Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 79 of 105
Found at i:13831288 original size:23 final size:23
Alignment explanation
Indices: 13831241--13831405 Score: 108
Period size: 23 Copynumber: 7.2 Consensus size: 23
13831231 TTTTTGAATA
* *
13831241 TGAATTTTT--GAATCTTGGATG
1 TGAATTTTTAAGACTCTTAGATG
* *
13831262 TGAATTTTTAGGACTTTTAGATG
1 TGAATTTTTAAGACTCTTAGATG
* *
13831285 TGAATCTTTAAGACTACTTGGATG
1 TGAATTTTTAAGACT-CTTAGATG
* * * *
13831309 TGAATCTCTAAAATTTCTCTAG-TG
1 TGAATTTTTAAGA-CTCT-TAGATG
*
13831333 TGAATTTTT--GAATCTT-GTATG
1 TGAATTTTTAAGACTCTTAG-ATG
13831354 TGAATTTTTAAGACTCTTAGATG
1 TGAATTTTTAAGACTCTTAGATG
* * * *
13831377 TGAATATTTAAAATTGCTTGGATG
1 TGAATTTTTAAGACT-CTTAGATG
13831401 TGAAT
1 TGAAT
13831406 CTCTAAGATT
Statistics
Matches: 113, Mismatches: 20, Indels: 19
0.74 0.13 0.12
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 23 0.20
22 1 0.01
23 43 0.38
24 41 0.36
25 3 0.03
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.44
Consensus pattern (23 bp):
TGAATTTTTAAGACTCTTAGATG
Found at i:13831289 original size:92 final size:92
Alignment explanation
Indices: 13831190--13831416 Score: 285
Period size: 92 Copynumber: 2.5 Consensus size: 92
13831180 TGAATCTTGA
* * *
13831190 ATGTGAATCTTTAAGACTACTTGTATATAAATCTCTGAAATTT-TTTGAATATGAATTTTTGAAT
1 ATGTGAATCTTTAAGACTACTTGGATATAAATCTCTAAAATTTCTCT-AATATGAATTTTTGAAT
* *
13831254 CTTGGATGTGAATTTTTAGGACTTTTAG
65 CTTGGATGTGAATTTTTAAGACTCTTAG
* * * *
13831282 ATGTGAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATTTCTCTAGTGTGAATTTTTGAATC
1 ATGTGAATCTTTAAGACTACTTGGATATAAATCTCTAAAATTTCTCTAATATGAATTTTTGAATC
*
13831347 TTGTATGTGAATTTTTAAGACTCTTAG
66 TTGGATGTGAATTTTTAAGACTCTTAG
* * * * * * *
13831374 ATGTGAATATTTAAAATTGCTTGGATGTGAATCTCTAAGATTT
1 ATGTGAATCTTTAAGACTACTTGGATATAAATCTCTAAAATTT
13831417 TTGAATGTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
92 117 0.98
93 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (92 bp):
ATGTGAATCTTTAAGACTACTTGGATATAAATCTCTAAAATTTCTCTAATATGAATTTTTGAATC
TTGGATGTGAATTTTTAAGACTCTTAG
Found at i:13831313 original size:137 final size:137
Alignment explanation
Indices: 13831058--13831313 Score: 284
Period size: 137 Copynumber: 1.9 Consensus size: 137
13831048 CTTAGATGCA
* * * *
13831058 AATCTTTAAGACTATTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAA
1 AATCTTTAAGACTACTTGGATATAAATCTCTAAAATATCTCTAATATGAATTTTTGAATATTGAA
* ** * *
13831123 TGTGAATCTTTTTGAATCTTAGATATGAATCTCTAAAATTTTTTGAGTTTGAATTTTTGAATCTT
66 TGTGAATCTTTTGGAATCTTAGATATGAATCTCTAAAATACTTGGAGTGTGAATTTTTGAATCTT
13831188 GAATGTG
131 GAATGTG
* * * * * *
13831195 AATCTTTAAGACTACTTGTATATAAATCTCTGAAAT-TTTTTGAATATGAATTTTTGAATCTTGG
1 AATCTTTAAGACTACTTGGATATAAATCTCTAAAATATCTCT-AATATGAATTTTTGAATATTGA
* * * * *
13831259 ATGTGAAT-TTTTAGGACTTTTAGATGTGAATCTTTAAGACTACTTGGA-TGTGAAT
65 ATGTGAATCTTTT-GGAATCTTAGATATGAATCTCTAA-AATACTTGGAGTGTGAAT
13831314 CTCTAAAATT
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
136 7 0.07
137 83 0.86
138 6 0.06
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (137 bp):
AATCTTTAAGACTACTTGGATATAAATCTCTAAAATATCTCTAATATGAATTTTTGAATATTGAA
TGTGAATCTTTTGGAATCTTAGATATGAATCTCTAAAATACTTGGAGTGTGAATTTTTGAATCTT
GAATGTG
Found at i:13831475 original size:321 final size:321
Alignment explanation
Indices: 13830906--13831485 Score: 718
Period size: 321 Copynumber: 1.8 Consensus size: 321
13830896 TGAATCTTTA
* ***
13830906 AAATTTTTCTAATTTGAATTTTTGAATCTTAAATGTGAATTTTTTTTAATCTTAGATGTAAATCT
1 AAATTTTTCTAATATGAATTTTTGAATCTTAAATGTGAATTTTTAGGAATCTTAGATGTAAATCT
* *
13830971 TTAAGACTGCTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTTTTAAATCTTGGATGTGA
66 TTAAGACTACTTGGATGTGAATCTATAAAATTTCTCAAATGTGAATTTTTAAATCTTGGATGTGA
* * * *
13831036 ATTATTAGGACTCTTAGATGCAAATCTTTAAGACTATTTGGATGTGAATCTCTAAAATATCTCTA
131 ATTATTAAGACTCTTAGATGCAAATATTTAAAACTACTTGGATGTGAATCTCTAAAATATCTCTA
** * ** *
13831101 ATGTGAATTTTTGAATATTGAATGTGAATCTTTTTGAATCTTAGATATGAATCTCTAAAATTTTT
196 ATGTGAACCTTTGAATATTGAATGTGAATCTATAAGAATCTTAAATATGAATCTCTAAAATTTTT
13831166 TGAGTTTGAATTTTTGAATCTTGAATGTGAATCTTTAAGACTACTTGTATATAAATCTCTG
261 TGAGTTTGAATTTTTGAATCTTGAATGTGAATCTTTAAGACTACTTGTATATAAATCTCTG
** * * *
13831227 AAATTTTT-TGAATATGAATTTTTGAATCTTGGATGTGAATTTTTAGGACTTTTAGATGTGAATC
1 AAATTTTTCT-AATATGAATTTTTGAATCTTAAATGTGAATTTTTAGGAATCTTAGATGTAAATC
* * * * *
13831291 TTTAAGACTACTTGGATGTGAATCTCTAAAATTTCTCTAGTGTGAATTTTTGAATCTTGTATGTG
65 TTTAAGACTACTTGGATGTGAATCTATAAAATTTCTCAAATGTGAATTTTTAAATCTTGGATGTG
* ** * * * *
13831356 AATTTTTAAGACTCTTAGATGTGAATATTTAAAATTGCTTGGATGTGAATCTCTAAGAT-T-TTT
130 AATTATTAAGACTCTTAGATGCAAATATTTAAAACTACTTGGATGTGAATCTCTAAAATATCTCT
* * * * * * * * *
13831419 GAATGTTAACCTTTGAAT-TTTAGATTTTAATCTATAAGATTTTTTAAATGTGAATCTTTGAAAT
195 -AATGTGAACCTTTGAATATTGA-ATGTGAATCTATAAGA-ATCTTAAATATGAATCTCTAAAAT
13831483 TTT
257 TTT
13831486 GGATGGGAAT
Statistics
Matches: 213, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
319 5 0.02
320 27 0.13
321 181 0.85
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (321 bp):
AAATTTTTCTAATATGAATTTTTGAATCTTAAATGTGAATTTTTAGGAATCTTAGATGTAAATCT
TTAAGACTACTTGGATGTGAATCTATAAAATTTCTCAAATGTGAATTTTTAAATCTTGGATGTGA
ATTATTAAGACTCTTAGATGCAAATATTTAAAACTACTTGGATGTGAATCTCTAAAATATCTCTA
ATGTGAACCTTTGAATATTGAATGTGAATCTATAAGAATCTTAAATATGAATCTCTAAAATTTTT
TGAGTTTGAATTTTTGAATCTTGAATGTGAATCTTTAAGACTACTTGTATATAAATCTCTG
Found at i:13831490 original size:229 final size:227
Alignment explanation
Indices: 13830990--13831495 Score: 565
Period size: 229 Copynumber: 2.2 Consensus size: 227
13830980 CTTGGATGTG
* *
13830990 AATCTATAAAATTTTTCAAATGTGAATTTTTAAATCTTGGATGTGAATTATTAGGACTCTTAGAT
1 AATCTAT-AAATTTTTTAAATGTGAATTTTGAAATCTTGGATGTGAATTATTAGGACTCTTAGAT
*
13831055 GCAAATCTTTAAGACTATTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATT
65 GCAAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATT
* * * * * **
13831120 GAATGTGAATCTTTTTGAATCTTAGATATGAATCTCTAAAATTTTTTGAGTTTGAATTTTTGAAT
130 GAATGTGAATCTTTTAGAATCTTAGATATGAATATCTAAAATTCTTGGAGTGTGAATTTAAGAAT
* *
13831185 CTTGAATGTGAATCTTTAAGACTACTTGTATATA
195 CTTGAATGTGAACCTTT-AGAATACTTGTATATA
* * * * *
13831219 AATCTCTGAAATTTTTTGAATATGAATTTTTG-AATCTTGGATGTGAATTTTTAGGACTTTTAGA
1 AATCTAT-AAATTTTTTAAATGTGAA-TTTTGAAATCTTGGATGTGAATTATTAGGACTCTTAGA
** * * *
13831283 TGTGAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATTTCTCTAGTGTGAATTTTTGAATCT
64 TGCAAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATAT
* * * *
13831348 TGTATGTGAAT-TTTTAAGACTCTTAGATGTGAATATTTAAAATTGCTTGGA-TGTGAATCTCTA
129 TGAATGTGAATCTTTT-AGAATCTTAGATATGAATATCTAAAATT-CTTGGAGTGTGAAT-T-TA
* * * * * *
13831411 AGATTTTTGAATGTTAACCTTT-GAAT-TTTAG-ATTTT
190 AGAATCTTGAATGTGAACCTTTAGAATACTT-GTATATA
* *
13831447 AATCTATAAGATTTTTTAAATGTGAATCTTTGAAATTTTGGATGGGAAT
1 AATCTATAA-ATTTTTTAAATGTGAAT-TTTGAAATCTTGGATGTGAAT
13831496 CTCATTTTCA
Statistics
Matches: 230, Mismatches: 38, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
227 3 0.01
228 33 0.14
229 167 0.73
230 9 0.04
231 18 0.08
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (227 bp):
AATCTATAAATTTTTTAAATGTGAATTTTGAAATCTTGGATGTGAATTATTAGGACTCTTAGATG
CAAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTG
AATGTGAATCTTTTAGAATCTTAGATATGAATATCTAAAATTCTTGGAGTGTGAATTTAAGAATC
TTGAATGTGAACCTTTAGAATACTTGTATATA
Found at i:13831632 original size:16 final size:16
Alignment explanation
Indices: 13831579--13831638 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
13831569 AATTATTTGC
*
13831579 GAATCTTTACAATTGC
1 GAATCTTTACAATTGT
* *
13831595 GTATCTTTGCAGTCATTTGT
1 GAATCTTT--A--CAATTGT
13831615 GAATCTTTACAATTGT
1 GAATCTTTACAATTGT
13831631 GAATCTTT
1 GAATCTTT
13831639 GAAATTTACG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 21 0.60
18 2 0.06
20 12 0.34
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (16 bp):
GAATCTTTACAATTGT
Found at i:13831644 original size:16 final size:16
Alignment explanation
Indices: 13831611--13831672 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 16
13831601 TTGCAGTCAT
13831611 TTGTGAATCTTT-ACAA
1 TTGTGAATCTTTGA-AA
13831627 TTGTGAATCTTTGAAA
1 TTGTGAATCTTTGAAA
*
13831643 TT-TACGAATCTTTGAATCT
1 TTGT--GAATCTTTGAA--A
13831662 TTGTGAATCTT
1 TTGTGAATCTT
13831673 GAATCTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 16 0.41
17 12 0.31
18 7 0.18
19 2 0.05
20 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (16 bp):
TTGTGAATCTTTGAAA
Found at i:13831671 original size:18 final size:18
Alignment explanation
Indices: 13831630--13831695 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
13831620 TTTACAATTG
*
13831630 TGAATCTTTGAA-ATTTA
1 TGAATCTTTGAATCTTTA
* *
13831647 CGAATCTTTGAATCTTTG
1 TGAATCTTTGAATCTTTA
13831665 TGAATC-TTGAATCTTTTA
1 TGAATCTTTGAATC-TTTA
13831683 TGAATCTTTGAAT
1 TGAATCTTTGAAT
13831696 TTTTTGCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 18 0.44
18 17 0.41
19 6 0.15
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (18 bp):
TGAATCTTTGAATCTTTA
Found at i:13831699 original size:18 final size:18
Alignment explanation
Indices: 13831630--13831699 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
13831620 TTTACAATTG
*
13831630 TGAATCTTTGAA-ATTTA
1 TGAATCTTTGAATTTTTA
* * *
13831647 CGAATCTTTGAATCTTTG
1 TGAATCTTTGAATTTTTA
13831665 TGAATC-TTGAATCTTTTA
1 TGAATCTTTGAAT-TTTTA
13831683 TGAATCTTTGAATTTTT
1 TGAATCTTTGAATTTTT
13831700 TGCTAATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 17 0.39
18 21 0.48
19 6 0.14
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (18 bp):
TGAATCTTTGAATTTTTA
Found at i:13832004 original size:22 final size:22
Alignment explanation
Indices: 13831979--13832037 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
13831969 GGGATCCTTG
13831979 ATTTCAGATTGCAAATAGTTGAA
1 ATTTCAGATTGCAAAT-GTTGAA
* * * *
13832002 TTTTTAG-TTGTAAATTTTGAA
1 ATTTCAGATTGCAAATGTTGAA
13832023 ATTTCA-ATTGCAAAT
1 ATTTCAGATTGCAAAT
13832038 TACGAATCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
21 16 0.57
22 7 0.25
23 5 0.18
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (22 bp):
ATTTCAGATTGCAAATGTTGAA
Found at i:13834468 original size:2 final size:2
Alignment explanation
Indices: 13834461--13834506 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
13834451 TGGTGTTTGT
13834461 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13834501 TA TA TA
1 TA TA TA
13834507 ATTTTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13834491 original size:23 final size:23
Alignment explanation
Indices: 13834461--13834506 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13834451 TGGTGTTTGT
*
13834461 TATATATATATATTATATATATA
1 TATATATATATATAATATATATA
13834484 TATATATATATATAATATATATA
1 TATATATATATATAATATATATA
