Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 111 of 226
Found at i:38086201 original size:28 final size:27
Alignment explanation
Indices: 38086123--38086201 Score: 122
Period size: 28 Copynumber: 2.9 Consensus size: 27
38086113 AGACCGTATG
38086123 CAATTTTTTTTCAATTTTTTTTCTTTT
1 CAATTTTTTTTCAATTTTTTTTCTTTT
*
38086150 CAATTTTTTTTCGATTTTTTTTTCTTTT
1 CAATTTTTTTTC-AATTTTTTTTCTTTT
*
38086178 CAATTTTTTTTTCTATTTTTTTTC
1 CAA-TTTTTTTTCAATTTTTTTTC
38086202 GAATCTACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 12 0.26
28 26 0.55
29 9 0.19
ACGTcount: A:0.13, C:0.11, G:0.01, T:0.75
Consensus pattern (27 bp):
CAATTTTTTTTCAATTTTTTTTCTTTT
Found at i:38088930 original size:18 final size:18
Alignment explanation
Indices: 38088904--38088938 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38088894 AACCCTAGCT
38088904 TTTTATTTAATCTGATTG
1 TTTTATTTAATCTGATTG
*
38088922 TTTTCTTTAATCTGATT
1 TTTTATTTAATCTGATT
38088939 TTTAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTATTTAATCTGATTG
Found at i:38094169 original size:165 final size:165
Alignment explanation
Indices: 38093897--38094226 Score: 588
Period size: 165 Copynumber: 2.0 Consensus size: 165
38093887 CAGCTGTGTG
* *
38093897 ACTCACACGGCTGGGACACACGCCCATATCTCAGGCTGTGTGGACATTCGAGGTAGGGACACACG
1 ACTCACACAGCTGGGACACACGCCCATATCTCAGGCCGTGTGGACATTCGAGGTAGGGACACACG
*
38093962 GCCGTGTCCTAGCCCGTATCCGTGCCTATGTAACTCCTAGACTTGGGTCACACAACCAAGCCATA
66 GCCGTGTCCTAGCCCGTATCCGTGCCTATGTAAATCCTAGACTTGGGTCACACAACCAAGCCATA
38094027 CGCCCATGTGCCAAATCATGTACCCTTCTAAATGC
131 CGCCCATGTGCCAAATCATGTACCCTTCTAAATGC
*
38094062 ACTCACACAGCTGTGACACACGCCCATATCTCAGGCCGTGTGGACATTCGAGGTAGGGACACACG
1 ACTCACACAGCTGGGACACACGCCCATATCTCAGGCCGTGTGGACATTCGAGGTAGGGACACACG
* *
38094127 GCCGTGTCCTAGCCCGTGTCCGTGCCTGTGTAAATCCTAGACTTGGGTCACACAACCAAGCCATA
66 GCCGTGTCCTAGCCCGTATCCGTGCCTATGTAAATCCTAGACTTGGGTCACACAACCAAGCCATA
* *
38094192 CGCCCATGTGCCAAATCGTGTAGCCTTCTAAATGC
131 CGCCCATGTGCCAAATCATGTACCCTTCTAAATGC
38094227 CCTAACACGC
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 157 1.00
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (165 bp):
ACTCACACAGCTGGGACACACGCCCATATCTCAGGCCGTGTGGACATTCGAGGTAGGGACACACG
GCCGTGTCCTAGCCCGTATCCGTGCCTATGTAAATCCTAGACTTGGGTCACACAACCAAGCCATA
CGCCCATGTGCCAAATCATGTACCCTTCTAAATGC
Found at i:38095224 original size:28 final size:28
Alignment explanation
Indices: 38095173--38095243 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
38095163 GTCTCACAAG
* *
38095173 TTTTTTTTTTCAATTTCGATTTTTTTTC
1 TTTTTTTTTTCAATTCCGAATTTTTTTC
38095201 TTCTTTTTTTT-AATTCCGAATTTTTTTC
1 TT-TTTTTTTTCAATTCCGAATTTTTTTC
38095229 TTTTTTTTCTTCAAT
1 TTTTTTTT-TTCAAT
38095244 ACTAAATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 6 0.16
28 21 0.55
29 11 0.29
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (28 bp):
TTTTTTTTTTCAATTCCGAATTTTTTTC
Found at i:38095298 original size:11 final size:11
Alignment explanation
Indices: 38095282--38095322 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
38095272 AATACAAACT
38095282 TTTTTTTCGAA
1 TTTTTTTCGAA
38095293 TTTTTTTTCGAA
1 -TTTTTTTCGAA
**
38095305 TTTTTTTTTAA
1 TTTTTTTCGAA
38095316 TTTTTTT
1 TTTTTTT
38095323 ACAATCTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:38095298 original size:12 final size:12
Alignment explanation
Indices: 38095281--38095322 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
38095271 GAATACAAAC
38095281 TTTTTTTTCGAA
1 TTTTTTTTCGAA
38095293 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
38095305 TTTTTTTT-TAA
1 TTTTTTTTCGAA
38095316 TTTTTTT
1 TTTTTTT
38095323 ACAATCTCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:38096917 original size:41 final size:41
Alignment explanation
Indices: 38096872--38097002 Score: 235
Period size: 41 Copynumber: 3.2 Consensus size: 41
38096862 AATTCGGCCA
*
38096872 AACATGTAGTAGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
38096913 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
* *
38096954 AACATGTAGTGGTAGCATTAAATTCGTCCAGACATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
38096995 AACATGTA
1 AACATGTA
38097003 TGAAAATAGG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
Found at i:38097219 original size:20 final size:20
Alignment explanation
Indices: 38097181--38097231 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
38097171 AGCTAATAAC
* *
38097181 GAGCTC-AATGTGCTGACTT
1 GAGCTCGAATGAGCTAACTT
38097200 GAGCTCGAATGAGCTAACTT
1 GAGCTCGAATGAGCTAACTT
38097220 GAGCTCGAATGA
1 GAGCTCGAATGA
38097232 ACCAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (20 bp):
GAGCTCGAATGAGCTAACTT
Found at i:38100715 original size:20 final size:19
Alignment explanation
Indices: 38100660--38100704 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
38100650 CATTTCATTG
*
38100660 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
38100681 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
38100700 AGCTC
1 AGCTC
38100705 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:38114060 original size:21 final size:20
Alignment explanation
Indices: 38114036--38114077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
38114026 TCACACCGCG
38114036 CCTTG-CTACTCGCACCAACAC
1 CCTTGCCTA-TCGCACC-ACAC
38114057 CCTTGCCTATCGCACCACAC
1 CCTTGCCTATCGCACCACAC
38114077 C
1 C
38114078 ATCAAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.21, C:0.50, G:0.10, T:0.19
Consensus pattern (20 bp):
CCTTGCCTATCGCACCACAC
Found at i:38114228 original size:25 final size:26
Alignment explanation
Indices: 38114186--38114239 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
38114176 TTCTCCTAAA
*
38114186 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
38114212 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
38114237 TTT
1 TTT
38114240 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:38115138 original size:3 final size:3
Alignment explanation
Indices: 38115130--38115191 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
38115120 CGAGGATCCT
*
38115130 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
38115178 GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GA
38115192 TCCCACAGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:38119547 original size:20 final size:19
Alignment explanation
Indices: 38119520--38119561 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
38119510 CTTTCCAAAT
38119520 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
38119539 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
38119559 TTT
1 TTT
38119562 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:38128827 original size:22 final size:22
Alignment explanation
Indices: 38128796--38128860 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
38128786 ACCTTTTTGA
*
38128796 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
38128819 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
38128841 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
38128861 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:38129175 original size:11 final size:12
Alignment explanation
Indices: 38129159--38129189 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
38129149 ACGAGATTGT
38129159 AAAAAAAA-TCG
1 AAAAAAAATTCG
38129170 AAAAAAAATTCG
1 AAAAAAAATTCG
38129182 AAAAAAAA
1 AAAAAAAA
38129190 GTTTGTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:38130188 original size:15 final size:16
Alignment explanation
Indices: 38130168--38130199 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
38130158 AGAAAATGAA
38130168 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
38130183 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
38130199 A
1 A
38130200 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:38133035 original size:41 final size:41
Alignment explanation
Indices: 38132990--38133097 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
38132980 AATTCGGCCA
* * *
38132990 AACATGTAGTAGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
38133031 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
38133072 AACATGTAGTGGCAGCATTAAATTCG
1 AACATGTAGTGGCAGCATTAAATTCG
38133098 ACATATTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
Found at i:38137555 original size:18 final size:19
Alignment explanation
Indices: 38137532--38137580 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38137522 AAGTTTTATT
*
38137532 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
38137550 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
38137569 TTTAATTTTTAT
1 TTT-ATTTTTAT
38137581 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:38137560 original size:22 final size:22
Alignment explanation
Indices: 38137523--38137580 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
38137513 CAAGTTGTAA
* *
38137523 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
38137545 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
38137567 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
38137581 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:38141336 original size:18 final size:19
Alignment explanation
Indices: 38141313--38141361 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38141303 GTTGTAAAGT
*
38141313 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
38141331 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
38141350 TTTAATTTTTAT
1 TTT-ATTTTTAT
38141362 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:38141341 original size:22 final size:22
Alignment explanation
Indices: 38141312--38141361 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38141302 AGTTGTAAAG
* *
38141312 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
38141333 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
38141356 TTTTAT
1 TTTTAT
38141362 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:38147459 original size:25 final size:25
Alignment explanation
Indices: 38147387--38147459 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
38147377 AATATATGAT
**
38147387 TTAAATTGGTCTTAGTTTAGATGAA
1 TTAAATTGGTCTTAGTTTAGACAAA
* *
38147412 TTAAATTGGACTTAGTTTTGACAAA
1 TTAAATTGGTCTTAGTTTAGACAAA
38147437 TTAAATTGGTCTTAGTTTAGACA
1 TTAAATTGGTCTTAGTTTAGACA
