Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002786.1 Hibiscus syriacus cultivar Beakdansim tig00005741_pilon, 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: 242387
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6940 original size:43 final size:43
Alignment explanation
Indices: 6879--6960 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
6869 ATCTAACATG
* *
6879 TCTGCGAACCAAACAGAATATGGAATTAGATTCCAATTCAATT
1 TCTGCCAACCAAACAGAATATAGAATTAGATTCCAATTCAATT
* *
6922 TCTGCCAATCAAACAGAATATAGAATTGGATTCCAATTC
1 TCTGCCAACCAAACAGAATATAGAATTAGATTCCAATTC
6961 CGACAGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (43 bp):
TCTGCCAACCAAACAGAATATAGAATTAGATTCCAATTCAATT
Found at i:10279 original size:15 final size:17
Alignment explanation
Indices: 10259--10296 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
10249 TGAAAATGTT
10259 CTATGTGTA-AT-TGAA
1 CTATGTGTATATATGAA
10274 CTATGTGTATATATGAA
1 CTATGTGTATATATGAA
10291 -TATGTG
1 CTATGTG
10297 AAATGACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
CTATGTGTATATATGAA
Found at i:10513 original size:25 final size:24
Alignment explanation
Indices: 10477--10550 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 24
10467 ATTTCTATGT
10477 GGTCCTTC-GGGATAAATTCTACGC
1 GGTCCTTCGGGGA-AAATTCTACGC
10501 GGTCCTTCGGGGACAAATTTCTACGC
1 GGTCCTTCGGGGA-AAA-TTCTACGC
*
10527 GG-CACTTCGGTGCAAAATTCTACG
1 GGTC-CTTCGG-GGAAAATTCTACG
10551 TGGCACTACG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 8 0.18
25 15 0.34
26 19 0.43
27 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (24 bp):
GGTCCTTCGGGGAAAATTCTACGC
Found at i:10534 original size:26 final size:25
Alignment explanation
Indices: 10481--10557 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
10471 CTATGTGGTC
*
10481 CTTC-GGGATAAATTCTACGCGGTC-
1 CTTCGGGGACAAATTCTACGCGG-CA
10505 CTTCGGGGACAAATTTCTACGCGGCA
1 CTTCGGGGACAAA-TTCTACGCGGCA
* *
10531 CTTCGGTG-CAAAATTCTACGTGGCA
1 CTTCGGGGAC-AAATTCTACGCGGCA
10556 CT
1 CT
10558 ACGGTGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.09
25 22 0.48
26 20 0.43
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (25 bp):
CTTCGGGGACAAATTCTACGCGGCA
Found at i:10555 original size:25 final size:26
Alignment explanation
Indices: 10490--10563 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
10480 CCTTCGGGAT
*
10490 AAATTCTACGCGGTC-CTTCGGGGACA
1 AAATTCTACGCGG-CACTTCGGTGACA
*
10516 AATTTCTACGCGGCACTTCGGTG-CA
1 AAATTCTACGCGGCACTTCGGTGACA
* *
10541 AAATTCTACGTGGCACTACGGTG
1 AAATTCTACGCGGCACTTCGGTG
10564 TAATTTATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 23 0.55
26 19 0.45
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (26 bp):
AAATTCTACGCGGCACTTCGGTGACA
Found at i:17033 original size:15 final size:15
Alignment explanation
Indices: 17010--17041 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17000 TTCTCGCTCG
*
17010 TAGTTTAACTTAGTT
1 TAGTGTAACTTAGTT
17025 TAGTGTAACTTAGTT
1 TAGTGTAACTTAGTT
17040 TA
1 TA
17042 ATAATAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (15 bp):
TAGTGTAACTTAGTT
Found at i:20071 original size:15 final size:16
Alignment explanation
Indices: 20031--20062 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20021 TTAGTACAAC
20031 AATTTGATTGAATATT
1 AATTTGATTGAATATT
20047 AATTTGATTG-ATATT
1 AATTTGATTGAATATT
20062 A
1 A
20063 TTTTTATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
AATTTGATTGAATATT
Found at i:21838 original size:31 final size:29
Alignment explanation
Indices: 21770--21839 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
21760 AATATTTTTT
*
21770 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
21800 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
21833 TTATATT
1 TTATATT
21840 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:21919 original size:23 final size:23
Alignment explanation
Indices: 21870--21938 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
21860 GTGTTATATG
* * * **
21870 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATCTTTATTAAA
21893 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATCTTTATTAAA
*
21916 ATATTATTAGAT-TCTTATATTAA
1 ATATT-TTAAATATCTT-TATTAA
21939 TATTAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATCTTTATTAAA
Found at i:22122 original size:22 final size:23
Alignment explanation
Indices: 22094--22140 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
22084 TTGATTATTT
22094 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* * *
22116 TATTATATTTTTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
22139 TA
1 TA
22141 AATATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:22150 original size:23 final size:23
Alignment explanation
Indices: 22119--22174 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
22109 AATATAATAT
22119 TATATTTTTAGAA-ATATTAATAAA
1 TATA-TTTTA-AATATATTAATAAA
* *
22143 TATATTTTAAATATTTTAATAAT
1 TATATTTTAAATATATTAATAAA
22166 TAATATTTT
1 T-ATATTTT
22175 GATTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 15 0.54
24 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TATATTTTAAATATATTAATAAA
Found at i:25333 original size:25 final size:25
Alignment explanation
Indices: 25299--25352 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
25289 TAGTTTTTGA
*
25299 AAAATGACTTTTAAAAGTGTTGTAG
1 AAAATAACTTTTAAAAGTGTTGTAG
*
25324 AAAATAACTTTTAAAAGTGTTGTAT
1 AAAATAACTTTTAAAAGTGTTGTAG
25349 AAAA
1 AAAA
25353 GTACAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (25 bp):
AAAATAACTTTTAAAAGTGTTGTAG
Found at i:26222 original size:59 final size:60
Alignment explanation
Indices: 26126--26286 Score: 150
Period size: 60 Copynumber: 2.7 Consensus size: 60
26116 TAAAGTTTGA
** * * * *
26126 GATGAAATTGGAATGTTCAAAATATTTGAA-ACCAATTTAGAATGAAGA-TCAT-AGTTGGG
1 GATGAAATTAAAATGTTCAAAA-GTTTAAAGACTAATTTAGAAT-AAGAGTCATAAGTTAGG
* *
26185 GATGAAATTAAAATGTTCAAAAGTTTAAAGACTAATTTAGAATAATAGTCATAATTTAGG
1 GATGAAATTAAAATGTTCAAAAGTTTAAAGACTAATTTAGAATAAGAGTCATAAGTTAGG
* * * * *
26245 GA-AATAATTAATATATTTAAAAGTTTAAAGATTAATTTAGAA
1 GATGA-AATTAAAATGTTCAAAAGTTTAAAGACTAATTTAGAA
26287 CGAGGATTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 8 0.09
59 37 0.44
60 40 0.47
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (60 bp):
GATGAAATTAAAATGTTCAAAAGTTTAAAGACTAATTTAGAATAAGAGTCATAAGTTAGG
Found at i:32875 original size:2 final size:2
Alignment explanation
Indices: 32856--32892 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
32846 TAAAAAGGAT
* *
32856 TA TA TG TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32893 GGTTTAGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33199 original size:31 final size:30
Alignment explanation
Indices: 33164--33247 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
33154 GTTCAAAAGG
* *
33164 GACAAAATATAATTAATAATAAAAAATAAAA
1 GACAAAATAGAAATAATAATAAAAAAT-AAA
*
33195 GACAAAATAGAAATAATCATAAAAAATAAA
1 GACAAAATAGAAATAATAATAAAAAATAAA
*
33225 GAACAAAAT-CAAATAA-AATAAAA
1 G-ACAAAATAGAAATAATAATAAAA
33248 TTAGGAACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 6 0.13
30 10 0.21
31 31 0.66
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.18
Consensus pattern (30 bp):
GACAAAATAGAAATAATAATAAAAAATAAA
Found at i:34227 original size:21 final size:20
Alignment explanation
Indices: 34141--34298 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
34131 AAATGACCAA
**
34141 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
34160 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
34180 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
34200 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
34221 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
34242 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
34262 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
34283 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
34299 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:34314 original size:40 final size:40
Alignment explanation
Indices: 34265--34419 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
34255 CGATTTTCCA
* ** *
34265 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
34305 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
34345 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
34385 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
34420 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:34327 original size:20 final size:20
Alignment explanation
Indices: 34265--34418 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
34255 CGATTTTCCA
* ** *
34265 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
34285 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
34305 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
34325 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
