Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold320
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: 31807
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Found at i:3656 original size:42 final size:41
Alignment explanation
Indices: 3418--3713 Score: 226
Period size: 42 Copynumber: 6.9 Consensus size: 41
3408 GAGCCTCCAT
* *
3418 CACCTTGGTGGCTCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCTTGGATGTG-CGGAGCCTCGAG-CACCATCGG
* *
3461 TAACCTTGATGCTTGGTATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCTTGG-ATGTGC-GGAGCCTCGAGCACCATCGG
* * *
3505 CACCTTGGGTGCATGGGATTGTGCGGGAGCATCG-GACACCACCGG
1 CACCTT-GGTGC-TTGGA-TGTGC-GGAGCCTCGAG-CACCATCGG
* * ** *
3550 CAAACTAGGCCCTTGG-TGTGGGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCTTGGATGTGCGGAGCCTC-GAGCACCATCGG
* * *
3591 CACCTCCGGTGCTATTGATGTGCGGAGGCTCGAGCACCATCGG
1 CACCT-TGGTGCT-TGGATGTGCGGAGCCTCGAGCACCATCGG
3634 CACCTTGGTGCGTTGGATGTGCGGGAGCCT-GAGCACCATCGG
1 CACCTTGGTGC-TTGGATGTGC-GGAGCCTCGAGCACCATCGG
* *
3676 CACCTTGGTGCATGGCATGAGCGGAGCCTTC-AGCACCA
1 CACCTTGGTGCTTGG-ATGTGCGGAGCC-TCGAGCACCA
3714 AAGCTAAAGT
Statistics
Matches: 204, Mismatches: 29, Indels: 40
0.75 0.11 0.15
Matches are distributed among these distances:
40 3 0.01
41 28 0.14
42 59 0.29
43 42 0.21
44 38 0.19
45 31 0.15
46 3 0.01
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (41 bp):
CACCTTGGTGCTTGGATGTGCGGAGCCTCGAGCACCATCGG
Found at i:3660 original size:86 final size:87
Alignment explanation
Indices: 3452--3690 Score: 237
Period size: 86 Copynumber: 2.8 Consensus size: 87
3442 GAGCCTCAGC
* * **
3452 CACCATCGGTAACCTTGATGCTTGGTATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGGTGC
1 CACCATCGG-CACCTTGGTGCTTGG-ATGTGCGGGAGCCTCGAGCACCATCGGCACCTCCGGTGC
3517 ATGGGATTGTGCGGGAGCATCGGA
64 ATGGGATTGTGCGGGAGCATCGGA
* * * **
3541 CACCACCGGCAAACTAGGCCCTTGG-TGTG-GGGAGCCTCGGAG-ACCATCGGCACCTCCGGTGC
1 CACCATCGGC-ACCTTGGTGCTTGGATGTGCGGGAGCCTC-GAGCACCATCGGCACCTCCGGTGC
*
3603 TAT-TGA-TGTGC-GGAGGC-TC-GA
64 -ATGGGATTGTGCGGGA-GCATCGGA
*
3624 GCACCATCGGCACCTTGGTGCGTTGGATGTGCGGGAGCCT-GAGCACCATCGGCACCT-TGGTGC
1 -CACCATCGGCACCTTGGTGC-TTGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTCCGGTGC
3687 ATGG
64 ATGG
3691 CATGAGCGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
83 10 0.08
84 26 0.21
85 24 0.20
86 37 0.30
87 9 0.07
89 17 0.14
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.21
Consensus pattern (87 bp):
CACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTCCGGTGCAT
GGGATTGTGCGGGAGCATCGGA
Found at i:3711 original size:84 final size:83
Alignment explanation
Indices: 3418--3713 Score: 255
Period size: 84 Copynumber: 3.4 Consensus size: 83
3408 GAGCCTCCAT
* * * *
3418 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTCAGCCACCATCGGTAACCTTGATGCTTGGTATGT
1 CACCTTGGT-GCAT-GGATGTG-CGGAGCCTCAGACACCATCGG-CACCTTGGTGCTTGG-ATGT
3482 GCGGGAGCCTCGAGCACCATCGG
61 GCGGGAGCCTCGAGCACCATCGG
* * * * * **
3505 CACCTTGGGTGCATGGGATTGTGCGGGAGCATCGGACACCACCGGCAAACTAGGCCCTTGG-TGT
1 CACCTT-GGTGCAT-GGA-TGTGC-GGAGCCTCAGACACCATCGGC-ACCTTGGTGCTTGGATGT
3569 G-GGGAGCCTCGGAG-ACCATCGG
61 GCGGGAGCCTC-GAGCACCATCGG
* * *
3591 CACCTCCGGTGCTATTGATGTGCGGAGGCTC-GAGCACCATCGGCACCTTGGTGCGTTGGATGTG
1 CACCT-TGGTGC-ATGGATGTGCGGAGCCTCAGA-CACCATCGGCACCTTGGTGC-TTGGATGTG
3655 CGGGAGCCT-GAGCACCATCGG
62 CGGGAGCCTCGAGCACCATCGG
*
3676 CACCTTGGTGCATGGCATGAGCGGAGCCTTCAG-CACCA
1 CACCTTGGTGCATGG-ATGTGCGGAGCC-TCAGACACCA
3714 AAGCTAAAGT
Statistics
Matches: 168, Mismatches: 25, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
83 11 0.07
84 42 0.25
85 24 0.14
86 38 0.23
87 17 0.10
88 7 0.04
89 29 0.17
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (83 bp):
CACCTTGGTGCATGGATGTGCGGAGCCTCAGACACCATCGGCACCTTGGTGCTTGGATGTGCGGG
AGCCTCGAGCACCATCGG
Found at i:3986 original size:23 final size:25
Alignment explanation
Indices: 3922--3988 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 25
3912 AGTTCCCGGT
*
3922 GGTGCTCCGGCGATCCGTCCCTGGC
1 GGTGCTCCGGCGAACCGTCCCTGGC
*
3947 GGTGCT-CGGCGAACCGTCCC-GTC
1 GGTGCTCCGGCGAACCGTCCCTGGC
*
3970 -GTGCTCCGGTGAACCGTCC
1 GGTGCTCCGGCGAACCGTCC
3989 GGTAGAGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 5 0.13
23 14 0.37
24 13 0.34
25 6 0.16
ACGTcount: A:0.07, C:0.39, G:0.34, T:0.19
Consensus pattern (25 bp):
GGTGCTCCGGCGAACCGTCCCTGGC
Found at i:4162 original size:85 final size:81
Alignment explanation
Indices: 4015--4374 Score: 266
Period size: 85 Copynumber: 4.3 Consensus size: 81
4005 TGGTCGTGCG
* * *
4015 GGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAGCCCCGGACACCATCGGCA
1 GGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCA
*
4079 AACTAAGCCTTTGTACTGCTCT
64 AACTAAGCC-TTG--CTG-GCT
* *