38147460 CCTTAATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:38147473 original size:25 final size:25
Alignment explanation
Indices: 38147390--38147499 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
38147380 ATATGATTTA
**
38147390 AATTG-GTCTTAGTTTAGATGAATT
1 AATTGTGTCTTAGTTTAGACAAATT
* *
38147414 AAATTG-GACTTAGTTTTGACAAATT
1 -AATTGTGTCTTAGTTTAGACAAATT
**
38147439 AAATTG-GTCTTAGTTTAGACACCTT
1 -AATTGTGTCTTAGTTTAGACAAATT
*
38147464 AATTGTGTC-TAGCGTCTAGACAAATT
1 AATTGTGTCTTA--GTTTAGACAAATT
38147490 AATTGTGTCT
1 AATTGTGTCT
38147500 CAAATTTAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
24 7 0.10
25 44 0.63
26 19 0.27
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (25 bp):
AATTGTGTCTTAGTTTAGACAAATT
Found at i:38148984 original size:610 final size:610
Alignment explanation
Indices: 38147825--38149047 Score: 2347
Period size: 610 Copynumber: 2.0 Consensus size: 610
38147815 ATTGGCGTCT
38147825 TCCATGCTAGAAAAAACTCTTTTCTGTTTTGTGCATTCATTGCACCAAGGATACAAATTACTCCA
1 TCCATGCTAGAAAAAACTCTTTTCTGTTTTGTGCATTCATTGCACCAAGGATACAAATTACTCCA
38147890 GCTTTCAATCCAAGGATCAAATAAGTTAAATAAACTGCTCAACTCAGCTGACAAGTGCATTTAGC
66 GCTTTCAATCCAAGGATCAAATAAGTTAAATAAACTGCTCAACTCAGCTGACAAGTGCATTTAGC
38147955 TGACCATTCGGGTATGGCAAAGGTTAAGGTTGTTGGCTTCACCAATGATTGATGCATTCATTTGT
131 TGACCATTCGGGTATGGCAAAGGTTAAGGTTGTTGGCTTCACCAATGATTGATGCATTCATTTGT
38148020 TAACTCAATTATTCCAGCTCAAGAACCGAACATGACAAGATGAATTACTAAGCTATTAAGTCAGC
196 TAACTCAATTATTCCAGCTCAAGAACCGAACATGACAAGATGAATTACTAAGCTATTAAGTCAGC
* *
38148085 TCCATGGTTGTTCGGGTATAGCAATAGTCAGTTGATCATTAAGTTAATCATTGGATTGTTTCAAC
261 TCCATGGTTGTTCAGGTATAGCAATAGTCAGCTGATCATTAAGTTAATCATTGGATTGTTTCAAC
38148150 TGAAATTTAAGTCAACATTAGTGTTTAATTATTTGCCATTAATTTGAGGCTATTCAGCTGGAGCT
326 TGAAATTTAAGTCAACATTAGTGTTTAATTATTTGCCATTAATTTGAGGCTATTCAGCTGGAGCT
38148215 ATGTAAGCTTATAAATTGCTCATTGTAAACTGTTTTAAAGGTCACTTAACCTGAAACTTTTATGA
391 ATGTAAGCTTATAAATTGCTCATTGTAAACTGTTTTAAAGGTCACTTAACCTGAAACTTTTATGA
38148280 ATATTAAGCTTCGTGAGTTATTCAACTCCTATTGTTCGTTTGAGACTCAATTGACTTATCTAACA
456 ATATTAAGCTTCGTGAGTTATTCAACTCCTATTGTTCGTTTGAGACTCAATTGACTTATCTAACA
* *
38148345 CTGTCTAGTGGCATCAACCCAATTCTTCTTTTGAATTTATCACTTTCTGCAAAGTGTGGCGTTCA
521 CTGTCTAGTGGCATCAACCCAATTCTTCTTTTGAACTTATCACTTCCTGCAAAGTGTGGCGTTCA
38148410 ACCTTTTATACCGTAGGTTCCTATC
586 ACCTTTTATACCGTAGGTTCCTATC
*
38148435 TCCATGCTAGAAAAATCTCTTTTCTGTTTTGTGCATTCATTGCACCAAGGATACAAATTACTCCA
1 TCCATGCTAGAAAAAACTCTTTTCTGTTTTGTGCATTCATTGCACCAAGGATACAAATTACTCCA
38148500 GCTTTCAATCCAAGGATCAAATAAGTTAAATAAACTGCTCAACTCAGCTGACAAGTGCATTTAGC
66 GCTTTCAATCCAAGGATCAAATAAGTTAAATAAACTGCTCAACTCAGCTGACAAGTGCATTTAGC
* * * *
38148565 TGACGATTTGGGTATTGCAAAGGTTAAGGTTGTTGGCTTCACCATTGATTGATGCATTCATTTGT
131 TGACCATTCGGGTATGGCAAAGGTTAAGGTTGTTGGCTTCACCAATGATTGATGCATTCATTTGT
38148630 TAACTCAATTATTCCAGCTCAAGAACCGAACATGACAAGATGAATTACTAAGCTATTAAGTCAGC
196 TAACTCAATTATTCCAGCTCAAGAACCGAACATGACAAGATGAATTACTAAGCTATTAAGTCAGC
*
38148695 TCCATGGTTGTTCAGGTATAGCAATAGTCAGCTGATCATTAAGTTAATCATTGGATTGTTTTAAC
261 TCCATGGTTGTTCAGGTATAGCAATAGTCAGCTGATCATTAAGTTAATCATTGGATTGTTTCAAC
38148760 TGAAATTTAAGTCAACATTAGTGTTTAATTATTTGCCATTAATTTGAGGCTATTCAGCTGGAGCT
326 TGAAATTTAAGTCAACATTAGTGTTTAATTATTTGCCATTAATTTGAGGCTATTCAGCTGGAGCT
38148825 ATGTAAGCTTATAAATTGCTCATTGTAAACTGTTTTAAAGGTCACTTAACCTGAAACTTTTATGA
391 ATGTAAGCTTATAAATTGCTCATTGTAAACTGTTTTAAAGGTCACTTAACCTGAAACTTTTATGA
38148890 ATATTAAGCTTCGTGAGTTATTCAACTCCTATTGTTCGTTTGAGACTCAATTGACTTATCTAACA
456 ATATTAAGCTTCGTGAGTTATTCAACTCCTATTGTTCGTTTGAGACTCAATTGACTTATCTAACA
*
38148955 CTGTCTAGTGGCGTCAACCCAATTCTTCTTTTGAACTTATCACTTCCTGCAAAGTGTGGCGTTCA
521 CTGTCTAGTGGCATCAACCCAATTCTTCTTTTGAACTTATCACTTCCTGCAAAGTGTGGCGTTCA
38149020 ACCTTTTATACCGTAGGTTCCTATC
586 ACCTTTTATACCGTAGGTTCCTATC
38149045 TCC
1 TCC
38149048 CTAGATAGCG
Statistics
Matches: 602, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
610 602 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (610 bp):
TCCATGCTAGAAAAAACTCTTTTCTGTTTTGTGCATTCATTGCACCAAGGATACAAATTACTCCA
GCTTTCAATCCAAGGATCAAATAAGTTAAATAAACTGCTCAACTCAGCTGACAAGTGCATTTAGC
TGACCATTCGGGTATGGCAAAGGTTAAGGTTGTTGGCTTCACCAATGATTGATGCATTCATTTGT
TAACTCAATTATTCCAGCTCAAGAACCGAACATGACAAGATGAATTACTAAGCTATTAAGTCAGC
TCCATGGTTGTTCAGGTATAGCAATAGTCAGCTGATCATTAAGTTAATCATTGGATTGTTTCAAC
TGAAATTTAAGTCAACATTAGTGTTTAATTATTTGCCATTAATTTGAGGCTATTCAGCTGGAGCT
ATGTAAGCTTATAAATTGCTCATTGTAAACTGTTTTAAAGGTCACTTAACCTGAAACTTTTATGA
ATATTAAGCTTCGTGAGTTATTCAACTCCTATTGTTCGTTTGAGACTCAATTGACTTATCTAACA
CTGTCTAGTGGCATCAACCCAATTCTTCTTTTGAACTTATCACTTCCTGCAAAGTGTGGCGTTCA
ACCTTTTATACCGTAGGTTCCTATC
Found at i:38152368 original size:12 final size:13
Alignment explanation
Indices: 38152351--38152383 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
38152341 ATTGAATATG
38152351 AGAAATAAAA-GA
1 AGAAATAAAATGA
38152363 AGAAATAAAATGA
1 AGAAATAAAATGA
38152376 AGGAAATA
1 A-GAAATA
38152384 TATATCAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (13 bp):
AGAAATAAAATGA
Found at i:38152951 original size:23 final size:23
Alignment explanation
Indices: 38152925--38152968 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38152915 TTTATTTAAA
* *
38152925 TATAATTAAACATTAGTAACTAT
1 TATAAATAAACATTAATAACTAT
*
38152948 TATAAATAAATATTAATAACT
1 TATAAATAAACATTAATAACT
38152969 CTCGGGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAAATAAACATTAATAACTAT
Found at i:38155848 original size:2 final size:2
Alignment explanation
Indices: 38155836--38155897 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
38155826 AGTTATTGTA
38155836 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38155877 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
38155898 GTATGTGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38165526 original size:26 final size:26
Alignment explanation
Indices: 38165490--38165539 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
38165480 TTGAATAAAA
38165490 AGGGGTTGCTAAGTACTGATTCCCCG
1 AGGGGTTGCTAAGTACTGATTCCCCG
*
38165516 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTACTGATTCCC
38165540 TGAATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTACTGATTCCCCG
Found at i:38165659 original size:85 final size:85
Alignment explanation
Indices: 38165516--38165838 Score: 452
Period size: 85 Copynumber: 3.8 Consensus size: 85
38165506 TGATTCCCCG
* * * * * *
38165516 AGGGGTTGCTAAGTGCTGATTCCCTGAATTATTGACTCTAAAAGTGGTTGCTAAGTGCTG-ATCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAAT-C
38165580 CACCGTATTTTTAATTGTGAA
65 CACCGTATTTTTAATTGTGAA
* *
38165601 AGGGGTTGCTAAGTGCTGATTCCCCGTATCGTTGAATATAAAGGTGGTTGCTATGTGCTGAATCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATCC
38165666 ACCGTATTTTTAATTGTGAA
66 ACCGTATTTTTAATTGTGAA
* * *
38165686 TGGGGTTGCTAAGTGCTGATTCCCCATATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATCC
* **
38165751 ACCGAATCCTTAATTGTGAA
66 ACCGTATTTTTAATTGTGAA
* * * * *
38165771 AGGGGTTGCTATGTGCTGATTCCCCGTATGAGTGAAT-TTATGGTGGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATCC
38165835 ACCG
66 ACCG
38165839 AGTAACGGAT
Statistics
Matches: 213, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
84 28 0.13
85 183 0.86
86 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (85 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATCC
ACCGTATTTTTAATTGTGAA
Found at i:38165693 original size:43 final size:44
Alignment explanation
Indices: 38165519--38165838 Score: 283
Period size: 43 Copynumber: 7.5 Consensus size: 44
38165509 TTCCCCGAGG
* * * * * *
38165519 GGTTGCTAAGTGCTGATTCC-CTGAATTATTG-ACTCTAAAAGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGTAAAGGT
* * *
38165561 GGTTGCTAAGTGCTGATCCCACCGTAT-TTTTAATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGT-AAAGGT
* *
38165604 GGTTGCTAAGTGCTGATTCC-CCGTATCGTTGAA-TATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGTAAAGGT
* * * * *
38165646 GGTTGCTATGTGCTGAATCCACCGTAT-TTTTAATTGTGAATGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGT-AAAGGT
* *
38165689 GGTTGCTAAGTGCTGATTCC-CCATATCATTGAA-TATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGTAAAGGT
* *
38165731 GGTTGCTAAGTGCTGATTCCACCGAATCCTT-AATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGT-AAAGGT
* * * *
38165774 GGTTGCTATGTGCTGATTCC-CCGTATGAGTGAATT-T-ATGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGTAAAGGT
*
38165815 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
38165839 AGTAACGGAT
Statistics
Matches: 225, Mismatches: 37, Indels: 32
0.77 0.13 0.11
Matches are distributed among these distances:
40 3 0.01
41 27 0.12
42 90 0.40
43 92 0.41
44 13 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (44 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTGAATTGTAAAGGT
Found at i:38176535 original size:20 final size:20
Alignment explanation
Indices: 38176512--38176571 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
38176502 AAATGCTAAT
*
38176512 AGAGGCACTGAAGTGTAATC
1 AGAGGCACTGAAGTGCAATC
*
38176532 AGAGGCACTAAAGTGCAATC
1 AGAGGCACTGAAGTGCAATC
*
38176552 AGAGGCACCGAAGTGCAATC
1 AGAGGCACTGAAGTGCAATC
38176572 CTGTACAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (20 bp):
AGAGGCACTGAAGTGCAATC
Found at i:38179247 original size:27 final size:27
Alignment explanation
Indices: 38179217--38179287 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
38179207 TATAACATAG
38179217 GGGCATAACAGTCATTTTACCACGTAA
1 GGGCATAACAGTCATTTTACCACGTAA
* **
38179244 GGGCATAATAGTCATTTTACCACGTGG
1 GGGCATAACAGTCATTTTACCACGTAA
*
38179271 GGGCATAACATTCATTT
1 GGGCATAACAGTCATTT
38179288 CATATCAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGCATAACAGTCATTTTACCACGTAA
Found at i:38180568 original size:12 final size:12
Alignment explanation
Indices: 38180551--38180577 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38180541 ACAACACTCC
38180551 CTCTCCCCTCAT
1 CTCTCCCCTCAT
38180563 CTCTCCCCTCAT
1 CTCTCCCCTCAT
38180575 CTC
1 CTC
38180578 CCTTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.59, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTCCCCTCAT
Found at i:38186249 original size:41 final size:41
Alignment explanation
Indices: 38186123--38186249 Score: 175
Period size: 41 Copynumber: 3.1 Consensus size: 41
38186113 AAAACCCGAT
38186123 ACATTTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAA
1 ACATTTCACCGGCATC-AAGCCTGCTAGACATAAAGTCTGAA
** * *
38186164 GTAATTCACCGCCATCAAGCCTGCTAGACATAAAGTCTGAA
1 ACATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
* * *
38186205 ACATTTCATCGGCATCAAGCCTCCTAGACGTAAAGTCTGAA
1 ACATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
38186246 ACAT
1 ACAT
38186250 CTTATTTTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 73 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
ACATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
Found at i:38190704 original size:16 final size:14
Alignment explanation
Indices: 38190673--38190701 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38190663 TCTTAATTCT
38190673 TTATAAAAAAAATC
1 TTATAAAAAAAATC
38190687 TTATAAAAAAAATC
1 TTATAAAAAAAATC
38190701 T
1 T
38190702 CTTCCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
TTATAAAAAAAATC
Found at i:38191160 original size:326 final size:325
Alignment explanation
Indices: 38190380--38193305 Score: 3703
Period size: 326 Copynumber: 9.0 Consensus size: 325
38190370 AAACTGAACT
* * * *
38190380 TCAATATACCTCTATATTAAATCCATAAATATTTAATAAAAATATTTTTTTTGCTTAGTTTACAG
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATA-TTTTTTTGCTCAGTTTACAG
* ** * * **
38190445 -AATGAGACCCCGATATCTCATTTCCCAAAACCACTTGACTTTCAGGATAAACCTCTTGTACTTA
65 AAACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTA
* * * *
38190509 ACGATTTGTTCAATCAGCAAAAAATTATCAAAT-AAAAGTTTACTAGAAACTATATTTAACTCCT
130 ACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAA-TTTACTAGAAACTATATCTAACTCGT
* * * * *
38190573 AGAAAATAAAAAATAACTA-CGGAATCATTGTTAGAATTGTGGTCTTGAAACCACTATTTTCAAC
194 ATAAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAAC
* * *
38190637 TCCACTAAAAACGACCTGTTA-ATCGCTCTTAATTCTTTATAAAAAAAATCTTATAAAAAAAATC
259 TCCACTGAAAACGACCTGTTACATCACTCTCAATTC-TT-T-------A---TA-AAAAAAAATC
*
38190701 TCTTCCAATTCTCTC
311 TCTTTCAATTCTCTC
* * *
38190716 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAATTATTTTTTTGCTCAATTTACAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * * * *
38190781 AACAAGGTCCCAATATCTCATTTCCTGAAACGACATGACTTTCGGGACGAACCTCTTGTACTTAA
66 AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTAA
* *
38190846 CTATTTGTTCAATTAGCAAAAAATTATCGAATCAAAATTAACTAGAAACTATATCTAACTCGTAT
131 CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT
* * * * *
38190911 CAAATAAATAATAATAATCAGAATCATTGTTAGAACTGTGGTCCTGAAATCGA-TGTTTTCAACT
196 AAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAA-CCACTGTTTTCAACT
* * *
38190975 CCACTGAAAATGACCTATTACATCACTCTCAATTCTTTATAAAAAAAAACATCTCTTTTAATTCT
260 CCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAAA-ATCTCTTTCAATTCT
38191040 CTC
323 CTC
* * * * * *
38191043 TCAATATACTTGTATGGTAAATCTGTAAATATTTAATAAAACTA-TTTTTTACTCGGTTTACAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * * * *
38191107 AACGAGGTCCCAATATCTCATTTCCTGAAACTACTTGACTTTCAGGACGAACCTTTTGTACTTAA
66 AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTAA
*
38191172 CTATCTGTTCAATTAGCAAAAAATTATCAAATC-AAATATTACTAGAAACTATATCTAACTCGTA
131 CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAAT-TTACTAGAAACTATATCTAACTCGTA
* * *
38191236 TAAAATAAATAATAATTATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCATTATTTTCAA
195 TAAAATAAATAATAATTA-T-CGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAA
* *
38191301 CTCCA-TAAAAAACTACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTC
258 CTCCACT-GAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTC
38191365 TCTC
322 TCTC
* * * *
38191369 ACAATATACCTATATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCGGTTTATAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * * * **
38191434 AACGGGGTCACGATATCTCATTTTCTGAAACCACTTGA-TTGTCGGGATAAACCTCTTGTACTTA
66 AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTT-TCGGGACGAACCTCTTGTACTTA
* * *
38191498 ACTATTTGTTCAATTAGCAAAAAATTATCAAAT---AGTTAACTAGAAACTATATTTAACTCGTA
130 ACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTA
* *
38191560 TAAAAT-AATAATAATTA-CGGAATCATTGTTAGAATTGTGATTCTGAAACCACTGTTTTCAACT
195 TAAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
* * * * *
38191623 CCACTG-AAATGACCTATTACATCACGCTAAATTCTTTAT--AAAAAAATCTCTGTCAATTCTCT
260 CCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTCT
38191685 C
325 C
*
38191686 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTT-CTCAGTTTATAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * * * *
38191750 AACGAGGTCCCAATATCTCA-TTCTCCGAAACCACTTGACTTTTGGGACAAATCTCTTGTACTGA
66 AACGAGGTCCCGATATCTCATTTC-CCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTA
** * * *
38191814 ACTATCAGTTCAATTAGCAAATAATTATCAAATCAAATTTTACTAGAAACTATATCTAACTCTTA
130 ACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTA
** *
38191879 TAAAATAAATAATAATTA-CGGAATCATTGTTAGAATTGTGGTCCAAAAACCACTATTTTCAACT
195 TAAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
* * *
38191943 CCACTGAAAACGACCTGTTACATCGCTCTTAATTATTTATCAAAAAAAAATCTCTTTCAATTCTC
260 CCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAAAATCTCTTTCAATTCTC
38192008 TC
324 TC
* * *
38192010 ACAATATACCTGTATAGTAAATCTGTAAATATTAAATAAAAATA-TTTTTTGCTCAGTTTACAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * * * ** * * *
38192074 AATGGGGTCTCGATATCTTATTTCCCGAAACCACTTGACTTTTAGGATGAACCTCTTATACATAA
66 AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTAA
* *
38192139 CTATTTGTTCAATTAGCAAAAAATTATCAAAT-AAAAGTTTACTAGAAACTATATTTAACTTGTA
131 CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAA-TTTACTAGAAACTATATCTAACTCGTA
* *
38192203 TAAAATAAATATAATAATTA-CGGAATCATTGTTAGAATTGTGGTCTTGAAACCAATGTTTTCAT
195 TAAAAT-AA-ATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCA-
* * * * * *
38192267 A-TCTAATGAAAACAACCTATTACATCACTCTCAATTCTTTATCCAAAAAAAAAAATCTATTTTA
257 ACTCCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTAT----AAAAAAAAATCTCTTTCA
38192331 ATTCTCTC
318 ATTCTCTC
* * * * *
38192339 TCAATATACCTGTATAGTAAATTCATAAATATTTAATAAAAATATTTTTTTACTCAGTTTATAAA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* ** **
38192404 AACAAGGTCCC-A-A--T-ATTTCCTTAAATGACTTGACTTTCGGGACGAACCTCTTGTACTTAA
66 AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTAA
* *
38192464 CTATTTGTTCAATTAG-TAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTTGTAT
131 CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT
* *
38192528 AAAATAAATAATAATTA-CGAAATCATTGTTAGAATTGTGGTCCTGAAACC-CTTATTTTCAACT
196 AAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCAC-TGTTTTCAACT
* ** *
38192591 CCACTGAAAACGACTTGTTTTATCACTCTCAATTCTTTAT--AAAAAAACCTCTTTCAATTCTCT
260 CCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTCT
38192654 C
325 C
* * *
38192655 TCAGTATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAATTTACAAA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
* * *
38192720 AACGAGGGT-CTGATATCTCATTTCCCGAAACCACTTGACTTTTGGGATGAACCTCTTGTACTTA
66 AACGA-GGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTA
* *
38192784 ACTATTTGTTCAATTAGCAAAAAATTATCAAGT-AAATTTTACTAGAAACTATA-CTTAACTCGT
130 ACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATC-TAACTCGT
38192847 ATAAAATAAATAATAA-TAT-GGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAAC
194 ATAAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAAC
* * *
38192910 TCCACTG-AAATGACATGTTACATCACTCTCAATTCTTTAT-AAAAAAAATCTCTTGCAATTCTC
259 TCCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTC
38192973 TC
324 TC
38192975 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTCTTTTGTG-T-AGTTTACA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATT-TTTT-TGCTCAGTTTACA
* * * * * *
38193038 GAAATGAGGTCCTGATATCTCATTTCCCAAAACGACTTGACTTTCGGGGCGAACCTCTGGTACTT
64 GAAACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTT
* *
38193103 AACTATTTATTCAATTAGCAAAAAATTATCAAATCAAGATTTACTAGAAA-TGATATCTAACTCG
129 AACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACT-ATATCTAACTCG
* **
38193167 TATAAAATAAATAATAATAATTAT-GGAATCATTTTTAGAATCATGGTCCTGAAACCACTGTTTT
193 TATAAAAT--A-AATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTT
* *
38193231 CAACTCCACTGAAAACGACCTGTTACATCACTCTCAATTCTCTAT-AAAAAAAATCTCTTTCAAA
255 CAACTCCACTGAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAAT
*
38193295 TCTCTT
320 TCTCTC
38193301 TCAAT
1 TCAAT
38193306 TCTCTCAGCT
Statistics
Matches: 2274, Mismatches: 256, Indels: 130
0.85 0.10 0.05
Matches are distributed among these distances:
315 2 0.00
316 176 0.08
317 78 0.03
318 1 0.00
319 91 0.04
320 313 0.14
321 164 0.07
322 98 0.04
323 23 0.01
324 268 0.12
325 119 0.05
326 354 0.16
327 173 0.08
328 73 0.03
329 65 0.03
330 24 0.01
335 18 0.01
336 159 0.07
337 61 0.03
338 14 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (325 bp):
TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAGTTTACAGA
AACGAGGTCCCGATATCTCATTTCCCGAAACCACTTGACTTTCGGGACGAACCTCTTGTACTTAA
CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT
AAAATAAATAATAATTATCGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACTC
CACTGAAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTCTC
Found at i:38192317 original size:967 final size:962
Alignment explanation
Indices: 38190381--38193299 Score: 3836
Period size: 967 Copynumber: 3.0 Consensus size: 962
38190371 AACTGAACTT
* * * *
38190381 CAATATACCTCTATATTAAATCCATAAATATTTAATAAAAATATTTTTTTTGCTTAGTTTACAG-
1 CAATATACCTATATAGTAAATCCATAAATATTTAATAAAAATA-TTTTTTTGCTCAGTTTATAGA
* ** * *
38190445 AATGAGACCCCGATATCTCATTTCCCAAAACCACTTGACTTTCAGGATAAACCTCTTGTACTTAA
65 AACGAG-GTCCGATATCTCATTTCCTAAAACCACTTGACTTTCGGGATAAACCTCTTGTACTTAA
* * * *
38190510 CGATTTGTTCAATCAGCAAAAAATTATCAAATAAAAGTTTACTAGAAACTATATTTAACTCCTAG
129 CTATTTGTTCAATTAGCAAAAAATTATCAAAT--AAGTTTACTAGAAACTATATTTAACTCGTAT
* * *
38190575 AAAATAAAAAATAACTACGGAATCATTGTTAGAATTGTGGTCTTGAAACCACTATTTTCAACTCC
192 AAAATAAATAATAATTACGGAATCATTGTTAGAATTGTGTTC-TGAAACCACTATTTTCAACTCC
* * *
38190640 ACTAAAAACGACCTGTTAATCGCTCTTAATTCTTTATAAAAAAAATCTTATAAAAAAAATCTCTT
256 ACT-GAAACGACCTGTTAATCACTCTAAATTCTTTAT-AAAAAAATC------------TCT-TT
* *
38190705 CCAATTCTCTCTCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAATTATTTTTTTGCT
306 -CAATTCTCTCTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCT
* * * *