34345 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
34365 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
34385 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
34406 AAATCGCAACGCG
1 AAATCGCAACGCG
34419 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:34840 original size:33 final size:33
Alignment explanation
Indices: 34801--34871 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
34791 TTCACTTAGA
*
34801 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
34834 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
34867 TTTCA
1 TTTCA
34872 AGTTAGTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:35008 original size:19 final size:19
Alignment explanation
Indices: 34963--35037 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
34953 GCAACGAGAT
* *
34963 AAATGAAAATCGCAACGAG
1 AAATGACAATCGCAACGCG
**
34982 AGAATGACTGTCGCAACGCG
1 A-AATGACAATCGCAACGCG
35002 AAATGACAATCGCAACGCG
1 AAATGACAATCGCAACGCG
*
35021 AAATGAAAATCGCAACG
1 AAATGACAATCGCAACG
35038 AGAGAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
AAATGACAATCGCAACGCG
Found at i:36970 original size:93 final size:93
Alignment explanation
Indices: 36811--37186 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
36801 TAGATTGCTT
*
36811 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
36876 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
36904 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
36969 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
36997 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37062 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
37090 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37155 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
37182 AGTAA
1 AGTAA
37187 TGCAATCCAT
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 276 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:37274 original size:19 final size:19
Alignment explanation
Indices: 37234--37362 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
37224 TAGTTTACTT
* *
37234 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
37254 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
37273 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
37292 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
37306 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
37325 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
37339 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
37358 TCGCA
1 TCGCA
37363 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:37313 original size:33 final size:32
Alignment explanation
Indices: 37270--37362 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
37260 CGCGAAACCA
**
37270 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
37302 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
37335 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
37363 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:37360 original size:52 final size:52
Alignment explanation
Indices: 37234--37362 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
37224 TAGTTTACTT
**
37234 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
37286 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
37339 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
37363 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:37380 original size:19 final size:19
Alignment explanation
Indices: 37358--37491 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
37348 GAAACCAAAA
*
37358 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37377 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
37393 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
37410 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
37426 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
**
37442 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
37461 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
37481 TCGTGTTGCGA
1 TCGCGTTGCGA
37492 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
15 3 0.03
16 10 0.11
17 9 0.10
18 8 0.09
19 37 0.39
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:37399 original size:14 final size:14
Alignment explanation
Indices: 37380--37436 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
37370 TTTCATTTCG
37380 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
37394 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
37411 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
37427 CGTTGCGATT
1 CGTTGCGATT
37437 TCATTTCGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:37444 original size:32 final size:33
Alignment explanation
Indices: 37363--37454 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
37353 CAAAATCGCA
*
37363 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
37396 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
37429 TTGCGA-TTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
37455 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 19 0.34
33 37 0.66
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:37463 original size:51 final size:47
Alignment explanation
Indices: 37380--37473 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 47
37370 TTTCATTTCG
37380 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
1 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
** *
37427 CGTTGCGATTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATT
1 CGTTGCGA-TTC-TTT--CGTTGCGATTTTCATTTCGCATTGCGATT
37474 TTAAGTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 8 0.20
48 3 0.08
49 3 0.08
51 26 0.65
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (47 bp):
CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
Found at i:39434 original size:14 final size:14
Alignment explanation
Indices: 39415--39450 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
39405 ATTGTTTAAT
39415 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
39429 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
39443 TGATTTGT
1 TGATTTGT
39451 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:39581 original size:19 final size:19
Alignment explanation
Indices: 39557--39706 Score: 203
Period size: 19 Copynumber: 8.4 Consensus size: 19
39547 AAAATTGACT
39557 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
39576 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
39595 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
39609 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
39628 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
39647 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
39661 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
39680 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
39700 ATCGCAA
1 ATCGCAA
39707 CGGGAGAATC
Statistics
Matches: 116, Mismatches: 4, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
14 20 0.17
15 2 0.02
16 4 0.03
17 4 0.03
18 2 0.02
19 68 0.59
20 16 0.14
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:39617 original size:33 final size:33
Alignment explanation
Indices: 39575--39725 Score: 137
Period size: 33 Copynumber: 4.4 Consensus size: 33
39565 GCGAAATGAA
39575 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
39608 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
39640 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
*
39679 AATCGCAATGCGGAAATGAAAATCGCAACGGGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
39713 AATCGCAATGCGA
1 AATCGCAATGCGA
39726 TTTTAATTTC
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 40 0.43
34 13 0.14
35 1 0.01
37 2 0.02
38 2 0.02
39 14 0.15
40 3 0.03
41 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:39635 original size:52 final size:52
Alignment explanation
Indices: 39557--39725 Score: 320
Period size: 52 Copynumber: 3.2 Consensus size: 52
39547 AAAATTGACT
39557 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
39609 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
39661 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
39714 ATCGCAATGCGA
1 ATCGCAATGCGA
39726 TTTTAATTTC
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 81 0.70
53 34 0.30
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:39743 original size:19 final size:19
Alignment explanation
Indices: 39715--39903 Score: 210
Period size: 19 Copynumber: 10.7 Consensus size: 19
39705 AACGGGAGAA
* *
39715 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
39734 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
39750 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39767 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
39786 TCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
