 ACTGATATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
27817187 ACTGATATGTAGCC-ATAGCTACC
1 ACTGATATGTAGCCGA-AGCTACC
*
27817210 ACTGAAATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
27817233 ACTGAT
1 ACTGAT
27817239 TAATAACACT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
ACTGATATGTAGCCGAAGCTACC
Found at i:27834714 original size:23 final size:21
Alignment explanation
Indices: 27834661--27834715 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
27834651 AATATTTGAC
*
27834661 ATGTTATTATT-TGGTTAAAT
1 ATGTTATTGTTATGGTTAAAT
*
27834681 -TGATATTGTTATGAGTTAAATT
1 ATGTTATTGTTATG-GTTAAA-T
27834703 ATGTTATTGTTAT
1 ATGTTATTGTTAT
27834716 TATTGGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.29
20 2 0.07
21 6 0.21
22 1 0.04
23 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATGTTATTGTTATGGTTAAAT
Found at i:27837926 original size:50 final size:50
Alignment explanation
Indices: 27837845--27837980 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 50
27837835 TATTGAGGTT
* * * *
27837845 ATGAAAGGTCCCACGTAAGACCATGCCTGGGATATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
* * * *
27837895 ATGAGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
** * *
27837945 ATGAGAACTCCCATGTAAGACCATATCTGGGATATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATG
27837981 ACATTGGAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
Found at i:27838266 original size:20 final size:20
Alignment explanation
Indices: 27838241--27838283 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
27838231 TGAGTTATTT
*
27838241 AAGTAAGCA-AGTAGGTAAAG
1 AAGTAAG-AGAGTAAGTAAAG
27838261 AAGTAAGAGAGTAAGTAAAG
1 AAGTAAGAGAGTAAGTAAAG
27838281 AAG
1 AAG
27838284 GAGCAAAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAG
Found at i:27842479 original size:21 final size:21
Alignment explanation
Indices: 27842453--27842495 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27842443 TATTTTTTTC
27842453 TAGAATTTTTGGTTGGTCCAA
1 TAGAATTTTTGGTTGGTCCAA
27842474 TAGAATTTTTGGTTGGTCCAA
1 TAGAATTTTTGGTTGGTCCAA
27842495 T
1 T
27842496 TAGTACAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44
Consensus pattern (21 bp):
TAGAATTTTTGGTTGGTCCAA
Found at i:27843670 original size:40 final size:40
Alignment explanation
Indices: 27843626--27843770 Score: 231
Period size: 40 Copynumber: 3.6 Consensus size: 40
27843616 GCTCCTCGTT
* *
27843626 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
27843666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27843706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27843746 CCAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27843771 CATCATTCAA
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 10 0.10
40 88 0.88
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27853823 original size:21 final size:21
Alignment explanation
Indices: 27853797--27853838 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27853787 GACGAGAAGT
27853797 CTACTTAAGCCCATAGATGAA
1 CTACTTAAGCCCATAGATGAA
*
27853818 CTACTTAAGCCCGTAGATGAA
1 CTACTTAAGCCCATAGATGAA
27853839 GTTCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (21 bp):
CTACTTAAGCCCATAGATGAA
Found at i:27858722 original size:50 final size:50
Alignment explanation
Indices: 27858611--27858800 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
27858601 ATTTGGGTAA
* *
27858611 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAG---ATG
* *
27858667 AGAGGTCCCATGTAAGACTATTTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
27858717 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTGGGCACCGATAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
27858767 AGAACTCCCATGTAAGACCATATCTGGGATATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
27858801 AATTGTCAGT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 74 0.63
53 3 0.03
55 2 0.02
56 38 0.32
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:27867773 original size:43 final size:43
Alignment explanation
Indices: 27867712--27867837 Score: 200
Period size: 43 Copynumber: 2.9 Consensus size: 43
27867702 TGGAGCTTGT
*
27867712 TTAATCCTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
*
27867755 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCCT-TTTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAG-CTAATTGC
* *
27867798 TTAATCTTTAAGCATGCATGGACGGATTTATGAAGCTAAT
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAAT
27867838 ATTGGTTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.03
43 72 0.95
44 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (43 bp):
TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
Found at i:27868879 original size:49 final size:49
Alignment explanation
Indices: 27868807--27868905 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
27868797 TGAACCGAAG
27868807 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
1 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
*
27868856 GAATAATTTTTGAGAGGTAAAAGGTGTGAGTGAGTGAAATTATTAGAGT
1 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
27868905 G
1 G
27868906 GAAAAATCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.32
Consensus pattern (49 bp):
GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
Found at i:27892592 original size:16 final size:16
Alignment explanation
Indices: 27892571--27892603 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27892561 TTCCTTCTCG
27892571 AGGAGGTAGATGCATA
1 AGGAGGTAGATGCATA
27892587 AGGAGGTAGATGCATA
1 AGGAGGTAGATGCATA
27892603 A
1 A
27892604 CTGCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.36, T:0.18
Consensus pattern (16 bp):
AGGAGGTAGATGCATA
Found at i:27893797 original size:9 final size:9
Alignment explanation
Indices: 27893783--27893823 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
27893773 TGCAAATTAA
27893783 AAGAAAAAC
1 AAGAAAAAC
*
27893792 AAGAAAGA-
1 AAGAAAAAC
27893800 AA-AAAAAC
1 AAGAAAAAC
27893808 AAGAAAAAC
1 AAGAAAAAC
27893817 AAAGAAA
1 -AAGAAA
27893824 GAAAAGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.15
8 4 0.15
9 13 0.48
10 6 0.22
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (9 bp):
AAGAAAAAC
Found at i:27893811 original size:12 final size:13
Alignment explanation
Indices: 27893782--27893828 Score: 62
Period size: 12 Copynumber: 3.6 Consensus size: 13
27893772 ATGCAAATTA
27893782 AAAGAAAAACAAG
1 AAAGAAAAACAAG
27893795 AAAGAAAAA-AA-
1 AAAGAAAAACAAG
27893806 ACAAGAAAAACAAAG
1 A-AAGAAAAAC-AAG
27893821 AAAGAAAA
1 AAAGAAAA
27893829 GAAGGGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.03
12 10 0.33
13 9 0.30
14 9 0.30
15 1 0.03
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAGAAAAACAAG
Found at i:27901576 original size:11 final size:11
Alignment explanation
Indices: 27901562--27901588 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27901552 TGTATTATAT
27901562 AATAATAATAA
1 AATAATAATAA
27901573 AATAATAATAA
1 AATAATAATAA
27901584 AATAA
1 AATAA
27901589 AGTGGTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAATAA
Found at i:27912000 original size:50 final size:50
Alignment explanation
Indices: 27911909--27912104 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
27911899 TCTTGTACTT
* * * *** **
27911909 CCAATGCCATATCCCAGATATGGTCCTACATAAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
* * * *
27911959 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
* * *
27912009 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--T--A-GGTG
* *