38190770 CAATTTACAGAAACAAGGTCCCAATATCTCATTTCCTGAAACGACATGACTTTCGGGACGAACCT
370 CAATTTACAGAAACGAGGTCCCAATATCTCATTTCC-GAAACCACTTGACTTTTGGGACGAACCT
* * *
38190835 CTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCGAATCAAAATTAACTAGAAACTATAT
434 CTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAATTTTACTAGAAACTATAT
* * * * * * *
38190900 CTAACTCGTATCAAATAAATAATAATAATCAGAATCATTGTTAGAACTGTGGTCCTGAAATCGA-
499 CTAACTCGTATAAAATAAATAATAATTA-CGGAATCATTGTTAGAATTGTGGTCC-AAAAACCAC
*
38190964 TGTTTTCAACTCCACTGAAAATGACCTATTACATCACTCTCAATTCTTTATAAAAAAAAACATCT
562 TGTTTTCAACTCCACTGAAAATGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAAA-ATCT
* * * * *
38191029 CTTTTAATTCTCTCTCAATATACTTGTATGGTAAATCTGTAAATATTTAATAAAACTATTTTTTA
625 CTTTCAATTCTCTCTCAATATACCTGTATAGTAAATCTGTAAATATTTAATAAAAATATTTTTTG
* * * * *
38191094 CTCGGTTTACAGAAACGAGGTCCCAATATCTCATTTCCTGAAACTACTTGACTTTCAGGACGAAC
690 CTCAGTTTACAGAAATGAGGT-CCGATATCTCATTTCCCGAAACCACTTGACTTTCAGGACGAAC
* *
38191159 CTTTTGTACTTAACTATCTGTTCAATTAGCAAAAAATTATCAAATCAAA-TATTACTAGAAACTA
754 CTCTTGTACTTAACTATTTGTTCAATTAGCAAAAAATTATCAAAT-AAAGT-TTACTAGAAACTA
*
38191223 TATCTAACTCGTATAAAATAAATAATAATTATTATGGAATCATTGTTAGAATTGTGGTCCTGAAA
817 TATCTAACTCGTATAAAATAAATAATAATAATTATGGAATCATTGTTAGAATTGTGGTCCTGAAA
* * *
38191288 CCATTATTTTCAACTCCATAA--AAAACTACCTGTTACATCACTCTCAATTCTTTATAAAAAAAA
882 CCAATGTTTTCAACT-C-TAATGAAAACAACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAA
38191351 ATCTCTTTCAATTCTCTCA
944 ATCTCTTTCAATTCTCTCA
* *
38191370 CAATATACCTATATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCGGTTTATAGAA
1 CAATATACCTATATAGTAAATCCATAAATATTTAATAAAAATATTTTTTTGCTCAGTTTATAGAA
* * *
38191435 ACGGGGTCACGATATCTCATTTTCTGAAACCACTTGA-TTGTCGGGATAAACCTCTTGTACTTAA
66 ACGAGGTC-CGATATCTCATTTCCTAAAACCACTTGACTT-TCGGGATAAACCTCTTGTACTTAA
*
38191499 CTATTTGTTCAATTAGCAAAAAATTATCAAAT-AGTTAACTAGAAACTATATTTAACTCGTATAA
129 CTATTTGTTCAATTAGCAAAAAATTATCAAATAAGTTTACTAGAAACTATATTTAACTCGTATAA
*
38191563 AAT-AATAATAATTACGGAATCATTGTTAGAATTGTGATTCTGAAACCACTGTTTTCAACTCCAC
194 AATAAATAATAATTACGGAATCATTGTTAGAATTGTG-TTCTGAAACCACTATTTTCAACTCCAC
* * * *
38191627 TGAAATGACCTATTACATCACGCTAAATTCTTTATAAAAAAATCTCTGTCAATTCTCTCTCAATA
258 TGAAACGACCTGTTA-ATCACTCTAAATTCTTTATAAAAAAATCTCTTTCAATTCTCTCTCAATA
* *
38191692 TACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTT-CTCAGTTTATAGAAACGAG
322 TACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAATTTACAGAAACGAG
* * * **
38191756 GTCCCAATATCTCATTCTCCGAAACCACTTGACTTTTGGGACAAATCTCTTGTACTGAACTATCA
387 GTCCCAATATCTCATT-TCCGAAACCACTTGACTTTTGGGACGAACCTCTTGTACTTAACTATTT
* *
38191821 GTTCAATTAGCAAATAATTATCAAATCAAATTTTACTAGAAACTATATCTAACTCTTATAAAATA
451 GTTCAATTAGCAAAAAATTATCAAATCAAATTTTACTAGAAACTATATCTAACTCGTATAAAATA
*
38191886 AATAATAATTACGGAATCATTGTTAGAATTGTGGTCCAAAAACCACTATTTTCAACTCCACTGAA
516 AATAATAATTACGGAATCATTGTTAGAATTGTGGTCCAAAAACCACTGTTTTCAACTCCACTGAA
* * * * *
38191951 AACGACCTGTTACATCGCTCTTAATTATTTATCAAAAAAAAATCTCTTTCAATTCTCTCACAATA
581 AATGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAAAATCTCTTTCAATTCTCTCTCAATA
* *
38192016 TACCTGTATAGTAAATCTGTAAATATTAAATAAAAATATTTTTTGCTCAGTTTACAGAAATGGGG
645 TACCTGTATAGTAAATCTGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAAATGAGG
* * * * *
38192081 TCTCGATATCTTATTTCCCGAAACCACTTGACTTTTAGGATGAACCTCTTATACATAACTATTTG
710 TC-CGATATCTCATTTCCCGAAACCACTTGACTTTCAGGACGAACCTCTTGTACTTAACTATTTG
* *
38192146 TTCAATTAGCAAAAAATTATCAAATAAAAGTTTACTAGAAACTATATTTAACTTGTATAAAATAA
774 TTCAATTAGCAAAAAATTATCAAAT-AAAGTTTACTAGAAACTATATCTAACTCGTATAAAATAA
* *
38192211 AT-ATAATAATTACGGAATCATTGTTAGAATTGTGGTCTTGAAACCAATGTTTTCATA-TCTAAT
838 ATAATAATAATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCAATGTTTTCA-ACTCTAAT
* * *
38192274 GAAAACAACCTATTACATCACTCTCAATTCTTTATCCAAAAAAAAAAATCTATTTTAATTCTCTC
902 GAAAACAACCTGTTACATCACTCTCAATTCTTTAT-----AAAAAAAATCTCTTTCAATTCTCTC
*
38192339 T
962 A
* * * *
38192340 CAATATACCTGTATAGTAAATTCATAAATATTTAATAAAAATATTTTTTTACTCAGTTTATAAAA
1 CAATATACCTATATAGTAAATCCATAAATATTTAATAAAAATATTTTTTTGCTCAGTTTATAGAA
* * * ** **
38192405 ACAAGGTCCCA-A--T-ATTTCCTTAAATGACTTGACTTTCGGGACGAACCTCTTGTACTTAACT
66 ACGAGGTCCGATATCTCATTTCCTAAAACCACTTGACTTTCGGGATAAACCTCTTGTACTTAACT
* * * *
38192466 ATTTGTTCAATTAG-TAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTTGTATAA
131 ATTTGTTCAATTAGCAAAAAATTATCAAAT--AAGTTTACTAGAAACTATATTTAACTCGTATAA
* *
38192530 AATAAATAATAATTACGAAATCATTGTTAGAATTGTGGTCCTGAAACC-CTTATTTTCAACTCCA
194 AATAAATAATAATTACGGAATCATTGTTAGAATTGT-GTTCTGAAACCAC-TATTTTCAACTCCA
* * * * *
38192594 CTGAAAACGACTTGTTTTATCACTCTCAATTCTTTATAAAAAAACCTCTTTCAATTCTCTCTCAG
257 CTG-AAACGACCTG-TTAATCACTCTAAATTCTTTATAAAAAAATCTCTTTCAATTCTCTCTCAA
*
38192659 TATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAATTTACAAAAACG
320 TATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAATTTACAGAAACG
** *
38192724 AGGGT-CTGATATCTCATTTCCCGAAACCACTTGACTTTTGGGATGAACCTCTTGTACTTAACTA
385 A-GGTCCCAATATCTCATTT-CCGAAACCACTTGACTTTTGGGACGAACCTCTTGTACTTAACTA
*
38192788 TTTGTTCAATTAGCAAAAAATTATCAAGT-AAATTTTACTAGAAACTATA-CTTAACTCGTATAA
448 TTTGTTCAATTAGCAAAAAATTATCAAATCAAATTTTACTAGAAACTATATC-TAACTCGTATAA
* **
38192851 AATAAATAATAA-TATGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACTCCAC
512 AATAAATAATAATTACGGAATCATTGTTAGAATTGTGGTCCAAAAACCACTGTTTTCAACTCCAC
* *
38192915 TG-AAATGACATGTTACATCACTCTCAATTCTTTAT-AAAAAAAATCTCTTGCAATTCTCTCTCA
577 TGAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTCTCTCA
* *
38192978 ATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTCTTTTG-TGTAGTTTACAGAAA
642 ATATACCTGTATAGTAAATCTGTAAATATTTAATAAAAATATT-TTTTGCT-CAGTTTACAGAAA
* * * * *
38193042 TGAGGTCCTGATATCTCATTTCCCAAAACGACTTGACTTTCGGGGCGAACCTCTGGTACTTAACT
705 TGAGGTCC-GATATCTCATTTCCCGAAACCACTTGACTTTCAGGACGAACCTCTTGTACTTAACT
* *
38193107 ATTTATTCAATTAGCAAAAAATTATCAAATCAAGATTTACTAGAAA-TGATATCTAACTCGTATA
769 ATTTGTTCAATTAGCAAAAAATTATCAAATAAAG-TTTACTAGAAACT-ATATCTAACTCGTATA
* ** *
38193171 AAATAAATAATAATAATTATGGAATCATTTTTAGAATCATGGTCCTGAAACCACTGTTTTCAACT
832 AAATAAATAATAATAATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCAATGTTTTCAACT
* * * * *
38193236 CCACTGAAAACGACCTGTTACATCACTCTCAATTCTCTATAAAAAAAATCTCTTTCAAATCTCT
897 CTAATGAAAACAACCTGTTACATCACTCTCAATTCTTTATAAAAAAAATCTCTTTCAATTCTCT
38193300 TTCAATTCTC
Statistics
Matches: 1710, Mismatches: 184, Indels: 99
0.86 0.09 0.05
Matches are distributed among these distances:
962 21 0.01
964 17 0.01
965 127 0.07
966 217 0.13
967 343 0.20
968 186 0.11
969 281 0.16
970 244 0.14
971 4 0.00
972 3 0.00
984 20 0.01
985 71 0.04
986 34 0.02
988 20 0.01
989 122 0.07
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (962 bp):
CAATATACCTATATAGTAAATCCATAAATATTTAATAAAAATATTTTTTTGCTCAGTTTATAGAA
ACGAGGTCCGATATCTCATTTCCTAAAACCACTTGACTTTCGGGATAAACCTCTTGTACTTAACT
ATTTGTTCAATTAGCAAAAAATTATCAAATAAGTTTACTAGAAACTATATTTAACTCGTATAAAA
TAAATAATAATTACGGAATCATTGTTAGAATTGTGTTCTGAAACCACTATTTTCAACTCCACTGA
AACGACCTGTTAATCACTCTAAATTCTTTATAAAAAAATCTCTTTCAATTCTCTCTCAATATACC
TGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTCAATTTACAGAAACGAGGTCC
CAATATCTCATTTCCGAAACCACTTGACTTTTGGGACGAACCTCTTGTACTTAACTATTTGTTCA
ATTAGCAAAAAATTATCAAATCAAATTTTACTAGAAACTATATCTAACTCGTATAAAATAAATAA
TAATTACGGAATCATTGTTAGAATTGTGGTCCAAAAACCACTGTTTTCAACTCCACTGAAAATGA
CCTGTTACATCACTCTCAATTCTTTATAAAAAAAAATCTCTTTCAATTCTCTCTCAATATACCTG
TATAGTAAATCTGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAAATGAGGTCCGAT
ATCTCATTTCCCGAAACCACTTGACTTTCAGGACGAACCTCTTGTACTTAACTATTTGTTCAATT
AGCAAAAAATTATCAAATAAAGTTTACTAGAAACTATATCTAACTCGTATAAAATAAATAATAAT
AATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCAATGTTTTCAACTCTAATGAAAACAAC
CTGTTACATCACTCTCAATTCTTTATAAAAAAAATCTCTTTCAATTCTCTCA
Found at i:38193297 original size:11 final size:11
Alignment explanation
Indices: 38193281--38193310 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38193271 TCTATAAAAA
38193281 AAATCTCTTTC
1 AAATCTCTTTC
38193292 AAATCTCTTTC
1 AAATCTCTTTC
*
38193303 AATTCTCT
1 AAATCTCT
38193311 CAGCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATCTCTTTC
Found at i:38194342 original size:23 final size:23
Alignment explanation
Indices: 38194312--38194362 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
38194302 GAGAACCGAA
38194312 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
38194335 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
38194358 AGTAA
1 TGTAA
38194363 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:38197976 original size:20 final size:20
Alignment explanation
Indices: 38197922--38197980 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
38197912 ACTATTCTAT
* **
38197922 TCAGAGTTACCGAAGTTTAA
1 TCAGAGGTACCGAAGTACAA
* **
38197942 ACAG-GGTACAAAAGTACAA
1 TCAGAGGTACCGAAGTACAA
38197961 TCAGAGGTACCGAAGTACAA
1 TCAGAGGTACCGAAGTACAA
38197981 ATAGGGACAC
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (20 bp):
TCAGAGGTACCGAAGTACAA
Found at i:38208856 original size:16 final size:16
Alignment explanation
Indices: 38208837--38208900 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
38208827 AAAAAAAATC
38208837 GAAAAAAAATTGAAAA
1 GAAAAAAAATTGAAAA
*
38208853 GAAAAAAAA-T----C
1 GAAAAAAAATTGAAAA
38208864 GAAAAAAAATTGAAAA
1 GAAAAAAAATTGAAAA
*
38208880 GAAAAAAACTTGAAAA
1 GAAAAAAAATTGAAAA
38208896 -AAAAA
1 GAAAAA
38208901 TACATACGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
11 9 0.22
12 1 0.03
15 6 0.15
16 24 0.60
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (16 bp):
GAAAAAAAATTGAAAA
Found at i:38208864 original size:27 final size:27
Alignment explanation
Indices: 38208827--38208899 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
38208817 GTAGATTCGA
38208827 AAAAAAAATCGAAAAAAAATTGAAAAG
1 AAAAAAAATCGAAAAAAAATTGAAAAG
38208854 AAAAAAAATCGAAAAAAAATTGAAAAG
1 AAAAAAAATCGAAAAAAAATTGAAAAG
* *
38208881 AAAAAAACTTGAAAAAAAA
1 AAAAAAAATCGAAAAAAAA
38208900 ATACATACGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.11
Consensus pattern (27 bp):
AAAAAAAATCGAAAAAAAATTGAAAAG
Found at i:38216483 original size:76 final size:76
Alignment explanation
Indices: 38216401--38216551 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 76
38216391 TTTCATAAGA
* * *
