Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold402
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: 314471
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.31
Warning! 21029 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5155 original size:16 final size:15
Alignment explanation
Indices: 5142--5387 Score: 131
Period size: 16 Copynumber: 15.7 Consensus size: 15
5132 TCGTATTATG
5142 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
5157 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
5173 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
5189 T--GTATCAT-T-TTAA
1 TAAGT-T-ATGTATTAA
*
5202 -AA-TATATATATTAA
1 TAAGT-TATGTATTAA
*
5216 TAAGTTATGTTGTATTATG
1 TAAGTTA---TGTATTA-A
5235 TAAGTTATGTATTATA
1 TAAGTTATGTATTA-A
5251 TAAGTTATGTATTATA
1 TAAGTTATGTATTA-A
5267 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
5282 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
*
5298 T--G-TAT-CACTTTAA
1 TAAGTTATGTA--TTAA
* *
5311 -AATATATATATATTAA
1 TAA-GT-TATGTATTAA
5327 TAAGTTATGTCGTATTATA
1 TAAGTTA--T-GTATTA-A
5346 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
5361 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
5377 TAAGTTATGTA
1 TAAGTTATGTA
5388 AGTTACGTAT
Statistics
Matches: 186, Mismatches: 13, Indels: 64
0.71 0.05 0.24
Matches are distributed among these distances:
11 1 0.01
12 6 0.03
13 9 0.05
14 7 0.04
15 39 0.21
16 86 0.46
17 11 0.06
18 12 0.06
19 15 0.08
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:5244 original size:9 final size:9
Alignment explanation
Indices: 5230--5301 Score: 68
Period size: 9 Copynumber: 8.8 Consensus size: 9
5220 TTATGTTGTA
5230 TTATGTAAG
1 TTATGTAAG
5239 TTATGT-A-
1 TTATGTAAG
*
5246 TTATATAAG
1 TTATGTAAG
5255 TTATGT-A-
1 TTATGTAAG
*
5262 TTATATAAG
1 TTATGTAAG
5271 TTATGT-A-
1 TTATGTAAG
*
5278 TTA-ATAAG
1 TTATGTAAG
5286 TTATGTAAG
1 TTATGTAAG
5295 TTATGTA
1 TTATGTA
5302 TCACTTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.02
7 14 0.28
8 8 0.16
9 27 0.54
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:5263 original size:109 final size:110
Alignment explanation
Indices: 5134--5387 Score: 406
Period size: 109 Copynumber: 2.3 Consensus size: 110
5124 TTATTATGTC
* *
5134 GTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCA-TT
1 GTATTATATAAGTTATGTATTAATAA-GTTATGTATTAATAAGTTATGTAAGTTATGTATCACTT
* * *
5198 TTAAA-ATATATATATTAATAAGTTATGTTGTATTATGTAAGTTAT
65 TAAAATATATATATATTAATAAGTTATGTCGTATTATATAAGTTAT
5243 GTATTATATAAGTTATGTATTATATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATCACTT
1 GTATTATATAAGTTATGTATTA-ATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATCACTT
5308 TAAAATATATATATATTAATAAGTTATGTCGTATTATATAAGTTAT
65 TAAAATATATATATATTAATAAGTTATGTCGTATTATATAAGTTAT
*
5354 GTATTA-AAAATGTTATGTATTAATAAGTTATGTA
1 GTATTATATAA-GTTATGTATTAATAAGTTATGTA
5388 AGTTACGTAT
Statistics
Matches: 135, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
109 56 0.41
110 24 0.18
111 55 0.41
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (110 bp):
GTATTATATAAGTTATGTATTAATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATCACTTT
AAAATATATATATATTAATAAGTTATGTCGTATTATATAAGTTAT
Found at i:5353 original size:95 final size:97
Alignment explanation
Indices: 5243--5435 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 97
5233 TGTAAGTTAT
* *
5243 GTATTATATAAGTTATGTATTATATAA-GTTATGTATTAATAAGTTATGTAAGTTATGTATCACT
1 GTATTATATAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTACGTATCACT
5307 TT-AAA-ATATATATATATTAATAAGTTATGTC
65 TTAAAATATATATATATATTAATAAGTTATGTC
*
5338 GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTACGTATCATTT
1 GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTACGTATCACTT
5403 TAAAAAATATATATATATATTAATAAGTTATGT
66 T--AAAATATATATATATATTAATAAGTTATGT
5436 AATGTATGTA
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
94 3 0.03
95 59 0.66
98 3 0.03
99 25 0.28
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (97 bp):
GTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTACGTATCACTT
TAAAATATATATATATATTAATAAGTTATGTC
Found at i:9439 original size:41 final size:41
Alignment explanation
Indices: 9346--9439 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
9336 GCTAGCTACA
* *
9346 AAACGCCGCTAATGCTTCGGTCTTTAGCGGCGTTTTCTAAT
1 AAACGCCGCTAATGCTGCGGTCTTTAGCGGCGTTTTCTAAG
** * *
9387 ATGCGCCGCTAATGCTGCGGTTTTTAGCGGTGCTTTT-TAAG
1 AAACGCCGCTAATGCTGCGGTCTTTAGCGGCG-TTTTCTAAG
*
9428 AAACGCAGCTAA
1 AAACGCCGCTAA
9440 AGACTTGAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
41 39 0.91
42 4 0.09
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
AAACGCCGCTAATGCTGCGGTCTTTAGCGGCGTTTTCTAAG
Found at i:9455 original size:41 final size:41
Alignment explanation
Indices: 9410--9674 Score: 329
Period size: 41 Copynumber: 6.5 Consensus size: 41
9400 GCTGCGGTTT
* * * * *
9410 TTAGCGGTGCTTTTTAAGAAACGCAGCTAAAGA-CTTGAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
* *
9451 TTAGC-GCACTTTGTAAAAAACGCCGCTAAAGACCATAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
9491 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
* *
9532 TCAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGAA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
*
9573 TCAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
* * * * * *
9614 TTAGCGGCGCATAT-TATAAAACGCCGCGAGAGACCGCAACA
1 TTAGCGGCGC-TTTGTAAAAAACGCCGCTAAAGACCGTAGCA
*
9655 TTAGCGGCGATTATGTAAAA
1 TTAGCGGCGCTT-TGTAAAA
9675 GCGCCGTTAA
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
40 32 0.16
41 160 0.81
42 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
Found at i:9887 original size:12 final size:12
Alignment explanation
Indices: 9870--9894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9860 TTTGTCCAAA
9870 CGCCGCTAAAAG
1 CGCCGCTAAAAG
9882 CGCCGCTAAAAG
1 CGCCGCTAAAAG
9894 C
1 C
9895 CTGTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CGCCGCTAAAAG
Found at i:10515 original size:27 final size:27
Alignment explanation
Indices: 10478--10611 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
10468 TTTTGAACAA
10478 AAAT-TATTTTATTTAAACTAATATTT
1 AAATATATTTTATTTAAACTAATATTT
10504 AAATATATTTTATTTAAACT--TATTT
1 AAATATATTTTATTTAAACTAATATTT
* *
10529 -ATTA-ATTCTATTTAAACTAATATTT
1 AAATATATTTTATTTAAACTAATATTT
10554 AAATATATTTTATTTAAACT--TATTT
1 AAATATATTTTATTTAAACTAATATTT
* *
10579 -ATTA-ATTCTATTTAAACTAATATTT
1 AAATATATTTTATTTAAACTAATATTT
10604 AAATATAT
1 AAATATAT
10612 CAAATGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
23 26 0.28
24 6 0.07
25 20 0.22
26 10 0.11
27 30 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATATATTTTATTTAAACTAATATTT
Found at i:10552 original size:50 final size:50
Alignment explanation
Indices: 10487--10611 Score: 250
Period size: 50 Copynumber: 2.5 Consensus size: 50
10477 AAAATTATTT
10487 TATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTTATTAATTC
1 TATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTTATTAATTC
10537 TATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTTATTAATTC
1 TATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTTATTAATTC
10587 TATTTAAACTAATATTTAAATATAT
1 TATTTAAACTAATATTTAAATATAT
10612 CAAATGGTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (50 bp):
TATTTAAACTAATATTTAAATATATTTTATTTAAACTTATTTATTAATTC
Found at i:10578 original size:15 final size:15
Alignment explanation
Indices: 10481--10528 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
10471 TGAACAAAAA
10481 TTATTTTATTTAAAC
1 TTATTTTATTTAAAC
*
10496 -TA--ATATTTAAA-
1 TTATTTTATTTAAAC
10507 TATATTTTATTTAAAC
1 T-TATTTTATTTAAAC
10523 TTATTT
1 TTATTT
10529 ATTAATTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 2 0.08
15 13 0.50
16 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTTTATTTAAAC
Found at i:10932 original size:7 final size:7
Alignment explanation
Indices: 10912--10959 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
10902 AACCTTAAAT
10912 CCCTAAC
1 CCCTAAC
* *
10919 TCTTAAC
1 CCCTAAC
10926 CCCTAAC
1 CCCTAAC
**
10933 GTCTAAC
1 CCCTAAC
10940 CCCTAAC
1 CCCTAAC
10947 CCCTAAC
1 CCCTAAC
*
10954 TCCTAA
1 CCCTAA
10960 ACCTTAAATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.29, C:0.46, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:12339 original size:14 final size:14
Alignment explanation
Indices: 12269--12339 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
12259 ACCCTTGAAT
* *
12269 CCCTAAGCCTTAAAT
1 CCCTAAACCTT-AAC
12284 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
12298 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
12312 CCCTAAACCCTTAAC
1 CCCTAAA-CCTTAAC
12327 CCCTAAACCTTAA
1 CCCTAAACCTTAA
12340 ATCCAAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
13 1 0.02
14 25 0.52
15 20 0.42
16 2 0.04
ACGTcount: A:0.34, C:0.41, G:0.01, T:0.24
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:12366 original size:14 final size:14
Alignment explanation
Indices: 12349--12399 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
12339 AATCCAAACA
12349 CTTAAACCATAATC
1 CTTAAACCATAATC
**
12363 CTTAATTCATAATC
1 CTTAAACCATAATC
* *
12377 CCTAAATCCATACTC
1 CTTAAA-CCATAATC
12392 CTTAAACC
1 CTTAAACC
12400 TTAAAATATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.31
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:12652 original size:21 final size:22
Alignment explanation
Indices: 12597--12665 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
12587 CCTCACTCAT
12597 CTAACCCCTAAACCCATAAATCC
1 CTAACCCCTAAA-CCATAAATCC
*
12620 CTAACCCCTAAACCTTAAATCC
1 CTAACCCCTAAACCATAAATCC
*
12642 C-AACCCTTAAACCAT-AATCC
1 CTAACCCCTAAACCATAAATCC
12662 CTAA
1 CTAA
12666 TCCATACTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.14
21 14 0.33
22 10 0.24
23 12 0.29
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAACCCCTAAACCATAAATCC
Found at i:13187 original size:39 final size:40
Alignment explanation
Indices: 13138--13273 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
13128 TGGGCTTAGG
* * *
13138 TTTTTTGCGGCGTTTTTCGAAAAACGCCGCTAATTCTC-A
1 TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCAA
*
13177 TTTTTAGCGGCGATTTTCAAAAAACGCCGCTAATGCTCAA
1 TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCAA
* * * * * * * *
13217 TCTTTAGTGGTGATTTCCATAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCAA
*
13257 TTTTTACCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
13274 TGTCCAAACG
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 34 0.43
40 45 0.57
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCAA
Found at i:13344 original size:3 final size:3
Alignment explanation
Indices: 13338--13369 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13328 AAGAATAAGA
*
13338 AGG AGG AGG AGG AGG AGG AGG AGG AGA AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
13370 AGGGCGGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:13424 original size:14 final size:14
Alignment explanation
Indices: 13390--13420 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13380 TGGAAAAAGA
13390 AAAGAGAATGAGAG
1 AAAGAGAATGAGAG
13404 AAAGAGAAT-AGAG
1 AAAGAGAATGAGAG
13417 AAAG
1 AAAG
13421 GAGACAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.06
Consensus pattern (14 bp):
AAAGAGAATGAGAG
Found at i:13800 original size:16 final size:16
Alignment explanation
Indices: 13779--13888 Score: 50
Period size: 16 Copynumber: 6.9 Consensus size: 16
13769 AAACCCTAAT
13779 TATTATTGTTAGTTAG
1 TATTATTGTTAGTTAG
* *
13795 TATTATTTTTAGTAAG
1 TATTATTGTTAGTTAG
** * * *
13811 -AAAACTATTA-TTAT
1 TATTATTGTTAGTTAG
13825 TATTA-TGTTAGTTTTTAG
1 TATTATTGTTAG---TTAG
* * *
13843 GATT-TAGTTA-TTAA
1 TATTATTGTTAGTTAG
*
13857 TAATTATTGTTACTTAG
1 TA-TTATTGTTAGTTAG
13874 TATTATTGTTAGTTA
1 TATTATTGTTAGTTA
13889 TTAATAATTA
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
14 10 0.15
15 10 0.15
16 31 0.47
17 5 0.08
18 10 0.15
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (16 bp):
TATTATTGTTAGTTAG
Found at i:13818 original size:76 final size:79
Alignment explanation
Indices: 13617--13837 Score: 200
Period size: 76 Copynumber: 2.8 Consensus size: 79
13607 GTTTAGTTAT
* * * *
13617 TAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAAGTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAACT-ATATCATTATTA-GGTTAGTTAT
13682 TAGGATTAGTAAAAACCC
64 T--GATTAGTAAAAACCC
** * *** * *
13700 TAATTATTATT-TTAGTTAGTACGATTGTTAGTTTTTACACTATATCATTGTTA-GTTA-TTATT
1 TAATTATTATTGTTAGTTAGTATTATTATTAG-TAAAAAACTATATCATTATTAGGTTAGTTATT
*
13762 -TTTAGT-AAAACCC
65 GATTAGTAAAAACCC
* * *
13775 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAGAAAACTATTATTATTATTATGTTAGTT
1 TAATTATTATTGTTAGTTAGTATTATTATTAGTAA-AAAACTA-TATCATTATTAGGTTAGTT
13838 TTTAGGATTT
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
75 19 0.17
76 27 0.25
77 9 0.08
78 4 0.04
79 7 0.06
80 4 0.04
82 26 0.24
83 14 0.13
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (79 bp):
TAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAACTATATCATTATTAGGTTAGTTATTG
ATTAGTAAAAACCC
Found at i:13863 original size:36 final size:38
Alignment explanation
Indices: 13823--13923 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 38
13813 AACTATTATT
**
13823 ATTATTATGTTAGTTTTTAGGA-T-TTAGTTATTAATA
1 ATTATTATGTTAGTTAGTAGGATTGTTAGTTATTAATA
* **
13859 ATTA-T-TGTTACTTAGTATTATTGTTAGTTATTAATA
1 ATTATTATGTTAGTTAGTAGGATTGTTAGTTATTAATA
* *
13895 ATTATTATTTTAGTTAGTATGATTGTTAG
1 ATTATTATGTTAGTTAGTAGGATTGTTAG
13924 ATTTTACACT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 10 0.19
35 2 0.04
36 21 0.40
37 1 0.02
38 19 0.36