39802 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39819 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39838 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39857 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
39875 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
39891 TCGCATTGCGATT
1 TCGCATTGCGATT
39904 CTCTCGTTGC
Statistics
Matches: 145, Mismatches: 9, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
14 23 0.16
16 16 0.11
17 14 0.10
18 1 0.01
19 75 0.52
20 16 0.11
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:39778 original size:52 final size:52
Alignment explanation
Indices: 39715--39917 Score: 272
Period size: 52 Copynumber: 3.9 Consensus size: 52
39705 AACGGGAGAA
* *
39715 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
39767 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
39819 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
*
39875 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
39918 GTAATTTCCG
Statistics
Matches: 138, Mismatches: 7, Indels: 17
0.85 0.04 0.10
Matches are distributed among these distances:
47 8 0.06
49 2 0.01
50 2 0.01
51 3 0.02
52 78 0.57
53 24 0.17
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.09
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:39925 original size:33 final size:33
Alignment explanation
Indices: 39772--39917 Score: 186
Period size: 33 Copynumber: 4.2 Consensus size: 33
39762 TCATTTCGCA
*
39772 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
39805 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
39841 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
39877 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
39910 TTGCGATT
1 TTGCGATT
39918 GTAATTTCCG
Statistics
Matches: 98, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
32 1 0.01
33 46 0.47
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:43098 original size:20 final size:20
Alignment explanation
Indices: 43070--43339 Score: 317
Period size: 20 Copynumber: 13.5 Consensus size: 20
43060 AAATTTCAGT
* *
43070 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
43090 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
43110 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
43130 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
43150 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
43170 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
43190 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
43210 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
43230 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
43250 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
43270 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
43290 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
43310 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
43330 GTTGCGATTT
1 GTTGCGATTT
43340 TCATATTCGC
Statistics
Matches: 225, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
20 224 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:43348 original size:20 final size:20
Alignment explanation
Indices: 43307--43357 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
43297 TTTACGGATA
* *
43307 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
43327 CGCGTTGCGATTT-TCATATT
1 CGCGTTGCGATTTAT-ATATT
43347 CGCGTTGCGAT
1 CGCGTTGCGAT
43358 ATTGGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.20, G:0.27, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:54861 original size:36 final size:36
Alignment explanation
Indices: 54821--55019 Score: 353
Period size: 36 Copynumber: 5.5 Consensus size: 36
54811 TCAACTTTAA
*
54821 TACATTCGTGTATCAATGTTATCATATCAGTTTTGG
1 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
54857 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
1 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
54893 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
1 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
* **
54929 TACATTCATGTATCAATGTTATCATATCAGCTTTAT
1 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
*
54965 TACATTCGTGTATCAATGTTATCATATTAGCTTTGG
1 TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
55001 TACATTCGTGTATCAATGT
1 TACATTCGTGTATCAATGT
55020 CCAGCATCAT
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 155 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (36 bp):
TACATTCGTGTATCAATGTTATCATATCAGCTTTGG
Found at i:62608 original size:65 final size:63
Alignment explanation
Indices: 62491--62698 Score: 251
Period size: 65 Copynumber: 3.2 Consensus size: 63
62481 TTTCAAAGTG
* * * *
62491 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGG-AATAAATTG-AACATTGAATGCAT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GGCTAT-TA-TGAAACATCGAATGCAT
62553 TTT
61 TTT
* * *
62556 ATGCATCGATGCACATACCATGCATCGATGCACTCAGGGTCTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTATG-AAACATCGAATGCATTTT
*
62621 ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTATGAAACATCGAATGCATTTT
62685 ATGCATCGATGCAC
1 ATGCATCGATGCAC
62699 TCTTAGTGCA
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
63 3 0.02
64 51 0.40
65 71 0.56
66 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTATGAAACATCGAATGCATTTT
Found at i:70991 original size:65 final size:63
Alignment explanation
Indices: 70874--71081 Score: 260
Period size: 65 Copynumber: 3.2 Consensus size: 63
70864 TTTCAAAGTG
* * **
70874 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
70937 TT
62 TT
*
70939 ATGCATCGATGCACATACCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
*
71003 G
63 T
*
71004 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
71068 ATGCATCGATGCAC
1 ATGCATCGATGCAC
71082 TCTTAGTGCA
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.39
65 68 0.53
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
Found at i:72172 original size:36 final size:36
Alignment explanation
Indices: 72120--72222 Score: 163
Period size: 36 Copynumber: 2.9 Consensus size: 36
72110 AGTTGAGTAT
*
72120 TATCAGCTTT-GATACATTCATGTATCAATGTTATCA
1 TATCAGCTTTAG-TACATTCGTGTATCAATGTTATCA
*
72156 TATCATCTTTAGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTAGTACATTCGTGTATCAATGTTATCA
*
72192 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTAGTACATTCGTGTATCAATGT
72223 CCAGCACCGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 61 0.98
37 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTAGTACATTCGTGTATCAATGTTATCA
Found at i:77221 original size:36 final size:35
Alignment explanation
Indices: 77140--77278 Score: 199
Period size: 35 Copynumber: 3.9 Consensus size: 35
77130 AGATGAACAA
* *
77140 TTGAATCGAAAGT-TCTTATGCTTCCTCCCGTTCAC
1 TTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCAC
* * *
77175 TTGAATCGAAAGTGTCGATGCTTTCTTTCGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC-AC
77211 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
*
77246 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC
77279 TTCTTATTCA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
35 59 0.63
36 34 0.37
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (35 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
Found at i:77256 original size:71 final size:71
Alignment explanation
Indices: 77140--77283 Score: 245
Period size: 71 Copynumber: 2.0 Consensus size: 71
77130 AGATGAACAA
* *
77140 TTGAATCGAAAGTTCTTATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTTCTTTCG
1 TTGAATCGAAAGTTCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
77205 TTCTTC
66 TTCTTC
*
77211 TTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTC
1 TTGAATCGAAAGT-TCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTC
77275 GTTCTTC
65 GTTCTTC
77282 TT
1 TT
77284 ATTCACCTTC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 67 0.97
72 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (71 bp):
TTGAATCGAAAGTTCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
TTCTTC
Found at i:81355 original size:2 final size:2
Alignment explanation
Indices: 81348--81372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81338 TGGTCTGCAA
81348 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
81373 AAGTCTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84151 original size:23 final size:23
Alignment explanation
Indices: 84125--84169 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
84115 GTTTAAATTC
84125 ATTATATTATATAATATTTATAA
1 ATTATATTATATAATATTTATAA
84148 ATTATATTATATAATATTTATA
1 ATTATATTATATAATATTTATA
84170 TTTCATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATATTATATAATATTTATAA
Found at i:84168 original size:16 final size:15
Alignment explanation
Indices: 84125--84171 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
84115 GTTTAAATTC
* *
84125 ATTATATTATATAAT
1 ATTATATAATATTAT
84140 ATT-TATAA-ATTAT
1 ATTATATAATATTAT
84153 ATTATATAATATTTAT
1 ATTATATAATA-TTAT
84169 ATT
1 ATT