4101 GGAGCCTC-GGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGCCTCGG-GACCATTCGGCA
1 GGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGCCTCGGACACCA-TCGGCA
* * *
4164 ACCTAGGCCTTGGTGGCT
64 AACTAAGCCTTGCTGGCT
**
4182 GGTAGCCTCGGGCACCATCGGCACCTCGGTGCTATGA-GTTGCGGGAGCCTCGGACACTGTC-GC
1 GG-AGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATG-TGCGGGAGCCTCGGACACCATCGGC
* * * *
4245 AACCTAGGCCCTTGGTCGTGCG
63 AAACTAAG-CCTTGCT-G-GCT
* * * * *
4267 GGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGCTGCGAGAACCTCGCG-TACCATCGGC
1 GGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATG-TGCGGGAGCCTCG-GACACCATCGGC
* * *
4331 AACCTAGGCCCTTGGTCGTGC-
63 AAACTAAG-CCTTGCT-G-GCT
*
4352 GAGAGGCTCGGGCACCATCGGCA
1 G-GAGCCTCGGGCACCATCGGCA
4375 AACTAAGCCC
Statistics
Matches: 234, Mismatches: 24, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
81 4 0.02
82 19 0.08
83 48 0.21
84 45 0.19
85 67 0.29
86 51 0.22
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (81 bp):
GGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCCTCGGACACCATCGGCAAA
CTAAGCCTTGCTGGCT
Found at i:4455 original size:45 final size:43
Alignment explanation
Indices: 3998--4836 Score: 478
Period size: 42 Copynumber: 19.9 Consensus size: 43
3988 CGGTAGAGCA
* *
3998 TAGG-CCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
** * * * *
4040 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
* * * * *
4082 TAAG-CCTTTGTAC-TGCTCTGGAGCCTCGG-CGCCATCGGC-ACC
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGCCACCATCGGCAAAC
* ** * * *
4124 TCGGTGCTTCGAT-GTGCGGGAGCCTCGG-GACCATTCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGCCACCA-TCGGCAAAC
* * *
4167 TAGG-CCTTGGT-G-GCTGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGC-GGGAGCCTCGGCCACCATCGGCAAAC
* ** * ** *
4207 TCGGTGCTATGAGT--TGCGGGAGCCTCGGACACTGTC-GCAACC
1 TAGGCCCT-TG-GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
*
4249 TAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCG-GCCACCATCGGCAAAC
* ** * * * *
4291 TTGGTGCTTGGAT-GCTGCGAGAACCTC-GCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCG-TGCGGGAGCCTCGGC-CACCATCGGCAAAC
* * *
4335 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
* *
4378 TAAGCCC-TGG-CGTGC-GGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
**
4418 TAGGCCCTTGGTCGTGCGGGAGCCGTGCGATCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCC-T-CGGCCACCATCGGCAAAC
* *
4463 TAGGGCCTTGGTCGT-CGGGGAG-CTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGC-GGGAGCCTCGGCCACCATCGGCAAAC
* ** * * * ** *
4504 TCGGTGCTATGAT-GGGC-GGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
* * *
4546 TAGGCCCTTGGCCGTGCGGGAGCCTCTAG-CACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTC-GGCCACCATCGGCAAAC
* ** * * * * *
4588 TTTGGTGCTTGGAT-GTCCGAGAACCTC-GCGCA-CATCGACAACC
1 -TAGGCCCTTGG-TCGTGCGGGAGCCTCGGC-CACCATCGGCAAAC
* * * *
4631 TAGGCCCTTTGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
* *
4674 TAAGCCCTTGGTCGT-CGGGAGCCTCGGGCACCATCGGCAAA-
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
* **
4715 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
** * *
4757 TAGGTGCTGGGAT--TGCGGGAGCCTCGGACACCATCGGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGCCACCATC-GGCAAAC
4800 TAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CACCATCG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCG-GCCACCATCG
4837 ACACCTTGGT
Statistics
Matches: 619, Mismatches: 119, Indels: 117
0.72 0.14 0.14
Matches are distributed among these distances:
40 41 0.07
41 109 0.18
42 228 0.37
43 158 0.26
44 48 0.08
45 35 0.06
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.19
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAC
Found at i:4508 original size:297 final size:297
Alignment explanation
Indices: 4153--4738 Score: 927
Period size: 297 Copynumber: 2.0 Consensus size: 297
4143 GAGCCTCGGG
* * * *
4153 ACCATTCGGCAACCTAGGCCTTGGTGGCTGGTAGCCTCGGGCACCATCGGCACCTCGGTGCTATG
1 ACCATTCGGCAAACTAGGCCTTGGTGGCGGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATG
*
4218 AGTTGCG-GGAGCCTCGGACACTGTC-GCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCAC
66 A--TGCGCGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCAC
* * *
4281 CATCGGCACC-TTGGTGCTTGGATGCTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTG
129 CATCGGCACCTTTGGTGCTTGGATG-TCCGAGAACCTCGCGCA-CATCGACAACCTAGGCCCTTG
4345 GTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCC-TGG-CGT-GCGGAGCCTCGGCCAC
192 GTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTCG-GGAGCCTCGGCCAC
4407 CATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCGTGCGATC
256 CATCGGC-AAATAGGCCCTTGGTCGTGCGGGAGCCGTGCGATC
*