38216401 TACATTACATAAGCATAAACTCTTTCATATAATCATGAATCTTTCCATTAAGTCACTTACCGTTC
1 TACATTACATAAGCATAAACCCTTTCATATAATCATGAACCTTTCCATTAAATCACTTACCGTTC
*
38216466 TATTCCTTTTC
66 CATTCCTTTTC
* * * * *
38216477 TACATTACATAAGCATCAACCCTTTCATATAGTCATGAACCTTTCCATTAAATTATTTGCCGTTC
1 TACATTACATAAGCATAAACCCTTTCATATAATCATGAACCTTTCCATTAAATCACTTACCGTTC
38216542 CATTCCTTTT
66 CATTCCTTTT
38216552 ATTACCCGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (76 bp):
TACATTACATAAGCATAAACCCTTTCATATAATCATGAACCTTTCCATTAAATCACTTACCGTTC
CATTCCTTTTC
Found at i:38221300 original size:20 final size:19
Alignment explanation
Indices: 38221277--38221330 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
38221267 AGTTCAATTC
38221277 AGCTCAATTTTAGCTCAATG
1 AGCTC-ATTTTAGCTCAATG
*
38221297 AGCTCGTTCTTAGCTCAATG
1 AGCTCATT-TTAGCTCAATG
38221317 AGCTCATTTTAGCT
1 AGCTCATTTTAGCT
38221331 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (19 bp):
AGCTCATTTTAGCTCAATG
Found at i:38228103 original size:27 final size:27
Alignment explanation
Indices: 38228047--38228126 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
38228037 GGCTGGAACT
*
38228047 TAAG-CAAATTAAAATG-ATGCAATAAGC
1 TAAGACAAATT-AAATGCATGCATTAA-C
*
38228074 TAAGACAAATT-AATGACATGTATTAAC
1 TAAGACAAATTAAATG-CATGCATTAAC
*
38228101 TAAGACATATTAAATGCATGCATTAA
1 TAAGACAAATTAAATGCATGCATTAA
38228127 AATAAAACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.09
27 24 0.53
28 17 0.38
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (27 bp):
TAAGACAAATTAAATGCATGCATTAAC
Found at i:38231127 original size:22 final size:22
Alignment explanation
Indices: 38231082--38231127 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
38231072 CAAATGAGTT
*
38231082 ATTTAAGGAGTGGATCATGGAGG
1 ATTTAAGGAGAGGAT-ATGGAGG
38231105 ATTTCAAGGAGAGGAT-TGGAGG
1 ATTT-AAGGAGAGGATATGGAGG
38231127 A
1 A
38231128 GTGATTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
24 10 0.48
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (22 bp):
ATTTAAGGAGAGGATATGGAGG
Found at i:38231411 original size:14 final size:13
Alignment explanation
Indices: 38231380--38231414 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
38231370 TAACATTTAA
38231380 TTTTTTCTTTACC
1 TTTTTTCTTTACC
38231393 TTTTTTCTTTACC
1 TTTTTTCTTTACC
*
38231406 TCTTTTCTT
1 TTTTTTCTT
38231415 CTGCAATCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTCTTTACC
Found at i:38232495 original size:27 final size:27
Alignment explanation
Indices: 38232465--38232516 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
38232455 AAAATTACTG
*
38232465 AAATACCCACGA-AGGGTAAAATGACCA
1 AAATACCC-CGATAGGATAAAATGACCA
*
38232492 AAATACCCCTATAGGATAAAATGAC
1 AAATACCCCGATAGGATAAAATGAC
38232517 TGTTTTACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (27 bp):
AAATACCCCGATAGGATAAAATGACCA
Found at i:38233741 original size:18 final size:16
Alignment explanation
Indices: 38233720--38233764 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 16
38233710 TCTTTCACTC
38233720 TCTTTTTCTTTTTCGATT
1 TCTTTTTCTTTTTC--TT
38233738 TCTTTTTCTTTTTCTT
1 TCTTTTTCTTTTTCTT
38233754 TCATTTTTCTT
1 TC-TTTTTCTT
38233765 CTCTCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 8 0.31
18 14 0.54
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (16 bp):
TCTTTTTCTTTTTCTT
Found at i:38233749 original size:5 final size:6
Alignment explanation
Indices: 38233720--38233754 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
38233710 TCTTTCACTC
**
38233720 TCTTTT TCTTTT TCGATT TCTTTT TCTTTT TCTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTT
38233755 CATTTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:38240728 original size:20 final size:19
Alignment explanation
Indices: 38240705--38240769 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
38240695 AAGCTCAAAC
38240705 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
38240725 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
38240745 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
38240765 GAGCT
1 GAGCT
38240770 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:38246393 original size:22 final size:19
Alignment explanation
Indices: 38246366--38246407 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
38246356 TGATAATAAC
38246366 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
38246388 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
38246407 T
1 T
38246408 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:38246398 original size:16 final size:15
Alignment explanation
Indices: 38246366--38246404 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
38246356 TGATAATAAC
38246366 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
38246382 TTATTATAATATATAT
1 TAATTATAAT-TATAT
38246398 TAATTAT
1 TAATTAT
38246405 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:38247622 original size:20 final size:20
Alignment explanation
Indices: 38247599--38247641 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38247589 TTTAGCTCGG
* * *
38247599 TTCAGCTCACATGAGTTTAA
1 TTCAACTCACACGAGCTTAA
38247619 TTCAACTCACACGAGCTTAA
1 TTCAACTCACACGAGCTTAA
38247639 TTC
1 TTC
38247642 TATAACGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (20 bp):
TTCAACTCACACGAGCTTAA
Found at i:38251245 original size:27 final size:27
Alignment explanation
Indices: 38251182--38251251 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
38251172 AATACCCTTG
* **
38251182 AAGGGTAAAATTACTAAAATACCCCCA
1 AAGGGTAAAATGACCGAAATACCCCCA
38251209 AAGAGG-AAAATGACCGAAATACCCCCA
1 AAG-GGTAAAATGACCGAAATACCCCCA
*
38251236 TAGGGTAAAATGACCG
1 AAGGGTAAAATGACCG
38251252 TTATGCCCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 33 0.89
28 2 0.05
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (27 bp):
AAGGGTAAAATGACCGAAATACCCCCA
Found at i:38252878 original size:10 final size:10
Alignment explanation
Indices: 38252863--38252904 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
38252853 TTTGCAAGTT
38252863 TTGAGCTAAA
1 TTGAGCTAAA
* *
38252873 TTGAGCTGAT
1 TTGAGCTAAA
*
38252883 TTGAGCT-CA
1 TTGAGCTAAA
38252892 TTGAGCTAAA
1 TTGAGCTAAA
38252902 TTG
1 TTG
38252905 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:38256429 original size:41 final size:41
Alignment explanation
Indices: 38256384--38256491 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
38256374 AATTCGGCCA
* * * *
38256384 AACATGTAGTAGCAGCATTAAATTTGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
38256425 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
38256466 AACATGTAGTGGCAGCATTAAATTCG
1 AACATGTAGTGGCAGCATTAAATTCG
38256492 ACATATTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
Found at i:38258240 original size:15 final size:16
Alignment explanation
Indices: 38258215--38258246 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
38258205 TATCTCACAC
38258215 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
38258231 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
38258246 T
1 T
38258247 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:38262472 original size:66 final size:66
Alignment explanation
Indices: 38262366--38262499 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
38262356 CAAAAGTGGT
*
38262366 TGAGTAGAAAATGGAACAAGTACTGATAGTCAGAGAATATGCTAATTTTTTTCCTGAAGAATATC
1 TGAGTAGAAAATGGAACAAGTACTGATAGTCAGAGAATATGCTAATTTTTTTCCTGAAGAACATC
38262431 C
66 C
*
38262432 TGAGTAGAAAATGGAACAAGTACTGATAGTCAGAGAATATGCTGATTTTTTTCCTGAAGAACATC
1 TGAGTAGAAAATGGAACAAGTACTGATAGTCAGAGAATATGCTAATTTTTTTCCTGAAGAACATC
38262497 C
66 C
38262498 TG
1 TG
38262500 GGTTGCCGCT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (66 bp):
TGAGTAGAAAATGGAACAAGTACTGATAGTCAGAGAATATGCTAATTTTTTTCCTGAAGAACATC
C
Found at i:38275338 original size:18 final size:19
Alignment explanation
Indices: 38275317--38275356 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
38275307 TTTCCACTCG
38275317 TTTCTTTTTCAAC-ATCTC
1 TTTCTTTTTCAACAATCTC
*
38275335 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAACAATCTC
38275354 TTT
1 TTT
38275357 GTTTGTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTCTTTTTCAACAATCTC
Found at i:38276444 original size:14 final size:14
Alignment explanation
Indices: 38276423--38276480 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
38276413 TAGCTCTCTC
38276423 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
* *
38276437 TGTTTTTTCAAAAT
1 TTTTTTTTCACAAT
38276451 TTTTTGTTTCA-AAT
1 TTTTT-TTTCACAAT
38276465 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
38276479 TT
1 TT
38276481 GATATCCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
13 5 0.13
14 29 0.74
15 5 0.13
ACGTcount: A:0.22, C:0.10, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:38295628 original size:18 final size:18
Alignment explanation
Indices: 38295607--38295643 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38295597 AAATCCTCTC
38295607 TCTTTCTCTTTTTCAATT
1 TCTTTCTCTTTTTCAATT
* *
38295625 TCTTTTTCTTTTTCTATT
1 TCTTTCTCTTTTTCAATT
38295643 T
1 T
38295644 TATTACAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTTTCTCTTTTTCAATT
Found at i:38296569 original size:12 final size:12
Alignment explanation
Indices: 38296542--38296574 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38296532 ACAACTTGAA
38296542 AAATTTTTTTTG
1 AAATTTTTTTTG
38296554 -AATTTTTTTTG
1 AAATTTTTTTTG
38296565 AAATTATTTT
1 AAATT-TTTT
38296575 CCTTCGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
AAATTTTTTTTG
Found at i:38297651 original size:27 final size:27
Alignment explanation
Indices: 38297600--38297651 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38297590 TCATCTTAGT
* *
38297600 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGTTCTTAAAC
*
38297627 TTTATTTAATAAGTGTTGTTCTTAA
1 TTTAATTAATAAGTGTTGTTCTTAA
38297652 TTGATCTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.54
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGTTCTTAAAC
Found at i:38297987 original size:22 final size:21
Alignment explanation
Indices: 38297944--38297987 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
38297934 GGGGCTGTTA
*
38297944 TAAAGGGAGCTTAAAAATCAT
1 TAAAGGGAGCTTAAAAAGCAT
* *
38297965 TAAAGGGAGTTTTAAAGAGCAT
1 TAAAGGGAG-CTTAAAAAGCAT