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (38 bp):
ATTATTATGTTAGTTAGTAGGATTGTTAGTTATTAATA
Found at i:13941 original size:38 final size:39
Alignment explanation
Indices: 13846--13923 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 39
13836 TTTTTAGGAT
*
13846 TTAGTTATTAAT-A--ATTATTGTTACTTAGTATTATTG
1 TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
*
13882 TTAGTTATTAATAATTATTATT-TTAGTTAGTATGATTG
1 TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
13920 TTAG
1 TTAG
13924 ATTTTACACT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 12 0.32
37 1 0.03
38 18 0.49
39 6 0.16
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (39 bp):
TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
Found at i:16089 original size:3 final size:3
Alignment explanation
Indices: 16081--16160 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
16071 NNNNNNNNNN
*
16081 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16129 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16161 GGATTAAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17783 original size:29 final size:29
Alignment explanation
Indices: 17750--17812 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
17740 ATAAAGTCGC
* *
17750 AGTGTCTAAACCGACAGTATATATTGGGG
1 AGTGTCTAAACCGACAATATATATTGGGA
17779 AGTGTCTAAACCGACAATATATATTGGGA
1 AGTGTCTAAACCGACAATATATATTGGGA
17808 AGTGT
1 AGTGT
17813 TGGAAGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (29 bp):
AGTGTCTAAACCGACAATATATATTGGGA
Found at i:19544 original size:183 final size:183
Alignment explanation
Indices: 19236--19600 Score: 649
Period size: 183 Copynumber: 2.0 Consensus size: 183
19226 TCGAAACACT
* *
19236 TCATTATCCACGTGCGCATGTCGTGACAGTGTGTGCTAAAGTGAACCTTAATGTTGAACAATTTT
1 TCATTATCCACGTGCGCATGTCGTGACAGCGTGTGCTAAAGTGAACCTTAATGTTGAACAATTTG
*
19301 TCAATGATGTGTACATGCTCGAGCGCACATTGCGTGTCTGGAAAAATGAGTTCCCTGTCCTACCT
66 TCAATGATGTGTACACGCTCGAGCGCACATTGCGTGTCTGGAAAAATGAGTTCCCTGTCCTACCT
**
19366 GACCTGTCTACGTGGGAGGTGCCTCCGATGACTTTCGAGCTTGTCCCAGACAA
131 GACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAGACAA
*
19419 TCATTATCCATGTGCGCATGTCGTGACAGCGTGTGCTAAAGTGAACCTTAATGTTGAACAATTTG
1 TCATTATCCACGTGCGCATGTCGTGACAGCGTGTGCTAAAGTGAACCTTAATGTTGAACAATTTG
* *
19484 TCAATGATGTGTACACGCTCGAGCGCACATTGCGTGTCTGGGAAAATGAGTTTCCTGTCCTACCT
66 TCAATGATGTGTACACGCTCGAGCGCACATTGCGTGTCTGGAAAAATGAGTTCCCTGTCCTACCT
*
19549 GACCTGTCTACGTGGGAGGTGCCTTCGACAACTTTCGAGCTTGTCCCAGACA
131 GACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAGACA
19601 GAGGGCTACG
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 173 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (183 bp):
TCATTATCCACGTGCGCATGTCGTGACAGCGTGTGCTAAAGTGAACCTTAATGTTGAACAATTTG
TCAATGATGTGTACACGCTCGAGCGCACATTGCGTGTCTGGAAAAATGAGTTCCCTGTCCTACCT
GACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAGACAA
Found at i:19829 original size:8 final size:8
Alignment explanation
Indices: 19801--19842 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
19791 GAGCTTATGC
*
19801 TGTAAAGT
1 TGTAATGT
*
19809 TGTTATG-
1 TGTAATGT
*
19816 TGTAATAT
1 TGTAATGT
19824 TGTAATGT
1 TGTAATGT
19832 TGTAATGT
1 TGTAATGT
19840 TGT
1 TGT
19843 TGTAACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:19886 original size:8 final size:8
Alignment explanation
Indices: 19864--19911 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
19854 TTAACTTATA
*
19864 GTTGTTAT
1 GTTGTAAT
19872 G-TGTAAT
1 GTTGTAAT
19879 GTTGTAAT
1 GTTGTAAT
19887 GTTGTAAT
1 GTTGTAAT
19895 GTTGTAAT
1 GTTGTAAT
19903 GTTGTAAT
1 GTTGTAAT
19911 G
1 G
19912 CAAAAAAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 6 0.16
8 32 0.84
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (8 bp):
GTTGTAAT
Found at i:22396 original size:159 final size:159
Alignment explanation
Indices: 22114--22985 Score: 1304
Period size: 159 Copynumber: 5.5 Consensus size: 159
22104 ACTTCAAAAC
* * *
22114 AAATTTAGTAAAAAACCCTTATTTTGGCCTTTTGTTCG----TTT-TT-TTTCCGAATTTTATTA
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
*
22173 CTTTCAAAAAA-ATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
66 CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
22237 ATGTATTAATTTAGTGTATTTTTTTATAT
131 ATGTATTAATTTAGTGTATTTTTTTATAT
* * *
22266 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTTGAATTTTTCTTATTTTCGGATTTTATTA
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
* ** * *
22331 CTTACAAAAAATATGTTATTTTCGTATTTTATTATTTTATATTATTTTAGTATATAATGTTTGAA
66 CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
*
22396 ATGTATTAATTTAGTGTGTTTTTTTATAT
131 ATGTATTAATTTAGTGTATTTTTTTATAT
* * * *
22425 AAATTTAGTAAGAAGCCCTTATTTTGGCCTTTTGTTCGGATTTTTCTTATTTTCGGATTTTATTA
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
* *
22490 CCTTCAAAAAATATACTATTTTCGTATTTTATT-TTATTATATTATTTTAGTACATAATGTTTGA
66 CTTTCAAAAAATATACTATTTTCGTATTTTATTATT-TTATATTATTTTAGTACATAAAGTTTGA
*
22554 AATGTATTAATTTAGTGTGTTTTTTTTATAT
130 AATGTATTAATTTAGTGT-ATTTTTTTATAT
*
22585 AAATTTAGTAAAAAA-CCTTATTTTGGCCATTTGTTCGTATTTTTCTT-TTTTTGTTGAATTTTA
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCG--G-ATTTTA
* *
22648 TTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATT
63 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTT
* *
22713 GAAATATATTAATTTAGTGT-GTTTTTTATAT
128 GAAATGTATTAATTTAGTGTATTTTTTTATAT
*
22744 AAATTTAGTAAAAAACCCTTATTTTGGCTC-TTTGTTCGTATTTTTCTTTTTTTTTCGGATTTTA
1 AAATTTAGTAAAAAACCCTTATTTTGGC-CATTTGTTCGTATTTTTC--TTATTTTCGGATTTTA
*
22808 TTACTTTC-AAAAA-ATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTT
63 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTT
22871 GAAATGTATTAATTTAGTGTATTTTTTTATAT
128 GAAATGTATTAATTTAGTGTATTTTTTTATAT
* *
22903 AAATTTAGTAAAAAACTCTTATTTTGGTCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
*
22968 CTTTCAAAAAACATACTA
66 CTTTCAAAAAATATACTA
22986 ACTAAAATAA
Statistics
Matches: 656, Mismatches: 42, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
152 36 0.05
156 3 0.00
157 25 0.04
158 103 0.16
159 328 0.50
160 67 0.10
161 85 0.13
162 4 0.01
163 5 0.01
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTA
CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
ATGTATTAATTTAGTGTATTTTTTTATAT
Found at i:22829 original size:319 final size:316
Alignment explanation
Indices: 22114--22978 Score: 1342
Period size: 319 Copynumber: 2.7 Consensus size: 316
22104 ACTTCAAAAC
* *
22114 AAATTTAGTAAAAAACCCTTATTTTGGCC-TT-TT-G----TTCGTTTTTTTTCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCTTTGTTCGATTTTTC-TTTTTTTTTCGGATTTTATT
22172 ACTTTCAAAAAAATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
65 ACTTTCAAAAAAATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAA
*
22237 ATGTATTAATTTAGTGTATTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTT
130 ATGTATTAATTTAGTGTATTTTTTTATATAAATTTAGTAAAAAA-CCTTATTTTGGCCATTTGTT
* * * *
22302 TGAATTTTTCTTATTTTCGGATTTTATTACTTACAAAAAATATGTTATTTTCGTATTTTATTATT
194 CGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATT
* * * *
22367 TTATATTATTTTAGTATATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATAT
259 TTATATTATTTTAGTACATAAAGATTGAAATATATTAATTTAGTGTGTTTTTTTATAT
* * *
22425 AAATTTAGTAAGAAGCCCTTATTTTGGCCTTTTGTTCGGATTTTTC--TTATTTTCGGATTTTAT
1 AAATTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTC-GATTTTTCTTTTTTTTTCGGATTTTAT
* * *
22488 TACCTTCAAAAAATATACTATTTTCGTATTTTATT-TTATTATATTATTTTAGTACATAATGTTT
64 TACTTTCAAAAAA-ATACTATTTTTGTATTTTATTATT-TTATATTATTTTAGTACATAAAGTTT
*
22552 GAAATGTATTAATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAACCTTATTTTGGCCATTT
127 GAAATGTATTAATTTAGTGT-ATTTTTTTATATAAATTTAGTAAAAAACCTTATTTTGGCCATTT
*
22617 GTTCGTATTTTTCTT-TTTTTGTTGAATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTT
191 GTTCGTATTTTTCTTATTTTCG--G-ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTT
22681 ATTATTTTATATTATTTTAGTACATAAAGATTGAAATATATTAATTTAGTGTG-TTTTTTATAT
253 ATTATTTTATATTATTTTAGTACATAAAGATTGAAATATATTAATTTAGTGTGTTTTTTTATAT
22744 AAATTTAGTAAAAAACCCTTATTTTGGCTCTTTGTTCGTATTTTTCTTTTTTTTTCGGATTTTAT
1 AAATTTAGTAAAAAACCCTTATTTTGGC-CTTTGTTCG-ATTTTTCTTTTTTTTTCGGATTTTAT
22809 TACTTTC-AAAAAATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGA
64 TACTTTCAAAAAAATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGA
*
22873 AATGTATTAATTTAGTGTATTTTTTTATATAAATTTAGTAAAAAACTCTTATTTTGGTCATTTGT
129 AATGTATTAATTTAGTGTATTTTTTTATATAAATTTAGTAAAAAAC-CTTATTTTGGCCATTTGT
22938 TCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAA
193 TCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAA
22979 CATACTAACT
Statistics
Matches: 504, Mismatches: 28, Indels: 38
0.88 0.05 0.07
Matches are distributed among these distances:
311 27 0.05
313 2 0.00
314 2 0.00
316 1 0.00
317 53 0.11
318 123 0.24
319 172 0.34
320 102 0.20
321 22 0.04
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (316 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCTTTGTTCGATTTTTCTTTTTTTTTCGGATTTTATTA
CTTTCAAAAAAATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAA
TGTATTAATTTAGTGTATTTTTTTATATAAATTTAGTAAAAAACCTTATTTTGGCCATTTGTTCG
TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTT
ATATTATTTTAGTACATAAAGATTGAAATATATTAATTTAGTGTGTTTTTTTATAT
Found at i:23396 original size:312 final size:311
Alignment explanation
Indices: 23046--23884 Score: 1320
Period size: 312 Copynumber: 2.7 Consensus size: 311
23036 ACTAAACTAA
23046 TCTTTTTTT-GGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTA
1 TCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTA
**
23110 TTTTAGTACAAAATGTTTGAAATGTATTAACTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAA
66 TTTTAGTACATTATGTTTGAAATGTATTAA-TTAGTGTGTTTTTTTATATAAATTTAGTAAAAAA
* * *
23175 CCCTTCTTTTGGCCATTTGTTCGTATTTTTTTTT-GGATTTTACTACTTTCAAAAAATATACTAT
130 CTCTTATTTTGGCCATTTGTTCGTATTTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTAT
* *
23239 TTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-
195 TTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGAATCAA-TTAGTGTGT
*
23303 TTTTTTATATAAATTTAGTAAAAAACTCTTATTTTGGCCACTTGTTCGTATCTT
259 TTTTTTATAT-AATTTAGTAAAAAACTCTTATTTTGGCCACTTGTTCGCATCTT
*
23357 TCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATAATA
1 TCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTA
*
23422 TTTTAGTACATTATGTTTGAAATGTATTAATT--TAGT-ATTTTTTATAT-AATTTAGTAAAAAA
66 TTTTAGTACATTATGTTTGAAATGTATTAATTAGT-GTGTTTTTTTATATAAATTTAGTAAAAAA
* *
23483 CTCTTATTTTGGCCATTTGTTCGCATCTTTTTTTTTTCCAGATTTTATTACTTTCAAAAAATATA
130 CTCTTATTTTGGCCATTTGTTCG--T-ATTTTTTTTT-CGGATTTTATTACTTTCAAAAAATATA
23548 CTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGAATCAATTAGTG
191 CTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGAATCAATTAGTG
*
23613 TGTTTTTTTATATAATTTAGTAAAAAACTCTTATTTTGGCCATTTGTTCGCATCTT
256 TGTTTTTTTATATAATTTAGTAAAAAACTCTTATTTTGGCCACTTGTTCGCATCTT
*
23669 T-TTTTTTTCCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATT
1 TCTTTTTTT-CGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATT
*
23733 ATTTTAGTACATTATGTTTGAAATGAATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAA
65 ATTTTAGTACATTATGTTTGAAATGTATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAA
* *
23798 CTCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCCGGATTTTATTACTTTCAATAAATAT
130 CTCTTATTTTGGCCATTTGTTCGTA---TT-TTTTTTT-CGGATTTTATTACTTTCAAAAAATAT
*
23863 ACTATTTTTGT-TTTT-TTATTTT
190 ACTATTTTCGTATTTTATTATTTT
23885 TTTCATAAAC
Statistics
Matches: 489, Mismatches: 22, Indels: 31
0.90 0.04 0.06
Matches are distributed among these distances:
308 35 0.07
309 11 0.02
310 3 0.01
311 27 0.06
312 217 0.44
313 94 0.19
314 18 0.04
315 42 0.09
316 42 0.09
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (311 bp):
TCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTA
TTTTAGTACATTATGTTTGAAATGTATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAC
TCTTATTTTGGCCATTTGTTCGTATTTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATT
TTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGAATCAATTAGTGTGTTT
TTTTATATAATTTAGTAAAAAACTCTTATTTTGGCCACTTGTTCGCATCTT
Found at i:23705 original size:157 final size:158
Alignment explanation
Indices: 23048--23884 Score: 1337
Period size: 157 Copynumber: 5.4 Consensus size: 158
23038 TAAACTAATC
23048 TTTTTTT--GGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
1 TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
**
23111 TTTAGTACAAAATGTTTGAAATGTATTAACTTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAC
66 TTTAGTACATTATGTTTGAAATGTATTAA-TTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAC
* * *
23176 CCTTCTTTTGGCCATTTGTTCG--T-ATT
130 TCTTATTTTGGCCATTTGTTCGCATCTTT
*
23202 TTTTTTT--GGATTTTACTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
1 TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
23265 TTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAGTAAAAAAC
66 TTTAGTACATTATGTTTGAAATGTATTAA-TTAGTGTGTTTTTTTATATAAATTTAGTAAAAAAC
* *
23329 TCTTATTTTGGCCACTTGTTCGTATCTTT
130 TCTTATTTTGGCCATTTGTTCGCATCTTT
*
23358 CTTTTTTT-CGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATAATA
1 -TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTA
*
23422 TTTTAGTACATTATGTTTGAAATGTATTAATT--TAGT-ATTTTTTATAT-AATTTAGTAAAAAA
65 TTTTAGTACATTATGTTTGAAATGTATTAATTAGT-GTGTTTTTTTATATAAATTTAGTAAAAAA
23483 CTCTTATTTTGGCCATTTGTTCGCATCTTT
129 CTCTTATTTTGGCCATTTGTTCGCATCTTT
*
23513 TTTTTTTCCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
1 TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
* *
23578 TTTAGTACATTATGTTTGAAATGAATCAATTAGTGTGTTTTTTTATAT-AATTTAGTAAAAAACT