27912065 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27912105 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 77 0.65
53 1 0.01
56 41 0.34
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATAGGTG
Found at i:27912068 original size:56 final size:50
Alignment explanation
Indices: 27911964--27912104 Score: 183
Period size: 56 Copynumber: 2.7 Consensus size: 50
27911954 AGGTGCCCAT
** *
27911964 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
*
27912014 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TGATGCCAAC
*
27912070 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27912105 TTACCCAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 34 0.43
53 4 0.05
56 42 0.52
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
Found at i:27917877 original size:50 final size:50
Alignment explanation
Indices: 27917760--27918000 Score: 223
Period size: 50 Copynumber: 4.8 Consensus size: 50
27917750 GAATATAACA
* * * * ** * * * *
27917760 TGCCAAAGCTATGTCCCAGAAATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * * **
27917809 TGCCAATGCCATATCCCAGATATGGTCTTAAATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * ** * *
27917859 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
27917909 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
27917959 TACCAACGACATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27918001 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 33, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 36 0.23
50 122 0.77
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:27918810 original size:35 final size:35
Alignment explanation
Indices: 27918771--27918849 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
27918761 GAGTCAGAAA
*
27918771 ACCATTTTCATGGTGTCACTCTATAGAGCCAGTAG
1 ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
* * *
27918806 ACCATTTCCATGGTGTCGCTCCATAGAGCTAGTAG
1 ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
27918841 ACCATTTTC
1 ACCATTTTC
27918850 GTAATGCCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (35 bp):
ACCATTTTCATGGTGTCACTCCATAGAGCCAGTAG
Found at i:27918868 original size:35 final size:35
Alignment explanation
Indices: 27918793--27918917 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 35
27918783 GTGTCACTCT
* * * ** * *
27918793 ATAGAGCCAGTAGACCATTTCCATGGTGTCGCTCC
1 ATAGAGCTAGTAGACCATTTTCGTAATGCCGTTCC
27918828 ATAGAGCTAGTAGACCATTTTCGTAATGCCGCTT-C
1 ATAGAGCTAGTAGACCATTTTCGTAATGCCG-TTCC
* * * * *
27918863 GTAGAG-TCAATAGACCATTTTTGTGATGTCGTTCC
1 ATAGAGCT-AGTAGACCATTTTCGTAATGCCGTTCC
*
27918898 ATAGAGCTAGTAGACTATTT
1 ATAGAGCTAGTAGACCATTT
27918918 CCCAACCAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
34 3 0.04
35 66 0.93
36 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (35 bp):
ATAGAGCTAGTAGACCATTTTCGTAATGCCGTTCC
Found at i:27921209 original size:26 final size:26
Alignment explanation
Indices: 27921179--27921236 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
27921169 GTTAAAACTC
*
27921179 TTTTAAAAG-AAAACTCAAGAGAAATT
1 TTTTAAAAGAAAAACACAAGA-AAATT
27921205 TTTTAAAAGAAAAACACAAGAAAATT
1 TTTTAAAAGAAAAACACAAGAAAATT
*
27921231 TATTAA
1 TTTTAA
27921237 TTCAAAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (26 bp):
TTTTAAAAGAAAAACACAAGAAAATT
Found at i:27935169 original size:16 final size:16
Alignment explanation
Indices: 27935148--27935179 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27935138 GTTTTGTTGC
*
27935148 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
27935164 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
27935180 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:27935445 original size:51 final size:50
Alignment explanation
Indices: 27935369--27935553 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 50
27935359 CCGGTTCACA
* *
27935369 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTATTCGGTACATG
* * * *
27935420 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTATTCGGTACATG
* **
27935471 TAGTAGCCTGCACATAGTACTACACATGCAACC-TA-TCATTCGGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACT-ATTC-GGTACATG
*
27935521 TAATAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
27935554 GTCACTTTCA
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 38 0.34
51 68 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACTATTCGGTACATG
Found at i:27935549 original size:101 final size:101
Alignment explanation
Indices: 27935368--27935551 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
27935358 ACCGGTTCAC
** *
27935368 ATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACATGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCAACCAT-ACTATTCGATACATGTAATAGCCTGCAC
27935433 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
65 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
*
27935470 ATAGTAGCCTGCACATAGTACTACACATGCAACC-TA-TCATTCGGGTACATGTAATAGCCTGCA
1 ATAGTAGCCTGCACATAGTACTACACATGCAACCATACT-ATTC-GATACATGTAATAGCCTGCA
27935533 CATAGTACTACACACGTGA
64 CATAGTACTACACACGTGA
27935552 CCGTCACTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.07
101 38 0.50
102 32 0.42
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCAACCATACTATTCGATACATGTAATAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGT
Found at i:27939210 original size:12 final size:11
Alignment explanation
Indices: 27939182--27939215 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
27939172 ACATATTTGC
*
27939182 ATCATTAGCAT
1 ATCATTATCAT
27939193 ATCATTATCAT
1 ATCATTATCAT
27939204 AATCATTATCAT
1 -ATCATTATCAT
27939216 TTGGCATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (11 bp):
ATCATTATCAT
Found at i:27943829 original size:62 final size:59
Alignment explanation
Indices: 27943714--27943830 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
27943704 ATCACTTTAA
* * * *
27943714 TATTAAATTAATATAATATTTATTAAGATAAATCTTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
27943773 TATTAAAATAATAAAATATTTATCTATAAGGTAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTA--T-TAAGATAAATATTAAATTAAATTTAATATTAA
27943831 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:27943877 original size:21 final size:21
Alignment explanation
Indices: 27943813--27943871 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
27943803 GTAAATATTA
27943813 AATTAAATTTAATATTAAGAT
1 AATTAAATTTAATATTAAGAT
* * *
27943834 AA-TCACTTTAATATTAATAT
1 AATTAAATTTAATATTAAGAT
*
27943854 AATTTAATTTAATATTAA
1 AATTAAATTTAATATTAA
27943872 ACTAATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
AATTAAATTTAATATTAAGAT
Found at i:27944319 original size:11 final size:11
Alignment explanation
Indices: 27944303--27944327 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27944293 AAATATCATA
27944303 TTAATTTTAAT
1 TTAATTTTAAT
27944314 TTAATTTTAAT
1 TTAATTTTAAT
27944325 TTA
1 TTA
27944328 TCAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:27947125 original size:6 final size:6
Alignment explanation
Indices: 27947101--27947134 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
27947091 TAACATATTT
27947101 AAAATAG AAAATAG AAAATG AAAATG AAAATG AA
1 AAAAT-G AAAAT-G AAAATG AAAATG AAAATG AA
27947135 GGAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:27947523 original size:31 final size:31
Alignment explanation
Indices: 27947485--27947547 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
27947475 TCTTACCTGA
* * *
27947485 GTAATAGTCATCGGCGATCGAGGAAGTAGGT
1 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