38297987 T
1 T
38297988 TTTATGCCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (21 bp):
TAAAGGGAGCTTAAAAAGCAT
Found at i:38298855 original size:13 final size:12
Alignment explanation
Indices: 38298833--38298867 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38298823 ATAGTAGTTT
38298833 CTCGAAAAAAAA
1 CTCGAAAAAAAA
38298845 CTCGAAAAAAAA
1 CTCGAAAAAAAA
*
38298857 TTC-AAAAAAAA
1 CTCGAAAAAAAA
38298868 ATTGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:38300914 original size:19 final size:19
Alignment explanation
Indices: 38300890--38300927 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38300880 TGTGCTTCAA
38300890 GTTCTTCATAAGTTACTAG
1 GTTCTTCATAAGTTACTAG
38300909 GTTCTTCATAAGTTACTAG
1 GTTCTTCATAAGTTACTAG
38300928 CCATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
GTTCTTCATAAGTTACTAG
Found at i:38304203 original size:22 final size:22
Alignment explanation
Indices: 38304172--38304236 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
38304162 ACCTTTTTGA
*
38304172 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
38304195 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
* *
38304217 TCCATACCATTTCATACCAA
1 ACCATACCATTTCGTACCAA
38304237 TTCCTAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 34 0.89
23 4 0.11
ACGTcount: A:0.35, C:0.34, G:0.03, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:38304591 original size:11 final size:11
Alignment explanation
Indices: 38304540--38304601 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
38304530 AGTAGACTCG
38304540 TGAAAAAAAATT
1 TGAAAAAAAA-T
38304552 TGAAAAAAAAT
1 TGAAAAAAAAT
*
38304563 CG-AAAAAAA-
1 TGAAAAAAAAT
*
38304572 TAAATAAAAAAT
1 TGAA-AAAAAAT
38304584 TGAAAAAAAA-
1 TGAAAAAAAAT
38304594 -GAAAAAAA
1 TGAAAAAAA
38304602 TTGTATACGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 8 0.19
10 8 0.19
11 14 0.33
12 13 0.30
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.15
Consensus pattern (11 bp):
TGAAAAAAAAT
Found at i:38304601 original size:21 final size:21
Alignment explanation
Indices: 38304554--38304601 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
38304544 AAAAAATTTG
38304554 AAAAAAAATCGAAAAAAATAA
1 AAAAAAAATCGAAAAAAATAA
* * *
38304575 ATAAAAAATTGAAAAAAA-AG
1 AAAAAAAATCGAAAAAAATAA
38304595 AAAAAAA
1 AAAAAAA
38304602 TTGTATACGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.10
Consensus pattern (21 bp):
AAAAAAAATCGAAAAAAATAA
Found at i:38306851 original size:19 final size:19
Alignment explanation
Indices: 38306823--38306867 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
38306813 GCGAAAATAC
*
38306823 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATCAAA
* *
38306843 AAAAGAAAGAAGATTCAAA
1 AAAAGAAAGAAAAATCAAA
38306862 AAAAGA
1 AAAAGA
38306868 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:38306881 original size:15 final size:15
Alignment explanation
Indices: 38306843--38306908 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
38306833 AAAAATGAAA
* *
38306843 AAAAGAAAGAAGATTC
1 AAAAGAAAG-AGAATG
38306859 AAAA-AAAGAGAATG
1 AAAAGAAAGAGAATG
*
38306873 AAAAGAAAG-CAA-G
1 AAAAGAAAGAGAATG
*
38306886 AAAAGAAAAAG-ATG
1 AAAAGAAAGAGAATG
38306900 AAAAAGAAA
1 -AAAAGAAA
38306909 CATTAAGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 10 0.24
14 11 0.27
15 16 0.39
16 4 0.10
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGAGAATG
Found at i:38311082 original size:6 final size:6
Alignment explanation
Indices: 38311062--38311098 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
38311052 TTAAACTAAG
38311062 TAAAAA TAAATAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA T-AA-AAA TAAAAA TAAAAA TAAAAA TAAAA
38311099 GTTTACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.72
7 4 0.14
8 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:38312369 original size:20 final size:20
Alignment explanation
Indices: 38312332--38312369 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38312322 AGCTCGTTTC
*
38312332 CAGCTCACTTGAGCTCAAGT
1 CAGCTCACTTGAGATCAAGT
38312352 CAGCTCA-TTCGAGATCAA
1 CAGCTCACTT-GAGATCAA
38312370 TTTAGCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
CAGCTCACTTGAGATCAAGT
Found at i:38313909 original size:13 final size:14
Alignment explanation
Indices: 38313899--38313927 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38313889 AAAAAAAATC
38313899 AAAATTC-AAAAAA
1 AAAATTCGAAAAAA
38313912 AAAATTCGAAAAAA
1 AAAATTCGAAAAAA
38313926 AA
1 AA
38313928 GAAAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAATTCGAAAAAA
Found at i:38313951 original size:41 final size:41
Alignment explanation
Indices: 38313906--38313983 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
38313896 ATCAAAATTC
* *
38313906 AAAAAAAAAATTCGAAAAAAAAG-AAAAAAAGAAGTGAGCAA
1 AAAAAAAAAAGT-AAAAAAAAAGAAAAAAAAGAAGTGAGCAA
*
38313947 AAAAAAAAGAGTAAAAAAAAAGAAAAAAAAGAAGTGA
1 AAAAAAAAAAGTAAAAAAAAAGAAAAAAAAGAAGTGA
38313984 AAAGTCTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 9 0.27
41 24 0.73
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (41 bp):
AAAAAAAAAAGTAAAAAAAAAGAAAAAAAAGAAGTGAGCAA
Found at i:38313985 original size:14 final size:14
Alignment explanation
Indices: 38313929--38313986 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
38313919 GAAAAAAAAG
38313929 AAAAAAAGAAGTGA
1 AAAAAAAGAAGTGA
* * *
38313943 GCAAAAAAAAAAGAGT
1 --AAAAAAAGAAGTGA
38313959 AAAAAAA-AA--GA
1 AAAAAAAGAAGTGA
38313970 AAAAAAAGAAGTGA
1 AAAAAAAGAAGTGA
38313984 AAA
1 AAA
38313987 GTCTTGCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.23
12 2 0.06
13 2 0.06
14 12 0.34
16 11 0.31
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAAGTGA
Found at i:38315047 original size:15 final size:15
Alignment explanation
Indices: 38315022--38315068 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
38315012 AGAAAAGAAT
38315022 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
38315038 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
38315053 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
38315068 A
1 A
38315069 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:38315115 original size:12 final size:12
Alignment explanation
Indices: 38315098--38315137 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38315088 AGTGAAAAGC
38315098 AAAAAGAGATTG
1 AAAAAGAGATTG
*
38315110 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
38315122 AAAGAGAGCTTG
1 AAAAAGAGATTG
38315134 AAAA
1 AAAA
38315138 GAAATCGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:38316611 original size:20 final size:20
Alignment explanation
Indices: 38316586--38316631 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
38316576 GCTCGTTTCT
*
38316586 AGCTCACTT-GAGCTCAAGTC
1 AGCTCA-TTCGAGATCAAGTC
*
38316606 AGCTCATTCGAGATCAATTC
1 AGCTCATTCGAGATCAAGTC
38316626 AGCTCA
1 AGCTCA
38316632 ATTTTAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
AGCTCATTCGAGATCAAGTC
Found at i:38330710 original size:20 final size:20
Alignment explanation
Indices: 38330687--38330733 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38330677 GGGTTAAAAT
*
38330687 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
38330707 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
38330727 TGAGCTG
1 TGAGCTG
38330734 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:38334650 original size:22 final size:21
Alignment explanation
Indices: 38334625--38334666 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
38334615 TTTGAACCAT
38334625 TACCAATTCGTACCAAATTCCA
1 TACCAATTCGTACC-AATTCCA
*
38334647 TACCATTTCGTACCAATTCC
1 TACCAATTCGTACCAATTCC
38334667 TAAATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (21 bp):
TACCAATTCGTACCAATTCCA
Found at i:38335015 original size:18 final size:19
Alignment explanation
Indices: 38334970--38335018 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38334960 GAATATTTAC
*
38334970 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
38334990 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
38335008 ATAAAAATAAA
1 ATAAAAATAAA
38335019 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:38335935 original size:22 final size:22
Alignment explanation
Indices: 38335904--38335968 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
38335894 ACCTTTTTGA
*
38335904 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
38335927 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
38335949 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
38335969 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:38338359 original size:476 final size:476
Alignment explanation
Indices: 38337467--38338418 Score: 1823
Period size: 476 Copynumber: 2.0 Consensus size: 476
38337457 CTAGCATTAT
*
38337467 AAATAGATGTAATCAGCCATAGAGGGGAGGAACTTTTTGCTGAATATAGATGAATTATTTGAATT
1 AAATAGATGTAATCAGCCATAGAGGGGAGGAACTTTTTGCTGAATATAGATGAAATATTTGAATT
38337532 GTGAGCTATCCAATTCTCTTTGTTCTTTCGGAATTGATTTGACTTATCAAGCATAGCTTGTGGCG
66 GTGAGCTATCCAATTCTCTTTGTTCTTTCGGAATTGATTTGACTTATCAAGCATAGCTTGTGGCG
38337597 TCCATCTATTCTTTGTTGCTGAACTTATCACCTTTGGTGTGGCGTTCAATATACCTTTGGTTCCT
131 TCCATCTATTCTTTGTTGCTGAACTTATCACCTTTGGTGTGGCGTTCAATATACCTTTGGTTCCT
38337662 ATCATAGTTGATAGTGGGTCAAGGTTCCTTTCCTGTTTCCTTTAACCGAAAAACACCTAAAGACC
196 ATCATAGTTGATAGTGGGTCAAGGTTCCTTTCCTGTTTCCTTTAACCGAAAAACACCTAAAGACC
*
38337727 ATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTCGGTCTTAGCCAATTAATTTG
261 ATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTCGGTCTTAGCCAATTAATTGG
38337792 TTATTGTTTCCTCTTTATTTTGTTTATTATCTTTGTTAGAAGCCATTAACTCTATTTTGTTTCAT
326 TTATTGTTTCCTCTTTATTTTGTTTATTATCTTTGTTAGAAGCCATTAACTCTATTTTGTTTCAT
*
38337857 TTTAAAACCGAAATGAATCCATCCTTACTCAATTCACGATTGGGCAACACATACGACTCAAAACA
391 TTTAAAACCGAAACGAATCCATCCTTACTCAATTCACGATTGGGCAACACATACGACTCAAAACA
38337922 TCACGAGACGAGTTCGTATCA
456 TCACGAGACGAGTTCGTATCA
38337943 AAATAGATGTAATCAGCCATAGAGGGGAGGAACTTTTTGCTGAATATAGATGAAATATTTGAATT
1 AAATAGATGTAATCAGCCATAGAGGGGAGGAACTTTTTGCTGAATATAGATGAAATATTTGAATT
38338008 GTGAGCTATCCAATTCTCTTTGTTCTTTCGGAATTGATTTGACTTATCAAGCATAGCTTGTGGCG
66 GTGAGCTATCCAATTCTCTTTGTTCTTTCGGAATTGATTTGACTTATCAAGCATAGCTTGTGGCG
*
38338073 TCCATCTTTTCTTTGTTGCTGAACTTATCACCTTTGGTGTGGCGTTCAATATACCTTTGGTTCCT
