Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3644
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: 30137
ACGTcount: A:0.16, C:0.34, G:0.43, T:0.07
Found at i:6412 original size:21 final size:21
Alignment explanation
Indices: 6378--6437 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
6368 TGCGCGTCGC
6378 GGCGGGGCGCGGCGGGGGC-GG
1 GGCGGGGCG-GGCGGGGGCTGG
* **
6399 GGGGGGGTCGGGCGCCGGCTGG
1 GGCGGGG-CGGGCGGGGGCTGG
6421 GGCGGGGCGGGCGGGGG
1 GGCGGGGCGGGCGGGGG
6438 GGCACGGCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.00, C:0.22, G:0.75, T:0.03
Consensus pattern (21 bp):
GGCGGGGCGGGCGGGGGCTGG
Found at i:6483 original size:15 final size:16
Alignment explanation
Indices: 6454--6491 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6444 GCGCGGCCGC
6454 CGGGGGCCTGCGGGCG
1 CGGGGGCCTGCGGGCG
*
6470 CGGGGGCC-GGGGGCG
1 CGGGGGCCTGCGGGCG
6485 CGTGGGG
1 CG-GGGG
6492 GGGGGACGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.00, C:0.26, G:0.68, T:0.05
Consensus pattern (16 bp):
CGGGGGCCTGCGGGCG
Found at i:7272 original size:41 final size:43
Alignment explanation
Indices: 7185--7287 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 43
7175 CTTCTTTCTG
7185 CCCCGCCCCTCCCCGGCCCCCCGGTGCCGATGGGTGCCCGGCCT
1 CCCCGCCCCTCCCC-GCCCCCCGGTGCCGATGGGTGCCCGGCCT
*
7229 -CCCG-CCCTCCCCGCCCACCC-GTGCCGGT-GGTGTCCGCGG-CT
1 CCCCGCCCCTCCCCGCCC-CCCGGTGCCGATGGGTG-CC-CGGCCT
*
7270 CCCCGCCCCTCCTCGCCC
1 CCCCGCCCCTCCCCGCCC
7288 TGCGGCTCCC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
40 4 0.08
41 15 0.29
42 18 0.35
43 15 0.29
ACGTcount: A:0.02, C:0.59, G:0.26, T:0.13
Consensus pattern (43 bp):
CCCCGCCCCTCCCCGCCCCCCGGTGCCGATGGGTGCCCGGCCT
Found at i:7304 original size:24 final size:25
Alignment explanation
Indices: 7264--7311 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
7254 GGTGGTGTCC
* *
7264 GCGGCTCCCCGCCCCTCCTCGCCCT
1 GCGGCTCCCCGCACCTCCGCGCCCT
7289 GCGGCT-CCCGCACCTCCGCGCCC
1 GCGGCTCCCCGCACCTCCGCGCCC
7312 CCGGGGGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.02, C:0.62, G:0.23, T:0.12
Consensus pattern (25 bp):
GCGGCTCCCCGCACCTCCGCGCCCT
Found at i:7629 original size:44 final size:42
Alignment explanation
Indices: 7354--8328 Score: 466
Period size: 44 Copynumber: 22.9 Consensus size: 42
7344 GCCGCCCCCG
* *
7354 GCCGCTGGTGGCCGC-GC-CGCCGCCCGCCCCCGGGCCTCTTTT
1 GCCGCTGGTGCCCGCGGCTC-CCGCCCG-CCCCGGGCCTCGTTT
* * * * * * *
7396 CCCGCTGGTGCACGCGCCTCTCGCCTGCCCCGGGTCTCG-GT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCGGGCCTCGTTT
* * * ** * *
7437 GCCG-TGGTGCCCGCGG-TTCGGCCCCTCCCCGCCCCCCG-GT
1 GCCGCTGGTGCCCGCGGCTCCCG-CCCGCCCCGGGCCTCGTTT
* *
7477 GTCGCTGGTGCTCGCGGCTCCCCGCACGCGCCCCGGGCCTCGTTTT
1 GCCGCTGGTGCCCGCGGCT-CCCGC-C-CGCCCCGGGCCTCG-TTT
* * ** ***
7523 GGCCGCTCGGTGTCCGCGGCTCCCCGCCCCTCCCCGCACCTCGAAGC
1 -GCCGCT-GGTGCCCGCGGCT-CCCG-CCCGCCCCGGGCCTCG-TTT
* * * *
7570 GCCCCTGGTGGCCGCGGCTCCCCCGCCGCCCCGGGCCTCTTTT
1 GCCGCTGGTGCCCGCGGCTCCCGC-CCGCCCCGGGCCTCGTTT
* *
7613 GGCCGCTGGTGCCCGCGGACTCCCGCCCGCCCCCGGGCTTAGTTT
1 -GCCGCTGGTGCCCGCGG-CTCCCGCCCG-CCCCGGGCCTCGTTT
*
7658 GCCGCTGGTGCCCGC-GCTCTCGCCCGCCCCCAGGGCGCTCGGTTT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCG-CCCC-GGGC-CTC-GTTT
* * * * * * * * *
7703 GTCGCTGGTGCGCGAGGTTCTCGGCCC-TCCC-GCCCCCG-GT
1 GCCGCTGGTGCCCGCGGCTC-CCGCCCGCCCCGGGCCTCGTTT
* * * *
7743 GCCGCTGGTGCTCGCGGCTCCCGCCCGGCCC-GGCCTAGGTT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCGGGCCTCGTTT
** * * * ** * *
7784 GCCGCCCGTGTCCGCGGCTCCCGCCCTCCTCGCACCCCG-GT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCGGGCCTCGTTT
*
7825 GCCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCG-CCCCGGGCCTCGTTT
*
7868 GCCGCTGGTGTCCCGCGGCT-CCGCGCCGCCCACGGGCCTCTTTT
1 GCCGCTGGTG-CCCGCGGCTCCCGC-CCGCCC-CGGGCCTCGTTT
* *
7912 GCCAGCTGGTGGCCGCGGCTCCCGCCCGCCGCCGGGCTTCGTTT
1 GCC-GCTGGTGCCCGCGGCTCCCGCCCGCC-CCGGGCCTCGTTT
* * *
7956 GCCGCTGGATAG-CCGCGCCTCTCGCCCG-CCC-GGCCT-GGTT
1 GCCGCTGG-T-GCCCGCGGCTCCCGCCCGCCCCGGGCCTCGTTT
* * ** * *
7996 G-CGCTGGT-CCGCGCCGGTCTCGCC-ACCTCCCCGCCCCCCG-GT
1 GCCGCTGGTGCC-CG-CGG-CTC-CCGCCCGCCCCGGGCCTCGTTT
* *
8038 GCCGCTGGTGCTCGCGGCTCCCGCCCGCCCAC-GGCCTCGGTT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCGCCC-CGGGCCTCGTTT
** * * * ** * **
8080 GCCGCCCGTGTCCGC-GC-CCCGCCCTCACTCGCCCCGCGCGGT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCGC-CCCGGGCCTCG-TTT
*
8122 GCCGCTGGTGCCCGCGGCT-CCGCCCGCCCCCGGGCCTCGGTT
1 GCCGCTGGTGCCCGCGGCTCCCGCCCG-CCCCGGGCCTCGTTT
* * * * *
8164 GCCGCTGGTGCCCGACGGCTCCCGCCCATTCGCC-GCCCGCG-GT
1 GCCGCTGGTGCCCG-CGGCTCCCGCCC--GCCCCGGGCCTCGTTT
* * *
8207 GCCGCTGGCG-CCGCGGCTGCCCGCCGCTCCCCCGGGCTTCGTTT
1 GCCGCTGGTGCCCGCGGCT-CCCGCC-C-GCCCCGGGCCTCGTTT
* * ** * * *
8251 GCCGCTGGT-TCCGGGGCTCCCTG-CC-CCCTAGCCCCCGGTT
1 GCCGCTGGTGCCCGCGGCTCCC-GCCCGCCCCGGGCCTCGTTT
8291 GCCGCTGGTGCCCCGCGGCTCCCGCCCGCCCC-GGCCTC
1 GCCGCTGGTG-CCCGCGGCTCCCGCCCGCCCCGGGCCTC
8329 TGCTCCCGGC
Statistics
Matches: 697, Mismatches: 168, Indels: 136
0.70 0.17 0.14
Matches are distributed among these distances:
37 1 0.00
38 3 0.00
39 15 0.02
40 87 0.12
41 98 0.14
42 133 0.19
43 93 0.13
44 155 0.22
45 65 0.09
46 9 0.01
47 20 0.03
48 17 0.02
49 1 0.00
ACGTcount: A:0.02, C:0.49, G:0.32, T:0.17
Consensus pattern (42 bp):
GCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCGGGCCTCGTTT
Found at i:7822 original size:82 final size:84
Alignment explanation
Indices: 7657--7948 Score: 242
Period size: 82 Copynumber: 3.4 Consensus size: 84
7647 GGGCTTAGTT
* * * * ** * *
7657 TGCCGCTGGTGCCCGC-GCTCTCGCCCGCCCCCAGGGCGCTCGGTTTGTCGCTGGTG-CGCGAGG
1 TGCCGCTGGTGGCCGCGGCTCCCGCCCGCCCCC-GGGC-CTAGG-TTGCCGCCCGTGTCCCGCGG
*
7720 TTCTCG-GCCCTCCCGCCCCCGG
63 CTC-CGCGCCCTCCCGCCCCCGG
*
