Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold185
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: 1073966
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 182459 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:1747 original size:10 final size:10
Alignment explanation
Indices: 1728--1779 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
1718 CGTTACACCC
1728 AAAAAA-AAA
1 AAAAAACAAA
*
1737 ATAAAACAAA
1 AAAAAACAAA
1747 AAAAAACAAA
1 AAAAAACAAA
*
1757 AAAAAAGAAA
1 AAAAAACAAA
* *
1767 AAATAGCAAA
1 AAAAAACAAA
1777 AAA
1 AAA
1780 TAGAAGGGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
9 5 0.14
10 31 0.86
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.04
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:1749 original size:15 final size:14
Alignment explanation
Indices: 1728--1767 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1718 CGTTACACCC
*
1728 AAAAAAAAAATAAA
1 AAAAAAAAAACAAA
1742 ACAAAAAAAAACAAA
1 A-AAAAAAAAACAAA
1757 AAAAAAGAAAA
1 AAAAAA-AAAA
1768 AATAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.90, C:0.05, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:3095 original size:28 final size:28
Alignment explanation
Indices: 2994--3796 Score: 906
Period size: 28 Copynumber: 28.4 Consensus size: 28
2984 GAATGTTCAT
*
2994 CCCTTTTAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3022 CTCCTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3051 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
3080 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3108 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3136 CTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3165 CTCCTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3194 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3223 CCCTTTCAAAGCCCACAACTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3251 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3279 CTCCTTTCAAAGCCCACAAGCCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3308 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3337 CTCTTTTCAAAGCCCACAAGTCAGCGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3366 CTCTTTTCAAAGCCCACAAATTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3395 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3423 CCCTTTCAGAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3451 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3479 CCATTGCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3507 CCATTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3535 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3563 CCCTTTTAAAGCCCACACAAGTCAGTAG--
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * *** *
3591 CCC--ACACAAG---TC-AGT--GGCACT
1 CCCTTTCA-AAGCCCACAAGTCAGTGGCA
* * ** * * *
3612 CCTTTTAAAGCTCACGCAAGTCAGTGGTA
1 CCCTTTCAA-AGCCCACAAGTCAGTGGCA
*
3641 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3669 CTCTTTCAAAGCCCACAAGTTAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3697 TCCTTTCAAAGCCCACGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
3725 TTCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
3755 CCCTTTTAAAGCCCATGCAAGTCAATGGCAA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGC-A
3786 CCCTTTTCAAA
1 CCC-TTTCAAA
3797 TCACCACTAT
Statistics
Matches: 675, Mismatches: 79, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.00
21 5 0.01
22 2 0.00
23 1 0.00
26 2 0.00
27 6 0.01
28 349 0.52
29 252 0.37
30 47 0.07
31 4 0.01
32 6 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3182 original size:143 final size:143
Alignment explanation
Indices: 2995--3796 Score: 1041
Period size: 143 Copynumber: 5.7 Consensus size: 143
2985 AATGTTCATC
*
2995 CCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
3060 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
3125 AGTCAGTGGCACT
131 AGTCAGTGGCACT
3138 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* *
3203 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
3268 AGTCAGTGGCACT
131 AGTCAGTGGCACT
* *
3281 CCTTTCAAAGCCCACAAGCCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* * * *
3346 AAGCCCACAAGTCAGCGGCACTCTTTTCAAAGCCCACAAATTAGTGGCACCCTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
3411 AAGTTAGTGGCAC-
130 AAGTCAGTGGCACT
* * * * *
3424 CCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CATTGCG
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* * * * *
3487 AAGCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
3552 AGTCAGTGGCAC-
131 AGTCAGTGGCACT
* * *
3564 CCTTTTAAAGCCCACACAAGTCAGT---A-GCC---C--A---CACAAGTCAGTGGCACTCCTTT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACT-CTTT
* * * *
3617 T-AAAGCTCACGCAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGC
63 TCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
3681 CCACAAGTTAGTAGCA-T
126 CCACAAGTCAGTGGCACT
* * * * *
3698 CCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAATCAGTGGCACTCTTTT
*
3762 -AAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
64 CAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
3797 TCACCACTAT
Statistics
Matches: 584, Mismatches: 49, Indels: 49
0.86 0.07 0.07
Matches are distributed among these distances:
131 16 0.03
132 13 0.02
133 6 0.01
134 73 0.12
135 2 0.00
136 1 0.00
138 1 0.00
139 3 0.01
140 58 0.10
141 26 0.04
142 38 0.07
143 251 0.43
144 72 0.12
145 17 0.03
146 7 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (143 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
AGTCAGTGGCACT
Found at i:3594 original size:17 final size:17
Alignment explanation
Indices: 3572--3605 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3562 ACCCTTTTAA
3572 AGCCCACACAAGTCAGT
1 AGCCCACACAAGTCAGT
3589 AGCCCACACAAGTCAGT
1 AGCCCACACAAGTCAGT
3606 GGCACTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.12
Consensus pattern (17 bp):
AGCCCACACAAGTCAGT
Found at i:3653 original size:78 final size:73
Alignment explanation
Indices: 3520--3664 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 73
3510 TTGCGAAGCC
*
3520 CACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGT
1 CACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CACAAGT
3585 CAGTAGCCCA
64 CAGTAGCCCA
* * *
3595 CACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTA-CCTTTTCAAAGCCCACAA
1 CACAAGTCAGTGGCACT-CTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTT-AAAGCCCACAA
3659 GTCAGT
62 GTCAGT
3665 GGCACTCTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
75 16 0.26
76 20 0.32
77 9 0.15
78 17 0.27
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (73 bp):
CACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCA
GTAGCCCA
Found at i:3683 original size:162 final size:159
Alignment explanation
Indices: 3436--3750 Score: 420
Period size: 162 Copynumber: 2.0 Consensus size: 159
3426 TTTCAGAGCC
*
3436 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAAGTCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTGCAAAGCCCACAAGTCA
* *
3501 GTGGCACCATTGCGAAGCCCACAA-TTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCAC
66 GTGGCACCATTGCAAAGCCCACAAGTT-AGTAGCATC-CTTTCAAAGCCCACAAGTCAGTGGCAC
*
3564 CCTTTTAAAGCCCACACAAGTCAGTAGCCCA
129 CCTTTCAAAGCCCACACAAGTCAGTAGCCCA
* * * * *
3595 CACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAAGCCCACAAG
1 CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACCATTGCAAAGCCCACAAG
* * *
3660 TCAGTGGCACTC-TTTCAAAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACGAGTTAGTGGC
63 TCAGTGGCAC-CATTGCAAAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGC
** *
3724 ATTCTTTCAAAGCCCACGCAAGTCAGT
127 ACCCTTTCAAAGCCCACACAAGTCAGT
3751 GGCACCCTTT
Statistics
Matches: 135, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
159 16 0.12
160 10 0.07
161 1 0.01
162 104 0.77
163 4 0.03
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (159 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTGCAAAGCCCACAAGTCA
GTGGCACCATTGCAAAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
TTTCAAAGCCCACACAAGTCAGTAGCCCA
Found at i:4336 original size:20 final size:20
Alignment explanation
Indices: 4311--4362 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4301 TACCTTGATG
*
4311 TATCGATACATTTTTCAATA
1 TATCGATACATTTATCAATA
* * *
4331 TATCGATACATGTATGAATG
1 TATCGATACATTTATCAATA
4351 TATCGATACATT
1 TATCGATACATT
4363 ATGTCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTATCAATA
Found at i:5310 original size:22 final size:22
Alignment explanation
Indices: 5276--5329 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
5266 AGCCTTTGAC
5276 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
5297 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
5319 CATGCATTTTT
1 CATGCATTTTT
5330 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:12442 original size:17 final size:17
Alignment explanation
Indices: 12420--12455 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12410 TGATATTTTG
12420 ATTAATTCTATTATTGC
1 ATTAATTCTATTATTGC
12437 ATTAATTCTATTATTGC
1 ATTAATTCTATTATTGC
12454 AT
1 AT
12456 GTGGACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAATTCTATTATTGC
Found at i:13443 original size:21 final size:19
Alignment explanation
Indices: 13407--13504 Score: 71
Period size: 17 Copynumber: 5.2 Consensus size: 19
13397 AAATTACCCT
* *
13407 AAAAGAACAATAAAGAGAA
1 AAAAGAAAAAAAAAGAGAA
13426 AATGAAGGAAAACAAAGAA-AGAA
1 AA--AA-GAAAA-AAA-AAGAGAA
13449 AAAAGAAAAAAAAAGAG--
1 AAAAGAAAAAAAAAGAGAA
*
13466 AAAACAAAAAAAAAGAG--
1 AAAAGAAAAAAAAAGAGAA
* *
13483 AAAAGAAATAAAATGAGAA
1 AAAAGAAAAAAAAAGAGAA
13502 AAA
1 AAA
13505 TAATAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
17 30 0.46
18 2 0.03
19 10 0.15
20 5 0.08
21 4 0.06
22 4 0.06
23 8 0.12
24 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGAGAA
Found at i:13469 original size:17 final size:17
Alignment explanation
Indices: 13443--13503 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
13433 GAAAACAAAG
*
13443 AAAGAAAAAAGAAAAAA
1 AAAGAGAAAAGAAAAAA
*
13460 AAAGAGAAAACAAAAAA
1 AAAGAGAAAAGAAAAAA
*
13477 AAAGAGAAAAGAAATAA
1 AAAGAGAAAAGAAAAAA
*
13494 AATGAGAAAA
1 AAAGAGAAAA
13504 ATAATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAGAAAAGAAAAAA
Found at i:13509 original size:17 final size:17
Alignment explanation
Indices: 13443--13513 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
13433 GAAAACAAAG
* *
13443 AAAGAAAAAAGAAAAAA
1 AAAGAGAAAAGAAATAA
* *
13460 AAAGAGAAAACAAAAAA
1 AAAGAGAAAAGAAATAA
13477 AAAGAGAAAAGAAATAA
1 AAAGAGAAAAGAAATAA
*
13494 AATGAGAAAA-ATAATAA
1 AAAGAGAAAAGA-AATAA
13511 AAA
1 AAA
13514 TGCTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 1 0.02
17 46 0.98
ACGTcount: A:0.80, C:0.01, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAGAGAAAAGAAATAA
Found at i:13678 original size:24 final size:25
Alignment explanation
Indices: 13651--13699 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13641 TAAAAAAATT
13651 AGAT-TATTTAAATTTTATATTAAA
1 AGATATATTTAAATTTTATATTAAA
* * *
13675 AGATATTTTTATATTTTATTTTAAA
1 AGATATATTTAAATTTTATATTAAA
13700 TGCTTGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
AGATATATTTAAATTTTATATTAAA
Found at i:14005 original size:13 final size:14
Alignment explanation
Indices: 13986--14024 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
13976 GATTAGATAA
13986 ATATAATTTTTATT
1 ATATAATTTTTATT
14000 -TATAATTATTTTATT
1 ATATAA-T-TTTTATT
14015 ATATAATTTT
1 ATATAATTTT
14025 ACTAAGTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.23
14 4 0.18
15 8 0.36
16 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATAATTTTTATT
Found at i:14470 original size:2 final size:2
Alignment explanation
Indices: 14463--14494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14453 TTTAGACAAC
14463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14495 GAAAAAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14620 original size:17 final size:19
Alignment explanation
Indices: 14579--14648 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 19
14569 TTACAATATG
*
14579 TTTAATATATATTATATTTATA
1 TTTAATA-AT-TTATA-TAATA
14601 TTTAA-AATTT-TATAATA
1 TTTAATAATTTATATAATA
*
14618 TTTAATAGTTTATATAATA
1 TTTAATAATTTATATAATA
14637 TTT-AT-ATTTATA
1 TTTAATAATTTATA
14649 AAATTAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
17 15 0.35
18 8 0.19
19 12 0.28
20 2 0.05
21 1 0.02
22 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTAATAATTTATATAATA
Found at i:14635 original size:19 final size:18
Alignment explanation
Indices: 14598--14648 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
14588 TATTATATTT
*
14598 ATATTTAAAATTT-TATA
1 ATATTTAATATTTATATA
14615 ATATTTAATAGTTTATATA
1 ATATTTAATA-TTTATATA
14634 ATATTT-ATATTTATA
1 ATATTTAATATTTATA
14649 AAATTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 15 0.48
18 6 0.19
19 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTTAATATTTATATA
Found at i:18402 original size:21 final size:21
Alignment explanation
Indices: 18378--18417 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18368 ATCCAAACTT
* *
18378 ATTTGGAAGCTATCTTTTTCA
1 ATTTGGAAGATACCTTTTTCA
*
18399 ATTTGTAAGATACCTTTTT
1 ATTTGGAAGATACCTTTTT
18418 AGTAGTTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (21 bp):
ATTTGGAAGATACCTTTTTCA
Found at i:19752 original size:22 final size:21
Alignment explanation
Indices: 19710--19753 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
19700 ATTTAAAAAG
* * *
19710 TAAAATAATTTTTTAAATATA
1 TAAAAAAAATTTTAAAATATA
19731 TAAAAAAAATTTTAAAATTATA
1 TAAAAAAAATTTTAAAA-TATA
19753 T
1 T
19754 CGGACATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAAAAATTTTAAAATATA
Found at i:20444 original size:2 final size:2
Alignment explanation
Indices: 20437--20465 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20427 TGCAAAATCC
20437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20466 TTTGGGACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25420 original size:10 final size:10
Alignment explanation
Indices: 25405--25453 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
25395 GAAAGTTAAT
*
25405 ATCTAATCAC
1 ATCTAATCAA
25415 ATCTAATCAA
1 ATCTAATCAA
25425 ATCT--TC--
1 ATCTAATCAA
25431 AT-TAATCAA
1 ATCTAATCAA
25440 ATCTAATCAA
1 ATCTAATCAA
25450 ATCT
1 ATCT
25454 TCTACAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 1 0.03
6 2 0.06
7 2 0.06
8 2 0.06
9 2 0.06
10 24 0.73
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (10 bp):
ATCTAATCAA
Found at i:25443 original size:25 final size:25