84172 TCATCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.26
14 9 0.33
15 4 0.15
16 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATAATATTAT
Found at i:84887 original size:18 final size:18
Alignment explanation
Indices: 84845--84887 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
84835 ACATTGAACG
*
84845 TGGGTGCCAGATAATTCC
1 TGGGTGTCAGATAATTCC
84863 TGGGTGTCAGATAATTCC
1 TGGGTGTCAGATAATTCC
84881 TGGGTGT
1 TGGGTGT
84888 AACCCACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (18 bp):
TGGGTGTCAGATAATTCC
Found at i:85360 original size:5 final size:5
Alignment explanation
Indices: 85350--85391 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
85340 TAATCGAGGC
*
85350 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT AATTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
85392 CAGTTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:85376 original size:14 final size:14
Alignment explanation
Indices: 85350--85387 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
85340 TAATCGAGGC
85350 ATTTTATTTTATTTT
1 ATTTTA-TTTATTTT
85365 ATTTTATTTATTTT
1 ATTTTATTTATTTT
*
85379 AATTTATTT
1 ATTTTATTT
85388 TATTCAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:85421 original size:13 final size:13
Alignment explanation
Indices: 85403--85432 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
85393 AGTTACTATT
85403 TTTTATTTACATA
1 TTTTATTTACATA
*
85416 TTTTATTTACCTA
1 TTTTATTTACATA
85429 TTTT
1 TTTT
85433 TTAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTACATA
Found at i:85498 original size:20 final size:21
Alignment explanation
Indices: 85473--85531 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
85463 GATTTAAAAA
85473 TATTATTTATTTATT-TATTT
1 TATTATTTATTTATTATATTT
85493 TATTA-TTA-TTATTAATATTT
1 TATTATTTATTTATT-ATATTT
85513 TATT-TTTATTT-TTAT-TTT
1 TATTATTTATTTATTATATTT
85531 T
1 T
85532 GCTCTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 19 0.54
21 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTATTTATTTATTATATTT
Found at i:85521 original size:35 final size:34
Alignment explanation
Indices: 85482--85598 Score: 117
Period size: 35 Copynumber: 3.4 Consensus size: 34
85472 ATATTATTTA
* *
85482 TTTATTTATTTTATTATTATTATTAATATTTTATT
1 TTTATTT-TTTTATTATTCTTTTTAATATTTTATT
* ** * *
85517 TTTATTTTTATTTTTGCTCTTTTTATTATTTCATT
1 TTTATTTTT-TTATTATTCTTTTTAATATTTTATT
* *
85552 TTCATTTTTTTATTATCCTTTTTAATATTTTATT
1 TTTATTTTTTTATTATTCTTTTTAATATTTTATT
*
85586 ATTATCTTTTTTA
1 TTTAT-TTTTTTA
85599 AAAAAACTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
34 24 0.38
35 40 0.62
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (34 bp):
TTTATTTTTTTATTATTCTTTTTAATATTTTATT
Found at i:85553 original size:22 final size:22
Alignment explanation
Indices: 85515--85567 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
85505 TAATATTTTA
85515 TTTTTATT-TTTATTTTTGC-TC
1 TTTTTATTATTTATTTTT-CATC
*
85536 TTTTTATTATTTCA-TTTTCATT
1 TTTTTATTATTT-ATTTTTCATC
85558 TTTTTATTAT
1 TTTTTATTAT
85568 CCTTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.32
22 18 0.64
23 1 0.04
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTATTATTTATTTTTCATC
Found at i:85573 original size:20 final size:20
Alignment explanation
Indices: 85536--85587 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
85526 ATTTTTGCTC
85536 TTTTTATTATT-TCATTTTCA
1 TTTTT-TTATTATCATTTTCA
* *
85556 TTTTTTTATTATCCTTTTTA
1 TTTTTTTATTATCATTTTCA
* *
85576 ATATTTTATTAT
1 TTTTTTTATTAT
85588 TATCTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTATTATCATTTTCA
Found at i:85581 original size:23 final size:23
Alignment explanation
Indices: 85555--85599 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
85545 TTTCATTTTC
*
85555 ATTTTTTTATTATCCTTTTTAAT
1 ATTTTATTATTATCCTTTTTAAT
*
85578 ATTTTATTATTATCTTTTTTAA
1 ATTTTATTATTATCCTTTTTAA
85600 AAAAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTATTATTATCCTTTTTAAT
Found at i:87495 original size:21 final size:21
Alignment explanation
Indices: 87468--87518 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
87458 CGAACATTTC
87468 ATACATTTTTGCAGTTTGCAT
1 ATACATTTTTGCAGTTTGCAT
* *
87489 ATGCATTTTTGCATTTTGCAT
1 ATACATTTTTGCAGTTTGCAT
*
87510 CTACATTTT
1 ATACATTTT
87519 ATTTTTAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.51
Consensus pattern (21 bp):
ATACATTTTTGCAGTTTGCAT
Found at i:88575 original size:14 final size:13
Alignment explanation
Indices: 88556--88599 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
88546 ATCAGAACAA
88556 AAAGAGAAAAAAG
1 AAAGAGAAAAAAG
88569 TAAAGAGAAAATAA-
1 -AAAGAGAAAA-AAG
88583 AAAGAAGAAAAAAG
1 AAAG-AGAAAAAAG
88597 AAA
1 AAA
88600 ACAAGACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.22
14 19 0.70
15 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (13 bp):
AAAGAGAAAAAAG
Found at i:89659 original size:32 final size:32
Alignment explanation
Indices: 89623--89697 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
89613 AGGAATAATG
* *
89623 GGGGCATCTTTGAATATTCAACA-CCATATGTT
1 GGGGCATCTTTGAAGATTCAACATCCA-ATATT
* * *
89655 GGGGCATTTTTTGGAGATTCAACATCGAATATT
1 GGGGCA-TCTTTGAAGATTCAACATCCAATATT
89688 GGGGCATCTT
1 GGGGCATCTT
89698 CGGGGATTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 9 0.26
33 24 0.69
34 2 0.06
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (32 bp):
GGGGCATCTTTGAAGATTCAACATCCAATATT
Found at i:90673 original size:85 final size:85
Alignment explanation
Indices: 90531--90722 Score: 323
Period size: 85 Copynumber: 2.3 Consensus size: 85
90521 GTCATTCGGG
* * *
90531 GCTCAACTTCACAAC-AAAGGGCTTCCTAATTTCAGAGCCAATTTCAACCTCACAGCGAAGGATA
1 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACCTCACAGCGAAGGATA
*
90595 TTGGACTCAAGACAACACAA
66 TTGGACCCAAGACAACACAA
* *
90615 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATA
1 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACCTCACAGCGAAGGATA
90680 TTGGACCCAAGACAACACAA
66 TTGGACCCAAGACAACACAA
90700 GCTCAACTTCACGACGAAGGGGC
1 GCTCAACTTCACGACGAAGGGGC
90723 GGCTGATTGT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
84 14 0.14
85 87 0.86
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (85 bp):
GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACCTCACAGCGAAGGATA
TTGGACCCAAGACAACACAA
Found at i:90710 original size:43 final size:43
Alignment explanation
Indices: 90586--90719 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 43
90576 AACCTCACAG
*
90586 CGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACGA
1 CGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGA
*** * * * **
90629 CGAAGGGGCTT---CCCAATTTTAGAGC-CAATTTCAACTTCAC-A
1 CGAAGGATATTGGACCCAA---GACAACACAAGCTCAACTTCACGA
90670 GCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGA
1 -CGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGA
90714 CGAAGG
1 CGAAGG
90720 GGCGGCTGAT
Statistics
Matches: 65, Mismatches: 17, Indels: 18
0.65 0.17 0.18
Matches are distributed among these distances:
40 4 0.06
41 1 0.02
42 24 0.37
43 30 0.46
44 1 0.02
45 5 0.08
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (43 bp):
CGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGA
Found at i:90847 original size:110 final size:110
Alignment explanation
Indices: 90649--90849 Score: 323
Period size: 110 Copynumber: 1.8 Consensus size: 110
90639 TCCCAATTTT
* *
90649 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGAACCAAGACAACACAAGCTCAACTTCACGA
*
90714 CGAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAATTTCATTC
66 CGAAGGGGCGGCTGACTGTCAACAAATAACTTTTCAATTTCATTC
* * *
90759 AGAGTCAATTTCAACTTCACAACGAATGATATTGGAATCAAGACAACACAAGCTCAACTTCAC-A
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGAACCAAGACAACACAAGCTCAACTTCACGA
*
90823 GCGAAGGGGCGGCTGGCTGTCAACAAA
66 -CGAAGGGGCGGCTGACTGTCAACAAA
90850 CAATTTCCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
109 1 0.01
110 82 0.99
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (110 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGAACCAAGACAACACAAGCTCAACTTCACGA
CGAAGGGGCGGCTGACTGTCAACAAATAACTTTTCAATTTCATTC
Found at i:91076 original size:36 final size:36
Alignment explanation
Indices: 91029--91166 Score: 204
Period size: 36 Copynumber: 3.8 Consensus size: 36
91019 GTGCTCACCA
*
91029 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
**
91065 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
* * ** *
91101 TCGTCTCTCTTGAGACAATTTCTTTTAAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
91137 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA
91167 TAAAATCTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 87 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
Found at i:91148 original size:72 final size:72
Alignment explanation
Indices: 91031--91344 Score: 286
Period size: 72 Copynumber: 4.4 Consensus size: 72