7742 TGCCGCTGGT-GCTCGCGGCTCCCGCCCG-GCCC-GGCCTAGGTTGCCGCCCGTGT-CCGCGGCT
1 TGCCGCTGGTGGC-CGCGGCTCCCGCCCGCCCCCGGGCCTAGGTTGCCGCCCGTGTCCCGCGGCT
7803 CC-CGCCCTCCTCGCACCCCGG
65 CCGCGCCCTCC-CGC-CCCCGG
* * **
7824 TGCCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTGTCCCGCGGCTC
1 TGCCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTAGGTTGCCGCCCGTGTCCCGCGGCTC
* ***
7889 CGCGCCGC-CCACGGGCCTCTTT
66 CGCGCC-CTCC-C--GCCCCCGG
*
7911 TGCCAGCTGGTGGCCGCGGCTCCCGCCCGCCGCCGGGC
1 TGCC-GCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGC
7949 TTCGTTTGCC
Statistics
Matches: 171, Mismatches: 21, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
80 8 0.05
81 18 0.11
82 35 0.20
83 8 0.05
84 18 0.11
85 26 0.15
86 17 0.10
87 7 0.04
88 34 0.20
ACGTcount: A:0.02, C:0.47, G:0.34, T:0.17
Consensus pattern (84 bp):
TGCCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTAGGTTGCCGCCCGTGTCCCGCGGCTC
CGCGCCCTCCCGCCCCCGG
Found at i:7928 original size:88 final size:84
Alignment explanation
Indices: 7397--8190 Score: 354
Period size: 84 Copynumber: 9.3 Consensus size: 84
7387 GCCTCTTTTC
* * * * * * *
7397 CCGCTGGT-GCACGCGCCTCTCGCCTG-CCCCGGGTCTCG-GTGCCG-TGGTGCCCGCGG-TTCG
1 CCGCTGGTGGC-CGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTGCCCGCGGCTCCC
* * *
7457 GCCCCTCCCCGCCCCCCGGTG
65 G-CCCTCCCGGGCCTCCGGTG
* * *
7478 TCGCTGGT-GCTCGCGGCTCCCCGCACGCGCCCCGGGCCTCGTTTTGGCCGCTCGGTGTCCGCGG
1 CCGCTGGTGGC-CGCGGCT-CCCGCCCGC-CCCCGGGCCTCG-TTT-GCCGCT-GGTGCCCGCGG
** *
7542 CTCCCCGCCCCTCCCCGCACCT-CGAAGCG
60 CT-CCCG-CCCT-CCCGGGCCTCCG--GTG
* * *
7571 CCCCTGGTGGCCGCGGCTCCCCCGCCG-CCCCGGGCCTCTTTTGGCCGCTGGTGCCCGCGGACTC
1 CCGCTGGTGGCCGCGGCTCCCGC-CCGCCCCCGGGCCTCGTTT-GCCGCTGGTGCCCGCGG-CTC
* ** *
7635 CCGCCCGCCCCCGGG-CTTAGTTTG
63 CCG-CC-CTCCCGGGCCTCCG-GTG
* * * * * *
7659 CCGCTGGTGCCCGC-GCTCTCGCCCGCCCCCAGGGCGCTCGGTTTGTCGCTGGTGCGCGAGGTTC
1 CCGCTGGTGGCCGCGGCTCCCGCCCGCCCCC-GGGC-CTC-GTTTGCCGCTGGTGCCCGCGGCTC
* *
7723 TCGGCCCTCCC--GCCCCCGGTG
63 -CCGCCCTCCCGGGCCTCCGGTG
* * * ** *
7744 CCGCTGGT-GCTCGCGGCTCCCGCCCG-GCCC-GGCCTAGGTTGCCGCCCGTGTCCGCGGCTCCC
1 CCGCTGGTGGC-CGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTGCCCGCGGCTCCC
**
7806 GCCCTCCTCGCACC-CCGGTG
65 GCCCTCC-CGGGCCTCCGGTG
7826 CCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTGTCCCGCGGCTCCG
1 CCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTG-CCCGCGGCTCC-
***
7891 CGCCGC-CCACGGGCCTCTTTTG
64 CGCC-CTCC-CGGGCCTCCGGTG
* * *
7913 CCAGCTGGTGGCCGCGGCTCCCGCCCGCCGCCGGGCTTCGTTTGCCGCTGGATAG-CCGCGCCTC
1 CC-GCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGG-T-GCCCGCGGCTC
* *
7977 TCGCCCGCCC-GGCCT--GGTTG
63 CCGCCCTCCCGGGCCTCCGG-TG
* * ** * * *
7997 -CGCTGGT--CCGCGCCGGTCTCGCCAC-CTCCCCGCCCCCCG-GTGCCGCTGGTGCTCGCGGCT
1 CCGCTGGTGGCCGCG--GCTCCCGCC-CGC-CCCCGGGCCTCGTTTGCCGCTGGTGCCCGCGGCT
* *
8057 CCCGCCCGCCCACGGCCT-CGGTTG
62 CCCGCCCTCCC-GGGCCTCCGG-TG
** * * * * ** * **
8081 CCGCCCGTGTCCGC-GC-CCCGCCCTCACTCGCCCCGCGCGGTGCCGCTGGTGCCCGCGGCT-CC
1 CCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCG-TTTGCCGCTGGTGCCCGCGGCTCCC
*
8143 GCCCGCCCCCGGGCCT-CGGTTG
65 G-CC-CTCCCGGGCCTCCGG-TG
*
8165 CCGCTGGTGCCCGACGGCTCCCGCCC
1 CCGCTGGTGGCCG-CGGCTCCCGCCC
8191 ATTCGCCGCC
Statistics
Matches: 553, Mismatches: 100, Indels: 114
0.72 0.13 0.15
Matches are distributed among these distances:
80 14 0.03
81 49 0.09
82 69 0.12
83 33 0.06
84 79 0.14
85 42 0.08
86 30 0.05
87 41 0.07
88 78 0.14
89 52 0.09
90 18 0.03
91 20 0.04
92 9 0.02
93 17 0.03
94 2 0.00
ACGTcount: A:0.02, C:0.48, G:0.32, T:0.17
Consensus pattern (84 bp):
CCGCTGGTGGCCGCGGCTCCCGCCCGCCCCCGGGCCTCGTTTGCCGCTGGTGCCCGCGGCTCCCG
CCCTCCCGGGCCTCCGGTG
Found at i:8126 original size:84 final size:84
Alignment explanation
Indices: 8027--8322 Score: 322
Period size: 84 Copynumber: 3.5 Consensus size: 84
8017 GCCACCTCCC
* * **
8027 CGCCCCC-CGGTGCCGCTGGTGCTCGCGGCTCCCGCCCGCCCAC-GGCCTCGGTTGCCGCCCGTG
1 CGCCCCCGCGGTGCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCCGGGCCTCGGTTGCCGCTGGTG
8090 TCCGCGC-CCCGCCCTCACT
66 TCCGCGCTCCCGCCC-CACT
8109 CGCCCCGCGCGGTGCCGCTGGTGCCCGCGGCT-CCGCCCGCCCCCGGGCCTCGGTTGCCGCTGGT
1 CGCCCC-CGCGGTGCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCCGGGCCTCGGTTGCCGCTGGT
* *
8173 GCCCGACGGCTCCCG-CCCATT
65 GTCCG-C-GCTCCCGCCCCACT
* * * *
8194 CGCCGCCCGCGGTGCCGCTGGCG-CCGCGGCTGCCCGCCGCTCCCCCGGGCTTCGTTTGCCGCTG
1 CGCC-CCCGCGGTGCCGCTGGTGCCCGCGGCT-CCCGCC-CGCCCCCGGGCCTCGGTTGCCGCTG
*
8258 GT-TCCGGGGCTCCCTGCCCC-CT
63 GTGTCC-GCGCTCCC-GCCCCACT
* *
8280 AGCCCCCG-GTTGCCGCTGGTGCCCCGCGGCTCCCGCCCGCCCC
1 CGCCCCCGCGGTGCCGCTGGTG-CCCGCGGCTCCCGCCCGCCCC
8323 GGCCTCTGCT
Statistics
Matches: 182, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
82 6 0.03
83 12 0.07
84 67 0.37
85 39 0.21
86 26 0.14
87 32 0.18
ACGTcount: A:0.02, C:0.51, G:0.32, T:0.15
Consensus pattern (84 bp):
CGCCCCCGCGGTGCCGCTGGTGCCCGCGGCTCCCGCCCGCCCCCGGGCCTCGGTTGCCGCTGGTG
TCCGCGCTCCCGCCCCACT
Found at i:8379 original size:23 final size:24
Alignment explanation
Indices: 8334--8411 Score: 97
Period size: 23 Copynumber: 3.3 Consensus size: 24
8324 GCCTCTGCTC
* *
8334 CCGGCCCGGTTCCCGCGGCG-CCCG
1 CCGGGCCGGTTCGC-CGGCGCCCCG
8358 CCGGGCCGGTTCGCCGGCGCCCCG
1 CCGGGCCGGTTCGCCGGCGCCCCG
* *
8382 CC-GGCCGGCTCGCCGGCGCCCCC
1 CCGGGCCGGTTCGCCGGCGCCCCG
8405 CCGGGCC
1 CCGGGCC
8412 CCTCCGGCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.00, C:0.55, G:0.38, T:0.06
Consensus pattern (24 bp):
CCGGGCCGGTTCGCCGGCGCCCCG
Found at i:8659 original size:41 final size:39
Alignment explanation
Indices: 8607--8872 Score: 209
Period size: 38 Copynumber: 6.8 Consensus size: 39
8597 CCTTTCGCTT
*
8607 TGGTGCT-GCGGCTCCCGCTACTCCTCTGCCCCGGTGCCGC
1 TGGTGCTCGCGGCTCCCGC-CCTCCTC-GCCCCGGTGCCGC
