Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold728
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: 34583
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Found at i:2363 original size:42 final size:42
Alignment explanation
Indices: 2259--2550 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
2249 GAGCCTCCAT
*
2259 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
2302 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
2345 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
2387 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
2429 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
2471 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
2513 CACCTTGGTGCATGGATGAGCGGGAGCCAT-GAGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
2551 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 142 0.67
43 42 0.20
44 11 0.05
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:2784 original size:24 final size:24
Alignment explanation
Indices: 2757--2835 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
2747 CCGGTTAGGT
*
2757 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
2781 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
2805 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
2829 TTCCGGT
1 TCCCGGT
2836 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:3040 original size:43 final size:43
Alignment explanation
Indices: 2840--4512 Score: 1018
Period size: 43 Copynumber: 38.9 Consensus size: 43
2830 TCCGGTAGCA
2840 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
2883 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
2925 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACC
* ** *
2969 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
3012 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
3054 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
3097 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
3139 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
3182 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
3225 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
3268 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
3311 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
3353 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
**
3396 TAGGCCCTTGG-CGTGCGGGAGCCTCTAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
3437 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
3480 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
3523 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
3566 TAGGCCCTCGGTCGTGCGGAAGCCTC-GGCGACCATC-GCCTCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGC-ACCATCGGCAACC
** * * *
3608 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
3651 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
3693 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * *
3736 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAA--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
3777 T-GTG--C-GGGGCCT-C-GGA-CCTC-GGCACC-TCGGC--CC
1 TAG-GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * * * * * * **
3810 TTGGTCGTGCGGGAGCCT-CGGCA-CCATC-GGCACCTTGGTGCTTGGATGTGC
1 TAGGCCCT--TGG-TCGTGCGGGAGCC-TCGGGCACCATCG-GC----A--ACC
* ** * * * * * **** *
3861 GAGAACCTCGCGTACCAT-CGGCAACCT-AGGCTTGGTCGTGCGAGCC
1 TAGGCCCTTG-GT--CGTGCGGGAGCCTCGGGCACCATCG-GC-AACC
* * * * * * * **
3907 TCGGGCACCATCGG-CAACTAAGCCTTGG-TCGTGCGGGAGCCTCGGCCCCATCGGCAAAA
1 T-AGGC-CC-TTGGTC--GT--G-C-GGGAGCCT-C-GG-G-CAC--C---ATCGGCAACC
* *
3966 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
4009 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
4051 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
4094 TAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
4136 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
4179 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAA-C
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
4221 TAAG-CCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
4263 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * *
4305 TAGGTGC-TGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
4347 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
4389 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * * **
4432 TAGACCCTTGGTCATGCGAGAGGCTC-GGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
4474 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
4513 CCTTGTCGTG
Statistics
Matches: 1251, Mismatches: 283, Indels: 192
0.72 0.16 0.11
Matches are distributed among these distances:
33 6 0.00
34 7 0.01
35 3 0.00
36 2 0.00
37 1 0.00
38 7 0.01
39 6 0.00
40 5 0.00
41 81 0.06
42 414 0.33
43 616 0.49
44 9 0.01
45 22 0.02
46 2 0.00
47 2 0.00
48 7 0.01
49 4 0.00
50 3 0.00
51 26 0.02
52 6 0.00
53 1 0.00
54 1 0.00
55 2 0.00
56 5 0.00
57 3 0.00
58 3 0.00
59 2 0.00
60 2 0.00
61 3 0.00
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:3068 original size:85 final size:85
Alignment explanation
Indices: 2840--4575 Score: 1302
Period size: 85 Copynumber: 20.8 Consensus size: 85
2830 TCCGGTAGCA
* * *
2840 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGG-TGTGCGGGAG
* * *
2904 CCCCGGACACCATCGGCAAAC
65 CCTCGGGCACCATCGGCAACC
* * * * * *
2925 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGATGTGCGG
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTT-GGTGTGCGG
2988 GAGCCTCGGGCACCATCGGCAACC
62 GAGCCTCGGGCACCATCGGCAACC
* * * *
3012 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGATGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCT-TGGTGTGCGGGAG
* **
3076 CCTCGGACACTGTCGGCAACC
65 CCTCGGGCACCATCGGCAACC
* * * * *
3097 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGG-TGTGCGGGAG
* *
3161 CCTCGCGTACCATCGGCAACC
65 CCTCGGGCACCATCGGCAACC
* * * * *
3182 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
* **
3247 CCTCGGCCACCATCGGCAAAA
65 CCTCGGGCACCATCGGCAACC
* * *