91021 GCTCACCATT
* * *
91031 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
91096 AAACATC
66 AAACATC
** *
91103 GTCTCTCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAT
1 GTCTCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
91168 AAA-A--
66 AAACATC
** ** * ** *
91172 ---TCT-TTGA-ATCTGCTTT-CCTTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGA
1 GTCTCTCTTGAGA-C-AATTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
* * *
91231 ACTAAGCTTT
64 AC-AAACATC
* * * * *
91241 GTCTCTCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAAA
1 GTCTCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
** *
91306 AAATTTT
66 AAACATC
* * *
91313 GTCTCTCTTGAGACAGTTTCCCCTGAAACAAA
1 GTCTCTCTTGAGACAATTTCCCTTAAAACAAA
91345 ATCTTTCAAT
Statistics
Matches: 194, Mismatches: 36, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
64 1 0.01
65 41 0.21
66 8 0.04
71 1 0.01
72 101 0.52
73 41 0.21
74 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.39
Consensus pattern (72 bp):
GTCTCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAACATC
Found at i:91261 original size:37 final size:35
Alignment explanation
Indices: 91185--91332 Score: 154
Period size: 36 Copynumber: 4.1 Consensus size: 35
91175 TTGAATCTGC
** *
91185 TTTC-CTTAAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCTCTT-AAACAAATTTTGTCTCTCTTGAGACAG
* * ** *
91220 TTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAA
1 TTTCTCTT-AAAC-AAATTTTGTCTCTCTTGAGACAG
*
91257 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAT
1 TTTCTCTT-AAACAAATTTTGTCTCTCTTGAGACAG
*
91293 TTTCTCTTAAAAAAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTT-AAACAAATTTTGTCTCTCTTGAGACAG
91329 TTTC
1 TTTC
91333 CCCTGAAACA
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
35 4 0.04
36 63 0.67
37 27 0.29
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTCTCTTAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:91365 original size:174 final size:174
Alignment explanation
Indices: 91032--91438 Score: 582
Period size: 174 Copynumber: 2.3 Consensus size: 174
91022 CTCACCATTG
* ** * * * * *
91032 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAATTTCTCTTAAAAC
* *
91096 AAACATCGTCTCTCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
66 AAACATCGTCTCTCTTGAGACAATTTCTCTTAAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * *
91161 TTGAAATAAAATCTTTGAATCTGCTTTCCTTAAAACAAATTTCA
131 CTGAAACAAAATCTTTCAATCTGCTTTCCTTAAAACAAATTTCA
91205 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAATTTCTCTTAAAAC
1 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAATTTCTCTTAAAAC
** * *
91270 AAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCC
66 AAACATCGTCTCTCTTGAGACAATTTCTCTTAAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * * **
91335 CTGAAACAAAATCTTTCAATCTGTTTTCCTTGAAACGAATTTTG
131 CTGAAACAAAATCTTTCAATCTGCTTTCCTTAAAACAAATTTCA
* * *
91379 TCTCCATTGAGACAATTTCTTTTGGAGCTAAGCTTTGTCTCTCTTGAGACAATTTCTCTT
1 TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAATTTCTCTT
91439 GGAAAAAAAA
Statistics
Matches: 208, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
173 24 0.12
174 184 0.88
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (174 bp):
TCTCCCTTGAGACAGTTTCTTTTGGAACTAAGCTTTGTCTCTCTTGAGACAATTTCTCTTAAAAC
AAACATCGTCTCTCTTGAGACAATTTCTCTTAAAAAAAATTTTGTCTCTCTTGAGACAGTTTCCC
CTGAAACAAAATCTTTCAATCTGCTTTCCTTAAAACAAATTTCA
Found at i:92009 original size:17 final size:17
Alignment explanation
Indices: 91979--92011 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91969 TTTGTAAATT
91979 ATATTATATATTATATA
1 ATATTATATATTATATA
91996 ATATTCATAT-TTATAT
1 ATATT-ATATATTATAT
92012 TTAATCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTATATATTATATA
Found at i:93108 original size:18 final size:19
Alignment explanation
Indices: 93071--93108 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
93061 TTGTATCGTT
* *
93071 TCATCTTTTAGTTCTTTTA
1 TCATCGTTTAGTTATTTTA
93090 TCATCGTTTA-TTATTTTA
1 TCATCGTTTAGTTATTTTA
93108 T
1 T
93109 TATTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (19 bp):
TCATCGTTTAGTTATTTTA
Found at i:93187 original size:5 final size:5
Alignment explanation
Indices: 93177--93212 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
93167 AATCGAGGCC
*
93177 TTTTA TTTTA TTTTA -TTTA TTTTA ATTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
93213 CAGTTACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:93197 original size:14 final size:14
Alignment explanation
Indices: 93178--93208 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93168 ATCGAGGCCT
*
93178 TTTATTTTATTTTA
1 TTTATTTTAATTTA
93192 TTTATTTTAATTTA
1 TTTATTTTAATTTA
93206 TTT
1 TTT
93209 TATTCAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTAATTTA
Found at i:93242 original size:13 final size:13
Alignment explanation
Indices: 93224--93253 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93214 AGTTACTATT
93224 TTTTATTTACATA
1 TTTTATTTACATA
*
93237 TTTTATTTACCTA
1 TTTTATTTACATA
93250 TTTT
1 TTTT
93254 TTAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTACATA
Found at i:93303 original size:13 final size:13
Alignment explanation
Indices: 93285--93311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93275 ATTTTTCTGG
93285 ATTTAAAAATATT
1 ATTTAAAAATATT
93298 ATTTAAAAATATT
1 ATTTAAAAATATT
93311 A
1 A
93312 ATTATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTAAAAATATT
Found at i:93330 original size:3 final size:3
Alignment explanation
Indices: 93307--93364 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
93297 TATTTAAAAA
*
93307 TAT TAAT TATT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT
1 TAT T-AT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
93353 T-T TAT TTT TAT T
1 TAT TAT TAT TAT T
93365 TTTAATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:93365 original size:6 final size:6
Alignment explanation
Indices: 93316--93408 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
93306 ATATTAATTA
* * * *
93316 TTTA-T TTTATT ATTATT ATTATT ATTATT ATTAATAT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTAT-T TTTATT TTTATT
93365 TTTAATTT TTTATCTT TTTATT ATTTCATT TTCATATT TTTATT
1 TTT-A-TT TTTA--TT TTTATT -TTT-ATT TT--TATT TTTATT
93409 ATCTTTTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.05
6 34 0.47
7 14 0.19
8 20 0.27
9 1 0.01
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:93425 original size:20 final size:21
Alignment explanation
Indices: 93316--93431 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 21
93306 ATATTAATTA
* *
93316 TTTATTTTATTATTATTATTATT
1 TTTATTAT-TTATT-TTAATATT
* *
93339 ATTATTATTAATATTT--TATT
1 TTTATTATTTAT-TTTAATATT
* *
93359 TTTATT-TTTAATTTTTTATCTT
1 TTTATTATTT-A-TTTTAATATT
*
93381 TTTATTATTTCATTTTCATATT
1 TTTATTATTT-ATTTTAATATT
93403 TTTATTATCTT-TTTTAATA-T
1 TTTATTAT-TTATTTTAATATT
93423 TTTATTATT
1 TTTATTATT
93432 ATCTTTTTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
19 3 0.04
20 22 0.29
21 8 0.11
22 30 0.39
23 13 0.17
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTATTTATTTTAATATT
Found at i:93441 original size:22 final size:22
Alignment explanation
Indices: 93380--93441 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
93370 TTTTTTATCT
* *
93380 TTTTATTATT-TCATTTTCATA
1 TTTTATTATTATCTTTTTAATA
93401 -TTT-TTATTATCTTTTTTAATA
1 TTTTATTATTATC-TTTTTAATA
93422 TTTTATTATTATCTTTTTAA
1 TTTTATTATTATCTTTTTAA
93442 AAAAACTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 7 0.20
22 10 0.29
23 8 0.23
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTATTATTATCTTTTTAATA
Found at i:96027 original size:51 final size:51
Alignment explanation
Indices: 95925--96035 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
95915 GTAGCAGTAA
* * * * *
95925 AGCGTGCCCCCTGAACTGCGCTATATGCTGATTTGGTGCCACGTGGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATATGCTGAATGGGTGACACGTGGGGTAT
* * *
95976 AGCGCGCCCCCTGCACCGCGCTATATGCTGACATGGGTTACACGT-GTGTAT
1 AGCGCGCCCCCTGAACCGCGCTATATGCTGA-ATGGGTGACACGTGGGGTAT
96027 AGCGCGCCC
1 AGCGCGCCC
96036 AGATCCGCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 42 0.82
52 9 0.18
ACGTcount: A:0.16, C:0.31, G:0.30, T:0.23
Consensus pattern (51 bp):
AGCGCGCCCCCTGAACCGCGCTATATGCTGAATGGGTGACACGTGGGGTAT
Found at i:99771 original size:35 final size:34
Alignment explanation
Indices: 99686--99772 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
99676 ATTTGGTATT
*
99686 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
99720 TAAATGATAACCAAATTACAATAACTGAAATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-AATTAAATGG
99758 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
99773 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:99999 original size:3 final size:3
Alignment explanation