27947516 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
1 GTAATAGTCACCGCCGATAGAGGAAGTAGGT
27947547 G
1 G
27947548 GGAGGTGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (31 bp):
GTAATAGTCACCGCCGATAGAGGAAGTAGGT
Found at i:27948429 original size:28 final size:27
Alignment explanation
Indices: 27948398--27948468 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
27948388 ATGGCACCAT
27948398 AAAGGCATTCCCTTTTAGAGATAGCCAC
1 AAAGGCATT-CCTTTTAGAGATAGCCAC
** *
27948426 AAAGGC-TTCCTTAGCCAGAGATTGCCAC
1 AAAGGCATTCCTT--TTAGAGATAGCCAC
27948454 AAAGGCA-TCCTTTTA
1 AAAGGCATTCCTTTTA
27948469 TTAAGTACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
26 5 0.14
27 2 0.06
28 28 0.80
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAGGCATTCCTTTTAGAGATAGCCAC
Found at i:27948553 original size:29 final size:28
Alignment explanation
Indices: 27948520--27948611 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 28
27948510 TAAAAACTTA
27948520 CCTTTTCAGAGTTTTGCCACAAAGGTTGT
1 CCTTTTCAGAGTTTTGCCACAAAGGTT-T
*
27948549 CCTTTTACAG-G-TTCGCCACAAAGGTTT
1 CCTTTT-CAGAGTTTTGCCACAAAGGTTT
* * *
27948576 ACCTTTCCAGAGTTTTTCCACAAAGGATAT
1 -CCTTTTCAGAGTTTTGCCACAAAGG-TTT
27948606 CCTTTT
1 CCTTTT
27948612 ACTGACGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.08
28 20 0.38
29 23 0.44
30 5 0.10
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (28 bp):
CCTTTTCAGAGTTTTGCCACAAAGGTTT
Found at i:27948561 original size:57 final size:57
Alignment explanation
Indices: 27948480--27948613 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 57
27948470 TAAGTACTCA
* * * * * *
27948480 CCACAAAGG-CATCCTTTAATAGGTTTACCATAAAAACTTACCTTTTCAGAGTTTTG
1 CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
* * * *** *
27948536 CCACAAAGGTTGTCCTTTTACAGGTTCGCCACAAAGGTTTACCTTTCCAGAGTTTTT
1 CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
27948593 CCACAAAGGATATCCTTTTAC
1 CCACAAAGGATATCCTTTTAC
27948614 TGACGTTTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
56 9 0.14
57 54 0.86
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (57 bp):
CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
Found at i:27948580 original size:28 final size:29
Alignment explanation
Indices: 27948517--27948601 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 29
27948507 CCATAAAAAC
*
27948517 TTACCTTTTCAGAGTTTTGCCACAAAGGT
1 TTACCTTTTCAGAGTTTCGCCACAAAGGT
27948546 TGT-CCTTTTACAG-G-TTCGCCACAAAGGT
1 T-TACCTTTT-CAGAGTTTCGCCACAAAGGT
* **
27948574 TTACCTTTCCAGAGTTTTTCCACAAAGG
1 TTACCTTTTCAGAGTTTCGCCACAAAGG
27948602 ATATCCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
27 4 0.09
28 20 0.43
29 19 0.40
30 4 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (29 bp):
TTACCTTTTCAGAGTTTCGCCACAAAGGT
Found at i:27952483 original size:21 final size:21
Alignment explanation
Indices: 27952470--27952533 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
27952460 TACACGTCAG
27952470 TGTAGCCATTCTACACGCCCA
1 TGTAGCCATTCTACACGCCCA
27952491 TGTAGCCATTCTACACGCCCA
1 TGTAGCCATTCTACACGCCCA
27952512 TGTAGCCATTCTACACGCCCA
1 TGTAGCCATTCTACACGCCCA
27952533 T
1 T
27952534 TACCCAACCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.25
Consensus pattern (21 bp):
TGTAGCCATTCTACACGCCCA
Found at i:27960138 original size:16 final size:16
Alignment explanation
Indices: 27960119--27960165 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
27960109 TTTTAATAAG
27960119 ATCTAATATTAAATTA
1 ATCTAATATTAAATTA
27960135 ATCTAATATTTAAA-T-
1 ATCTAATA-TTAAATTA
27960150 AT-T-ATATTAAATTA
1 ATCTAATATTAAATTA
27960164 AT
1 AT
27960166 ATTAAAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.18
13 4 0.14
14 3 0.11
15 2 0.07
16 9 0.32
17 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
ATCTAATATTAAATTA
Found at i:27960158 original size:24 final size:24
Alignment explanation
Indices: 27960123--27960168 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27960113 AATAAGATCT
27960123 AATATTAAATT-AATCTAATATTTA
1 AATATTAAATTAAAT-TAATATTTA
*
27960147 AATATTATATTAAATTAATATT
1 AATATTAAATTAAATTAATATT
27960169 AAAGTGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTAAATTAAATTAATATTTA
Found at i:27960512 original size:16 final size:16
Alignment explanation
Indices: 27960491--27960528 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27960481 TTTGGTTCGC
27960491 TGTAATGAAATAGAGG
1 TGTAATGAAATAGAGG
*
27960507 TGTAATGGAATAGAGG
1 TGTAATGAAATAGAGG
*
27960523 CGTAAT
1 TGTAAT
27960529 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGAAATAGAGG
Found at i:27960891 original size:102 final size:102
Alignment explanation
Indices: 27960777--27961217 Score: 580
Period size: 102 Copynumber: 4.2 Consensus size: 102
27960767 TAATAAAAAT
27960777 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
27960842 AATACTATAAAATATAATTTAGAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
* * * *
27960879 ATATAATTTAATAAAAATATATAAT-TTATAAAATTCTTAATATTAAATATT-CTTATATGAATT
1 ATATAATTTAATAAAATTCT-TAATATTA-AATATTCTT-ATA-TGAAT-TTAC-TA-A--AA--
* * * *
27960942 TACTAAAATCATAAGATATAATAATATATAATATAATTTAAAATAATTATTATTAA
55 T-C-ATAAT-AT-ATA-ATACT-ATA-A-AATATAATTTAAAATAATAATTATTAA
27960998 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
27961063 AATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
*
27961100 ATATAATTTAATAATATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
27961165 AATACTATAAAATATAATCTAAAATAATAATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTATTAA
27961202 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
27961218 ATATATAATT
Statistics
Matches: 299, Mismatches: 19, Indels: 42
0.83 0.05 0.12
Matches are distributed among these distances:
102 162 0.54
103 13 0.04
104 6 0.02
105 9 0.03
106 6 0.02
107 3 0.01
108 4 0.01
109 3 0.01
110 1 0.00
111 1 0.00
112 3 0.01
113 4 0.01
114 3 0.01
115 6 0.02
116 9 0.03
117 6 0.02
118 13 0.04
119 47 0.16
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATAATTATTAA
Found at i:27960961 original size:119 final size:120
Alignment explanation
Indices: 27960739--27961013 Score: 498
Period size: 119 Copynumber: 2.3 Consensus size: 120
27960729 TTAATCATAT
*
27960739 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
27960804 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
*
27960859 TTTAGAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
27960923 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATATAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
27960978 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
27961014 TTCTTAATAT
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
119 104 0.70
120 45 0.30
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAA
Found at i:27961001 original size:26 final size:26
Alignment explanation
Indices: 27960971--27961115 Score: 85
Period size: 26 Copynumber: 5.6 Consensus size: 26
27960961 AATAATATAT
27960971 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
27960997 AATATAATTTAATAA-AATTCTTAATATTA
1 AATATAATTTAA-AATAA---TTATTATTA
* *
27961026 AATAT--TCTT-ATATGAA-T-TTACTAA
1 AATATAAT-TTAAAAT-AATTATTA-TTA
* * *
27961050 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
27961073 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
27961099 AATATAATTTAATAATA
1 AATATAATTTAA-AATA
27961116 TTCTTAATAT
Statistics
Matches: 94, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
22 4 0.04
23 11 0.12
24 14 0.15
25 7 0.07
26 33 0.35
27 8 0.09
28 4 0.04
29 13 0.14