3268 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
*
3333 CCTCGGCCACCATCGGC-ACC
65 CCTCGGGCACCATCGGCAACC
* ** * * * ** * *
3353 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCGTGCGGGAG
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGTGTGCGGGAG
**
3417 CCTCTAGCACCATCGGC-ACC
65 CCTCGGGCACCATCGGCAACC
* ** * * * * * * *
3437 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGA
* *
3501 GGCTCGGGCACCATCGGCAAAC
64 GCCTCGGGCACCATCGGCAACC
* ** * * *
3523 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTCGGTCGTGCGGAAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
**
3588 CCTC-GGCGACCATC-GCCTCC
65 CCTCGGGC-ACCATCGGCAACC
** * * * *
3608 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGA
* *
3672 GCCTCGAGCACCATCGAC-ACC
64 GCCTCGGGCACCATCGGCAACC
* ** * * ** *
3693 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGA
* *
3757 GGCTCGGGCACCATCGGTAA--
64 GCCTCGGGCACCATCGGCAACC
* * * * * * *
3777 T-GTG--C-GGGGCCT-C-GGA-CCTC-GGCACC-TCGGC--CCTTGGTCGTGCGG-GAGCCTCG
1 TAG-GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCT-TGGTGTG---CG
* *
3830 GCA-CCATC-GGCACC-TTGG-----
61 GGAGCC-TCGGGCACCATCGGCAACC
* * * *
3848 T--G--CTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACCTAGG--CTTGGTCGTGC--GA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGA
3904 GCCTCGGGCACCATCGGCAA-C
64 GCCTCGGGCACCATCGGCAACC
* * ** *
3925 TAAG-CCTTGGTCGTGCGGGAGCCTC-GGCCCCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
* *
3988 CCTCGGACACCATCGGCAAAC
65 CCTCGGGCACCATCGGCAACC
* * *
4009 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGATGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCT-TGGTGTGCGGGAG
* **
4073 CCTCGGACACTGTCGGCAACC
65 CCTCGGGCACCATCGGCAACC
* ** * * * * *
4094 TAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGATGTCCGAGAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGG-TGTGCGGGAG
* *
4158 CCTCGCGCACCATCGACAACC
65 CCTCGGGCACCATCGGCAACC
* * *
4179 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAA-CTAAG-CCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
**
4242 CCTCGGGCACCATCGGCAAAA
65 CCTCGGGCACCATCGGCAACC
* * * *
4263 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGC-TGGATGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGG-TGTGCGGGAG
* *
4326 CCTCGGACACCATCGGCAAAC
65 CCTCGGGCACCATCGGCAACC
* * * * * *
4347 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGATGTGCCGGAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGG-TGTGCGGGAG
4411 CCTCGGGCACCATCGGCAACC
65 CCTCGGGCACCATCGGCAACC
* * * * * ** * *
4432 TAGACCCTTGGTCATGCGAGAGGCTC-GGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGT-GTGCGGGAG
4496 CCTC-GG--CCA-C--C-A--
65 CCTCGGGCACCATCGGCAACC
* * * *
4508 TCGGCCCTT-GTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGATGTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGT-CCTTGG-TGTGCGGGA
4571 GCCTC
64 GCCTC
4576 AGTGGCTAGG
Statistics
Matches: 1345, Mismatches: 237, Indels: 147
0.78 0.14 0.09
Matches are distributed among these distances:
69 2 0.00
70 3 0.00
71 5 0.00
72 10 0.01
73 10 0.01
74 15 0.01
75 32 0.02
76 46 0.03
77 13 0.01
78 5 0.00
79 21 0.02
80 17 0.01
81 15 0.01
82 4 0.00
83 25 0.02
84 229 0.17
85 625 0.46
86 200 0.15
87 67 0.05
88 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.18
Consensus pattern (85 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTCCTTGGTGTGCGGGAGC
CTCGGGCACCATCGGCAACC
Found at i:3672 original size:298 final size:299
Alignment explanation
Indices: 2911--4512 Score: 1223
Period size: 298 Copynumber: 5.5 Consensus size: 299
2901 GAGCCCCGGA
* * ** *
2911 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGG-
* * * *
2974 GCTTCGAT-GTGCGGGAGCCTCGG-GCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCT
62 CCCTCGGTCGTGCGGGAGCCTCGGCG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCT
*
3037 CGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
126 CGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
*
3102 CCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGC
191 CCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGC
* *
3167 GTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
256 GCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
3211 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * *
3276 TGGTCGTGCGGGAGCCTCGGAC-ACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGC
66 CGGTCGTGCGGGAGCCTCGG-CGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
*
3340 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
130 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
*
3405 GG-CGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
195 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
3469 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
3509 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* ** ** *
3574 CGGTCGTGCGGAAGCCTCGGCGACCATC-GCCTCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 CGGTCGTGCGGGAGCCTCGGCGACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
* * ** * ** * * **
3637 CACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACCTTGGTG
130 CACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACCTAGGCC
* * * * *** * **
3699 CTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-TCGTGCGAGAGGCTC
192 CTTGG-TCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTC
* ** *
3762 GGGCACCATCGGTAA--T--G----T-G-C--G-G-G-GCCTC-GG
254 GCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
* ** ** * **
3792 -ACC-TCGGC-ACCTCGGCCCTTGGTCGTGCGGGAGCCTC-GGCACCATCGGC-ACCTTGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * *
3852 TGGAT-GTGCGAGAACCTC-GCGTACCATCGGCAACCTAGG--CTTGGTCGTGC--GAGCCTCGG
66 CGG-TCGTGCGGGAGCCTCGGCG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
* * ** * * * ** **
3911 GCACCATCGGCAACTAAG-CCT-TGGTCGTGCGGGAGCCTCGG-CCCCATCGGCAAAATAGGCCC
129 ACACCATCGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCC
* * ** * * *
3973 TTGGTCGTGCGGGAGCCTCG-GACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCG
193 TTGGTCGTGCGGGAGCCTCGAG-CACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCG
* * * ** * * * *
4036 GGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA
255 CGCACCATCGACAACCTAGGCCCT-TGGTCGTGCGAGAGGCTCGGG
** * * * ** ** * **
4080 CACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * * * * *
4144 TGGAT-GTCCGAGAACCTC-GCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGG
66 CGG-TCGTGCGGGAGCCTCGGCG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
* * ** * * * ** **
4207 GCACCATCGGCAACTAAG-CCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCC
129 ACACCATCGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCC
* * * * * *
4270 TTGGTCGTGCGGGAGCCTCG-GCCACCATTGGCTCCTAGGTGC-TGGATGTGCGGGAGCCTCG-G
193 TTGGTCGTGCGGGAGCCTCGAG-CACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* * * * *
4332 ACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAG
257 -CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
* * ** ** * * ** *
4376 CACCATCGAC-ACCTTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCC
1 CACCATCGGCAAACTAAGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCC
* * * * * ** * *
4439 TTGGTCATGCGAGAGGCTCGGC-ACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGC
65 TCGGTCGTGCGGGAGCCTCGGCGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
4503 CACCATCGGC
130 CACCATCGGC
4513 CCTTGTCGTG
Statistics
Matches: 1109, Mismatches: 137, Indels: 117
0.81 0.10 0.09
Matches are distributed among these distances:
272 11 0.01
273 90 0.08
274 8 0.01
275 19 0.02
276 2 0.00
277 11 0.01
278 24 0.02
279 21 0.02
280 26 0.02
281 6 0.01
282 3 0.00
283 2 0.00
284 5 0.00
285 2 0.00
286 2 0.00
287 6 0.01
288 1 0.00
289 3 0.00
290 6 0.01
291 28 0.03
292 58 0.05
294 12 0.01
295 109 0.10
296 103 0.09
297 106 0.10
298 260 0.23
299 157 0.14
300 28 0.03
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
CGGTCGTGCGGGAGCCTCGGCGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:3738 original size:128 final size:127
Alignment explanation
Indices: 2840--4549 Score: 1275
Period size: 128 Copynumber: 13.7 Consensus size: 127
2830 TCCGGTAGCA
* * ** * *
2840 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
* * * * * * *
2903 GCCCCGGACACCATCGGCAAACTAAGCCCTTGGTACTGCTCTGGAGCCTCGGGCGCCATCGGC-A
65 GCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGC-C-GGAGCCTCGGGCACCATCGGCAA
2967 CC
126 CC
* ** * * * *
2969 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTA
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
* * * * * **
3033 GCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCACCTAGGTCCT-TGGTGTGCCGGAGCCTCGGGCACCATCGGCAACC
* * ** *
3097 TAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGG
* * * * *
3159 AACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTG-CGAGAGGCTCGGGCACCATCGGCAA
64 AGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGCCG-GAGCCTCGGGCACCATCGGCAA
*
3223 AC
126 CC
* * *
3225 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* * * * *
3290 CCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGCCGGAGCCTCGGGCACCATCGGCAACC
* ** * * ** *
3353 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-CGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
** * * * * *
3416 GCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGT-CCGAGAACCTCGCGCACCATCGACAACC
65 GCCTCGGGCACCATCGGCACCTAGGTCCTTGG-TGTGCCG-GAGCCTCGGGCACCATCGGCAACC
* * * *
3480 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
** * * **
3545 CCTCGGGCACCATCGGCAAAATAGGCCCTCGGTCGTG-CGGAAGCCTC-GGCGACCATC-GCCTC
66 CCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGCCGG-AGCCTCGGGC-ACCATCGGCAAC
3607 C
127 C
** *
3608 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
* * * * *
3672 GCCTCGAGCACCATCGACACCTTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACC
65 GCCTCGGGCACCATCGGCACCTAGGTCCTTGG-TGTGCCGGAGCCTCGGGCACCATCGGCAACC
* * * * * * * *
3736 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGG-TAA-T-GTG--C-GGGGCCT-C-GGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAG-GCCCTTGGTCGTGCGGGA
* *
3793 -CCTC-GGCACC-TCGGC-CCTTGGT-C---G--TGCGGGAGCCTC-GGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCACCTAGGTCCTTGGTGTGCCGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
3844 TTGGTGCTTGGAT-GTGCGAGAACCTCGCG-TACCATCGGCAACCTAGG--CTTGGTCGTGC--G
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCG-GACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGG
* * * * **
3903 AGCCTCGGGCACCATCGGCAACTAAG-CCTTGGTCGTGCGGGAGCCTC-GGCCCCATCGGCAAAA
64 AGCCTCGGGCACCATCGGCACCTAGGTCCTTGGT-GTGCCGGAGCCTCGGGCACCATCGGCAACC
3966 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* * * * * **
4031 CCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACC
66 CCTCGGGCACCATCGGCACCTAGGTCCT-TGGTGTGCCGGAGCCTCGGGCACCATCGGCAACC
* * * * ** * *
4094 TAGGCCCTTGGCCGTGCGGGAGCCTC-TAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGG
* * * * *
4156 AACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTG-CGAGAGGCTCGGGCACCATCGGCAA
64 AGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGCCG-GAGCCTCGGGCACCATCGGCAA
4220 -C
126 CC
* * *
4221 TAAG-CCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* * * * * * *
4285 CCTCGGCCACCATTGGCTCCTAGGTGC-TGGATGTGCGGGAGCCTCGGACACCATCGGCAAAC
66 CCTCGGGCACCATCGGCACCTAGGTCCTTGG-TGTGCCGGAGCCTCGGGCACCATCGGCAACC
* * * ** *
4347 TAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACCTTGGTGCTTGGAT-GTGCCGG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGG
* ** * * *
4409 AACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATG-CGAGAGGCTC-GGCACCATCGGTAA
64 AGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGT-GTGCCG-GAGCCTCGGGCACCATCGGCAA
**
4472 AA
126 CC
* *
4474 TAGGCCCTTGGTCGTGCGGGGGCCTCGG---CCA-C--C--A-TCGGCCCTT-GTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