Indices: 99991--100030 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
99981 CTTGCTGTCA
* * *
99991 TCG TCG TCG TCG TCG TCA TCG TCG TCG TCA TCG TTG TCG T
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG T
100031 TGTCATGGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.30, G:0.28, T:0.38
Consensus pattern (3 bp):
TCG
Found at i:100012 original size:12 final size:12
Alignment explanation
Indices: 99991--100030 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
99981 CTTGCTGTCA
*
99991 TCGTCGTCGTCG
1 TCGTCATCGTCG
100003 TCGTCATCGTCG
1 TCGTCATCGTCG
*
100015 TCGTCATCGTTG
1 TCGTCATCGTCG
100027 TCGT
1 TCGT
100031 TGTCATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.05, C:0.30, G:0.28, T:0.38
Consensus pattern (12 bp):
TCGTCATCGTCG
Found at i:100411 original size:18 final size:18
Alignment explanation
Indices: 100388--100423 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100378 GGCGATGGTG
*
100388 ACATCATATATGGCTGCA
1 ACATCATAAATGGCTGCA
100406 ACATCATAAATGGCTGCA
1 ACATCATAAATGGCTGCA
100424 GTGGCTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (18 bp):
ACATCATAAATGGCTGCA
Found at i:102148 original size:17 final size:18
Alignment explanation
Indices: 102105--102145 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
102095 GAATTATATT
102105 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
102122 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
102140 ATTAAA
1 AGTAAA
102146 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:103013 original size:183 final size:181
Alignment explanation
Indices: 102658--103014 Score: 579
Period size: 183 Copynumber: 2.0 Consensus size: 181
102648 GAGAAACGCA
*
102658 ACATGTGCGATTTGAAGGCAATTTATCTCTCCTCGCGCTTTCCCCTCTCATGATATGTGTCCTTG
1 ACATGTGCGATTTGAAGGCAATTTATCTCTCCTCGCGCTCTCCCCTCTCATGATATGTGTCCTTG
* * *
102723 TAATCATCACCAAATGTAACTTTCCTTCTTTTAGTTTCTAAATTTGAAGTAAGGTTTCAAAAATT
66 TAATCATCACCAAATGTAACTTTCCTTCTTTTACTTTCTAAATTTGAAGTAAGGTTTAAAAAAAT
102788 GAACTTAAAATTTGATTAAATTAGGGCAACTGATCTTCATGGTATTTCATT
131 GAACTTAAAATTTGATTAAATTAGGGCAACTGATCTTCATGGTATTTCATT
* * * *
102839 ACATGTGCGATTTGAAGGCTAATTTTTCTCTCCTCGTGCTCTCTCCTCTCATGGTATGTGTCCTT
1 ACATGTGCGATTTGAAGGC-AATTTATCTCTCCTCGCGCTCTCCCCTCTCATGATATGTGTCCTT
* *
102904 GTAATCGTCACCAAATGTAACTTTCCTTTTATTTACTTTCTAAATTTGAAGTAAGGTTTAAAAAA
65 GTAATCATCACCAAATGTAACTTTCCTTCT-TTTACTTTCTAAATTTGAAGTAAGGTTTAAAAAA
* * *
102969 ATGAACTTAAAATTTGATTAAATTATGGCAATTGGTCTTCATGGTA
129 ATGAACTTAAAATTTGATTAAATTAGGGCAACTGATCTTCATGGTA
103015 CTTCGGTACA
Statistics
Matches: 161, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
181 19 0.12
182 68 0.42
183 74 0.46
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (181 bp):
ACATGTGCGATTTGAAGGCAATTTATCTCTCCTCGCGCTCTCCCCTCTCATGATATGTGTCCTTG
TAATCATCACCAAATGTAACTTTCCTTCTTTTACTTTCTAAATTTGAAGTAAGGTTTAAAAAAAT
GAACTTAAAATTTGATTAAATTAGGGCAACTGATCTTCATGGTATTTCATT
Found at i:103709 original size:167 final size:169
Alignment explanation
Indices: 103433--103773 Score: 659
Period size: 167 Copynumber: 2.0 Consensus size: 169
103423 AAGTTTTTTT
103433 AAAAAAAAACTTTATTAACTTTGAAAAATATTCTACAAAAAATTGCTGAAATGAATGGATGAATA
1 AAAAAAAAACTTTATTAACTTTGAAAAATATTCTACAAAAAATTGCTGAAATGAATGGATGAATA
103498 ATGGAAGTATAGCCTTCTACCTCCTCAATTGACCGTAGAGATTAGTTTAATCTATGGAC-TATTT
66 ATGGAAGTATAGCCTTCTACCTCCTCAATTGACCGTAGAGATTAGTTTAATCTATGGACATATTT
103562 TACATCCAGAACTTTCCTCTAAATTTCTAGTT-AATATG
131 TACATCCAGAACTTTCCTCTAAATTTCTAGTTAAATATG
103600 AAAAAAAAACTTTATTAACTTTGAAAAATATTCTACAAAAAATTGCTGAAATGAATGGATGAATA
1 AAAAAAAAACTTTATTAACTTTGAAAAATATTCTACAAAAAATTGCTGAAATGAATGGATGAATA
103665 ATGGAAGTATAGCCTTCTACCTCCTCAATTGACCGTAGAGATTAGTTTAATCTATGGACTATATT
66 ATGGAAGTATAGCCTTCTACCTCCTCAATTGACCGTAGAGATTAGTTTAATCTATGGAC-ATATT
103730 TTACATCCAGAACTTTCCTCTAAATTTCTAGTTAAATATG
130 TTACATCCAGAACTTTCCTCTAAATTTCTAGTTAAATATG
103770 AAAA
1 AAAA
103774 TATAGGAATA
Statistics
Matches: 171, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
167 124 0.73
169 37 0.22
170 10 0.06
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (169 bp):
AAAAAAAAACTTTATTAACTTTGAAAAATATTCTACAAAAAATTGCTGAAATGAATGGATGAATA
ATGGAAGTATAGCCTTCTACCTCCTCAATTGACCGTAGAGATTAGTTTAATCTATGGACATATTT
TACATCCAGAACTTTCCTCTAAATTTCTAGTTAAATATG
Found at i:104493 original size:38 final size:39
Alignment explanation
Indices: 104442--104531 Score: 128
Period size: 38 Copynumber: 2.3 Consensus size: 39
104432 TTTGCACCCT
104442 AAACCCGACCCGACCCGACCCGAACAG-TACATTTTAAA
1 AAACCCGACCCGACCCGACCCGAACAGATACATTTTAAA
* ***
104480 AAACCCGACCCGACCCGACCCGAACCGATTTTTTTTAAA
1 AAACCCGACCCGACCCGACCCGAACAGATACATTTTAAA
*
104519 AAATCCGACCCGA
1 AAACCCGACCCGA
104532 TCAGGTTGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 26 0.57
39 20 0.43
ACGTcount: A:0.34, C:0.37, G:0.13, T:0.16
Consensus pattern (39 bp):
AAACCCGACCCGACCCGACCCGAACAGATACATTTTAAA
Found at i:113079 original size:73 final size:73
Alignment explanation
Indices: 112901--113138 Score: 298
Period size: 73 Copynumber: 3.2 Consensus size: 73
112891 ATTTCAAGGG
* * * * * *
112901 AAACTTTCTTAAGCGAGATGAAATTTGTTTTAAG-AAAACAATCCCAAATGAGATAAAATTTCTT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAA-TT-TT
*
112965 GTTTTGAGAA
64 GTTTTGAGTA
* * * * *
112975 AAACTATCTCAAGCGAGACGAAGATTGTTTTAAGAAAAATAATCTCGAGCGAGATAAAATTTTGT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
*
113040 TTTGAGTG
66 TTTGAGTA
* * *
113048 AAATTGTCTCAAGTGAGATGAAGTTTATTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
*
113113 TTCGAGTA
66 TTTGAGTA
113121 AAACTGTCTCAAGCGAGA
1 AAACTGTCTCAAGCGAGA
113139 CGAATATCTC
Statistics
Matches: 139, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
73 89 0.64
74 31 0.22
75 19 0.14
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (73 bp):
AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
TTTGAGTA
Found at i:113099 original size:36 final size:36
Alignment explanation
Indices: 112911--113138 Score: 125
Period size: 36 Copynumber: 6.2 Consensus size: 36
112901 AAACTTTCTT
* *
112911 AAGCGAGATGAAATTTGTTTTAAG-AAAACAATCCC
1 AAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTC
** * * * *
112946 AAATGAGATAAAATTTCTTGTTTTGAGAAAAACTATCTC
1 AAGCGAGAT-GAA-GT-TTGTTTTAAGAAAAACAATCTC
* * *
112985 AAGCGAGACGAAGATTGTTTTAAGAAAAATAATCTC
1 AAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTC
* * * * ** ***
113021 GAGCGAGATAAAATTTTGTTTTGAGTGAAATTGTCTC
1 AAGCGAGAT-GAAGTTTGTTTTAAGAAAAACAATCTC
* *
113058 AAGTGAGATGAAGTTTATTTTAAGAAAAACAATCTC
1 AAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTC
* * * * ** * **
113094 GAGTGAGATAAAATTTTGTTTCGAGTAAAACTGTCTC
1 AAGCGAGAT-GAAGTTTGTTTTAAGAAAAACAATCTC
113131 AAGCGAGA
1 AAGCGAGA
113139 CGAATATCTC
Statistics
Matches: 139, Mismatches: 48, Indels: 10
0.71 0.24 0.05
Matches are distributed among these distances:
35 7 0.05
36 54 0.39
37 52 0.37
38 11 0.08
39 15 0.11
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (36 bp):
AAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTC
Found at i:113247 original size:20 final size:20
Alignment explanation
Indices: 113224--113266 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
113214 CCTGAAGGTA
*
113224 TTATGGATGGCCCAAAGGAC
1 TTATAGATGGCCCAAAGGAC
**
113244 TTATAGATGGCCTGAAGGAC
1 TTATAGATGGCCCAAAGGAC
113264 TTA
1 TTA
113267 CTCATCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
TTATAGATGGCCCAAAGGAC
Found at i:113425 original size:55 final size:53
Alignment explanation
Indices: 113310--113773 Score: 262
Period size: 55 Copynumber: 8.5 Consensus size: 53
113300 TTCTTAATTG
* * ** *
113310 TCAAGGAACCCCTAAAAATTAGGCTTAGCTCCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * * * *
113363 TCGAGAAACCCCTGAAAATCAGGCTTAGTTTTTTTTTTAAATTCATTTTAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTA--ATTTCTTTCAAATTCATTTGAAAACA
* * *
113418 TCAAGAAACACCTAAAAATTAGGCTTAATTTGTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * * * *
113471 TCAAGAAAACCCTAAAAATTAGGATTAATTTCTTTGAAAGTTCTTTTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTC-ATTTGAAAA-CA
** * * * * * * *
113527 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAATTTGAAAATCG
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTT-CAAATTCATTTGAAAA-CA
* ** * * * * * * *
113582 TCAACAAACTTCTGAAAATCAGACTTAGTATCTTTAAAAGCTCATTTGAAAATCG
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTTGAAAA-CA
*** * * * * * *
113637 TCAAGAAACTTTTGAAAATCAGACTTAATTTCTTTGAAAACTCACTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTT-CAAATTCATTTGAAAA-CA
** * * ** * * *
113692 TCAAGAAACTTCTGAAAATTAGAATTAATTTCTTTAAAAGCTCATTTGAAAATCG
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTTGAAAA-CA
** * *
113747 TCAAGAAACTTCTGAAAATCAGACTTA
1 TCAAGAAACCCCTAAAAATCAGGCTTA
113774 GTTAAAAAAA
Statistics
Matches: 345, Mismatches: 57, Indels: 16
0.83 0.14 0.04