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:27961127 original size:29 final size:26
Alignment explanation
Indices: 27960959--27961132 Score: 84
Period size: 26 Copynumber: 6.7 Consensus size: 26
27960949 ATCATAAGAT
27960959 ATAA-TAATA-TATAATATAATTTAAA
1 ATAATTAATATTA-AATATAATTTAAA
*
27960984 ATAATTATTATTAAATATAATTTAATA
1 ATAATTAATATTAAATATAATTTAA-A
*
27961011 A-AATTCTTAATATTAAATAT--TCTT-AT
1 ATAA---TTAATATTAAATATAAT-TTAAA
* *
27961037 ATGAATT--TACTAAAATCATAA--T-AT
1 AT-AATTAATA-TTAAAT-ATAATTTAAA
* *
27961061 ATAA-TACTATAAAATATAATTTAAA
1 ATAATTAATATTAAATATAATTTAAA
*
27961086 ATAATTATTATTAAATATAATTTAATA
1 ATAATTAATATTAAATATAATTTAA-A
*
27961113 ATATTCTTAATATTAAATAT
1 ATA--ATTAATATTAAATAT
27961133 TCTTATATGA
Statistics
Matches: 118, Mismatches: 9, Indels: 40
0.71 0.05 0.24
Matches are distributed among these distances:
22 5 0.04
23 10 0.08
24 13 0.11
25 13 0.11
26 37 0.31
27 10 0.08
28 4 0.03
29 26 0.22
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
ATAATTAATATTAAATATAATTTAAA
Found at i:27961247 original size:119 final size:120
Alignment explanation
Indices: 27961100--27961521 Score: 749
Period size: 119 Copynumber: 3.5 Consensus size: 120
27961090 TTATTATTAA
*
27961100 ATATAATTTAATAATATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
27961165 AATACTATAAAATATAATCTAAAATAATAATTATTAAATATAATTTAATAAAAAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
27961220 ATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
27961284 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
* *
27961339 ATATAATTT-ATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
27961403 AATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
* *
27961458 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATGATATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
27961522 AAAGCACTTT
Statistics
Matches: 290, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
119 231 0.80
120 59 0.20
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATCTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:27961353 original size:16 final size:18
Alignment explanation
Indices: 27961321--27961473 Score: 67
Period size: 18 Copynumber: 8.9 Consensus size: 18
27961311 TTATTATTAA
27961321 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
27961339 ATATAATTT-ATAAAATT
1 ATATAATTTAATAAAAAT
****
27961356 AT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
*
27961375 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* *
27961393 -TATAATAT-ATAATAAT
1 ATATAATTTAATAAAAAT
* * * *
27961409 TTAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
27961428 A-ATTA-TT-AT-TAAA-
1 ATATAATTTAATAAAAAT
27961441 -TATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
27961458 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
27961474 TTCTTAATAT
Statistics
Matches: 98, Mismatches: 22, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
13 3 0.03
14 5 0.05
15 4 0.04
16 16 0.16
17 22 0.22
18 28 0.29
19 14 0.14
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:27961421 original size:12 final size:12
Alignment explanation
Indices: 27961404--27961450 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
27961394 ATAATATATA
27961404 ATAATTTAAAAT
1 ATAATTTAAAAT
27961416 ATAATTTAAAAT
1 ATAATTTAAAAT
* *
27961428 AATTATTATTAAAT
1 -ATAATT-TAAAAT
27961442 ATAATTTAA
1 ATAATTTAA
27961451 TAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 14 0.48
13 10 0.34
14 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATTTAAAAT
Found at i:27961422 original size:38 final size:36
Alignment explanation
Indices: 27961339--27961443 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 36
27961329 TAATAAAAAT
*
27961339 ATATAATTTATAAAATTATTAATATTAAATATTCTT
1 ATATAATTTATAAAATTATTAATATTAAATATTCTA
27961375 ATATGAATTTACTAAAATTA-TAATA-TATAATAATT-TAAA
1 ATAT-AATTTA-TAAAATTATTAATATTA-AAT-ATTCT--A
* *
27961414 ATATAA-TT-TAAAATAATTATTATTAAATAT
1 ATATAATTTATAAAATTATTAATATTAAATAT
27961444 AATTTAATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
35 9 0.16
36 13 0.22
37 19 0.33
38 13 0.22
39 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (36 bp):
ATATAATTTATAAAATTATTAATATTAAATATTCTA
Found at i:27961512 original size:323 final size:318
Alignment explanation
Indices: 27960797--27961453 Score: 963
Period size: 323 Copynumber: 2.0 Consensus size: 318
27960787 ATAAAATTCT
* * * *
27960797 TAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT
1 TAATATTAAATATTCTAATATAAATTTA-TAAAATCATAATATATAATACAATAAAATATAATCT
* *
27960862 AGAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTAAAT
65 AAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTAAAT
* *
27960927 ATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATATAATATAATTTAAAATAATTAT
130 ATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAATCTAAAATAATTAT
*
27960992 TATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
195 TATTAAATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
*
27961057 ATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAATA
260 ATATATAATAATATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAATA
* * *
27961116 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
1 ----TAATATTAAATATTCTAATATAAATTTA-TAAAATCATAATATATAATACAATAAAATATA
27961181 ATCTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATT
61 ATCTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATT
*
27961246 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATCTAAAATAA
126 AAATATTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAATCTAAAATAA
27961311 TTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTATTAATATTAAATATTCTTA
191 TTATTA-T---TA-AA--T-AT---AAT-T-T-A---ATAAAATTATTAATATTAAATATTCTTA
* *
27961376 TATGAATTTACTAAAATTATAATATATAATAATTTAAAATATAATTTAAAATAATTATTATTAAA
239 TATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATTTAAAATAATTATTATTAAA
27961441 TATAATTTAATAA
304 TATAATTTAATAA
27961454 AAATATATAA
Statistics
Matches: 307, Mismatches: 10, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
323 191 0.62
324 1 0.00
327 2 0.01
328 2 0.01
330 1 0.00
331 2 0.01
334 3 0.01
335 1 0.00
336 1 0.00
337 1 0.00
340 102 0.33
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (318 bp):
TAATATTAAATATTCTAATATAAATTTATAAAATCATAATATATAATACAATAAAATATAATCTA
AAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTAAATA
TTCTTATATGAATTTACTAAAATCATAAGATATAATAATATAAAATATAATCTAAAATAATTATT
ATTAAATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
TATATAATAATATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAATA
Found at i:27969980 original size:87 final size:88
Alignment explanation
Indices: 27969820--27969988 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
27969810 GTTTTTGTTT
* * * * *
27969820 TTTTTTCCACTCATTTGGGTACTTAAACTTTTAAAATATATCAAAAAAATCCTCAAACCTTTTCA
1 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
27969885 AAAAAAGCAATTAAGCCTCTATA
66 AAAAAAGCAATTAAGCCTCTATA
* * *
27969908 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAACTGCATCAAAAAGA-CCTCAAACATTTTCA
1 TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
*
27969972 AATAAAGCAATTAAGCC
66 AAAAAAGCAATTAAGCC
27969989 CTTGCTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 30 0.42
88 42 0.58
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (88 bp):
TTTTTTCCACTCAATTGGATACTTAAACTTTCAAAATACATCAAAAAAATCCTCAAACATTTTCA
AAAAAAGCAATTAAGCCTCTATA
Found at i:27970039 original size:19 final size:19
Alignment explanation