8647 TGGTGCTCGCGGCTCCCGCCCTCC-CGCCCCGGTGCCGC
1 TGGTGCTCGCGGCTCCCGCCCTCCTCGCCCCGGTGCCGC
*
8685 TGGTGCCTCGC-GCTCCCGCCCCTCCTCGCCCGCGGTGCCGA
1 TGGTG-CTCGCGGCTCCCG-CCCTCCTCGCCC-CGGTGCCGC
* * * *
8726 TGGT-CTCG-GGCTCCC-CCCCCCGT-GCCTCGTTTGGCCGG
1 TGGTGCTCGCGGCTCCCGCCCTCC-TCGCCCCG-GT-GCCGC
*
8764 TGGTG-TCCGCTGCT-CCGCCCT-CT-GCCCCGGTG-CGC
1 TGGTGCT-CGCGGCTCCCGCCCTCCTCGCCCCGGTGCCGC
*
8799 TGGTGCTCGCGGGCTCCCGCACCCTCC-CGCCTCCCGGTTCCGC
1 TGGTGCTCGC-GGCTCCCG--CCCTCCTCG-C-CCCGGTGCCGC
* *
8842 TGGTGGCT-GCGGCTCCCCCCCTCCGCGCCCC
1 TGGT-GCTCGCGGCTCCCGCCCTCCTCGCCCC
8873 CCGGGTGCTG
Statistics
Matches: 187, Mismatches: 14, Indels: 51
0.74 0.06 0.20
Matches are distributed among these distances:
35 10 0.05
36 7 0.04
37 13 0.07
38 41 0.22
39 34 0.18
40 31 0.17
41 26 0.14
42 13 0.07
43 9 0.05
44 3 0.02
ACGTcount: A:0.01, C:0.49, G:0.30, T:0.20
Consensus pattern (39 bp):
TGGTGCTCGCGGCTCCCGCCCTCCTCGCCCCGGTGCCGC
Found at i:8701 original size:79 final size:77
Alignment explanation
Indices: 8617--8846 Score: 201
Period size: 79 Copynumber: 2.9 Consensus size: 77
8607 TGGTGCTGCG
8617 GCTCCCGCTACTCCTCTGCCCCGGTGCCGCTGGTGCTCGCGGCTCCCGCCCTCCCGCCCCGGTGC
1 GCTCCCGC--CTCCTCTGCCCCGGTGCCGCTGGTGCTCGCGGCTCCCGCCCTCCCGCCCCGGTGC
8682 CGCTGGTGCCTCGC-
64 CGCTGGTGCC-CGCT
* *
8696 GCTCCCGCC-CCTCCTCGCCCGCGGTGCCGATGGT-CTCG-GGCTCCC-CCC-CCCGTGCCTCGT
1 GCTCCCGCCTCCT-CT-GCCC-CGGTGCCGCTGGTGCTCGCGGCTCCCGCCCTCCC--GCCCCG-
* * *
8756 TTGGCCGGTGGTGTCCGCT
60 GT-GCCGCTGGTGCCCGCT
8775 GCT-CCG-C-CCTCTGCCCCGGTG-CGCTGGTGCTCGCGGGCTCCCGCACCCTCCCGCCTCCCGG
1 GCTCCCGCCTCCTCTGCCCCGGTGCCGCTGGTGCTCGC-GGCTCCCG--CCCTCCCG-C-CCCGG
*
8836 TTCCGCTGGTG
61 TGCCGCTGGTG
8847 GCTGCGGCTC
Statistics
Matches: 124, Mismatches: 10, Indels: 35
0.73 0.06 0.21
Matches are distributed among these distances:
73 6 0.05
74 9 0.07
75 7 0.06
76 15 0.12
77 19 0.15
78 24 0.19
79 38 0.31
80 6 0.05
ACGTcount: A:0.01, C:0.49, G:0.30, T:0.20
Consensus pattern (77 bp):
GCTCCCGCCTCCTCTGCCCCGGTGCCGCTGGTGCTCGCGGCTCCCGCCCTCCCGCCCCGGTGCCG
CTGGTGCCCGCT
Found at i:8844 original size:43 final size:41
Alignment explanation
Indices: 8788--8876 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 41
8778 CCGCCCTCTG
*
8788 CCCCGG-TGCGCTGGT-GCTCGCGGGCTCCCGCACCCTCC-CGCC
1 CCCCGGTTCCGCTGGTGGCT-GC-GGCTCCC-C-CCCTCCGCGCC
*
8830 TCCCGGTTCCGCTGGTGGCTGCGGCTCCCCCCCTCCGCGCC
1 CCCCGGTTCCGCTGGTGGCTGCGGCTCCCCCCCTCCGCGCC
8871 CCCCGG
1 CCCCGG
8877 GTGCTGGCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
40 6 0.15
41 10 0.24
42 12 0.29
43 10 0.24
44 3 0.07
ACGTcount: A:0.01, C:0.53, G:0.30, T:0.16
Consensus pattern (41 bp):
CCCCGGTTCCGCTGGTGGCTGCGGCTCCCCCCCTCCGCGCC
Found at i:10595 original size:41 final size:38
Alignment explanation
Indices: 10529--10806 Score: 244
Period size: 40 Copynumber: 6.9 Consensus size: 38
10519 AGAGCCGCCA
10529 GCACCGGGGGGCGCGGAGGGG-GGAGCCGCAGCCACCAGCGG
1 GCACC-GGGGGCG-GGAGGGGCGGAGCCGCAG-CACCAGC-G
* *
10570 GAACCGGGAGGCGGGAGGCGCGGAGCCGCGAGCACCAGCG
1 GCACCGGG-GGCGGGAGGGGCGGAGCCGC-AGCACCAGCG
* * *
10610 GCACCGGGGGCAGGGAGGGGCGGGAGCAGCGGACACCACCG
1 GCACCGGGGGC-GGGAGGGGC-GGAGCCGCAG-CACCAGCG
* **
10651 GCAAACGAGGCCCGGG-GGGG-GGAGCCGCGGAG-ACCAGCG
1 GC-ACCG-GGGGCGGGAGGGGCGGAGCCGC--AGCACCAGCG
10690 GCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGCG
1 GCACCG-GGGGCG-GGAGGGGC-GGAGCCGC-AGCACCAGCG
10732 GCACC-GGGGCGGGAGGGGCGGAGCCGCGAGCACCAGCG
1 GCACCGGGGGCGGGAGGGGCGGAGCCGC-AGCACCAGCG
*
10770 GCACCGGGGG-GCGGAGGAGCGGGAGCCGGCAGCACCA
1 GCACCGGGGGCG-GGAGGGGC-GGAGCC-GCAGCACCA
10807 AAGCGAAAGG
Statistics
Matches: 200, Mismatches: 18, Indels: 39
0.78 0.07 0.15
Matches are distributed among these distances:
38 32 0.16
39 39 0.19
40 49 0.25
41 49 0.25
42 28 0.14
43 3 0.01
ACGTcount: A:0.18, C:0.30, G:0.52, T:0.00
Consensus pattern (38 bp):
GCACCGGGGGCGGGAGGGGCGGAGCCGCAGCACCAGCG
Found at i:10627 original size:80 final size:79
Alignment explanation
Indices: 10529--10806 Score: 286
Period size: 80 Copynumber: 3.5 Consensus size: 79
10519 AGAGCCGCCA
*
10529 GCACCGGGGGGCGCGGA-GGG-GGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGAGGCGCG
1 GCACC-GGGGGCGAGGAGGGGCGGGAGCCGCAG-CACCAGCGGGAACC-GGAGGCGGGAGG-GCG
10592 GAGCCGCGAGCACCAGCG
62 GAGCCGCGAGCACCAGCG
* * * * * *
10610 GCACCGGGGGC-AGGGAGGGGCGGGAGCAGCGGACACCACCGGCAAAC-GAGGCCCGGG-GGGGG
1 GCACCGGGGGCGA-GGAGGGGCGGGAGCCGCAG-CACCAGCGGGAACCGGAGG--CGGGAGGGCG
10672 GAGCCGCGGAG-ACCAGCG
62 GAGCCGC-GAGCACCAGCG
*
10690 GCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGC-GGCACCGG-GGCGGGAGGGGCGG
1 GCACCG-GGGGCGAGGAGGGGCGGGAGCCGC-AGCACCAGCGGGAACCGGAGGCGGGA-GGGCGG
10753 AGCCGCGAGCACCAGCG
63 AGCCGCGAGCACCAGCG
* *
10770 GCACCGGGGG-GCGGAGGAGCGGGAGCCGGCAGCACCA
1 GCACCGGGGGCGAGGAGGGGCGGGAGCC-GCAGCACCA
10807 AAGCGAAAGG
Statistics
Matches: 166, Mismatches: 17, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
78 26 0.16
79 9 0.05
80 64 0.39
81 41 0.25
82 26 0.16
ACGTcount: A:0.18, C:0.30, G:0.52, T:0.00
Consensus pattern (79 bp):
GCACCGGGGGCGAGGAGGGGCGGGAGCCGCAGCACCAGCGGGAACCGGAGGCGGGAGGGCGGAGC
CGCGAGCACCAGCG
Found at i:10827 original size:160 final size:160
Alignment explanation
Indices: 10529--10841 Score: 390
Period size: 160 Copynumber: 1.9 Consensus size: 160
10519 AGAGCCGCCA
* *
10529 GCACCGGGGGGCGCGGAGGGGGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGAGGCGCGGA
1 GCACCGCGGGGCGAGGAGGGGGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGAGGCGCGGA
* **
10594 GCCGCGAGCACCAGCGGCACCGGGGGCAGGGAGGGGCGGGAGCAGCGGACACCACCGGCAAACGA
66 GCCGCGAGCACCAGCGGCACCGGGGGCA-GGAGGAGCGGGAGCA-CGGACACCAAAGGCAAACGA
10659 GGCCCGGGGG-GGGGAGCCGCGGAGACCAGCG
129 GGCCCGGGGGCGGGGAGCCGCGGAGACCAGCG
* *
10690 GCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGAG-CACCAGC-GGCACC-GG-GGCGGGAGGGGC