4529 CCTCGGGCACCATCGGCACCT
66 CCTCGGGCACCATCGGCACCT
4550 TGGTGGCTCG
Statistics
Matches: 1249, Mismatches: 251, Indels: 174
0.75 0.15 0.10
Matches are distributed among these distances:
108 30 0.02
109 15 0.01
110 13 0.01
111 7 0.01
112 5 0.00
113 7 0.01
114 5 0.00
115 4 0.00
116 1 0.00
117 12 0.01
118 30 0.02
119 11 0.01
120 4 0.00
121 29 0.02
122 38 0.03
123 5 0.00
124 15 0.01
125 29 0.02
126 133 0.11
127 307 0.25
128 373 0.30
129 142 0.11
130 34 0.03
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (127 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCACCTAGGTCCTTGGTGTGCCGGAGCCTCGGGCACCATCGGCAACC
Found at i:3859 original size:151 final size:152
Alignment explanation
Indices: 3619--4002 Score: 458
Period size: 151 Copynumber: 2.4 Consensus size: 152
3609 AGGTGCTGGG
3619 ATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
1 ATGTGCGGGAGCCTCGGA-ACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
*
3684 ATCGACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCTAGACCCTTGGT
65 ATCGACACCTTGGTGCTTGGATGTG-CGAGAACCTCGCGCACCATCGGCAACCTAG--CCTTGGT
*
3748 CGTGCGAGAGGCTCGGGCACCATCGGTA
127 CGTGC--GAGCCTCGGGCACCATCGGTA
* *
3776 ATGTGCGGG-GCCTCGG-ACC-TCGGC-ACCTCGGCCCTTGGTCGTGCGGGAGCCTCG-GCACCA
1 ATGTGCGGGAGCCTCGGAACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCA
* * *
3836 TCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCTTGGTCGTG
66 TCGACACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAACCTAGCCTTGGTCGTG
3901 CGAGCCTCGGGCACCATCGGCAACTA
131 CGAGCCTCGGGCACCATCGG----TA
** *
3927 AGCCTTGGTCGTGCGGGAGCCTCGGCCCCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTC
1 A-------T-GTGCGGGAGCCTCGGAACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTC
3992 G-GACACCATCG
58 GAG-CACCATCG
4003 GCAAACTAGG
Statistics
Matches: 198, Mismatches: 11, Indels: 29
0.83 0.05 0.12
Matches are distributed among these distances:
147 18 0.09
149 11 0.06
150 2 0.01
151 57 0.29
152 28 0.14
153 5 0.03
154 3 0.02
156 7 0.04
157 9 0.05
158 1 0.01
159 7 0.04
160 7 0.04
161 2 0.01
162 5 0.03
163 28 0.14
164 8 0.04
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.18
Consensus pattern (152 bp):
ATGTGCGGGAGCCTCGGAACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCA
TCGACACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAACCTAGCCTTGGTCGTG
CGAGCCTCGGGCACCATCGGTA
Found at i:4524 original size:33 final size:33
Alignment explanation
Indices: 4476--4551 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 33
4466 CGGTAAAATA
*
4476 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTT-GTCGTGCGGGAGCCTCGGCCACCATC
*
4510 GGCCCTTGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGTCGTGCGGGAGCCTCGGCCACCATC
4543 GGCACCTTG
1 GGC-CCTTG
4552 GTGGCTCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 27 0.69
34 12 0.31
ACGTcount: A:0.08, C:0.37, G:0.37, T:0.18
Consensus pattern (33 bp):
GGCCCTTGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:4581 original size:25 final size:25
Alignment explanation
Indices: 4552--4600 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4542 CGGCACCTTG
* *
4552 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
4577 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
4601 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:4634 original size:41 final size:43
Alignment explanation
Indices: 4588--4678 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 43
4578 TGGCTAGGAG
*
4588 GTGCGGGAGCCTCGG-ACACCATCGGCA-CTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGCAC-CCATCGGCACCTTGGTGCCTGGGAT
4629 GTGCGGGAGCCTCGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGCACCCATCGGCACCTTGGTGCCTGGGAT
4672 GTGCGGG
1 GTGCGGG
4679 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 24 0.52
42 9 0.20
43 13 0.28
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.20
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGCACCCATCGGCACCTTGGTGCCTGGGAT
Found at i:12678 original size:42 final size:42
Alignment explanation
Indices: 12574--12865 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
12564 GAGCCTCCAT
*
12574 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
12617 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
12660 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
12702 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
12744 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
12786 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
12828 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
12866 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:13101 original size:24 final size:24
Alignment explanation
Indices: 13074--13152 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
13064 CCGGTTAGGT
*
13074 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
13098 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
13122 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
13146 TTCCGGT
1 TCCCGGT
13153 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:13277 original size:43 final size:43
Alignment explanation
Indices: 13157--14167 Score: 960
Period size: 43 Copynumber: 23.9 Consensus size: 43
13147 TCCGGTAGCA
13157 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
13200 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13242 TAAGCCCTTGGTAC-TGCAGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGT-CGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
13284 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
13327 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
13369 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
13412 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
13454 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13497 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
13540 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
13583 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