Indices: 27970017--27970068 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
27970007 TAGAAAAAAA
27970017 ATATAAAAATTGTAAA--T
1 ATATAAAAATTGTAAACTT
*
27970034 ATATATAAATTGTAAACTT
1 ATATAAAAATTGTAAACTT
* *
27970053 TTATAAAAATCGTAAA
1 ATATAAAAATTGTAAA
27970069 AAAATTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.52
19 14 0.48
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (19 bp):
ATATAAAAATTGTAAACTT
Found at i:27970150 original size:57 final size:56
Alignment explanation
Indices: 27970046--27970153 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 56
27970036 ATATAAATTG
* *
27970046 TAAACTTTTATAAAAATCGTAAAAAAATTATAAAATATATAGAAATATAAAAAATA
1 TAAACTTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAAAAAATA
* * * *
27970102 TAAATTTTTAT-AAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TAAACTTTTATAAAAATCATAAAAAAATTAT--AAAATATAAAGAAATATAAA
27970154 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 16 0.36
56 10 0.23
57 18 0.41
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (56 bp):
TAAACTTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAAAAAATA
Found at i:27970376 original size:48 final size:48
Alignment explanation
Indices: 27970324--27970461 Score: 117
Period size: 48 Copynumber: 2.9 Consensus size: 48
27970314 TTTTATCATT
*
27970324 TTTATAAAATTTTA-CATTTTTCAA-TTTTTTATGATTTTTATAAAAAAA
1 TTTAT-AAATTTTATAATTTTTCAATTTTTTTAT-ATTTTTATAAAAAAA
* * *
27970372 TTTATAATTTTTATAATTTTTTAATTTTTTTTATATTTTTAT--TAAAA
1 TTTATAAATTTTATAATTTTTCAA-TTTTTTTATATTTTTATAAAAAAA
* ** *
27970419 TTTAATAAATTTTCTAAAATTT-ATTATTTTTTAT-TTTTTATAA
1 TTT-ATAAATTTTATAATTTTTCAAT-TTTTTTATATTTTTATAA
27970462 TTTTCTTTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
46 8 0.11
47 23 0.31
48 27 0.36
49 8 0.11
50 8 0.11
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (48 bp):
TTTATAAATTTTATAATTTTTCAATTTTTTTATATTTTTATAAAAAAA
Found at i:27970394 original size:10 final size:9
Alignment explanation
Indices: 27970372--27970465 Score: 57
Period size: 9 Copynumber: 10.2 Consensus size: 9
27970362 TATAAAAAAA
27970372 TTTATAATT
1 TTTATAATT
27970381 TTTATAATT
1 TTTATAATT
27970390 TTT-TAATTT
1 TTTATAA-TT
*
27970399 TTTTTATATT
1 TTTATA-ATT
*
27970409 TTTATTAAAAT
1 TTTA-T-AATT
* *
27970420 TTAATAAAT
1 TTTATAATT
* **
27970429 TTTCTAAAA
1 TTTATAATT
*
27970438 TTTATTATT
1 TTTATAATT
*
27970447 TTT-TATTT
1 TTTATAATT
27970455 TTTATAATT
1 TTTATAATT
27970464 TT
1 TT
27970466 CTTTCTAATT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 9 0.14
9 41 0.62
10 8 0.12
11 7 0.11
12 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATAATT
Found at i:27970430 original size:49 final size:49
Alignment explanation
Indices: 27970348--27970450 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
27970338 CATTTTTCAA
* *
27970348 TTTTTTATGATTTTTATAAAAAAATTTATAATTTT-TATAATTTTTTAATT
1 TTTTTTATGATTTTTAT-AAAAAATTTATAATTTTCTAAAATTTATT-ATT
*
27970398 TTTTTTAT-ATTTTTAT-TAAAATTTAATAAATTTTCTAAAATTTATTATT
1 TTTTTTATGATTTTTATAAAAAATTT-AT-AATTTTCTAAAATTTATTATT
27970447 TTTT
1 TTTT
27970451 ATTTTTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
47 7 0.15
48 2 0.04
49 21 0.45
50 17 0.36
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (49 bp):
TTTTTTATGATTTTTATAAAAAATTTATAATTTTCTAAAATTTATTATT
Found at i:27983659 original size:13 final size:13
Alignment explanation
Indices: 27983629--27983671 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
27983619 TTTTGTACTC
*
27983629 TTTTAAAATTTAA
1 TTTTAAATTTTAA
* *
27983642 ATTTAAATTTTAG
1 TTTTAAATTTTAA
*
27983655 TTTTATATTTTAA
1 TTTTAAATTTTAA
27983668 TTTT
1 TTTT
27983672 TGAGACATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:27986102 original size:8 final size:8
Alignment explanation
Indices: 27986085--27986113 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27986075 ACTCAAAGCC
27986085 AAAAAA-A
1 AAAAAAGA
27986092 AAAAAAGA
1 AAAAAAGA
27986100 AAAAAAGA
1 AAAAAAGA
27986108 AAAAAA
1 AAAAAA
27986114 AGAGAGTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:27986110 original size:17 final size:16
Alignment explanation
Indices: 27986085--27986116 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
27986075 ACTCAAAGCC
27986085 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
27986101 AAAAAGAAAAAAAAGA
1 AAAAA-AAAAAAAAGA
27986117 GAGTAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAA
Found at i:27990108 original size:20 final size:20
Alignment explanation
Indices: 27990081--27990133 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
27990071 TATGAACCAC
27990081 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
* *
27990101 TTCATTTACTTGCTTTCCAT
1 TCCATTTACTTACTTTCCAT
27990121 TCCATTTACTTAC
1 TCCATTTACTTAC
27990134 CATAAGCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:28000034 original size:27 final size:27
Alignment explanation
Indices: 28000004--28000179 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
27999994 ATATTGAGTC
* *
28000004 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
28000031 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
28000058 CGCACACTTAGTGCTACAT--TCAACCT
1 CGCACACTTAGTGCTACATAATCAA-CT
** **
28000084 CGCACAC-TAGTGCCGCATGGTCAACTT
1 CGCACACTTAGTGCTACATAATCAAC-T
**
28000111 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
28000138 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
28000165 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28000180 GTACAATTTA
Statistics
Matches: 124, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
25 17 0.14
26 9 0.07
27 86 0.69
28 9 0.07
30 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:28008176 original size:27 final size:27
Alignment explanation
Indices: 28008146--28008323 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
28008136 ATATTGAGTC
* * * *
28008146 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
28008173 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28008200 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
28008228 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
28008255 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
28008282 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28008309 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28008324 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:28008285 original size:82 final size:81
Alignment explanation
Indices: 28008167--28008322 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
28008157 TGCTATATAA
* *
28008167 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
28008232 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
28008249 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
28008313 CACTTAGTGC
65 CACTTAGTGC
28008323 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:28016087 original size:39 final size:39
Alignment explanation
Indices: 28016042--28016119 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
28016032 ATCCAGAGAT
28016042 AAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAA
1 AAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAA
28016081 AAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAA
1 AAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAA
28016120 TGGGTTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (39 bp):
AAAGGACTTAAGGATTATTGCATGAAAGGTTAATCATAA
Found at i:28019191 original size:21 final size:21
Alignment explanation
Indices: 28019167--28019207 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
28019157 TTTTTCTATC