66 TTTAGTACATTATGTTTGAAATGTATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACT
23642 CTTATTTTGGCCATTTGTTCGCATCTTT
131 CTTATTTTGGCCATTTGTTCGCATCTTT
*
23670 TTTTTTTCCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
1 TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
*
23735 TTTAGTACATTATGTTTGAAATGAATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACT
66 TTTAGTACATTATGTTTGAAATGTATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACT
* * *
23800 CTTATTTTGGCCCTTTGTTCGTATTTTT
131 CTTATTTTGGCCATTTGTTCGCATCTTT
* *
23828 CTTTTTTTCCGGATTTTATTACTTTCAATAAATATACTATTTTTGT-TTTT-TTATTTT
1 -TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
23885 TTTCATAAAC
Statistics
Matches: 646, Mismatches: 24, Indels: 23
0.93 0.03 0.03
Matches are distributed among these distances:
153 45 0.07
154 104 0.16
155 128 0.20
156 16 0.02
157 183 0.28
158 128 0.20
159 42 0.07
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (158 bp):
TTTTTTTCCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTAT
TTTAGTACATTATGTTTGAAATGTATTAATTAGTGTGTTTTTTTATATAAATTTAGTAAAAAACT
CTTATTTTGGCCATTTGTTCGCATCTTT
Found at i:23881 original size:35 final size:34
Alignment explanation
Indices: 23841--23916 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
23831 TTTTTCCGGA
* * *
23841 TTTTATTACTTTCAATAAATATACTATTTTT-GTTT
1 TTTTATTACTTTC-ATAAACATAAT-TTTTTAGTAT
**
23876 TTTTATTTTTTTCATAAACATAATTTTTTAGTAT
1 TTTTATTACTTTCATAAACATAATTTTTTAGTAT
23910 TTTTATT
1 TTTTATT
23917 TTTAATGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 5 0.14
34 19 0.54
35 11 0.31
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (34 bp):
TTTTATTACTTTCATAAACATAATTTTTTAGTAT
Found at i:24103 original size:15 final size:16
Alignment explanation
Indices: 24080--24112 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24070 TACAAAAAAA
24080 TTATCTTTCTTT-TTT
1 TTATCTTTCTTTCTTT
*
24095 TTATTTTTCTTTCTTT
1 TTATCTTTCTTTCTTT
24111 TT
1 TT
24113 CCTTCCCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATCTTTCTTTCTTT
Found at i:24197 original size:20 final size:20
Alignment explanation
Indices: 24172--24222 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
24162 CTTCTCCTTC
24172 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTTCT
24192 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTTCT
24212 TTCTTCTCCTT
1 TTCTTCTCCTT
24223 CAGCTGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTTCTCCTTTCCTTTTCT
Found at i:34167 original size:84 final size:83
Alignment explanation
Indices: 34067--34306 Score: 313
Period size: 85 Copynumber: 2.9 Consensus size: 83
34057 CTTTATTTGA
* * **
34067 AAACAAAACAATATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACATTTTTTATT
1 AAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGATTTTATT
34132 TAATTTAGTT-TGAATTTAG
66 TAATTTA-TTCT-AATTTAG
* * ** *
34151 AAACAAAATAAAATCAAATAAAATATTGTTAAACGGCGGAGGTTAAATCCCAAAACAGATTTTAT
1 AAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGG-GAATAAATCCCGAAACAGATTTTAT
*
34216 TTAATTATATTCTAATTTGG
65 TTAATT-TATTCTAATTTAG
* * *
34236 AAACAAAATAAAATCAAATAAAATCCTGTTAAACAAC-GGAATAAATCTCGAAACAGATTTTATT
1 AAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGATTTTATT
34300 TAATTTA
66 TAATTTA
34307 ATTTCTCGTT
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
82 2 0.01
83 27 0.20
84 36 0.27
85 67 0.50
86 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (83 bp):
AAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGATTTTATT
TAATTTATTCTAATTTAG
Found at i:34577 original size:77 final size:78
Alignment explanation
Indices: 34303--34625 Score: 366
Period size: 77 Copynumber: 4.1 Consensus size: 78
34293 TTTTATTTAA
* * * * * **
34303 TTTAATTT-CTCGTTTTTGGAAATAAACCAAATTTGGAATGAAATCATTAAACGGTAGGAATCAA
1 TTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAA
*
34367 TTCC-GAAACGATA
66 -TCCTGAAACGATT
* * * * * *
34380 TTTATTTAACTCATTTTTTTGAAAATAAAACAAATTTGGAATAAAATCGTTGAACGACGAGAAAC
1 TTTATTTTACTC--GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATC
*
34445 AAT-CTCGAAATGATT
64 AATCCT-GAAACGATT
* * **
34460 TTTATATTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGTGGGAATTGA
1 TTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAA
34525 TCCTGAAACGA-T
66 TCCTGAAACGATT
* * *
34537 TTTATTTTACTCGTTTTTGGAAATAAAACAATTTTGGAATAAAATAGTTGAATGGCGGGAATCAA
1 TTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAA
* *
34602 TCCCGAAACAATT
66 TCCTGAAACGATT
34615 TTTATTTTACT
1 TTTATTTTACT
34626 TTTAATTTCT
Statistics
Matches: 204, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
77 74 0.36
78 68 0.33
79 3 0.01
80 59 0.29
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (78 bp):
TTTATTTTACTCGTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCGGGAATCAA
TCCTGAAACGATT
Found at i:34645 original size:87 final size:94
Alignment explanation
Indices: 34536--34708 Score: 252
Period size: 91 Copynumber: 1.9 Consensus size: 94
34526 CCTGAAACGA
* * *
34536 TTTTATTTTACTCGTTTTTGGAAATAAAA-C-AATT-TTGGAATAAAA-TAGTTGAATGGCGGGA
1 TTTTAATTTACTCGTTTTTGGAAATAAAATCAAATTAATGGAATAAAATTAGTTGAACGGCGGGA
*
34597 ATCAATCCCGAAAC-AATTTTTATTTTAC
66 ATCAATCCCAAAACGAATTTTTATTTTAC
*
34625 TTTTAATTT-CTCG-TTTTGGAAATAAAATCAAATTAATGGAATAAAATTTGTTGAACGGCGGGA
1 TTTTAATTTACTCGTTTTTGGAAATAAAATCAAATTAATGGAATAAAATTAGTTGAACGGCGGGA
34688 ATCAATCCCAAAACGAATTTT
66 ATCAATCCCAAAACGAATTTT
34709 ACCTATTGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
87 14 0.19
88 5 0.07
89 12 0.16
90 10 0.14
91 27 0.36
92 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (94 bp):
TTTTAATTTACTCGTTTTTGGAAATAAAATCAAATTAATGGAATAAAATTAGTTGAACGGCGGGA
ATCAATCCCAAAACGAATTTTTATTTTAC
Found at i:38952 original size:42 final size:43
Alignment explanation
Indices: 38878--38979 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
38868 CAATTTGAGA
* *
38878 ATTACATGTAAGACCATGTCTGGAACATTGGCATC-GTATATG
1 ATTACATGTAAGACCATATCTGGAACAGTGGCATCAGTATATG
* * * * * * *
38920 ATTACGTGTAAGACCCTATCTGGGATAGTGGCATCATTGTTTG
1 ATTACATGTAAGACCATATCTGGAACAGTGGCATCAGTATATG
38963 ATTACATGTAAGACCAT
1 ATTACATGTAAGACCAT
38980 GTCTAGGACG
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
ATTACATGTAAGACCATATCTGGAACAGTGGCATCAGTATATG
Found at i:38995 original size:43 final size:41
Alignment explanation
Indices: 38878--38996 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
38868 CAATTTGAGA
*
38878 ATTACATGTAAGACCATGTCTGGAACATTGGCATCGTATATG
1 ATTACATGTAAGACCATGTCTGG-ACGTTGGCATCGTATATG
* * * * * * *
38920 ATTACGTGTAAGACCCTATCTGGGATAG-TGGCATCATTGTTTG
1 ATTACATGTAAGACCATGTCT-GGA-CGTTGGCATC-GTATATG
38963 ATTACATGTAAGACCATGTCTAGGACGTTGGCAT
1 ATTACATGTAAGACCATGTCT-GGACGTTGGCAT
38997 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
ATTACATGTAAGACCATGTCTGGACGTTGGCATCGTATATG
Found at i:41219 original size:43 final size:43
Alignment explanation
Indices: 41158--41244 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
41148 ATGATGAACG
41158 AGTGGTTCACGAAGTTTGTACGAACAAATCCGGCTTTTCAACA
1 AGTGGTTCACGAAGTTTGTACGAACAAATCCGGCTTTTCAACA
41201 AGTGGTTCACGAAGTTTGTACGAACAAATCCGGCTTTTCAACA
1 AGTGGTTCACGAAGTTTGTACGAACAAATCCGGCTTTTCAACA
41244 A
1 A
41245 CCCCCACCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
AGTGGTTCACGAAGTTTGTACGAACAAATCCGGCTTTTCAACA
Found at i:42881 original size:15 final size:16
Alignment explanation
Indices: 42853--42884 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
42843 GAAGAAAATC
42853 AAAATAAGTAATATAT
1 AAAATAAGTAATATAT
42869 AAAATAA-TAATATAT
1 AAAATAAGTAATATAT
42884 A
1 A
42885 TGTTAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATAAGTAATATAT
Found at i:43098 original size:41 final size:41
Alignment explanation
Indices: 43053--43136 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
43043 ATAAATGATA
**
43053 TTAAATTTACATAAAAATATATAAAACAATATGTAATAAAT
1 TTAAATTTACATAAAAATATATAAAACAATACATAATAAAT
43094 TTAAATTTACATAAAAATATATAAAACAATACATAATAAAT
1 TTAAATTTACATAAAAATATATAAAACAATACATAATAAAT
43135 TT
1 TT
43137 GAAGAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (41 bp):
TTAAATTTACATAAAAATATATAAAACAATACATAATAAAT
Found at i:43203 original size:24 final size:22
Alignment explanation
Indices: 43129--43207 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
43119 ACAATACATA
*
43129 ATAAATTTGAAGAATAA-TACATG
1 ATAAATTT-AA-AATAATTATATG
*
43152 A-AAACTTAAAATAATTATATG
1 ATAAATTTAAAATAATTATATG
*
43173 ATAAATTTAAAATAATAATATGTG
1 ATAAATTTAAAATAAT--TATATG
43197 ATAAATTTAAA
1 ATAAATTTAAA
43208 CAACATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 5 0.10
21 8 0.17
22 18 0.38
23 1 0.02
24 16 0.33
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (22 bp):
ATAAATTTAAAATAATTATATG
Found at i:43217 original size:24 final size:24
Alignment explanation
Indices: 43157--43207 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
43147 ACATGAAAAC
*
43157 TTAAAATAAT--TATATGATAAAT
1 TTAAAATAATAATATGTGATAAAT
43179 TTAAAATAATAATATGTGATAAAT
1 TTAAAATAATAATATGTGATAAAT
43203 TTAAA
1 TTAAA
43208 CAACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.38
24 16 0.62
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
TTAAAATAATAATATGTGATAAAT
Found at i:44762 original size:605 final size:604
Alignment explanation
Indices: 43698--44908 Score: 1872
Period size: 605 Copynumber: 2.0 Consensus size: 604
43688 CCAAACGGTG
43698 TCGTTGCTCAGCACTTATAAACTAAAAAAATAAAAAAACCTAATGACTACTTTTGAAAACAAATG
1 TCGTTGCTCAGCACTTATAAACTAAAAAAATAAAAAAACCTAATGACTACTTTTGAAAACAAATG
* * *
43763 GCTAGCCCTAGTCATGCGCCGCTCAGCAAACAGGCCAATCTATGGCCTCCCAACCTTCGCTCGAC
66 GCTAACCCTAGCCATACGCCGCTCAGCAAACAGGCCAATCTATGGCCTCCCAACCTTCGCTCGAC
* * * *
43828 ACCGATTATGGTGGAGCAGACGAAGACTCGGCCACTAGGTAAATTCCTTATCCTCTAACTTTTCT
131 ACCGATTACGATGGAGCAGACGAAGAC-CGGCCACCAGGTAAATTCCTTATCCTCTAACTCTTCT
* * *
43893 TTTTCCTTTTATTTTTTAGCATATGATTGATGGATAAAGAAACAGAAAAGAACAACTAGAGAAGA
195 TTTTCCTTTTATTTTTTAGCACATGATTGATGAATAAAGAAACAGAAAAGAACAACCAGAGAAGA
* * * *
43958 AAAAAGAAAAAAAAAACTCTGTATCACCTTTCGAATATCTTTTTTTTGCTTAGATTCCTTTGGTA
260 AAAAAAAAAAAAAAAACTCTGAATCACCTTTCGAATATCATTTTTTTGCTTAGATTCCTTTGCTA
* *
44023 TTTTTTTTGATTTCGTATTCTTCCGTGTATAAAATTTACAAAGGTCTTCTATTTAGTTTTATAGC
325 TTTTTTTTGATTTCGTATTCGTCCGTGTAAAAAATTTACAAAGGTCTTCTATTTAGTTTTATAGC
* *
44088 TGAATATTTGAAATAAATAAAAAATACAATATTCGTTTTTTTCTGTACTCTTTTTTCGTCCTATT
390 CGAATATTTGAAATAAATAAAAAATACAATATTCGTTTTTTTCTGTACTATTTTTTCGTCCTATT
* * * ** * * * *
44153 TGTAGGTACGGAGGCAAGTTGGTGGTGTATGGAGGCGGTGGACGTGGCGAGAGTAGAGGCACGCG
455 TGTAGGTACGGAGGCAAGCTGGCGATGTACAGAGGCGATGGACGTGGCGAGAGCAGAGACACACG
* * * * * *
44218 GTGTGCTGAGGGCAAGAGTGGCGGCTGAAGGTTCTAAAAACCCTAGGTTTTCTGAAAACATTTTT
520 GTGTGCGGAGGGAAAGAGCGGCGGCTGAAGGTTCCAAAAACCCTAGGGTTTCTAAAAACATTTTT
*
44283 CGGGCTTCTGGGTATTGGGC
585 AGGGCTTCTGGGTATTGGGC
* *
44303 TCGTTGCTTAGCACTTATAAACTAAAAAACATAAAAAAAACCTAATGACTACTTTTGAAAATAAA
1 TCGTTGCTCAGCACTTATAAACTAAAAAA-AT-AAAAAAACCTAATGACTACTTTTGAAAACAAA
*
44368 TGGCTAACTCTAGCCATACGCCGCTCAGCAAACAGGCCAATCTATGGCCTCCCAACCTTCGCTCG
64 TGGCTAACCCTAGCCATACGCCGCTCAGCAAACAGGCCAATCTATGGCCTCCCAACCTTCGCTCG
* *
44433 ACTCCGATTACGATGGAGCAGACGAAGA-CGGCCACCAGGTAAATTCTTTATCCTCTAACTCTTC
129 ACACCGATTACGATGGAGCAGACGAAGACCGGCCACCAGGTAAATTCCTTATCCTCTAACTCTTC
*
44497 TTTTTCCTTTTCTTTTTTAGCACATGATTGATGAATAAAGAAACAGAAAAGAACAACCA-ATGAA
194 TTTTTCCTTTTATTTTTTAGCACATGATTGATGAATAAAGAAACAGAAAAGAACAACCAGA-GAA
*
44561 GAAAAAAAAGAAAAAAAAACTCTGAAATCACCTTTCGAATAT-ATTTTTTTGCTTAGATTTCTTT
258 GAAAAAAAA-AAAAAAAAACTCTG-AATCACCTTTCGAATATCATTTTTTTGCTTAGATTCCTTT
44625 GCTATTTTTTTTGATTTCGTATTCGTCCGTGTAAAAAATTTACAAAGGTCTTCTATTTAGTTTTA
321 GCTATTTTTTTTGATTTCGTATTCGTCCGTGTAAAAAATTTACAAAGGTCTTCTATTTAGTTTTA
* * *
44690 TAGCCGAATATTTGAAATAAAT-AAAAATACAATATTTGTTTTTTTCTGTGCTATTTTTTTGTCC
386 TAGCCGAATATTTGAAATAAATAAAAAATACAATATTCGTTTTTTTCTGTACTATTTTTTCGTCC
* * * * *
44754 TTTTTGTAGGTACGGAGGCCAGCTGGCGATGTACAGAGGCGATTGATGTGGCGAGAGCAGAGACG
451 TATTTGTAGGTACGGAGGCAAGCTGGCGATGTACAGAGGCGATGGACGTGGCGAGAGCAGAGACA
* *
44819 CACGGTGTGCGGAGGGAAAGAGCGGTGGCTGAAGGTTCCAGAAACCCTAGGGTTTCTAAAAACAT
516 CACGGTGTGCGGAGGGAAAGAGCGGCGGCTGAAGGTTCCAAAAACCCTAGGGTTTCTAAAAACAT
*
44884 TTTTAGGGCTTCTGGGTGTTGGGC
581 TTTTAGGGCTTCTGGGTATTGGGC
44908 T
1 T
44909 AAGTTGAGCC
Statistics
Matches: 549, Mismatches: 52, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
604 1 0.00
605 296 0.54
606 119 0.22
607 133 0.24
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (604 bp):
TCGTTGCTCAGCACTTATAAACTAAAAAAATAAAAAAACCTAATGACTACTTTTGAAAACAAATG
GCTAACCCTAGCCATACGCCGCTCAGCAAACAGGCCAATCTATGGCCTCCCAACCTTCGCTCGAC
ACCGATTACGATGGAGCAGACGAAGACCGGCCACCAGGTAAATTCCTTATCCTCTAACTCTTCTT
TTTCCTTTTATTTTTTAGCACATGATTGATGAATAAAGAAACAGAAAAGAACAACCAGAGAAGAA
AAAAAAAAAAAAAAACTCTGAATCACCTTTCGAATATCATTTTTTTGCTTAGATTCCTTTGCTAT
TTTTTTTGATTTCGTATTCGTCCGTGTAAAAAATTTACAAAGGTCTTCTATTTAGTTTTATAGCC
GAATATTTGAAATAAATAAAAAATACAATATTCGTTTTTTTCTGTACTATTTTTTCGTCCTATTT
GTAGGTACGGAGGCAAGCTGGCGATGTACAGAGGCGATGGACGTGGCGAGAGCAGAGACACACGG
TGTGCGGAGGGAAAGAGCGGCGGCTGAAGGTTCCAAAAACCCTAGGGTTTCTAAAAACATTTTTA
GGGCTTCTGGGTATTGGGC
Found at i:45330 original size:89 final size:89
Alignment explanation
Indices: 45204--45374 Score: 211
Period size: 89 Copynumber: 1.9 Consensus size: 89
45194 GGAATTTGTC
* * *
45204 GCTTCAATCTACTCCACTACAACGTCAGGGAAATAAGATTTTCTGTCCTCAGTCTGCTCCGCTGC
1 GCTTCAATCTACTCCACTACAACGTCAGGGAAATAAGATTTGCTATCCTCAGTCTGCTCCACTGC
45269 A-ACTTTAGAGAGATAAGGCTGATG
66 AGA-TTTAGAGAGATAAGGCTGATG
* * * * * * *
45293 GCTTCAATCTGCTCTATTGCAACTTCA-GGAAAGTAAGATTTGCTATCTTCAGTCTGCTTCACTG
1 GCTTCAATCTACTCCACTACAACGTCAGGGAAA-TAAGATTTGCTATCCTCAGTCTGCTCCACTG
*
45357 CAGATTTAGGGAGATAAG
65 CAGATTTAGAGAGATAAG