13834507 ATTTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATATATATATAATATATATA
Found at i:13834660 original size:11 final size:12
Alignment explanation
Indices: 13834633--13834665 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13834623 GAAAAATAAT
13834633 TTTTTAAATTTA
1 TTTTTAAATTTA
13834645 TTTTTAAATTTA
1 TTTTTAAATTTA
*
13834657 TTTTCAAAT
1 TTTTTAAAT
13834666 GCATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTAAATTTA
Found at i:13835598 original size:3 final size:3
Alignment explanation
Indices: 13835590--13835619 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13835580 AAGTTTTCTA
13835590 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13835620 TTGTAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13839580 original size:21 final size:19
Alignment explanation
Indices: 13839555--13839604 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
13839545 ATAATATAAG
*
13839555 AAATTAAAATTAATTAAAAGT
1 AAATTAAAATT-ATGAAAA-T
13839576 AAATTTAAAATTATGAAAAT
1 AAA-TTAAAATTATGAAAAT
13839596 ATAATTAAA
1 A-AATTAAA
13839605 CGAGTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATTAAAATTATGAAAAT
Found at i:13840252 original size:20 final size:20
Alignment explanation
Indices: 13840212--13840251 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
13840202 CCTCCCAATC
13840212 ATATATAATATTATATTATA
1 ATATATAATATTATATTATA
13840232 ATATAT-ATA-TATATT-TA
1 ATATATAATATTATATTATA
13840249 ATA
1 ATA
13840252 AGATTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 3 0.15
20 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATAATATTATATTATA
Found at i:13844741 original size:15 final size:16
Alignment explanation
Indices: 13844708--13844798 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 16
13844698 GTCATTCAGT
13844708 AAAA-TAAATGAATAATA
1 AAAATTAAAT-AA-AATA
13844725 AAAATT-AATAAAATAAA
1 AAAATTAAATAAAAT--A
13844742 AAAATTGGAAATAAAATAAA
1 AAAATT--AAATAAAAT--A
*
13844762 AAAACTTAAA-ATAATA
1 AAAA-TTAAATAAAATA
13844778 AAAATTAAATTAAAATA
1 AAAATTAAA-TAAAATA
13844795 AAAA
1 AAAA
13844799 AAAAATCTAC
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
15 8 0.13
16 7 0.11
17 23 0.37
18 5 0.08
19 3 0.05
20 15 0.24
21 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATTAAATAAAATA
Found at i:13844760 original size:35 final size:34
Alignment explanation
Indices: 13844708--13844800 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 34
13844698 GTCATTCAGT
*
13844708 AAAA-TAAATGAATAATAAAAATTAA-TAAAATAA-A
1 AAAATTAAATTAA-AATAAAAA--AACTAAAATAATA
13844742 AAAATTGGAAA-TAAAATAAAAAAACTTAAAATAATA
1 AAAATT--AAATTAAAATAAAAAAAC-TAAAATAATA
13844778 AAAATTAAATTAAAATAAAAAAA
1 AAAATTAAATTAAAATAAAAAAA
13844801 AAATCTACGA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
33 2 0.04
34 7 0.14
35 30 0.59
36 9 0.18
37 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (34 bp):
AAAATTAAATTAAAATAAAAAAACTAAAATAATA
Found at i:13844773 original size:20 final size:19
Alignment explanation
Indices: 13844718--13844803 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
13844708 AAAATAAATG
13844718 AATAATAAAAATT--AATAA
1 AATAA-AAAAATTAAAATAA
*
13844736 AATAAAAAAATTGGAAATAA
1 AATAAAAAAATT-AAAATAA
13844756 AATAAAAAAACTTAAAATAA
1 AATAAAAAAA-TTAAAATAA
*
13844776 TAA-AAATTAAATTAAAATAA
1 -AATAAA-AAAATTAAAATAA
13844796 AA-AAAAAA
1 AATAAAAAA
13844804 TCTACGATTG
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.12
18 7 0.12
19 5 0.08
20 33 0.56
21 7 0.12
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAAAAAAATTAAAATAA
Found at i:13845605 original size:3 final size:3
Alignment explanation
Indices: 13845597--13845659 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
13845587 AGAAAATGAA
*
13845597 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ATAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
*
13845642 AAT AGT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT A
13845660 TACTATGATA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 3 0.06
3 49 0.92
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13845721 original size:21 final size:22
Alignment explanation
Indices: 13845597--13845723 Score: 105
Period size: 24 Copynumber: 5.5 Consensus size: 22
13845587 AGAAAATGAA
13845597 AATAATAATAATAATAATAATAAT
1 AATAATAAT-ATAAT-ATAATAAT
*
13845621 AATAATAAATATAGTAATAATAAT
1 AATAAT-AATATAAT-ATAATAAT
* *
13845645 AGTAATAATATAATATACT-AT
1 AATAATAATATAATATAATAAT
* *
13845666 GATAATGATATAATATCATATACAGT
1 AATAATAATATAATAT-A-ATA-A-T
* *
13845692 AATAGTAATATAATATAGTAAT
1 AATAATAATATAATATAATAAT
13845714 AAT-ATAATAT
1 AATAATAATAT
13845724 GCTATACTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
21 21 0.25
22 9 0.11
23 9 0.11
24 26 0.31
25 5 0.06
26 14 0.17
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
AATAATAATATAATATAATAAT
Found at i:13845729 original size:21 final size:21
Alignment explanation
Indices: 13845643--13845739 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
13845633 AGTAATAATA
13845643 ATAGTAATAATATAATATACT
1 ATAGTAATAATATAATATACT
*
13845664 AT-GATAATGATATAATAT-C-
1 ATAG-TAATAATATAATATACT
*
13845683 ATA-TACAGTAATAGTAATATAAT
1 ATAGTA-A-TAATA-TAATATACT
*
13845706 ATAGTAATAATATAATATGCT
1 ATAGTAATAATATAATATACT
*
13845727 ATACTATATAATA
1 ATAGTA-ATAATA
13845740 ACATACTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 6 0.10
21 33 0.54
22 11 0.18
23 4 0.07
24 2 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
ATAGTAATAATATAATATACT
Found at i:13846006 original size:55 final size:55
Alignment explanation
Indices: 13845948--13846329 Score: 197
Period size: 55 Copynumber: 6.9 Consensus size: 55
13845938 ACAAGTTAAG
* *
13845948 AAAATGATTTGAATGGAGCCAAGATCGAACGATCAAGATTGAATCGCAAGTTTGGA
1 AAAATGATTTGGATGGAGTCAAGATCGAACGATCAAGATTGAATCGCAAGTTT-GA
* * * * * * *
13846004 AAACTGACTTGGATTGAGTCAAGGTCAAACGAT-TAGAATT-AA-C-CATAGGTCTGA
1 AAAATGATTTGGATGGAGTCAAGATCGAACGATCAAG-ATTGAATCGCA-A-GTTTGA
* * * * * *
13846058 AAAATGATTTGGGTGGAGTTAAGATTGAATGATCGAGATTGAATTGCAAGTTTGA
1 AAAATGATTTGGATGGAGTCAAGATCGAACGATCAAGATTGAATCGCAAGTTTGA
** ** * * * * ** * *
13846113 AAAATGATCCGGACAGATTTAAGATCAAATGATCGGGATTGAATCGTAAGTCTGA
1 AAAATGATTTGGATGGAGTCAAGATCGAACGATCAAGATTGAATCGCAAGTTTGA
* * * * *
13846168 AAAATGATTTGGATGGAATCAAGATCGAAC-AACTAAGAATGAACCACAAGTTTGA
1 AAAATGATTTGGATGGAGTCAAGATCGAACGATC-AAGATTGAATCGCAAGTTTGA
* * * * * * * **
13846223 AAAATTGACTTGGACT-GTGTCAAGGTCAAATGACCAAGATT-AAACTTTAAGTTTGA
1 AAAA-TGATTTGGA-TGGAGTCAAGATCGAACGATCAAGATTGAATC-GCAAGTTTGA
* * * * *
13846279 AAAATGATTT-GAGTAGAGCCAAGATCGAATGACCAGGATTGAA-CAGCAAGT
1 AAAATGATTTGGA-TGGAGTCAAGATCGAACGATCAAGATTGAATC-GCAAGT
13846330 CTAAAAAACT
Statistics
Matches: 242, Mismatches: 70, Indels: 29
0.71 0.21 0.09
Matches are distributed among these distances:
53 2 0.01
54 36 0.15
55 132 0.55
56 67 0.28
57 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (55 bp):
AAAATGATTTGGATGGAGTCAAGATCGAACGATCAAGATTGAATCGCAAGTTTGA
Found at i:13859102 original size:15 final size:15
Alignment explanation
Indices: 13859060--13859102 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
13859050 TGTAAGTTAT
*
13859060 TATTATTATTGTTGT
1 TATTATTATTGTTGC
* *
13859075 TGTTATTGTTGTTGC
1 TATTATTATTGTTGC
*
13859090 TATTATTACTGTT
1 TATTATTATTGTT
13859103 ATTATCTTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.63
Consensus pattern (15 bp):
TATTATTATTGTTGC
Found at i:13860744 original size:16 final size:15
Alignment explanation
Indices: 13860726--13860782 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
13860716 TAAGTCATTT
13860726 AATAAAATAAATGAA
1 AATAAAATAAATGAA
* *
13860741 TAATAAAAATTAGT-AA
1 -AAT-AAAATAAATGAA
* *
13860757 AATAAAAAAAATGGA
1 AATAAAATAAATGAA
13860772 AATAAAATAAA
1 AATAAAATAAA
13860783 AATAAAAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
16 5 0.16
17 7 0.22
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AATAAAATAAATGAA
Found at i:13861272 original size:21 final size:21
Alignment explanation
Indices: 13861234--13861273 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13861224 AACCCAATCT
*
13861234 AAACCCAAAAATTTCAAAATG
1 AAACCCAAAAATTACAAAATG
13861255 AAACCC-AAAATTCACAAAA
1 AAACCCAAAAATT-ACAAAA
13861274 GCCAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.60, C:0.23, G:0.03, T:0.15
Consensus pattern (21 bp):
AAACCCAAAAATTACAAAATG
Found at i:13861638 original size:31 final size:31
Alignment explanation
Indices: 13861590--13861648 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
13861580 AGAAAAAAAT
* *
13861590 ATAATATAATATAATATACTATGATAATGAG
1 ATAATATAATATAATATACAATAATAATGAG
* *
13861621 ATAATATCATATTATATACAATAATAAT
1 ATAATATAATATAATATACAATAATAAT
13861649 ATAATATAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (31 bp):
ATAATATAATATAATATACAATAATAATGAG
Found at i:13861655 original size:18 final size:18
Alignment explanation
Indices: 13861623--13861667 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
13861613 ATAATGAGAT
* *
13861623 AATATCATATTATAT-AC
1 AATATAATATAATATAAC
13861640 AATAATAATATAATATAAC
1 AAT-ATAATATAATATAAC
13861659 AATATAATA
1 AATATAATA
13861668 ATATTCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.67
19 5 0.21
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATAATATAATATAAC
Found at i:13861667 original size:5 final size:5
Alignment explanation
Indices: 13861587--13861657 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
13861577 GAGAGAAAAA
* * * * * *
13861587 AATAT AATAT AATAT AATAT ACTAT GATAAT GAGAT AATAT CATATT ATATAC
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATA-T A-ATAT
13861640 AATAAT AATAT AATAT AA
1 AAT-AT AATAT AATAT AA
13861658 CAATATAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
5 39 0.75
6 10 0.19
7 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:13861685 original size:20 final size:20
Alignment explanation
Indices: 13861629--13861702 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
13861619 AGATAATATC
*
13861629 ATATTATATAC-A-ATAATA
1 ATATAATATACTATATAATA
*
13861647 ATATAATATAACAATATAATA
1 ATATAATAT-ACTATATAATA
**
13861668 ATATTCTATACTATATAATA
1 ATATAATATACTATATAATA
* *
13861688 ACATACTATACTATA
1 ATATAATATACTATA
13861703 GAAAATCTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.17
19 2 0.04
20 24 0.51
21 13 0.28
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAATATACTATATAATA
Found at i:13871388 original size:15 final size:16
Alignment explanation
Indices: 13871352--13871389 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13871342 GAAAAAAATC
*
13871352 CTAAAACCTTGAAACT
1 CTAAAACCTTGAAACG
13871368 CT-AAACCTT-AAACG
1 CTAAAACCTTGAAACG
13871382 CTAAAACC
1 CTAAAACC
13871390 CAAAATCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 6 0.30
15 12 0.60
16 2 0.10
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (16 bp):