Matches are distributed among these distances:
53 79 0.23
54 11 0.03
55 218 0.63
56 34 0.10
57 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
Found at i:113641 original size:110 final size:110
Alignment explanation
Indices: 113520--113776 Score: 397
Period size: 110 Copynumber: 2.3 Consensus size: 110
113510 GTTCTTTTTA
* * * *
113520 AAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAATTTGAAAATCGTCA
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAACTTAAAAATCATCA
* *
113585 ACAAACTTCTGAAAATCAGACTTAGTATCTTTAAAAGCTCATTTG
66 ACAAACTTCTGAAAATCAGAATTAATATCTTTAAAAGCTCATTTG
* * * *
113630 AAAATCGTCAAGAAACTTTTGAAAATCAGACTTAATTTCTTTGAAAACTCACTTAAAAATCATCA
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAACTTAAAAATCATCA
* * *
113695 AGAAACTTCTGAAAATTAGAATTAATTTCTTTAAAAGCTCATTTG
66 ACAAACTTCTGAAAATCAGAATTAATATCTTTAAAAGCTCATTTG
113740 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTT
1 AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTT
113777 AAAAAAACAC
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 132 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (110 bp):
AAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAACTTAAAAATCATCA
ACAAACTTCTGAAAATCAGAATTAATATCTTTAAAAGCTCATTTG
Found at i:115735 original size:11 final size:11
Alignment explanation
Indices: 115719--115789 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 11
115709 TCTTCTTTCT
115719 TTTTTTTCTTC
1 TTTTTTTCTTC
115730 TTTTTTTC--C
1 TTTTTTTCTTC
*
115739 CTTTTTT-TTC
1 TTTTTTTCTTC
*
115749 TGTTTTTC-TC
1 TTTTTTTCTTC
*
115759 TTTCTTT-TTC
1 TTTTTTTCTTC
*
115769 TGTTTTTCTTC
1 TTTTTTTCTTC
*
115780 CTTTTTTCTT
1 TTTTTTTCTT
115790 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
9 7 0.15
10 20 0.43
11 19 0.41
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:115743 original size:19 final size:19
Alignment explanation
Indices: 115720--115786 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 19
115710 CTTCTTTCTT
*
115720 TTTTTTCTTCTTTTTTTCCC
1 TTTTTT-TTCTGTTTTTCCC
*
115740 TTTTTTTTCTGTTTTTCTC
1 TTTTTTTTCTGTTTTTCCC
115759 TTTCTTTTTCTGTTTTTCTTCC
1 TTT-TTTTTCTGTTTTTC--CC
115781 TTTTTT
1 TTTTTT
115787 CTTTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 14 0.34
20 20 0.49
21 3 0.07
22 4 0.10
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTGTTTTTCCC
Found at i:115743 original size:20 final size:19
Alignment explanation
Indices: 115720--115786 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
115710 CTTCTTTCTT
115720 TTTTTTCTTCTTTTTTTCCC
1 TTTTTT-TTCTTTTTTTCCC
* *
115740 TTTTTTTTCTGTTTTTCTC
1 TTTTTTTTCTTTTTTTCCC
*
115759 TTTCTTTTTCTGTTTTTCTTCC
1 TTT-TTTTTCT-TTTTT-TCCC
115781 TTTTTT
1 TTTTTT
115787 CTTTTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.36
20 13 0.33
21 7 0.18
22 5 0.13
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTCCC
Found at i:115749 original size:31 final size:31
Alignment explanation
Indices: 115714--115829 Score: 101
Period size: 31 Copynumber: 3.7 Consensus size: 31
115704 TATTTTCTTC
* *
115714 TTTCTTTTTTTTCTTCTTTTTTTCCCTTTTT
1 TTTCTTTTTTCTCTTCTTTTTTTCTCTTTTT
* *
115745 TTTCTGTTTTTCTCTT-TCTTTTTCTGTTTTT
1 TTTCT-TTTTTCTCTTCTTTTTTTCTCTTTTT
* * * * *
115776 CTTCCTTTTTTCTTTTTATTTTTTTACTCATATT
1 -TTTCTTTTTTC-TCTTCTTTTTTT-CTCTTTTT
115810 TTTCTTTTTTCT-TTCTTTTT
1 TTTCTTTTTTCTCTTCTTTTT
115830 CTTTTTGCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
31 30 0.44
32 17 0.25
33 16 0.24
34 5 0.07
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTCTTTTTTCTCTTCTTTTTTTCTCTTTTT
Found at i:115783 original size:18 final size:20
Alignment explanation
Indices: 115743--115785 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
115733 TTTTCCCTTT
*
115743 TTTTTCTGTTTTTCTCTTTC
1 TTTTTCTGTTTTTCTCTTCC
115763 TTTTTCTG-TTTT-TCTTCC
1 TTTTTCTGTTTTTCTCTTCC
115781 TTTTT
1 TTTTT
115786 TCTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 4 0.18
20 8 0.36
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTCTGTTTTTCTCTTCC
Found at i:115824 original size:11 final size:10
Alignment explanation
Indices: 115714--115834 Score: 75
Period size: 11 Copynumber: 11.3 Consensus size: 10
115704 TATTTTCTTC
115714 TTTC-TTTTT
1 TTTCTTTTTT
115723 TTTCTTCTTTT
1 TTTCTT-TTTT
*
115734 TTTCCCTTTTT
1 TTT-CTTTTTT
*
115745 TTTCTGTTTT
1 TTTCTTTTTT
* *
115755 TCTCTTTCTT
1 TTTCTTTTTT
115765 TTTCTGTTTTT
1 TTTCT-TTTTT
*
115776 CTTCCTTTTTT
1 -TTTCTTTTTT
115787 CTTT-TTATTTT
1 -TTTCTT-TTTT
* *
115798 TTTACTCATATT
1 TTT-CT-TTTTT
115810 TTTCTTTTTT
1 TTTCTTTTTT
115820 CTTTCTTTTTCT
1 -TTTCTTTTT-T
115832 TTT
1 TTT
115835 TGCTTTATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
9 4 0.05
10 25 0.29
11 44 0.51
12 14 0.16
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:115840 original size:7 final size:6
Alignment explanation
Indices: 115706--115861 Score: 51
Period size: 6 Copynumber: 26.0 Consensus size: 6
115696 GATCTGTCTA
** * *
115706 TTTTCT TCTTTCT TTTT-T TTCTTC- TTTT-T TTCCCT TTTT-T TTCTGT
1 TTTTCT T-TTTCT TTTTCT TT-TTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * *
115752 TTTTCT CTTTCT TTTTCT GTTTT-T CTTCCTT TTTTCT TTTTAT TTTT-T
1 TTTTCT TTTTCT TTTTCT -TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT
* * * *
115800 TACTCATAT TTTTCT TTTT-T CTTTCT TTTTCT TTTTGCT TTATT-T TTTTGT
1 T--T-TTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TT-TTCT TTTTCT
*
115851 GTTT-T TTTTCT
1 TTTTCT TTTTCT
115862 ATATCTCTTC
Statistics
Matches: 111, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
5 25 0.23
6 61 0.55
7 20 0.18
8 3 0.03
9 2 0.02
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:117236 original size:20 final size:21
Alignment explanation
Indices: 117198--117246 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
117188 ATGCTCATGC
*
117198 AAATGCAAAGATGCAAAATG-
1 AAATGCAAAGATACAAAATGT
117218 AGAATGCAAA-ATACAAAATGT
1 A-AATGCAAAGATACAAAATGT
117239 AAATGCAA
1 AAATGCAA
117247 CAAAAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.16
Consensus pattern (21 bp):
AAATGCAAAGATACAAAATGT
Found at i:118263 original size:21 final size:21
Alignment explanation
Indices: 118237--118281 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
118227 TAGGAGTAAA
118237 GGTACTCGAATTGTCCTTGTC
1 GGTACTCGAATTGTCCTTGTC
118258 GGTACTCGAATTGTCCTTGTC
1 GGTACTCGAATTGTCCTTGTC
118279 GGT
1 GGT
118282 GCCCCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (21 bp):
GGTACTCGAATTGTCCTTGTC
Found at i:122045 original size:10 final size:10
Alignment explanation
Indices: 122032--122056 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
122022 CTGTTACCAT
122032 TACATATATA
1 TACATATATA
122042 TACATATATA
1 TACATATATA
122052 TACAT
1 TACAT
122057 CCTATTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (10 bp):
TACATATATA
Found at i:122929 original size:2 final size:2
Alignment explanation
Indices: 122922--122948 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122912 TTTACCCTTT
122922 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
122949 TGAATCTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123199 original size:5 final size:5
Alignment explanation
Indices: 123189--123225 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
123179 GGAAAAATAT
123189 TTAAA TTAAA TATAAA TTAAA TATAAA TTAAA TTAAA
1 TTAAA TTAAA T-TAAA TTAAA T-TAAA TTAAA TTAAA
123226 AAAGCCCTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TTAAA
Found at i:123206 original size:11 final size:11
Alignment explanation
Indices: 123190--123225 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
123180 GAAAAATATT
123190 TAAATTAAATA
1 TAAATTAAATA
123201 TAAATTAAATA
1 TAAATTAAATA
123212 TAAATTAAAT-
1 TAAATTAAATA
123222 TAAA
1 TAAA
123226 AAAGCCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATTAAATA
Found at i:123210 original size:16 final size:16
Alignment explanation
Indices: 123189--123225 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
123179 GGAAAAATAT
123189 TTAAATTAAATATAAA
1 TTAAATTAAATATAAA
123205 TTAAATATAAAT-TAAA
1 TTAAAT-TAAATATAAA
123221 TTAAA
1 TTAAA
123226 AAAGCCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAATTAAATATAAA
Found at i:125125 original size:29 final size:23
Alignment explanation
Indices: 125024--125114 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
125014 TTTTTAATAA
* *
125024 CTTTGTCTTTATGACACAATTTT
1 CTTTGCCTTTGTGACACAATTTT
* *
125047 CTTTGTCTTTATGACACAATTTT
1 CTTTGCCTTTGTGACACAATTTT
125070 CTTTGCCTTTGTGACACAATTTT
1 CTTTGCCTTTGTGACACAATTTT
125093 CTTTGCCTTTGTGACACAATTT
1 CTTTGCCTTTGTGACACAATTT
125115 CCTCTACCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (23 bp):
CTTTGCCTTTGTGACACAATTTT
Found at i:125125 original size:46 final size:46
Alignment explanation
Indices: 125030--125125 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
125020 ATAACTTTGT
* * * *