45375 ACTTGTCTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
88 5 0.07
89 63 0.91
90 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (89 bp):
GCTTCAATCTACTCCACTACAACGTCAGGGAAATAAGATTTGCTATCCTCAGTCTGCTCCACTGC
AGATTTAGAGAGATAAGGCTGATG
Found at i:45601 original size:180 final size:181
Alignment explanation
Indices: 45367--45741 Score: 574
Period size: 181 Copynumber: 2.1 Consensus size: 181
45357 CAGATTTAGG
*
45367 GAGATAAGA-CTTGTCTTTGGTGAATTTGATCTGACCTACTACAACTTCAGAGGTATAGGATTCA
1 GAGATAAGATC-TGTCTTGGGTGAATTTGATCTGACCTACTACAACTTCAGAGGTATAGGATTCA
** * * * *
45431 TCGTTTTAATTTACTCCAC-TGCAACTTTAGGGAAATAGGATTGGTGGTTTCAATCTGCTCCACT
65 TCGTTTTAATCCACTCCACTTGCAACTTCAAGGAAATAGGATTAGTGGCTTCAATCTGCTCCACT
* * *
45495 GCAACTTCAAGGAGATAAGATTTGCCATGATCTGTTCTACTGCAACTTTAAA
130 GCAACTTCAAGGAGATAAGATTTCCCATGATCTGCTCTACTGCAACTTCAAA
* * *
45547 GAGATAAGATCTGTCTTGGGTGAATTTGATTTGACCTACTGCAACTTCAGAGGTATATGATTCAT
1 GAGATAAGATCTGTCTTGGGTGAATTTGATCTGACCTACTACAACTTCAGAGGTATAGGATTCAT
* *
45612 CGTTTTAATCCGCTCCACTTGCAACTTCAAGGAGATAGGATTAGTGGCTTCAATCTGCTCCACTG
66 CGTTTTAATCCACTCCACTTGCAACTTCAAGGAAATAGGATTAGTGGCTTCAATCTGCTCCACTG
* *
45677 CAACTTCAGGGAGATAAGATTTCCCATGATCTGCTCTACTGCAACTTCAGA
131 CAACTTCAAGGAGATAAGATTTCCCATGATCTGCTCTACTGCAACTTCAAA
45728 GAGATAAGATCTGT
1 GAGATAAGATCTGT
45742 GATTTATAGC
Statistics
Matches: 176, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
180 74 0.42
181 102 0.58
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (181 bp):
GAGATAAGATCTGTCTTGGGTGAATTTGATCTGACCTACTACAACTTCAGAGGTATAGGATTCAT
CGTTTTAATCCACTCCACTTGCAACTTCAAGGAAATAGGATTAGTGGCTTCAATCTGCTCCACTG
CAACTTCAAGGAGATAAGATTTCCCATGATCTGCTCTACTGCAACTTCAAA
Found at i:45820 original size:181 final size:178
Alignment explanation
Indices: 45383--45928 Score: 415
Period size: 181 Copynumber: 3.0 Consensus size: 178
45373 AGACTTGTCT
* * * ** * * *** *
45383 TTGG-TGAATTTGATCTGACCTACTACAACTTCAGAGGTATAGGATTCATCGTTTTAATTTACTC
1 TTGGATGAATTTAATCTGACCTACTGCAACTTCAGAGGAATAACATTCATCG-CTCAATCCGCCC
* * * * *
45447 CACTGCAACTTTAGGGAAATAGGATTGGTGGTTTCAATCTGCTCCACTGCAACTTCAAGGAGATA
65 CACTGCAACTTCAAGGAGATAGGATT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * * *
45512 AGATTTGCCATGATCTGTTCTACTGCAACTTTAAAGAGATAAGATCTGTC
129 AGATTTCCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* * * * ** * * *
45562 TTGGGTGAATTTGATTTGACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTAATCCGCTC
1 TTGGATGAATTTAATCTGACCTACTGCAACTTCAGAGGAATAACATTCATCG-CTCAATCCGCCC
45627 CACTTGCAACTTCAAGGAGATAGGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
65 CAC-TGCAACTTCAAGGAGATAGGATT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
45692 AAGATTTCCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
128 AAGATTTCCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT-A
* * * ** *
45744 TT-TAT-AGCTTTAATCTGTTCC-ACTGCGGCTTCAG-GGAAGTAACATTCGGTATC-CTCAGTC
1 TTGGATGA-ATTTAATCTG-ACCTACTGCAACTTCAGAGGAA-TAACATTC---ATCGCTCAATC
* * * * ** * *
45804 TGCCCCACTACAACTTC-AGGGGTATAAGACTTGCTTTCTT-AAGTCAGCTCCACTGCAACTTTA
60 CGCCCCACTGCAACTTCAAGGAG-ATAGGA-TTG-TGGCTTCAA-TCTGCTCCACTGCAACTTCA
** * * *
45867 GGGAGATAAGACTTGCTTTCTTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTA
121 GGGAGATAAGA-TT--TCCCATGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
45929 ACTTTTATCC
Statistics
Matches: 305, Mismatches: 45, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
179 4 0.01
180 65 0.21
181 142 0.47
182 49 0.16
183 2 0.01
184 3 0.01
185 5 0.02
186 35 0.11
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (178 bp):
TTGGATGAATTTAATCTGACCTACTGCAACTTCAGAGGAATAACATTCATCGCTCAATCCGCCCC
ACTGCAACTTCAAGGAGATAGGATTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATTTCCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTA
Found at i:45857 original size:45 final size:45
Alignment explanation
Indices: 45808--45922 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
45798 TCAGTCTGCC
*
45808 CCACTACAACTTCAGGG-GTATAAGACTTGCTTTCTTAAGTCAGCT
1 CCACTGCAACTTCAGGGAG-ATAAGACTTGCTTTCTTAAGTCAGCT
* * *
45853 CCACTGCAACTTTAGGGAGATAAGACTTGCTTTCTTTAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTAAGTCAGCT
* *
45898 CTACTGCAACTTCAGAGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
45923 TTTGTAACTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 61 0.98
46 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTAAGTCAGCT
Found at i:45921 original size:90 final size:88
Alignment explanation
Indices: 45800--46002 Score: 198
Period size: 90 Copynumber: 2.3 Consensus size: 88
45790 CGGTATCCTC
* * * * **
45800 AGTCTGCCCCACTACAACTTCAGGGGTATAAGACTTGCTTTC-TTAAGT-CAGCTCCACTGCAAC
1 AGTCTGCTCTACTGCAACTTCAGGAGTATAAGACTTG-TAACTTTAA-TCCA-CTCCACTGCAAC
* *
45863 TTTAGGGAGATAAGACTTGCTT-TCTTT
63 TTTAGGGAGATAAGA-TT-ATTGGCTTT
* * * *
45890 AGTCTGCTCTACTGCAACTTCAGAGAG-ATAAGATTTGTAACTTTTATCCATTCCATTGCAACTT
1 AGTCTGCTCTACTGCAACTTCAG-GAGTATAAGACTTGTAACTTTAATCCACTCCACTGCAACTT
*
45954 TAGGGAGATAGGATTATTGGCTTT
65 TAGGGAGATAAGATTATTGGCTTT
*
45978 AATCTGCTCTACTGCAACTTCAGGA
1 AGTCTGCTCTACTGCAACTTCAGGA
46003 AAATAAGATT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
87 4 0.04
88 28 0.29
89 27 0.28
90 34 0.36
91 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (88 bp):
AGTCTGCTCTACTGCAACTTCAGGAGTATAAGACTTGTAACTTTAATCCACTCCACTGCAACTTT
AGGGAGATAAGATTATTGGCTTT
Found at i:45994 original size:44 final size:42
Alignment explanation
Indices: 45850--46012 Score: 119
Period size: 44 Copynumber: 3.7 Consensus size: 42
45840 TCTTAAGTCA
* *
45850 GCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTTCTTTAGTCT
1 GCTCCACTGCAACTTTAGGGAGATAAGA-TT--TTACTTTAATCT
* * * * *
45895 GCTCTACTGCAACTTCAGAGAGATAAGATTTGTAACTTTTATCC
1 GCTCCACTGCAACTTTAGGGAGATAAGATTT-T-ACTTTAATCT
** * * *
45939 ATTCCATTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATT-TT-ACTTTAATCT
* * * *
45983 GCTCTACTGCAACTTCAGGAAAATAAGATT
1 GCTCCACTGCAACTTTAGGGAGATAAGATT
46013 CACCATCTTC
Statistics
Matches: 89, Mismatches: 26, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 61 0.69
45 26 0.29
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (42 bp):
GCTCCACTGCAACTTTAGGGAGATAAGATTTTACTTTAATCT
Found at i:61284 original size:45 final size:45
Alignment explanation
Indices: 61189--61289 Score: 134
Period size: 45 Copynumber: 2.2 Consensus size: 45
61179 GTAACGGTAG
*
61189 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAGTCTGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
* * *
61234 TAGTAACGGTAACAGTATTCAACACACAAAGTG-TCGAATC-GATAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGCT-GAATCTG-TAA
61279 CAGTAACAGTA
1 CAGTAACAGTA
61290 GTCAGCATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 2 0.04
45 46 0.96
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
Found at i:62674 original size:16 final size:17
Alignment explanation
Indices: 62649--62682 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
62639 GATTTATTTA
62649 ATAATCTAA-TATCATT
1 ATAATCTAATTATCATT
*
62665 ATAATTTAATTATCATT
1 ATAATCTAATTATCATT
62682 A
1 A
62683 ATTATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATCTAATTATCATT
Found at i:65705 original size:43 final size:43
Alignment explanation
Indices: 65618--65740 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 43
65608 GGCTCGTACA
* * * * * * *
65618 ATGCCAACATCCCAGACGTGGTCTTACATGTAATC-CCAGATCG
1 ATGCCAACGTCCCAAAAGTGGTCTTACACGAAAACACAAG-TCG
**
65661 ATGCCATTGTCCCAAATAG-GGTCTTACACGAAAACACAAGTCG
1 ATGCCAACGTCCCAAA-AGTGGTCTTACACGAAAACACAAGTCG
* * *
65704 ATGCCAACGTCCTAGACGTGGTCTTACACGAAAACAC
1 ATGCCAACGTCCCAAAAGTGGTCTTACACGAAAACAC
65741 TTATCGAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.02
43 58 0.92
44 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAAAAGTGGTCTTACACGAAAACACAAGTCG
Found at i:67351 original size:123 final size:123
Alignment explanation
Indices: 66991--67351 Score: 487
Period size: 123 Copynumber: 2.9 Consensus size: 123
66981 CTTTAAAAGT
* * * *
66991 GCCGCTAATGAGCAGACATTTAGCGGCGTTTTTCAAGAAGCGCCGCTAA-CAAGTAGACCTTTAG
1 GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAACGCCGCTAATGAAGTAGACCTTTAG
* * * *
67055 CGGCGTTTTTCAGGATGCGCCGCTAATGAACAGACCTTTAGCGGCGTTGTTTAGGATGC
66 CGGCGTTTTTCAAGAAGCGCCGCTAATGAGCAGACCTTTAGCGGCGTT-TTTAGGAGGC
* * *
67114 GTCGCTAATGAGCAGACCTTTAGCGGCATTTTTTAAGAAACGCCGCTAATG-AGTAGATCTTTAG
1 GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAACGCCGCTAATGAAGTAGACCTTTAG
* * * * *
67178 CGGCGTTTTTCATTG-AGTGCCGCTAATGAGCAGACCTTTAGCGTCTTTTTTCATGAGGC
66 CGGCGTTTTTCA-AGAAGCGCCGCTAATGAGCAGACCTTTAGCGGCGTTTTT-AGGAGGC
*
67237 GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAACGCCGTTAATGAAG-AGACCTTTAG
1 GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAACGCCGCTAATGAAGTAGACCTTTAG
* * *
67301 CGGCGTTTTTTAAGAAGCGCCGCTAGTGCGCAGACCTTTAGCGGCGTTTTT
66 CGGCGTTTTTCAAGAAGCGCCGCTAATGAGCAGACCTTTAGCGGCGTTTTT
67352 GGGGAAGTGC
Statistics
Matches: 207, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
122 4 0.02
123 200 0.97
124 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (123 bp):
GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAACGCCGCTAATGAAGTAGACCTTTAG
CGGCGTTTTTCAAGAAGCGCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTAGGAGGC
Found at i:67366 original size:41 final size:41
Alignment explanation
Indices: 66991--67351 Score: 431
Period size: 41 Copynumber: 8.8 Consensus size: 41
66981 CTTTAAAAGT
*
66991 GCCGCTAATGAGCAGACATTTAGCGGCGTTTTTCAAGAAGC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
** * * *
67032 GCCGCTAACAAGTAGACCTTTAGCGGCGTTTTTCAGGATGC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
* * *
67073 GCCGCTAATGAACAGACCTTTAGCGGCGTTGTTT-AGGATGC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTT-TTTCAAGAAGC
* * * *
67114 GTCGCTAATGAGCAGACCTTTAGCGGCATTTTTTAAGAAAC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
* * * *
67155 GCCGCTAATGAGTAGATCTTTAGCGGCGTTTTTCATTG-AGT
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCA-AGAAGC
* * * *
67196 GCCGCTAATGAGCAGACCTTTAGCGTCTTTTTTCATGAGGC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
* *
67237 GCCGCTAATGAGCAGACCTTTAGCGGCATTTTTCAAGAAAC
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
* *
67278 GCCGTTAATGAAG-AGACCTTTAGCGGCGTTTTTTAAGAAGC
1 GCCGCTAATG-AGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
* *
67319 GCCGCTAGTGCGCAGACCTTTAGCGGCGTTTTT
1 GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTT
67352 GGGGAAGTGC
Statistics
Matches: 272, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
40 6 0.02
41 260 0.96
42 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
GCCGCTAATGAGCAGACCTTTAGCGGCGTTTTTCAAGAAGC
Found at i:69828 original size:106 final size:106
Alignment explanation
Indices: 69643--69834 Score: 357
Period size: 106 Copynumber: 1.8 Consensus size: 106
69633 AAGGCAATGC
*
69643 TTTGCGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTCTTGTTTGACCAA
1 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTCTTGTTTGACCAA
*
69708 ATAGCCAAATATCCTTTTAAAATTTCAAAGTAAGACAATAT
66 ATAGCCAAATATCCTCTTAAAATTTCAAAGTAAGACAATAT
*
69749 TTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTCTTGTTTGACCAA
1 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTCTTGTTTGACCAA
69814 ATAGCCAAATATCCTCTTAAA
66 ATAGCCAAATATCCTCTTAAA
69835 TCTCAATCCA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 83 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (106 bp):
TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTCTTGTTTGACCAA
ATAGCCAAATATCCTCTTAAAATTTCAAAGTAAGACAATAT
Found at i:72637 original size:21 final size:22
Alignment explanation
Indices: 72613--72653 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
72603 AAGTTTGAGT
*
72613 AAGATTGAAGAG-TTGAAGAAA
1 AAGATAGAAGAGCTTGAAGAAA
*
72634 AAGATAGGAGAGCTTGAAGA
1 AAGATAGAAGAGCTTGAAGA
72654 CGCACTGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (22 bp):
AAGATAGAAGAGCTTGAAGAAA
Found at i:81530 original size:50 final size:49
Alignment explanation
Indices: 81377--81551 Score: 138
Period size: 50 Copynumber: 3.5 Consensus size: 49
81367 GTAGTGGAGC
* * * * * * *
81377 AGATTAAAGCTACGACGGC-AATCTTGCTTCCCTGATTTTGCAGTTTAAA
1 AGATTAAAGCCACAACAGCGAATCTTGTTTCTCTGA-ATTGCAGTTAAAA
* * * * * * *
81426 AGATCAAAGCCGCAACAGCGAATCTTACTTTCT-TGGAAATGTAGTGAAAC
1 AGATTAAAGCCACAACAGCGAATCTT-GTTTCTCT-GAATTGCAGTTAAAA
* * *
81476 AGATTAAAGCTACGACAGCGAATCTTGTTTCTCTGACATTGCAATTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGTTTCTCTGA-ATTGCAGTTAAAA
*
81526 AGATTAAAGCCACAACAGTGAATCTT
1 AGATTAAAGCCACAACAGCGAATCTT
81552 TCTTTCCCTG
Statistics
Matches: 94, Mismatches: 27, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
49 21 0.22
50 68 0.72
51 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (49 bp):
AGATTAAAGCCACAACAGCGAATCTTGTTTCTCTGAATTGCAGTTAAAA
Found at i:81542 original size:100 final size:99
Alignment explanation
Indices: 81366--81557 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 99
81356 TCCCTGGCAG
* * * ** * *
81366 TGTAGTGGAGCAGATTAAAGCTACGACGGCAATCTTGCTTCCCTGATTTTGCAGTTTAAAAGATC
1 TGTAGTGAAACAGATTAAAGCTACGACAGCAATCTTGCTTCCCTGACATTGCAATTAAAAAGATC
*
81431 AAAGCCGCAACAGCGAATCTTACTTTCTTGGAAA
66 AAAGCCACAACAGCGAATCTTACTTTCTTGGAAA
* *
81465 TGTAGTGAAACAGATTAAAGCTACGACAGCGAATCTTGTTTCTCTGACATTGCAATTAAAAAGAT
1 TGTAGTGAAACAGATTAAAGCTACGACAGC-AATCTTGCTTCCCTGACATTGCAATTAAAAAGAT
* * *
81530 TAAAGCCACAACAGTGAATCTTTCTTTC
65 CAAAGCCACAACAGCGAATCTTACTTTC
81558 CCTGAGGTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 27 0.34
100 52 0.66
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (99 bp):