1 GCACCGCGGGGCGAGGA-GGG-GGGAGCCGC-AGCCACCAGCGGGAACCGGGAGGCGGGAGGCGC
10751 GGAGCCGCGAGCACCAGCGGCACCGGGGGGC-GGAGGAGCGGGAGC-CGGCAGCACCAAA-GCGA
63 GGAGCCGCGAGCACCAGCGGCACC-GGGGGCAGGAGGAGCGGGAGCACGG-A-CACCAAAGGC-A
* * *
10813 AAGGGGGCCCCGGGGGCGGGGAGCGGCGG
124 AACGAGG-CCCGGGGGCGGGGAGCCGCGG
10842 GGAAAAAAAA
Statistics
Matches: 133, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
157 3 0.02
158 3 0.02
159 24 0.18
160 43 0.32
161 34 0.26
162 8 0.06
163 16 0.12
164 2 0.02
ACGTcount: A:0.18, C:0.29, G:0.53, T:0.00
Consensus pattern (160 bp):
GCACCGCGGGGCGAGGAGGGGGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGAGGCGCGGA
GCCGCGAGCACCAGCGGCACCGGGGGCAGGAGGAGCGGGAGCACGGACACCAAAGGCAAACGAGG
CCCGGGGGCGGGGAGCCGCGGAGACCAGCG
Found at i:11071 original size:23 final size:24
Alignment explanation
Indices: 11007--11076 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
10997 GGGGAGGGCC
*
11007 CGGGGGCGCCGGCGAGCCGGCCCG
1 CGGGGGCGCCGGCGAACCGGCCCG
11031 CGGCGGGCGCCGGCGAACCGGCCCG
1 CGG-GGGCGCCGGCGAACCGGCCCG
11056 -GCGGGGCGCCGG-GAACCGGCC
1 CG-GGGGCGCCGGCGAACCGGCC
11077 GGGAGCAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
23 9 0.21
24 13 0.30
25 21 0.49
ACGTcount: A:0.07, C:0.41, G:0.51, T:0.00
Consensus pattern (24 bp):
CGGGGGCGCCGGCGAACCGGCCCG
Found at i:11158 original size:42 final size:42
Alignment explanation
Indices: 11097--12219 Score: 760
Period size: 42 Copynumber: 27.1 Consensus size: 42
11087 GCCCGGGGGC
11097 GGCGGGAGCCGCGGGCACCAGCGGCAACCG-GGGGCGAGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCG-GGAGG
* * * * * **
11139 GGCAGGAGCCCCGGACACCAGCGGCAAACGAAGCCCGGGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGC-GGGAGG
* *
11182 GGC-GGAGCCGCGGGCGCCAGCGGC-ACCGCGGGGCGGCGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGG-GAGG
** *
11223 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGCCCGGGGGCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
*
11266 GGCGGGAGCCGCGGGCACCAGCGGC-ACCGCGGGGCGAGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCG-GGAGG
* ** ** *
11308 GGCGGGAGCCGC-GACACGGGCGGCAACCGAGGCCCGGGGGCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* *
11350 GGCGGGAGCCGCGAGCACCAGCGGC-ACCGGGGGGCGGG-GAG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* * **
11391 GGCGAGAACCGCGCGG-ACCAGCGGCAACCGAGGCCCGGG-GCG
1 GGCGGGAGCCGCG-GGCACCAGCGGCAACCGAGGGGCGGGAG-G
* * * * **
11433 GGCGAGAG-GGCGGGCACCAGCGGCAAACGAAGCCCGGG-GCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* ** **
11474 GGCGGGAGCCGCGGCCACCAGCGGCAAAAGAGGCCCGGG-GCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* * ** *
11516 GGCGGGAGCCGCGGACACCAGCGGCAAACGAGGCCCGGGGGCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* *
11559 GGCGGGAGCCGCGGCCACCAGCGGC-ACCGCGGGGCGAGGA-G
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCG-GGAGG
* ** **
11600 GGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGG-GCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* *
11642 GGCGGGAGCCGCGAGCACCAGCGGC-ACCGGGGGGCGGGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGC-GGGAGG
* * * * * *
11684 GCCGAGAACCGCGCGCACCAGCGACAACCGAGGCCCGG-GGGCGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGG---GGCGGGAGG
* * * * **
11728 GGCGAGAGGCGCGGGCACCAGCGGCAAACGAAGCCCGGG-GG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAGG
* **
11769 CGGCGGGAGCCGCGGGCAGCACCAGCGGCAA-AGAGGCCCGGG-GCG
1 -GGCGGGAGCCGC-GG--GCACCAGCGGCAACCGAGGGGCGGGAG-G
* *
11814 GGC-GGAGCCGCGGCCACCAGCGGC-GCCGAGGGGCGGGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGC-GGGAGG
* * ** *
11855 GGCGGGAGCCGCGGACACCAGCGGCAAACGAGGCCCGGGGGCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* *
11898 GGC-GGAGCCGCGAGCACCAGCGAC-ACCG-GGGGC--GAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAGG
* * ***
11935 GGCCGGAACCGCGGGCACCAGCGGCAACCGAGACCCGGG-GCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* * * * **
11977 GGCGAGAGGCGCGGGCACCAGCGGGAA-AGAGGCCCGGG-GCG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAG-G
* * * *
12018 GGCGGG-GGCGCGGCCACCAGCGGC--CC---GGCCGGG-CG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAGG
*
12053 GGCGGGAGCCGCGGGCACCAGCGGC-ACCGGGGGGCGCGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCG-GGAGG
* *
12095 GGC-GGAG--GCGGG--GCA-C-G--ACCGCGGGGCGAGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCG-GGAGG
* *
12129 GGCGGGAGCCGCGGACACCAGCGGCAA-CGGGGGGCGGGGAGG
1 GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGC-GGGAGG
*
12171 GGCGGGAGCCGCGGGCACCCAGCGGC-ACCGGGGGGCCGGGAGG
1 GGCGGGAGCCGCGGGCA-CCAGCGGCAACCGAGGGG-CGGGAGG
12214 GGCGGG
1 GGCGGG
12220 CGAAAGAAGA
Statistics
Matches: 873, Mismatches: 144, Indels: 127
0.76 0.13 0.11
Matches are distributed among these distances:
34 18 0.02
35 12 0.01
36 23 0.03
37 12 0.01
38 20 0.02
39 11 0.01
40 45 0.05
41 149 0.17
42 380 0.44
43 141 0.16
44 46 0.05
45 14 0.02
46 2 0.00
ACGTcount: A:0.16, C:0.32, G:0.52, T:0.00
Consensus pattern (42 bp):
GGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGGGCGGGAGG
Found at i:11692 original size:293 final size:294
Alignment explanation
Indices: 11154--11880 Score: 1114
Period size: 293 Copynumber: 2.5 Consensus size: 294
11144 GAGCCCCGGA
* * ** * **
11154 CACCAGCGGCAAACGAAGCCCGGGGAGGG-GCGGAGCCGCGGGCGCCAGCGGCACCGCGGGGCGG
1 CACCAGCGGCAAACGAAGCCCGGGG-GGGCG-GGAGCCGCGGCCACCAGCGGCAAAGAGGCCCGG
* *
11218 CGAG-GGGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGCCCGGGGGCGGGCGGGAGCCGCGGGC
64 -G-GCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGGCGGGCGGGAGCCGCGGAC
11282 ACCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGACACGGGCGGCAACCGAGGCCCGGGG
127 ACCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGACACGGGCGGCAACCGAGGCCCGGGG