Alignment explanation
Indices: 25408--25455 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
25398 AGTTAATATC
*
25408 TAATCACATCTAATCAAATCTTCAT
1 TAATCAAATCTAATCAAATCTTCAT
25433 TAATCAAATCTAATCAAATCTTC
1 TAATCAAATCTAATCAAATCTTC
25456 TACAATCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (25 bp):
TAATCAAATCTAATCAAATCTTCAT
Found at i:25462 original size:25 final size:25
Alignment explanation
Indices: 25409--25464 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
25399 GTTAATATCT
* *
25409 AATCACATCTAATCAAATCTTCATT
1 AATCAAATCTAATCAAATCTTCATC
25434 AATCAAATCTAATCAAATCTTC-TAC
1 AATCAAATCTAATCAAATCTTCAT-C
25459 AATCAA
1 AATCAA
25465 GCCTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (25 bp):
AATCAAATCTAATCAAATCTTCATC
Found at i:25479 original size:35 final size:36
Alignment explanation
Indices: 25439--25530 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 36
25429 TCATTAATCA
*
25439 AATCTAATCAAATCTTCTACAATCAAGCCTATATAT
1 AATCTAATCAAATCTCCTACAATCAAGCCTATATAT
* *
25475 -ATCTAATCAAATCTCCTATAATCAAGTCTATATAT
1 AATCTAATCAAATCTCCTACAATCAAGCCTATATAT
25510 AAAATCTAATCAAATCTCCTA
1 --AATCTAATCAAATCTCCTA
25531 TTTTCTAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
35 32 0.64
38 18 0.36
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (36 bp):
AATCTAATCAAATCTCCTACAATCAAGCCTATATAT
Found at i:29967 original size:45 final size:46
Alignment explanation
Indices: 29917--30008 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
29907 ATAATTAATC
* *
29917 TAATCAAATCTCTTACAATCAAGCCTACATAT-ATCTAATCAAATA
1 TAATCAAATATCCTACAATCAAGCCTACATATAATCTAATCAAATA
* * *
29962 TAATCAAATATCCTATAATCAAGTCTATATATAAAATCTAATCAAAT
1 TAATCAAATATCCTACAATCAAGCCTACATAT--AATCTAATCAAAT
30009 TACCTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 27 0.69
48 12 0.31
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (46 bp):
TAATCAAATATCCTACAATCAAGCCTACATATAATCTAATCAAATA
Found at i:31034 original size:20 final size:20
Alignment explanation
Indices: 31009--31046 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30999 CTGCCAAGGA
31009 AATGTATCGATACATTATTT
1 AATGTATCGATACATTATTT
31029 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
31047 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTT
Found at i:31051 original size:13 final size:13
Alignment explanation
Indices: 31033--31057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31023 TTATTTAATG
31033 TATCGATACATTA
1 TATCGATACATTA
31046 TATCGATACATT
1 TATCGATACATT
31058 GATCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:31055 original size:33 final size:33
Alignment explanation
Indices: 31013--31077 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
31003 CAAGGAAATG
31013 TATCGATACATT-AT-TTAATGTATCGATACATTA
1 TATCGATACATTGATCTT--TGTATCGATACATTA
31046 TATCGATACATTGATCTTTGTATCGATACATT
1 TATCGATACATTGATCTTTGTATCGATACATT
31078 TGGGAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.87
34 2 0.07
35 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (33 bp):
TATCGATACATTGATCTTTGTATCGATACATTA
Found at i:39471 original size:29 final size:30
Alignment explanation
Indices: 39385--39473 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
39375 TCTTCAAATC
*
39385 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
39415 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
* * *
39445 TTTCTTCCCAAA-TCCATGACTCTGTGGCA
1 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
39474 CCCTTTTAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 16 0.29
30 39 0.71
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCATGACTCAGTGGCA
Found at i:39540 original size:34 final size:32
Alignment explanation
Indices: 39475--39890 Score: 354
Period size: 27 Copynumber: 13.6 Consensus size: 32
39465 TCTGTGGCAC
*
39475 CCTTTTAAGTCCACAACTCTGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
*
39502 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA--CTTTTT
*
39536 CCTTTTAAGTCTACAACTCCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* *
39563 CCTTTTAAGCCCACAACTCCGTGGCGCTCTTTTT
1 CCTTTTAAGTCCACAACTCCGT-G-GCACTTTTT
* * *
39597 CCTTTTAAGCCCACAATTCCGTAGCACTTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC--TTTTT
*
39631 CCTTTTAAGTGCACAACTCCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
*
39658 CCTTTTAAGCCCACAACTCCGTGGCACTTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC--TTTTT
*
39692 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA--CTTTTT
39726 CCTTTTAAGTCCACAACTCCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* *
39753 CCTTTTAAGTCCACAACTCTGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
*
39786 CCTTTTAAGTCCAC-ACTTCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
39812 CCTTTTAAGTCCACAACTCCGTGGCAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
* *
39839 CCTTTTAAGTCCACAACTCTGTGGCATCTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT
*
39872 CCTTTTAAGCCCACAACTC
1 CCTTTTAAGTCCACAACTC
39891 AGTGACTCCC
Statistics
Matches: 328, Mismatches: 23, Indels: 70
0.78 0.05 0.17
Matches are distributed among these distances:
26 14 0.04
27 130 0.40
28 3 0.01
29 4 0.01
31 1 0.00
32 14 0.04
33 32 0.10
34 129 0.39
36 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (32 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTTTTT
Found at i:39552 original size:61 final size:61
Alignment explanation
Indices: 39475--39844 Score: 416
Period size: 61 Copynumber: 6.0 Consensus size: 61
39465 TCTGTGGCAC
*
39475 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
39536 CCTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCGCTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * **
39597 CCTTTTAAGCCCACAATTCCGTAGCACTTTTTTTCCTTTTAAGTGCACAACTCCGTGGCA--C--
1 CCTTTTAAGTCCACAACTCCGTGGCAC-------CCTTTTAAGCCCACAACTCCGTGGCACTCTT
39658 ---
59 TTT
*
39658 CCTTTTAAGCCCACAACTCCGTGGCACTTTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-------CCTTTTAAGCCCACAACTCCGTGGCACTCTT
39723 TTT
59 TTT
* * *
39726 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCAC-CTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
39786 CCTTTTAAGTCCAC-ACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
39845 AAGTCCACAA
Statistics
Matches: 273, Mismatches: 21, Indels: 31
0.84 0.06 0.10
Matches are distributed among these distances:
59 37 0.14
60 23 0.08
61 162 0.59
63 1 0.00
66 1 0.00
68 49 0.18
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (61 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:39634 original size:95 final size:95
Alignment explanation
Indices: 39502--39890 Score: 573
Period size: 95 Copynumber: 4.2 Consensus size: 95
39492 TCTGTGGCAC
*
39502 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
*
39567 TTAAGCCCACAACTCCGTGGCGCTCTTTTT
66 TTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
39597 CCTTTTAAGCCCACAATTCCGTAGCACTTTTTTTCCTTTTAAGTGCACAACTCCGTGGCACCCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
*
39662 TTAAGCCCACAACTCCGTGGCACTTTTTTT
66 TTAAGCCCACAACTCCGTGGCACTCTTTTT
39692 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
* * *
39757 TTAAGTCCACAACTCTGTGGCAC-CTTGTT
66 TTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
39786 CCTTTTAAGTCCAC-ACTTCGTGGCA--C-----CCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
* * *
39843 TTAAGTCCACAACTCTGTGGCA-TCTTTCT
66 TTAAGCCCACAACTCCGTGGCACTCTTTTT
39872 CCTTTTAAGCCCACAACTC
1 CCTTTTAAGCCCACAACTC
39891 AGTGACTCCC
Statistics
Matches: 271, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
86 70 0.26
87 3 0.01
91 1 0.00
93 10 0.04
94 17 0.06
95 170 0.63
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (95 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
TTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:39822 original size:59 final size:60
Alignment explanation
Indices: 39692--39839 Score: 244
Period size: 59 Copynumber: 2.5 Consensus size: 60
39682 CACTTTTTTT
* *
39692 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
* *
39753 CCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCAC-ACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
39812 CCTTTTAAGTCCACAACTCCGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCACC
39840 CTTTTAAGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 38 0.46
60 19 0.23
61 25 0.30
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:39875 original size:86 final size:86
Alignment explanation
Indices: 39726--39886 Score: 288
Period size: 86 Copynumber: 1.9 Consensus size: 86
39716 CACTCTTTTT
39726 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTT
*
39791 TAAGTCCACACTTCGTGGCAC
66 TAAGCCCACACTTCGTGGCAC
*
39812 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCTT-TCTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGT-TCCTT
39876 TTAAGCCCACA
65 TTAAGCCCACA
39887 ACTCAGTGAC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
85 1 0.01
86 71 0.99
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (86 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTT
TAAGCCCACACTTCGTGGCAC
Found at i:39965 original size:28 final size:29
Alignment explanation
Indices: 39898--39984 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 29
39888 CTCAGTGACT
* *
39898 CCCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCCTTTT-AAAAGCACACAAGT-TGTGGCAA
*
39929 -CC-TTCAAAAGCACACAAGTTGT-GCAA
1 CCCTTTTAAAAGCACACAAGTTGTGGCAA
39955 CCCTTTTAAAAGCCCACACAAGTTGGTGGC
1 CCCTTTTAAAAG--CACACAAGTT-GTGGC
39985 GTCTTCTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
26 4 0.09
27 4 0.09
28 20 0.43
29 2 0.04
30 12 0.26
31 2 0.04
32 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (29 bp):
CCCTTTTAAAAGCACACAAGTTGTGGCAA
Found at i:40082 original size:49 final size:48
Alignment explanation
Indices: 39989--40575 Score: 575
Period size: 49 Copynumber: 11.8 Consensus size: 48
39979 GGTGGCGTCT
* * *
39989 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTT-TAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
40039 TCTTTAAGACCGATGTCGTAGGCCTTCAATTAGTACATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGT-GGCCTTGAATCAGCACATTGGCACCTTCA
** *
40088 TCTTTAAGACTGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
40137 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* *
40186 TCTTTAAGACCAATGTTGTTGGCCTTGAATCAGCACATTGGCACGTTAACCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTT---CA
*
40238 TCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
40287 TCTTTATGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* *
40336 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCACATTAACCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTT---CA
* *
40388 TCTTTAATACCAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
40437 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * ** * *
40486 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCATATTGGCA--TTCT
1 TC-TT--TAAGACCAATGTCG-TGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * *
40536 TCTTCAAGTCTAATGTCGCTCGCCATAAATCAGCACATTG
1 TCTTTAAGACCAATGTCG-TGGCCTTGAATCAGCACATTG
40576 TCATTCTTCG
Statistics
Matches: 453, Mismatches: 73, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
47 27 0.06
48 1 0.00
49 290 0.64
50 10 0.02
52 125 0.28
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (48 bp):
TCTTTAAGACCAATGTCGTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:40286 original size:101 final size:98
Alignment explanation
Indices: 39989--40575 Score: 631
Period size: 101 Copynumber: 5.9 Consensus size: 98
39979 GGTGGCGTCT
* * * *
39989 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATG
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
* * *
40054 TCG-TAGGCCTTCAATTAGTACATTGGCACCTTCA
65 TCGCT-GGCCTTGAATCAGCACATTGGCACCTTCA
** * * * *
40088 TCTTTAAGACTGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
* *
40153 CGCTGGCCTTGAATCAGCATATTGGCAACTTCA
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
40186 TCTTTAAGACCAATGTTGTTGGCCTTGAATCAGCACATTGGCACGTTAACCATCTTTAAGACCAA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGACCAA
*
40251 TGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
63 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
40287 TCTTTATGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGACCAATGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
* * *
40352 CGTTGGCCTTGAATCAACACATTGGCACATTAACCA
66 CGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* * * *
40388 TCTTTAATACCAATGTCGCTGGCATTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
* * * *
40453 CGTTGGCCTTGAATCAGCATATTGGCATCTTTA
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * ** * * * * *
40486 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCATATTGGCA--TTCTTCTTCAAGTCTAA
1 TC-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAA
* * *
40549 TGTCGCTCGCCATAAATCAGCACATTG
63 TGTCGCTGGCCTTGAATCAGCACATTG
40576 TCATTCTTCG
Statistics
Matches: 411, Mismatches: 67, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
98 167 0.41
99 42 0.10
101 202 0.49
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (98 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:40317 original size:150 final size:150
Alignment explanation
Indices: 39989--40531 Score: 777
Period size: 150 Copynumber: 3.6 Consensus size: 150
39979 GGTGGCGTCT
*
39989 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATG
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* * * * * ** *
40054 TCGTAGGCCTTCAATTAGTACATTGGCACCTT---CATCTTTAAGACTGATGTCGTTGGCCTTGA
65 TCGTTGGCCTTGAATCAGCACATTGGCACATTAACCATCTTTAAGACCAATGTCGCTGGCCTTGA
*
40116 ATCAGCACATTGGCACCTTAA
130 ATCAGCACATTGGCACCTTCA
*
40137 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTTAAGACCAATGT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
* * *
40202 TGTTGGCCTTGAATCAGCACATTGGCACGTTAACCATCTTTAAGACCAATGTTGCTGGCCTTGAA
66 CGTTGGCCTTGAATCAGCACATTGGCACATTAACCATCTTTAAGACCAATGTCGCTGGCCTTGAA
40267 TCAGCACATTGGCACCTTCA
131 TCAGCACATTGGCACCTTCA
* *
40287 TCTTTATGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGACCAATGT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
* * *
40352 CGTTGGCCTTGAATCAACACATTGGCACATTAACCATCTTTAATACCAATGTCGCTGGCATTGAA
66 CGTTGGCCTTGAATCAGCACATTGGCACATTAACCATCTTTAAGACCAATGTCGCTGGCCTTGAA
40417 TCAGCACATTGGCACCTTCA
131 TCAGCACATTGGCACCTTCA
* * * * *
40437 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGACCAA
* ** *
40502 TGTCGCTGGCCTTGTCTCAGCATATTGGCA
63 TGTCGTTGGCCTTGAATCAGCACATTGGCA
40532 TTCTTCTTCA
Statistics
Matches: 355, Mismatches: 34, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