4450 ACCA-TCGGCAAACTAGGGCCTTGGTCGTCGGGGAG-CTCGGCCACCATCGGCACCTCGGTGCTA
1 ACCATTCGGCAAACTA-GGCCTTGGT-GGCGGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTA
* *
4513 TGATGGGCGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCAC
64 TGATGCGCGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCAC
*
4578 CATCGGCACCTTTGGTGCTTGGATGTCCGAGAACCTCGCGCACATCGACAACCTAGGCCCTTTGT
129 CATCGGCACCTTTGGTGCTTGGATGTCCGAGAACCTCGCGCACATCGACAACCTAGGCCCTTGGT
*
4643 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTCGGGAGCCTCGGGCACCAT
194 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTCGGGAGCCTCGGCCACCAT
4708 CGGCAAATAGGCCCTTGGTCGTGCGGGAGCC
259 CGGCAAATAGGCCCTTGGTCGTGCGGGAGCC
4739 TCGGCCACCA
Statistics
Matches: 268, Mismatches: 13, Indels: 16
0.90 0.04 0.05
Matches are distributed among these distances:
295 3 0.01
296 87 0.32
297 134 0.50
298 43 0.16
299 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.18
Consensus pattern (297 bp):
ACCATTCGGCAAACTAGGCCTTGGTGGCGGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATG
ATGCGCGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCA
TCGGCACCTTTGGTGCTTGGATGTCCGAGAACCTCGCGCACATCGACAACCTAGGCCCTTGGTCG
TGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTCGGGAGCCTCGGCCACCATCG
GCAAATAGGCCCTTGGTCGTGCGGGAGCCGTGCGATC
Found at i:4633 original size:85 final size:84
Alignment explanation
Indices: 4362--4870 Score: 359
Period size: 85 Copynumber: 6.0 Consensus size: 84
4352 GAGAGGCTCG
* * ** *
4362 GGCACCATCGGCAAACTAAGCCC-TGG-CGTGC-GGAGCCTCG-GCCACCATCGGCAAAATAGGC
1 GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CACCATCGGC-ACCTAGGT
* * *
4423 CCTTGG-TCGTGCGGGAGCCGTGC
64 GCTTGGAT-GTCCGGGAACC-T-C
* * * *
4446 GATCACCATCGGCAAACTAGGGCCTTGGTCGT-CGGGGAG-CTCG-GCCACCATCGGCACCTCGG
1 G-GCACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGGAGCCTCGAG-CACCATCGGCACCTAGG
** *
4508 TGCTAT-GATGGGC-GGAGCCTC
63 TGCT-TGGATGTCCGGGAACCTC
** * * *
4529 GGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTTGGT
1 GG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACC-TAGGT
*
4594 GCTTGGATGTCCGAGAACCTC
64 GCTTGGATGTCCGGGAACCTC
* * * * * * * *
4615 GCGCA-CATCGACAACCTAGGCCCTTTGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGC
1 G-GCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTAGGT
* *
4679 CCTTGG-TCGT-CGGGAGCCTC
64 GCTTGGAT-GTCCGGGAACCTC
* * *
4699 GGGCACCATCGGCAA-ATAGGCCCTTGGTCGTGCGGGAGCCTCG-GCCACCATTGGCTCCTAGGT
1 -GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CACCATCGGCACCTAGGT
* * *
4762 GCTGGGAT-TGCGGGAGCCTC
64 GCTTGGATGTCCGGGAACCTC
* * *
4782 GGACACCATCGGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGACACCTTGGT
1 GG-CACCATC-GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTAGGT
4847 GCTTGGATTGTGCC-GGAACCTC
64 GCTTGGA-TGT-CCGGGAACCTC
4869 GG
1 GG
4871 GCCCACGCCA
Statistics
Matches: 339, Mismatches: 57, Indels: 55
0.75 0.13 0.12
Matches are distributed among these distances:
82 3 0.01
83 57 0.17
84 71 0.21
85 144 0.42
86 27 0.08
87 32 0.09
88 5 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTAGGTGC
TTGGATGTCCGGGAACCTC
Found at i:4733 original size:169 final size:170
Alignment explanation
Indices: 4521--4836 Score: 390
Period size: 169 Copynumber: 1.9 Consensus size: 170
4511 TATGATGGGC
** *
4521 GGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAG-CACCATCGGC
1 GGAGCCTCGGACACCATCGGCAACATAGGCCCTTGGCCGTGCGGGAGCCTC-AGCCACCATCGGC
* * * *
4585 ACCTTTGGTGCTTGGATGTCCGAGAACCTCGCG-CA-CATC-GACAACCTAGGCCCTTTGTCGTG
65 ACC-TAGGTGCTGGGAT-TCCGAGAACCTCG-GACACCATCGGACAAACTAGGCCCTTGGTCGTG
* *
4647 CGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTCG
127 CGAGAGCCTCGAGCACCATCGGCAAACTAAGCCCTTGGTCGTCG
* * * * *
4691 GGAGCCTCGGGCACCATCGGCAA-ATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCT
1 GGAGCCTCGGACACCATCGGCAACATAGGCCCTTGGCCGTGCGGGAGCCTCAGCCACCATCGGCA
* * * * *
4755 CCTAGGTGCTGGGATTGCGGGAGCCTCGGACACCATCGGGCAAACTAGGCCCTTGGTCGTGCGGG
66 CCTAGGTGCTGGGATTCCGAGAACCTCGGACACCATCGGACAAACTAGGCCCTTGGTCGTGCGAG
4820 AGCCTCGAGCACCATCG
131 AGCCTCGAGCACCATCG
4837 ACACCTTGGT
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
166 1 0.01
167 12 0.10
168 16 0.13
169 74 0.60
170 20 0.16
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.18
Consensus pattern (170 bp):
GGAGCCTCGGACACCATCGGCAACATAGGCCCTTGGCCGTGCGGGAGCCTCAGCCACCATCGGCA
CCTAGGTGCTGGGATTCCGAGAACCTCGGACACCATCGGACAAACTAGGCCCTTGGTCGTGCGAG
AGCCTCGAGCACCATCGGCAAACTAAGCCCTTGGTCGTCG
Found at i:4964 original size:33 final size:34
Alignment explanation
Indices: 4927--4996 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
4917 CGGTAAAATA
4927 GGCCCTTGGTCGTGCGGG-GCCTC-GGCACCACTC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA-TC