CTAAAACCTTGAAACG
Found at i:13875692 original size:16 final size:16
Alignment explanation
Indices: 13875673--13875703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13875663 TTTAAATGAA
*
13875673 TTTTTTTATTATTAGG
1 TTTTTTTATAATTAGG
13875689 TTTTTTTATAATTAG
1 TTTTTTTATAATTAG
13875704 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (16 bp):
TTTTTTTATAATTAGG
Found at i:13876934 original size:17 final size:17
Alignment explanation
Indices: 13876891--13876934 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
13876881 GTATTTAATA
*
13876891 TTTTATATAATAAGAAT
1 TTTTATATAATAACAAT
* *
13876908 TTATATATAATAACATT
1 TTTTATATAATAACAAT
*
13876925 TTTTAAATAA
1 TTTTATATAA
13876935 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTATATAATAACAAT
Found at i:13879134 original size:42 final size:41
Alignment explanation
Indices: 13879037--13879114 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
13879027 ATAAATAGGA
*
13879037 TAAT-TAATAACTTAGTAATTAATCATTGAAAATTTAAATG
1 TAATCTAATAACTTAGTAATTAATCATCGAAAATTTAAATG
* *
13879077 TAATCAATATAACTTAGTAA-TAATCATCGATAATTTAA
1 TAATCTA-ATAACTTAGTAATTAATCATCGAAAATTTAA
13879115 TAGTAAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 4 0.12
41 17 0.52
42 12 0.36
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.38
Consensus pattern (41 bp):
TAATCTAATAACTTAGTAATTAATCATCGAAAATTTAAATG
Found at i:13879350 original size:22 final size:22
Alignment explanation
Indices: 13879271--13879354 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
13879261 AACAAAGTGC
**
13879271 TAAATCAA-GAATAACTTAACAA
1 TAAATCAATG-ATAACTTAGTAA
* *
13879293 AAAAT-AAGTGATAACTTAGTAG
1 TAAATCAA-TGATAACTTAGTAA
* * * *
13879315 TTAATTATTAATAACTTAGTAA
1 TAAATCAATGATAACTTAGTAA
13879337 TAAATCAATGATAACTTA
1 TAAATCAATGATAACTTA
13879355 ATAGCAAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
21 2 0.04
22 42 0.91
23 2 0.04
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (22 bp):
TAAATCAATGATAACTTAGTAA
Found at i:13879365 original size:44 final size:44
Alignment explanation
Indices: 13879281--13879387 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
13879271 TAAATCAAGA
* * * **
13879281 ATAACTTAACAAAAAAT-AAGTGATAACTTAGTAGTTAATTA-TT
1 ATAACTTAATAATAAATCAA-TGATAACTTAATAGCAAATTAGTT
*
13879324 AATAACTTAGTAATAAATCAATGATAACTTAATAGCAAATTAGTT
1 -ATAACTTAATAATAAATCAATGATAACTTAATAGCAAATTAGTT
* *
13879369 ATAATTTAATAGTAAATCA
1 ATAACTTAATAATAAATCA
13879388 GTTTTAGTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 48 0.92
45 4 0.08
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAATAAATCAATGATAACTTAATAGCAAATTAGTT
Found at i:13879390 original size:22 final size:22
Alignment explanation
Indices: 13879337--13879405 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
13879327 AACTTAGTAA
* * *
13879337 TAAATCAATGATAACTTAATAG
1 TAAATCAGTTATAATTTAATAG
* *
13879359 CAAATTAGTTATAATTTAATAG
1 TAAATCAGTTATAATTTAATAG
* * *
13879381 TAAATCAGTTTTAGTTCAATAG
1 TAAATCAGTTATAATTTAATAG
13879403 TAA
1 TAA
13879406 TTAATTGATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAATCAGTTATAATTTAATAG
Found at i:13879445 original size:22 final size:21
Alignment explanation
Indices: 13879414--13879483 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
13879404 AATTAATTGA
*
13879414 TAGTAATAAATAATAAATAATT
1 TAGTAGTAAATAAT-AATAATT
* *
13879436 TAGTAGTAAATTAATTATAAAT
1 TAGTAGTAAA-TAATAATAATT
**
13879458 TAACAGTAAATAATTAATAATT
1 TAGTAGTAAATAA-TAATAATT
13879480 TAGT
1 TAGT
13879484 TGTTATTCAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 3 0.08
22 30 0.81
23 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (21 bp):
TAGTAGTAAATAATAATAATT
Found at i:13879468 original size:44 final size:45
Alignment explanation
Indices: 13879420--13879533 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 45
13879410 TTGATAGTAA
13879420 TAAATAATAAATAATTTAGTAGTAAATTAATT-ATAAATTAAC-AG
1 TAAATAATAAATAATTTAGTAGTAAATTAATTGA-AAATTAACAAG
* * * * *
13879464 TAAATAATTAATAATTTAGTTGT-TATTCATTGAAAATTTACAAG
1 TAAATAATAAATAATTTAGTAGTAAATTAATTGAAAATTAACAAG
*
13879508 TAAAT--TAATATAATTTAGTAATAAAT
1 TAAATAATAA-ATAATTTAGTAGTAAAT
13879534 CATTAATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.04
43 24 0.42
44 31 0.54
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (45 bp):
TAAATAATAAATAATTTAGTAGTAAATTAATTGAAAATTAACAAG
Found at i:13879776 original size:22 final size:22
Alignment explanation
Indices: 13879743--13879821 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
13879733 AATTTAAGAA
13879743 AAATTAAGTGATAACTTAGTAAT
1 AAATTAA-TGATAACTTAGTAAT
* *
13879766 TAATTATTGATAACTTAGTAAT
1 AAATTAATGATAACTTAGTAAT
* * *
13879788 AAATTAAGGATAACTTAATAGT
1 AAATTAATGATAACTTAGTAAT
*
13879810 AAATTAGTGATA
1 AAATTAATGATA
13879822 TTTATAAGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.37
Consensus pattern (22 bp):
AAATTAATGATAACTTAGTAAT
Found at i:13880001 original size:22 final size:21
Alignment explanation
Indices: 13879976--13880208 Score: 103
Period size: 22 Copynumber: 10.7 Consensus size: 21
13879966 CAATGATGAC
13879976 TTAATAGTAAATTATGAATAAT
1 TTAATAGTAAATTATG-ATAAT
* *
13879998 TTAATA-TAAATCAATGATAAC
1 TTAATAGTAAAT-TATGATAAT
* * *
13880019 TTGATAATAATTTATGATTAAT
1 TTAATAGTAAATTATGA-TAAT
** * *
13880041 TTTGTAATAAATCTGTGATAAT
1 TTAATAGTAAAT-TATGATAAT
** * *
13880063 TTTGTAGTAAATAATCGA-AAA
1 TTAATAGTAAATTAT-GATAAT
* *
13880084 CTAAGTAGTAAATTAATGATAAC
1 TTAA-TAGTAAATT-ATGATAAT
* *
13880107 ATAATAGTAAATTATTGATATT
1 TTAATAGTAAATTA-TGATAAT
*
13880129 TTAGATA-TAAATTATTGATAAC
1 TTA-ATAGTAAATTA-TGATAAT
* * *
13880151 TTAGTAGTAAATCACTAATAAT
1 TTAATAGTAAATTA-TGATAAT
* * *
13880173 TTAGTTGTAAATAAGTGATAAT
1 TTAATAGTAAATTA-TGATAAT
* *
13880195 TTAGTAATAAATTA
1 TTAATAGTAAATTA
13880209 GTTAATAATT
Statistics
Matches: 163, Mismatches: 37, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
21 25 0.15
22 124 0.76
23 14 0.09
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (21 bp):
TTAATAGTAAATTATGATAAT
Found at i:13880017 original size:21 final size:22
Alignment explanation
Indices: 13879888--13880164 Score: 111
Period size: 22 Copynumber: 12.7 Consensus size: 22
13879878 ATCTTAAAAC
*
13879888 ACTTAATAGTAAATGAATGATA
1 ACTTAATAGTAAATCAATGATA
** * * * * *
13879910 TTTTAGTAGTTAATCATTAAAA
1 ACTTAATAGTAAATCAATGATA
* *
13879932 ATTTAAAAGTAAATCAA--ATA
1 ACTTAATAGTAAATCAATGATA
* * *
13879952 ACTTAATTGTTAATCAATGATG
1 ACTTAATAGTAAATCAATGATA
*
13879974 ACTTAATAGTAAAT-TATGAATA
1 ACTTAATAGTAAATCAATG-ATA
*
13879996 ATTTAATA-TAAATCAATGATA
1 ACTTAATAGTAAATCAATGATA
* * **
13880017 ACTTGATAAT-AATTTATGATTA
1 ACTTAATAGTAAATCAATGA-TA
* ** * **
13880039 ATTTTGTAATAAATCTGTGATA
1 ACTTAATAGTAAATCAATGATA
* ** *
13880061 ATTTTGTAGTAAAT-AATCGAAA
1 ACTTAATAGTAAATCAAT-GATA
*
13880083 AC-TAAGTAGTAAATTAATGATA
1 ACTTAA-TAGTAAATCAATGATA
* * *
13880105 ACATAATAGTAAATTATTGATA
1 ACTTAATAGTAAATCAATGATA
** * *
13880127 TTTTAGATA-TAAATTATTGATA
1 ACTTA-ATAGTAAATCAATGATA
*
13880149 ACTTAGTAGTAAATCA
1 ACTTAATAGTAAATCA
13880165 CTAATAATTT
Statistics
Matches: 192, Mismatches: 50, Indels: 26
0.72 0.19 0.10
Matches are distributed among these distances:
20 15 0.08
21 28 0.15
22 133 0.69
23 16 0.08
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ACTTAATAGTAAATCAATGATA
Found at i:13880176 original size:44 final size:44
Alignment explanation
Indices: 13879969--13880368 Score: 165
Period size: 44 Copynumber: 8.9 Consensus size: 44
13879959 TGTTAATCAA
* * * *
13879969 TGATGACTTAATAGTAAATTATGAATAATTTA-ATATAAATCAA
1 TGATAACTTAATAGTAAATTATTAATAATTTAGATATAAATTAT
* * * * * * *
13880012 TGATAACTTGATAATAATTTATGATTAATTTTG-TAATAAATCT-G
1 TGATAACTTAATAGTAAATTATTAATAATTTAGAT-ATAAAT-TAT
* ** * * * * *
13880056 TGATAATTTTGTAGTAAATAATCGAA-AACTAAG-TAGTAAATTAA
1 TGATAACTTAATAGTAAATTAT-TAATAATTTAGATA-TAAATTAT
* * *
13880100 TGATAACATAATAGTAAATTATTGATATTTTAGATATAAATTAT
1 TGATAACTTAATAGTAAATTATTAATAATTTAGATATAAATTAT
* * * * * * *
13880144 TGATAACTTAGTAGTAAATCACTAATAATTTAGTTGTAAATAAG
1 TGATAACTTAATAGTAAATTATTAATAATTTAGATATAAATTAT
* * * * *
13880188 TGATAATTTAGTAATAAATTAGTTAATAATTAATAATTTTATAATAAATCAT
1 TGATAACTTAATAGTAAATTA-TTAATAATT--T-A---GAT-ATAAATTAT
* * *
13880240 TGATAAATTAATAGTAAATTAGTT-ATAACTTTATA-ACAAATTAT
1 TGATAACTTAATAGTAAATTA-TTAATAA-TTTAGATATAAATTAT
* * * *
13880284 T-AGTAACTTAGTAGTAAATCATCAATAATTTA-ATAGTAAATCAAT
1 TGA-TAACTTAATAGTAAATTATTAATAATTTAGATA-TAAAT-TAT
* * *
13880329 CG-TAACTTAATAGTAAATTATTCATAAATTAG-TAATAAAT
1 TGATAACTTAATAGTAAATTATTAATAATTTAGAT-ATAAAT
13880369 CAATGTTAAT
Statistics
Matches: 266, Mismatches: 66, Indels: 49
0.70 0.17 0.13
Matches are distributed among these distances:
42 1 0.00
43 37 0.14
44 173 0.65
45 15 0.06
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 5 0.02
52 29 0.11
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.40
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTATTAATAATTTAGATATAAATTAT
Found at i:13880245 original size:22 final size:22
Alignment explanation
Indices: 13880220--13880487 Score: 123
Period size: 22 Copynumber: 12.2 Consensus size: 22
13880210 TTAATAATTA
* *
13880220 ATAATTTTATAATAAATCATTG
1 ATAATTTAATAGTAAATCATTG
* *
13880242 ATAAATTAATAGTAAATTAGTT-
1 ATAATTTAATAGTAAATCA-TTG
** *
13880264 ATAACTTT-ATAACAAATTATT-
1 ATAA-TTTAATAGTAAATCATTG
* * **
13880285 AGTAACTTAGTAGTAAATCATCA
1 A-TAATTTAATAGTAAATCATTG
*
13880308 ATAATTTAATAGTAAATCAATCG
1 ATAATTTAATAGTAAATC-ATTG
* * *
13880331 -TAACTTAATAGTAAATTATTC
1 ATAATTTAATAGTAAATCATTG
* * * *
13880352 ATAAATTAGTAATAAATCAATG
1 ATAATTTAATAGTAAATCATTG
* ** *
13880374 TTAATTTTGTAGTAAATCATCG
1 ATAATTTAATAGTAAATCATTG
* * *
13880396 ATAATTTAACAATATATCATTG
1 ATAATTTAATAGTAAATCATTG
* * * *
13880418 GTAAATTAATAGTAAACCACTG
1 ATAATTTAATAGTAAATCATTG
* * * *
13880440 ATAATATAATGGTAAAGT-AATA
1 ATAATTTAATAGTAAA-TCATTG
* * *
13880462 ATAACTTAATTGTCAATCATTG
1 ATAATTTAATAGTAAATCATTG
13880484 ATAA
1 ATAA
13880488 ATTTTTTAAA
Statistics
Matches: 178, Mismatches: 59, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
21 8 0.04
22 162 0.91
23 8 0.04
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTG
Found at i:13880249 original size:30 final size:30
Alignment explanation
Indices: 13880190--13880252 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
13880180 TAAATAAGTG
*
13880190 ATAATTTAGTAATAAATTAGTTAATAATTA
1 ATAATTTAGTAATAAATCAGTTAATAATTA
*
13880220 ATAATTTTA-TAATAAATCA-TTGATAAATTA
1 ATAA-TTTAGTAATAAATCAGTTAAT-AATTA
13880250 ATA
1 ATA
13880253 GTAAATTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 21 0.72
31 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (30 bp):
ATAATTTAGTAATAAATCAGTTAATAATTA
Found at i:13880344 original size:11 final size:11
Alignment explanation
Indices: 13880243--13880348 Score: 54