13626 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
13668 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
**
13711 TAGGCCCTTGG-CGTGCGGGAGCCTCTAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
13752 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13795 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
13838 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13881 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * *
13923 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
13966 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
14008 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * * **
14051 TAGACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
14094 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
14128 TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
14168 CCTTGGTGGC
Statistics
Matches: 779, Mismatches: 155, Indels: 70
0.78 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 11 0.01
42 273 0.35
43 459 0.59
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:13306 original size:85 final size:84
Alignment explanation
Indices: 13157--14167 Score: 703
Period size: 85 Copynumber: 12.0 Consensus size: 84
13147 TCCGGTAGCA
* *
13157 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAG
* *
13221 CCCCGGACACCATCGGCAAAC
64 CCTCGGACACCATCGGCAACC
* * *
13242 TAAGCCCTTGGTAC-TGCAGGAGCCTCGGGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAG
1 TAGGCCCTTGGT-CGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAG
*
13306 CCTCGGGCACCATCGGCAACC
64 CCTCGGACACCATCGGCAACC
*
13327 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGC
**
13392 CTCGGACACTGTCGGCAACC
65 CTCGGACACCATCGGCAACC
* * * *
13412 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
13477 CTCGCG-TACCATCGGCAACC
65 CTCG-GACACCATCGGCAACC
* * * ** ** *
13497 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* **
13562 CCTCGGCCACCATCGGCAAAA
64 CCTCGGACACCATCGGCAACC
* * * ** *
13583 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
*
13648 CCTCGGCCACCATCGGC-ACC
64 CCTCGGACACCATCGGCAACC
* ** * * * ** * ** **
13668 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCGTGCGGGAG
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGATGTGCGGGAG
*
13732 CCTC-TAGCACCATCGGC-ACC
64 CCTCGGA-CACCATCGGCAACC
* ** * * * * * * ** * *
13752 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * *
13816 GGCTCGGGCACCATCGGCAAAC
63 GCCTCGGACACCATCGGCAACC
* ** * ** *
13838 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* * *
13903 CCTCGGCCACCATTGGC-TCC
64 CCTCGGACACCATCGGCAACC
** * * * * ** *
13923 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
*
13987 GCCTC-GAGCACCATCGAC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * *** * * *
14008 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * * **
14072 GGCTCGGGCACCATCGGTAAAA
63 GCCTCGGACACCATCGGCAACC
* * *
14094 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-CCTTGGT-C-----GTGCGGGAGCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
*
14152 TCGGGCACCATCGGCA
66 TCGGACACCATCGGCA
14168 CCTTGGTGGC
Statistics
Matches: 777, Mismatches: 127, Indels: 52
0.81 0.13 0.05
Matches are distributed among these distances:
77 23 0.03
83 3 0.00
84 77 0.10
85 460 0.59
86 214 0.28
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAACC
Found at i:13449 original size:170 final size:170
Alignment explanation
Indices: 13157--14132 Score: 877
Period size: 170 Copynumber: 5.7 Consensus size: 170
13147 TCCGGTAGCA
** * *
13157 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGATGTGCGGGAG
* * * *
13221 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCAGGAGCCTCGGGCGCCATCGGC-ACC
65 CCTCGGACACCATCGGCAAACTAGGCCCTTGGT-CGTGCGGGAGCCTC-GGCACCATCGGCAACC
* ** *
13284 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
128 TAGGCCCTT-GATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
* * **
13327 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGATGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGATGTGCGGGAG
** *
13391 CCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCT
65 CCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCACCATCGGCAACCT
* ** * * *
13455 TGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
129 AGGCCCTT-GATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
* * * * *
13497 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGAT-GTGCGGGAG
* * *
13562 CCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACT
65 CCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCT
* * *
13627 AGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
129 AGGCCCTTGATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
* ** * * * ** **
13668 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCGTGCGGGAG
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATGTGCGGGAG
* * * ** * * * *
13732 CCTC-TAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAAC
65 CCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GCACCATCGGCAAC
* * *
13794 CTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
127 CTAGGCCCTTGATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
* ** *
13838 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGAT-GTGCGGGAG
* * ** ** * *
13903 CCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
65 CCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCATCGGCAACC
* * * *
13966 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
128 TAGGCCCTTGATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
* ** * * * * * *
14008 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGAT-GTGCGGGA
* * * * *
14072 GGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC
64 GCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CACCATCGGC
14133 CCTTGGTCGT
Statistics
Matches: 666, Mismatches: 120, Indels: 39
0.81 0.15 0.05
Matches are distributed among these distances:
169 77 0.12
170 320 0.48
171 237 0.36
172 32 0.05