125030 CTTTATGACACAATTTTCTTTGTCTTTATGACACAATTTTCTTTGC
1 CTTTATGACACAATTTTCTTTGCCTTTATGACACAATTTCCTCTAC
* *
125076 CTTTGTGACACAATTTTCTTTGCCTTTGTGACACAATTTCCTCTAC
1 CTTTATGACACAATTTTCTTTGCCTTTATGACACAATTTCCTCTAC
125122 CTTT
1 CTTT
125126 CGGTACGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (46 bp):
CTTTATGACACAATTTTCTTTGCCTTTATGACACAATTTCCTCTAC
Found at i:129673 original size:65 final size:63
Alignment explanation
Indices: 129604--129763 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 63
129594 AATTAAATTG
*
129604 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGA-GGAT-TTTATG
1 AACATCGAATGCATTTAATGCATCGATGCACA-ACCATGCACCGATGCACT-ATGGATATTT-T-
129667 AA
62 AA
* * * ** *
129669 AACATCGAATGCATTTGATGAATCGATGCACCAGCCATGCATTGATGCACTATGGCTATTTTAA
1 AACATCGAATGCATTTAATGCATCGATGCA-CAACCATGCACCGATGCACTATGGATATTTTAA
* *
129733 ATCATCGAATGCACTTAATGCATCGATGCAC
1 AACATCGAATGCATTTAATGCATCGATGCAC
129764 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 47 0.57
66 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTAATGCATCGATGCACAACCATGCACCGATGCACTATGGATATTTTAA
Found at i:129763 original size:17 final size:17
Alignment explanation
Indices: 129735--129783 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
129725 TATTTTAAAT
129735 CATCGAATGCACTTAATG
1 CATCG-ATGCACTTAATG
*
129753 CATCGATGCACTCTTAGTG
1 CATCGATGCA--CTTAATG
*
129772 CACCGATGCACT
1 CATCGATGCACT
129784 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 15 0.56
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (17 bp):
CATCGATGCACTTAATG
Found at i:129773 original size:19 final size:19
Alignment explanation
Indices: 129746--129783 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
129736 ATCGAATGCA
*
129746 CTTAATGCATCGATGCACT
1 CTTAATGCACCGATGCACT
*
129765 CTTAGTGCACCGATGCACT
1 CTTAATGCACCGATGCACT
129784 AAGGGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (19 bp):
CTTAATGCACCGATGCACT
Found at i:138461 original size:65 final size:65
Alignment explanation
Indices: 138350--138509 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
138340 AATTAAATTG
* * *
138350 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGAACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTT-T-
138413 AA
64 AA
* * * * *
138415 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCACGCATCGATGCACTCTGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTTTAA
* *
138479 ATCATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
138510 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 31 0.37
65 47 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTTTAA
Found at i:138524 original size:19 final size:19
Alignment explanation
Indices: 138497--138548 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
138487 ATGCACTTGA
*
138497 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
138516 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
138535 TGCACCGATGCACT
1 TGCACCGATGCACT
138549 AAGGGTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:138525 original size:64 final size:63
Alignment explanation
Indices: 138350--138531 Score: 174
Period size: 65 Copynumber: 2.8 Consensus size: 63
138340 AATTAAATTG
* * **
138350 AACATCGAATGCATTTCATGCATCGATGCACATACCA-TGCACCGATGAACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCAC-T--CAGTGCACCGATGCACTCTGGATTTTATGA
138414 A
63 A
* * *
138415 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCACGCATCGATGCACTCTGGCTATTT-T-
1 AACATCGAATGCATTTGATGCATCGATGCACTCAG---TGCACCGATGCACTCTGGAT-TTTATG
138477 AA
62 AA
* *
138479 ATCATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACTCT
1 AACATCGAATGCATTTGATGCATCGATGCACTC--AGTGCACCGATGCACTCT
138532 TAGTGCACCG
Statistics
Matches: 98, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
61 2 0.02
64 45 0.46
65 46 0.47
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGTGCACCGATGCACTCTGGATTTTATGAA
Found at i:142289 original size:16 final size:16
Alignment explanation
Indices: 142252--142289 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
142242 TAGTTTCACC
*
142252 ACACTGGAAACAAGTT
1 ACACTGGAAACAAGCT
*
142268 ATACTGGAAACAAGCT
1 ACACTGGAAACAAGCT
142284 ACACTG
1 ACACTG
142290 AGCAATCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (16 bp):
ACACTGGAAACAAGCT
Found at i:144206 original size:53 final size:53
Alignment explanation
Indices: 144143--144297 Score: 283
Period size: 53 Copynumber: 2.9 Consensus size: 53
144133 ACTAAGGTAA
*
144143 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGTACACATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
*
144196 CGAAATGGTAATTCACAAACTCGTTATGAATACCATGGATGCACACATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
*
144249 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATA
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATA
144298 TGCATTACAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 98 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (53 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
Found at i:144848 original size:22 final size:22
Alignment explanation
Indices: 144820--144891 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
144810 CCCTCCTACA
144820 GTATCGATACTTCTCTTCTATG
1 GTATCGATACTTCTCTTCTATG
*
144842 GTATCGATAC-CCTCTTC-A--
1 GTATCGATACTTCTCTTCTATG
*
144860 GTATCGATACTTTTCTTCTATG
1 GTATCGATACTTCTCTTCTATG
*
144882 GTACCGATAC
1 GTATCGATAC
144892 CCTTTTCAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 10 0.24
19 5 0.12
20 2 0.05
21 6 0.14
22 19 0.45
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (22 bp):
GTATCGATACTTCTCTTCTATG
Found at i:144865 original size:18 final size:18
Alignment explanation
Indices: 144818--144910 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 18
144808 ACCCCTCCTA
*
144818 CAGTATCGATACTTCTCTT
1 CAGTATCGATAC-CCTCTT
144837 CTATGGTATCGATACCCTCTT
1 C-A--GTATCGATACCCTCTT
**
144858 CAGTATCGATACTTTTCTT
1 CAGTATCGATAC-CCTCTT
* *
144877 CTATGGTACCGATACCCTTTT
1 C-A--GTATCGATACCCTCTT
*
144898 CAGTATTGATACC
1 CAGTATCGATACC
144911 ATTTTTGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
18 19 0.33
19 6 0.10
20 4 0.07
21 10 0.17
22 19 0.33
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (18 bp):
CAGTATCGATACCCTCTT
Found at i:144867 original size:40 final size:40
Alignment explanation
Indices: 144818--144909 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
144808 ACCCCTCCTA
*
144818 CAGTATCGATACTTCTCTTCTATGGTATCGATACCCTCTT
1 CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
* *
144858 CAGTATCGATACTTTTCTTCTATGGTACCGATACCCTTTT
1 CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
*
144898 CAGTATTGATAC
1 CAGTATCGATAC
144910 CATTTTTGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (40 bp):
CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
Found at i:148401 original size:29 final size:29
Alignment explanation
Indices: 148360--148415 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
148350 GTAAATCCCA
*
148360 AAATAAAAACTCGAGTG-CCTAATGGGTT
1 AAATAAAAACTCGAATGTCCTAATGGGTT
148388 AAATATAAAACTCGAATGTCCTAATGGG
1 AAATA-AAAACTCGAATGTCCTAATGGG
148416 CCAAAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 9 0.36
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (29 bp):
AAATAAAAACTCGAATGTCCTAATGGGTT
Found at i:148580 original size:15 final size:15
Alignment explanation
Indices: 148534--148638 Score: 79
Period size: 15 Copynumber: 6.7 Consensus size: 15
148524 TTTCTTAAGG
* *
148534 TTTAAATTTTAGATA
1 TTTAGATTTTAGAAA
*
148549 TTTAGATTCTA-AAA
1 TTTAGATTTTAGAAA
*
148563 TTTATATTTTAGAAA
1 TTTAGATTTTAGAAA
*
148578 TTTAGATTCTA-AAA
1 TTTAGATTTTAGAAA
*
148592 TTTATATTTTAGGATTTAAGA
1 TTTAGATTTTA-G----AA-A
*
148613 TTTAAATTTTAGAAA
1 TTTAGATTTTAGAAA
148628 TTTAGATTTTA
1 TTTAGATTTTA
148639 AGGTCCAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
14 23 0.32
15 32 0.45
16 2 0.03
20 3 0.04
21 11 0.15
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTAGATTTTAGAAA
Found at i:148580 original size:29 final size:29
Alignment explanation
Indices: 148534--148603 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
148524 TTTCTTAAGG
* *
148534 TTTAAATTTTAGATATTTAGATTCTAAAA
1 TTTATATTTTAGAAATTTAGATTCTAAAA
148563 TTTATATTTTAGAAATTTAGATTCTAAAA
1 TTTATATTTTAGAAATTTAGATTCTAAAA
148592 TTTATATTTTAG
1 TTTATATTTTAG
148604 GATTTAAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTATATTTTAGAAATTTAGATTCTAAAA
Found at i:148594 original size:14 final size:14
Alignment explanation
Indices: 148548--148595 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
148538 AATTTTAGAT
148548 ATTTAGATTCTAAA
1 ATTTAGATTCTAAA
* *
148562 ATTTATATTTTAGAA
1 ATTTAGATTCTA-AA
148577 ATTTAGATTCTAAA
1 ATTTAGATTCTAAA
148591 ATTTA
1 ATTTA
148596 TATTTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (14 bp):
ATTTAGATTCTAAA
Done.