*
11347 GCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGGCGGGGAGGGCGAGAACCGCGCGGACCAG
192 GCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGGCGGGGAGGGCGAGAACCGCGCGCACCAG
*
11412 CGGCAACCGAGGCCC-GGGGC-GGGCGAGAGG-GCGGG
257 CGACAACCGAGGCCCGGGGGCGGGGCGAGAGGCGCGGG
11447 CACCAGCGGCAAACGAAGCCCGGGGCGGGCGGGAGCCGCGGCCACCAGCGGCAAAAGAGGCCCGG
1 CACCAGCGGCAAACGAAGCCCGGGG-GGGCGGGAGCCGCGGCCACCAGCGGC-AAAGAGGCCCGG
* *
11512 GGCGGGCGGGAGCCGCGGACACCAGCGGCAAACGAGGCCCGGGGGCGGGCGGGAGCCGCGGCCAC
64 GGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGGCGGGCGGGAGCCGCGGACAC
11577 CAGCGGCACCGCGGGGCGAGGA-GGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCC-GGGG
129 CAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGC-GACACGGGCGGCAACCGAGGCCCGGGGG
11640 CGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGGCGGGGAGGGCCGAGAACCGCGCGCACCAG
193 CGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGGCGGGGAGGG-CGAGAACCGCGCGCACCAG
11705 CGACAACCGAGGCCCGGGGGCGGGGCGAGAGGCGCGGG
257 CGACAACCGAGGCCCGGGGGCGGGGCGAGAGGCGCGGG
11743 CACCAGCGGCAAACGAAGCCCGGGGGCGGCGGGAGCCGCGGGCAGCACCAGCGGCAAAGAGGCCC
1 CACCAGCGGCAAACGAAGCCCGGGGG-GGCGGGAGCCGC-GGC--CACCAGCGGCAAAGAGGCCC
* * **
11808 GGGGCGGGC-GGAGCCGCGGCCACCAGCGGC-GCCGAGGGGCGGGGAG-GGGCGGGAGCCGCGGA
62 GGGGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGG-GCGGGCGGGAGCCGCGGA
11870 CACCAGCGGCA
126 CACCAGCGGCA
11881 AACGAGGCCC
Statistics
Matches: 402, Mismatches: 19, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
292 63 0.16
293 184 0.46
294 13 0.03
295 11 0.03
296 78 0.19
297 24 0.06
298 19 0.05
299 10 0.02
ACGTcount: A:0.17, C:0.33, G:0.50, T:0.00
Consensus pattern (294 bp):
CACCAGCGGCAAACGAAGCCCGGGGGGGCGGGAGCCGCGGCCACCAGCGGCAAAGAGGCCCGGGG
CGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGGCGGGCGGGAGCCGCGGACACCA
GCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGACACGGGCGGCAACCGAGGCCCGGGGGCGG
GCGGGAGCCGCGAGCACCAGCGGCACCGGGGGGCGGGGAGGGCGAGAACCGCGCGCACCAGCGAC
AACCGAGGCCCGGGGGCGGGGCGAGAGGCGCGGG
Found at i:12066 original size:36 final size:36
Alignment explanation
Indices: 12013--12082 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
12003 AAGAGGCCCG
*
12013 GGGCGGGCGGGGGCGCGGCCACCAGCGGC-CCGGCC
1 GGGCGGGCGGGGCCGCGGCCACCAGCGGCACCGGCC
*
12048 GGGCGGGCGGGAGCCGCGGGCACCAGCGGCACCGG
1 GGGCGGGCGGG-GCCGCGGCCACCAGCGGCACCGG
12083 GGGGCGCGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 11 0.35
36 16 0.52
37 4 0.13
ACGTcount: A:0.09, C:0.37, G:0.54, T:0.00
Consensus pattern (36 bp):
GGGCGGGCGGGGCCGCGGCCACCAGCGGCACCGGCC
Found at i:12194 original size:43 final size:42
Alignment explanation
Indices: 12117--12219 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 42
12107 GCACGACCGC
*
12117 GGGGCGAGGAGGGGCGGGAGCCGCGGACACCAGCGGCAACGG
1 GGGGCGGGGAGGGGCGGGAGCCGCGGACACCAGCGGCAACGG
* *
12159 GGGGCGGGGAGGGGCGGGAGCCGCGGGCACCCAGCGGCACCGG
1 GGGGCGGGGAGGGGCGGGAGCCGCGGACA-CCAGCGGCAACGG
*
12202 GGGGCCGGGAGGGGCGGG
1 GGGGCGGGGAGGGGCGGG
12220 CGAAAGAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.14, C:0.26, G:0.60, T:0.00
Consensus pattern (42 bp):
GGGGCGGGGAGGGGCGGGAGCCGCGGACACCAGCGGCAACGG
Found at i:12211 original size:76 final size:73
Alignment explanation
Indices: 12046--12212 Score: 185
Period size: 76 Copynumber: 2.2 Consensus size: 73
12036 AGCGGCCCGG
* * * *
12046 CCGGGCGGGCGGGAGCCGCGGGCACCAGCGGCACCGGGGGGCGCGGAGGGGCGGAGGCGGGGCAC
1 CCGGGAGGGCGGGAGCCGCGGACACCAGCGGCAACGGGGGGCGCGGAGGGGCGGAGCCGGGGCAC
*
12111 GACCGCGGG
66 -ACCGCGGA
* *
12120 GCGAGGAGGGGCGGGAGCCGCGGACACCAGCGGCAACGGGGGGCGGGGAGGGGCGGGAGCCGCGG
1 CCG-GGA-GGGCGGGAGCCGCGGACACCAGCGGCAACGGGGGGCGCGGAGGGGC-GGAGCCG-GG
12185 GCAC-CCAGCGGCA
62 GCACACC-GCGG-A
12198 CCGGG-GGGCCGGGAG
1 CCGGGAGGG-CGGGAG
12213 GGGCGGGCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
74 2 0.03
75 5 0.06
76 51 0.65
77 12 0.15
78 8 0.10
ACGTcount: A:0.13, C:0.29, G:0.57, T:0.00
Consensus pattern (73 bp):
CCGGGAGGGCGGGAGCCGCGGACACCAGCGGCAACGGGGGGCGCGGAGGGGCGGAGCCGGGGCAC
ACCGCGGA
Found at i:12836 original size:6 final size:6
Alignment explanation
Indices: 12819--12851 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
12809 GCCCCGACCA
12819 GGCGGG GG-GGG GGCGGG GGCGGG GGCGGG GGCG
1 GGCGGG GGCGGG GGCGGG GGCGGG GGCGGG GGCG
12852 CGACGACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.15, G:0.85, T:0.00
Consensus pattern (6 bp):
GGCGGG
Found at i:16358 original size:23 final size:21
Alignment explanation
Indices: 16332--16376 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 21
16322 GCCGCCGCGG
16332 CGGGCGGCGGCACCGGCGGGCGC
1 CGGGCGGCGG--CCGGCGGGCGC
16355 CGGGCGGCGGCCGGCGGGCGC
1 CGGGCGGCGGCCGGCGGGCGC
16376 C
1 C
16377 CCAGGCGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.02, C:0.40, G:0.58, T:0.00
Consensus pattern (21 bp):
CGGGCGGCGGCCGGCGGGCGC
Found at i:16389 original size:21 final size:20
Alignment explanation
Indices: 16337--16393 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
16327 CGCGGCGGGC
* *
16337 GGCGGCACCGGCGGGCGCCG
1 GGCGGCGCCGGCGGGCGCCA
16357 GGCGGCGGCCGGCGGGCGCCCCA
1 GGCGGC-GCCGGCGGGCG--CCA
16380 GGCGGC-CCGGCGGG
1 GGCGGCGCCGGCGGG
16394 AAACACGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 6 0.19
21 18 0.56
23 8 0.25
ACGTcount: A:0.04, C:0.40, G:0.56, T:0.00
Consensus pattern (20 bp):
GGCGGCGCCGGCGGGCGCCA
Found at i:17748 original size:18 final size:19
Alignment explanation
Indices: 17721--17760 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17711 GGCCGGCGCA
*
17721 CGGCGCGAGCGGCGC-CCG
1 CGGCGAGAGCGGCGCGCCG
*
17739 CGGCGAGAGCGGGGCGCCG
1 CGGCGAGAGCGGCGCGCCG
17758 CGG
1 CGG