Period size: 11 Copynumber: 9.6 Consensus size: 11
13880233 AAATCATTGA
13880243 TAAATTAATAG
1 TAAATTAATAG
*
13880254 TAAATTAGTTA-
1 TAAATTA-ATAG
* * *
13880265 TAACTTTATAA
1 TAAATTAATAG
* *
13880276 CAAATTATTAG
1 TAAATTAATAG
* *
13880287 TAACTTAGTAG
1 TAAATTAATAG
* *
13880298 TAAA-TCATCAA
1 TAAATTAAT-AG
*
13880309 TAATTTAATAG
1 TAAATTAATAG
* *
13880320 TAAATCAATCG
1 TAAATTAATAG
*
13880331 TAACTTAATAG
1 TAAATTAATAG
13880342 TAAATTA
1 TAAATTA
13880349 TTCATAAATT
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
10 4 0.06
11 56 0.86
12 5 0.08
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
TAAATTAATAG
Found at i:13880379 original size:66 final size:66
Alignment explanation
Indices: 13880229--13880471 Score: 170
Period size: 66 Copynumber: 3.7 Consensus size: 66
13880219 AATAATTTTA
* * * * * * *
13880229 TAATAAATCATTGATAAATTAATAGTAAATTAGTTATAACTTTATAACAAATTATTAGTAACTTA
1 TAATAAATCAATGATAATTTAATAGTAAATCAATCATAACTTAATAACAAATTATTAGTAAATTA
13880294 G
66 G
* * * **
13880295 TAGTAAATC-ATCAATAATTTAATAGTAAATCAATCGTAACTTAATAGTAAATTATTCA-TAAAT
1 TAATAAATCAAT-GATAATTTAATAGTAAATCAATCATAACTTAATAACAAATTATT-AGTAAAT
13880358 TAG
64 TAG
* ** * * * * * *
13880361 TAATAAATCAATGTTAATTTTGTAGTAAATC-ATCGATAATTTAACAATATATCATTGGTAAATT
1 TAATAAATCAATGATAATTTAATAGTAAATCAATC-ATAACTTAATAACAAATTATTAGTAAATT
*
13880425 AA
65 AG
* * * * * *
13880427 TAGTAAACCACTGATAATATAATGGTAAAGT-AATAATAACTTAAT
1 TAATAAATCAATGATAATTTAATAGTAAA-TCAATCATAACTTAAT
13880472 TGTCAATCAT
Statistics
Matches: 134, Mismatches: 36, Indels: 14
0.73 0.20 0.08
Matches are distributed among these distances:
65 4 0.03
66 124 0.93
67 6 0.04
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (66 bp):
TAATAAATCAATGATAATTTAATAGTAAATCAATCATAACTTAATAACAAATTATTAGTAAATTA
G
Found at i:13882074 original size:43 final size:42
Alignment explanation
Indices: 13882027--13882108 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
13882017 CATAAGTTAT
*
13882027 TAAAAAATTACTAAAATTACACTAA-AAGGTTACTAAAATTTTA
1 TAAAAAATTACAAAAATTACA-TAACAA-GTTACTAAAATTTTA
*
13882070 TAAAAAATTACAAAAATTATATAACAAGTTACTAAAATT
1 TAAAAAATTACAAAAATTACATAACAAGTTACTAAAATT
13882109 ATATTGAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (42 bp):
TAAAAAATTACAAAAATTACATAACAAGTTACTAAAATTTTA
Found at i:13882143 original size:21 final size:21
Alignment explanation
Indices: 13882024--13882142 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
13882014 TATCATAAGT
*
13882024 TATTAAAAAATTACTAAAATTA
1 TATT-AAAAGTTACTAAAATTA
* * *
13882046 CACTAAAAGGTTACTAAAATTT
1 TATTAAAA-GTTACTAAAATTA
* * *
13882068 TATAAAAAATTACAAAAATTA
1 TATTAAAAGTTACTAAAATTA
13882089 TA-TAACAAGTTACTAAAATTA
1 TATTAA-AAGTTACTAAAATTA
* * * *
13882110 TATTGAAGGTTATTAAAATTT
1 TATTAAAAGTTACTAAAATTA
13882131 TATTAAAAGTTA
1 TATTAAAAGTTA
13882143 TCAAAATCAA
Statistics
Matches: 75, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.03
21 53 0.71
22 20 0.27
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (21 bp):
TATTAAAAGTTACTAAAATTA
Found at i:13884531 original size:17 final size:17
Alignment explanation
Indices: 13884509--13884541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13884499 TGATAAGATA
13884509 AAATAAAATAATATTAT
1 AAATAAAATAATATTAT
*
13884526 AAATAAAATTATATTA
1 AAATAAAATAATATTA
13884542 AATAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAAATAATATTAT
Found at i:13884531 original size:27 final size:27
Alignment explanation
Indices: 13884501--13884552 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13884491 ATAAAATATG
*
13884501 ATAAGATAAAATAAAATAATATTATAA
1 ATAAAATAAAATAAAATAATATTATAA
* * *
13884528 ATAAAATTATATTAAATAATATTAT
1 ATAAAATAAAATAAAATAATATTAT
13884553 TTTGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
ATAAAATAAAATAAAATAATATTATAA
Found at i:13887075 original size:24 final size:23
Alignment explanation
Indices: 13887031--13887086 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
13887021 TTAAAAACAA
13887031 AAAATTA-TAAATATTAAATTTT
1 AAAATTATTAAATATTAAATTTT
* *
13887053 AGAATTATTAAAGTATTATATTTT
1 AAAATTATTAAA-TATTAAATTTT
*
13887077 AAAATAATTA
1 AAAATTATTA
13887087 TATTAATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 18 0.64
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
AAAATTATTAAATATTAAATTTT
Found at i:13892261 original size:3 final size:3
Alignment explanation
Indices: 13892255--13892281 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13892245 AATAATAATA
13892255 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
13892282 GTTTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:13892324 original size:18 final size:19
Alignment explanation
Indices: 13892283--13892324 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
13892273 ATGATGATGG
13892283 TTTAATTAAAATTAAAAAA
1 TTTAATTAAAATTAAAAAA
* * *
13892302 ATTAATT-AATTTAAAAAT
1 TTTAATTAAAATTAAAAAA
13892320 TTTAA
1 TTTAA
13892325 AAAGAAGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAATTAAAATTAAAAAA
Found at i:13893961 original size:11 final size:11
Alignment explanation
Indices: 13893947--13893971 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13893937 TTTAATATAT
13893947 TAATAATAAAA
1 TAATAATAAAA
13893958 TAATAATAAAA
1 TAATAATAAAA
13893969 TAA
1 TAA
13893972 AACTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:13894037 original size:15 final size:15
Alignment explanation
Indices: 13894017--13894067 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
13894007 AAATTAAAGT
13894017 CCTAAAACCTCAAAC
1 CCTAAAACCTCAAAC
* *
13894032 CCTAAAA-TTCAAAT
1 CCTAAAACCTCAAAC
* *
13894046 CTTAAAACCTCCAAC
1 CCTAAAACCTCAAAC
*
13894061 CTTAAAA
1 CCTAAAA
13894068 TTCAAATAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTAAAACCTCAAAC
Found at i:13894081 original size:29 final size:29
Alignment explanation
Indices: 13893997--13894074 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
13893987 CCCTACATCA
13893997 TCCAACCCTAAAATT-AAAGTCCTAAAACC
1 TCCAACCCTAAAATTCAAA-TCCTAAAACC
* *
13894026 TCAAACCCTAAAATTCAAATCTTAAAACC
1 TCCAACCCTAAAATTCAAATCCTAAAACC
*
13894055 TCCAACCTTAAAATTCAAAT
1 TCCAACCCTAAAATTCAAAT
13894075 AGTAAAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (29 bp):
TCCAACCCTAAAATTCAAATCCTAAAACC
Found at i:13894240 original size:30 final size:29
Alignment explanation
Indices: 13894077--13894241 Score: 127
Period size: 29 Copynumber: 5.7 Consensus size: 29
13894067 ATTCAAATAG
* *
13894077 TAAAATCAAAATCCTAAACCTCCAAACCC
1 TAAAATCAAAATCTTAAACCTTCAAACCC
* ** ** **
13894106 TTAAATTGAAATCCCAAACC-TCAAACTA
1 TAAAATCAAAATCTTAAACCTTCAAACCC
* * *
13894134 TAAAATCAAAACTCTAAAACCTTCAAATCT
1 TAAAATCAAAA-TCTTAAACCTTCAAACCC
* *
13894164 TAAAATCAAAATCCTAAACCTTAAAACCC
1 TAAAATCAAAATCTTAAACCTTCAAACCC
* ** *
13894193 -AGAATCGGAACCTTAAACCTTTCAAACCC
1 TAAAATCAAAATCTTAAACC-TTCAAACCC
*
13894222 TAAAATCAAAGTCTTAAACC
1 TAAAATCAAAATCTTAAACC
13894242 CCAAACTCTG
Statistics
Matches: 101, Mismatches: 31, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
28 27 0.27
29 44 0.44
30 30 0.30
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.22
Consensus pattern (29 bp):
TAAAATCAAAATCTTAAACCTTCAAACCC
Found at i:13906850 original size:34 final size:35
Alignment explanation
Indices: 13906812--13906898 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 35
13906802 TCACCACTCA
* *
13906812 ATCTTTATTTTTTGACTTACGGTTTAATCCTGAT-
1 ATCTTTATTTTTTGACTCACGGTTCAATCCTGATC
* * * *
13906846 ATCTTTATTTTCTAACTCACGGTTCAATTCTTATC
1 ATCTTTATTTTTTGACTCACGGTTCAATCCTGATC
*
13906881 ATCGTTATTTTTTGACTC
1 ATCTTTATTTTTTGACTC
13906899 GTAGTTTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 28 0.65
35 15 0.35
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (35 bp):
ATCTTTATTTTTTGACTCACGGTTCAATCCTGATC
Found at i:13907220 original size:36 final size:36
Alignment explanation
Indices: 13907179--13907253 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
13907169 GTCTTTATTC
* * * *
13907179 TTTAACTCGCAATTTAATCTCAGTCATTTTTATTTT
1 TTTAACTCACAATTTAATCCCAATCACTTTTATTTT
* *
13907215 TTTAACTTACGATTTAATCCCAATCACTTTTATTTT
1 TTTAACTCACAATTTAATCCCAATCACTTTTATTTT
13907251 TTT
1 TTT
13907254 GACTTGTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.04, T:0.53
Consensus pattern (36 bp):
TTTAACTCACAATTTAATCCCAATCACTTTTATTTT
Found at i:13907317 original size:107 final size:107
Alignment explanation
Indices: 13907027--13907323 Score: 315
Period size: 107 Copynumber: 2.8 Consensus size: 107
13907017 ATGCTAGTCG
* * * * *
13907027 CTTTTATTTTTTTGACTCACTGTTCAATCTCAGTCATCATTATTCTCTGACTCGCAGTTTAATCC
1 CTTTTATTTTTTTGACTTATTGTTCAATCTCAGCCGTCATTATTCTTTGACTCGCAGTTTAATCC
* ** * * * **
13907092 CGGTCATTTTTGCTTTTCTAACTTGCGATTTTATCCTAATTG
66 CAGTCATTTTTATTTTTCTAACTTACGATTTAATCCCAATCA
* * * * * * * * *
13907134 TTTTTATTTTTTTGACTTATGGATCAGTCCCAGCCGTCTTTATTCTTTAACTCGCAATTTAATCT
1 CTTTTATTTTTTTGACTTATTGTTCAATCTCAGCCGTCATTATTCTTTGACTCGCAGTTTAATCC
*
13907199 CAGTCATTTTTATTTTTTTAACTTACGATTTAATCCCAATCA
66 CAGTCATTTTTATTTTTCTAACTTACGATTTAATCCCAATCA
* * * * *
13907241 CTTTTATTTTTTTGACTTGTTGTTCAATCTTAGCCGTCGTTAATCTTTGACTCACAGTTTAATCC
1 CTTTTATTTTTTTGACTTATTGTTCAATCTCAGCCGTCATTATTCTTTGACTCGCAGTTTAATCC
***
13907306 CAGTTGCTTTTATTTTTC
66 CAGTCATTTTTATTTTTC
13907324 CCAATTGCTT
Statistics
Matches: 150, Mismatches: 40, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
107 150 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (107 bp):
CTTTTATTTTTTTGACTTATTGTTCAATCTCAGCCGTCATTATTCTTTGACTCGCAGTTTAATCC
CAGTCATTTTTATTTTTCTAACTTACGATTTAATCCCAATCA
Found at i:13907331 original size:19 final size:19
Alignment explanation
Indices: 13907303--13907342 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13907293 CACAGTTTAA
*
13907303 TCCCAGTTGCTTTTATTTT
1 TCCCAATTGCTTTTATTTT
13907322 TCCCAATTGCTTTTATTTT
1 TCCCAATTGCTTTTATTTT
13907341 TC
1 TC
13907343 TGACTTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.07, T:0.57
Consensus pattern (19 bp):
TCCCAATTGCTTTTATTTT
Found at i:13907430 original size:71 final size:71
Alignment explanation
Indices: 13907341--13907489 Score: 181
Period size: 71 Copynumber: 2.1 Consensus size: 71
13907331 CTTTTATTTT
* * * * * * *
13907341 TCTGACTTGTGGTTTAATCCCAATTGCTTTTATTTTTTTGACTTGCGATTTAGTCCCTGCCGTCG
1 TCTGACTTGCGGTTTAATCCCAATCGCTTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCG
*
13907406 TTAATC
66 TAAATC
** * * *
13907412 TCTGACTTGCGGTTTAATCGTAGTCGTTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCG
1 TCTGACTTGCGGTTTAATCCCAATCGCTTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCG
13907477 TAAATC
66 TAAATC
13907483 TCTGACT
1 TCTGACT
13907490 CATGATTTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (71 bp):
TCTGACTTGCGGTTTAATCCCAATCGCTTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCG
TAAATC
Found at i:13907499 original size:71 final size:71
Alignment explanation
Indices: 13907368--13907518 Score: 176
Period size: 71 Copynumber: 2.1 Consensus size: 71
13907358 TCCCAATTGC
* * * * * * ** *
13907368 TTTTATTTTTTTGACTTGCGATTTAGTCCCTGCCGTCGTTAATCTCTGACTTGCGGTTTAATCGT
1 TTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCGTAAATCTCTGACTCACGATTTAATCGT
*
13907433 AGTCGT
66 AGTCAT
* * *
13907439 TTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGTAAATCTCTGACTCATGATTTAATCTT
1 TTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCGTAAATCTCTGACTCACGATTTAATCGT
*
13907504 GGTCAT
66 AGTCAT
13907510 TTTTATTTT
1 TTTTATTTT
13907519 CTTGACTTGT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (71 bp):
TTTTATTTTTCTAACTTACGATTCAGTCCCAGCCGTCGTAAATCTCTGACTCACGATTTAATCGT
AGTCAT
Found at i:13907535 original size:107 final size:107
Alignment explanation
Indices: 13907414--13907769 Score: 347
Period size: 107 Copynumber: 3.3 Consensus size: 107
13907404 CGTTAATCTC
* * * * *
13907414 TGACTTGCGGTTTAATCGTAGTCGTTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGTA
1 TGACTTGTGATTTAATCCTAGTCGCTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGTT
* * **
13907479 AATCTCTGACTCATGATTTAATCTTGGTCATTTTTATTTTCT
66 AATCTCTGACTCACGATTTAATCCTAATCATTTTTATTTTCT
* * * * * * * * *
13907521 TGACTTGTGATTTAATCCTAATCACTTTTATTTTTCTAACTTGCAGTACAGTCACTGCTGTCATT
1 TGACTTGTGATTTAATCCTAGTCGCTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGTT
* *
13907586 AATCTCTGACTCGCGGTTTAATCCTAATCATTTTTATTTTCT
66 AATCTCTGACTCACGATTTAATCCTAATCATTTTTATTTTCT
* * * * * * *
13907628 TAACTTGCT-ATTTAATCCTAGTCGCTTTTATTTTTTTGACTTACGGATCAGTTCGAGCCATCGT
1 TGACTTG-TGATTTAATCCTAGTCGCTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGT
* * ** * * *
13907692 TAATCTCTAATTCGTGGTTTAATCCTAATTATTTATATTTTTCT
65 TAATCTCTGACTCACGATTTAATCCTAATCATTTTTA-TTTTCT
** *
13907736 T-ACTCATGGTTTAATCCTAGTCGCTTTTATTTTT
1 TGACTTGTGATTTAATCCTAGTCGCTTTTATTTTT
13907770 TTGACTTGCC
Statistics
Matches: 202, Mismatches: 44, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
106 1 0.00
107 193 0.96
108 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (107 bp):
TGACTTGTGATTTAATCCTAGTCGCTTTTATTTTTCTAACTTACGGTTCAGTCCCAGCCGTCGTT
AATCTCTGACTCACGATTTAATCCTAATCATTTTTATTTTCT
Found at i:13907563 original size:36 final size:36
Alignment explanation
Indices: 13907492--13907563 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
13907482 CTCTGACTCA
* ** * *
13907492 TGATTTAATCTTGGTCATTTTTATTTTCTTGACTTG
1 TGATTTAATCCTAATCACTTTTATTTTCTTAACTTG
13907528 TGATTTAATCCTAATCACTTTTATTTT-TCTAACTTG
1 TGATTTAATCCTAATCACTTTTATTTTCT-TAACTTG
13907564 CAGTACAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.56
Consensus pattern (36 bp):
TGATTTAATCCTAATCACTTTTATTTTCTTAACTTG
Found at i:13908094 original size:3 final size:3
Alignment explanation
Indices: 13908086--13908119 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13908076 AATTCTTGTT
13908086 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13908120 GGTTTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13909648 original size:29 final size:28
Alignment explanation
Indices: 13909602--13909698 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
13909592 ATCTTCCAAC
* **
13909602 CCTAAAATTGAAGTCCTAAAACCTTAAA
1 CCTAAAATTAAAACCCTAAAACCTTAAA
* * *
13909630 CTCTAAAATTTAAACCCTAAAATCTCAAA
1 C-CTAAAATTAAAACCCTAAAACCTTAAA
* *
13909659 CCATAAAGTCAAAACCCTAAAACCTTCAAA
1 CC-TAAAATTAAAACCCTAAAACCTT-AAA
13909689 CCCTAAAATT
1 -CCTAAAATT
13909699 GATATCCCAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 2 0.04
29 41 0.77
30 8 0.15
31 2 0.04
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (28 bp):
CCTAAAATTAAAACCCTAAAACCTTAAA
Found at i:13909665 original size:15 final size:15
Alignment explanation
Indices: 13909573--13909756 Score: 91
Period size: 14 Copynumber: 12.6 Consensus size: 15
13909563 TAAAATAAAT
*
13909573 CCTAAAATC-AAAAC
1 CCTAAAATCTCAAAC
* *
13909587 CCT-ACATCTTCCAAC
1 CCTAAAATC-TCAAAC
* **
13909602 CCTAAAAT-TGAAGT
1 CCTAAAATCTCAAAC
* *
13909616 CCTAAAACCTTAAAC
1 CCTAAAATCTCAAAC
* *
13909631 TCTAAAAT-TTAAAC
1 CCTAAAATCTCAAAC
13909645 CCTAAAATCTCAAAC
1 CCTAAAATCTCAAAC
* * *
13909660 CATAAAGTC-AAAAC
1 CCTAAAATCTCAAAC
*
13909674 CCTAAAACCTTCAAAC
1 CCTAAAATC-TCAAAC
* *
13909690 CCTAAAAT-TGATATC
1 CCTAAAATCTCA-AAC
13909705 CC--AAATCTCAAAC
1 CCTAAAATCTCAAAC
* *
13909718 CCCAAAATC-AAAAC
1 CCTAAAATCTCAAAC
13909732 CCT-AAATCCTCATAAC
1 CCTAAAAT-CTCA-AAC
13909748 CCTAAAATC
1 CCTAAAATC
13909757 AAAGTCCTAA
Statistics
Matches: 124, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
13 16 0.13
14 46 0.37
15 37 0.30
16 21 0.17
17 4 0.03
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (15 bp):
CCTAAAATCTCAAAC
Found at i:13909678 original size:58 final size:57
Alignment explanation
Indices: 13909616--13909755 Score: 165
Period size: 58 Copynumber: 2.4 Consensus size: 57
13909606 AAATTGAAGT
* * * *
13909616 CCTAAAACCTTAAACTCTAAAATTTA-AACCCTAAAATCTCAAACCATAAAGTCAAAAC
1 CCTAAAACCTTAAACCCTAAAATTGATAACCC--AAATCTCAAACCACAAAATCAAAAC
* *
13909674 CCTAAAACCTTCAAACCCTAAAATTGATATCCCAAATCTCAAACCCCAAAATCAAAAC
1 CCTAAAACCTT-AAACCCTAAAATTGATAACCCAAATCTCAAACCACAAAATCAAAAC
* *
13909732 CCTAAATCCTCATAACCCTAAAAT
1 CCTAAAACCTTA-AACCCTAAAAT
13909756 CAAAGTCCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
57 1 0.01
58 53 0.75
59 13 0.18
60 4 0.06
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.21
Consensus pattern (57 bp):
CCTAAAACCTTAAACCCTAAAATTGATAACCCAAATCTCAAACCACAAAATCAAAAC
Found at i:13909725 original size:87 final size:88
Alignment explanation
Indices: 13909575--13909769 Score: 209
Period size: 87 Copynumber: 2.2 Consensus size: 88
13909565 AAATAAATCC
* * * * * * *
13909575 TAAAATCAAAACCCTACATCTTCCAACCCTAAAATTGAAGTCCTAAAACCTTAAACTCTAAAATT
1 TAAAATCAAAACCCTAAACCTTCAAACCCTAAAATTGAAGTCCTAAAACCTCAAACCCCAAAATC
*
13909640 TAAACCCTAAAAT-CTCA-AACCA
66 AAAACCCT-AAATCCTCATAACCA
* * *
13909662 TAAAGTCAAAACCCTAAAACCTTCAAACCCTAAAATTGATA-TCC-CAAATCTCAAACCCCAAAA
1 TAAAATCAAAACCCT-AAACCTTCAAACCCTAAAATTGA-AGTCCTAAAACCTCAAACCCCAAAA
*
13909725 TCAAAACCCTAAATCCTCATAACCC
64 TCAAAACCCTAAATCCTCATAACCA
**
13909750 TAAAATCAAAGTCCTAAACC
1 TAAAATCAAAACCCTAAACC
13909770 CCAAACTCTG
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
86 4 0.04
87 45 0.51
88 39 0.44
89 1 0.01
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.22
Consensus pattern (88 bp):
TAAAATCAAAACCCTAAACCTTCAAACCCTAAAATTGAAGTCCTAAAACCTCAAACCCCAAAATC
AAAACCCTAAATCCTCATAACCA
Found at i:13911534 original size:24 final size:24
Alignment explanation
Indices: 13911502--13911555 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
13911492 TTTCAAAAGA
13911502 AGCAAACCTGATTCCAGCACTTAT
1 AGCAAACCTGATTCCAGCACTTAT
13911526 AGCAAACCTGATTCCAGCACTTAT
1 AGCAAACCTGATTCCAGCACTTAT
13911550 AGCAAA
1 AGCAAA
13911556 TCTTTTAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (24 bp):
AGCAAACCTGATTCCAGCACTTAT
Found at i:13915623 original size:40 final size:40
Alignment explanation
Indices: 13915568--13915644 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
13915558 AACTATTCTG
*
13915568 TAAAATGACCTTTATTGAAA-TAGTTTTATCACCTGTTCCA
1 TAAAATAACCTTTATTGAAACT-GTTTTATCACCTGTTCCA
13915608 TAAAATAACCTTTATTGAAACTGTTTTATCACCTGTT
1 TAAAATAACCTTTATTGAAACTGTTTTATCACCTGTT
13915645 TTAACTTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (40 bp):
TAAAATAACCTTTATTGAAACTGTTTTATCACCTGTTCCA
Found at i:13915741 original size:15 final size:16
Alignment explanation
Indices: 13915721--13915751 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13915711 TTTGCCCCAT
13915721 GTATAAGAA-TTCTTA
1 GTATAAGAAGTTCTTA
13915736 GTATAAGAAGTTCTTA
1 GTATAAGAAGTTCTTA
13915752 TGCATTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
GTATAAGAAGTTCTTA
Found at i:13916075 original size:36 final size:36
Alignment explanation
Indices: 13916030--13916121 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
13916020 AAGTAAGTAA
* *
13916030 TAAACATGTTTCCTTAAAAAATA-GTAGAATACATAAT
1 TAAA-ATGTTTCCTTAAAAAATAGGT-GAACAAATAAT
*
13916067 TAAAATGTTTCCTTACAAAATAGGTGAACAAATAAT
1 TAAAATGTTTCCTTAAAAAATAGGTGAACAAATAAT
* * *
13916103 GAGAATGTTTCTTTAAAAA
1 TAAAATGTTTCCTTAAAAA
13916122 TTGGAAAAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
36 41 0.87
37 6 0.13
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (36 bp):
TAAAATGTTTCCTTAAAAAATAGGTGAACAAATAAT
Found at i:13916192 original size:49 final size:47
Alignment explanation
Indices: 13916132--13916329 Score: 195
Period size: 49 Copynumber: 4.1 Consensus size: 47
13916122 TTGGAAAAAG
* * * *
13916132 TAAAAGGAATAGGTAATGGTAGTATTTTCTTAAAAGATAAAAAACATAT
1 TAAAAGGAATAGATAATGG-AGTATTTCCCTAAAAAATAAAAAA-ATAT
* *
13916181 TAAAAGGAATAGATAAAT-GAGTGTTTCCCTAAAAAATAGAAAAAT-T
1 TAAAAGGAATAGAT-AATGGAGTATTTCCCTAAAAAATAAAAAAATAT
* * *
13916227 GCTAAAAGAAATAGATAATGGAAGTATTTACCTAAAAAATAAAAAAATTAC
1 --TAAAAGGAATAGATAATGG-AGTATTTCCCTAAAAAATAAAAAAA-TAT
* * *
13916278 TATAATGAATAGGTAATGAGAGTATTTCCCT-AAAAATAAAAAAATAT
1 TAAAAGGAATAGATAATG-GAGTATTTCCCTAAAAAATAAAAAAATAT
13916325 TAAAA
1 TAAAA
13916330 AAAAGTAATA
Statistics
Matches: 123, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
46 1 0.01
47 11 0.09
48 46 0.37
49 60 0.49
50 5 0.04
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (47 bp):
TAAAAGGAATAGATAATGGAGTATTTCCCTAAAAAATAAAAAAATAT
Found at i:13916288 original size:97 final size:96
Alignment explanation
Indices: 13916132--13916322 Score: 224
Period size: 97 Copynumber: 2.0 Consensus size: 96
13916122 TTGGAAAAAG
* * * * * * *
13916132 TAAAAGGAATAGGTAATGGTAGTATTTTCTTAAAAGATAAAAAACATATTAAAAGGAATAGATAA
1 TAAAAGAAATAGATAATGGAAGTATTTACCTAAAAAATAAAAAACATACTAAAAGGAATAGATAA
* *
13916197 -ATGAGTGTTTCCCTAAAAAATAGAAAAATTGC
66 TA-GAGTATTTCCCT-AAAAATAAAAAAATTGC
* * *
13916229 TAAAAGAAATAGATAATGGAAGTATTTACCTAAAAAATAAAAAA-ATTACTATAATGAATAGGTA
1 TAAAAGAAATAGATAATGGAAGTATTTACCTAAAAAATAAAAAACA-TACTAAAAGGAATAGATA
13916293 ATGAGAGTATTTCCCTAAAAATAAAAAAAT
65 AT-AGAGTATTTCCCTAAAAATAAAAAAAT
13916323 ATTAAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
96 1 0.01
97 66 0.84
98 11 0.14
99 1 0.01
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.27
Consensus pattern (96 bp):
TAAAAGAAATAGATAATGGAAGTATTTACCTAAAAAATAAAAAACATACTAAAAGGAATAGATAA
TAGAGTATTTCCCTAAAAATAAAAAAATTGC
Found at i:13919515 original size:2 final size:2
Alignment explanation
Indices: 13919508--13919532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13919498 TTATTCAATT
13919508 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13919533 TGTGGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13927299 original size:32 final size:32
Alignment explanation