131 TCCATCTATTCTTTGTTGCTGAACTTATCACCTTTGGTGTGGCGTTCAATATACCTTTGGTTCCT
*
38338138 ATCATAGTTGATAGTGGGTCAAGGTTCCTTTCTTGTTTCCTTTAACCGAAAAACACCTAAAGACC
196 ATCATAGTTGATAGTGGGTCAAGGTTCCTTTCCTGTTTCCTTTAACCGAAAAACACCTAAAGACC
*
38338203 ATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTTGGTCTTAGCCAATTAATTGG
261 ATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTCGGTCTTAGCCAATTAATTGG
* *
38338268 TTATTGTTTCCTCTTTATTTTGTTTATTATCTTTGTTGGAAGCCATTATCTCTATTTTGTTTCAT
326 TTATTGTTTCCTCTTTATTTTGTTTATTATCTTTGTTAGAAGCCATTAACTCTATTTTGTTTCAT
*
38338333 TTTAAAACTGAAACGAATCCATCCTTACTCAATTCACGATTGGGCAACACATACGACTCAAAACA
391 TTTAAAACCGAAACGAATCCATCCTTACTCAATTCACGATTGGGCAACACATACGACTCAAAACA
38338398 TCACGAGACGAGTTCGTATCA
456 TCACGAGACGAGTTCGTATCA
38338419 TAGCCGAATA
Statistics
Matches: 467, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
476 467 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (476 bp):
AAATAGATGTAATCAGCCATAGAGGGGAGGAACTTTTTGCTGAATATAGATGAAATATTTGAATT
GTGAGCTATCCAATTCTCTTTGTTCTTTCGGAATTGATTTGACTTATCAAGCATAGCTTGTGGCG
TCCATCTATTCTTTGTTGCTGAACTTATCACCTTTGGTGTGGCGTTCAATATACCTTTGGTTCCT
ATCATAGTTGATAGTGGGTCAAGGTTCCTTTCCTGTTTCCTTTAACCGAAAAACACCTAAAGACC
ATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTCGGTCTTAGCCAATTAATTGG
TTATTGTTTCCTCTTTATTTTGTTTATTATCTTTGTTAGAAGCCATTAACTCTATTTTGTTTCAT
TTTAAAACCGAAACGAATCCATCCTTACTCAATTCACGATTGGGCAACACATACGACTCAAAACA
TCACGAGACGAGTTCGTATCA
Found at i:38346027 original size:99 final size:98
Alignment explanation
Indices: 38345852--38346034 Score: 233
Period size: 99 Copynumber: 1.9 Consensus size: 98
38345842 GTAACCTTCA
* * * * * * *
38345852 AACTAGGGACACACGATTGTGTCCTAGTCCATTCGTCACCCGCATAACTCATTGAGTAGGGTCAC
1 AACTAGGGACACACGATTGTGTCCCAGCCCAGTCCTCACCCGCATAACTCACTAACTAGGGTCAC
**
38345917 ACGGCCATGTCATACGCCCATTCGTAACCTCTG
66 ACAACCATGTCATACGCCCATTCGTAACCTCTG
*
38345950 AACTAGGGACACACGGA-TGTGTCCCAGCCCAGGTCCTCACCCGCGTAACTCACTAACTAGGGTC
1 AACTAGGGACACAC-GATTGTGTCCCAGCCCA-GTCCTCACCCGCATAACTCACTAACTAGGGTC
* *
38346014 ACACAACCGTGTCATATGCCC
64 ACACAACCATGTCATACGCCC
38346035 GTGTGGCAGG
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
98 26 0.37
99 45 0.63
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (98 bp):
AACTAGGGACACACGATTGTGTCCCAGCCCAGTCCTCACCCGCATAACTCACTAACTAGGGTCAC
ACAACCATGTCATACGCCCATTCGTAACCTCTG
Found at i:38347363 original size:13 final size:13
Alignment explanation
Indices: 38347345--38347370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38347335 TATTTTTCCT
38347345 TATAACCATTTCA
1 TATAACCATTTCA
38347358 TATAACCATTTCA
1 TATAACCATTTCA
38347371 CTTGAACGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAACCATTTCA
Found at i:38347912 original size:20 final size:20
Alignment explanation
Indices: 38347889--38347955 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
38347879 GGGCAAAAAT
*
38347889 GTGCAAAAAGGGGCACCGTA
1 GTGCAAAAAGGGGCACCGAA
* * *
38347909 GTGCGAACAGGGACACCGAA
1 GTGCAAAAAGGGGCACCGAA
* *
38347929 GTGCAAATAGAGGCACCGAA
1 GTGCAAAAAGGGGCACCGAA
38347949 GTGCAAA
1 GTGCAAA
38347956 TCCCCTACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.37, C:0.21, G:0.33, T:0.09
Consensus pattern (20 bp):
GTGCAAAAAGGGGCACCGAA
Found at i:38350235 original size:81 final size:81
Alignment explanation
Indices: 38350100--38350251 Score: 252
Period size: 81 Copynumber: 1.9 Consensus size: 81
38350090 AGGTCGTAAT
*
38350100 AATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGATGTGTAAAATTATCGAAA
1 AATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGTGTAAAATTATCGAAA
38350165 TACCCTCGATGGGAAA
66 TACCCTCGATGGGAAA
* * *
38350181 AATTACTGAAATACCCTTGATGGGTAAGATTATCGAAATACCCCCGATAG-GTAAAATTATCGAA
1 AATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGAT-GTGTAAAATTATCGAA
38350245 ATACCCT
65 ATACCCT
38350252 TGTAAGGTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
81 65 0.98
82 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGTGTAAAATTATCGAAA
TACCCTCGATGGGAAA
Found at i:38350260 original size:27 final size:27
Alignment explanation
Indices: 38350095--38350251 Score: 226
Period size: 27 Copynumber: 5.8 Consensus size: 27
38350085 TTATGAGGTC
*
38350095 GTAATAATTACCGAAATACCCTCGATGG
1 GTAA-AATTATCGAAATACCCTCGATGG
*
38350123 GTAAAATTATCGAAATACCCTCGATGT
1 GTAAAATTATCGAAATACCCTCGATGG
38350150 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
38350177 GAAAAATTA-CTGAAATACCCTTGATGG
1 GTAAAATTATC-GAAATACCCTCGATGG
* * *
38350204 GTAAGATTATCGAAATACCCCCGATAG
1 GTAAAATTATCGAAATACCCTCGATGG
38350231 GTAAAATTATCGAAATACCCT
1 GTAAAATTATCGAAATACCCT
38350252 TGTAAGGTAC
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 109 0.95
28 5 0.04
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATGG
Found at i:38350270 original size:81 final size:81
Alignment explanation
Indices: 38350107--38350277 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
38350097 AATAATTACC
*
38350107 GAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGATGTGTAAAATTATCGAAATACCCTC
1 GAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGTGTAAAATTATCGAAATACCCTC
* *
38350172 GATGGGAAAAATTACT
66 GATAGGAAAAATGACT
* *
38350188 GAAATACCCTTGATGGGTAAGATTATCGAAATACCCCCGATAG-GTAAAATTATCGAAATACCCT
1 GAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGAT-GTGTAAAATTATCGAAATACCCT
* * *
38350252 TG-TAAGGTACAATGACT
65 CGAT-AGGAAAAATGACT
*
38350269 GAAAAACCC
1 GAAATACCC
38350278 CCCATAAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 77 0.97
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
GAAATACCCTCGATGGGTAAAATTATCGAAATACCCCCGATGTGTAAAATTATCGAAATACCCTC
GATAGGAAAAATGACT
Found at i:38350278 original size:54 final size:52
Alignment explanation
Indices: 38350100--38350292 Score: 183
Period size: 54 Copynumber: 3.6 Consensus size: 52
38350090 AGGTCGTAAT
* * * * *
38350100 AATTACCGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTCGATGTGTAA
1 AATTATCGAAATACCCCCGATAGGTAAAATTATCGAAATACCCTTGAAG-GT-A
* * * *
38350154 AATTATCGAAATACCCTCGATGGGAAAAATTA-CTGAAATACCCTTGATGGGTA
1 AATTATCGAAATACCCCCGATAGGTAAAATTATC-GAAATACCCTTGA-AGGTA
38350207 AGATTATCGAAATACCCCCGATAGGTAAAATTATCGAAATACCCTTGTAAGGTA
1 A-ATTATCGAAATACCCCCGATAGGTAAAATTATCGAAATACCCTTG-AAGGTA
* * *
38350261 CAATGA-CTGAAAAACCCCCCATAAGGTAAAAT
1 -AATTATC-GAAATACCCCCGAT-AGGTAAAAT
38350293 AACTTAATGC
Statistics
Matches: 120, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
53 4 0.03
54 103 0.86
55 13 0.11
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (52 bp):
AATTATCGAAATACCCCCGATAGGTAAAATTATCGAAATACCCTTGAAGGTA
Found at i:38350327 original size:27 final size:27
Alignment explanation
Indices: 38350276--38350481 Score: 152
Period size: 27 Copynumber: 7.8 Consensus size: 27
38350266 ACTGAAAAAC
* *
38350276 CCCCCATAAGGTAAAATAACT-TAATG
1 CCCCCATAGGGTAAAATGACTGTAATG
38350302 CCCCCATAGGGTAAAATGACTGTAATG
1 CCCCCATAGGGTAAAATGACTGTAATG
** * * *
38350329 CCCCTGTAAGGTAAAATGACCG-AA-A
1 CCCCCATAGGGTAAAATGACTGTAATG
*
38350354 CCCCCATAGGGTAAAATGACCGTAATG
1 CCCCCATAGGGTAAAATGACTGTAATG
** * *
38350381 CCCCTGTAGGGTAAAATG-GTCGTAATA
1 CCCCCATAGGGTAAAATGACT-GTAATG
* * *** *
38350408 CCCCCGTAGGGTTAAATGACCAAAATA
1 CCCCCATAGGGTAAAATGACTGTAATG
*** *
38350435 CCAATATAAGGTAAAATGACTGTAATG
1 CCCCCATAGGGTAAAATGACTGTAATG
* *
38350462 CCCCTAGAGGGT-AAATGACT
1 CCCCCATAGGGTAAAATGACT
38350482 ATTTTGCCTT
Statistics
Matches: 139, Mismatches: 36, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
25 19 0.14
26 31 0.22
27 89 0.64
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (27 bp):
CCCCCATAGGGTAAAATGACTGTAATG
Found at i:38350364 original size:52 final size:54
Alignment explanation
Indices: 38350282--38350480 Score: 199
Period size: 54 Copynumber: 3.8 Consensus size: 54
38350272 AAACCCCCCA
* * * *
38350282 TAAGGTAAAAT-AACTTAATGCCCCCATAGGGTAAAATGACTGTAATGCCCCTG
1 TAAGGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTG
38350335 TAAGGTAAAATGACCG-AA-ACCCCCATAGGGTAAAATGACCGTAATGCCCCTG
1 TAAGGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTG
* ** * * ** * ** *
38350387 TAGGGTAAAATGGTCGTAATACCCCCGTAGGGTTAAATGACCAAAATACCAATA
1 TAAGGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTG
* * * *
38350441 TAAGGTAAAATGACTGTAATGCCCCTAGAGGGT-AAATGAC
1 TAAGGTAAAATGACCGTAATACCCCCATAGGGTAAAATGAC
38350481 TATTTTGCCT
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
52 45 0.38
53 22 0.18
54 53 0.44
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (54 bp):
TAAGGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTG
Found at i:38350536 original size:24 final size:23
Alignment explanation
Indices: 38350509--38350593 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
38350499 TAAATGGTTA
*
38350509 ATTTGTCCGTGATGCAAATGACTG
1 ATTTGTCTGTGATG-AAATGACTG
* * * *
38350533 ATTTTTCAGTGATTTAAATGAGTG
1 ATTTGTCTGTGA-TGAAATGACTG
**
38350557 ATTTGTCTGTGATTGGTATGACTG
1 ATTTGTCTGTGA-TGAAATGACTG
38350581 ATTTGTCTGTGAT
1 ATTTGTCTGTGAT
38350594 TTGTATGACT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.44
Consensus pattern (23 bp):
ATTTGTCTGTGATGAAATGACTG
Found at i:38350570 original size:11 final size:11
Alignment explanation
Indices: 38350554--38350597 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
38350544 ATTTAAATGA
38350554 GTGATTTGTCT
1 GTGATTTGTCT
* *
38350565 GTGATTGGTAT
1 GTGATTTGTCT
38350576 GACTGATTTGTCT
1 G--TGATTTGTCT
38350589 GTGATTTGT
1 GTGATTTGT
38350598 ATGACTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.14, C:0.07, G:0.30, T:0.50
Consensus pattern (11 bp):
GTGATTTGTCT
Found at i:38350594 original size:24 final size:24
Alignment explanation
Indices: 38350526--38350608 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
38350516 CGTGATGCAA
* * **
38350526 ATGACTGATTTTTCAGTGATTTAA
1 ATGACTGATTTGTCTGTGATTTGT
* *
38350550 ATGAGTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGTCTGTGATTTGT
38350574 ATGACTGATTTGTCTGTGATTTGT
1 ATGACTGATTTGTCTGTGATTTGT
38350598 ATGACTGATTT
1 ATGACTGATTT
38350609 TGAGCATGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTTGT
Found at i:38350608 original size:13 final size:13
Alignment explanation
Indices: 38350566--38350608 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
38350556 GATTTGTCTG
*
38350566 TGATTGGTATGAC
1 TGATTTGTATGAC