147 84 0.24
148 4 0.01
150 232 0.65
151 2 0.01
153 33 0.09
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (150 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGT
CGTTGGCCTTGAATCAGCACATTGGCACATTAACCATCTTTAAGACCAATGTCGCTGGCCTTGAA
TCAGCACATTGGCACCTTCA
Found at i:41411 original size:20 final size:20
Alignment explanation
Indices: 41386--41440 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
41376 CTGCCAAGGA
41386 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
*
41406 AATGTATCAATACATTGATC
1 AATGTATCGATACATTGATC
**
41426 TTTGTATCGATACAT
1 AATGTATCGATACAT
41441 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:47212 original size:40 final size:40
Alignment explanation
Indices: 47163--47244 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
47153 AGTACATGTA
* *
47163 TTGATACATTCTGGTATTTACCCAGATGTATTGATACATT
1 TTGATACATTCTAGTATTTACCCAGATGTATCGATACATT
* *
47203 TTGATACATTCTATTTTTTACCCAGATGTATCGATACATT
1 TTGATACATTCTAGTATTTACCCAGATGTATCGATACATT
47243 TT
1 TT
47245 TCAATGTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (40 bp):
TTGATACATTCTAGTATTTACCCAGATGTATCGATACATT
Found at i:49476 original size:24 final size:27
Alignment explanation
Indices: 49449--49504 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
49439 TATCAAAATT
49449 CTATT-CATC-AG-GGATACTCCAACC
1 CTATTCCATCGAGAGGATACTCCAACC
* *
49473 CTATTCCTTCGAGAGGATACTCCAATC
1 CTATTCCATCGAGAGGATACTCCAACC
49500 CTATT
1 CTATT
49505 TTTAAAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 3 0.11
26 2 0.07
27 17 0.63
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (27 bp):
CTATTCCATCGAGAGGATACTCCAACC
Found at i:55970 original size:52 final size:52
Alignment explanation
Indices: 55913--56031 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 52
55903 AATTGTCTAC
* * * *
55913 ATGTATCAATACATTTAGG-TCAAAAACTCAAAATGAATCGATACAATGAATA
1 ATGTATCAATACATTTGGGCT-AAAAACTCAAAATGAATCAATACAATAAAAA
*
55965 ATGTATCAATACA-TTGGGCTAAAAACTCAAAATGTATCAATACAATAAAAA
1 ATGTATCAATACATTTGGGCTAAAAACTCAAAATGAATCAATACAATAAAAA
*
56016 ATGTATCGATACATTT
1 ATGTATCAATACATTT
56032 TCTTTCTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
51 43 0.73
52 16 0.27
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (52 bp):
ATGTATCAATACATTTGGGCTAAAAACTCAAAATGAATCAATACAATAAAAA
Found at i:56162 original size:21 final size:20
Alignment explanation
Indices: 56113--56149 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56103 TTTAGACATA
56113 TATC-ATACATTCACTTACG
1 TATCGATACATTCACTTACG
*
56132 TATCGATACATTGACTTA
1 TATCGATACATTCACTTA
56150 TTGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (20 bp):
TATCGATACATTCACTTACG
Found at i:56440 original size:2 final size:2
Alignment explanation
Indices: 56433--56461 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56423 TAAAATGAGG
56433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56462 GTAGACACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56791 original size:20 final size:21
Alignment explanation
Indices: 56743--56802 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
56733 AATTTCTATA
*
56743 ATTTGTATCGATACATTTACT
1 ATTTGTATCGATACATTTTCT
* *
56764 ATTTGTATTGATACATTTTTT
1 ATTTGTATCGATACATTTTCT
56785 A-TTGTATCGATACATTTT
1 ATTTGTATCGATACATTTT
56803 GGGTTTTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTTGTATCGATACATTTTCT
Found at i:56857 original size:51 final size:51
Alignment explanation
Indices: 56767--56903 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
56757 ATTTACTATT
* * * *
56767 TGTATTGATACATTTTTTATTGTATCGATACATTTTGGGTTTTAACCTAGA
1 TGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCTAGA
* *
56818 TGTATCGATACATTTTTCATTATATTGATATATTCTGGGTTTTAACCTAGA
1 TGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCTAGA
* *
56869 TGTATCGATACATTGTGT-AATATATCGATACATTC
1 TGTATCGATACATT-TTTCATTATATCGATACATTC
56904 AGGCATTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
51 73 0.97
52 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (51 bp):
TGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCTAGA
Found at i:58865 original size:19 final size:20
Alignment explanation
Indices: 58824--58864 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58814 GATACTAAAT
58824 AAGTCCAAGGTGATTTTTAA
1 AAGTCCAAGGTGATTTTTAA
58844 AAGTCCAAGGTGATTTTTAA
1 AAGTCCAAGGTGATTTTTAA
58864 A
1 A
58865 GGTTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
AAGTCCAAGGTGATTTTTAA
Found at i:59407 original size:79 final size:79
Alignment explanation
Indices: 59274--59636 Score: 428
Period size: 79 Copynumber: 4.6 Consensus size: 79
59264 TCATTGATGT
** * * * * *
59274 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAA-CCTCATTATTTTTGAGGGG
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCTCGTTATTTTTGAGGGA
* *
59338 ATACTTCAACCCCGA
66 ACACTCCAACCCC-A
* *
59353 TTTTATTTCTAAAACACCAATTTTTCATAATCGAAGATACTCCAACCCT-GTTATTTTTGAGGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCTCGTTATTTTTGAGGGA
*
59417 ACACTCCAACCTCA
66 ACACTCCAACCCCA
* * *
59431 GTTTTATTTCTAAAACACCGATTTTTCACAATTGAGGATACTCCAA-CCTCGTTATTTTCGAGGG
1 -TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCTCGTTATTTTTGAGGG
* *
59495 AATACTCCAACCTCAA
65 AACACTCCAACC-CCA
** *
59511 TTTTATTTCTAAAACACCAATTTTTCATTATCGAGGATACTCCAACCC-CGTTATTTTTGAAGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCTCGTTATTTTTGAGGGA
* *
59575 ACACACTAACCCCTA
66 ACACTCCAACCCC-A
** * *
59590 TTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACC
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
59637 TCGGTTTTAT
Statistics
Matches: 242, Mismatches: 36, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
78 5 0.02
79 231 0.95
80 6 0.02
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCTCGTTATTTTTGAGGGA
ACACTCCAACCCCA
Found at i:59564 original size:158 final size:158
Alignment explanation
Indices: 59274--59639 Score: 536
Period size: 158 Copynumber: 2.3 Consensus size: 158
59264 TCATTGATGT
* * * *
59274 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCTCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAGGGAA
* * *
59339 TACTTCAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGAAGATACTCCAACCCTGT
66 TACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCATAATCGAAGATACTCCAACCCCGT
* * *
59404 TATTTTTGAGGGAACACTCCAACCTC-A
131 TATTTTTGAAGGAACACACCAACCCCTA
* * * *
59431 GTTTTATTTCTAAAACACCGATTTTTCACAATTGAGGATACTCCAACCTCGTTATTTTCGAGGGA
1 -TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAGGGA
* * *
59496 ATACTCCAACCTCAATTTTATTTCTAAAACACCAATTTTTCATTATCGAGGATACTCCAACCCCG
65 ATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCATAATCGAAGATACTCCAACCCCG
*
59561 TTATTTTTGAAGGAACACACTAACCCCTA
130 TTATTTTTGAAGGAACACACCAACCCCTA
* *
59590 TTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCTCG
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGATACTCCAACCTCG
59640 GTTTTATTTC
Statistics
Matches: 183, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
158 182 0.99
159 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (158 bp):
TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAGGGAA
TACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCATAATCGAAGATACTCCAACCCCGT
TATTTTTGAAGGAACACACCAACCCCTA
Found at i:59650 original size:51 final size:51
Alignment explanation
Indices: 59590--59688 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
59580 CTAACCCCTA
**
59590 TTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCTCGG
1 TTTTATTTCTAAAACATTAATTTTCCACAATCAAGGATACTCCAACCTCGG
* *
59641 TTTTATTTCTAAAACATTGATTTTTCACAATCAAGGATACTCCAACCT
1 TTTTATTTCTAAAACATTAATTTTCCACAATCAAGGATACTCCAACCT
59689 TATTATTCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (51 bp):
TTTTATTTCTAAAACATTAATTTTCCACAATCAAGGATACTCCAACCTCGG
Found at i:61192 original size:41 final size:41
Alignment explanation
Indices: 61039--61183 Score: 182
Period size: 41 Copynumber: 3.5 Consensus size: 41
61029 AAAAAAGATT
* * * *
61039 TTAGCGGCGTTTTGCTATGAAACGGTACTAAATAATTAAAA
1 TTAGTGGCATTTTGCTATGAAACGCTGCTAAATAATTAAAA
** * * *
61080 TTAGTGGCATTTTTATATGAAATGCCGTTAAATAATTAAAA
1 TTAGTGGCATTTTGCTATGAAACGCTGCTAAATAATTAAAA
**
61121 TTAGTGGCATTTTGCTATTCAACGCTGCTAAATAATTAAAA
1 TTAGTGGCATTTTGCTATGAAACGCTGCTAAATAATTAAAA
*
61162 TTAGTGGCGTTTTGCTATGAAA
1 TTAGTGGCATTTTGCTATGAAA
61184 TATTGCTAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (41 bp):
TTAGTGGCATTTTGCTATGAAACGCTGCTAAATAATTAAAA
Found at i:61751 original size:20 final size:20
Alignment explanation
Indices: 61726--61780 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
61716 TTTTCACAAT
*
61726 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
61746 TTGTATCAATACATGGTTCA
1 TTGTATCGATACATTGTTCA
61766 TTGTATCGATACATT
1 TTGTATCGATACATT
61781 CTGGGTTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:64223 original size:79 final size:78
Alignment explanation
Indices: 64131--64429 Score: 322
Period size: 79 Copynumber: 3.8 Consensus size: 78
64121 TTTCATCTCA
* * *
64131 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATC-AATTTT-TCATAATCGGGGATACTCTAA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACA-CGAATTTTCT-ATAATCAGGGATACTCCAA
64194 TCCTGTTATTTTCGAG
64 -CCTGTTATTTTCGAG
* * * *
64210 GGGATACTTCAACCCCGATTTTA-TTCTCAAAACACTAATTTT-TCACAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTC-CAAAACACGAATTTTCT-ATAATCAGGGATACTCCAA
** *
64273 CCCCATCATTTTCGAG
64 -CCTGTTATTTTCGAG
* * * *
64289 GGGATACTCCAACCCCAAATTTAGTTT-CAAAACGCGAATTTTCTATAATCAGGAATACTCCAAC
1 GGGATACTCCAACCCCGATTTTA-TTTCCAAAACACGAATTTTCTATAATCAGGGATACTCCAAC
*
64353 CTTGTTATTTCCGAG
65 C-TGTTATTTTCGAG
* *
64368 GGGATACTTCAACCCCGATTTTATTTTCAAAACACCG-ATTTTCTATAATCAGGGATACTCCA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACA-CGAATTTTCTATAATCAGGGATACTCCA
64430 GCCCCGTTGT
Statistics
Matches: 187, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
78 9 0.05
79 173 0.93
80 3 0.02
81 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACGAATTTTCTATAATCAGGGATACTCCAACC
TGTTATTTTCGAG
Found at i:64423 original size:158 final size:158
Alignment explanation
Indices: 64131--64434 Score: 402
Period size: 158 Copynumber: 1.9 Consensus size: 158
64121 TTTCATCTCA
*** * * * *
64131 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCTAATC
1 GGGATACTCCAACCCCAAATTTATTTCCAAAACAGCAATTTTTCATAATCAGGAATACTCCAATC
* * *
64196 CTGTTATTTTCGAGGGGATACTTCAACCCCGATTTTATTCTCAAAACACTAATTTTTCACAATCG
66 CTGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTCTCAAAACACCAATTTTTCACAATCA
64261 GGGATACTCCAACCCCATCATTTTCGAG
131 GGGATACTCCAACCCCATCATTTTCGAG
64289 GGGATACTCCAACCCCAAATTTAGTTT-CAAAAC-GCGAA-TTTTCTATAATCAGGAATACTCCA
1 GGGATACTCCAACCCCAAATTTA-TTTCCAAAACAGC-AATTTTTC-ATAATCAGGAATACTCCA
* * *
64351 A-CCTTGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTTTCAAAACACCGA-TTTTCTAT
63 ATCC-TGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTCTCAAAACACCAATTTTTC-AC
*
64414 AATCAGGGATACTCCAGCCCC
126 AATCAGGGATACTCCAACCCC
64435 GTTGTTATCC
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
157 13 0.10
158 111 0.87
159 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (158 bp):
GGGATACTCCAACCCCAAATTTATTTCCAAAACAGCAATTTTTCATAATCAGGAATACTCCAATC
CTGTTATTTCCGAGGGGATACTTCAACCCCGATTTTATTCTCAAAACACCAATTTTTCACAATCA
GGGATACTCCAACCCCATCATTTTCGAG
Found at i:66197 original size:24 final size:23
Alignment explanation
Indices: 66144--66198 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
66134 TATATATTAT
* * * *
66144 ATATATAAATAAAATAGAGTTGA
1 ATATAAAAATAAAAGAGAGGTAA
*
66167 ATTTAAAAATAAAAAGAGAGGTAA
1 ATATAAAAAT-AAAAGAGAGGTAA
66191 ATATAAAA
1 ATATAAAA
66199 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (23 bp):
ATATAAAAATAAAAGAGAGGTAA
Found at i:69461 original size:33 final size:33
Alignment explanation
Indices: 69417--69489 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
69407 TGATGATGTT
*
69417 GATAATAAGAGTGATGAGGAAGAAAATGAAGAA
1 GATAATCAGAGTGATGAGGAAGAAAATGAAGAA
*
69450 GATAATCAGAGTGATGAGGAAGAAGATGAAGAA
1 GATAATCAGAGTGATGAGGAAGAAAATGAAGAA
69483 GATAATC
1 GATAATC
69490 CAAATGAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.51, C:0.03, G:0.30, T:0.16
Consensus pattern (33 bp):
GATAATCAGAGTGATGAGGAAGAAAATGAAGAA
Found at i:71041 original size:308 final size:308
Alignment explanation
Indices: 70476--71053 Score: 994
Period size: 308 Copynumber: 1.9 Consensus size: 308
70466 GTCGGTTTGG
** *
70476 TTAGTTCAGTTTATTTAAACCAAAAATTGACTTGGCTGACCTTAGTGTTAGAACCGACCAAACCG
1 TTAGTTCAGTTTATTTAAACCAAAAATTGACTTAACTGACATTAGTGTTAGAACCGACCAAACCG
* * *
70541 ATCGACATTAACTTCAAAACTGAAATAACCGAATCAACATCAAGGTTAGTTGGTTCAGTCAGTTT
66 ATCGACATTAACTTCAAAACTGAAATAACCGAACCAACATCAAGGTCAGTTGGTTCAGTCAATTT
* * *
70606 TTTTGATTTACTCGGGTTAGTTCTGTTTTATTCAACTCATATCCAACTACAAATTAACTTTAATA
131 TTTTGATTTACTCGGGTTAGTTCTATTTTATTCAACCCACATCCAACTACAAATTAACTTTAATA
* *
70671 CATATATAAAATGTAGAAAAAAAGTAAATATTAAAAACTCCTAAATTGTATTTGAACCAAAGTAT
196 CATATATAAAATGTAGAAAAAAAGTAAATATTAAAAACTCCCAAATTATATTTGAACCAAAGTAT
70736 TACTAAATTCAACAATTACTAACTGACCTTAGTGTTAGAACCAAAATA
261 TACTAAATTCAACAATTACTAACTGACCTTAGTGTTAGAACCAAAATA
* * *
70784 TTAGTTTAGTTTATTTAAACCGAAAATTGACTTAACTGACATTAGTGTTAGAACTGACCAAACCG
1 TTAGTTCAGTTTATTTAAACCAAAAATTGACTTAACTGACATTAGTGTTAGAACCGACCAAACCG
*
70849 ATCGACATTAACTTCAAAACTGAAATAACCGAACCAACATCAAGGTCGGTTGGTTCAGTCAATTT
66 ATCGACATTAACTTCAAAACTGAAATAACCGAACCAACATCAAGGTCAGTTGGTTCAGTCAATTT
* **
70914 TTTTTATTTACTCGGGTTAGTTCTATTTTATTCAACCCACATCCTGCTACAAATTAACTTTAATA
131 TTTTGATTTACTCGGGTTAGTTCTATTTTATTCAACCCACATCCAACTACAAATTAACTTTAATA
70979 CATATATAAAATGTAGAAAAAAAGTAAATATTAAAAACTCCCAAATTATATTTGAACCAAAGTAT
196 CATATATAAAATGTAGAAAAAAAGTAAATATTAAAAACTCCCAAATTATATTTGAACCAAAGTAT
71044 TACTAAATTC
261 TACTAAATTC
71054 TAAAACAAAA
Statistics
Matches: 252, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
308 252 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (308 bp):
TTAGTTCAGTTTATTTAAACCAAAAATTGACTTAACTGACATTAGTGTTAGAACCGACCAAACCG
ATCGACATTAACTTCAAAACTGAAATAACCGAACCAACATCAAGGTCAGTTGGTTCAGTCAATTT
TTTTGATTTACTCGGGTTAGTTCTATTTTATTCAACCCACATCCAACTACAAATTAACTTTAATA
CATATATAAAATGTAGAAAAAAAGTAAATATTAAAAACTCCCAAATTATATTTGAACCAAAGTAT
TACTAAATTCAACAATTACTAACTGACCTTAGTGTTAGAACCAAAATA
Found at i:77148 original size:21 final size:20
Alignment explanation
Indices: 77115--77155 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
77105 GAGGTGTTGG
77115 ACATACCAAAAATGCATGAA
1 ACATACCAAAAATGCATGAA
*
77135 ACATAGCACAAAATGCATGAA
1 ACATACCA-AAAATGCATGAA