17761 GCCGGCCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.07, C:0.38, G:0.55, T:0.00
Consensus pattern (19 bp):
CGGCGAGAGCGGCGCGCCG
Found at i:20014 original size:41 final size:40
Alignment explanation
Indices: 19955--20237 Score: 283
Period size: 41 Copynumber: 6.9 Consensus size: 40
19945 AGAGCCGCCA
*
19955 GCACCGGGGGGCGCGGA-GGG-GGGAGCCGCAGCCACCAGCGG
1 GCACC-GGGGGCGGGGAGGGGCGGGAGCCGCAG-CACCAGC-G
*
19996 GAACCGGGAGGCGGGGAGGGGCGGGAGCCGCGAGCACCAGCG
1 GCACCGGG-GGCGGGGAGGGGCGGGAGCCGC-AGCACCAGCG
* * * *
20038 GCACCGGGGGCAGGGAGGGGCGGGAGCAGCGGACACCACCG
1 GCACCGGGGGCGGGGAGGGGCGGGAGCCGCAG-CACCAGCG
* * **
20079 GCAAAC-GAGGCCCGG-GGGG-GGGAGCCGCGGAG-ACCAGCG
1 GC-ACCGGGGGCGGGGAGGGGCGGGAGCCGC--AGCACCAGCG
*
20118 GCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGCG
1 GCACCG-GGGGCGGGGAGGGGCGGGAGCCGC-AGCACCAGCG
20160 GCACC-GGGGCGGGGAGGGGCGGGAGCCGCGAGCACCAGCG
1 GCACCGGGGGCGGGGAGGGGCGGGAGCCGC-AGCACCAGCG
* *
20200 GCACCGGGGGCAGGGAGGAGCGGGAGCCGGCAGCACCA
1 GCACCGGGGGCGGGGAGGGGCGGGAGCC-GCAGCACCA
20238 AAGCGAAAGG
Statistics
Matches: 206, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.01
39 16 0.08
40 53 0.26
41 81 0.39
42 36 0.17
43 16 0.08
44 2 0.01
ACGTcount: A:0.18, C:0.29, G:0.53, T:0.00
Consensus pattern (40 bp):
GCACCGGGGGCGGGGAGGGGCGGGAGCCGCAGCACCAGCG
Found at i:20145 original size:122 final size:122
Alignment explanation
Indices: 19972--20202 Score: 342
Period size: 122 Copynumber: 1.9 Consensus size: 122
19962 GGGGCGCGGA
* *
19972 GGGGGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGGAGGGGCGGGAGCCGCGAGCACCAGC
1 GGGGGGAGCCGCAGACACCAGCGGGAACCGGGAGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGC
20037 GGCACCGGGGGCAGGGAGGGGCGGGAGCAGCG-GACACCACCGGCAAACGAGGCCCGGG
66 GGCACC-GGGGCAGGGAGGGGCGGGAGCAGCGAG-CACCACCGGCAAACGAGGCCCGGG
* * *
20095 GGGGGGAGCCGCGGAGACCAGC-GGCACCGCGG-GGCGAGGAGGGGCGGGAGCCGCGAGCACCAG
1 GGGGGGAGCCGCAGACACCAGCGGGAACCG-GGAGGCGAGGAGGGGCGGGAGCCGCGAGCACCAG
* * *
20158 CGGCACCGGGGCGGGGAGGGGCGGGAGCCGCGAGCACCAGCGGCA
65 CGGCACCGGGGCAGGGAGGGGCGGGAGCAGCGAGCACCACCGGCA
20203 CCGGGGGCAG
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
121 33 0.34
122 44 0.45
123 21 0.21
ACGTcount: A:0.18, C:0.29, G:0.52, T:0.00
Consensus pattern (122 bp):
GGGGGGAGCCGCAGACACCAGCGGGAACCGGGAGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGC
GGCACCGGGGCAGGGAGGGGCGGGAGCAGCGAGCACCACCGGCAAACGAGGCCCGGG
Found at i:20235 original size:81 final size:80
Alignment explanation
Indices: 19955--20237 Score: 310
Period size: 81 Copynumber: 3.5 Consensus size: 80
19945 AGAGCCGCCA
* *
19955 GCACCGGGGGGCGCGGA-GGG-GGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGGAGGGGC
1 GCACC-GGGGGCGAGGAGGGGCGGGAGCCGCAG-CACCAGC-GGCACC-GG-GGCGGGGAGGGGC
20018 GGGAGCCGCGAGCACCAGCG
61 GGGAGCCGCGAGCACCAGCG
* * * * * **
20038 GCACCGGGGGC-AGGGAGGGGCGGGAGCAGCGGACACCACCGGCAAACGAGGCCCGG-GGGG-GG
1 GCACCGGGGGCGA-GGAGGGGCGGGAGCCGCAG-CACCAGCGGC-ACCGGGGCGGGGAGGGGCGG
20100 GAGCCGCGGAG-ACCAGCG
63 GAGCCGC-GAGCACCAGCG
20118 GCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGCGGGGAGGGGCGGG
1 GCACCG-GGGGCGAGGAGGGGCGGGAGCCGC-AGCACCAGCGGCACCGGGGCGGGGAGGGGCGGG
20183 AGCCGCGAGCACCAGCG
64 AGCCGCGAGCACCAGCG
*
20200 GCACCGGGGGC-AGGGAGGAGCGGGAGCCGGCAGCACCA
1 GCACCGGGGGCGA-GGAGGGGCGGGAGCC-GCAGCACCA
20238 AAGCGAAAGG
Statistics
Matches: 169, Mismatches: 18, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
80 31 0.18
81 70 0.41
82 40 0.24
83 11 0.07
84 17 0.10
ACGTcount: A:0.18, C:0.29, G:0.53, T:0.00
Consensus pattern (80 bp):
GCACCGGGGGCGAGGAGGGGCGGGAGCCGCAGCACCAGCGGCACCGGGGCGGGGAGGGGCGGGAG
CCGCGAGCACCAGCG
Found at i:20474 original size:24 final size:24
Alignment explanation
Indices: 20437--20514 Score: 122
Period size: 24 Copynumber: 3.3 Consensus size: 24
20427 CGCCGGGGAG
*
20437 GGCCCGG-GGGGCGCCGGCGAGCC
1 GGCCCGGCGGGGCGCCGGCGAACC
20460 GGCCCGGCGGGGCGCCGGCGAACC
1 GGCCCGGCGGGGCGCCGGCGAACC
*
20484 GGCCCGGCGGGGCGCCGGGGAACC
1 GGCCCGGCGGGGCGCCGGCGAACC
*
20508 GGGCCGG
1 GGCCCGG
20515 GAGCAGAGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 7 0.14
24 44 0.86
ACGTcount: A:0.06, C:0.38, G:0.55, T:0.00
Consensus pattern (24 bp):
GGCCCGGCGGGGCGCCGGCGAACC
Found at i:20594 original size:42 final size:43
Alignment explanation
Indices: 20520--21483 Score: 858
Period size: 42 Copynumber: 22.9 Consensus size: 43
20510 GCCGGGAGCA
*
20520 GAGGCCCGGG-GCGGGCGGGAGCCGCGGGCACCAGCGGCAACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
** * * *
20562 G-GGGGCGAGGAG-GGGCAGGAGCCCCGGACACCAGCGGCAAAC
1 GAGGCCCG-GGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * * * *
20604 GAAGCCCGGGGGAGGGCGGGAGCCGCGGGCGCCAGCGGC-ACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* ** *
20646 GCGGGGCGGCGAG-GGGCGGGAGCCGCGGGCACCAGCGGCAACC
1 GAGGCCCGG-GAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
*
20689 GAGGCCCGGG-GCGGGCGGGAGCCGCGGGCACCAGCGGC-ACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* ** **
20730 GCGGGGCGAGGAG-GGGCGGGAGCCGCGGACACGGGCGGCAACC
1 GAGGCCCG-GGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
20773 GAGGCCCGGG-GCGGGCGGGAGCCGC-GAGCACCAGCGGC-ACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGA-CACCAGCGGCAACC
* * * * * *
20814 GGGGGCGGGGAG-GGGCGAGAACCGCGCG-GACCAGCGGCAACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCG-GACACCAGCGGCAACC
* * * *
20856 GAGGCCCGGG-GCGGGCGAGAGGCGCGGGCACCAGCGGCAAAC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * **
20898 GAAGCCCGGG-GCGGGCGGGAGCCGCGGCCACCAGCGGCAAAA
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* *
20940 GAGGCCCGGGGGCGGGCGGGAGCCGCGGACACCAGCGGCAAAC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
*
20983 GAGGCCCGGG-GCGGGCGGGAGCCGCGGCCACCAGCGGC-ACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* ** **