*
28019167 TATGTAAATTTAGTTTTATTT
1 TATGTAAATTTACTTTTATTT
* *
28019188 TATGTTATTTTACTTTTATT
1 TATGTAAATTTACTTTTATT
28019208 ATTAGCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
TATGTAAATTTACTTTTATTT
Found at i:28019920 original size:93 final size:91
Alignment explanation
Indices: 28019802--28020071 Score: 371
Period size: 93 Copynumber: 2.9 Consensus size: 91
28019792 ACTAAGTTTT
* * *
28019802 TTTGATAATATGTTTAGATATAACAAATTAACGTATTTTTGAATAAAATTTAAAGTTGAACAAAA
1 TTTGATAATATGTTTTGATATAACAAATTAA-ATATTTTTG-ATAAAAGTTAAAGTTGAACAAAA
*
28019867 TTTGACAAAATTATTAAAATAAGCTTCA
64 TTAGACAAAATTATTAAAATAAGCTTCA
* *
28019895 TTTGATAATATGTTTTGATATAACAAATTATAATGTTTTTGCATAAAAGTTAAAGTTGAAAAAAA
1 TTTGATAATATGTTTTGATATAACAAATTA-AATATTTTTG-ATAAAAGTTAAAGTTGAACAAAA
* * * * *
28019960 TTGGGCAAAATTGTTAAACTAAGCTTTA
64 TTAGACAAAATTATTAAAATAAGCTTCA
*
28019988 TTTGATAATATGTTTTGATATAACAAATTAAAATATTTTTGAGAAAAGTTAAAGTTGAACAAAAT
1 TTTGATAATATGTTTTGATATAACAAATT-AAATATTTTTGATAAAAGTTAAAGTTGAACAAAAT
28020053 TAGACAAAATTGA-TAAAAT
65 TAGACAAAATT-ATTAAAAT
28020072 GAAGTAAAAT
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
92 36 0.23
93 118 0.76
94 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (91 bp):
TTTGATAATATGTTTTGATATAACAAATTAAATATTTTTGATAAAAGTTAAAGTTGAACAAAATT
AGACAAAATTATTAAAATAAGCTTCA
Found at i:28020237 original size:21 final size:21
Alignment explanation
Indices: 28020211--28020251 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
28020201 CAATGATTTA
28020211 CAAAATGTGTCGATACCTTTC
1 CAAAATGTGTCGATACCTTTC
28020232 CAAAATGTGTCGATACCTTT
1 CAAAATGTGTCGATACCTTT
28020252 TATCAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (21 bp):
CAAAATGTGTCGATACCTTTC
Found at i:28021672 original size:6 final size:6
Alignment explanation
Indices: 28021661--28021816 Score: 312
Period size: 6 Copynumber: 26.0 Consensus size: 6
28021651 CTTACCATGC
28021661 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
28021709 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
28021757 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
28021805 CATATA CATATA
1 CATATA CATATA
28021817 ATCCATACAA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 150 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:28028661 original size:32 final size:32
Alignment explanation
Indices: 28028619--28028685 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
28028609 ATGCATAAAT
*
28028619 TTAATGCCTATCTACGGTGTAATGTATAGAAC
1 TTAATACCTATCTACGGTGTAATGTATAGAAC
28028651 TTAATACCTATCTACGGTGTAATGTATAGAAC
1 TTAATACCTATCTACGGTGTAATGTATAGAAC
28028683 TTA
1 TTA
28028686 GTAGTCTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (32 bp):
TTAATACCTATCTACGGTGTAATGTATAGAAC
Found at i:28044626 original size:104 final size:103
Alignment explanation
Indices: 28044446--28044668 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
28044436 TGTATATAAA
** * *
28044446 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
28044511 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
28044550 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
28044614 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
28044653 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
28044669 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:28044736 original size:70 final size:70
Alignment explanation
Indices: 28044588--28044737 Score: 221
Period size: 71 Copynumber: 2.1 Consensus size: 70
28044578 TCATTGGTGG
* * *
28044588 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTAAAAAGGGGTTGCTATGTGCTGATTCCCCG
28044653 AGGGGT
65 AGGGGT
***
28044659 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAAGTAAAAAGGGGTTGCTATGTGCTGATT-CCCCG
28044723 AGGGGT
65 AGGGGT
28044729 TGCTAAGTG
1 TGCTAAGTG
28044738 ATGATTCCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
69 24 0.33
70 20 0.28
71 28 0.39
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTAAAAAGGGGTTGCTATGTGCTGATTCCCCGA
GGGGT
Found at i:28044742 original size:27 final size:27
Alignment explanation
Indices: 28044696--28044747 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
28044686 TGAAATAAAA
* *
28044696 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCCG
28044723 AGGGGTTGCTAAGTGATGATTCCCC
1 AGGGGTTGCTAAGTGATGATTCCCC
28044748 GATTCAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGATGATTCCCCCG
Found at i:28048574 original size:30 final size:30
Alignment explanation
Indices: 28048517--28048578 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
28048507 GCTTTTTGAA
* *
28048517 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACAAATTTTT
28048547 AATATTTACAAAAAG-GGCAACGAAATTTTT
1 AATATTTACAAAAAGAGGCAAC-AAATTTTT
28048577 AA
1 AA
28048579 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACAAATTTTT
Found at i:28063565 original size:4 final size:4
Alignment explanation
Indices: 28063556--28063590 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
28063546 TAATAGGTAA
* *
28063556 AAAT AAAT AAAT AAAT AAAT AAAC AAAC AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
28063591 AGAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:28063685 original size:3 final size:3
Alignment explanation
Indices: 28063671--28063789 Score: 61
Period size: 3 Copynumber: 40.7 Consensus size: 3
28063661 AGCTGAAAGG
* * * *
28063671 TAA TAA -AA TAA TAA TTA TAA CAA TAA T-A CAA TAA -AA -AA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
28063715 TAA AAA TACA TTAA TAA -AC GAA TAA TAA TAG TAA T-A TAA TCAA GAG
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
28063761 TAA TAA TAA TCA TAA TAA TAA TGA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
28063790 GTAGTGAAAA
Statistics
Matches: 85, Mismatches: 23, Indels: 16
0.69 0.19 0.13
Matches are distributed among these distances:
2 10 0.12
3 69 0.81
4 4 0.05
5 2 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:28063905 original size:9 final size:8
Alignment explanation
Indices: 28063888--28063916 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
28063878 TGAAAATAGT
28063888 AATAAAAA
1 AATAAAAA
28063896 AATAAAAA
1 AATAAAAA
28063904 AAT-AAAA
1 AATAAAAA
28063911 AATAAA
1 AATAAA
28063917 TAGAGTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:28065597 original size:51 final size:51
Alignment explanation
Indices: 28065497--28065598 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
28065487 TAAATTGTAT
* * * * * *
28065497 CTTTAATTTGTTCCGCTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAG
1 CTTTAATCTGTTCCACTACAACACTAGAGAAATAAGATTCGCTACCTTCAG
* * *
28065548 CTTTAATCTGTTTCACTACAACACTAGAGAAATAAGATTCGTTATCTTCAG
1 CTTTAATCTGTTCCACTACAACACTAGAGAAATAAGATTCGCTACCTTCAG
28065599 TCTGCTCCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (51 bp):
CTTTAATCTGTTCCACTACAACACTAGAGAAATAAGATTCGCTACCTTCAG
Found at i:28065768 original size:51 final size:51
Alignment explanation
Indices: 28065688--28067305 Score: 1099
Period size: 51 Copynumber: 32.9 Consensus size: 51
28065678 CCAAATTTGT
**
28065688 AGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
28065739 AGCTTTAATCTATTCCACTACAATGCCAGGAAAAAAAGATTCGCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
28065790 AGGTTTAATCTAG-TCCACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCT-GTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* ** * *** *
28065841 AGCCTTAA--T-TT--ACTGCAACT-TTA-GGAAGATAAGATCCGCCATAAATTTT
1 AGCTTTAATCTGTTCCACTGCAA-TGCCAGGGAA-ATAAGATTCG-C-T-GCCTTC
* * * * *