4960 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
4994 GGC
1 GGC
4997 ACCTGGTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 18 0.51
34 10 0.29
35 7 0.20
ACGTcount: A:0.07, C:0.37, G:0.39, T:0.17
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
Found at i:13905 original size:42 final size:42
Alignment explanation
Indices: 13801--14092 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
13791 GAGCCTCCAT
*
13801 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
13844 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
13887 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
13929 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
13971 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
14013 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
14055 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
14093 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:14328 original size:24 final size:24
Alignment explanation
Indices: 14301--14379 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
14291 CCGGTTAGGT
*
14301 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
14325 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
14349 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
14373 TTCCGGT
1 TCCCGGT
14380 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:14461 original size:42 final size:43
Alignment explanation
Indices: 14397--15426 Score: 740
Period size: 43 Copynumber: 24.3 Consensus size: 43
14387 GCCCTTGGTC
*
14397 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
14439 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTACT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGG-A-T
* * * *
14484 GCT-CTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT
1 G-TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
**
14526 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
14568 CGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* ** **
14611 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
14653 CGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
14696 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
14738 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* ** **
14781 CGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
14824 CGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
14867 CGTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* * ** ** **
14910 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** *
14953 GTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
14995 GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
15037 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** **
15080 CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * *
15123 CGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
15166 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
15208 CGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * ***
15251 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * ** **
15293 CATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
15336 CGTGCGGGGGCCTCGGCCACCATCGGC--CCTTGGT-C------
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
15371 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGT-GCTTGGAT
15414 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
15427 AGTGGCTAGG
Statistics
Matches: 794, Mismatches: 158, Indels: 71
0.78 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 7 0.01
37 1 0.00
40 1 0.00
41 4 0.01
42 247 0.31
43 479 0.60
44 9 0.01
45 21 0.03
46 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
Found at i:14612 original size:85 final size:86
Alignment explanation
Indices: 14384--15397 Score: 946
Period size: 85 Copynumber: 12.0 Consensus size: 86
14374 TCCGGTAGCA
** * *
14384 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
14447 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* * * * ** *
14469 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCG
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCG
14531 GGAGCCTCGGGCACCATCGGCAACC
62 GGAGCCTCGGGCACCATCGGCAACC
* * ** *
14556 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
14619 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
14641 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
14704 ACCTCGCGTACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * * *
14726 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* **
14791 CCTCGGCCACCATCGGCAAAA
66 CCTCGGGCACCATCGGCAACC
* *
14812 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
14877 CCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
14897 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
**
14961 GCCTCTAGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * * *
14982 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
15046 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* **
15068 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* * *
15133 CCTCGGCCACCATTGGC-TCC
66 CCTCGGGCACCATCGGCAACC
** * * *
15153 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
15217 GCCTCGAGCACCATCGAC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * *
15238 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
15302 GGCTCGGGCACCATCGGTAAAA
65 GCCTCGGGCACCATCGGCAACC
* *
15324 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
15380 CCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCA
15398 CCTTGGTGGC
Statistics
Matches: 780, Mismatches: 132, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
77 34 0.04
79 1 0.00
80 1 0.00
82 1 0.00
83 3 0.00
84 4 0.01
85 461 0.59
86 207 0.27
87 67 0.09
88 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (86 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCAACC
Found at i:15016 original size:256 final size:254
Alignment explanation
Indices: 14526--15426 Score: 1040
Period size: 256 Copynumber: 3.5 Consensus size: 254
14516 GTGCTTCGAT
* ** *
14526 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * ** **
14591 CGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TC
66 CGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TGGAT-
* ** * * * * *
14654 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCA
127 GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCA
* ** * ** *
14717 TCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGT
191 TCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGT
14781 C
254 C
* * *
14782 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
14847 CGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGATGG
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
** * *
14912 GCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
* * *
14977 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
194 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
* * *
15038 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
15103 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCTCCTAGGTGCTGGGATGT
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
* *
15168 GCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
*
15233 ACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
194 GCACCTTGGTGCTTGGATGT-CCGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * * *
15294 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
15355 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGT
66 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGATGT
15416 GCGGGAGCCTC
129 GCGGGAGCCTC
15427 AGTGGCTAGG
Statistics
Matches: 562, Mismatches: 73, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
247 42 0.07
248 21 0.04
250 1 0.00
252 1 0.00
253 3 0.01
255 4 0.01
256 421 0.75
257 69 0.12
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (254 bp):
GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGATGTGC
GGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCGGC
ACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
Found at i:15222 original size:299 final size:299
Alignment explanation
Indices: 14455--15192 Score: 1162
Period size: 299 Copynumber: 2.5 Consensus size: 299
14445 GAGCCCCGGA
* * ** * *
14455 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGGC
* * * *
14518 GCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTC
63 CCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*
14582 GGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
127 GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
* *
14647 CTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG
192 CTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* *
14712 TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
14755 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
14820 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
14885 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
14950 GCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
15015 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
15054 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
15119 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
15182 CACCATCGGCA
130 CACCATCGGCA
15193 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 28, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
298 57 0.14
299 321 0.79
300 28 0.07
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:15315 original size:299 final size:297
Alignment explanation
Indices: 14386--15397 Score: 1114
Period size: 299 Copynumber: 3.4 Consensus size: 297