77156 CATGGGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.15
Consensus pattern (20 bp):
ACATACCAAAAATGCATGAA
Found at i:78067 original size:20 final size:20
Alignment explanation
Indices: 78042--78095 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
78032 ATTTTCCTAC
78042 ATGTATCGATACATTAT-TCA
1 ATGTATCGATACATTATAT-A
*
78062 ATGTATCGATACATTGTATA
1 ATGTATCGATACATTATATA
*
78082 ATGTATGGATACAT
1 ATGTATCGATACAT
78096 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTATATA
Found at i:78921 original size:52 final size:52
Alignment explanation
Indices: 78865--79313 Score: 385
Period size: 52 Copynumber: 8.5 Consensus size: 52
78855 CAAAGTATTA
* ** *
78865 ATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGGTGCCAATATGCTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTG
* ** * *
78917 ATTCAAGGCCAGCGATATTAGACTTGAGAA-A-GA-AAATGTGCCAATATGCTG
1 ATTCAAGGCCAGCAACGTTGGACTT-A-AAGATGATAAAGGTGCCAATATGCTG
*
78968 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTG
* * *
79020 ATTCAAGGCCAGCGATGTTGGACTTGAGAA-A-GA-AGAAGGTGCCAATGTGCTG
1 ATTCAAGGCCAGCAACGTTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCTG
* * ** *
79072 ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGAGAAAAGTGCCAAAGACCTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGT--GCCAA-T----ATG--CTG
* * * * *
79133 ATTCAAGGTCAACGACGCTGGGCTTAAAGATGATAAAGGTGCCAATATGCTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTG
* * * *
79185 ATTCAAGGCTAGCAATGTTAGACTTGAGAA-A-GA-AGAAGGTGCCAATGTGCTG
1 ATTCAAGGCCAGCAACGTTGGACTT-A-AAGATGATA-AAGGTGCCAATATGCTG
* * * *
79237 ATTCAACGCTAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATATGTTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTG
* *
79289 ATTCAAGGCCAGCGATGTTGGACTT
1 ATTCAAGGCCAGCAACGTTGGACTT
79314 GAGAAAGAAG
Statistics
Matches: 318, Mismatches: 53, Indels: 52
0.75 0.13 0.12
Matches are distributed among these distances:
49 2 0.01
50 6 0.02
51 46 0.14
52 201 0.63
53 8 0.03
54 11 0.03
55 1 0.00
58 1 0.00
59 4 0.01
61 38 0.12
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (52 bp):
ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTG
Found at i:79031 original size:103 final size:104
Alignment explanation
Indices: 78865--79111 Score: 388
Period size: 103 Copynumber: 2.4 Consensus size: 104
78855 CAAAGTATTA
* ** * *
78865 ATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCCAGC
*
78930 GATATTAGACTTGAGAAAGAA-AATGTGCCAATATGCTG
66 GATATTAGACTTGAGAAAGAAGAAGGTGCCAATATGCTG
78968 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCCAGC
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCCAGC
* * *
79033 GATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTG
66 GATATTAGACTTGAGAAAGAAGAAGGTGCCAATATGCTG
* *
79072 ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGT
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGT
79112 GAGAAAAGTG
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
103 79 0.60
104 53 0.40
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.23
Consensus pattern (104 bp):
ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCCAGC
GATATTAGACTTGAGAAAGAAGAAGGTGCCAATATGCTG
Found at i:79226 original size:165 final size:165
Alignment explanation
Indices: 78965--79277 Score: 518
Period size: 165 Copynumber: 1.9 Consensus size: 165
78955 TGCCAATATG
* *
78965 CTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCC
1 CTGATTCAAGGCCAACAACGCTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCC
* * *
79030 AGCGATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGAC
66 AGCAATGTTAGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAACGCCAACAACATTGGAC
79095 TTAAAGATGATAAAGGTGAGAAAAGTGCCAAAGAC
131 TTAAAGATGATAAAGGTGAGAAAAGTGCCAAAGAC
* * * * *
79130 CTGATTCAAGGTCAACGACGCTGGGCTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCT
1 CTGATTCAAGGCCAACAACGCTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCC
* *
79195 AGCAATGTTAGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAACGCTAGCAACATTGGAC
66 AGCAATGTTAGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAACGCCAACAACATTGGAC
79260 TTAAAGATGATAAAGGTG
131 TTAAAGATGATAAAGGTG
79278 CCAATATGTT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 136 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (165 bp):
CTGATTCAAGGCCAACAACGCTGGACTTAAAGATGATAAAGGTACCAATATGCTGATTCAAGGCC
AGCAATGTTAGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAACGCCAACAACATTGGAC
TTAAAGATGATAAAGGTGAGAAAAGTGCCAAAGAC
Found at i:79465 original size:43 final size:43
Alignment explanation
Indices: 79383--79475 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
79373 ACAATAGTGA
* * *
79383 TAAAGGTGTCAATATGCTGATTCAAGGCCAATGATATTGGACT
1 TAAAGGTGTCAACATGCTGATTCAAGGCCAACGACATTGGACT
* * * *
79426 TAAAGGTGTCAACGTGTTGATTCAAGGCTAACGACATTGGGCT
1 TAAAGGTGTCAACATGCTGATTCAAGGCCAACGACATTGGACT
79469 TAGAAGG
1 TA-AAGG
79476 AGATGCTACC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 38 0.90
44 4 0.10
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (43 bp):
TAAAGGTGTCAACATGCTGATTCAAGGCCAACGACATTGGACT
Found at i:79567 original size:63 final size:63
Alignment explanation
Indices: 79483--79896 Score: 356
Period size: 63 Copynumber: 6.5 Consensus size: 63
79473 AGGAGATGCT
* * *
79483 ACCAATTTGTGTGGACTTTTGAAAAGGTTGCCACTGACTTGTGTGGGCTTTAAAAAGGGTTACC
1 ACCAATTTGTGTGGGC-TTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCC
* * * * * *
79547 ACCAGTTTGTGTGGGCTTTG-AAGGGATTGCCACCGATTTCTGTGGGCTTTAGAAAGGGTTGCT
1 ACCAATTTGTGTGGGCTTTGAAAAGG-TTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCC
* * ** * *
79610 ACCAACTTGTGCGGGCTTTGAAGAAGGTTGCCACC-AGCTTGTGTGGGCTTT-GGAGGGGTTACC
1 ACCAATTTGTGTGGGCTTTGAA-AAGGTTGCCACCGA-CTTGTGTGGGCTTTAAAAAGGGTTGCC
* * * * * * *
79673 ACCGACTTGTGTGGGCTTTAGAAAGGGTTACCACCAACATGTGTGGGCTATGAAAAA-GGTTGCC
1 ACCAATTTGTGTGGGCTTT-GAAAAGGTTGCCACCGACTTGTGTGGGCT-TTAAAAAGGGTTGCC
* * ** * * * *
79737 ACCAGTTTGTGTAGGCTTTGTTAGGGTTACC-CCGACTTGTGCGGGCTTTAGAAAGGGTTGCC
1 ACCAATTTGTGTGGGCTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCC
* * * * * *
79799 ACCAACTTGTGTAGGCATTGAAAATGATTGCCACCAACTTATGTGGGCTTTAAAGAA-GGTTGCC
1 ACCAATTTGTGTGGGCTTTGAAAA-GGTTGCCACCGACTTGTGTGGGCTTTAAA-AAGGGTTGCC
* *
79863 ACCAACTTT-TGTGGGCTTTGGAGAGGTTGCCACC
1 ACCAA-TTTGTGTGGGCTTTGAAAAGGTTGCCACC
79897 AATTCGTCCC
Statistics
Matches: 279, Mismatches: 58, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
61 5 0.02
62 42 0.15
63 123 0.44
64 101 0.36
65 8 0.03
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (63 bp):
ACCAATTTGTGTGGGCTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCC
Found at i:79591 original size:31 final size:30
Alignment explanation
Indices: 79489--79896 Score: 257
Period size: 32 Copynumber: 12.9 Consensus size: 30
79479 TGCTACCAAT
* * *
79489 TTGTGTGGACTTTTGAAAAGGTTGCCACTGAC
1 TTGTGTGGGC-TTTG-AAGGGTTGCCACCGAC
* * *
79521 TTGTGTGGGCTTTAAAAAGGGTTACCACC-AGT
1 TTGTGTGGGCTTT--GAAGGGTTGCCACCGA-C
*
79553 TTGTGTGGGCTTTGAAGGGATTGCCACCGAT
1 TTGTGTGGGCTTTGAAGGG-TTGCCACCGAC
* * *
79584 TTCTGTGGGCTTTAGAAAGGGTTGCTACCAAC
1 TTGTGTGGGCTTT-G-AAGGGTTGCCACCGAC
*
79616 TTGTGCGGGCTTTGAAGAAGGTTGCCACC-AGC
1 TTGTGTGGGCTTTGAAG--GGTTGCCACCGA-C
* *
79648 TTGTGTGGGCTTTGGAGGGGTTACCACCGAC
1 TTGTGTGGGCTTT-GAAGGGTTGCCACCGAC
* *
79679 TTGTGTGGGCTTTAGAAAGGGTTACCACCAAC
1 TTGTGTGGGCTTT-G-AAGGGTTGCCACCGAC
* * * *
79711 ATGTGTGGGCTATGAAAAAGGTTGCCACC-AGT
1 TTGTGTGGGCTTTG--AAGGGTTGCCACCGA-C
* * *
79743 TTGTGTAGGCTTTGTTAGGGTTACC-CCGAC
1 TTGTGTGGGCTTTG-AAGGGTTGCCACCGAC
* *
79773 TTGTGCGGGCTTTAGAAAGGGTTGCCACCAAC
1 TTGTGTGGGCTTT-G-AAGGGTTGCCACCGAC
* * * * *
79805 TTGTGTAGGCATTGAAAATGATTGCCACCAAC
1 TTGTGTGGGCTTTG--AAGGGTTGCCACCGAC
* * *
79837 TTATGTGGGCTTTAAAGAAGGTTGCCACCAAC
1 TTGTGTGGGCTTTGAAG--GGTTGCCACCGAC
* *
79869 TTTTGTGGGCTTTGGAGAGGTTGCCACC
1 TTGTGTGGGCTTTGAAG-GGTTGCCACC
79897 AATTCGTCCC
Statistics
Matches: 301, Mismatches: 54, Indels: 43
0.76 0.14 0.11
Matches are distributed among these distances:
30 23 0.08
31 81 0.27
32 189 0.63
33 8 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (30 bp):
TTGTGTGGGCTTTGAAGGGTTGCCACCGAC
Found at i:79626 original size:95 final size:94
Alignment explanation
Indices: 79489--79898 Score: 423
Period size: 95 Copynumber: 4.3 Consensus size: 94
79479 TGCTACCAAT
* * * ** *
79489 TTGTGTGGACTTTTGAAAAGGTTGCCACTGACTTGTGTGGGCTTTAAAAAGGGTTACCACCAGTT
1 TTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAA-GGTTGCCACCAGTT
* *
79554 TGTGTGGGCTTTGAAGGGATTGCCACCGAT
65 TGTGTGGGCTTTGAAGGGATTACCACCGAC
* * * * *
79584 TTCTGTGGGCTTTAGAAAGGGTTGCTACCAACTTGTGCGGGCTTTGAAGAAGGTTGCCACCAGCT
1 TTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTT-AAAAAGGTTGCCACCAGTT
* *
79649 TGTGTGGGCTTTGGAGGGGTTACCACCGAC
65 TGTGTGGGCTTTGAAGGGATTACCACCGAC
* * *
79679 TTGTGTGGGCTTTAGAAAGGGTTACCACCAACATGTGTGGGCTATGAAAAAGGTTGCCACCAGTT
1 TTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCT-TTAAAAAGGTTGCCACCAGTT
* *
79744 TGTGTAGGCTTTGTTAGGG-TTACC-CCGAC
65 TGTGTGGGCTTTG-AAGGGATTACCACCGAC
* * * * * **
79773 TTGTGCGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTAGGCATTGAAAATGATTGCCACCAACT
1 TTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGC-TTTAAAAAGGTTGCCACCAGTT
* * * *
79838 TATGTGGGCTTTAAAGAAGG-TTGCCACCAAC
65 TGTGTGGGCTTTGAAG--GGATTACCACCGAC
* * *
79869 TTTTGTGGGCTTTGGAGA-GGTTGCCACCAA
1 TTGTGTGGGCTTTAGAAAGGGTTGCCACCAA
79899 TTCGTCCCTA
Statistics
Matches: 265, Mismatches: 43, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
93 2 0.01
94 70 0.26
95 166 0.63
96 27 0.10
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (94 bp):
TTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAAGGTTGCCACCAGTTT
GTGTGGGCTTTGAAGGGATTACCACCGAC
Found at i:80472 original size:51 final size:52
Alignment explanation
Indices: 80412--81181 Score: 368
Period size: 52 Copynumber: 14.5 Consensus size: 52
80402 TAAAGATGAT
*
80412 AAAGGTGCCAATATGCTGA-TCAAGGCCAGCGATATTGGACTTGAAAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
** * * * * *
80463 AAATATGCCAATATGCTGATTCAAGGCTAGCAACGTTGGACTT-AAAGATGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAA-AAGAA
* * * *
80515 AGAGGTACTAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
* * * * *
80567 GAAGGTGCCAATGTGCTGATTCAAGGCCAACAACGTTGGACTTAAAGATGATAAAGGTGAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTT---GA--A-AAA---GA-A
* * * * * * * *
80629 AAA-GTGCCAA-AGAGCAGATTCAAGGTCTGTGACGTTGGGC-T-AAAAGATGAT
1 AAAGGTGCCAATA-TGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAA-A-GAA
* * * ** * * *
80680 AAA-GTGCTAA-AGTGCTGATTCAAGGTCAGTGGCGTTGGGCTT-AAAGATGAT
1 AAAGGTGCCAATA-TGCTGATTCAAGGCCAGCGATGTTGGACTTGAAA-AAGAA
* *
80731 AAA-GTGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACTTGAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
* * ** ** * * *
80782 GAAA-ATGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACAT-AAAGATAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
* * *
80833 TTAAGGTGCCACTATGCTGATTCAAGGCCAGTGATGTTGGACTT-AAGAAAGAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAA-AAAGAA
* * * * ** *
80886 GAAGGTGCCAATATGCTGTTTCAAAGCCAGCAACATTGGACTTAAAGATGATAAAGGTGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTT---GA--A-AAA-G-AA
* ** * * * *
80946 AAAGAGTGCCAA-AGTGCTGATTCAAGGTCAATGACGTTGGGCTT-AAAGACGAT
1 AAAG-GTGCCAATA-TGCTGATTCAAGGCCAGCGATGTTGGACTTGAAA-AAGAA
* * * *
80999 AAAGGTGCCAATATGCTGATTTAAGGCTAGCGATGTTGAACTTGAGAAAGCAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAG-AA
* * * * ** * * *
81052 AAA-GTGCCAATGTGTTGATTCAAGGCCTGCAACATTGGACAT-AAAGATGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAA-AAGAA
** * * * *
81103 AAAGGTGCCGCTATGCTAATTCAAGGCCAACGATGTTGGATTTGAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
* * ** *
81155 GATGGTGCTGATGTGCTGATTCAAGGC
1 AAAGGTGCCAATATGCTGATTCAAGGC
81182 TAGCAACATT
Statistics
Matches: 536, Mismatches: 144, Indels: 77
0.71 0.19 0.10
Matches are distributed among these distances:
51 107 0.20
52 321 0.60
53 22 0.04
54 4 0.01
55 4 0.01
56 2 0.00
57 1 0.00
58 7 0.01
59 1 0.00
60 6 0.01
61 58 0.11
62 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAAAAAGAA
Found at i:80584 original size:104 final size:104
Alignment explanation
Indices: 80378--80944 Score: 572
Period size: 104 Copynumber: 5.4 Consensus size: 104
80368 CAAAGTACTA
* ** *
80378 ATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGGTGCCAATATGCTGA-TCAAGGCCAGC
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
* * * *
80442 GATATTGGACTTGAAAAAGAA-AAATATGCCAATATGCTG
66 GATGTTGGACTTGAGAAAGAAGAAA-GTGCCAATGTGCTG
* * * *
80481 ATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAGAGGTACTAATATGCTGATTCAAGGCCAGC
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
*
80546 GATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTG
66 GATGTTGGACTTGAGAAAGAAGAAAGTGCCAATGTGCTG
* * *
80585 ATTCAAGGCCAACAACGTTGGACTTAAAGATGATAAAGGTGAGAAAAGTGCCAA-AGAGCAGATT
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGAT-AA----AG----GTGCCAATA-TGCTGATT
* * * * * * * *
80649 CAAGGTCTGTGACGTTGGGC-T-A-AAAGATGATAAAGTGCTAAAGTGCTG
56 CAAGGCCAGCGATGTTGGACTTGAGAAAGA--AGAAAGTGCCAATGTGCTG
* *** * *
80697 ATTCAAGGTCAGTGGCGTTGGGCTTAAAGATGATAAA-GTGCCAATATGCTGATTCAAGGCTAGC
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
*
80761 GATGTTGGACTTGAGAAAGAAGAAAATGCCAATGTGCTG
66 GATGTTGGACTTGAGAAAGAAGAAAGTGCCAATGTGCTG
* * * * * * *
80800 ATTCAAGGCCAGTAACATTGGACATAAAGATAATTAAGGTGCCACTATGCTGATTCAAGGCCAGT
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
* * *
80865 GATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTG
66 GATGTTGGACTTGAGAAAGAAGAAAGTGCCAATGTGCTG
* * *
80904 TTTCAAAGCCAGCAACATTGGACTTAAAGATGATAAAGGTG
1 ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTG
80945 AAAAGAGTGC
Statistics
Matches: 377, Mismatches: 68, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
102 27 0.07
103 91 0.24
104 169 0.45
105 8 0.02
107 1 0.00
109 2 0.01
110 5 0.01
111 3 0.01
112 45 0.12
113 26 0.07
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (104 bp):
ATTCAAGGCCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
GATGTTGGACTTGAGAAAGAAGAAAGTGCCAATGTGCTG
Found at i:80957 original size:319 final size:319
Alignment explanation
Indices: 80351--81024 Score: 962
Period size: 319 Copynumber: 2.1 Consensus size: 319
80341 TAAAGTCGAT
* * * *
80351 AAAGATGAGAAAAATGCCAAAGTACTAATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAG
1 AAAGATGA-TAAAGTGCCAAAGTGCTGATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAG
80416 GTGCCAATATGCTGATCAAGGCCAGCGATATTGGACTTGAAAAAGAAAAATATGCCAATATGCTG
65 GTGCCAATATGCTGATCAAGGCCAGCGATATTGGACTTGAAAAAGAAAAATATGCCAATATGCTG
* * * * *
80481 ATTCAAGGCTAGCAACGTTGGACTTAAAGATGATAGAGGTACTAATATGCTGATTCAAGGCCAGC
130 ATTCAAGGCCAGCAACATTGGACATAAAGATAATAGAGGTACCAATATGCTGATTCAAGGCCAGC
* * * *
80546 GATGTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACGTTGGACTTA
195 GATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTA
**
80611 AAGATGATAAAGGTGAGAAAAGTGCCAAAGAGCAGATTCAAGGTCTGTGACGTTGGGCTA
260 AAGATGATAAAGGTGAGAAAAGTGCCAAAGAGCAGATTCAAGGTCAATGACGTTGGGCTA
* *
80671 AAAGATGATAAAGTGCTAAAGTGCTGATTCAAGGTCAGTGGCGTTGGGCTTAAAGATGATAAA-G
1 AAAGATGATAAAGTGCCAAAGTGCTGATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGG
* * * *
80735 TGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACTTGAGAAAGAAGAAA-ATGCCAATGTGCT
66 TGCCAATATGCTGA-TCAAGGCCAGCGATATTGGACTTGAAAAAGAA-AAATATGCCAATATGCT
* * *
80799 GATTCAAGGCCAGTAACATTGGACATAAAGATAATTA-AGGTGCCACTATGCTGATTCAAGGCCA
129 GATTCAAGGCCAGCAACATTGGACATAAAGATAA-TAGAGGTACCAATATGCTGATTCAAGGCCA
* * *
80863 GTGATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGTTTCAAAGCCAGCAACATTGGACT
193 GCGATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACT
* * *
80928 TAAAGATGATAAAGGTGA-AAAGAGTGCCAAAGTGCTGATTCAAGGTCAATGACGTTGGGCTT
258 TAAAGATGATAAAGGTGAGAAA-AGTGCCAAAGAGCAGATTCAAGGTCAATGACGTTGGGCTA
* *
80990 AAAGACGATAAAGGTGCCAATA-TGCTGATTTAAGG
1 AAAGATGATAAA-GTGCCAA-AGTGCTGATTCAAGG
81025 CTAGCGATGT
Statistics
Matches: 315, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
318 18 0.06
319 265 0.84
320 31 0.10
321 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (319 bp):
AAAGATGATAAAGTGCCAAAGTGCTGATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGG
TGCCAATATGCTGATCAAGGCCAGCGATATTGGACTTGAAAAAGAAAAATATGCCAATATGCTGA
TTCAAGGCCAGCAACATTGGACATAAAGATAATAGAGGTACCAATATGCTGATTCAAGGCCAGCG
ATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAA
AGATGATAAAGGTGAGAAAAGTGCCAAAGAGCAGATTCAAGGTCAATGACGTTGGGCTA
Found at i:81189 original size:269 final size:268
Alignment explanation
Indices: 80671--81222 Score: 811
Period size: 269 Copynumber: 2.1 Consensus size: 268
80661 CGTTGGGCTA
* * * * *
80671 AAAGATGATAA-AGTGCTAAAGTGCTGATTCAAGGTCAGTGGCGTTGGGCTTAAAGATGATAAAG
1 AAAGATGAAAAGAGTGCCAAAGTGCTGATTCAAGGTCAATGACGTTGGGCTTAAAGACGATAAAG
*
80735 TGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACTTGAGAAAGAAGAAAATGCCAATGTGCTG
66 TGCCAATATGCTGATTCAAGGCTAGCGATGTTGAACTTGAGAAAGAAGAAAATGCCAATGTGCTG
* * * **
80800 ATTCAAGGCCAGTAACATTGGACATAAAGATAATTAAGGTGCCACTATGCTGATTCAAGGCCAGT
131 ATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCACTATGCTAATTCAAGGCCAAC
*
80865 GATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGTTTCAAAGCCAGCAACATTGGACTTA
196 GATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAGCAACATTGGACTTA
80930 AAGATGAT
261 AAGATGAT
*
80938 AAAGGTGAAAAGAGTGCCAAAGTGCTGATTCAAGGTCAATGACGTTGGGCTTAAAGACGATAAAG
1 AAAGATGAAAAGAGTGCCAAAGTGCTGATTCAAGGTCAATGACGTTGGGCTTAAAGACGATAAA-
* * *
81003 GTGCCAATATGCTGATTTAAGGCTAGCGATGTTGAACTTGAGAAAGCAA-AAAGTGCCAATGTGT
65 GTGCCAATATGCTGATTCAAGGCTAGCGATGTTGAACTTGAGAAAG-AAGAAAATGCCAATGTGC
* * *
81067 TGATTCAAGGCCTGCAACATTGGACATAAAGATGATAAAGGTGCCGCTATGCTAATTCAAGGCCA
129 TGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCACTATGCTAATTCAAGGCCA
* * * ** * * *
81132 ACGATGTTGGATTTGAGAAAGAAGATGGTGCTGATGTGCTGATTCAAGGCTAGCAACATTGGACT
194 ACGATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAGCAACATTGGACT
81197 TAAAGATGAT
259 TAAAGATGAT
* *
81207 GAAGATGACAAGAGTG
1 AAAGATGAAAAGAGTG
81223 ATAAAGATAC
Statistics
Matches: 252, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
267 9 0.04
268 48 0.19
269 193 0.77
270 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (268 bp):
AAAGATGAAAAGAGTGCCAAAGTGCTGATTCAAGGTCAATGACGTTGGGCTTAAAGACGATAAAG
TGCCAATATGCTGATTCAAGGCTAGCGATGTTGAACTTGAGAAAGAAGAAAATGCCAATGTGCTG
ATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCACTATGCTAATTCAAGGCCAAC
GATGTTGGACTTAAGAAAGAAGAAGGTGCCAATATGCTGATTCAAAGCCAGCAACATTGGACTTA
AAGATGAT
Found at i:81349 original size:43 final size:43
Alignment explanation
Indices: 81288--81374 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
81278 AAGATGATAA
* * *
81288 AGGTGTTAATATGCTGATTCAAGGCCTACGATATTGGACTTAG
1 AGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACTTAG
* *
81331 AGGTGTCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAG
1 AGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACTTAG
81374 A
1 A
81375 AGGAAAGGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
AGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACTTAG
Found at i:81521 original size:32 final size:31
Alignment explanation
Indices: 81383--81737 Score: 217
Period size: 32 Copynumber: 11.2 Consensus size: 31
81373 GAAGGAAAGG
* * * * *
81383 CCACCGACTTGTGTGGACCTTTAAAAGGGGTG
1 CCACCAACTTGTGTGG-GCTTTGAAAGGGTTA
* * ** *
81415 CCATCGACTTGTGTGTTCTTTAAGAAGGGTTA
1 CCACCAACTTGTGTGGGCTTTGA-AAGGGTTA
* * *
81447 CCACCAGCTTATGTGGGCTTTG-AAGGGATTG
1 CCACCAACTTGTGTGGGCTTTGAAAGGG-TTA
* * *
81478 CCATCGACTTGTGTAGGCTTTAGAAAGGGTTA
1 CCACCAACTTGTGTGGGCTTT-GAAAGGGTTA
* *
81510 CCACCAACTTGTGTGGGCTTTGAAGAAGGTTG
1 CCACCAACTTGTGTGGGCTTTGAA-AGGGTTA
* * * *
81542 CCACCAGCTTGTGTGAGCTTTGGAGGGGTTA
1 CCACCAACTTGTGTGGGCTTTGAAAGGGTTA
* * *
81573 CCACCGACTTTTGTGGGCTTTAGAAAGGGTTG
1 CCACCAACTTGTGTGGGCTTT-GAAAGGGTTA
* * * * *
81605 GCACTAACTTGTATGGGCTTTGAAGAAGGTTG
1 CCACCAACTTGTGTGGGCTTTGAA-AGGGTTA
* * * * *
81637 CCACTAGCTTGTATGGGCTTTGGAGGGGTTA
1 CCACCAACTTGTGTGGGCTTTGAAAGGGTTA
* * * **
81668 CCACCGACTTGTGTGGGCATTGAAGAAGGTCG
1 CCACCAACTTGTGTGGGCTTTGAA-AGGGTTA
* * * * * *
81700 CCACCGACTTCTATGAGCTTTGGAAGGGTTG
1 CCACCAACTTGTGTGGGCTTTGAAAGGGTTA
81731 CCACCAA
1 CCACCAA
81738 TTCATCCCCA
Statistics
Matches: 248, Mismatches: 67, Indels: 17
0.75 0.20 0.05
Matches are distributed among these distances:
30 5 0.02
31 84 0.34
32 154 0.62
33 5 0.02
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (31 bp):
CCACCAACTTGTGTGGGCTTTGAAAGGGTTA
Found at i:81685 original size:63 final size:62
Alignment explanation
Indices: 81407--81697 Score: 241
Period size: 63 Copynumber: 4.6 Consensus size: 62
81397 GGACCTTTAA
* ** *
81407 AAGGGG-TGCCATCGACTTGTGTGTTCTTT-AAGAAGGGTTACCACCAGCTTATGTGGGCTTTG
1 AAGGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAA-GGTTACCA-CAGCTTGTGTGGGCTTTG
* * * * *
81469 AAGGGATTGCCATCGACTTGTGTAGGCTTTAGAA-AGGGTTACCACCAACTTGTGTGGGCTTTG
1 AAGGGGTTGCCACCGACTTGTGTGGGCTTT-GAAGAAGGTTACCA-CAGCTTGTGTGGGCTTTG
* * * * * *
81532 AAGAAGGTTGCCACC-AGCTTGTGTGAGCTTTGGAG-GGGTTACCACCGACTTTTGTGGGCTTTA
1 AAG-GGGTTGCCACCGA-CTTGTGTGGGCTTTGAAGAAGGTTACCACAG-CTTGTGTGGGCTTT-
81595 G
62 G
* * ** * * *
81596 AAAGGGTTGGCACTAACTTGTATGGGCTTTGAAGAAGGTTGCCACTAGCTTGTATGGGCTTTG
1 AAGGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAAGGTTACCAC-AGCTTGTGTGGGCTTTG
* * *
81659 GAGGGGTTACCACCGACTTGTGTGGGCATTGAAGAAGGT
1 AAGGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAAGGT
81698 CGCCACCGAC
Statistics
Matches: 182, Mismatches: 36, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
62 6 0.03
63 128 0.70
64 45 0.25
65 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (62 bp):
AAGGGGTTGCCACCGACTTGTGTGGGCTTTGAAGAAGGTTACCACAGCTTGTGTGGGCTTTG
Found at i:81703 original size:63 final size:63
Alignment explanation
Indices: 81611--81735 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
81601 GTTGGCACTA
* * * * *
81611 ACTTGTATGGGCTTTGAAGAAGGTTGCCACTAG-CTTGTATGGGCTTTGGAGGGGTTACCACCG
1 ACTTGTATGGGCATTGAAGAAGGTCGCCAC-AGACTTCTATGAGCTTTGGAAGGGTTACCACCG
* * *
81674 ACTTGTGTGGGCATTGAAGAAGGTCGCCACCGACTTCTATGAGCTTTGGAAGGGTTGCCACC
1 ACTTGTATGGGCATTGAAGAAGGTCGCCACAGACTTCTATGAGCTTTGGAAGGGTTACCACC
81736 AATTCATCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 1 0.02
63 52 0.98
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (63 bp):
ACTTGTATGGGCATTGAAGAAGGTCGCCACAGACTTCTATGAGCTTTGGAAGGGTTACCACCG
Found at i:81720 original size:95 final size:96
Alignment explanation
Indices: 81383--81736 Score: 389
Period size: 95 Copynumber: 3.7 Consensus size: 96
81373 GAAGGAAAGG
* * * * * **
81383 CCACCGACTTGTGTGGACCTTTA-AAAGGGGTGCCATCGACTTGTGTGTTCTTT-AAGAAGGGTT
1 CCACCGACTTGTGTGG-GCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGGTT
* * * * *
81446 ACCACCAGCTTATGTGGGCTTTGAAGGGATTG
65 GCCACCAGCTTGTGTGGGCTTTGGAGGGGTTA
* * * *
81478 CCATCGACTTGTGTAGGCTTTAGAAAGGGTTACCACCAACTTGTGTGGGCTTTGAAGAA-GGTTG
1 CCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGGTTG
*
81542 CCACCAGCTTGTGTGAGCTTTGGAGGGGTTA
66 CCACCAGCTTGTGTGGGCTTTGGAGGGGTTA
* * *
81573 CCACCGACTTTTGTGGGCTTTAGAAAGGGTTGGCACTAACTTGTATGGGCTTTGAAGAA-GGTTG
1 CCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGGTTG
* *
81637 CCACTAGCTTGTATGGGCTTTGGAGGGGTTA
66 CCACCAGCTTGTGTGGGCTTTGGAGGGGTTA
* * * * * *
81668 CCACCGACTTGTGTGGGCATT-GAAGAAGGTCGCCACCGACTTCTATGAGCTTTG--GAAGGGTT
1 CCACCGACTTGTGTGGGCTTTAGAA-AGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGGTT
81730 GCCACCA
65 GCCACCA
81737 ATTCATCCCC
Statistics
Matches: 220, Mismatches: 35, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
93 3 0.01
94 18 0.08
95 194 0.88
96 5 0.02
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (96 bp):
CCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGGTTG
CCACCAGCTTGTGTGGGCTTTGGAGGGGTTA
Found at i:82310 original size:52 final size:52
Alignment explanation
Indices: 82254--82435 Score: 172
Period size: 52 Copynumber: 3.5 Consensus size: 52
82244 AGATGATAAG
* * * * *
82254 GGTGCCAGTATGCTGATTCAAGTCCAGCGATGTTAGACTTGAGAAAAAAGGA
1 GGTGCCAATATGCTGATTCAAGGCCAACGATGTTGGACTTGAGAAAAAAGAA
* * * * **
82306 GGTGCTAATGTGTTGATTCAAGGCCAACAACATTGGACTT-A-AAAATGATA-AA
1 GGTGCCAATATGCTGATTCAAGGCCAACGATGTTGGACTTGAGAAAA--A-AGAA
* * * *
82358 AGTGCCAATATACTGATTCAAAGCCAACGATGTTGGACTTGAGAAAGAAGAA
1 GGTGCCAATATGCTGATTCAAGGCCAACGATGTTGGACTTGAGAAAAAAGAA
*
82410 GGTGCCAATGTGCTGATTCAAGGCCA
1 GGTGCCAATATGCTGATTCAAGGCCA
82436 GCAACATTGG
Statistics
Matches: 99, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
50 4 0.04
51 2 0.02
52 88 0.89
53 2 0.02
54 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (52 bp):
GGTGCCAATATGCTGATTCAAGGCCAACGATGTTGGACTTGAGAAAAAAGAA
Found at i:82397 original size:104 final size:104
Alignment explanation
Indices: 82197--82458 Score: 330
Period size: 104 Copynumber: 2.5 Consensus size: 104
82187 GATAAAGATG
* * * * * **
82197 AGAAGAGTGCCAAAGTGCTGATTCAAGGTCAACGACGTT-TAGCTTAAAGATGATAAGGGTGCCA
1 AGAAG-GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGA-CTTAAAGATGATAAAAGTGCCA
* * *
82261 GTATGCTGATTCAAGTCCAGCGATGTTAGACTTGAGAAAAA
64 ATATACTGATTCAAGTCCAACGATGTTAGACTTGAGAAAAA
* * * *
82302 AGGAGGTGCTAATGTGTTGATTCAAGGCCAACAACATTGGACTTAAAAATGATAAAAGTGCCAAT
1 AGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAAGTGCCAAT
* *
82367 ATACTGATTCAAAG-CCAACGATGTTGGACTTGAGAAAGA
66 ATACTGATTC-AAGTCCAACGATGTTAGACTTGAGAAAAA
*
82406 AGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
1 AGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAT
82459 GAAGATGACA
Statistics
Matches: 134, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
104 126 0.94
105 8 0.06
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (104 bp):
AGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAAGTGCCAAT
ATACTGATTCAAGTCCAACGATGTTAGACTTGAGAAAAA
Found at i:82541 original size:61 final size:61
Alignment explanation
Indices: 82460--82584 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 61
82450 AAAGATGATG
* * *
82460 AAGATGACAAGAGTGATAAAGATGTGAAAATGCTGATTTAGGGCCAACAATATCGGACTTA
1 AAGATGAAAAGAGTGATAAAGATGTGAAAATGCCGATTTAAGGCCAACAATATCGGACTTA
* * ** * *
82521 AAGATGAGAAAGA-TGATAAAGGTGTTAATGTGCCGATTTAAGGCCAACGATATTGGACTTA
1 AAGATGA-AAAGAGTGATAAAGATGTGAAAATGCCGATTTAAGGCCAACAATATCGGACTTA
82582 AAG
1 AAG
82585 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 50 0.93
62 4 0.07
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (61 bp):
AAGATGAAAAGAGTGATAAAGATGTGAAAATGCCGATTTAAGGCCAACAATATCGGACTTA
Found at i:82607 original size:43 final size:43
Alignment explanation
Indices: 82537--82626 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
82527 AGAAAGATGA
** * *
82537 TAAAGGTGTTAATGTGCCGATTTAAGGCCAACGATATTGGACT
1 TAAAGGTGCCAATGTGCCGATTCAAGGCCAACGACATTGGACT
* *
82580 TAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCT
1 TAAAGGTGCCAATGTGCCGATTCAAGGCCAACGACATTGGACT
82623 TAAA
1 TAAA
82627 AGGAGATGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATGTGCCGATTCAAGGCCAACGACATTGGACT
Found at i:82710 original size:32 final size:31
Alignment explanation
Indices: 82633--83054 Score: 300
Period size: 32 Copynumber: 13.3 Consensus size: 31
82623 TAAAAGGAGA
* * *
82633 TGCCACCAATTTGTGTGGACTTTTGAA-AATGT
1 TGCCACCAACTTGTGTGGGC-TTT-AAGAAGGT
* *
82665 TGCAACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAA-GGT
* * *
82697 TACCACCAGCTTGTGTGGGCTTTGAA-AAGAT
1 TGCCACCAACTTGTGTGGGCTTT-AAGAAGGT
* *
82728 TGCCACCGACTTATGTGGGCTTT-AGAAATGGT
1 TGCCACCAACTTGTGTGGGCTTTAAG-AA-GGT
* *
82760 TGTCACCAACTTGTGTGGGCCTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGG-CTTTAAGAAGGT
* *
82792 TGCCACCAACTTGTGTGGGCTTT-GGAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGA-AGGT
* ** *
82823 TACCACTGACTTGTATGGGCTTT-AGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAG-AA-GGT
* *
82855 TGCCACCAACATGTGTGGGCTATGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCT-TTAAGAAGGT
* * **
82887 TGCCACCTACATGTGTGGGCTAAGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCT-TTAAGAAGGT
* * *
82919 TGCCACCGACTTGTGCGAGCTTT-AGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAG-AA-GGT
* * * *
82951 TGGCTCCAACTTGTGTGGGCATTGAAGAAAGT
1 TGCCACCAACTTGTGTGGGC-TTTAAGAAGGT
* * * *
82983 TACCACCAACTTATTTAGGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-AAGAAGGT
* * *
83015 TGCCACCAACTTCTGTGGGCTTT-GGAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGA-AGGT
83046 TGCCACCAA
1 TGCCACCAA
83055 TTCATCCCCA
Statistics
Matches: 307, Mismatches: 64, Indels: 39
0.75 0.16 0.10
Matches are distributed among these distances:
29 1 0.00
30 8 0.03
31 70 0.23
32 208 0.68
33 14 0.05
34 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAAGGT
Found at i:82798 original size:95 final size:95
Alignment explanation
Indices: 82633--83054 Score: 445
Period size: 95 Copynumber: 4.4 Consensus size: 95
82623 TAAAAGGAGA
* * * * ** * * *
82633 TGCCACCAATTTGTGTGGACTTTTGAAAATGTTGCAACCGACTTGTGTGGGCTTTAAGAAGGGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTGAAGAA-GGTT