*
38350579 TGATTTGTCTG--
1 TGATTTGTATGAC
38350590 TGATTTGTATGAC
1 TGATTTGTATGAC
38350603 TGATTT
1 TGATTT
38350609 TGAGCATGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 10 0.40
13 15 0.60
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.49
Consensus pattern (13 bp):
TGATTTGTATGAC
Found at i:38350735 original size:26 final size:26
Alignment explanation
Indices: 38350697--38350750 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
38350687 TTGGCCATAT
* *
38350697 ATACTATTATTGGTAGCTTTGCTGCG
1 ATACTATTATTGGCAACTTTGCTGCG
* *
38350723 ATACTGTTGTTGGCAACTTTGCTGCG
1 ATACTATTATTGGCAACTTTGCTGCG
38350749 AT
1 AT
38350751 GCTACTAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (26 bp):
ATACTATTATTGGCAACTTTGCTGCG
Found at i:38357582 original size:20 final size:20
Alignment explanation
Indices: 38357559--38357612 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
38357549 TGAATAGGGA
* *
38357559 CACCGAAGTGTATACAGAGG
1 CACCGAAGTGCAAACAGAGG
38357579 CACCGAAGTGCAAACAGAGG
1 CACCGAAGTGCAAACAGAGG
*
38357599 CACCAAAGTGCAAA
1 CACCGAAGTGCAAA
38357613 TCCCGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (20 bp):
CACCGAAGTGCAAACAGAGG
Found at i:38359593 original size:10 final size:9
Alignment explanation
Indices: 38359575--38359651 Score: 82
Period size: 10 Copynumber: 7.9 Consensus size: 9
38359565 TTTCATGCGG
38359575 TTCAGCTCA
1 TTCAGCTCA
38359584 TTCGAGCTCAA
1 TTC-AGCTC-A
*
38359595 TTCAGCTTA
1 TTCAGCTCA
38359604 TTCATGCTCA
1 TTCA-GCTCA
38359614 TTCAAGCTCA
1 TTC-AGCTCA
38359624 TTCGAGCTCAA
1 TTC-AGCTC-A
38359635 TTCAGCTCA
1 TTCAGCTCA
*
38359644 TTTAGCTC
1 TTCAGCTC
38359652 GTTATTCGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
9 16 0.27
10 34 0.58
11 9 0.15
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (9 bp):
TTCAGCTCA
Found at i:38359600 original size:20 final size:20
Alignment explanation
Indices: 38359575--38359645 Score: 101
Period size: 20 Copynumber: 3.5 Consensus size: 20
38359565 TTTCATGCGG
38359575 TTCAGCTCATTCGAGCTCAA
1 TTCAGCTCATTCGAGCTCAA
*
38359595 TTCAGCTTATTC-ATGCTC-A
1 TTCAGCTCATTCGA-GCTCAA
38359614 TTCAAGCTCATTCGAGCTCAA
1 TTC-AGCTCATTCGAGCTCAA
38359635 TTCAGCTCATT
1 TTCAGCTCATT
38359646 TAGCTCGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
19 5 0.11
20 35 0.78
21 5 0.11
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (20 bp):
TTCAGCTCATTCGAGCTCAA
Found at i:38382179 original size:16 final size:18
Alignment explanation
Indices: 38382155--38382188 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38382145 TGTAATATAT
38382155 TATTAC-AAAAATTAATG
1 TATTACAAAAAATTAATG
38382172 TATT-CAAAAAATTAATG
1 TATTACAAAAAATTAATG
38382189 AATCATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
TATTACAAAAAATTAATG
Found at i:38386615 original size:52 final size:52
Alignment explanation
Indices: 38386532--38386632 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
38386522 TAAGGAAACG
* *
38386532 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
*
38386584 TAATAGACAGTAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
38386633 TATGTGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:38389611 original size:29 final size:29
Alignment explanation
Indices: 38389579--38389638 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
38389569 CATGGTCATA
* *
38389579 TGTCACACATGGCTGGCCACACACCCATG
1 TGTCACACACGGCTAGCCACACACCCATG
* *
38389608 TGTCACACACGGCTAGCCACACCCCCGTG
1 TGTCACACACGGCTAGCCACACACCCATG
38389637 TG
1 TG
38389639 GTGTCGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.17
Consensus pattern (29 bp):
TGTCACACACGGCTAGCCACACACCCATG
Found at i:38391981 original size:16 final size:16
Alignment explanation
Indices: 38391944--38391984 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
38391934 TAAAAATTTT
38391944 AAAAAA-TTGAAATTA
1 AAAAAATTTGAAATTA
38391959 AAAAAATTTGAAATTA
1 AAAAAATTTGAAATTA
38391975 AAAAAATTTG
1 AAAAAATTTG
38391985 TACAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (16 bp):
AAAAAATTTGAAATTA
Found at i:38395724 original size:10 final size:10
Alignment explanation
Indices: 38395711--38395746 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
38395701 AGCTCGAATC
*
38395711 AGCTCATTTG
1 AGCTCATTTA
38395721 AGCTCATTTA
1 AGCTCATTTA
*
38395731 AGCTCGTTTA
1 AGCTCATTTA
38395741 AGCTCA
1 AGCTCA
38395747 ACCTAGCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (10 bp):
AGCTCATTTA
Found at i:38397637 original size:25 final size:28
Alignment explanation
Indices: 38397608--38397693 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
38397598 GGTCAAACAA
38397608 TAATTAG-ATA-T-TATTAAATATGTCC
1 TAATTAGTATAGTGTATTAAATATGTCC
* *
38397633 TAATTAGTTTAGGTGTTTTAAATATGTCC
1 TAATTAGTATA-GTGTATTAAATATGTCC
*
38397662 TAATTAGT-TCAAGTGTTTTAAATATGTCC
1 TAATTAGTAT--AGTGTATTAAATATGTCC
38397691 TAA
1 TAA
38397694 ACTAATACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.13
26 2 0.04
28 2 0.04
29 41 0.77
30 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (28 bp):
TAATTAGTATAGTGTATTAAATATGTCC
Found at i:38397663 original size:29 final size:29
Alignment explanation
Indices: 38397621--38397693 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
38397611 TTAGATATTA
* *
38397621 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
38397650 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
38397679 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
38397694 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:38398893 original size:9 final size:9
Alignment explanation
Indices: 38398879--38398914 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
38398869 GACTCGTGAA
38398879 AAAAAAATC
1 AAAAAAATC
38398888 AAAAAAAAATC
1 --AAAAAAATC
38398899 AAAAAAATC
1 AAAAAAATC
38398908 AAAAAAA
1 AAAAAAA
38398915 ATTGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
11 9 0.36
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:38398894 original size:12 final size:11
Alignment explanation
Indices: 38398877--38398925 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
38398867 TAGACTCGTG
38398877 AAAAAAAAATC
1 AAAAAAAAATC
38398888 AAAAAAAAATC
1 AAAAAAAAATC
38398899 --AAAAAAATC
1 AAAAAAAAATC
* *
38398908 AAAAAAAATTG
1 AAAAAAAAATC
38398919 AAAAAAA
1 AAAAAAA
38398926 GAAAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 9 0.26
11 25 0.74
ACGTcount: A:0.82, C:0.06, G:0.02, T:0.10
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:38398904 original size:20 final size:20
Alignment explanation
Indices: 38398879--38398925 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
38398869 GACTCGTGAA
38398879 AAAAAAATCAAAAAAAAATC
1 AAAAAAATCAAAAAAAAATC
* *
38398899 AAAAAAATCAAAAAAAATTG
1 AAAAAAATCAAAAAAAAATC
38398919 AAAAAAA
1 AAAAAAA
38398926 GAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAAAATCAAAAAAAAATC
Found at i:38417804 original size:12 final size:12
Alignment explanation
Indices: 38417782--38417848 Score: 64
Period size: 12 Copynumber: 5.2 Consensus size: 12
38417772 AGACCGTATG
38417782 CAATATTTTTTTT
1 CAAT-TTTTTTTT
38417795 CAATTTTTTTTCTTTT
1 CAA---TTTTT-TTTT
*
38417811 CGATTTTTTTTT
1 CAATTTTTTTTT
*
38417823 -GATTTTTTTTT
1 CAATTTTTTTTT
38417834 CAATTTTTTTTT
1 CAATTTTTTTTT
38417846 CAA
1 CAA
38417849 AACTACAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
11 11 0.23
12 17 0.36
13 8 0.17
15 4 0.09
16 7 0.15
ACGTcount: A:0.16, C:0.09, G:0.03, T:0.72
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:38417816 original size:16 final size:15
Alignment explanation
Indices: 38417787--38417822 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
38417777 GTATGCAATA
38417787 TTTTTTTTCAATTTT
1 TTTTTTTTCAATTTT
*
38417802 TTTTCTTTTCGATTTT
1 TTTT-TTTTCAATTTT
38417818 TTTTT
1 TTTTT
38417823 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTTTCAATTTT
Found at i:38417821 original size:11 final size:11
Alignment explanation
Indices: 38417802--38417844 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
38417792 TTTCAATTTT
38417802 TTTTCTTTTCGA
1 TTTT-TTTTCGA
*
38417814 TTTTTTTTTGA
1 TTTTTTTTCGA
*
38417825 TTTTTTTTTCAA
1 -TTTTTTTTCGA
38417837 TTTTTTTT
1 TTTTTTTT
38417845 TCAAAACTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 14 0.52
12 13 0.48
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:38417828 original size:23 final size:23
Alignment explanation
Indices: 38417802--38417845 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38417792 TTTCAATTTT
*
38417802 TTTTCTTTTCGATTTTTTTTTGA
1 TTTTCTTTTCAATTTTTTTTTGA
*
38417825 TTTTTTTTTCAATTTTTTTTT
1 TTTTCTTTTCAATTTTTTTTT
38417846 CAAAACTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTCAATTTTTTTTTGA
Found at i:38421632 original size:29 final size:29
Alignment explanation
Indices: 38421588--38421660 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
38421578 TTAGATATTA
* * *
38421588 TTAAATATGTCTTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
38421617 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
38421646 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
38421661 ACTAATACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:38426768 original size:11 final size:11
Alignment explanation
Indices: 38426738--38426771 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
38426728 GAAGAGCCAT
38426738 ATGGTGTGAAC
1 ATGGTGTGAAC
*
38426749 ATGG-CTGAAC
1 ATGGTGTGAAC
38426759 ATGGTGTGAAC
1 ATGGTGTGAAC
38426770 AT
1 AT
38426772 CTTTATGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:38428978 original size:11 final size:11
Alignment explanation
Indices: 38428962--38429001 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
38428952 TAGACTCGTG
*
38428962 AAAAAAAAATA
1 AAAAAAAAATC
38428973 AAAAAAAAATC
1 AAAAAAAAATC
*
38428984 GAAAAAAAATC
1 AAAAAAAAATC
38428995 AAAAAAA
1 AAAAAAA
38429002 TTGTATACGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:38439288 original size:15 final size:14
Alignment explanation
Indices: 38439268--38439301 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
38439258 TTTCTCTTCC
*
38439268 TTTTTTTCGAATTT
1 TTTTTTTCAAATTT
38439282 GTTTTTTTCAAATTT
1 -TTTTTTTCAAATTT
38439297 TTTTT
1 TTTTT
38439302 CGAAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTTTTCAAATTT
Done.