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (170 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGATGTGCGGGAGC
CTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAG
GCCCTTGATCGTGCGAGAGCCTCGGGCACCATCGGCAACC
Found at i:13956 original size:128 final size:128
Alignment explanation
Indices: 13157--14167 Score: 952
Period size: 128 Copynumber: 8.0 Consensus size: 128
13147 TCCGGTAGCA
* ** * *
13157 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
* * * * * *
13220 GCCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCAGGAGCCTCGGGCGCCATCGGC-AC
65 GCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGT-CGTGCGGGAGCCTCGGGCACCATCGGCAAC
13283 C
128 C
* ** * * *
13284 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTA
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
* ** * * **
13348 GCCTCGGGCACCATCGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * ** *
13412 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGA
* * * * * *
13475 ACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13540 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
* * *
13605 CCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * ** *
13668 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-CGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
** * ** * * * * *
13731 GCCTCTAGCACCATCGGCACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
65 GCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
13795 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
** * * *
13860 CCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCC
66 CCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * *
13923 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
* * * ** * *
13987 GCCTCGAGCACCATCGACACCTTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
65 GCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * * * *
14051 TAGACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
*
14116 CCTC-GG--CCA-C--CA--TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
14168 CCTTGGTGGC
Statistics
Matches: 710, Mismatches: 150, Indels: 55
0.78 0.16 0.06
Matches are distributed among these distances:
119 1 0.00
120 33 0.05
122 2 0.00
124 1 0.00
125 3 0.00
126 33 0.05
127 200 0.28
128 336 0.47
129 101 0.14
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (128 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
CCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:13992 original size:298 final size:299
Alignment explanation
Indices: 13228--13962 Score: 1176
Period size: 298 Copynumber: 2.5 Consensus size: 299
13218 GAGCCCCGGA
* * ** * **
13228 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGC
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCC
* * *
13291 TTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGG
65 TT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
*
13355 GCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCT
129 ACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCT
* *
13420 TGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTA
194 TGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCA
*
13485 CCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
259 CCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
13526 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
13591 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
13656 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
13721 G-CGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
13785 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
13824 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
13889 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
13952 CACCATCGGCA
130 CACCATCGGCA
13963 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 27, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
297 36 0.09
298 242 0.60
299 128 0.32
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:14139 original size:34 final size:34
Alignment explanation
Indices: 14096--14174 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
14086 CGGTAAAATA
*
14096 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
14130 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
14164 GGCACCTTGGT
1 GGC-CCTTGGT
14175 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:14202 original size:25 final size:25
Alignment explanation
Indices: 14173--14221 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14163 CGGCACCTTG
* *
14173 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
14198 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
14222 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:14255 original size:42 final size:44
Alignment explanation
Indices: 14209--14301 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
14199 TGGCTAGGAG
*
14209 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
14251 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
14295 GTGCGGG
1 GTGCGGG
14302 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:19380 original size:14 final size:14
Alignment explanation
Indices: 19361--19392 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
19351 TCCAACCACC
19361 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
19375 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
19389 GGGC
1 GGGC
19393 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:24491 original size:14 final size:14
Alignment explanation
Indices: 24472--24503 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
24462 TCCAACCACC
24472 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
24486 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
24500 GGGC
1 GGGC
24504 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:28025 original size:42 final size:42
Alignment explanation
Indices: 27921--28212 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
27911 GAGCCTCCAT
*