* *
82698 ACCACCAGCTTGTGTGGGCTTTGAA-AAGAT
65 ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* * *
82728 TGCCACCGACTTATGTGGGCTTTAGAAATGGTTGTCACCAACTTGTGTGGGCCTTGAAGAAGGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGG-CTTGAAGAAGGTT
* * *
82793 GCCACCAACTTGTGTGGGCTTTGGAG-GGGT
65 ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* * * *
82823 TACCACTGACTTGTATGGGCTTTAGAAAGGGTTGCCACCAACATGTGTGGGCTATGAAGAAGGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCT-TGAAGAAGGTT
* * * **
82888 GCCACCTACATGTGTGGGCTAAGAAGAAGGT
65 ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* * * * *
82919 TGCCACCGACTTGTGCGAGCTTTAGAAAGGGTTGGCTCCAACTTGTGTGGGCATTGAAGAAAGTT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGC-TTGAAGAAGGTT
* * *
82984 ACCACCAACTTATTTAGGCTTTGAAGAAGGT
65 ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* * * *
83015 TGCCACCAACTTCTGTGGGCTTT-GGAGGGGTTGCCACCAA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAA
83055 TTCATCCCCA
Statistics
Matches: 268, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
94 2 0.01
95 158 0.59
96 107 0.40
97 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (95 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTGAAGAAGGTTA
CCACCAACTTGTGTGGGCTTTGAAGAAGGT
Found at i:82858 original size:127 final size:127
Alignment explanation
Indices: 82633--83052 Score: 370
Period size: 127 Copynumber: 3.3 Consensus size: 127
82623 TAAAAGGAGA
* * * * *
82633 TGCCACCAATTTGTGTGGACTTTTGAA-AATGTTGCAACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGC-CTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
* * * * *
82697 TACCACCAGCTTGTGTGGGCTTTGAAAAGATTGCCACCGACTTATGTGGGCTTTAGAA-ATGGT
65 TACCACCAGCTTGTATGGGCTTTGAAAAGATTGCCACCAACATATGTGGGCTAT-GAAGAAGGT
* * * *
82760 TGTCACCAACTTGTGTGGGCCTTGAAGAAGGTTGCCACCAACTTGTGTGGGCTTT-GGAGGGGTT
1 TGCCACCAACTTGTGTGGGCCTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGTT
* * * *
82824 ACCA-CTGACTTGTATGGGCTTTAGAAAGGGTTGCCACCAACATGTGTGGGCTATGAAGAAGGT
66 ACCACCAG-CTTGTATGGGCTTT-GAAAAGATTGCCACCAACATATGTGGGCTATGAAGAAGGT
* * * * *
82887 TGCCACCTACATGTGTGGG-CTAAGAAGAAGGTTGCCACCGACTTGTGCGAGCTTT-AGAAAGGG
1 TGCCACCAACTTGTGTGGGCCT-TGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAG-AAGGG
** * * * * * * * * *
82950 TTGGCTCCAACTTGTGTGGGCATTGAAGAA-AGTTACCACCAACTTATTTAGGCTTTGAAGAAGG
64 TTACCACCAGCTTGTATGGGCTTTGAA-AAGA-TTGCCACCAACATATGTGGGCTATGAAGAAGG
83014 T
127 T
* * * *
83015 TGCCACCAACTTCTGTGGGCTTTGGAG-GGGTTGCCACC
1 TGCCACCAACTTGTGTGGGCCTTGAAGAAGGTTGCCACC
83053 AATTCATCCC
Statistics
Matches: 234, Mismatches: 49, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
125 2 0.01
126 34 0.15
127 130 0.56
128 66 0.28
129 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (127 bp):
TGCCACCAACTTGTGTGGGCCTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGTT
ACCACCAGCTTGTATGGGCTTTGAAAAGATTGCCACCAACATATGTGGGCTATGAAGAAGGT
Found at i:83605 original size:52 final size:51
Alignment explanation
Indices: 83530--83770 Score: 175
Period size: 52 Copynumber: 4.6 Consensus size: 51
83520 TGCCAAAGTA
* ** * *
83530 CTGATTCAAGGTCAGTGACGTTGGGCTTAAAGACGATAAAAGTGCCAATATG
1 CTGATTCAAGGCCAGCAATGTTGGACTTAAAGA-GATAAAAGTGCCAATATG
* *
83582 CTGATTCAAGGCTAGCAATGTTGGACTTGAGAA-AGA-AGAAAGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATGTTGGACTT-A-AAGAGATA-AAAGTGCCAATATG
* ** * * * **
83634 TTGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCGCTATG
1 CTGATTCAAGGCCAGCAATGTTGGACTTAAAGA-GATAAAAGTGCCAATATG
* * ** *
83686 CTGATTCAAGGCCAGTAATGTTGGACTTGAGAA-AGA-AGAAGGTGCTGATGTG
1 CTGATTCAAGGCCAGCAATGTTGGACTT-A-AAGAGATA-AAAGTGCCAATATG
** *
83738 CTGATTCAAGGCCAGCAACATTGGACTAAAAGA
1 CTGATTCAAGGCCAGCAATGTTGGACTTAAAGA
83771 TGATGAAGAT
Statistics
Matches: 149, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
50 4 0.03
51 6 0.04
52 130 0.87
53 5 0.03
54 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.23
Consensus pattern (51 bp):
CTGATTCAAGGCCAGCAATGTTGGACTTAAAGAGATAAAAGTGCCAATATG
Found at i:83771 original size:104 final size:104
Alignment explanation
Indices: 83518--83767 Score: 322
Period size: 104 Copynumber: 2.4 Consensus size: 104
83508 AGGTGAAAAG
* * * ** * * * ** * **
83518 AGTGCCAAAGTACTGATTCAAGGTCAGTGACGTTGGGCTTAAAGACGATAAAAGTGCCAATATGC
1 AGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCGCTATGC
*
83583 TGATTCAAGGCTAGCAATGTTGGACTTGAGAAAGAAGAA
66 TGATTCAAGGCCAGCAATGTTGGACTTGAGAAAGAAGAA
*
83622 AGTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCGCTATGC
1 AGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCGCTATGC
*
83687 TGATTCAAGGCCAGTAATGTTGGACTTGAGAAAGAAGAA
66 TGATTCAAGGCCAGCAATGTTGGACTTGAGAAAGAAGAA
* **
83726 GGTGCTGATGTGCTGATTCAAGGCCAGCAACATTGGAC-TAAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACATAAA
83768 AGATGATGAA
Statistics
Matches: 126, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
103 4 0.03
104 122 0.97
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (104 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACATAAAGATAATAAAGGTGCCGCTATGC
TGATTCAAGGCCAGCAATGTTGGACTTGAGAAAGAAGAA
Found at i:83914 original size:43 final size:43
Alignment explanation
Indices: 83853--83945 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
83843 AGAAAGATGA
* * *
83853 TAAAGGTGTCAATATGCTGATTTAAGGGCAACGATATTGGACT
1 TAAAGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACT
* *
83896 TAAAGGTGTCAATGTGCTGATTCAAGGCCAACGACATTGGGCT
1 TAAAGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACT
83939 TAGAAGG
1 TA-AAGG
83946 AGATGCCACC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 40 0.91
44 4 0.09
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (43 bp):
TAAAGGTGTCAATATGCTGATTCAAGGCCAACGACATTGGACT
Found at i:84153 original size:63 final size:61
Alignment explanation
Indices: 83981--84336 Score: 258
Period size: 63 Copynumber: 5.6 Consensus size: 61
83971 TTTAAAGGGG
* * * * *
83981 TGCCACCGACTTGTGTGGGCTTTAAGAAGGGTTACCACCAGCTTGTGTGGGCTTTGA-AAGCAT
1 TGCCACCAACTTATGTGAGCTTTGA-AAGGGTTACCACCA-CTTGTGTGGGCTTTGAGAAG-GT
* * * *
84044 TGCCACCAA-TTATATGGGCTTTAGAAAAGGTTTCCACCAACTTGTGTGGGCTTTGAAGAAGGT
1 TGCCACCAACTTATGTGAGCTTT-GAAAGGGTTACCACC-ACTTGTGTGGGCTTTG-AGAAGGT
* * * *
84107 TGCCACCAGCTTATGTGAGCTTTGGAAGGGTTACCTCCGACTTGTGTAGGCTTT-AGAAAGGAT
1 TGCCACCAACTTATGTGAGCTTTGAAAGGGTTACCACC-ACTTGTGTGGGCTTTGAG-AAGG-T
* * * * * *
84170 TGCCATCAACTTGTGTGGGCTTTGAAAAAGGTTGCCACCAGCTTGTGTGGGCTTTG-GAGGGGT
1 TGCCACCAACTTATGTGAGCTTTG-AAAGGGTTACCACCA-CTTGTGTGGGCTTTGAGA-AGGT
* * * *
84233 TAG-CACCAACTTATG-CAGGCTTTAGAAAGGGTTTCCTCCAACTTGTGTGGGCTAT-AGAAAGG
1 T-GCCACCAACTTATGTGA-GCTTT-GAAAGGGTTACCACC-ACTTGTGTGGGCTTTGAG-AA-G
84295 GT
60 GT
* * *
84297 TGCCACCAACTTATGCGAGCTTTGAAGAAGGTTGCCACCA
1 TGCCACCAACTTATGTGAGCTTTGAA-AGGGTTACCACCA
84337 ACTTCTGCGA
Statistics
Matches: 233, Mismatches: 39, Indels: 42
0.74 0.12 0.13
Matches are distributed among these distances:
61 2 0.01
62 41 0.18
63 115 0.49
64 74 0.32
65 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (61 bp):
TGCCACCAACTTATGTGAGCTTTGAAAGGGTTACCACCACTTGTGTGGGCTTTGAGAAGGT
Found at i:84218 original size:127 final size:127
Alignment explanation
Indices: 83949--84367 Score: 426
Period size: 127 Copynumber: 3.3 Consensus size: 127
83939 TAGAAGGAGA
* * * * * *
83949 TGCCACCAACTTGTGTGGACTTTTTAA-AGGGGTGCCACC-GACTTGTGTGGGCTTTAAGAAGGG
1 TGCCACCAACTTGTGTGGGC-TTTGAAGAGGGTTGCCACCAG-CTTATGTGAGCTTTAGGAAGGG
* * *
84012 TTACCACCAGCTTGTGTGGGCTTT-GAAAGCATTGCCACCAA-TTATATGGGCTTT-AGAAAAGG
64 TTACCTCCA-CTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTATGTGGGCTTTGA-AAAAGG
84074 T
127 T
* *
84075 TTCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCACCAGCTTATGTGAGCTTT-GGAAGGGTT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACCAGCTTATGTGAGCTTTAGGAAGGGTT
* * *
84139 ACCTCCGACTTGTGTAGGCTTTAGAAAGGATTGCCATCAACTTGTGTGGGCTTTGAAAAAGGT
66 ACCTCC-ACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTATGTGGGCTTTGAAAAAGGT
* * * * *
84202 TGCCACCAGCTTGTGTGGGCTTTGGAG-GGGTTAG-CACCAACTTATG-CAGGCTTTAGAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGTT-GCCACCAGCTTATGTGA-GCTTTAGGAAGGG
* * * * * *
84264 TTTCCTCCAACTTGTGTGGGCTATAGAAAGGGTTGCCACCAACTTATGCGAGCTTTGAAGAAGGT
64 TTACCTCC-ACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTATGTGGGCTTTGAAAAAGGT
* * * * *
84329 TGCCACCAACTTCTGCGAGCTTTGGAG-GGGTTACCACCA
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACCA
84368 ATTCATCCCC
Statistics
Matches: 247, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
125 32 0.13
126 76 0.31
127 138 0.56
128 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (127 bp):
TGCCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACCAGCTTATGTGAGCTTTAGGAAGGGTT
ACCTCCACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTATGTGGGCTTTGAAAAAGGT
Found at i:84346 original size:32 final size:32
Alignment explanation
Indices: 83949--84352 Score: 230
Period size: 32 Copynumber: 12.8 Consensus size: 32
83939 TAGAAGGAGA
* * *
83949 TGCCACCAACTTGTGTG-GACTTTTTAA-AGGGG
1 TGCCACCAACTTGTGTGAG-C-TTTGAAGAAGGT
* *
83981 TGCCACCGACTTGTGTGGGCTTT-AAGAAGGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAA-GGT
* * * *
84013 TACCACCAGCTTGTGTGGGCTTTG-A-AAGCAT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAAG-GT
* * *
84044 TGCCACCAA-TTATATGGGCTTTAGAA-AAGGT
1 TGCCACCAACTTGTGTGAGCTTT-GAAGAAGGT
* *
84075 TTCCACCAACTTGTGTGGGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAAGGT
* *
84107 TGCCACCAGCTTATGTGAGCTTTG--GAAGGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAA-GGT
* * *
84138 TACCTCCGACTTGTGT-AGGCTTT--AGAAAGGAT
1 TGCCACCAACTTGTGTGA-GCTTTGAAG-AAGG-T
* * *
84170 TGCCATCAACTTGTGTGGGCTTTGAAAAAGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAAGGT
* * * *
84202 TGCCACCAGCTTGTGTGGGCTTTGGAG-GGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAAGGT
* * *
84233 TAG-CACCAACTTATG-CAGGCTTTAGAA-AGGGT
1 T-GCCACCAACTTGTGTGA-GCTTT-GAAGAAGGT
* * * * *
84265 TTCCTCCAACTTGTGTGGGCTATAGAA-AGGGT
1 TGCCACCAACTTGTGTGAGCT-TTGAAGAAGGT
* *
84297 TGCCACCAACTTATGCGAGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGAGCTTTGAAGAAGGT
* *
84329 TGCCACCAACTTCTGCGAGCTTTG
1 TGCCACCAACTTGTGTGAGCTTTG
84353 GAGGGGTTAC
Statistics
Matches: 293, Mismatches: 54, Indels: 50
0.74 0.14 0.13
Matches are distributed among these distances:
30 18 0.06
31 72 0.25
32 196 0.67
33 6 0.02
34 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGAGCTTTGAAGAAGGT
Found at i:84360 original size:95 final size:94
Alignment explanation
Indices: 83989--84340 Score: 351
Period size: 95 Copynumber: 3.7 Consensus size: 94
83979 GGTGCCACCG
* * * *
83989 ACTTGTGTGGGCTTT-AAGAAGGGTTACCACCAGCTTGTGTGGGCTTTGA-AAGCATTGCCACCA
1 ACTTGTGTGGGCTTTGAA-AA-GGTTGCCACCAGCTTATGTGAGCTTTGAGAAG-GTTGCCACCA
* * *
84052 ATTATATG--GGCTTTAGAAAAGGTTTCCACCA
63 ACT-TATGCAGGCTTTAGAAAGGGTTTCCTCCA
* * *
84083 ACTTGTGTGGGCTTTGAAGAAGGTTGCCACCAGCTTATGTGAGCTTTG-GAAGGGTTACCTCCGA
1 ACTTGTGTGGGCTTTGAA-AAGGTTGCCACCAGCTTATGTGAGCTTTGAGAA-GGTTGCCACCAA
* * * *
84147 CTTGTGTAGGCTTTAGAAAGGATTGCCAT-CA
64 CTTATGCAGGCTTTAGAAAGGGTTTCC-TCCA
* * *
84178 ACTTGTGTGGGCTTTGAAAAAGGTTGCCACCAGCTTGTGTGGGCTTTG-GAGGGGTTAG-CACCA
1 ACTTGTGTGGGCTTTG-AAAAGGTTGCCACCAGCTTATGTGAGCTTTGAGA-AGGTT-GCCACCA
84241 ACTTATGCAGGCTTTAGAAAGGGTTTCCTCCA
63 ACTTATGCAGGCTTTAGAAAGGGTTTCCTCCA
* * * *
84273 ACTTGTGTGGGCTATAGAAAGGGTTGCCACCAACTTATGCGAGCTTTGAAGAAGGTTGCCACCAA
1 ACTTGTGTGGGCT-TTGAAAAGGTTGCCACCAGCTTATGTGAGCTTTG-AGAAGGTTGCCACCAA
84338 CTT
64 CTT
84341 CTGCGAGCTT
Statistics
Matches: 214, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
93 3 0.01
94 50 0.23
95 142 0.66
96 17 0.08
97 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (94 bp):
ACTTGTGTGGGCTTTGAAAAGGTTGCCACCAGCTTATGTGAGCTTTGAGAAGGTTGCCACCAACT
TATGCAGGCTTTAGAAAGGGTTTCCTCCA
Found at i:84957 original size:103 final size:103
Alignment explanation
Indices: 84828--85349 Score: 346
Period size: 103 Copynumber: 5.0 Consensus size: 103
84818 GATAAAAATG
** *
84828 AAAAGAGTGCCAA-AGTGCTGATTCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGGTGCCA
1 AAAAG-GTGCCAATA-TGCTGATTCAAGGTCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCA
* *
84892 ACATACTGATTCAAGGCCAGC-ATGTTGGACTTGAGAAAGA
64 ACATACTGATTCAAGGCCAGCAATATTGGACTTAAGAAA-A
* * *
84932 AAAAGGTGCCAATATACTGATTCAAGGTTAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAAT
1 AAAAGGTGCCAATATGCTGATTCAAGGTCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAAC
* *
84997 ATGCTGATTCATGGCCAGCAATATTGGACTTAAGAAAA
66 ATACTGATTCAAGGCCAGCAATATTGGACTTAAGAAAA
* * * * * *
85035 AAGAAGGTGGCAATGTGCTTATTCAAGGCCAGCAACATTGGACTCAAAGATGATAAAGTTGAGAA
1 AA-AAGGTGCCAATATGCTGATTCAAGGTCAGCAACGTTGGACTTAAAGATG----A--T-A-AA
* * * * * * **
85100 GAGTGCCAA-AGTGCTAATTAAAGGTCAGCAACATTGGGCTTAAAGATGA
57 G-GTGCCAACA-TACTGATTCAAGGCCAGCAATATTGGACTT-AAGAAAA
* * * * **
85149 TAAAGGTGCCAATATACTGATTTAAGG-CTAGCGATTTTGGACTTGAGAA-A-GA-AGAAGGTGC
1 AAAAGGTGCCAATATGCTGATTCAAGGTC-AGCAACGTTGGACTT-A-AAGATGATA-AAGGTGC
** * * **
85210 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGA
62 CAACATACTGATTCAAGGCCAGCAATATTGGACTT-AAGAAAA
* * * * ** *
85253 AAAAGGTACCAATATGTTGATTCAAAGTC-GCGATATTAGACTTGAGAA-AT-A-AGAAGGTGCC
1 AAAAGGTGCCAATATGCTGATTCAAGGTCAGCAACGTTGGACTT-A-AAGATGATA-AAGGTGCC
* * *
85314 AATATGCTGATTCAAGGCCAGCAAAATTGGACTTAA
63 AACATACTGATTCAAGGCCAGCAATATTGGACTTAA
85350 AAATGATGAA
Statistics
Matches: 347, Mismatches: 51, Indels: 42
0.79 0.12 0.10
Matches are distributed among these distances:
102 2 0.01
103 133 0.38
104 124 0.36
105 6 0.02
108 1 0.00
109 1 0.00
110 1 0.00
111 1 0.00
112 5 0.01
113 63 0.18
114 8 0.02
115 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (103 bp):
AAAAGGTGCCAATATGCTGATTCAAGGTCAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAAC
ATACTGATTCAAGGCCAGCAATATTGGACTTAAGAAAA
Found at i:84993 original size:52 final size:52
Alignment explanation
Indices: 84820--85356 Score: 382
Period size: 52 Copynumber: 10.2 Consensus size: 52
84810 TTAGAGATGA
* * ** * *
84820 TAAAAATGA-AAAGAGTGCCAA-AGTGCTGATTCAAGGTCAGTGACGTTGGGCT
1 TAAAGATGATAAAG-GTGCCAATA-TGCTGATTCAAGGCCAGCAACATTGGACT
* * **
84872 TAAAGATGATAAAGGTGCCAACATACTGATTCAAGGCCAGC-ATGTTGGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
* * ** *
84923 TGAGAA-A-GAAAAAGGTGCCAATATACTGATTCAAGGTTAGCAACGTTGGACT
1 T-A-AAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
* *
84975 TAAAGATGATAAAGGTGCCAATATGCTGATTCATGGCCAGCAATATTGGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
** * * * *
85027 T-AAGAAAAAAGAAGGTGGCAATGTGCTTATTCAAGGCCAGCAACATTGGACT