Indices: 13927263--13927326 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
13927253 AAGTACAAAC
13927263 TCTTGTATCTTTTATTTACTCATTTTTACTTG
1 TCTTGTATCTTTTATTTACTCATTTTTACTTG
13927295 TCTTGTATCTTTTATTTACTCATTTTTACTTG
1 TCTTGTATCTTTTATTTACTCATTTTTACTTG
13927327 AAAACAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.62
Consensus pattern (32 bp):
TCTTGTATCTTTTATTTACTCATTTTTACTTG
Found at i:13932972 original size:6 final size:6
Alignment explanation
Indices: 13932961--13933004 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
13932951 AGAAATAAAT
*
13932961 AAATTA AAATTA AAATTAA AAATCA AAATTA ATATATTA AAATT
1 AAATTA AAATTA AAATT-A AAATTA AAATTA A-A-ATTA AAATT
13933005 TTTCATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 21 0.64
7 7 0.21
8 5 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:13932988 original size:19 final size:21
Alignment explanation
Indices: 13932961--13933002 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
13932951 AGAAATAAAT
*
13932961 AAATTAAAATTAA-A-ATTAA
1 AAATCAAAATTAATATATTAA
13932980 AAATCAAAATTAATATATTAA
1 AAATCAAAATTAATATATTAA
13933001 AA
1 AA
13933003 TTTTTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATCAAAATTAATATATTAA
Found at i:13941741 original size:37 final size:37
Alignment explanation
Indices: 13941700--13941771 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
13941690 CAATAACATC
* * * *
13941700 TAGCAAGCTAATCTAAGCCTTAAGAGATGGTTCTCCA
1 TAGCAAGCTAATCTAAACATAAAGAGATGCTTCTCCA
13941737 TAGCAAGCTAATCTAAACATAAAGAGATGCTTCTC
1 TAGCAAGCTAATCTAAACATAAAGAGATGCTTCTC
13941772 ATTATCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (37 bp):
TAGCAAGCTAATCTAAACATAAAGAGATGCTTCTCCA
Found at i:13942161 original size:30 final size:30
Alignment explanation
Indices: 13942127--13942188 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
13942117 TGTCAGCATA
13942127 TGGCTTAACATTGTAATTGTTTTAATCTTG
1 TGGCTTAACATTGTAATTGTTTTAATCTTG
13942157 TGGCTTAACATTGTAATTGTTTTAATCTTG
1 TGGCTTAACATTGTAATTGTTTTAATCTTG
13942187 TG
1 TG
13942189 AGGAAGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.50
Consensus pattern (30 bp):
TGGCTTAACATTGTAATTGTTTTAATCTTG
Found at i:13956591 original size:21 final size:20
Alignment explanation
Indices: 13956556--13956600 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13956546 TATACTTGAA
*
13956556 AAATGTATAAATTTATAT-CT
1 AAATATATAAATTTAT-TCCT
13956576 AAATATATATAATTTATTCCT
1 AAATATATA-AATTTATTCCT
13956597 AAAT
1 AAAT
13956601 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATATATAAATTTATTCCT
Found at i:13956955 original size:31 final size:31
Alignment explanation
Indices: 13956889--13956978 Score: 109
Period size: 30 Copynumber: 3.0 Consensus size: 31
13956879 ATTAATAAAA
*
13956889 TAAAAATTTT--AAT-TAATATGATACATATTT
1 TAAAAATTTTAAAATATAA-ATTATACAT-TTT
13956919 T-AAAATTTTAAAATATAAATTATACATTTT
1 TAAAAATTTTAAAATATAAATTATACATTTT
*
13956949 TAAAAA-TTTAAAATATAAATTATATATTTT
1 TAAAAATTTTAAAATATAAATTATACATTTT
13956979 ATTTATTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
29 8 0.15
30 28 0.52
31 15 0.28
32 3 0.06
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAAATTTTAAAATATAAATTATACATTTT
Found at i:13958288 original size:15 final size:15
Alignment explanation
Indices: 13958268--13958296 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13958258 AGTAGATAAG
13958268 AAATAATTAACTAAA
1 AAATAATTAACTAAA
13958283 AAATAATTAACTAA
1 AAATAATTAACTAA
13958297 TGTGAGTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAATTAACTAAA
Found at i:13964543 original size:24 final size:22
Alignment explanation
Indices: 13964487--13964543 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
13964477 TAGAGTTTTT
13964487 TTTTTTCTTTTTTTTTGCTTCA
1 TTTTTTCTTTTTTTTTGCTTCA
* *
13964509 TTTTTTCCTTTCTTTTTTTCTTACC
1 TTTTTT-CTTT-TTTTTTGCTT-CA
13964534 TTTTTTCTTT
1 TTTTTTCTTT
13964544 AGAGATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 4 0.13
24 13 0.43
25 7 0.23
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTGCTTCA
Found at i:13964594 original size:5 final size:5
Alignment explanation
Indices: 13964586--13964667 Score: 55
Period size: 5 Copynumber: 15.8 Consensus size: 5
13964576 TTTTTTTTTC
* *
13964586 AAAAT AAAAC CAAA- AAA-T AAAA- AAAGAT TAAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAA-T AAAAT AAAAT
13964631 -AAAT CAAAAT CAAGAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT --A-AAAT AAAAT AAAAT AAAAT AAAA
13964668 CTTGCGATCG
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
4 12 0.19
5 32 0.51
6 10 0.16
7 5 0.08
8 4 0.06
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:13964629 original size:10 final size:10
Alignment explanation
Indices: 13964616--13964667 Score: 61
Period size: 10 Copynumber: 4.9 Consensus size: 10
13964606 AAAAAGATTA
13964616 AAAATAAAAT
1 AAAATAAAAT
13964626 AAAAT-AAAT
1 AAAATAAAAT
13964635 CAAAATCAAGAAAT
1 -AAAAT--A-AAAT
13964649 AAAATAAAAT
1 AAAATAAAAT
13964659 AAAATAAAA
1 AAAATAAAA
13964668 CTTGCGATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 1 0.03
13 5 0.14
14 4 0.11
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:13965533 original size:3 final size:3
Alignment explanation
Indices: 13965525--13965550 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13965515 TAGAAAAAGA
13965525 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13965551 CATCTAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13965948 original size:118 final size:118
Alignment explanation
Indices: 13965730--13966538 Score: 701
Period size: 118 Copynumber: 6.9 Consensus size: 118
13965720 ATTAAATCAT
* * * * * *
13965730 GAGTCAAATGA-AGTAACCAGAACCAAGTCAAGGTTGAAAACAAATGATC-GGAGTA-AACCATG
1 GAGTCAAATGAGA-CAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGA-CAGAACCATG
* * * *
13965792 AATCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTGACTATGACGAAACCAT
64 AATCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGACGAAACCAC
*** * * * * * *
13965847 GAGTCAAATGAGGTGACCAGGATCAAGCCAAGATCAAGAATAAATGATCAGGACGGAACCACGAA
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAA
* * * * * *
13965912 TCATAAGTAATGATTTAGACTGAGCCCAGATTAAGTGATTGGGATGCAACCAC
66 TCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGACGAAACCAC
* * *
13965965 GAGTCAAATAAGACAACCAGGACCAAGTCAAGGTTGAGAATAAATGATCGGGACAGAACCATGAA
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAA
* * * * * *
13966030 TCATAAATAATGATCTGGACTGAGCCAAGATCAAGTGAC-CGAGCCAAAACCAC
66 TCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGACTAG-GACGAAACCAC
* * * ** * *
13966083 GAGTTAAATGAGACGACCAAGACTGAGTCAAGGTCGAGAATAAATGATCATGAC-GAAATCATGA
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAG-AACCATGA
* * * * * * *
13966147 ATCATAAGTAAT-ATCTT-GACTAAGCCAAAATTAAGTGA-TCGGAATGAAATCAT
65 ATCATAAGTAATGAT-TTAGACTGAGCCAAGATCAAGTGACTAGG-ACGAAACCAC
*** * *
13966200 GAGTCAAATGAGGTGACCAAGACCAAGTCAAGGTCGAGAATAAATGATCTA-GA-TGAAACCACT
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATC-AGGACAG-AACCA-T
* * * * * * * *
13966263 -AATCATAAGTAATGATCTAGATTAAGCTAAGATCAAGTGA-TCGGGACAAAATCGC
63 GAATCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGACT-AGGACGAAACCAC
* * * * * **
13966318 TAGTCAAATGAGATAACCAGGACCAAGTTAAGGTCAAGAATAAATGATCGGGACAGAACCACAAA
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAA
* * * *
13966383 TCATAAGTAATAATTT-GAACTGAGCCAAGATCAAGTGA-TCGAAATGAAACCAC
66 TCATAAGTAATGATTTAG-ACTGAGCCAAGATCAAGTGACTAG-GACGAAACCAC
* * * **
13966436 GAGTCAAATGAGGCAACCAGGATCGAGTCAAGGTCGAGAATAAATGATTGGGACAGAACCATGAA
1 GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAA
* *
13966501 TCATAAGTAATGATCTAGACTAAGCCAAGATCAAGTGA
66 TCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGA
13966539 GTTAATAATG
Statistics
Matches: 557, Mismatches: 115, Indels: 39
0.78 0.16 0.05
Matches are distributed among these distances:
116 1 0.00
117 135 0.24
118 417 0.75
119 4 0.01
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (118 bp):
GAGTCAAATGAGACAACCAGGACCAAGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAA
TCATAAGTAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGACGAAACCAC
Found at i:13966407 original size:353 final size:354
Alignment explanation
Indices: 13965755--13966538 Score: 925
Period size: 353 Copynumber: 2.2 Consensus size: 354
13965745 ACCAGAACCA
* * * * * * * *
13965755 AGTCAAGGTTGAAAACAAATGATC-GGAGTA-AACCATGAATCATAAGAAATGATTTGGACTGAG
1 AGTCAAGGTCGAGAATAAATGATCAGGA-CAGAACCATGAATCATAAGTAATGATCTAGACTAAG
* ** * * *
13965818 CCAAGATCAAGTGACTATG-ACGAAACCATGAGTCAAATGAGGTGACCAGGATCAAGCCAAGATC
65 CCAAAATCAAGTGA-TCGGAATGAAACCATGAGTCAAATGAGGTGACCAAGACCAAGCCAAGATC
* * * * *
13965882 AAGAATAAATGATCAGGACGGAACCACGAATCATAAGTAATGATTTAGACTGAGCCCAGATTAAG
129 AAGAATAAATGATCAGGACGAAACCACGAATCATAAGTAATGATCTAGACTAAGCCAAGATCAAG
* *** **
13965947 TGATTGGGATGCAACCACGAGTCAAATAAGACAACCAGGACCAAGTCAAGGTTGAGAATAAATGA
194 TGATCGGGACAAAACCACGAGTCAAATAAGACAACCAGGACCAAGTCAAGGTCAAGAATAAATGA
** * * **
13966012 TCGGGACAGAACCATGAATCATAAATAATGATCTGGACTGAGCCAAGATCAAGTGACCGAGCCAA
259 TCGGGACAGAACCACAAATCATAAATAATAATCTGAACTGAGCCAAGATCAAGTGACCGAAACAA
* *
13966077 AACCACGAGTTAAATGAGACGACCAAGA-CTG
324 AACCACGAGTCAAATGAGACAACCAAGATC-G
* * *
13966108 AGTCAAGGTCGAGAATAAATGATCATGAC-GAAATCATGAATCATAAGTAAT-ATCTTGACTAAG
1 AGTCAAGGTCGAGAATAAATGATCAGGACAG-AACCATGAATCATAAGTAATGATCTAGACTAAG
* * * * *
13966171 CCAAAATTAAGTGATCGGAATGAAATCATGAGTCAAATGAGGTGACCAAGACCAAGTCAAGGTCG
65 CCAAAATCAAGTGATCGGAATGAAACCATGAGTCAAATGAGGTGACCAAGACCAAGCCAAGATCA
* * * *
13966236 AGAATAAATGATCTA-GATGAAACCACTAATCATAAGTAATGATCTAGATTAAGCTAAGATCAAG
130 AGAATAAATGATC-AGGACGAAACCACGAATCATAAGTAATGATCTAGACTAAGCCAAGATCAAG
* * * * * *
13966300 TGATCGGGACAAAATCGCTAGTCAAATGAGATAACCAGGACCAAGTTAAGGTCAAGAATAAATGA
194 TGATCGGGACAAAACCACGAGTCAAATAAGACAACCAGGACCAAGTCAAGGTCAAGAATAAATGA
* * * **
13966365 TCGGGACAGAACCACAAATCATAAGTAATAATTTGAACTGAGCCAAGATCAAGTGATCGAAATGA
259 TCGGGACAGAACCACAAATCATAAATAATAATCTGAACTGAGCCAAGATCAAGTGACCGAAACAA
* *
13966430 AACCACGAGTCAAATGAGGCAACCAGGATCG
324 AACCACGAGTCAAATGAGACAACCAAGATCG
**
13966461 AGTCAAGGTCGAGAATAAATGATTGGGACAGAACCATGAATCATAAGTAATGATCTAGACTAAGC
1 AGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAATCATAAGTAATGATCTAGACTAAGC
*
13966526 CAAGATCAAGTGA
66 CAAAATCAAGTGA
13966539 GTTAATAATG
Statistics
Matches: 359, Mismatches: 64, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
352 2 0.01
353 311 0.87
354 46 0.13
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (354 bp):
AGTCAAGGTCGAGAATAAATGATCAGGACAGAACCATGAATCATAAGTAATGATCTAGACTAAGC
CAAAATCAAGTGATCGGAATGAAACCATGAGTCAAATGAGGTGACCAAGACCAAGCCAAGATCAA
GAATAAATGATCAGGACGAAACCACGAATCATAAGTAATGATCTAGACTAAGCCAAGATCAAGTG
ATCGGGACAAAACCACGAGTCAAATAAGACAACCAGGACCAAGTCAAGGTCAAGAATAAATGATC