TGTAGTGAAACAGATTAAAGCTACGACAGCAATCTTGCTTCCCTGACATTGCAATTAAAAAGATC
AAAGCCACAACAGCGAATCTTACTTTCTTGGAAA
Found at i:81858 original size:44 final size:44
Alignment explanation
Indices: 81556--82105 Score: 208
Period size: 44 Copynumber: 12.6 Consensus size: 44
81546 AATCTTTCTT
* * * ** *
81556 TCCCTGAGGTTGCAGTGGAGCAGATTGTAGACGATA-ATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCG-AAATAATAGATCTTATC
* * *
81600 TCCTTGAAGTTGCAGTGGAGCAGATTGAAATAATAGATTTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCTTATC
* * ** * * * *
81644 TCTCTG-AGTTTACAGTAAAGTAGATC-ACAT--CAGGTCTTATC
1 TCCCTGAAG-TTGCAGTGGAGCAGATCGAAATAATAGATCTTATC
* * ** * *
81685 TCCCTGAGGGTGCAACGGATCAGACCGAAGA-AGCA-AG-TCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAA-ATA--ATAGATCTTATC
* * * *
81729 CCCCTGAAGTTGCAGTGGGGCAGA-CTGAAGAT-GTTGAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATC-GAA-ATAATAG-ATCTTATC
* * * *****
81774 TCTCTG-AGTTTACAGTGGAGCAGATTGTAGCCGGTA-ATCTTATC
1 TCCCTGAAG-TTGCAGTGGAGCAGATCG-AAATAATAGATCTTATC
*
81818 TCCCTGAAGTTGCAGTGGAGCGGATCGAAATAATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCTTATC
* * * * * *
81862 TCTCTGAAGTTGCAGTAGAGTAGATC-ACAT--CAGGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCTTATC
* * ** **
81903 TCCCTGAGGTTACAGACGAGCAGA-CTGAGGAAGCA-AG-TCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATC-GA--AATAATAGATCTTATC
* * * ** *
81947 CCCCTAAAGTTGCAGTGGGGCAGA-CTGAAGATGGTAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATC-GAA-ATAATAGATCTTATC
* * *** *
81992 TCCCTG-AGTTTGCAGTAGAGCAGATTGTAGCCAATA-ATCCTATC
1 TCCCTGAAG-TTGCAGTGGAGCAGATCG-AAATAATAGATCTTATC
*
82036 TCCCTGAAGTTGCAGTGGAGC-GAATTGAAATAATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAG-ATCGAAATAATAGATCTTATC
* * *
82080 TCTCTGAAGTTGCAGTAGAGTAGATC
1 TCCCTGAAGTTGCAGTGGAGCAGATC
82106 ACATCAAGCC
Statistics
Matches: 367, Mismatches: 103, Indels: 72
0.68 0.19 0.13
Matches are distributed among these distances:
40 1 0.00
41 48 0.13
42 4 0.01
43 26 0.07
44 223 0.61
45 61 0.17
46 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCGAAATAATAGATCTTATC
Found at i:81946 original size:218 final size:218
Alignment explanation
Indices: 81556--82111 Score: 873
Period size: 218 Copynumber: 2.6 Consensus size: 218
81546 AATCTTTCTT
* * *
81556 TCCCTGAGGTTGCAGTGGAGCAGATTGTAGACGATAATCCTATCTCCTTGAAGTTGCAGTGGAGC
1 TCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
81621 AGATTGAAATAATAGATTTTATCTCTCTG-AGTTTACAGTAAAGTAGATCACATCAGGTCTTATC
66 GGATTGAAATAATAGATCTTATCTCTCTGAAG-TTGCAGTAGAGTAGATCACATCAGGTCTTATC
* * *
81685 TCCCTGAGGGTGCAACGGATCAGACCGAAGAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGC
130 TCCCTGAGGGTACAACGGAGCAGACCGAAGAAGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGC
* *
81750 AGACTGAAGATGTTGAATCTTATC
195 AGACTGAAGATGGTAAATCTTATC
* * * *
81774 TCTCTGAGTTTACAGTGGAGCAGATTGTAGCCGGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 TCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
*
81839 GGATCGAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAGGTCTTATCT
66 GGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAGGTCTTATCT
* * *
81904 CCCTGAGGTTACAGAC-GAGCAGACTGAGGAAGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGC
131 CCCTGAGGGTACA-ACGGAGCAGACCGAAGAAGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGC
81968 AGACTGAAGATGGTAAATCTTATC
195 AGACTGAAGATGGTAAATCTTATC
* *
81992 TCCCTGAGTTTGCAGTAGAGCAGATTGTAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
*
82057 GAATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCA
66 GGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCA
82112 AGCCTTGCCT
Statistics
Matches: 308, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
218 304 0.99
219 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (218 bp):
TCCCTGAGTTTGCAGTGGAGCAGATTGTAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
GGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAGGTCTTATCT
CCCTGAGGGTACAACGGAGCAGACCGAAGAAGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCA
GACTGAAGATGGTAAATCTTATC
Found at i:82210 original size:87 final size:87
Alignment explanation
Indices: 82111--82431 Score: 563
Period size: 87 Copynumber: 3.7 Consensus size: 87
82101 AGATCACATC
*
82111 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCTACGTTA
1 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTA
* * *
82176 ACAGCAAAGCAGA-CTAAAAATA
66 ACAGCGAAGCAGATC-GAAAACA
* *
82198 AAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTA
1 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTA
82263 ACAGCGAAGCAGATCGAAAACA
66 ACAGCGAAGCAGATCGAAAACA
*
82285 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTA
1 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTA
82350 ACAGCGAAGCAGATCGAAAACA
66 ACAGCGAAGCAGATCGAAAACA
82372 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTA
1 AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTA
82432 AGCACTAGCG
Statistics
Matches: 225, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
87 224 1.00
88 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (87 bp):
AAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTACGTTA
ACAGCGAAGCAGATCGAAAACA
Found at i:82295 original size:43 final size:43
Alignment explanation
Indices: 82246--82382 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
82236 GATAGCAGAT
82246 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
82289 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCGAAA-ACA-AAG-C
82333 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
82376 CTTGCCT
1 CTTGCCT
82383 CCATCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 3 0.04
42 15 0.22
43 19 0.28
44 12 0.18
45 15 0.22
46 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:82727 original size:44 final size:44
Alignment explanation
Indices: 82676--82839 Score: 204
Period size: 44 Copynumber: 3.7 Consensus size: 44
82666 ATCGCATCTG
*
82676 GTCTTATCTCCTTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
*
82720 GTCTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
* *** * *
82764 GTCTTATCCCCCTGAAGTCATAGTGGGGCAGACTGA-AAAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA-CAA
* * * *
82808 ATCTTATCTCCCTGAGGTTCCAGTGGAGCAGA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA
82840 TTGAAGTCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.04
44 99 0.96
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
Found at i:82860 original size:44 final size:44
Alignment explanation
Indices: 82808--82928 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
82798 GAAAAAGCAA
* * *
82808 ATCTTATCTCCCTGAGGTTCCAGTGGAGCAGATTGAAGTCAATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-AATAG
* * * *
82852 AT-TCTATCTTCCTGAATTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
* *
82896 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
82929 CACATTAGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
43 5 0.08
44 55 0.90
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
Found at i:86512 original size:158 final size:158
Alignment explanation
Indices: 86308--86816 Score: 982
Period size: 158 Copynumber: 3.2 Consensus size: 158
86298 GTATTTGATT
* * *
86308 TAATTACTGTTTTTAAATTATATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTG
1 TAATTAGTATTTTTTAATT-TATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTG
86373 GGGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTT
65 GGGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTT
86438 GGGATCGAGTTAGGGTTTAAGGTTTAGGG
130 GGGATCGAGTTAGGGTTTAAGGTTTAGGG
86467 TAATTAGTATTTTTTAATTTATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTGG
1 TAATTAGTATTTTTTAATTTATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTGG
86532 GGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTTG
66 GGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTTG
86597 GGATCGAGTTAGGGTTTAAGGTTTAGGG
131 GGATCGAGTTAGGGTTTAAGGTTTAGGG
86625 TAATTAGTATTTTTTAATTTATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTGG
1 TAATTAGTATTTTTTAATTTATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTGG
86690 GGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTTG
66 GGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTTG
86755 GGATCGAGTTAGGGTTTAAGGTTTAGGG
131 GGATCGAGTTAGGGTTTAAGGTTTAGGG
86783 TAATTAGTATTTTTTAATTTATATATTAAATAAG
1 TAATTAGTATTTTTTAATTTATATATTAAATAAG
86817 TTTTTATATA
Statistics
Matches: 347, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
158 331 0.95
159 16 0.05
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.42
Consensus pattern (158 bp):
TAATTAGTATTTTTTAATTTATATATTAAATAAGGATTAGTAGTTAGTGGTTAGTGGTTAATTGG
GGTAATTAGGGTTATGGGTTTGGGATTAGAGGTTTAGAGTTAAAGATTTAAGGTTTAAAGATTTG
GGATCGAGTTAGGGTTTAAGGTTTAGGG
Found at i:87406 original size:83 final size:82
Alignment explanation
Indices: 87286--87548 Score: 225
Period size: 83 Copynumber: 3.2 Consensus size: 82
87276 TGAAATATTT
* * * * *
87286 TAGTGGCGTTTTGTAAGAAAACGCCGCAAAT-ACTTATTAAATTTTGCCAATGCGTCGCCGTTTC
1 TAGTGGCGTTTTTTAGGAAAACG-CGCAAATGATTTATTAAA-TTTCCCAAT-CGGCGCCGTTT-
*
87350 CATAT-TTGG-ACAAAATT-GA
62 -ATATACTGGAACAAAATTGGA
** *
87369 TAGTGGCGTTTTTTATGGAATTCG-GCAAATGATTTATTAAATTTCCCAATCGGCGCCGTTTATG
1 TAGTGGCGTTTTTTA-GGAAAACGCGCAAATGATTTATTAAATTTCCCAATCGGCGCCGTTTATA
*
87433 TACTGGAAATAAAATTGGA
65 TACTGG-AACAAAATTGGA
* * * * *
87452 TAGTGGCGTTTTTTAGGAAAACGCCGCAAATGATTTATTAAGTCTCTCAATGCGACGCCGTTTCT
1 TAGTGGCGTTTTTTAGGAAAACG-CGCAAATGATTTATTAAATTTCCCAAT-CGGCGCCGTTTAT
* *
87517 TTAGT-GAA-AAAATTTGGA
64 ATACTGGAACAAAA-TTGGA
*
87535 TACTGGCGTTTTTT
1 TAGTGGCGTTTTTT
87549 GAGAAATGCC
Statistics
Matches: 150, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
79 3 0.02
80 3 0.02
81 10 0.07
82 31 0.21
83 60 0.40
84 29 0.19
85 14 0.09
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (82 bp):
TAGTGGCGTTTTTTAGGAAAACGCGCAAATGATTTATTAAATTTCCCAATCGGCGCCGTTTATAT
ACTGGAACAAAATTGGA
Found at i:89781 original size:9 final size:9
Alignment explanation
Indices: 89764--89794 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89754 TCGAGTTGAT
89764 TCGAATAAC
1 TCGAATAAC
*
89773 TCGATTAAC
1 TCGAATAAC
89782 TCGAATAAC
1 TCGAATAAC
89791 TCGA
1 TCGA
89795 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:91173 original size:43 final size:42
Alignment explanation
Indices: 91101--91305 Score: 234
Period size: 43 Copynumber: 4.8 Consensus size: 42
91091 ACGTCGCTAA
* *
91101 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGC-TA-AGGAAAAAACGCCGCTAAAGATCATGTT
91145 CTTTAGCGGCGCTAAGGAAACAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAA-AAACGCCGCTAAAGATCATGTT
* * * *
91188 CTTTAGCGACGCTTACGAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
91230 CTTTAGTGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTAAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* * *
91273 CTATAGCGGCGCT-TGGTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTAAGG-AAAAAACGCCGCTAAA
91306 AGTAGTGTTA
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
42 59 0.42
43 72 0.51
44 11 0.08
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTAAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:91225 original size:42 final size:42
Alignment explanation
Indices: 91122--91305 Score: 239
Period size: 43 Copynumber: 4.3 Consensus size: 42
91112 CTTACAGAAA
* *
91122 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAA
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAG
* *
91164 ACAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTACGAG
1 A-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAG
*
91207 AAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGGAAG
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG-AG
* *
91250 AAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GGTCA-
1 AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG--AG
91292 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
91306 AGTAGTGTTA
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 54 0.43
43 73 0.57
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (42 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAG
Found at i:91272 original size:85 final size:85
Alignment explanation
Indices: 91122--91286 Score: 253
Period size: 85 Copynumber: 1.9 Consensus size: 85
91112 CTTACAGAAA
*
91122 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAACAAACGCCGCTAAAGATCATGT
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAACAAACGCCGCTAAAGATAATGT
*
91187 TCTTTAGCGACGCTTACGAG
66 TCTATAGCGACGCTTACGAG
* *
91207 AAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGGAAGA-AAACGCCGCTAAA-AGTAAT
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAA-ACAAACGCCGCTAAAGA-TAAT
*
91270 GTTCTATAGCGGCGCTT
64 GTTCTATAGCGACGCTT
91287 GGTCAAAAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
84 1 0.01
85 71 0.97
86 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (85 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAACAAACGCCGCTAAAGATAATGT
TCTATAGCGACGCTTACGAG
Found at i:91322 original size:42 final size:42
Alignment explanation
Indices: 91101--91329 Score: 211
Period size: 42 Copynumber: 5.4 Consensus size: 42
91091 ACGTCGCTAA
* * *
91101 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAGAAAACGCCGCTAAAAG-T-ATGTT
*
91145 CTTTAGCGGCGCTAAGGAA-ACAAACGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAGA-AAACGCCGCTAAAAG-T-ATGTT
* *
91188 CTTTAGCGACGCTTACG-AGAAAACGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAG-T-ATGTT
*
91230 CTTTAGTGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGT-ATGTT
* *
91273 CTATAGCGGCGCTT-GGTCA-AAAACGCCGCTAAAAGTAGTGTT