14376 CGGTAGCATA
* * * * ** *
14386 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAG
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAG
* * * * *
14448 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-A
63 GCTCGGGCACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAA
** * ** * *
14511 CCTCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
125 AATAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
14575 TAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
189 GAGCCTCGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
14640 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTT
254 CTAGGCCCTTGGT-GTGCGGGAGCCTCGAGCACCATCGGCACCTT
** * *
14685 GGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
1 GGCCCTTGG-TATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
*
14750 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAG
65 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAG
*
14815 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCT
130 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCT
* *
14880 CGGCCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
195 CGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
* *
14945 CCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTT
260 CCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGCACCTT
** *
14984 GGTGCTTGG-ATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGG
1 GGCCCTTGGTATG--CGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG
15048 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
* * * ** *
15113 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGC
129 GGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGC
* * ** * ** *
15176 CTCGGACACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACC
193 CTCGGACACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACC
* ** * * * *
15238 TTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACCTA
255 TAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGC-ACCTT
* ** * * ** *
15283 GACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCG-GGGGC
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG-
*
15347 CTCGGCCACCATC-G--------GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
15398 CCTTGGTGGC
Statistics
Matches: 624, Mismatches: 71, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
290 37 0.06
297 2 0.00
298 98 0.16
299 437 0.70
300 46 0.07
301 4 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (297 bp):
GGCCCTTGGTATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCT
CGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGG
CCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
CTTGGTGTGCGGGAGCCTCGAGCACCATCGGCACCTT
Found at i:15369 original size:34 final size:34
Alignment explanation
Indices: 15326--15404 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
15316 CGGTAAAATA
*
15326 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
15360 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
15394 GGCACCTTGGT
1 GGC-CCTTGGT
15405 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:15432 original size:25 final size:25
Alignment explanation
Indices: 15403--15451 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15393 CGGCACCTTG
* *
15403 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
15428 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
15452 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:15485 original size:42 final size:44
Alignment explanation
Indices: 15439--15531 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
15429 TGGCTAGGAG
*
15439 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
15481 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
15525 GTGCGGG
1 GTGCGGG
15532 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:23535 original size:42 final size:42
Alignment explanation
Indices: 23431--23722 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
23421 GAGCCTCCAT
*
23431 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
23474 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
23517 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
23559 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
23601 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
23643 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
23685 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
23723 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:23958 original size:24 final size:24
Alignment explanation
Indices: 23931--24009 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
23921 CCGGTTAGGT
*
23931 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
23955 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