28065890 AGCTTTAATTTGTTCCGCTGCAATGCCAGAGAAATAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
** *
28065941 AGCTTTAATCTGTTCCACTGCAATGCCAGAAAAATAAGATTCGCTGTCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
28065992 AG------TCTGATCCACTGCAACT-TCAGGGAGATAAG----GCTG--GT-
1 AGCTTTAATCTGTTCCACTGCAA-TGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * **
28066030 GGCTTCAATTTGCTCCATTGCAACT-TCA-GGAAGATAAGATTCGCCAT-AATTC
1 AGCTTTAATCTGTTCCACTGCAA-TGCCAGGGAA-ATAAGATTCG-C-TGCCTTC
* * * *
28066082 GTAGCTTTGATCTGTTCCATTGCAATGCTAGGGAGAA-AAGATTCGTTGCCTTC
1 --AGCTTTAATCTGTTCCACTGCAATGCCAGGGA-AATAAGATTCGCTGCCTTC
* * *
28066135 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
** * * *
28066186 AGCTTTAATCTGTTCCACTGCAACCCCAGGGAAAAAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * **
28066237 AGCTTTAATCTGGTCCACTGCAACGTTAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * ** *
28066288 AGCTTTAATTTGCTCCACTACAACGTTAGGGAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * *
28066339 AGCCTTAATC---T--ATTGCAACGCCAAGGAAAAAAGATTCACTACCCTT-
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCT-GCCTTC
* * * *
28066385 AGCTTTAATCTATTCCACTGCAACGCTTA-GGAAA-AAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGC-CAGGGAAATAAGATTCGCTGCCTTC
* * *
28066435 AGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGATTCGCTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* ** * *
28066486 AGCTTTAATC---T--ACTTCAACACCAGGGAAATAAGATTCGTTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
28066532 AGCTTTAATCTGTTCCACTGTAACGCCAAGCAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *** *
28066583 ATCTTTAATC---T--ATTGTAATGCCAGGGAAATAAGATTTATTGCTTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
28066629 AGCCTTAA--T-TT--ACTACAACGCCAGGGAAA-AGAGATTCGTTGCCCTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATA-AGATTCGCTGCCTTC
* * * * *
28066675 AACTTTAATCTATTCCACTGC-ATCGCCTGGGAAAAAAGATCCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAAT-GCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
28066726 AGCTTTAATC---T--ACTACAACGCTAGGGAAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * *** *
28066772 AGCTTTAATCTGTTCCATTGCAACGCCAACAAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * ** *
28066823 AGCTTTAA--T-TT--ACTGCAACGCTAGGGAAATAAGATTCATTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * * *
28066869 TGCTTTAATCTGTTCTATTACAACGCCAAGGAAATAAGATTCGCTGCCTTG
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
28066920 AGCTTTAATC---T--ACTGGAATGCCAGGGAAAAAAGATTCGCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * *
28066966 AACCTTAATCTGTTCCACTGCATTGCCAAGGAAAAAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
28067017 AGCTTTAATC---T--ACTGTAACGTCAGGGAAATAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
28067063 AGCTTTAATCTATTCCACTACATTGCCAAGGGAAA-AAGATTTGCTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAATGCC-AGGGAAATAAGATTCGCTGCCTTC
*
28067114 AGCTTTAATC---T--ACTTCAATGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * *
28067160 AACTTTAATTTATTCCATTGCAATGCTAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
*
28067211 AGCTTTAATCTGTTCCACTGCAATGCCTGGGAAATAAGATTCGCTGTCC-TC
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTG-CCTTC
* * * *
28067262 AGCTTTAATCTGTTCCGCTACAACGCCCA-GGAAAAAAGATTCGC
1 AGCTTTAATCTGTTCCACTGCAATG-CCAGGGAAATAAGATTCGC
28067306 CATAATGACT
Statistics
Matches: 1246, Mismatches: 228, Indels: 186
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
41 4 0.00
43 3 0.00
44 22 0.02
45 35 0.03
46 331 0.27
47 6 0.00
48 14 0.01
49 28 0.02
50 43 0.03
51 686 0.55
52 17 0.01
53 5 0.00
54 42 0.03
55 7 0.01
56 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTC
Found at i:28066132 original size:194 final size:194
Alignment explanation
Indices: 28065410--28066187 Score: 832
Period size: 194 Copynumber: 4.0 Consensus size: 194
28065400 TTTAATCCTC
* * * *
28065410 TCCACTACAACTTCAGGGAGAT-AGGATTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAG
* * * *
28065474 ATAAGATTCGCCATAAATTGTATCTTTAATTTGTTCCGCTGCAACGCTAGGGAAATAAGATTCGC
65 ATAAGATTCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
* * * * * * * *
28065539 TGCCTTCAGCTTTAATCTGTTTCACTACAACACTAGAGAAATAAGATTCGTTATCTTCAGTCTGC
130 TGCCTTCAGCTTTAATCTATTCCACTACAACGCCAGAAAAATAAGATTCGCTACCTTCAGTCTGA
* * * *
28065604 TCCAGTGTAACTTCAAGGAGATAAGGCTGGTAGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
* *
28065669 TAAGATTCGCCA-AATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCT
66 TAAGATTCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
*
28065733 GCCTTCAGCTTTAATCTATTCCACTACAATGCCAGGAAAAA-AAGATTCGCTACCTTCAGGTTTA
131 GCCTTCAGCTTTAATCTATTCCACTACAACGCCA-GAAAAATAAGATTCGCTACCTTCA-G----
28065797 ATCT-A
190 -TCTGA
* * ** * * ** * ** *
28065802 GTCCACTGCAAC-GCTAGGGAAATAAGATTCGCTGCCTTCAGCCTTAATTTACTGCAACTTTAGG
1 -TCCACTGCAACTTC-AGGGAGATAAGGCT-GGTGGCTTCAATC-TACTCCACTGCAACTTCAGG
* * * * * *
28065866 AAGATAAGATCCGCCATAAATTTTAGCTTTAATTTGTTCCGCTGCAATGCCAGAGAAATAAGATT
62 AAGATAAGATTCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
* * * * * **
28065931 TGTTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAGAAAAATAAGATTCGCTGTCTTCAGTC
127 CGCTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAGAAAAATAAGATTCGCTACCTTCAGTC
28065996 TGA
192 TGA
* * *
28065999 TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTCCATTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
* * * *
28066064 TAAGATTCGCCAT-AATTCGTAGCTTTGATCTGTTCCATTGCAATGCTAGGGAGAA-AAGATTCG
66 TAAGATTCGCCATAAATT-GTAGCTTTAATCTGTTCCACTGCAACGCCAGGGA-AATAAGATTCG
* * ** * *
28066127 TTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTCAG
129 CTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAGAAAAATAAGATTCGCTACCTTCAG
28066188 CTTTAATCTG
Statistics
Matches: 483, Mismatches: 83, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
193 94 0.19
194 190 0.39
195 13 0.03
196 25 0.05
197 2 0.00
198 1 0.00
199 22 0.05
200 8 0.02
201 38 0.08
202 90 0.19
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (194 bp):
TCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGA
TAAGATTCGCCATAAATTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
GCCTTCAGCTTTAATCTATTCCACTACAACGCCAGAAAAATAAGATTCGCTACCTTCAGTCTGA
Found at i:28066567 original size:97 final size:97
Alignment explanation
Indices: 28066111--28067272 Score: 501
Period size: 97 Copynumber: 11.9 Consensus size: 97
28066101 TTGCAATGCT
* * * *
28066111 AGGGAGAA-AAGATTCGTTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATCAGAT
1 AGGGA-AATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
28066175 TCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACCCC
65 TCGCTGCCTTCAGCTTTAATC---T--ACTTCAACACC
* ** * ** *
28066213 AGGGAAAAAAGATTTGTTGCCTTCAGCTTTAATCTGGTCCACTGCAACGTTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* ***
28066278 CGCTGCCTTCAGCTTTAATTTGCTCCACTACAACGTT
66 CGCTGCCTTCAGCTTTAA--T-CT--ACTTCAACACC
* * * *
28066315 AGGGAAATAAGATTCACTGCCTTCAGCCTTAATC---T--ATTGCAACGCCAAGGAAAAAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * *
28066375 CACTACCCTT-AGCTTTAATCTA-TTCCACTGCAACGC
66 CGCT-GCCTTCAGCTTTAATCTACTT-CA--AC-AC-C
* * *
28066411 TTA-GGAAA-AAGATTCACTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGA
1 --AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGA
*
28066474 TTCGCTGCTTTCAGCTTTAATCTACTTCAACACC
64 TTCGCTGCCTTCAGCTTTAATCTACTTCAACACC
* * * *