21024 GCGGGGCGAGGAG-GGGCGGGAGCCGCGGACACGGGCGGCAACC
1 GAGGCCCG-GGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
21067 GAGGCCCGGG-GCCGGGCGGGAGCCGC-GAGCACCAGCGGC-ACC
1 GAGGCCCGGGAG-CGGGCGGGAGCCGCGGA-CACCAGCGGCAACC
* * * * * * *
21109 GGGGGCGGGGAG-GGCCGAGAACCGCGCG-CACCAGCGACAACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCG-GACACCAGCGGCAACC
* * * *
21151 GAGGCCCGGG-GCGGGCGAGAGGCGCGGGCACCAGCGGCAAAC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * * **
21193 GAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAA
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * *
21236 GAGGCCCGGGGGCGGGCGGGAGCCGCGGCCACCAG-GGC-GCC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * *
21277 GAGGGGCGGGGAG-GGGCGGGAGCCGCGGACACCAGCGGCAAAC
1 GA-GGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
*
21320 GAGGCCCGGG-GCGGGCGGGAGCCGC-GAGCACCAGCGAC-ACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGA-CACCAGCGGCAACC
* * * * * *
21361 GGGGGCGGGGAG-GGGCCGGAACCGCGGGCACCAGCGGCAACC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* * * * * * * **
21403 GAGACCCGGGGGCAGGCGAGAGGCGCGGGCACCAGCGGGAAAA
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
* *
21446 GAGGCCCGGG-GCGGGCGGGGGCCGCGGCCACCAGCGGC
1 GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGC
21484 CCGGGGCGGG
Statistics
Matches: 751, Mismatches: 130, Indels: 82
0.78 0.13 0.09
Matches are distributed among these distances:
41 132 0.18
42 404 0.54
43 215 0.29
ACGTcount: A:0.17, C:0.32, G:0.51, T:0.00
Consensus pattern (43 bp):
GAGGCCCGGGAGCGGGCGGGAGCCGCGGACACCAGCGGCAACC
Found at i:20959 original size:294 final size:296
Alignment explanation
Indices: 20590--21316 Score: 1205
Period size: 294 Copynumber: 2.5 Consensus size: 296
20580 GAGCCCCGGA
* * ** * **
20590 CACCAGCGGCAAACGAAGCCCGGGGGAGGGCGGGAGCCGCGGGCGCCAGCGGC-ACCGCGGGGCG
1 CACCAGCGGCAAACGAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAAGAGGCCCG
* * *
20654 GCGAG-GGGCGGGAGCCGCGGGCACCAGCGGCAACCGAGGCCCGGGGCGGGCGGGAGCCGCGGGC
66 G-GGGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGCGGGCGGGAGCCGCGGAC
20718 ACCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGG
130 ACCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGG
* *
20783 G-CGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGCGGGGAGGGGCGAGAACCGCGCGGACCA
195 GCCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGCGGGGAGGGCCGAGAACCGCGCGCACCA
*
20847 GCGGCAACCGAGGCCCGGGGCGGGCGAGAGGCGCGGG
260 GCGACAACCGAGGCCCGGGGCGGGCGAGAGGCGCGGG
*
20884 CACCAGCGGCAAACGAAGCCC-GGGGCGGGCGGGAGCCGCGGCCACCAGCGGCAAAAGAGGCCCG
1 CACCAGCGGCAAACGAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAAGAGGCCCG
* *
20948 GGGGCGGGCGGGAGCCGCGGACACCAGCGGCAAACGAGGCCCGGGGCGGGCGGGAGCCGCGGCCA
66 GGGGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGCGGGCGGGAGCCGCGGACA
21013 CCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGGG
131 CCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGGG
21078 CCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGCGGGGAGGGCCGAGAACCGCGCGCACCAG
196 CCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGCGGGGAGGGCCGAGAACCGCGCGCACCAG
21143 CGACAACCGAGGCCCGGGGCGGGCGAGAGGCGCGGG
261 CGACAACCGAGGCCCGGGGCGGGCGAGAGGCGCGGG
21179 CACCAGCGGCAAACGAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAAGAGGCCCG
1 CACCAGCGGCAAACGAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAAGAGGCCCG
* * ** *
21244 GGGGCGGGCGGGAGCCGCGGCCACCAG-GGC-GCCGAGGGGCGGGGAGGGGCGGGAGCCGCGGAC
66 GGGGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGG-CGGGCGGGAGCCGCGGAC
21307 ACCAGCGGCA
130 ACCAGCGGCA
21317 AACGAGGCCC
Statistics
Matches: 405, Mismatches: 23, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
293 30 0.07
294 160 0.40
295 147 0.36
296 68 0.17
ACGTcount: A:0.17, C:0.33, G:0.50, T:0.00
Consensus pattern (296 bp):
CACCAGCGGCAAACGAAGCCCGGGGGCGGGCGGGAGCCGCGGGCACCAGCGGCAAAAGAGGCCCG
GGGGCGGGCGGGAGCCGCGGACACCAGCGGCAACCGAGGCCCGGGGCGGGCGGGAGCCGCGGACA
CCAGCGGCACCGCGGGGCGAGGAGGGGCGGGAGCCGCGGACACGGGCGGCAACCGAGGCCCGGGG
CCGGGCGGGAGCCGCGAGCACCAGCGGCACCGGGGGCGGGGAGGGCCGAGAACCGCGCGCACCAG
CGACAACCGAGGCCCGGGGCGGGCGAGAGGCGCGGG
Found at i:21485 original size:33 final size:33
Alignment explanation
Indices: 21448--21523 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
21438 CGGGAAAAGA
*
21448 GGCCCGGGGCGGGCGGGGGCCGCGGCCACCAGC
1 GGCCCGGGGCGGGCGGGAGCCGCGGCCACCAGC
*
21481 GGCCCGGGGCGGGCGGGAGCCGCGGGCACCAGC
1 GGCCCGGGGCGGGCGGGAGCCGCGGCCACCAGC
21514 GGCACCGGGG
1 GGC-CCGGGG
21524 GGCGCGGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 34 0.85
34 6 0.15
ACGTcount: A:0.08, C:0.37, G:0.55, T:0.00
Consensus pattern (33 bp):
GGCCCGGGGCGGGCGGGAGCCGCGGCCACCAGC
Found at i:21539 original size:33 final size:33
Alignment explanation
Indices: 21458--21599 Score: 100
Period size: 33 Copynumber: 4.3 Consensus size: 33
21448 GGCCCGGGGC
* *
21458 GGGCG-GGGGCCGCGGCCACCAGCGGC-CCGGG
1 GGGCGCGGAGCCGCGGGCACCAGCGGCACCGGG
21489 GCGG-GCGGGAGCCGCGGGCACCAGCGGCACCGGG
1 G-GGCGC-GGAGCCGCGGGCACCAGCGGCACCGGG
** *
21523 GGGCGCGGAGGGGCGGG-AGCCGCAGGGGCGA--GGAG
1 GGGCGCGGAGCCGCGGGCA--C-CAGCGGC-ACCGG-G
* *
21558 GGGCG-GGAGCCGCGGACACCAGCGGCAACGGG
1 GGGCGCGGAGCCGCGGGCACCAGCGGCACCGGG
*
21590 GGGCGGGGAG
1 GGGCGCGGAG
21600 GGGCGGGAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
31 3 0.03
32 15 0.17
33 37 0.42
34 19 0.22
35 13 0.15
36 1 0.01
ACGTcount: A:0.13, C:0.30, G:0.58, T:0.00
Consensus pattern (33 bp):
GGGCGCGGAGCCGCGGGCACCAGCGGCACCGGG
Found at i:21550 original size:25 final size:25
Alignment explanation
Indices: 21522--21570 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
21512 GCGGCACCGG
*