1 CTTTAGCGGCGCTTAGG-AAGAAAACGCCGCTAAAAGTA-TGTT
* *
91315 ATTTAGCGTCGCTTA
1 CTTTAGCGGCGCTTA
91330 TTTCATAAAC
Statistics
Matches: 162, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 72 0.44
43 72 0.44
44 17 0.10
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTATGTT
Found at i:91329 original size:85 final size:84
Alignment explanation
Indices: 91121--91305 Score: 250
Period size: 85 Copynumber: 2.2 Consensus size: 84
91111 GCTTACAGAA
* *
91121 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAACAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAACAAACGCCGCTAAAGATAATG
*
91186 TTCTTTAGCGACGCTTACG
66 TTCTATAGCGACGCTTACG
*
91205 AGAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGGAAGA-AAACGCCGCTAAA-AGTA
1 A-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-ACAAACGCCGCTAAAGA-TA
* *
91268 ATGTTCTATAGCGGCGCTT-GG
63 ATGTTCTATAGCGACGCTTACG
91289 TCAAAAACGCCGCTAAA
1 --AAAAACGCCGCTAAA
91306 AGTAGTGTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
84 3 0.03
85 85 0.94
86 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAACAAACGCCGCTAAAGATAATG
TTCTATAGCGACGCTTACG
Found at i:93581 original size:114 final size:113
Alignment explanation
Indices: 93307--93823 Score: 520
Period size: 114 Copynumber: 4.5 Consensus size: 113
93297 TACATCAAGA
* * * * *
93307 ACTAACTCTAATATACGTCAAGGCCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCC
1 ACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACC
* * * *
93372 A-CAAACGCCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCC
66 ACCAAACGCCGCTAATACTATACATTAGCGGCGTTTTCC-TTAAACGCC
* ** *
93420 ACTAATTCTAATATACCTCAAGACCAAACTCCACGTTTTGGTTAAGATATTTTGAGGCGCTTACC
1 ACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACC
* * * * *
93485 ACCAAACGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCC
66 ACCAAACGCCGCTAATACTATACATTAGCGGCGTTTTCCTTAAACGCC
* * * * * *
93533 ACTAATTATAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGCGTTTAA
1 ACTAATTCTAATATACATCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAC
* ** * *
93598 CGCTC-TGCGCCGCTAATACTATACATTAGCGGTGTTTTCTTTATAAGCGCC
65 CAC-CAAACGCCGCTAATACTATACATTAGCGGCGTTTTCCTTA-AA-CGCC
* * * * **
93649 ACTAATTGTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGACGCTT-TT
1 ACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACC
* * * * * * *
93713 GCTAAGCGCCGCTAATACTATGCATTACCGGCGTTTGTTCGTAAACGCC
66 ACCAAACGCCGCTAATACTATACATTAGCGGCGTTT-TCCTTAAACGCC
* * * *
93762 ACTAATTCTAATATACATCAAGACCAGAACGCTGCGTGTTGGTCT-TGAGATTTTGCGGCGCT
1 ACTAATTCTAATATACATCAAGACCA-AACTCTGCGTTTTGGT-TAAGATATTTTGCGGCGCT
93824 GTGTAGTAAA
Statistics
Matches: 336, Mismatches: 59, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
113 116 0.35
114 154 0.46
115 39 0.12
116 27 0.08
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (113 bp):
ACTAATTCTAATATACATCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACC
ACCAAACGCCGCTAATACTATACATTAGCGGCGTTTTCCTTAAACGCC
Found at i:93760 original size:229 final size:227
Alignment explanation
Indices: 93315--93804 Score: 574
Period size: 229 Copynumber: 2.2 Consensus size: 227
93305 GAACTAACTC
* * *
93315 TAATATACGTCAAGGCC-AAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAACG
1 TAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAACG
* * *
93379 CCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGAC
66 CCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAAGAC
* * * * *
93444 CAAACTCCACGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAACGCTGCTATTACTATGCT
131 CAAACTCCACGTTTTGGTTAACATATTTTGAGACGCTTACCACCAAACGCCGCTAATACTATGCA
** *
93509 TTAGTGGCGTTTTCCTTAAACGCCACTAATTA
196 TTACCGGCGTTTTCCGTAAACGCCACTAATTA
* ** * *
93541 TAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGCG-TTTAACGCTC-T
1 TAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTT--C-CACAA
* * ** *
93604 GCGCCGCTAATACTATACATTAGCGGTGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCA
63 ACGCCGCTAATACTATACATTAGCGGCGTTTTC-CAATAAGCGCCACTAATTCTAATATACATCA
** * * *** * *
93669 AGACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGACGCTT-TTGCTAAGCGCCGCTAATACTA
127 AGACCAAACTCCACGTTTTGGTTAACATATTTTGAGACGCTTACCACCAAACGCCGCTAATACTA
* *
93733 TGCATTACCGGCGTTTGTTCGTAAACGCCACTAATTC
192 TGCATTACCGGCGTTT-TCCGTAAACGCCACTAATTA
* *
93770 TAATATACATCAAGACCAGAACGCTGCGTGTTGGT
1 TAATATACATCAAGACCAAAACGCTGCGTTTTGGT
93805 CTTGAGATTT
Statistics
Matches: 220, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
226 17 0.08
227 31 0.14
228 58 0.26
229 114 0.52
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (227 bp):
TAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAACG
CCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAAGAC
CAAACTCCACGTTTTGGTTAACATATTTTGAGACGCTTACCACCAAACGCCGCTAATACTATGCA
TTACCGGCGTTTTCCGTAAACGCCACTAATTA
Found at i:94298 original size:13 final size:13
Alignment explanation
Indices: 94282--94340 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
94272 TTACTAAAAT
*
94282 TTACTTTAATATA
1 TTACTTAAATATA
*
94295 TTACTTGAATATA
1 TTACTTAAATATA
*
94308 TTACTTAAATAAA
1 TTACTTAAATATA
*
94321 TTACTTAAATACA
1 TTACTTAAATATA
94334 TTACTTA
1 TTACTTA
94341 CTAAAATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:94347 original size:26 final size:27
Alignment explanation
Indices: 94294--94403 Score: 73
Period size: 27 Copynumber: 4.1 Consensus size: 27
94284 ACTTTAATAT
* * *
94294 ATTACTTGAATATATTACTTA-AATAA
1 ATTACTTAAATACATTACTTACTATAA
94320 ATTACTTAAATACATTACTTACTA-AA
1 ATTACTTAAATACATTACTTACTATAA
** ** * *
94346 ATTTGGTTAAATTTATTACTTAATATTA
1 A-TTACTTAAATACATTACTTACTATAA
* * *
94374 CTTACTAAAACTGCATTACTTACTA-AA
1 ATTACTTAAA-TACATTACTTACTATAA
94401 ATT
1 ATT
94404 TAAGTATATA
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
26 22 0.35
27 28 0.45
28 12 0.19
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTACTTAAATACATTACTTACTATAA
Found at i:94626 original size:17 final size:17
Alignment explanation
Indices: 94599--94637 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
94589 CTTATATGTA
94599 AACTT-ACATAATACAT
1 AACTTAACATAATACAT
94615 AACTTAACATAATACAT
1 AACTTAACATAATACAT
94632 AACTTA
1 AACTTA
94638 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (17 bp):
AACTTAACATAATACAT
Found at i:94777 original size:9 final size:9
Alignment explanation
Indices: 94745--94868 Score: 125
Period size: 9 Copynumber: 14.2 Consensus size: 9
94735 ATAACATAAC
94745 AACTTACAT
1 AACTTACAT
94754 AA--TACAT
1 AACTTACAT
* *
94761 AGCATACAT
1 AACTTACAT
94770 AACTTACAT
1 AACTTACAT
*
94779 AA--TACAA
1 AACTTACAT
94786 AACTTACAT
1 AACTTACAT
*
94795 AACTTAAAT
1 AACTTACAT
* *
94804 ATCTTACAC
1 AACTTACAT
94813 AACTTACAT
1 AACTTACAT
*
94822 AACCTACAT
1 AACTTACAT
94831 AA--TACATTT
1 AACTTACA--T
94840 AACTTACAT
1 AACTTACAT
94849 AACTTACAT
1 AACTTACAT
94858 AACTTACAT
1 AACTTACAT
94867 AA
1 AA
94869 TACANNNNNN
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
7 16 0.17
9 75 0.79
11 4 0.04
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:94978 original size:9 final size:9
Alignment explanation
Indices: 94910--95012 Score: 60
Period size: 9 Copynumber: 12.0 Consensus size: 9
94900 ATAATACACA
94910 ATAACTTAC
1 ATAACTTAC
94919 --AACTTAC
1 ATAACTTAC
*
94926 ATAACATAC
1 ATAACTTAC
* *
94935 AT-ATTTATG
1 ATAACTTA-C
94944 ATAACTTAC
1 ATAACTTAC
*
94953 ATAGCTTAC
1 ATAACTTAC
*
94962 TTAA--TAC
1 ATAACTTAC
*
94969 ATGACTTAC
1 ATAACTTAC
94978 ATAACTT--
1 ATAACTTAC
94985 AT-ACTCGTAC
1 ATAACT--TAC
94995 ATAACTTAC
1 ATAACTTAC
*
95004 ATAATTTAC
1 ATAACTTAC
95013 TTAATACATA
Statistics
Matches: 70, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
6 3 0.04
7 14 0.20
8 4 0.06
9 40 0.57
10 6 0.09
11 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:100265 original size:21 final size:21
Alignment explanation
Indices: 100240--100310 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
100230 CAGCAGCTTA
*
100240 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* *
100261 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* ** *
100282 AAGTAGAGGCTACAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
100303 AAGAAGAG
1 AAGCAGAG
100311 CAACATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:100683 original size:43 final size:42
Alignment explanation
Indices: 100631--101136 Score: 337
Period size: 43 Copynumber: 11.8 Consensus size: 42
100621 TCTGCCATAA
* * *
100631 TTAGTGGCGTTTTTAAAAAAAGCGCCGCTAAAGATAACGGTCT
1 TTAGCGGCGTTTTT-ATAAAAGCGCCGCTAAAGATAATGGTCT
** ** * *
100674 TTAGCGGCGTTTGTGGTAAAAATGTCGCTAAAGGTAATGGTCT
1 TTAGCGGCGTTT-TTATAAAAGCGCCGCTAAAGATAATGGTCT
* *
100717 TTAGCGGCGTTTCTATAAAAGCGTCGCTAAAGATAATGGTCT
1 TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATAATGGTCT
* *
100759 TTAGCGGCGTTTCTATAAAAGCGTCGCTAAAGATAATGGTCT
1 TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATAATGGTCT
* *
100801 TTAGCGGCGTTTCTATAAAAGCGTCGCTAAAGATAATGGTCT
1 TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATAATGGTCT
** * * ** * *
100843 TTAGCGGCGTTTGCGACAAAAGCGCTGCTAAAGAGCAGGGACT
1 TTAGCGGCGTTT-TTATAAAAGCGCCGCTAAAGATAATGGTCT
** * * * * *
100886 TTAGCGGCGTTTGTTGGAAAAGTGCTGCTAAAGATCAGGGTAT
1 TTAGCGGCGTTT-TTATAAAAGCGCCGCTAAAGATAATGGTCT
* ** * * * *
100929 TTAGCAGCGTTTGTTGGAAAAGTGCCGCTAAAGATCAGGGTAT
1 TTAGCGGCGTTT-TTATAAAAGCGCCGCTAAAGATAATGGTCT
* ** * * * * *
100972 TTAGCGGCATTTGCAGGAAATGCGCCGCTAAAAGGTCATGGTAT
1 TTAGCGGCGTTTTTA-TAAAAGCGCCGCT-AAAGATAATGGTCT
* * * * * ** **
101016 TTAGTGGCGTTTGTCTGAAAAACACCGCTAAAGACCATGACCT
1 TTAGCGGCGTTTTTAT-AAAAGCGCCGCTAAAGATAATGGTCT
* *** * **
101059 TTAGAGGCGTTTGTTGCGAAAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTT-TTATAAAAGCGCCGCTAAAGATAATGGTCT
* * *
101102 TTAGCAGCGTTTATTTCTAAAAGCGCTGCTAAAGA
1 TTAGCGGCG-TT-TTTATAAAAGCGCCGCTAAAGA
101137 CCATTATCTT
Statistics
Matches: 381, Mismatches: 74, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
42 120 0.31
43 208 0.55
44 52 0.14
45 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATAATGGTCT
Found at i:100754 original size:42 final size:42
Alignment explanation
Indices: 100648--100897 Score: 349
Period size: 42 Copynumber: 5.9 Consensus size: 42
100638 CGTTTTTAAA
* * * *
100648 AAAAGCGCCGCTAAAGATAACGGTCTTTAGCGGCGTTTGTGGT
1 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCT-AT
** *
100691 AAAAATGTCGCTAAAGGTAATGGTCTTTAGCGGCGTTTCTAT
1 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
100733 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
1 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
100775 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
1 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
* *
100817 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTGCGAC
1 AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTT-CTAT
** * *
100860 AAAAGCG-CTGCTAAAGAGCAGGGACTTTAGCGGCGTTT
1 AAAAGCGTC-GCTAAAGATAATGGTCTTTAGCGGCGTTT
100898 GTTGGAAAAG
Statistics
Matches: 189, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 121 0.64
43 68 0.36
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
AAAAGCGTCGCTAAAGATAATGGTCTTTAGCGGCGTTTCTAT
Found at i:101211 original size:19 final size:20
Alignment explanation
Indices: 101184--101238 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
101174 ATTTTCGAGG
101184 ATATACAATCTTAGATAT-T
1 ATATACAATCTTAGATATAT
*
101203 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATAT-AT
101224 ATATACAATCTTAGA
1 ATATACAATCTTAGA
101239 AGATATGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (20 bp):
ATATACAATCTTAGATATAT
Found at i:106785 original size:19 final size:19
Alignment explanation
Indices: 106758--106794 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
106748 TTTTCAACAA
106758 AAAAAAAAAAGAAAGAAAG
1 AAAAAAAAAAGAAAGAAAG
*
106777 AAAAGAAAAAGAAAGAAA
1 AAAAAAAAAAGAAAGAAA
106795 AAGGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAGAAAG
Found at i:106787 original size:15 final size:16
Alignment explanation
Indices: 106769--106806 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
106759 AAAAAAAAAG
106769 AAAGAAAG-AAAAGAA
1 AAAGAAAGAAAAAGAA
*
106784 AAAGAAAGAAAAAGGA
1 AAAGAAAGAAAAAGAA
106800 AAAGAAA
1 AAAGAAA
106807 AGCAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:106801 original size:22 final size:22
Alignment explanation
Indices: 106756--106807 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
106746 ATTTTTCAAC
106756 AAAA-AAAAAAAAGAAAGAAAG
1 AAAAGAAAAAAAAGAAAGAAAG
*
106777 AAAAGAAAAAGAAAGAAA-AAGG
1 AAAAGAAAAA-AAAGAAAGAAAG
106799 AAAAGAAAA
1 AAAAGAAAA
106808 GCAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 17 0.61
23 7 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAAAGAAAGAAAG
Found at i:108050 original size:44 final size:44
Alignment explanation
Indices: 108002--108318 Score: 108
Period size: 44 Copynumber: 7.2 Consensus size: 44
107992 AAGATTGTAG
108002 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * ** * **
108046 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA
** * * *** * * * ** * *
108090 GCCTTGTCTCCCTAAGCAGCAGCATAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* *
108134 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * ** **
108178 ATATTATCTTTCC-AAGACAGT-G-GGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAG-CAGTAGTGG-AGCAGATCGAAGACGGCAA
* * * * * * ** * ** * ** * *
108221 AGCCTTGTCTCTCTGAGCAGCAGCGGAAAAGGTAAAAAATTGTAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
*
108266 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
108310 ATCTTATCT
1 ATCTTATCT
108319 TTCCAAGATA
Statistics
Matches: 176, Mismatches: 83, Indels: 28
0.61 0.29 0.10