27921 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
27964 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
28007 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
28049 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
28091 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
28133 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
28175 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
28213 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:28448 original size:24 final size:24
Alignment explanation
Indices: 28421--28499 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
28411 CCGGTTAGGT
*
28421 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
28445 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
28469 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
28493 TTCCGGT
1 TCCCGGT
28500 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:28581 original size:42 final size:43
Alignment explanation
Indices: 28517--29546 Score: 740
Period size: 43 Copynumber: 24.3 Consensus size: 43
28507 GCCCTTGGTC
*
28517 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
28559 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTACT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGG-A-T
* * * *
28604 GCT-CTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT
1 G-TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
**
28646 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
28688 CGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* ** **
28731 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
28773 CGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
28816 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
28858 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* ** **
28901 CGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
28944 CGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
28987 CGTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTAT-GAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCT-TGGAT
* * ** ** **
29030 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** *
29073 GTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * * **
29115 GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * **
29157 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
** **
29200 CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * *
29243 CGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * **
29286 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
29328 CGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * ***
29371 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGG-T
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * * * ** **
29413 CATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGG-T
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* * *
29456 CGTGCGGGGGCCTCGGCCACCATCGGC--CCTTGGT-C------
1 -GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGTGCTTGGAT
* *
29491 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGT-GCTTGGAT
29534 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
29547 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:28732 original size:85 final size:86
Alignment explanation
Indices: 28504--29517 Score: 946
Period size: 85 Copynumber: 12.0 Consensus size: 86
28494 TCCGGTAGCA
** * *
28504 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGCAGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
28567 GCCCCGGACACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* * * * ** *
28589 TAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCGAT-GTGCG
1 TAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCG
28651 GGAGCCTCGGGCACCATCGGCAACC
62 GGAGCCTCGGGCACCATCGGCAACC
* * ** *
28676 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGA
* **
28739 GCCTCGGACACTGTCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * ** *
28761 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA
* * *
28824 ACCTCGCGTACCATCGGCAACC
65 GCCTCGGGCACCATCGGCAACC
* * * *
28846 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* **
28911 CCTCGGCCACCATCGGCAAAA
66 CCTCGGGCACCATCGGCAACC
* *
28932 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
28997 CCTCGGCCACCATCGGC-ACC
66 CCTCGGGCACCATCGGCAACC
* ** * * * ** *
29017 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
**
29081 GCCTCTAGCACCATCGGC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * * *
29102 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
29166 GGCTCGGGCACCATCGGCAAAC
65 GCCTCGGGCACCATCGGCAACC
* **
29188 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* * *
29253 CCTCGGCCACCATTGGC-TCC
66 CCTCGGGCACCATCGGCAACC
** * * *
29273 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* *
29337 GCCTCGAGCACCATCGAC-ACC
65 GCCTCGGGCACCATCGGCAACC
* ** * * * * *
29358 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGA
* * **
29422 GGCTCGGGCACCATCGGTAAAA
65 GCCTCGGGCACCATCGGCAACC
* *
29444 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--TCGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
29500 CCTCGGGCACCATCGGCA
66 CCTCGGGCACCATCGGCA
29518 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:29136 original size:256 final size:254
Alignment explanation
Indices: 28646--29546 Score: 1040
Period size: 256 Copynumber: 3.5 Consensus size: 254
28636 GTGCTTCGAT
* ** *
28646 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * ** **
28711 CGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TC
66 CGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TGGAT-
* ** * * * * *
28774 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCA
127 GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCA
* ** * ** *
28837 TCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGT
191 TCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGT
28901 C
254 C
* * *
28902 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