23979 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
24003 TTCCGGT
1 TCCCGGT
24010 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:24205 original size:48 final size:48
Alignment explanation
Indices: 24123--24216 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
24113 TTTCTTGGCT
* * * *
24123 TAAAAATGCCTAAGTCAGCCTAATTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAATCTCCAACAATAAAGGATTCAACCG
24171 TAAAAACGCCTAAGTCAG-CTCAA-CTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AATCTC-CAACAATAAAGGATTCAAC
24217 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAATCTCCAACAATAAAGGATTCAACCG
Found at i:26370 original size:32 final size:33
Alignment explanation
Indices: 26334--26401 Score: 104
Period size: 35 Copynumber: 2.1 Consensus size: 33
26324 AAGAGACATC
26334 TTTACAT-A-GTCTCTGGACTGCTCCTTCCATGT
1 TTTACATCACGTCTCTGGACTGCTCCTTCCA-GT
26366 TTTACATCATCGTCTCTGGACTGCTCCTTCCAGT
1 TTTACATCA-CGTCTCTGGACTGCTCCTTCCAGT
26400 TT
1 TT
26402 GCTATGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 7 0.21
33 1 0.03
34 4 0.12
35 21 0.64
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (33 bp):
TTTACATCACGTCTCTGGACTGCTCCTTCCAGT
Found at i:26749 original size:48 final size:48
Alignment explanation
Indices: 26667--26760 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
26657 TTTCTTGGCT
* *
26667 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
26715 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
26761 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:27294 original size:43 final size:43
Alignment explanation
Indices: 27229--28184 Score: 918
Period size: 43 Copynumber: 22.6 Consensus size: 43
27219 ACACTAGGAT
* * * * * *
27229 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * ** *
27272 TTGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTC
27314 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** *
27357 GTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTC
* **
27399 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * **
27442 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * *
27484 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
27527 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* **
27570 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
27613 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** *
27656 GTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTATGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTC
* * **
27698 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * **
27741 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * *
27783 GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
27826 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
**
27869 GTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* ** *
27912 GTGCGGGAGCCTC-GGCGACCATC-GC-CCCTAGGTGCTGGGAT-
1 GTGCGGGAGCCTCGGGC-ACCATCGGCAACCTAGGCCCTTGG-TC
* *
27953 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
27996 GTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * *
28038 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
28081 GTGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
28124 GTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
28158 GTGCGGGAGCCTCGGGCACCATCGGCA
1 GTGCGGGAGCCTCGGGCACCATCGGCA
28185 CCTTGGTGGC
Statistics
Matches: 743, Mismatches: 139, Indels: 64
0.79 0.15 0.07
Matches are distributed among these distances:
34 24 0.03
35 2 0.00
36 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.01
41 27 0.04
42 210 0.28
43 470 0.63
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:27337 original size:85 final size:83
Alignment explanation
Indices: 27226--28184 Score: 635
Period size: 85 Copynumber: 11.4 Consensus size: 83
27216 GTGACACTAG
* * * * ** *
27226 GATGTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGC
1 GATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGCAC
*
27291 CATCGGCACCTCGGTGCTT
65 CATCGGCACCTAGGTGCTT
*
27310 CGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCA
1 -GATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGG-AGCCTCGGGCA
*
27375 CCATCGGCACCTCGGTGCTAT
64 CCATCGGCACCTAGGTGCT-T
** *
27396 GATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCAC
1 GATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGCAC
*
27461 CATCGGCACCTTGGTGCTT
65 CATCGGCACCTAGGTGCTT
* * * *
27480 GGATGTGCGAGAACCTCGCG-TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
1 -GATGTGCGGGAGCCTCG-GACACCATCGGCAACCTAGGCCCTTGGTCGTGCG-GAGCCTCGGGC
* * **
27544 ACCATCGGCAAACTAAGCCCTT
63 ACCATCGGC-ACCTAGGTGCTT
* * ** *
27566 GGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGCA
* **
27631 CCATCGGCAAACTAGGCCCTT