1 TAAAGATGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
* * * * *
85079 CAAAGATGATAAAGTTGAGAAGAGTGCCAA-AGTGCTAATTAAAGGTCAGCAACATTGGGCT
1 TAAAGATG----A--T-A-AAG-GTGCCAATA-TGCTGATTCAAGGCCAGCAACATTGGACT
* * * * **
85140 TAAAGATGATAAAGGTGCCAATATACTGATTTAAGGCTAGCGATTTTGGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
*
85192 TGAGAA-A-GA-AGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACT
1 T-A-AAGATGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
* * * * * * * *
85244 TAAAGATGAAAAAGGTACCAATATGTTGATTCAAAGTC-GCGATATTAGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
*
85295 TGAGAA-AT-A-AGAAGGTGCCAATATGCTGATTCAAGGCCAGCAAAATTGGACT
1 T-A-AAGATGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
*
85347 TAAAAATGAT
1 TAAAGATGAT
85357 GAAGATGAGA
Statistics
Matches: 385, Mismatches: 68, Indels: 63
0.75 0.13 0.12
Matches are distributed among these distances:
50 7 0.02
51 88 0.23
52 221 0.57
53 20 0.05
54 3 0.01
55 1 0.00
57 2 0.01
60 5 0.01
61 38 0.10
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (52 bp):
TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACT
Found at i:85134 original size:61 final size:60
Alignment explanation
Indices: 85036--85153 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 60
85026 TTAAGAAAAA
* * * *
85036 AGAAGGTGGCAATGTGCTTATTCAAGGCCAGCAACATTGGACTCAAAGATGATAAAGTTG
1 AGAAGGTGCCAAAGTGCTAATTAAAGGCCAGCAACATTGGACTCAAAGATGATAAAGTTG
* * *
85096 AGAAGAGTGCCAAAGTGCTAATTAAAGGTCAGCAACATTGGGCTTAAAGATGATAAAG
1 AGAAG-GTGCCAAAGTGCTAATTAAAGGCCAGCAACATTGGACTCAAAGATGATAAAG
85154 GTGCCAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 5 0.10
61 45 0.90
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (60 bp):
AGAAGGTGCCAAAGTGCTAATTAAAGGCCAGCAACATTGGACTCAAAGATGATAAAGTTG
Found at i:85216 original size:165 final size:165
Alignment explanation
Indices: 84955--85257 Score: 471
Period size: 165 Copynumber: 1.8 Consensus size: 165
84945 ATACTGATTC
* * * *
84955 AAGGTTAGCAACGTTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCATGGCCAGCAATA
1 AAGGTCAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATATACTGATTCAAGGCCAGCAATA
* *
85020 TTGGACTTAAGAAAAAAGAAGGTGGCAATGTGCTTATTCAAGGCCAGCAACATTGGACTCAAAGA
66 TTGGACTTAAGAAAAAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTCAAAGA
*
85085 TGATAAAGTTGAGAAGAGTGCCAAAGTGCTAATTA
131 TGAAAAAGTTGAGAAGAGTGCCAAAGTGCTAATTA
* * * * *
85120 AAGGTCAGCAACATTGGGCTTAAAGATGATAAAGGTGCCAATATACTGATTTAAGGCTAGCGATT
1 AAGGTCAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATATACTGATTCAAGGCCAGCAATA
* * *
85185 TTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
66 TTGGACTTAAGAAAAAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTCAAAGA
85250 TGAAAAAG
131 TGAAAAAG
85258 GTACCAATAT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
165 123 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (165 bp):
AAGGTCAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATATACTGATTCAAGGCCAGCAATA
TTGGACTTAAGAAAAAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTCAAAGA
TGAAAAAGTTGAGAAGAGTGCCAAAGTGCTAATTA
Found at i:85309 original size:268 final size:268
Alignment explanation
Indices: 84786--85372 Score: 800
Period size: 268 Copynumber: 2.2 Consensus size: 268
84776 CCGGTGTATA
* * * * *
84786 GATTCAAGGCCTA-CAACACTGGACTTAGAGATGATAAAAATGAAAAGAGTGCCAAAGTGCTGAT
1 GATTCAAGGCC-AGCAACATTGGACTTAAAGATGATAAAGATGAGAAGAGTGCCAAAGTGCTAAT
* ** *
84850 TCAAGGTCAGTGACGTTGGGCTTAAAGATGATAAAGGTGCCAACATACTGATTCAAGGCCAGCAT
65 TAAAGGTCAGCAACATTGGGCTTAAAGATGATAAAGGTGCCAACATACTGATTCAAGGCCAGCAT
** *
84915 GTTGGACTTGAGAAAGAAAAAGGTGCCAATATACTGATTCAAGGTTAGCAACGTTGGACTTAAAG
130 GTTGGACTTGAGAAAGAAAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACTTAAAG
* * ** * *
84980 ATGATAAAGGTGCCAATATGCTGATTCATGGCCAGCAATATTGGACTTAAGAAAAAAGAAGGTGG
195 ATGAAAAAGGTACCAATATGCTGATTCAAAGCCAGCAATATTAGACTTAAGAAAAAAGAAGGTGC
*
85045 CAATGTGCT
260 CAATATGCT
* * *
85054 TATTCAAGGCCAGCAACATTGGACTCAAAGATGATAAAGTTGAGAAGAGTGCCAAAGTGCTAATT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAGAAGAGTGCCAAAGTGCTAATT
* * *
85119 AAAGGTCAGCAACATTGGGCTTAAAGATGATAAAGGTGCCAATATACTGATTTAAGGCTAGCGAT
66 AAAGGTCAGCAACATTGGGCTTAAAGATGATAAAGGTGCCAACATACTGATTCAAGGCCAGC-AT
* * * *
85184 TTTGGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
130 GTTGGACTTGAGAAAGAAAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACTTAAAG
* * * * *
85249 ATGAAAAAGGTACCAATATGTTGATTCAAAGTC-GCGATATTAGACTTGAGAAATAAGAAGGTGC
195 ATGAAAAAGGTACCAATATGCTGATTCAAAGCCAGCAATATTAGACTTAAGAAAAAAGAAGGTGC
85313 CAATATGCT
260 CAATATGCT
* * * *
85322 GATTCAAGGCCAGCAAAATTGGACTTAAAAATGATGAAGATGAGAAAAGTG
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAGAAGAGTG
85373 ATAAAGATGC
Statistics
Matches: 276, Mismatches: 41, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
267 1 0.00
268 188 0.68
269 87 0.32
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (268 bp):
GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGATGAGAAGAGTGCCAAAGTGCTAATT
AAAGGTCAGCAACATTGGGCTTAAAGATGATAAAGGTGCCAACATACTGATTCAAGGCCAGCATG
TTGGACTTGAGAAAGAAAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACTTAAAGA
TGAAAAAGGTACCAATATGCTGATTCAAAGCCAGCAATATTAGACTTAAGAAAAAAGAAGGTGCC
AATATGCT
Found at i:85470 original size:61 final size:61
Alignment explanation
Indices: 85358--85482 Score: 164
Period size: 61 Copynumber: 2.0 Consensus size: 61
85348 AAAAATGATG
*
85358 AAGATGAGAAAAGTGATAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATCAAACTTA
1 AAGATGAGAAAAGTGATAAAGATGCCAATATGCTGATTCAAGGCTAACGATATCAAACTTA
* * * * *
85419 AAGATGAG-AAAGATGATAAAGGTGTCAATATGCTGATTCAAAG-TCAACGATATTAGACTTA
1 AAGATGAGAAAAG-TGATAAAGATGCCAATATGCTGATTCAAGGCT-AACGATATCAAACTTA
85480 AAG
1 AAG
85483 GTATCAATGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 5 0.09
61 51 0.91
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (61 bp):
AAGATGAGAAAAGTGATAAAGATGCCAATATGCTGATTCAAGGCTAACGATATCAAACTTA
Found at i:85567 original size:32 final size:31
Alignment explanation
Indices: 85531--85948 Score: 340
Period size: 32 Copynumber: 13.2 Consensus size: 31
85521 TGGAAGGAGA
**
85531 TGCCACCAACTTGTGTGGATTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGG-CCTTTGAAAGGGT
* * *
85563 TGCCACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGCCTTTGA-AAGGGT
* * *
85595 TACCACCAGCTTGTGTGGGCTTTG-AAGGGAT
1 TGCCACCAACTTGTGTGGCCTTTGAAAGGG-T
*
85626 TGCCTCCAACTTGTGTGAG-CTTTAGAAAGGGT
1 TGCCACCAACTTGTGTG-GCCTTT-GAAAGGGT
* * *
85658 TGCCACCAACTTGTATGGGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGCCTTTGAA-AGGGT
* * *
85690 TGCCACCAGCTTGTGTGGGCTTTGGAAGGGT
1 TGCCACCAACTTGTGTGGCCTTTGAAAGGGT
* *
85721 TACCACCGACTTGTGTGGCCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGCCTTT-GAAAGGGT
* *
85753 TGCCACCAACTTGTGTAGG-CTTTGAAGAAGGA
1 TGCCACCAACTTGTGT-GGCCTTTGAA-AGGGT
* * * *
85785 TGCCACCAGCTTCTGTGGACCTTAG-AGGGGT
1 TGCCACCAACTTGTGTGG-CCTTTGAAAGGGT
* ** *
85816 TACCACCAACTTGTGTGGGTTTTAGAAAAGGT
1 TGCCACCAACTTGTGTGGCCTTT-GAAAGGGT
* * * *
85848 TGCCACCAACGTCTATGGGCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGCCTTT-GAAAGGGT
* **
85880 TGCCACCAACTTGTGTGGGCTTTGAAGAAAGT
1 TGCCACCAACTTGTGTGGCCTTTGAA-AGGGT
* * * * *
85912 TGCCACCAATTTCTGTGGGCTTTGGAGGGGT
1 TGCCACCAACTTGTGTGGCCTTTGAAAGGGT
85943 TGCCAC
1 TGCCAC
85949 TAATTCGTCC
Statistics
Matches: 313, Mismatches: 58, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
30 7 0.02
31 84 0.27
32 211 0.67
33 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGCCTTTGAAAGGGT
Found at i:85678 original size:95 final size:95
Alignment explanation
Indices: 85515--85906 Score: 463
Period size: 95 Copynumber: 4.1 Consensus size: 95
85505 CCAACGACAT
* * * * * *
85515 TGGGCTTGGAAGGAGA-TGCCACCAACTTGTGTGGATTTTTGAAAGGGTTGCCACCGACTTGTGT
1 TGGGCTTTGAAGG-GATTACCACCAACTTGTGTGGACTTTAGAAAGGGTTGCCACCAACTTGTAT
*
85579 GGGCTTT-AAGAAGGGTTACCACCAGCTTGTG
65 GGGCTTTGAAGAA-GGTTGCCACCAGCTTGTG
* *
85610 TGGGCTTTGAAGGGATTGCCTCCAACTTGTGT-GAGCTTTAGAAAGGGTTGCCACCAACTTGTAT
1 TGGGCTTTGAAGGGATTACCACCAACTTGTGTGGA-CTTTAGAAAGGGTTGCCACCAACTTGTAT
85674 GGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
65 GGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
* * *
85705 TGGGCTTTGGAAGGG-TTACCACCGACTTGTGTGGCCTTTAGAAAGGGTTGCCACCAACTTGTGT
1 TGGGCTTT-GAAGGGATTACCACCAACTTGTGTGGACTTTAGAAAGGGTTGCCACCAACTTGTAT
* * *
85769 AGGCTTTGAAGAAGGATGCCACCAGCTTCTG
65 GGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
* * * ** * * *
85800 TGGACCTT-AGAGGGGTTACCACCAACTTGTGTGGGTTTTAGAAAAGGTTGCCACCAACGTCTAT
1 TGGGCTTTGA-AGGGATTACCACCAACTTGTGTGGACTTTAGAAAGGGTTGCCACCAACTTGTAT
* *
85864 GGGCTTTAGAA-AGGGTTGCCACCAACTTGTG
65 GGGCTTT-GAAGAAGGTTGCCACCAGCTTGTG
85895 TGGGCTTTGAAG
1 TGGGCTTTGAAG
85907 AAAGTTGCCA
Statistics
Matches: 257, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
93 1 0.00
94 8 0.03
95 232 0.90
96 16 0.06
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (95 bp):
TGGGCTTTGAAGGGATTACCACCAACTTGTGTGGACTTTAGAAAGGGTTGCCACCAACTTGTATG
GGCTTTGAAGAAGGTTGCCACCAGCTTGTG
Found at i:85756 original size:127 final size:126
Alignment explanation
Indices: 85531--85948 Score: 417
Period size: 127 Copynumber: 3.3 Consensus size: 126
85521 TGGAAGGAGA
* ** *
85531 TGCCACCAACTTGTGTGGATTTTTGAA-AGGGTTGCCACC-GACTTGTGTGGGCTTTAAGAAGGG
1 TGCCACCAACTTCTGTGG-GCTTTGAAGAGGGTTGCCACCAG-CTTGTGTGGGCTTTAGGAAGGG
*
85594 TTACCACCAGCTTGTGTGGGCTTT-G-AAGGGATTGCCTCCAACTTGTGTGAGCTTTAGAAAGGG
64 TTACCACCA-CTTGTGTGGGCTTTAGAAAGGG-TTGCCACCAACTTGTGTGAGCTTTAGAAA-GG
85657 T
126 T
* * *
85658 TGCCACCAACTTGTATGGGCTTTGAAGAAGGTTGCCACCAGCTTGTGTGGGCTTT-GGAAGGGTT
1 TGCCACCAACTTCTGTGGGCTTTGAAGAGGGTTGCCACCAGCTTGTGTGGGCTTTAGGAAGGGTT
* *
85722 ACCACCGACTTGTGTGGCCTTTAGAAAGGGTTGCCACCAACTTGTGT-AGGCTTT-GAAGAAGGA
66 ACCACC-ACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGA-GCTTTAG-A-AAGGT
* * * * * * * *
85785 TGCCACCAGCTTCTGTGGACCTT--AGAGGGGTTACCACCAACTTGTGTGGGTTTTAGAAAAGGT
1 TGCCACCAACTTCTGTGGGCTTTGAAGA-GGGTTGCCACCAGCTTGTGTGGGCTTTAGGAAGGGT
* * * * *
85848 TGCCACCAACGTCTATGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAA-GT
65 TACCACC-ACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGAGCTTT--AGAAAGGT
* *
85912 TGCCACCAATTTCTGTGGGCTTTGGAG-GGGTTGCCAC
1 TGCCACCAACTTCTGTGGGCTTTGAAGAGGGTTGCCAC
85949 TAATTCGTCC
Statistics
Matches: 243, Mismatches: 32, Indels: 32
0.79 0.10 0.10
Matches are distributed among these distances:
125 3 0.01
126 58 0.24
127 168 0.69
128 10 0.04
129 3 0.01
130 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (126 bp):
TGCCACCAACTTCTGTGGGCTTTGAAGAGGGTTGCCACCAGCTTGTGTGGGCTTTAGGAAGGGTT
ACCACCACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGAGCTTTAGAAAGGT
Found at i:85944 original size:95 final size:95
Alignment explanation
Indices: 85533--85948 Score: 439
Period size: 95 Copynumber: 4.4 Consensus size: 95
85523 GAAGGAGATG
** * * * *
85533 CCACCAACTTGTGTGGATTTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAGAAGGGTTA
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAA-GGTTG
** *
85597 CCACCAGCTTGTGTGGGCTTTGA-AGGGATTG
65 CCACCAGCTTGTGTGGGCTTTGAGAAAG-TTA
* *
85628 CCTCCAACTTGTGTGAGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGTTGC
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGTTGC
*
85693 CACCAGCTTGTGTGGGCTTTG-GAAGGGTTA
66 CACCAGCTTGTGTGGGCTTTGAGAA-AGTTA
* * * * *
85723 CCACCGACTTGTGTGGCCTTTAGAAAGGGTTGCCACCAACTTGTGTAGGCTTTGAAGAAGGATGC
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGTTGC
* * * **
85788 CACCAGCTTCTGTGGACCTT-AGAGGGGTTA
66 CACCAGCTTGTGTGGGCTTTGAGA-AAGTTA
* * * * *
85818 CCACCAACTTGTGTGGGTTTTAGAAAAGGTTGCCACCAACGTCTATGGGCTTTAGAA-AGGGTTG
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTT-GAAGAAGGTTG
* *
85882 CCACCAACTTGTGTGGGCTTTGAAGAAAGTTG
65 CCACCAGCTTGTGTGGGCTTTG-AGAAAGTTA
* * * *
85914 CCACCAATTTCTGTGGGCTTT-GGAGGGGTTGCCAC
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCAC
85949 TAATTCGTCC
Statistics
Matches: 269, Mismatches: 44, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
95 235 0.87
96 31 0.12
97 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (95 bp):
CCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTATGGGCTTTGAAGAAGGTTGC
CACCAGCTTGTGTGGGCTTTGAGAAAGTTA
Found at i:86483 original size:52 final size:51
Alignment explanation
Indices: 86403--86663 Score: 233
Period size: 52 Copynumber: 5.0 Consensus size: 51
86393 AAAGATGATA
* * *
86403 AAGATGAGAAAAGTGCTAA-AGTGCTGATTCAAGG-TCAGCGACGTTGGGCTT
1 AAGATGATAAAAGTGCCAATA-TGCTGATTCAAGGCT-AGCGACGTTGGACTT
*
86454 AATGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACTT
1 AA-GATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGACGTTGGACTT
* * * * * * *
86506 GAGA-AAAAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
1 AAGATGATAA-AA-GTGCCAATATGCTGATTCAAGGCTAGCGACGTTGGACTT
* *
86558 AAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACTT
1 -AAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGACGTTGGACTT
* * * * * * * *
86610 GAGAAAGA-AGAAGGTGCCAATTTGCTAATTCAAGGCCAGCAACATTGGACTT
1 AAG-ATGATA-AAAGTGCCAATATGCTGATTCAAGGCTAGCGACGTTGGACTT
86662 AA
1 AA
86664 AGATAATGAA
Statistics
Matches: 171, Mismatches: 30, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
50 3 0.02
51 9 0.05
52 150 0.88
53 6 0.04
54 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (51 bp):
AAGATGATAAAAGTGCCAATATGCTGATTCAAGGCTAGCGACGTTGGACTT
Found at i:86603 original size:104 final size:104
Alignment explanation
Indices: 86423--86667 Score: 409
Period size: 104 Copynumber: 2.4 Consensus size: 104
86413 AAGTGCTAAA
* * * * *
86423 GTGCTGATTCAAGGTCAGCGACGTTGGGCTTAATGATGATAAAAGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAAGTGCCAATATGCTGATTCAAG
86488 GCTAGCGATGTTGGACTTGAGAAAAAAGAAGGTGCCAAT
66 GCTAGCGATGTTGGACTTGAGAAAAAAGAAGGTGCCAAT
*
86527 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAAGTGCCAATATGCTGATTCAAG
*
86592 GCTAGCGATGTTGGACTTGAGAAAGAAGAAGGTGCCAAT
66 GCTAGCGATGTTGGACTTGAGAAAAAAGAAGGTGCCAAT
* *
86631 TTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGAT
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT
86668 AATGAAGATG
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 132 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (104 bp):
GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAAGTGCCAATATGCTGATTCAAG
GCTAGCGATGTTGGACTTGAGAAAAAAGAAGGTGCCAAT
Found at i:87016 original size:63 final size:63
Alignment explanation
Indices: 86845--87136 Score: 197
Period size: 63 Copynumber: 4.6 Consensus size: 63
86835 TAGAAGGAGA