GGGACAGAACCACAAATCATAAATAATAATCTGAACTGAGCCAAGATCAAGTGACCGAAACAAAA
CCACGAGTCAAATGAGACAACCAAGATCG
Found at i:13966668 original size:28 final size:28
Alignment explanation
Indices: 13966636--13966695 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
13966626 TTTCAAGCCT
* *
13966636 AGGCTCGATTTTGGCTCAATCGGGTTTC
1 AGGCTCGATTTTGACTCAATCGGGCTTC
* *
13966664 AGGCTCGATTTTGACTTAATTGGGCTTC
1 AGGCTCGATTTTGACTCAATCGGGCTTC
13966692 AGGC
1 AGGC
13966696 CAAATTTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (28 bp):
AGGCTCGATTTTGACTCAATCGGGCTTC
Found at i:13967998 original size:3 final size:3
Alignment explanation
Indices: 13967992--13968044 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
13967982 ATGTTGTTTT
* * *
13967992 ATA ATA ATTA ATA ATA ATA ATA ATA ATT A-A ATG ATA ATA AAA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13968037 ATA ATA AT
1 ATA ATA AT
13968045 GCTTTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 38 0.90
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13968464 original size:28 final size:28
Alignment explanation
Indices: 13968387--13968741 Score: 213
Period size: 28 Copynumber: 12.2 Consensus size: 28
13968377 CAAAACTCCG
13968387 AAATTGAAACCCTAAATCCT-TCAAACCCTA
1 AAATT-AAACCCTAAA-CCTCT-AAACCCTA
*
13968417 AAACTTTTAATCCAC-AAACCTCTAAACCCTA
1 AAA---TTAAACC-CTAAACCTCTAAACCCTA
* *
13968448 AAATTAAACCTTAAACCTCAAAACCCTAA
1 AAATTAAACCCTAAACCTCTAAACCCT-A
** *
13968477 AAACGAAACCCTAAATACTCTAAACCCT-
1 AAATTAAACCCTAAA-CCTCTAAACCCTA
* * *
13968505 AAATCAAAATCCTAAAACCTCTAAACCTTA
1 AAAT-TAAACCCT-AAACCTCTAAACCCTA
* *
13968535 AAATTAAACCCCAAACCTCCAAACCCTA
1 AAATTAAACCCTAAACCTCTAAACCCTA
* * *
13968563 AAATAAAACCTTAAACCCTCTGAACCCTAA
1 AAATTAAACCCTAAA-CCTCTAAACCCT-A
* * * **
13968593 AAATGAAATCTTAAACCCTCCGAACCCTAA
1 AAATTAAACCCTAAA-CCTCTAAACCCT-A
* *
13968623 AACATCCAAACCCTAAA-AT-TGAAACCCT-
1 AA-AT-TAAACCCTAAACCTCT-AAACCCTA
* *
13968651 AAATTCCAAACCCTAAA-CACTAAACCTTA
1 AAATT--AAACCCTAAACCTCTAAACCCTA
*
13968680 AAATCAAACCCTAAATCCTCTAAACCCTA
1 AAATTAAACCCTAAA-CCTCTAAACCCTA
* * *
13968709 AAACTAAAACCCCAAACCT-AAAACCCTA
1 AAA-TTAAACCCTAAACCTCTAAACCCTA
13968737 AAATT
1 AAATT
13968742 CAAAACTTAA
Statistics
Matches: 258, Mismatches: 44, Indels: 49
0.74 0.13 0.14
Matches are distributed among these distances:
27 13 0.05
28 78 0.30
29 65 0.25
30 67 0.26
31 16 0.06
32 16 0.06
33 3 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (28 bp):
AAATTAAACCCTAAACCTCTAAACCCTA
Found at i:13968499 original size:58 final size:57
Alignment explanation
Indices: 13968431--13968740 Score: 195
Period size: 58 Copynumber: 5.4 Consensus size: 57
13968421 TTTTAATCCA
* * * *
13968431 CAAACCTCTAAACCCTAAAATTAAACCTTAAACCTCAAAACCCTAAAAACGAAACCC
1 CAAAACTCTAAACCCTAAAATAAAACCTTAAACCTCTAAACCCTAAAAATGAAACCC
* * * *
13968488 TAAATACTCTAAACCCT-AAATCAAAATCCTAAAACCTCTAAA-CCTTAAAATTAAACCC
1 CAAA-ACTCTAAACCCTAAAAT-AAAA-CCTTAAACCTCTAAACCCTAAAAATGAAACCC
* * * * *
13968546 CAAACCTCCAAACCCTAAAATAAAACCTTAAACCCTCTGAACCCTAAAAATGAAATCT
1 CAAAACTCTAAACCCTAAAATAAAACCTTAAA-CCTCTAAACCCTAAAAATGAAACCC
* * ** * * * * *
13968604 TAAACCCTCCGAACCCTAAAACATCCAAACCCTAAA-AT-TGAAACCCT-AAATTCCAAA-CC
1 CAAA-ACTCTAAACCCT-AAA-AT-AAAACCTTAAACCTCT-AAACCCTAAAAAT-GAAACCC
* * * * * * *
13968663 CTAAACACTAAACCTTAAAATCAAACCCTAAATCCTCTAAACCCTAAAACTAAAACCC
1 CAAAACTCTAAACCCTAAAATAAAACCTTAAA-CCTCTAAACCCTAAAAATGAAACCC
13968721 C-AAAC-CTAAAACCCTAAAAT
1 CAAAACTCT-AAACCCTAAAAT
13968741 TCAAAACTTA
Statistics
Matches: 198, Mismatches: 37, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
55 11 0.06
56 10 0.05
57 57 0.29
58 64 0.32
59 32 0.16
60 13 0.07
61 2 0.01
62 9 0.05
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (57 bp):
CAAAACTCTAAACCCTAAAATAAAACCTTAAACCTCTAAACCCTAAAAATGAAACCC
Found at i:13968602 original size:87 final size:86
Alignment explanation
Indices: 13968432--13968739 Score: 261
Period size: 87 Copynumber: 3.5 Consensus size: 86
13968422 TTTAATCCAC
** *
13968432 AAACCTCTAAACCCTAAAATTAAACCTTAAACCTCAAAACCCTAAAAACGAAACCCTAAATACTC
1 AAACCTCTAAACCCTAAAATTAAACCCCAAACCTCAAAACCCTAAAAAC-AAACCCTAAACACTC
13968497 TAAACCCTAAATCAAAATCCTA
65 TAAACCCTAAATCAAAATCCTA
* * * *
13968519 AAACCTCTAAACCTTAAAATTAAACCCCAAACCTCCAAACCCTAAAATA-AAACCTTAAACCCTC
1 AAACCTCTAAACCCTAAAATTAAACCCCAAACCTCAAAACCCTAAAA-ACAAACCCTAAACACTC
* * *
13968583 TGAACCCTAAAAAT-GAAATCTTA
65 TAAACCCT--AAATCAAAATCCTA
* ** * * * ** **
13968606 AACCCTCCGAACCCTAAAACATCCAAACCCTAAA-ATTGAAACCCTAAATTCCAAACCCTAAACA
1 AAACCTCTAAACCCT-AAA-AT-TAAACCCCAAACCTCAAAACCCTAAA-AACAAACCCTAAACA
* *
13968670 --CTAAACCTTAAAATC-AAACCCTA
62 CTCTAAACCCT-AAATCAAAATCCTA
* *
13968693 AATCCTCTAAACCCTAAAACTAAAACCCCAAACCT-AAAACCCTAAAA
1 AAACCTCTAAACCCTAAAA-TTAAACCCCAAACCTCAAAACCCTAAAA
13968740 TTCAAAACTT
Statistics
Matches: 175, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
85 20 0.11
86 24 0.14
87 84 0.48
88 15 0.09
89 13 0.07
90 19 0.11
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (86 bp):
AAACCTCTAAACCCTAAAATTAAACCCCAAACCTCAAAACCCTAAAAACAAACCCTAAACACTCT
AAACCCTAAATCAAAATCCTA
Found at i:13968649 original size:14 final size:14
Alignment explanation
Indices: 13968615--13968745 Score: 81
Period size: 14 Copynumber: 9.1 Consensus size: 14
13968605 AAACCCTCCG
*
13968615 AACCCTAAAACATCCA
1 AACCCT-AAA-ATTCA
*
13968631 AACCCTAAAATTGA
1 AACCCTAAAATTCA
13968645 AACCCT-AAATTCCA
1 AACCCTAAAATT-CA
*
13968659 AACCCTAAACACT-A
1 AACCCTAAA-ATTCA
*
13968673 AACCTTAAAA-TCA
1 AACCCTAAAATTCA
13968686 AACCCT-AAATCCTCTA
1 AACCCTAAAAT--TC-A
* *
13968702 AACCCTAAAACTAA
1 AACCCTAAAATTCA
* ** *
13968716 AACCCCAAACCTAA
1 AACCCTAAAATTCA
13968730 AACCCTAAAATTCA
1 AACCCTAAAATTCA
13968744 AA
1 AA
13968746 ACTTAAAAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.04
13 12 0.13
14 50 0.54
15 8 0.09
16 15 0.16
17 3 0.03
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.18
Consensus pattern (14 bp):
AACCCTAAAATTCA
Found at i:13970150 original size:22 final size:21
Alignment explanation
Indices: 13970124--13970171 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
13970114 ATTTCCCCCC
13970124 ATTTTTATTTATTTATTGTTTT
1 ATTTTTATTTATTTATT-TTTT
*
13970146 GTTTTTATTTATTTATTTTTT
1 ATTTTTATTTATTTATTTTTT
13970167 ATTTT
1 ATTTT
13970172 GGCATTCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (21 bp):
ATTTTTATTTATTTATTTTTT
Found at i:13970647 original size:152 final size:152
Alignment explanation
Indices: 13970371--13970677 Score: 481
Period size: 152 Copynumber: 2.0 Consensus size: 152
13970361 GGTAAACAAT
*
13970371 AAATTACAAATAATAGTATAGAGATAAAATGATGGTATTTAGGAGTAGCTATTTAGGGTAACAAT
1 AAATTACAAATAATAGTATAGAGATAAAATGATGGTATTTAGGAATAGCTATTTAGGGTAACAAT
* *
13970436 GCCCCAAGATAGATAATTAGACAATCATGACAATAAATCTTAGATCTTCTTCAAAAACACAATTA
66 GCCCCAAGACAAATAATTAGACAATCATGACAATAAATCTTAGATCTTCTTCAAAAACACAATTA
13970501 GAACTTAATGCCCTAACACTTC
131 GAACTTAATGCCCTAACACTTC
* * * * *
13970523 AAATTACAAATGATGGTATAGAGATAAAATTATGGTATTTAGGAATAGCTATTTGGGGTAGCAAT
1 AAATTACAAATAATAGTATAGAGATAAAATGATGGTATTTAGGAATAGCTATTTAGGGTAACAAT
* * * *
13970588 GCCTCAAGACAAATGATTAGATAATCATGACAATAAATCTTGGATC-TCTTTCAAAAACACAATT
66 GCCCCAAGACAAATAATTAGACAATCATGACAATAAATCTTAGATCTTC-TTCAAAAACACAATT
*
13970652 AGAACTTGATGCCCTAACACTTC
130 AGAACTTAATGCCCTAACACTTC
13970675 AAA
1 AAA
13970678 GCTCTTTGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
151 2 0.01
152 139 0.99
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (152 bp):
AAATTACAAATAATAGTATAGAGATAAAATGATGGTATTTAGGAATAGCTATTTAGGGTAACAAT
GCCCCAAGACAAATAATTAGACAATCATGACAATAAATCTTAGATCTTCTTCAAAAACACAATTA
GAACTTAATGCCCTAACACTTC
Found at i:13983947 original size:15 final size:15
Alignment explanation
Indices: 13983927--13983966 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
13983917 TGTGTTTAAA
*
13983927 AATTTTTATTAAAAT
1 AATTTTAATTAAAAT
13983942 AATTTTAATTAAAATT
1 AATTTTAATTAAAA-T
13983958 AATATTTAA
1 AAT-TTTAA
13983967 ATTTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
16 4 0.18
17 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTAATTAAAAT
Found at i:13985763 original size:255 final size:254
Alignment explanation
Indices: 13985288--13985780 Score: 655
Period size: 255 Copynumber: 1.9 Consensus size: 254
13985278 ATACTTAGCA
* * * *
13985288 TGTTTTTTCTTCTCAAAAAGAAGGGTGCAAAAGATGAGCCTTGTAAGCTATCAGCAGTTCCTCCA
1 TGTTTTTTCCTCTCAAAAAGAAGGGTGCAAAAGACGAGCCTTGTAAGCCATCAACAGTTCCTCCA
** * * * *
13985353 CATCATCTGGAAACCTTAACATGAACTCCAAGAATTCATTCTCTGTATATTCCATGATGTAAAGA
66 CATCATCTGGAAACCTTAACATGAACTCCAAGAATTCACGCTCCGTAAAATCCAAGATGTAAAGA
** * *
13985418 AAACTCCAATACATTTTCAACTTCTTCTTCTACTTAATAATCTGCAAAACTCAATATTGAGGAAT
131 AAACTCCAATACATTTTCAACAACTTCTTCGACTTAATAATCTGCAAAACTCAATACTGAGGAAT
* *
13985483 CATATGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAAAAAGACTTTTATCATG
196 CACACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAAAAAGACTTTTATCATG
* * * * ** *
13985542 TGTTTTCTTCCTCTGAAGAAGAAGTGTGCAAAATACGAGTTTTGTAAGCCATCAACAGTTCTTCC
1 TGTTTT-TTCCTCTCAAAAAGAAGGGTGCAAAAGACGAGCCTTGTAAGCCATCAACAGTTCCTCC
* * *
13985607 ACATCATCTGGAAACCTTGATATGAACTCCAAGAATTTACGCTCCGTAAAATCCAAGATGTAAAG
65 ACATCATCTGGAAACCTTAACATGAACTCCAAGAATTCACGCTCCGTAAAATCCAAGATGTAAAG
* * * * **
13985672 AAAACTCCGATCCGTTTTCAACAACTTCTTGGACTTAATAATCTGCAAAACTCGGTACCT-AGGA
130 AAAACTCCAATACATTTTCAACAACTTCTTCGACTTAATAATCTGCAAAACTCAATA-CTGAGGA
* *
13985736 ATCACACGATCTTCTAAACTACTCATCAAAAGAATTGGCCTAGAA
194 ATCACACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAA
13985781 GCCAAAACAT
Statistics
Matches: 203, Mismatches: 34, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
254 6 0.03
255 196 0.97
256 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (254 bp):
TGTTTTTTCCTCTCAAAAAGAAGGGTGCAAAAGACGAGCCTTGTAAGCCATCAACAGTTCCTCCA
CATCATCTGGAAACCTTAACATGAACTCCAAGAATTCACGCTCCGTAAAATCCAAGATGTAAAGA
AAACTCCAATACATTTTCAACAACTTCTTCGACTTAATAATCTGCAAAACTCAATACTGAGGAAT
CACACGATCTCCCAAACTACTCATCAAAAGAATTGGCCTAGAAAAAGACTTTTATCATG
Found at i:13986666 original size:16 final size:15
Alignment explanation
Indices: 13986645--13986675 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13986635 TAACGAAAAA
13986645 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
13986661 TTGAGAAAATGGAAG
1 TTGAGAAAATGGAAG
13986676 ATAATTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:13990223 original size:18 final size:17
Alignment explanation
Indices: 13990202--13990258 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
13990192 ATAAAAATAC
13990202 AAAATTTTGTAAAATAAA
1 AAAATTTT-TAAAATAAA
*
13990220 AAAATTTTTTAACATAAA
1 AAAA-TTTTTAAAATAAA
* *
13990238 ATAA-TTTTAAAATAAC
1 AAAATTTTTAAAATAAA
13990254 AAAAT
1 AAAAT
13990259 AAAGTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.41