28066508 AGGGAAATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGCAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * * **
28066573 CGTTGCCTTCATCTTTAATCTA-TTGTAATGCC
66 CGCTGCCTTCAGCTTTAATCTACTT-CAACACC
* * * * *
28066605 AGGGAAATAAGATTTATTGCTTTCAGCCTTAA--T-TT--ACTACAACGCCAGGGAAA-AGAGAT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATA-AGAT
* * * *
28066664 TCGTTGCCCTCAACTTTAATCTA-TTCCACTGCATCGCC
65 TCGCTGCCTTCAGCTTTAATCTACTT-CA----A-CACC
* * * ** * * *
28066702 TGGGAAAAAAGATCCGCTGCCTTCAGCTTTAATC---T--ACTACAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * *
28066762 TGCTGCCTTCAGCTTTAATCTGTTCCATTGCAACGCC
66 CGCTGCCTTCAGCTTTAATC---TAC-TT-CAACACC
*** * * *
28066799 AACAAAATAAGATTCACTGCCTTCAGCTTTAA--T-TT--ACTGCAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
** ** * *
28066859 CATTGCCTTTTGCTTTAATCTGTTCTATTACAACGCC
66 CGCTGCCTTCAGCTTTAATC--TAC--TT-CAACACC
* ** * * * * *
28066896 AAGGAAATAAGATTCGCTGCCTTGAGCTTTAATC---T--ACTGGAATGCCAGGGAAAAAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * * * *
28066956 CGCTACCTTCAACCTTAATCT-GTTCCACTGCATTGCC
66 CGCTGCCTTCAGCTTTAATCTACTT-CA--ACA---CC
* * *** * * *
28066993 AAGGAAAAAAGATTTGCTGCCTTCAGCTTTAATC---T--ACTGTAACGTCAGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* *
28067053 TGTTGCCTTCAGCTTTAATCTA-TTCCACTACATTGCC
66 CGCTGCCTTCAGCTTTAATCTACTT-CA--ACA---CC
*** * * * *
28067090 AAGGGAAA-AAGATTTGCTGCCTTTAGCTTTAATC---T--ACTTCAATGCCAGGGAAATAAGAT
1 -AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * ** *
28067149 TCGCTGCCTTCAACTTTAATTTATTCCATTGCAATGCT
65 TCGCTGCCTTCAGCTTTAATCTA---C-TT-CAACACC
* ** * **
28067187 AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCTGGGAAATAAGATT
1 AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
28067252 CGCTGTCC-TCAGCTTTAATCT
66 CGCTG-CCTTCAGCTTTAATCT
28067273 GTTCCGCTAC
Statistics
Matches: 854, Mismatches: 146, Indels: 120
0.76 0.13 0.11
Matches are distributed among these distances:
91 2 0.00
92 49 0.06
94 6 0.01
95 4 0.00
96 41 0.05
97 522 0.61
98 15 0.02
99 3 0.00
100 6 0.01
101 40 0.05
102 162 0.19
103 2 0.00
104 1 0.00
105 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (97 bp):
AGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
CGCTGCCTTCAGCTTTAATCTACTTCAACACC
Found at i:28066877 original size:194 final size:193
Alignment explanation
Indices: 28066084--28067305 Score: 1013
Period size: 194 Copynumber: 6.2 Consensus size: 193
28066074 CATAATTCGT
* * * * * * * *
28066084 AGCTTTGATCTGTTCCATTGCAATGCTAGGGAGAAAAGATTCGTTGCCTTCAGCTTTAATCTATT
1 AGCTTTAATCTATTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC---T
* *
28066149 CCACTGCAACGCCAGGGAAATCAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACCCCA
63 --ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCA
* *** *
28066214 GGGAAAAAAGATTTGTTGCCTTCAGCTTTAATCTGGTCCACTGCAACGTTAGGGAAATAAGATTC
126 -AGAAAAAAGATTCACTGCCTTCAGCTTTAAT-T--T--ACTGCAACGCTAGGGAAATAAGATTC
*
28066279 GCTGCCTTC
185 GTTGCCTTC
* ** ** * * * *
28066288 AGCTTTAATTTGCTCCACTACAACGTTAGGGAAATAAGATTCACTGCCTTCAGCCTTAATCTATT
1 AGCTTTAATCTATTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACT
* * * * * ** *
28066353 GCAACGCCAAGGAAAAAAGATTCACTACCCTT-AGCTTTAATCTATTCCACTGCAACGCTTAGGA
66 GCAACGCCAGGGAAATAAGATTCGCT-GCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAA
* * *
28066417 AAAAGATTCACTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCTAAGGAAATAAGATTCGCTGC
130 AAAAGATTCACTGCCTTCAGCTTTAA--T-TT--ACTGCAACGCTAGGGAAATAAGATTCGTTGC
*
28066482 TTTC
190 CTTC
* * *
28066486 AGCTTTAATCTACTT-CA--AC-A--CCAGGGAAATAAGATTCGTTGCTTTCAGCTTTAATCTGT
1 AGCTTTAATCTA-TTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC---
* * * * * * * *
28066545 TCCACTGTAACGCCAAGCAAATAAGATTCGTTGCCTTCATCTTTAATC---T--ATTGTAATGCC
62 T--ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC
* * * * * * * *
28066605 AGGGAAATAAGATTTATTGCTTTCAGCCTTAATTTACTACAACGCCAGGGAAA-AGAGATTCGTT
125 A-AGAAAAAAGATTCACTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATA-AGATTCGTT
*
28066669 GCCCTC
188 GCCTTC
* * * * *
28066675 AACTTTAATCTATTCCACTGCATCGCCTGGGAAAAAAGATCCGCTGCCTTCAGCTTTAATCTACT
1 AGCTTTAATCTATTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACT
* * * * *
28066740 ACAACGCTAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCATTGCAACGCCAACAAA
66 GCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAAA
* *
28066805 ATAAGATTCACTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAAGATTCATTGCCTTT
131 A-AAGATTCACTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAAGATTCGTTGCCTTC
* * * * * * *
28066869 TGCTTTAATCTGTTCTATTACAACGCCAAGGAAATAAGATTCGCTGCCTTGAGCTTTAATCTACT
1 AGCTTTAATCTATTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACT
* * * * * * **
28066934 GGAATGCCAGGGAAAAAAGATTCGCTACCTTCAACCTTAATCTGTTCCACTGCATTGCCAAGGAA
66 GCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAA-GAA
** * * *
28066999 AAAAGATTTGCTGCCTTCAGCTTTAATCTACTGTAACG-TCAGGGAAATAAGATTTGTTGCCTTC
130 AAAAGATTCACTGCCTTCAGCTTTAATTTACTGCAACGCT-AGGGAAATAAGATTCGTTGCCTTC
** * *
28067063 AGCTTTAATCTATTCCACTACATTGCCAAGGG-AAAAAGATTTGCTGCCTTTAGCTTTAATCTAC
1 AGCTTTAATCTATTCCACTACAACGCC-AGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTAC
* * * * * * * *
28067127 TTCAATGCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATTTATTCCATTGCAATGCTAAGGA
65 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAA-GA
* * * *
28067192 AATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCT-GGGAAATAAGATTCGCT
129 AAAAAGATTCACTGCCTTCAGCTTTAA--T-TT--ACTGCAACG-CTAGGGAAATAAGATTCGTT
28067256 GTCC-TC
188 G-CCTTC
* *
28067262 AGCTTTAATCTGTTCCGCTACAACGCCCA-GGAAAAAAGATTCGC
1 AGCTTTAATCTATTCCACTACAACG-CCAGGGAAAAAAGATTCGC
28067306 CATAATGACT
Statistics
Matches: 818, Mismatches: 162, Indels: 81
0.77 0.15 0.08
Matches are distributed among these distances:
188 3 0.00
189 76 0.09
191 4 0.00
192 2 0.00
193 41 0.05
194 400 0.49
195 10 0.01
196 4 0.00
197 5 0.01
198 105 0.13
199 107 0.13
200 10 0.01
201 2 0.00
204 49 0.06
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (193 bp):
AGCTTTAATCTATTCCACTACAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACT
GCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAAA
AAAGATTCACTGCCTTCAGCTTTAATTTACTGCAACGCTAGGGAAATAAGATTCGTTGCCTTC
Found at i:28067665 original size:24 final size:24
Alignment explanation
Indices: 28067633--28067709 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
28067623 CAGATTGCCC
28067633 CCACTATAATCTTCAAGGTTCAAT
1 CCACTATAATCTTCAAGGTTCAAT
28067657 CCACTATAATCTTCAAGGTTCAAT
1 CCACTATAATCTTCAAGGTTCAAT
* *
28067681 CCACTATAATCTTTAAGGTTCAAG
1 CCACTATAATCTTCAAGGTTCAAT
28067705 CCACT
1 CCACT
28067710 GTACTTTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (24 bp):
CCACTATAATCTTCAAGGTTCAAT
Found at i:28068688 original size:46 final size:46
Alignment explanation
Indices: 28068627--28068755 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
28068617 TTTTTTTAAT
* * *
28068627 TCAAAGTGCCATTTGCGGGTTTTCACTTTGGTCTTTTTTTTAGGAC
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
* *
28068673 TCAAGGCGCCCTTTGCGGGTTTTCACCTTGGTCTCTTTTTTAGGAC
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
* *
28068719 TCAAAGCTCCCTTTGCGAGTTTTCACCTTGGTGCTTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGT-CTTT
28068756 CTTCTTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 70 0.96
47 3 0.04
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (46 bp):
TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTTTTTTTTAGGAC
Done.