64 CCATCGGC-ACCTAGGTGCTT
* * * ** * * *
27652 GGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTATGAT-GGGCGGGAGCCTCGGAC
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCT-TGGTCGTGC-GGAGCCTCGGGC
** **
27715 ACTGTCGGCAACCTAGGCCCTT
63 ACCATCGGC-ACCTAGGTGCTT
* * ** * * *
27737 GGTCGTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCG
1 GAT-GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCG-GAGCCTCGGG
* **
27799 CACCATCGACAACCTAGGCCCTT
62 CACCATCGGC-ACCTAGGTGCTT
* * * * * *
27822 GGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCA
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGCA
** **
27887 CCATCGGCAAAATAGGCCCTT
64 CCATCGGC-ACCTAGGTGCTT
* * ** * *
27908 GGTCGTGCGGGAGCCTCGG-CGACCATC-GC-CCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
1 GAT-GTGCGGGAGCCTCGGAC-ACCATCGGCAACCTAGGCCCTTGG-TCGTGC-GGAGCCTCGGG
* **
27969 CACCATCGGCAAACTAGGCCCTT
62 CACCATCGGC-ACCTAGGTGCTT
* * * ** *
27992 GGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACCTTGGTGCTTGGAT-GTGCCGGAACCTCGGG
1 GAT-GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTG-CGGAGCCTCGGG
***
28054 CACCATCGGCAACCTAGACCCTT
62 CACCATCGGC-ACCTAGGTGCTT
* * * * * ** * *
28077 GGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGCCA
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGCA
*
28142 CCATCGGC-CCTTGGT-C--
64 CCATCGGCACCTAGGTGCTT
*
28158 ---GTGCGGGAGCCTCGGGCACCATCGGCA
1 GATGTGCGGGAGCCTCGGACACCATCGGCA
28185 CCTTGGTGGC
Statistics
Matches: 740, Mismatches: 106, Indels: 64
0.81 0.12 0.07
Matches are distributed among these distances:
77 24 0.03
83 2 0.00
84 80 0.11
85 422 0.57
86 210 0.28
87 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (83 bp):
GATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGAGCCTCGGGCACC
ATCGGCACCTAGGTGCTT
Found at i:27782 original size:299 final size:298
Alignment explanation
Indices: 27245--27979 Score: 1183
Period size: 299 Copynumber: 2.5 Consensus size: 298
27235 GAGCCCCGGA
** * * ** * **
27245 CACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * *
27309 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
*
27373 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
129 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
* *
27438 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTAC
194 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
*
27503 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
259 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
27543 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
27608 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
27673 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
130 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
27738 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
195 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
27803 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
27842 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* ** *
27907 TGGTCGTGCGGGAGCCTCGGCGACCATC-GC-CCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGC-ACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
27969 CACCATCGGCA
129 CACCATCGGCA
27980 AACTAGGCCC
Statistics
Matches: 407, Mismatches: 25, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
297 35 0.09
298 56 0.14
299 316 0.78
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (298 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
CCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG
TCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCA
TCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:28156 original size:34 final size:34
Alignment explanation
Indices: 28113--28191 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
28103 CGGTAAAATA
*
28113 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
28147 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
28181 GGCACCTTGGT
1 GGC-CCTTGGT
28192 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:28219 original size:25 final size:25
Alignment explanation
Indices: 28190--28238 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
28180 CGGCACCTTG
* *
28190 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
28215 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
28239 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:28272 original size:42 final size:44
Alignment explanation
Indices: 28226--28318 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
28216 TGGCTAGGAG
*
28226 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
28268 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
28312 GTGCGGG
1 GTGCGGG
28319 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Done.