28967 CGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGATGG
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
** * *
29032 GCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
* * *
29097 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
194 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
* * *
29158 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
29223 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCTCCTAGGTGCTGGGATGT
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
* *
29288 GCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGACGTGCGGGAGCCTCGAGCACCATCG
*
29353 ACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
194 GCACCTTGGTGCTTGGATGT-CCGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * * *
29414 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
29475 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGT
66 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGATGT
29536 GCGGGAGCCTC
129 GCGGGAGCCTC
29547 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:29342 original size:299 final size:299
Alignment explanation
Indices: 28575--29312 Score: 1162
Period size: 299 Copynumber: 2.5 Consensus size: 299
28565 GAGCCCCGGA
* * ** * *
28575 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGGC
* * * *
28638 GCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTC
63 CCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*
28702 GGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
127 GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
* *
28767 CTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG
192 CTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* *
28832 TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
28875 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
28940 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
29005 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
29070 GCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
29135 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
29174 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
29239 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
29302 CACCATCGGCA
130 CACCATCGGCA
29313 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:29435 original size:299 final size:297
Alignment explanation
Indices: 28506--29517 Score: 1114
Period size: 299 Copynumber: 3.4 Consensus size: 297
28496 CGGTAGCATA
* * * * ** *
28506 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAG
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAG
* * * * *
28568 CCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-A
63 GCTCGGGCACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAA
** * ** * *
28631 CCTCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
125 AATAGGCCCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* *
28695 TAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
189 GAGCCTCGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAAC
28760 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTT
254 CTAGGCCCTTGGT-GTGCGGGAGCCTCGAGCACCATCGGCACCTT
** * *
28805 GGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
1 GGCCCTTGG-TATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGC
*
28870 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAG
65 TCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAG
*
28935 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCT
130 GCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCT
* *
29000 CGGCCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
195 CGGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGC
* *
29065 CCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTT
260 CCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGCACCTT
** *
29104 GGTGCTTGG-ATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGG
1 GGCCCTTGGTATG--CGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG
29168 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATA
* * * ** *
29233 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGC
129 GGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGC
* * ** * ** *
29296 CTCGGACACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTC-GAGCACCATCGAC-ACC
193 CTCGGACACCATCGGC-ACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGA-CACTGTCGGCAACC
* ** * * * *
29358 TTGGTGCTTGGATGTGCCGGAACCTCGGGCACCATCGGCAACCTA
255 TAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCATCGGC-ACCTT
* ** * * ** *
29403 GACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCG-GGGGC
1 GGCCCTTGGT-ATGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGG-
*
29467 CTCGGCCACCATC-G--------GCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
64 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
29518 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:29489 original size:34 final size:34
Alignment explanation
Indices: 29446--29524 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
29436 CGGTAAAATA
*
29446 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
29480 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
29514 GGCACCTTGGT
1 GGC-CCTTGGT
29525 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:29552 original size:25 final size:25
Alignment explanation
Indices: 29523--29571 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
29513 CGGCACCTTG
* *
29523 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
29548 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
29572 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:29605 original size:42 final size:44
Alignment explanation
Indices: 29559--29651 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
29549 TGGCTAGGAG
*
29559 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
29601 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
29645 GTGCGGG
1 GTGCGGG
29652 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.