Matches are distributed among these distances:
42 4 0.02
43 18 0.10
44 137 0.78
45 15 0.09
46 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
Found at i:108123 original size:132 final size:132
Alignment explanation
Indices: 107952--110372 Score: 3598
Period size: 132 Copynumber: 18.4 Consensus size: 132
107942 ATCGGTGAAA
107952 CACCAAGCCTTGTCTC-CTTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCTC-TGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* *
108016 AGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
108081 AGC
130 AGC
* * ** *
108084 CACCAAGCCTTGTCTCCCTAAGCAGCAGCATAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
108149 GCAGTAGTGGAGCAAATCAAAGACGGCAAATATTATCTTTCCAAGACAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
108214 GC
131 GC
* * ** *
108216 CACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAAAAGGTAAAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
108281 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
108346 GC
131 GC
* * * * * **
108348 CACCAAGCCTTATCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCGGAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
108413 ACAGTAGTGGAGTAGATCAAAG-CGGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCAAAGAC-GGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
108477 AGC
130 AGC
** * *
108480 CAAAAAGCCTTGTCTCTTTGAGCAGCAGCGAAGAAGGTTGAAGATTGTAAGA-CTTATCTCCCTA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTA
* *
108544 AGCAGTAGTGGAGCATATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
108609 AGC
130 AGC
* *
108612 CACAAAGCCTTGTCTCTCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
108677 GCAGTAGTGGAGCATATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
108742 GC
131 GC
* *
108744 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
108809 GCAGTAGTGGAGTAGATCCAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTCA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
108874 GC
131 GC
* * **
108876 CACAAAGCCTTGTCTCTCTGAGCAACAGCGGAGAATATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
108941 GCAGTAGTGGGGCAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109006 GC
131 GC
* * * * * * *
109008 CACCAAGCCTTGCCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTATAGATCTCATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
109073 GCAGTAGTGGAGTAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109138 GC
131 GC
* * * *
109140 CACAAAGCATTGTTTCTCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
109205 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATGTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109270 GC
131 GC
* * * *
109272 CACAAAGCCTTGTCTCTTTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCTCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
109337 GCAGTAGTGTAGTAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109402 GC
131 GC
* * * *
109404 CACAAAGCCTTGTCTCTTTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATTTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
109469 GCAGTAGTGGAGCAGATCAAAGATGGTAAATATTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109534 GC
131 GC
* * **
109536 CACAAAGCCTTGTCTCTCTAAGCAGCAGCGGAGAAAATT-AAGGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAA-GATTGTAGATCTTATCTCCCTA
* * *
109600 AGCAGTAGTAGAGCAGATCAAAGACGTCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
109665 AGC
130 AGC
* * * * * *
109668 CACCAAGCTTTGTCTCCCTAAGCAGCAGCGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
109733 GCAATAGGGGAGCAGATCAAAGATGGAAAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
109798 GC
131 GC
* *
109800 CACCAAGCCTTGTCTC-CTTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCTC-TGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * * *
109864 AGCAGTAGTGGAGCAGATCAAAGTCGACAAATCTTATCTTTTCAAGATAGTAGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
109929 AGC
130 AGC
* * *
109932 CACCAAGCATTGTCTCTCTGAGCAGCAGCGGAGAAGATTGAGGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
109997 GCAGTAGTGGAGCAGATCAAAGACGTCAAATCTTATCTTTCCAAGATAGTGGGAAGCGGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
110062 GC
131 GC
* * *
110064 CACCAAGCTTTGTCTC-CTTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCTC-TGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * *
110128 AACAGTAGTGGAGCAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
110192 AGC
130 AGC
* * * *
110195 CACAAAGTCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
110260 GCAGTAGTGGAGCAGATCAAAGTCGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
110325 GC
131 GC
* * * *
110327 CACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-ATTG
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
110373 CAGTGGAGGA
Statistics
Matches: 2076, Mismatches: 201, Indels: 25
0.90 0.09 0.01
Matches are distributed among these distances:
131 134 0.06
132 1935 0.93
133 7 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:108580 original size:44 final size:44
Alignment explanation
Indices: 108532--108846 Score: 131
Period size: 44 Copynumber: 7.2 Consensus size: 44
108522 GATTGTAAGA
*
108532 CTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGATGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
* ** *** *
108576 CTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAAAGC
1 CTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGATGGCAAA-T
* * * * * * ** * * *
108620 CTTGTCTCTCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
*
108664 CTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGATGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
* * ** **** **
108708 CTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACCAAGC
1 CTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGATGGCAAAT
* * * * * * ** * * *
108752 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
* *
108796 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCCAAGATGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
108840 CTTATCT
1 CTTATCT
108847 TTCCAAGATA
Statistics
Matches: 187, Mismatches: 70, Indels: 28
0.66 0.25 0.10
Matches are distributed among these distances:
42 8 0.04
43 15 0.08
44 146 0.78
45 14 0.07
46 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAAT
Found at i:109898 original size:44 final size:44
Alignment explanation
Indices: 109850--110297 Score: 111
Period size: 44 Copynumber: 10.2 Consensus size: 44
109840 AAAATTGTAG
109850 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGACAA
** ** * *
109894 ATCTTATCT-TTTCAAG-A-TAGTAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AAGCAGTAGT-GG-AGCAGATCAAAGTCGACAA
* * * * * * * ** * * * *
109937 AGCATTGTCTCTCTGAGCAGCAGCGGAGAAGATTGAGGATTG-TAG
1 ATC-TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG-TCGACAA
* *
109982 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGTCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGACAA
* * ** * *
110026 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCGGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGTCGACAA
* * * * * * * * * * * * *
110069 AGCTTTGTCTCCTTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TAG
1 ATC-TTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGTCGACAA
* *
110114 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG-TCGACAA
* * *
110158 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT-TAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGTCGACAA
* * * * * * * * * * * *
110200 AGTCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGTCGACAA
*
110245 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGACAA
110289 ATCTTATCT
1 ATCTTATCT
110298 TTCCAAGATA
Statistics
Matches: 268, Mismatches: 103, Indels: 66
0.61 0.24 0.15
Matches are distributed among these distances:
41 1 0.00
42 17 0.06
43 50 0.19
44 168 0.63
45 28 0.10
46 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGTCGACAA
Found at i:110628 original size:44 final size:45
Alignment explanation
Indices: 110571--110685 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 45
110561 TCGCATCTAG
*
110571 TCTTATTTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-GTAAACAA
1 TCTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAATG-AAACAA
*
110614 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAATGAACCAA
1 -TCTTATCTCTCCTGAAGTTGCAGTGGA-GCAGACTGAATGAAACAA
* *
110659 TCTTATCTCTCC-GATGTTGCGGTGGAG
1 TCTTATCTCTCCTGAAGTTGCAGTGGAG
110686 TGGATCGAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
43 3 0.05
44 44 0.72
45 13 0.21
46 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAATGAAACAA
Found at i:110939 original size:21 final size:21
Alignment explanation
Indices: 110910--110987 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
110900 ATTTTCGAGG
110910 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
110931 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
110952 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
110973 ATATACAATCTTAGA
1 ATATACAATCTTAGA
110988 AGATATGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:111459 original size:3 final size:3
Alignment explanation
Indices: 111451--111490 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
111441 ATTAATTTTG
*
111451 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
111491 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:111459 original size:15 final size:15
Alignment explanation
Indices: 111435--111489 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
111425 GTTTTTAGTC
111435 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
111449 TGTTATTATTATTTT
1 TATTATTATTAATTT
111464 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
111478 ATATTATTATTA
1 -TATTATTATTA
111490 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:111466 original size:12 final size:12
Alignment explanation
Indices: 111437--111488 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
111427 TTTTAGTCTA
111437 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
111449 TGTTATTATTAT
1 TTTTATTATTAT
111461 TTTTATTATTAT
1 TTTTATTATTAT
111473 ATTATATATTATTAT
1 -TT-T-TATTATTAT
111488 T
1 T
111489 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:111839 original size:52 final size:51
Alignment explanation
Indices: 111758--111857 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 51
111748 GTTTTTATAT
111758 TATACTTATATATTTCATTTTTTAGTAAATGCATGAATATATTTTATATGTG
1 TATACTTATATATTTCATTTTTTAGTAAATGCAT-AATATATTTTATATGTG
* * * *
111810 TATATTTATAT-TTTCCTTGTTTTCA-TAAATGCATTATGTATTTTATAT
1 TATACTTATATATTTCATT-TTTT-AGTAAATGCATAATATATTTTATAT
111858 ATATATAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
51 18 0.43
52 23 0.55
53 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (51 bp):
TATACTTATATATTTCATTTTTTAGTAAATGCATAATATATTTTATATGTG
Found at i:113605 original size:15 final size:16
Alignment explanation
Indices: 113578--113608 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
113568 GTAAGACATG
113578 ATGTGATTATGATTCA
1 ATGTGATTATGATTCA
113594 ATGTGA-TATGATTCA
1 ATGTGATTATGATTCA
113609 TAAAAAAATA
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:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (16 bp):
ATGTGATTATGATTCA
Found at i:114476 original size:19 final size:19
Alignment explanation
Indices: 114437--114492 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
114427 TTTTTTAAAG
*
114437 ATAAAAATTTTGGAATTTTT
1 ATAAATATTTT-GAATTTTT
*
114457 ATAAATATTTTGATTTTTT
1 ATAAATATTTTGAATTTTT
*
114476 AAAAATTATTTTGAATT
1 ATAAA-TATTTTGAATT
114493 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:116275 original size:8 final size:8
Alignment explanation
Indices: 116262--116295 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
116252 ATTTATCATC
116262 TTTTATTA
1 TTTTATTA
116270 TTTTATTA
1 TTTTATTA
116278 TTTTATTA
1 TTTTATTA
116286 TTTTATTA
1 TTTTATTA
116294 TT
1 TT
116296 CCGATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:121039 original size:45 final size:44
Alignment explanation
Indices: 120989--121207 Score: 214
Period size: 45 Copynumber: 4.9 Consensus size: 44
120979 ATTAGACCAA
*
120989 ATATCCTCGAATATAAAGGTGGTTGCTAAGCGCTAATTCCACCGG
1 ATATCCT-GAATATAAAGGTGGTTGCTAAGTGCTAATTCCACCGG
* * **
121034 ATATCCATG--TA-AGTAGGTGGTTGTTAAGTGCTAATTCCACCAA
1 ATATCC-TGAATATA-AAGGTGGTTGCTAAGTGCTAATTCCACCGG
* *
121077 ATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACTGG
1 ATATCCT-GAATATAAAGGTGGTTGCTAAGTGCTAATTCCACCGG
* ** *
121122 ATATCCATGTAA-GT-AAGGTGGTTGCTAAGTGCTGGTTCCATCGG
1 ATATCC-TG-AATATAAAGGTGGTTGCTAAGTGCTAATTCCACCGG
* * *
121166 ATAACCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 ATATCC-TGAATATAAAGGTGGTTGCTAAGTGCTAATTCCAC
121208 AGTGTAATTA
Statistics
Matches: 143, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.01
43 36 0.25
44 35 0.24
45 65 0.45
46 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
ATATCCTGAATATAAAGGTGGTTGCTAAGTGCTAATTCCACCGG
Found at i:121053 original size:43 final size:43
Alignment explanation
Indices: 121005--121168 Score: 179
Period size: 43 Copynumber: 3.7 Consensus size: 43
120995 TCGAATATAA
*
121005 AGGTGGTTGCTAAGCGCTAATTCCACCGGATATCCATGTAAGT
1 AGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAAGT
* ** *
121048 AGGTGGTTGTTAAGTGCTAATTCCACCAAATATCC-TCGAATATA-A
1 AGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCAT-G--TA-AGT
* *
121093 AGGTGGTTGCTAAGTGCTGATTCCACTGGATATCCATGTAAGT
1 AGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAAGT
** *
121136 AAGGTGGTTGCTAAGTGCTGGTTCCATCGGATA
1 -AGGTGGTTGCTAAGTGCTAATTCCACCGGATA
121169 ACCTTGAATA