18 15 0.47
19 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATTTTTAAAATAAA
Found at i:13991362 original size:255 final size:255
Alignment explanation
Indices: 13990912--13991389 Score: 699
Period size: 255 Copynumber: 1.9 Consensus size: 255
13990902 TCTTCTCAAA
* * *
13990912 AAGAAGTGTGCAAAAGATGAGCCCTATAAGCTATCAGCAGTTCCTGCACATAATCTGGAAACCTT
1 AAGAAGTGTGCAAAAGATGAGCCCTATAAGCCATCAACAGTTCCTCCACATAATCTGGAAACCTT
*
13990977 GACATGAACTCCAAGAATTCATTCTCTGTATATTCCATGATGTAAAGAAAACTCCAATACATTTT
66 GACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAATACATTTT
* * *
13991042 CAACAACTCCTTCTATTTAATAATCTGCAAAACTCAATATTGAGGAATCACATGATCTCCCAAAC
131 CAACAACTCCTTCGACTTAATAATCTGCAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
**
13991107 TACTCATCAAAAGCATTGGCCTACAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCG
196 TACTCATCAAAAAAATTGGCCTACAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCG
** * * *
13991167 AAGAAGTGTGCAAAAGATGAGCTTTGTAAGCCATCAACAGTTCTTCCACATCATCTGGAAACCTT
1 AAGAAGTGTGCAAAAGATGAGCCCTATAAGCCATCAACAGTTCCTCCACATAATCTGGAAACCTT
* * * *
13991232 GATATGAACTCCAAGAATTTATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCGAT-CTGTTT
66 GACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAATAC-ATTT
* * *** *
13991296 TCAACAACTTCTTGGACTTAATAATCTGCAAAACTTGGTATCT-AGGAATCACACGATCTTCCAA
130 TCAACAACTCCTTCGACTTAATAATCTGCAAAACTCAATAT-TGAGGAATCACACGATCTCCCAA
*
13991360 ACTACTCATCAAAAAAATTGGCCTAGAAAC
194 ACTACTCATCAAAAAAATTGGCCTACAAAC
13991390 CAAAACATTC
Statistics
Matches: 196, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
254 1 0.01
255 194 0.99
256 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (255 bp):
AAGAAGTGTGCAAAAGATGAGCCCTATAAGCCATCAACAGTTCCTCCACATAATCTGGAAACCTT
GACATGAACTCCAAGAATTCATTCTCTGTATATTCCAAGATGTAAAGAAAACTCCAATACATTTT
CAACAACTCCTTCGACTTAATAATCTGCAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
TACTCATCAAAAAAATTGGCCTACAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCG
Found at i:13992273 original size:16 final size:15
Alignment explanation
Indices: 13992252--13992281 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13992242 TAACGAAAAA
13992252 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
13992268 TTGAGAAAATGGAA
1 TTGAGAAAATGGAA
13992282 CATGATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:13995058 original size:2 final size:2
Alignment explanation
Indices: 13995049--13995079 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13995039 ATATGCACCC
13995049 GT GT -T GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
13995080 ATACAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
GT
Found at i:14000376 original size:22 final size:22
Alignment explanation
Indices: 14000348--14000402 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
14000338 AAGTAATAAT
*
14000348 AAAAATATTATAATTATGATTA
1 AAAAATATTATAATTATAATTA
*
14000370 AAAAATATAATAATTATAATTA
1 AAAAATATTATAATTATAATTA
*
14000392 AAAAATTTTAT
1 AAAAATATTAT
14000403 TTAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAATATTATAATTATAATTA
Found at i:14000577 original size:21 final size:21
Alignment explanation
Indices: 14000536--14000601 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
14000526 ATTAATTTTA
*
14000536 ATAAAATTAAAA--AAA-ATG
1 ATAAAAATAAAATCAAATATG
*
14000554 ATAAAAATAAAATCAGATATG
1 ATAAAAATAAAATCAAATATG
** * *
14000575 ATAATGATAAAATTAAATATT
1 ATAAAAATAAAATCAAATATG
14000596 ATAAAA
1 ATAAAA
14000602 TTGAGATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
18 11 0.31
20 2 0.06
21 23 0.64
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
ATAAAAATAAAATCAAATATG
Found at i:14000744 original size:20 final size:20
Alignment explanation
Indices: 14000719--14000757 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14000709 GTATAATAAA
*
14000719 ATTTTT-AATATATTTTTTAC
1 ATTTTTGAAT-TAATTTTTAC
14000739 ATTTTTGAATTAATTTTTA
1 ATTTTTGAATTAATTTTTA
14000758 TAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTGAATTAATTTTTAC
Found at i:14002790 original size:258 final size:258
Alignment explanation
Indices: 14002333--14002798 Score: 711
Period size: 258 Copynumber: 1.8 Consensus size: 258
14002323 TCTTCTCAAA
*
14002333 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAGCAGTTCCTCCACATCATCTGGAAACCTT
1 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
* * *
14002398 GACATGAACTTCAAGAATTCATTCTCAGTATATTCCATGATGTAAAGAAAACTCCAATACATTTT
66 GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAAAGAAAACTCCAATACATTTT
* *
14002463 CAACAACTCCTTCTACTTAATAATCTGCAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
131 CAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
14002528 TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
196 TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
* * *
14002591 AAGAAGTGTGCAAAAGATGAGCTTTGTAAGCCATCAACAGTTCTTCCACATCATCTGGAAACCTT
1 AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
* * * * * *
14002656 GATATGAACTCCAAGAATTTATTCTCTGTATATTCCAAGATGGAATA-AAAACTCCGATCCGTTT
66 GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAA-AGAAAACTCCAATACATTT
* * * ** *
14002720 TCAACAACTTCTTGGAGTTAATAATCTGAAAAACTCGGTATCT-AGGAATCACACGATCTTCCAA
130 TCAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATAT-TGAGGAATCACACGATCTCCCAA
14002784 ACTACTCATCAAAAG
194 ACTACTCATCAAAAG
14002799 ATTTGGCTTG
Statistics
Matches: 185, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
258 183 0.99
259 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (258 bp):
AAGAAGTATGCAAAAGATGAGCCTTGTAAGCCATCAACAGTTCCTCCACATCATCTGGAAACCTT
GACATGAACTCCAAGAATTCATTCTCAGTATATTCCAAGATGGAAAGAAAACTCCAATACATTTT
CAACAACTCCTTCGACTTAATAATCTGAAAAACTCAATATTGAGGAATCACACGATCTCCCAAAC
TACTCATCAAAAGCATTGGCCTAGAAACAGACTTTTATCATGTGTTTTCTTCTTCTTCCGAAG
Found at i:14003697 original size:16 final size:15
Alignment explanation
Indices: 14003676--14003706 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14003666 TAACGAAAAA
14003676 TTGAGAAAATAGGAAG
1 TTGAGAAAAT-GGAAG
14003692 TTGAGAAAATGGAAG
1 TTGAGAAAATGGAAG
14003707 ATGATTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TTGAGAAAATGGAAG
Found at i:14011273 original size:18 final size:18
Alignment explanation
Indices: 14011247--14011371 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
14011237 CTTTGTTCTT
14011247 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
14011265 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
14011280 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
14011298 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
14011316 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
14011334 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
*
14011355 GATACATTTGATGTGGA
1 GATACATTTGAGGTGGA
14011372 TTAATAACCA
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 53 0.63
19 1 0.01
21 17 0.20
ACGTcount: A:0.27, C:0.05, G:0.35, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:14011349 original size:21 final size:21
Alignment explanation
Indices: 14011325--14011365 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14011315 TGATACATTT
*
14011325 GAGGTGGAGGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
14011346 GAGGTGGAGGATACATTTGA
1 GAGGTGGAGGATACATTTGA
14011366 TGTGGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:14011746 original size:27 final size:27
Alignment explanation
Indices: 14011716--14011767 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
14011706 CAAAATTTGC
*
14011716 ACCATCACCATCATCA-TCTGGACTTAA
1 ACCACCACCATCATCACTCT-GACTTAA
14011743 ACCACCACCATCATCACTCTGACTT
1 ACCACCACCATCATCACTCTGACTT
14011768 GGTATTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (27 bp):
ACCACCACCATCATCACTCTGACTTAA
Found at i:14015167 original size:26 final size:26
Alignment explanation
Indices: 14015118--14015166 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
14015108 TTTCAAAAAT
*
14015118 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
14015144 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
14015167 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:14015413 original size:19 final size:20
Alignment explanation
Indices: 14015391--14015428 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14015381 AAACAACAAA
*
14015391 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
14015410 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
14015429 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:14015702 original size:37 final size:37
Alignment explanation
Indices: 14015659--14015816 Score: 231
Period size: 37 Copynumber: 4.4 Consensus size: 37
14015649 CCACCCCCAT
*
14015659 CAATCCCTCTCCACCTTCCCCCCAACATCCCA-C-CACC
1 CAATCCCTCCCCACCTTCCCCCCAAC--CCCACCACACC
*
14015696 CAATCCCTCCCCA-CTTCCTCCCAACCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACCCCACCACACC
14015732 CAATCCCTCCCCACCTTCCCCCCAACCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACCCCACCACACC
14015769 CAAT--CTCCCCACCTTCCCCCCAA-CCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACCCCACCACACC
14015803 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
14015817 CCATCCAATC
Statistics
Matches: 114, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
34 19 0.17
35 29 0.25
36 28 0.25
37 38 0.33
ACGTcount: A:0.22, C:0.65, G:0.00, T:0.13
Consensus pattern (37 bp):
CAATCCCTCCCCACCTTCCCCCCAACCCCACCACACC
Found at i:14015803 original size:71 final size:71
Alignment explanation
Indices: 14015659--14015816 Score: 225
Period size: 73 Copynumber: 2.2 Consensus size: 71
14015649 CCACCCCCAT
* *
14015659 CAATCCCTCTCCACCTTCCCCCCAACATCCCACCACCCAATCCCTCCCCACTTCCTCCCAACCCC
1 CAATCCCTCCCCACCTTCCCCCCAACA-CCCACCACCCAAT-CCTCCCCACTTCCCCCCAACCCC
14015724 ACCACACC
64 ACCACACC
14015732 CAATCCCTCCCCACCTTCCCCCCAAC-CCCACCACACCCAAT-CTCCCCACCTTCCCCCCAA-CC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCA-C-CACCCAATCCTCCCCA-CTTCCCCCCAACCC
14015794 CACCACACC
63 CACCACACC
14015803 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
14015817 CCATCCAATC
Statistics
Matches: 80, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
70 10 0.12
71 26 0.32
72 11 0.14
73 33 0.41
ACGTcount: A:0.22, C:0.65, G:0.00, T:0.13
Consensus pattern (71 bp):
CAATCCCTCCCCACCTTCCCCCCAACACCCACCACCCAATCCTCCCCACTTCCCCCCAACCCCAC
CACACC
Found at i:14015814 original size:19 final size:20
Alignment explanation
Indices: 14015792--14015831 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14015782 TTCCCCCCAA
14015792 CCCACCACACCCAATC-CTC
1 CCCACCACACCCAATCTCTC
* *
14015811 CCCACCCCATCCAATCTCTC
1 CCCACCACACCCAATCTCTC
14015831 C
1 C
14015832 ACGTGCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.62, G:0.00, T:0.15
Consensus pattern (20 bp):
CCCACCACACCCAATCTCTC
Done.