21522 GGGGCGCGGAGGGGCGGGAGCCGCA
1 GGGGCGAGGAGGGGCGGGAGCCGCA
21547 GGGGCGAGGAGGGGCGGGAGCCGC
1 GGGGCGAGGAGGGGCGGGAGCCGC
21571 GGACACCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.22, G:0.65, T:0.00
Consensus pattern (25 bp):
GGGGCGAGGAGGGGCGGGAGCCGCA
Found at i:21593 original size:42 final size:43
Alignment explanation
Indices: 21547--21649 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
21537 GGGAGCCGCA
*
21547 GGGGCGAGGAGGGGCGGGAGCCGCGGACA-CCAGCGGCAACGG
1 GGGGCGGGGAGGGGCGGGAGCCGCGGACACCCAGCGGCAACGG
* *
21589 GGGGCGGGGAGGGGCGGGAGCCGCGGGCACCCAGCGGCACCGG
1 GGGGCGGGGAGGGGCGGGAGCCGCGGACACCCAGCGGCAACGG
*
21632 GGGCCGGGGAGGGGCGGG
1 GGGGCGGGGAGGGGCGGG
21650 CGAAAGAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.14, C:0.26, G:0.60, T:0.00
Consensus pattern (43 bp):
GGGGCGGGGAGGGGCGGGAGCCGCGGACACCCAGCGGCAACGG
Found at i:25793 original size:23 final size:21
Alignment explanation
Indices: 25767--25811 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 21
25757 GCCGCCGCGG
25767 CGGGCGGCGGCACCGGCGGGCGC
1 CGGGCGGCGG--CCGGCGGGCGC
25790 CGGGCGGCGGCCGGCGGGCGC
1 CGGGCGGCGGCCGGCGGGCGC
25811 C
1 C
25812 CCAGGCGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.02, C:0.40, G:0.58, T:0.00
Consensus pattern (21 bp):
CGGGCGGCGGCCGGCGGGCGC
Found at i:25824 original size:21 final size:20
Alignment explanation
Indices: 25772--25828 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
25762 CGCGGCGGGC
* *
25772 GGCGGCACCGGCGGGCGCCG
1 GGCGGCGCCGGCGGGCGCCA
25792 GGCGGCGGCCGGCGGGCGCCCCA
1 GGCGGC-GCCGGCGGGCG--CCA
25815 GGCGGC-CCGGCGGG
1 GGCGGCGCCGGCGGG
25829 AAACACGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 6 0.19
21 18 0.56
23 8 0.25
ACGTcount: A:0.04, C:0.40, G:0.56, T:0.00
Consensus pattern (20 bp):
GGCGGCGCCGGCGGGCGCCA
Found at i:27168 original size:18 final size:19
Alignment explanation
Indices: 27141--27180 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
27131 GGCCGGCGCA
*
27141 CGGCGCGAGCGGCGC-CCG
1 CGGCGAGAGCGGCGCGCCG
*
27159 CGGCGAGAGCGGGGCGCCG
1 CGGCGAGAGCGGCGCGCCG
27178 CGG
1 CGG
27181 GCCGGCCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.07, C:0.38, G:0.55, T:0.00
Consensus pattern (19 bp):
CGGCGAGAGCGGCGCGCCG
Found at i:29435 original size:42 final size:41
Alignment explanation
Indices: 29388--29650 Score: 174
Period size: 41 Copynumber: 6.4 Consensus size: 41
29378 GGCGCGGAGG
29388 GGGAGCCGC-AGCCACCAGCGGGAACCGGGAGGC-GGGACGGAC
1 GGGAGCCGCGAG-CACCAGC-GGAACCGGGAGGCAGGGA-GGAC
* * *
29430 GGGAGCCGCGAGCACCAGCGGCACCGGGGGGCAGGGAGGGC
1 GGGAGCCGCGAGCACCAGCGGAACCGGGAGGCAGGGAGGAC
* * * * **
29471 GGGAGCAGCG-GACACCACCGGCAAAC--GAGGCCCGGG-GGGG
1 GGGAGCCGCGAG-CACCAGCGG-AACCGGGAGG-CAGGGAGGAC
* *
29511 GGGAGCCGCGGAG-ACCAGCGGCACCGCGG-GGC-GAGGAGGGGC
1 GGGAGCCGC-GAGCACCAGCGGAACCG-GGAGGCAG-GGA-GGAC
* * *
29553 GGGAG-CGCGAGCACCAGCGGCACCGGG-GAC-GGGAGGGGC
1 GGGAGCCGCGAGCACCAGCGGAACCGGGAGGCAGGGA-GGAC
* *
29592 GGGAGCCGCGAGCACCAGCGGCACCGGGGGGCAGGGAGGAGC
1 GGGAGCCGCGAGCACCAGCGGAACCGGGAGGCAGGGAGGA-C
29634 GGGAGCCG-GCAGCACCA
1 GGGAGCCGCG-AGCACCA
29651 AAGCGAAAGG
Statistics
Matches: 184, Mismatches: 18, Indels: 38
0.77 0.08 0.16
Matches are distributed among these distances:
39 16 0.09
40 55 0.30
41 59 0.32
42 52 0.28
43 2 0.01
ACGTcount: A:0.19, C:0.30, G:0.51, T:0.00
Consensus pattern (41 bp):
GGGAGCCGCGAGCACCAGCGGAACCGGGAGGCAGGGAGGAC
Found at i:29459 original size:81 final size:80
Alignment explanation
Indices: 29369--29650 Score: 276
Period size: 81 Copynumber: 3.5 Consensus size: 80
29359 AGAGCCGCCA
*
29369 GCACCGGGGGGCGCGGA-GG-GGGAGCCGCAGCCACCAGCGGGAACCGGGAGGCGGGACGGACGG
1 GCACCGGGGGGCG-GGAGGGCGGGAGCCGCAG-CACCAGCGGGAACCGGGAGGCGGGA-GGGCGG
29432 GAGCCGCGAGCACCAGCG
63 GAGCCGCGAGCACCAGCG
* * * * * *
29450 GCACCGGGGGGCAGGGAGGGCGGGAGCAGCGGACACCACCGGCAAAC--GAGGCCCGGG-GGGGG
1 GCACCGGGGGGC-GGGAGGGCGGGAGCCGCAG-CACCAGCGGGAACCGGGAGG--CGGGAGGGCG
29512 GGAGCCGCGGAG-ACCAGCG
62 GGAGCCGC-GAGCACCAGCG
* * *
29531 GCACCGCGGGGCGAGGAGGGGCGGGAG-CGCGAGCACCAGC-GGCACCGGG-GACGGGAGGGGCG
1 GCACCGGGGGGCG-GGA-GGGCGGGAGCCGC-AGCACCAGCGGGAACCGGGAGGCGGGA-GGGCG
29593 GGAGCCGCGAGCACCAGCG
62 GGAGCCGCGAGCACCAGCG
29612 GCACCGGGGGGCAGGGAGGAGCGGGAGCCGGCAGCACCA
1 GCACCGGGGGGC-GGGAGG-GCGGGAGCC-GCAGCACCA
29651 AAGCGAAAGG
Statistics
Matches: 165, Mismatches: 18, Indels: 35
0.76 0.08 0.16
Matches are distributed among these distances:
79 4 0.02
80 9 0.05
81 100 0.61
82 26 0.16
83 26 0.16
ACGTcount: A:0.19, C:0.29, G:0.52, T:0.00
Consensus pattern (80 bp):
GCACCGGGGGGCGGGAGGGCGGGAGCCGCAGCACCAGCGGGAACCGGGAGGCGGGAGGGCGGGAG
CCGCGAGCACCAGCG
Found at i:29865 original size:21 final size:23
Alignment explanation
Indices: 29850--29913 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
29840 GCCGGGGAGG
29850 GGCCCGG-GGGCGCCGGCGAGCC
1 GGCCCGGCGGGCGCCGGCGAGCC
*
29872 GGCCCGGCGGGCGCCGGCGCAACC
1 GGCCCGGCGGGCGCCGGCG-AGCC
29896 GGCCCGGCGGGGCGCCGG
1 GGCCCGGC-GGGCGCCGG
29914 GGAACCGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 7 0.18
23 11 0.29
24 11 0.29
25 9 0.24
ACGTcount: A:0.05, C:0.42, G:0.53, T:0.00
Consensus pattern (23 bp):
GGCCCGGCGGGCGCCGGCGAGCC
Found at i:29902 original size:24 final size:23
Alignment explanation
Indices: 29850--29926 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
29840 GCCGGGGAGG
*
29850 GGCCCGG-GGGCGCCGGCGAGCC
1 GGCCCGGCGGGCGCCGGCGAACC
29872 GGCCCGGCGGGCGCCGGCGCAACC
1 GGCCCGGCGGGCGCCGGCG-AACC
*
29896 GGCCCGGCGGGGCGCCGGGGAACC
1 GGCCCGGC-GGGCGCCGGCGAACC
*
29920 GGGCCGG
1 GGCCCGG
29927 GAGCAGAGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 7 0.14
23 11 0.22
24 21 0.43
25 10 0.20
ACGTcount: A:0.06, C:0.40, G:0.53, T:0.00
Consensus pattern (23 bp):
GGCCCGGCGGGCGCCGGCGAACC
Done.