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
42 2 0.02
43 34 0.34
44 29 0.29
45 33 0.33
46 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
AGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAAGT
Found at i:121133 original size:88 final size:89
Alignment explanation
Indices: 120984--121207 Score: 333
Period size: 89 Copynumber: 2.5 Consensus size: 89
120974 CTCGGATTAG
* *
120984 ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGCGCTAATTCCACCGGATATCCATGTAAGT-
1 ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTA
*
121048 AGGTGGTTGTTAAGTGCTAATTCC
66 AGGTGGTTGCTAAGTGCTAATTCC
*
121072 ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACTGGATATCCATGTAAGTA
1 ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTA
**
121137 AGGTGGTTGCTAAGTGCTGGTTCC
66 AGGTGGTTGCTAAGTGCTAATTCC
* ** * * *
121161 ATCGGATAACCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCAC
121208 AGTGTAATTA
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 61 0.50
89 62 0.50
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (89 bp):
ACCAAATATCCTCGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTA
AGGTGGTTGCTAAGTGCTAATTCC
Found at i:130122 original size:15 final size:15
Alignment explanation
Indices: 130084--130122 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
130074 GATTGGACAT
*
130084 AAATGATTAGGGCTC
1 AAATGATTTGGGCTC
130099 AAATGATTTGGGCTC
1 AAATGATTTGGGCTC
130114 AAATGATTT
1 AAATGATTT
130123 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (15 bp):
AAATGATTTGGGCTC
Found at i:141495 original size:25 final size:25
Alignment explanation
Indices: 141461--141559 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
141451 TAGGGTTACT
*
141461 GATTTATAGCTCGTAAGAGCATACC
1 GATTCATAGCTCGTAAGAGCATACC
*
141486 GATTCATAGCTCGTGAGAGCATACC
1 GATTCATAGCTCGTAAGAGCATACC
* * *
141511 GA-TCTTTAGCTC-AAATGAGCATACT
1 GATTC-ATAGCTCGTAA-GAGCATACC
* *
141536 GATTCACAGCTCGTATGAGCATAC
1 GATTCATAGCTCGTAAGAGCATAC
141560 ATGTACATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.05
25 54 0.90
26 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GATTCATAGCTCGTAAGAGCATACC
Found at i:145073 original size:13 final size:14
Alignment explanation
Indices: 145046--145078 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
145036 TAGATCTATA
145046 AATTAAAAAAGAAT
1 AATTAAAAAAGAAT
*
145060 AATTAAAATA-AAT
1 AATTAAAAAAGAAT
145073 AATTAA
1 AATTAA
145079 TATGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATTAAAAAAGAAT
Found at i:153424 original size:105 final size:103
Alignment explanation
Indices: 153207--153434 Score: 278
Period size: 104 Copynumber: 2.2 Consensus size: 103
153197 GTTCACACGA
* * * *
153207 GCAAGGACATGGGCGTGTGTATAGGCCGTGTAACTCACTGTTTATGATTTAGGAGCACATGGCCA
1 GCAAGGACAT-GGCGTGTGTACAAGCCGTGTAACTCACTGTTTATGATTTAGAAGCACAAGGCCA
* * * * *
153272 GGGACATGGGTGTGTGCCTAGGCTGTGTGAGCCATACGG
65 GGGACATGGGCGTGTGCCCAGGCTATGTGAGCCACACAG
* * *
153311 GCAAGGACATAGGCGTGTGTCCAAGCCGTGTAACTCACTTTTTATGATTTAGAATCACACAGG-C
1 GCAAGGACAT-GGCGTGTGTACAAGCCGTGTAACTCACTGTTTATGATTTAGAAGCACA-AGGCC
* *
153375 AGATGACATGGGCGTGTGCCCAGGCTATGTGAGCTACACAG
64 AG-GGACATGGGCGTGTGCCCAGGCTATGTGAGCCACACAG
153416 GCAAGGACATGAGCGTGTG
1 GCAAGGACATG-GCGTGTG
153435 CCCAGGCCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
104 56 0.53
105 50 0.47
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (103 bp):
GCAAGGACATGGCGTGTGTACAAGCCGTGTAACTCACTGTTTATGATTTAGAAGCACAAGGCCAG
GGACATGGGCGTGTGCCCAGGCTATGTGAGCCACACAG
Found at i:153432 original size:42 final size:42
Alignment explanation
Indices: 153366--153476 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 42
153356 GATTTAGAAT
*
153366 CACACAGGCAGATGACATGGGCGTGTGCCCAGG-CTATGTGAGC
1 CACACAGGCA-AGGACATGGGCGTGTGCCCAGGCCT-TGTGAGC
* *
153409 TACACAGGCAAGGACATGAGCGTGTGCCCAGGCCTTGTGAGC
1 CACACAGGCAAGGACATGGGCGTGTGCCCAGGCCTTGTGAGC
153451 CACACAGGCAAGGACATGGGCGTGTG
1 CACACAGGCAAGGACATGGGCGTGTG
153477 TCTAGGTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 51 0.82
43 11 0.18
ACGTcount: A:0.24, C:0.25, G:0.35, T:0.15
Consensus pattern (42 bp):
CACACAGGCAAGGACATGGGCGTGTGCCCAGGCCTTGTGAGC
Found at i:155315 original size:28 final size:28
Alignment explanation
Indices: 155284--155341 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
155274 TTTTTAAAAC
*
155284 AAAAT-AAAGTAA-AGAGTTTAAATTCTTA
1 AAAATAAAAGTAAGA-AGATTAAATT-TTA
155312 AAAATAAAAGTAAGAAGATTAAATTTTA
1 AAAATAAAAGTAAGAAGATTAAATTTTA
155340 AA
1 AA
155342 TGTACGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 10 0.37
29 16 0.59
30 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (28 bp):
AAAATAAAAGTAAGAAGATTAAATTTTA
Found at i:155544 original size:14 final size:16
Alignment explanation
Indices: 155513--155545 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
155503 AAGAAATCAG
155513 TAATCTAACTTATATT
1 TAATCTAACTTATATT
155529 TAATCTAA-TT-TATT
1 TAATCTAACTTATATT
155543 TAA
1 TAA
155546 CTTATAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATCTAACTTATATT
Found at i:155844 original size:2 final size:2
Alignment explanation
Indices: 155837--155862 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
155827 AGCTTTCTGC
155837 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
155863 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:161751 original size:24 final size:25
Alignment explanation
Indices: 161693--161756 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
161683 TGGACACACC
* * *
161693 ACAGCTTGCATGAGATTTCCGTTAT
1 ACAGCTCGTATGAGCTTTCCGTTAT
*
161718 TCAGCTCGTATGAGCTTTCCGTT-T
1 ACAGCTCGTATGAGCTTTCCGTTAT
161742 ACAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
161757 ATACAAGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTTCCGTTAT
Found at i:162281 original size:19 final size:19
Alignment explanation
Indices: 162257--162293 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
162247 ATTTAGCCAA
*
162257 TGTTGGTATATAATTGTTT
1 TGTTGGTATATAAATGTTT
162276 TGTTGGTATATAAATGTT
1 TGTTGGTATATAAATGTT
162294 GGTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (19 bp):
TGTTGGTATATAAATGTTT
Found at i:164787 original size:6 final size:6
Alignment explanation
Indices: 164776--164801 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
164766 TCGTTCATAA
164776 TAATTT TAATTT TAATTT TAATTT TA
1 TAATTT TAATTT TAATTT TAATTT TA
164802 TTTACTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:169834 original size:26 final size:26
Alignment explanation
Indices: 169796--169846 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
169786 CTTCGTTACT
169796 ATTATTATTATTA-TTATATAGTTTTC
1 ATTATTATTATTATTTATATA-TTTTC
169822 ATTATT-TTAATTATTTATATATTTT
1 ATTATTATT-ATTATTTATATATTTT
169847 ATGCCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 14 0.61
27 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTATTATTATTATTTATATATTTTC
Found at i:181214 original size:26 final size:26
Alignment explanation
Indices: 181185--181238 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
181175 TTCATATTAC
* *
181185 TTGTTGTTCTTGGAATATTTTATTCT
1 TTGTTGCTCTTGGAATACTTTATTCT
*
181211 TTGTTGCTCTTGGAATACTTTGTTCT
1 TTGTTGCTCTTGGAATACTTTATTCT
181237 TT
1 TT
181239 TCAAGATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.59
Consensus pattern (26 bp):
TTGTTGCTCTTGGAATACTTTATTCT
Found at i:182196 original size:44 final size:44
Alignment explanation
Indices: 182086--182647 Score: 334
Period size: 44 Copynumber: 12.8 Consensus size: 44
182076 TAAAACCACA
* * * * * ****
182086 AATCCTATTTCCCTGAAGTTGAAGTAGAGCGGATTGAAGATGGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * *
182130 AAGTCTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGCCAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * * ****
182175 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * *
182219 AAGTCTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGCCAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * * ****
182264 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * * * *
182308 AAGTCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTAAAGCCAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * * **
182353 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATT-AAAATGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * * *
182396 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC--T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * * ** * *
182437 AGTCTTATCACTCTGAAGTTGCAGCAGAGCAGACT-AAG-CAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-AAT
* * * **
182480 AGATCTTATCCCCCTAAAGTTGCAGTAGG-GCAGATTGAAGATGACG
1 A-ATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGA-CAAT
** *
182526 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-AT
* * * *
182570 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
* * *
182613 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
182648 CGCATCCAGT
Statistics
Matches: 389, Mismatches: 110, Indels: 38
0.72 0.20 0.07
Matches are distributed among these distances:
40 23 0.06
41 10 0.03
43 18 0.05
44 205 0.53
45 131 0.34
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAAT
Found at i:182237 original size:89 final size:89
Alignment explanation
Indices: 182086--182429 Score: 493
Period size: 89 Copynumber: 3.9 Consensus size: 89
182076 TAAAACCACA
* * *
182086 AATCCTATTTCCCTGAAGTTG-AAGTAGAGCGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAA-TGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGT
182150 TGCAGCGGAGCAGATTGAAGCCAAT
65 TGCAGCGGAGCAGATTGAAGCCAAT
182175 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGTT
182240 GCAGCGGAGCAGATTGAAGCCAAT
66 GCAGCGGAGCAGATTGAAGCCAAT
*
182264 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTAAAGTT
1 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGTT
* * * *
182329 GTAGTGGAGTAGATTAAAGCCAAT
66 GCAGCGGAGCAGATTGAAGCCAAT
* * * *
182353 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATT-AAAAT-G-ATAGATCTTATCT-CTCTGAA
1 AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCA-AG-TCTTATCTCCT-TGAA
*
182414 GTTGCAG-AGAGCAGAT
63 GTTGCAGCGGAGCAGAT
182430 CGCATCTAGT
Statistics
Matches: 235, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.00
87 12 0.05
88 21 0.09
89 199 0.85
90 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
AATCCTATCTCCCTGAAGTTGCAATGGAACGGATTGAAGATGGCAAGTCTTATCTCCTTGAAGTT
GCAGCGGAGCAGATTGAAGCCAAT
Found at i:182518 original size:217 final size:216
Alignment explanation
Indices: 182220--182678 Score: 570
Period size: 217 Copynumber: 2.1 Consensus size: 216
182210 GAAGATGGCA
* * * * * *
182220 AGTCTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCC-TGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATCCCCCTAAAGTTG
* * * * * *
182285 CAATGGAACGGATTGAAGATGGC-AAGTCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTA-AAG
65 CAATGGAACAGATTGAAGATGACGAA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CAGAAG
* ** *
182348 CCAA-TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATGATAGATCTTATCTCTCTG
128 --AACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTG
*
182412 AAGTTGCAG-AGAGCAGATCGCATCT
191 AAGTTGCAGTAGAGCAGATCGCATCC
* *
182437 AGTCTTATCACTCTGAAGTTGCAGCAGAGCAGACT-AAGCAAACAGATCTTATCCCCCTAAAGTT
1 AGTCTTATCTC-CTGAAGTTGCAGCAGAGCAGACTGAAGCAAACA-ATCCTATCCCCCTAAAGTT
* * *
182501 GCAGTAGG-GCAGATTGAAGATGACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAG
64 GCAAT-GGAACAGATTGAAGATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAG
182565 AAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGA
128 AA-CTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGA
*
182630 AGTTGCAGTAGAGTAGATCGCATCC
192 AGTTGCAGTAGAGCAGATCGCATCC
*
182655 AGTCTTATCTCCCTAAAGTTGCAG
1 AGTCTTATCT-CCTGAAGTTGCAG
182679 TGGAGTGGAC
Statistics
Matches: 208, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
215 2 0.01
216 8 0.04
217 158 0.76
218 39 0.19
219 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (216 bp):
AGTCTTATCTCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATCCCCCTAAAGTTGC
AATGGAACAGATTGAAGATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAC
TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCGCATCC
Found at i:182549 original size:89 final size:88
Alignment explanation
Indices: 182311--182683 Score: 245
Period size: 89 Copynumber: 4.3 Consensus size: 88
182301 AGATGGCAAG
* * * * * * * *
182311 TCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTAAAGCCAATA-ATCCTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA-ACAACAGATCTTATCTCTCTGAAGTTGC
* * * *
182375 AGTGGAGCGGATTAA--AATGATAGA
65 AGTAGAGCAGACTAAGCAA--ACAGA
* * * ** * *
182399 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCTAG-TCTTATCACTCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAAC-AGATCTTATCTCTCTGAAGTTGC
*
182459 AGCAGAGCAGACTAAGCAAACAGA
65 AGTAGAGCAGACTAAGCAAACAGA
* * ** *
182483 TCTTATCCCCCTAAAGTTGCAGTAGG-GCAGATTGAAGATGAC-GAATCTTATCTCCCTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGT-GGAGCAGATT-AAAACAACAG-ATCTTATCTCTCTGAAGTT
* * *
182546 GCAGTGGAGCAGACAGAAG-AAGCTA-A
63 GCAGTAGAGCAGAC-TAAGCAAAC-AGA
* * *
182572 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCA
* * **
182637 GTAGAGTAGA-T-CGCATCCAG-
66 GTAGAGCAGACTAAGCAAACAGA
182657 TCTTATCTCCCTAAAGTTGCAGTGGAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAG
182684 TGGACAGAAG
Statistics
Matches: 217, Mismatches: 50, Indels: 39
0.71 0.16 0.13
Matches are distributed among these distances:
83 2 0.01
84 51 0.24
85 32 0.15
86 7 0.03
87 7 0.03
88 54 0.25
89 60 0.28
90 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGACTAAGCAAACAGA
Done.