* * ** * *
86845 TGCCACGAACTTGTGTGGACTTTTGAA-AGGGTTGCCA-TTGACTTGTGTGGGCTTTAAGAAGGG
1 TGCCACCAACTTGTGTGGGC-TTTGAAGA-GGTTGCCACCAG-CTTGTGTAGGCTTTAAAAAGGG
86908 T
63 T
** **
86909 AACCACCAGTTTGTGTGGGCTTTGAAG-GGATTGCCACC-GACTTGTGT-GGCTTTAAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGG-TTGCCACCAG-CTTGTGTAGGCTTTAAAAAGGGT
* ** *
86971 TGCCACCAACTTGTGCGGGCTTTGAAGAAGGTTGCCACCAGCTTGTGTAGGCTTT-GGAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAG-AGGTTGCCACCAGCTTGTGTAGGCTTTAAAAAGGGT
* ** * * * *
87034 TCCCACCAACTTGTGTAAGCTTTAGAA-ATGGTTGCCCCCAACTTATGT-GAGCTTTGAGAAA-G
1 TGCCACCAACTTGTGTGGGCTTT-GAAGA-GGTTGCCACCAGCTTGTGTAG-GCTTT-AAAAAGG
87096 GT
62 GT
* * * * *
87098 TGCTACCAACTTCTGTGGGCTTTGGAGGGGTTGTCACCA
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGTTGCCACCA
87137 ATTCGTCCCC
Statistics
Matches: 181, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
62 40 0.22
63 92 0.51
64 47 0.26
65 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (63 bp):
TGCCACCAACTTGTGTGGGCTTTGAAGAGGTTGCCACCAGCTTGTGTAGGCTTTAAAAAGGGT
Found at i:87089 original size:95 final size:94
Alignment explanation
Indices: 86847--87129 Score: 291
Period size: 95 Copynumber: 3.0 Consensus size: 94
86837 GAAGGAGATG
* * ** *** **
86847 CCACGAACTTGTGTGGACTTTTGAAAGGGTTGCCATTGACTTGTGTGGGCTTT-AAGAAGGGTAA
1 CCACCAACTTGTGTAG-CTTTAAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAA-GGTTG
* * * *
86911 CCACCAGTTTGTGTGGGCTTTGAAGGGATTG
64 CCACCAGCTTGTGTGGGCTTTGGAGGGGTTC
* * *
86942 CCACCGACTTGTGTGGCTTTAAAAAGGGTTGCCACCAACTTGTGCGGGCTTTGAAGAAGGTTGCC
1 CCACCAACTTGTGTAGCTTTAAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCC
*
87007 ACCAGCTTGTGTAGGCTTTGGAGGGGTTC
66 ACCAGCTTGTGTGGGCTTTGGAGGGGTTC
* * * * *
87036 CCACCAACTTGTGTAAGCTTTAGAAATGGTTGCCCCCAACTTATGTGAGCTTTG-AGAAAGGTTG
1 CCACCAACTTGTGT-AGCTTTAAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAG-AAGGTTG
* * *
87100 CTACCAACTTCTGTGGGCTTTGGAGGGGTT
64 CCACCAGCTTGTGTGGGCTTTGGAGGGGTT
87130 GTCACCAATT
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
94 74 0.47
95 84 0.53
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (94 bp):
CCACCAACTTGTGTAGCTTTAAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCC
ACCAGCTTGTGTGGGCTTTGGAGGGGTTC
Found at i:87121 original size:32 final size:32
Alignment explanation
Indices: 86845--87121 Score: 201
Period size: 32 Copynumber: 8.8 Consensus size: 32
86835 TAGAAGGAGA
* * *
86845 TGCCACGAACTTGTGTGGACTTTTGA-AAGGGT
1 TGCCACCAACTTGTGTGGGC-TTTGAGAAAGGT
*** * *
86877 TGCCATTGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAAGGT
** ** *
86909 AACCACCAGTTTGTGTGGGCTTT--GAAGGGAT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAAGG-T
* *
86940 TGCCACCGACTTGTGT-GGCTTT-AAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAA-GGT
*
86971 TGCCACCAACTTGTGCGGGCTTTGA-AGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGA-AAGGT
* * **
87003 TGCCACCAGCTTGTGTAGGCTTTG-GAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAAGGT
* **
87034 TCCCACCAACTTGTGTAAGCTTT-AGAAATGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAA-GGT
* * *
87066 TGCCCCCAACTTATGTGAGCTTTGAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAAGGT
* *
87098 TGCTACCAACTTCTGTGGGCTTTG
1 TGCCACCAACTTGTGTGGGCTTTG
87122 GAGGGGTTGT
Statistics
Matches: 195, Mismatches: 39, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
30 12 0.06
31 58 0.30
32 117 0.60
33 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAGAAAGGT
Found at i:87743 original size:52 final size:53
Alignment explanation
Indices: 87681--87837 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 53
87671 TTGAGAAAGA
* *
87681 AGAAAGTGCCAGTGTGCTGATTCAAGGCGAGCAACATTGGACTTAAAGATGAT
1 AGAAAGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
* * ** * * *
87734 A-AAAGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTGAGGAAGA-
1 AGAAAGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
* *
87785 AGAAGGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
1 AGAAAGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
87838 GAAGATGAGA
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
51 1 0.01
52 82 0.98
53 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (53 bp):
AGAAAGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAT
Found at i:88048 original size:32 final size:31
Alignment explanation
Indices: 87996--88432 Score: 374
Period size: 32 Copynumber: 13.8 Consensus size: 31
87986 CCAACGACAT
* * *
87996 TGGGCTTAGAAAGAGATGCCACCAACTTGTG
1 TGGGCTTTGAAAGGGTTGCCACCAACTTGTG
* * *
88027 TGGACTTTTGAAAGGATTGCCACCGACTTGTG
1 TGGGC-TTTGAAAGGGTTGCCACCAACTTGTG
* * * *
88059 GGGGCTTTAAGAAGGGTTACCACCAGCTTGTG
1 TGGGCTTTGA-AAGGGTTGCCACCAACTTGTG
* *
88091 TGAGCTTTG-AAGGGATTGCCACCGACTTGTG
1 TGGGCTTTGAAAGGG-TTGCCACCAACTTGTG
* *
88122 TAGGCTTTAGAAAGGGTTGCCACCAACTCGTG
1 TGGGCTTT-GAAAGGGTTGCCACCAACTTGTG
** * *
88154 CAGGCTTTGAAGAAGGTTGCCATCAACTTGTG
1 TGGGCTTTGAA-AGGGTTGCCACCAACTTGTG
* * * *
88186 TAGGCTTT-AGAGGGGTTACCACCGACTTGTG
1 TGGGCTTTGA-AAGGGTTGCCACCAACTTGTG
* * *
88217 TGGGCTTTAAAAAGGATTGCCACCAACTTGTA
1 TGGGCTTT-GAAAGGGTTGCCACCAACTTGTG
* * *
88249 TGGGCTTTGAAGAAGGTTGCCGCCAACTTATG
1 TGGGCTTTGAA-AGGGTTGCCACCAACTTGTG
* ** **
88281 TGGGCTTTGGAAGGGTTGCCACTGACTTACG
1 TGGGCTTTGAAAGGGTTGCCACCAACTTGTG
* * * *
88312 TGAGCTTTAGAAAGGGTTGCTACTAACTTTTG
1 TGGGCTTT-GAAAGGGTTGCCACCAACTTGTG
* *
88344 TGGGCTTTAGAAAGGGTTACCACCAACTTATG
1 TGGGCTTT-GAAAGGGTTGCCACCAACTTGTG
* *
88376 TGGGCTTTGAAAAAGGTTGCCACCAACTTCTG
1 TGGGCTTTG-AAAGGGTTGCCACCAACTTGTG
* *
88408 TGGGCTTTGGAGGGGTTGCCACCAA
1 TGGGCTTTGAAAGGGTTGCCACCAA
88433 TTCGTCCCCG
Statistics
Matches: 326, Mismatches: 68, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
30 5 0.02
31 91 0.28
32 224 0.69
33 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (31 bp):
TGGGCTTTGAAAGGGTTGCCACCAACTTGTG
Found at i:88107 original size:63 final size:62
Alignment explanation
Indices: 88014--88430 Score: 283
Period size: 63 Copynumber: 6.6 Consensus size: 62
88004 GAAAGAGATG
* **
88014 CCACCAACTTGTGTG-GACTTTTGAAAGGATTGCCACCGACTTGTGGGGGCTTTAAGAAGGGTTA
1 CCACCAACTTGTGTGAG-C-TTTGAAGGGATTGCCACCGACTTGTGTAGGCTTT-AGAAGGGTTA
* *
88078 CCACCAGCTTGTGTGAGCTTTGAAGGGATTGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTG
1 CCACCAACTTGTGTGAGCTTTGAAGGGATTGCCACCGACTTGTGTAGGCTTTAG-AAGGGTTA
* * * * *
88141 CCACCAACTCGTG-CAGGCTTTGAAGAAGG-TTGCCATCAACTTGTGTAGGCTTTAGAGGGGTTA
1 CCACCAACTTGTGTGA-GCTTTGAAG--GGATTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTA
* * * * * * * *
88204 CCACCGACTTGTGTGGGCTTTAAAAAGGATTGCCACCAACTTGTATGGGCTTT-GAAGAAGGTTG
1 CCACCAACTTGTGTGAGCTTT-GAAGGGATTGCCACCGACTTGTGTAGGCTTTAGAAG--GGTTA
* * * *
88268 CCGCCAACTTATGTGGGCTTTGGAAGGG-TTGCCACTGACTTACGTG-A-GCTTTAGAAAGGGTT
1 CCACCAACTTGTGTGAGCTTT-GAAGGGATTGCCACCGACTT--GTGTAGGCTTTAG-AAGGGTT
*
88330 G
62 A
* * * * * * * * * * *
88331 CTACTAACTTTTGTGGGCTTTAGAAAGGG-TTACCACCAACTTATGTGGGCTTTGAAAAAGGTTG
1 CCACCAACTTGTGTGAGCTTT-G-AAGGGATTGCCACCGACTTGTGTAGGCTTT-AGAAGGGTTA
* * * *
88395 CCACCAACTTCTGTGGGCTTTGGAGGGGTTGCCACC
1 CCACCAACTTGTGTGAGCTTTGAAGGGATTGCCACC
88431 AATTCGTCCC
Statistics
Matches: 284, Mismatches: 50, Indels: 39
0.76 0.13 0.10
Matches are distributed among these distances:
62 14 0.05
63 148 0.52
64 113 0.40
65 9 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (62 bp):
CCACCAACTTGTGTGAGCTTTGAAGGGATTGCCACCGACTTGTGTAGGCTTTAGAAGGGTTA
Found at i:88184 original size:95 final size:94
Alignment explanation
Indices: 88012--88432 Score: 388
Period size: 95 Copynumber: 4.4 Consensus size: 94
88002 TAGAAAGAGA
* * * * *
88012 TGCCACCAACTTGTGT-GGACTTTTGAAAGGATTGCCACCGACTTGTGGGGGCTTT-AAGAAGGG
1 TGCCACCGACTTGTGTAGG-CTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAA-GG
* *
88075 TTACCACCAGCTTGTGTGAGCTTTGAAGGGAT
64 TTACCACCAACTTATGTGAGCTTTGAAGGG-T
* **
88107 TGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCAACTCGTGCAGGCTTTGAAGAAGGTT
1 TGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTT
* * * *
88172 GCCATCAACTTGTGT-AGGCTTTAGAGGGGT
66 ACCACCAACTTATGTGA-GCTTT-GAAGGGT
* * * * *
88202 TACCACCGACTTGTGTGGGCTTTAAAAAGGATTGCCACCAACTTGTATGGGCTTTGAAGAAGGTT
1 TGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTT
* * *
88267 GCCGCCAACTTATGTGGGCTTTGGAAGGGT
66 ACCACCAACTTATGTGAGCTTT-GAAGGGT
* * * * *
88297 TGCCACTGACTTACGTG-A-GCTTTAGAAAGGGTTGCTACTAACTTTTGTGGGCTTTAGAA-AGG
1 TGCCACCGACTT--GTGTAGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTT-GAAGAAG
* *
88359 GTTACCACCAACTTATGTGGGCTTTGAAAAAGGT
63 GTTACCACCAACTTATGTGAGCTTTG--AAGGGT
* * * * *
88393 TGCCACCAACTTCTGTGGGCTTT-GGAGGGGTTGCCACCAA
1 TGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCAA
88433 TTCGTCCCCG
Statistics
Matches: 268, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
94 4 0.01
95 226 0.84
96 35 0.13
97 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (94 bp):
TGCCACCGACTTGTGTAGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTT
ACCACCAACTTATGTGAGCTTTGAAGGGT
Found at i:88287 original size:127 final size:122
Alignment explanation
Indices: 88012--88429 Score: 396
Period size: 127 Copynumber: 3.3 Consensus size: 122
88002 TAGAAAGAGA
* *
88012 TGCCACCAACTTGTGTGGACTTTTGA-AAGGATTGCCACCGACTTGTGGGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGC-TTTGAGAAGG-TTGCCA-CGACTTGT-GAGGCTTT-AGAAGGGT
* * * * *
88076 TACCACCAGCTTGTGTGAGCTTT-GAAGGGATTGCCACCGACTTGTGTAGGCTTTAGAAAGGGT
61 TACCACCA-CTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTGTGTGGGCTTT-GAAAAGGT
* ** * *
88139 TGCCACCAACTCGTGCAGGCTTTGAAGAAGGTTGCCATCAACTTGTGTAGGCTTTAGAGGGGTTA
1 TGCCACCAACTTGTGTGGGCTTTG-AGAAGGTTGCCA-CGACTTGTG-AGGCTTTAGAAGGGTTA
* *
88204 CCACCGACTTGTGTGGGCTTTAAAAAGGATTGCCACCAACTTGTATGGGCTTTGAAGAAGGT
63 CCACC-ACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTGTGTGGGCTTTGAA-AAGGT
* *
88266 TGCCGCCAACTTATGTGGGCTTTG-GAAGGGTTGCCACTGACTTACGTGA-GCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAA-GGTTGCCAC-GACTT--GTGAGGCTTTAG-AAGGGT
* * * * * * *
88329 TGCTACTAACTTTTGTGGGCTTTAGAAAGGGTTACCACCAACTTATGTGGGCTTTGAAAAAGGT
61 TACCAC-CACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTGTGTGGGCTTTG-AAAAGGT
* *
88393 TGCCACCAACTTCTGTGGGCTTTG-GAGGGGTTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTGAGA-AGGTTGCCAC
88430 CAATTCGTCC
Statistics
Matches: 243, Mismatches: 34, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
125 4 0.02
126 54 0.22
127 176 0.72
128 9 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (122 bp):
TGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACGACTTGTGAGGCTTTAGAAGGGTTACCA
CCACTTGTGTGGGCTTTAGAAAGGATTGCCACCAACTTGTGTGGGCTTTGAAAAGGT
Found at i:89158 original size:66 final size:65
Alignment explanation
Indices: 89043--89169 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 65
89033 AAGCTGTTGC
* * *
89043 TATTGCTGTTGCTGTTAATTCGGTCTAATCTTCAATCTAGGTTTGGTTTTGTTGCTATTGCCTAT
1 TATTGCTGTTGCTGTTAATTCGGTCTAATCTTCAATCTAAGTTTAGTTTTGTTGCCATTGCCTAT
*
89108 TATTGCCTGTTGCTGTTAATTCGGTTTAATCTTCAATCTAAGTTTAGTTTTGTTGCCATTGC
1 TATTG-CTGTTGCTGTTAATTCGGTCTAATCTTCAATCTAAGTTTAGTTTTGTTGCCATTGC
89170 TTGTTACTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 5 0.09
66 52 0.91
ACGTcount: A:0.17, C:0.16, G:0.19, T:0.49
Consensus pattern (65 bp):
TATTGCTGTTGCTGTTAATTCGGTCTAATCTTCAATCTAAGTTTAGTTTTGTTGCCATTGCCTAT
Found at i:90895 original size:25 final size:22
Alignment explanation
Indices: 90867--90912 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
90857 TTTGTATTAT
90867 ATATTTTTAATTAAATTTAAATAAA
1 ATATTTTT-ATT-AA-TTAAATAAA
90892 ATATTTTTATTAATTAAATAA
1 ATATTTTTATTAATTAAATAA
90913 TAATTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 3 0.14
25 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTTTATTAATTAAATAAA
Found at i:92955 original size:14 final size:13
Alignment explanation
Indices: 92919--92957 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
92909 TGTTTAAAAT
92919 CATATATGACATG
1 CATATATGACATG
92932 CATATATGACATG
1 CATATATGACATG
*
92945 CATCCTATGACAT
1 CAT-ATATGACAT
92958 TTTCATGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (13 bp):
CATATATGACATG
Found at i:93376 original size:58 final size:58
Alignment explanation
Indices: 93299--93436 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 58
93289 CATTTATATC
* * * *
93299 ATTTACCATGATCTAGGGACTTGGAT-GCATTT-TTATGAATTTTGTTGCTATTTAGGTT
1 ATTTTCCATGATATAGGGACTTGGATAGCATTTCATAT--ATTTTGATGCTATTTAGGTT
* ** * *
93357 ATTTTCCATTATATAGGGACTTTTATATCATTTCATATATTTTGATGTTATTTAGGTT
1 ATTTTCCATGATATAGGGACTTGGATAGCATTTCATATATTTTGATGCTATTTAGGTT
* *
93415 ATTTTGCATGATCTAGGGACTT
1 ATTTTCCATGATATAGGGACTT
93437 TTATGTGATT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 58 0.88
59 5 0.08
60 3 0.05
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (58 bp):
ATTTTCCATGATATAGGGACTTGGATAGCATTTCATATATTTTGATGCTATTTAGGTT
Found at i:93437 original size:58 final size:57
Alignment explanation
Indices: 93337--93596 Score: 220
Period size: 58 Copynumber: 4.5 Consensus size: 57
93327 ATTTTTATGA
* * * *
93337 ATTTTGTTGCTATTTAGGTTATTTTCCATTATATAGGGACTTTTATATCATTTCATAT
1 ATTTTG-TGTTATTTAGGTTATTTTCCATGATCTAGGGACTTTTATATAATTTCATAT
* * * * *
93395 ATTTTGATGTTATTTAGGTTATTTTGCATGATCTAGGGACTTTTATGTGATTTTATAA
1 ATTTTG-TGTTATTTAGGTTATTTTCCATGATCTAGGGACTTTTATATAATTTCATAT
* * * * ** *
93453 ATGTTGGGTCATTTAGGTCA--TTCCATGATCTACAGACTTTTATGTAATTTCATAT
1 ATTTTGTGTTATTTAGGTTATTTTCCATGATCTAGGGACTTTTATATAATTTCATAT
* * * * * * * *
93508 ATGTTGGGATCATTTAGATCATTTTTCATGATCTAAGGACTTTTATAAAATTTCATAT
1 ATTTTGTG-TTATTTAGGTTATTTTCCATGATCTAGGGACTTTTATATAATTTCATAT
* *
93566 ATTTTAGTGGTT-TTTAAGTTATTTTTCATGA
1 ATTTT-GT-GTTATTTAGGTTATTTTCCATGA
93597 CTTAAGAATT
Statistics
Matches: 166, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
55 37 0.22
56 11 0.07
57 11 0.07
58 104 0.63
59 2 0.01
60 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (57 bp):
ATTTTGTGTTATTTAGGTTATTTTCCATGATCTAGGGACTTTTATATAATTTCATAT
Found at i:93491 original size:55 final size:56
Alignment explanation
Indices: 93421--93564 Score: 166
Period size: 55 Copynumber: 2.5 Consensus size: 56
93411 GGTTATTTTG
* * * *
93421 CATGATCTAGGGACTTTTATGTGATTTTATAAATGTTGGG-TCATTTAGGTCA-TTC
1 CATGATCTA-AGACTTTTATGTAATTTCATAAATGTTGGGATCATTTAGATCATTTC
* *
93476 CATGATCTACAGACTTTTATGTAATTTCATATATGTTGGGATCATTTAGATCATTTTT
1 CATGATCTA-AGACTTTTATGTAATTTCATAAATGTTGGGATCATTTAGATCA-TTTC
**
93534 CATGATCTAAGGACTTTTATAAAATTTCATA
1 CATGATCTAA-GACTTTTATGTAATTTCATA
93565 TATTTTAGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 35 0.46
56 11 0.14
57 1 0.01
58 29 0.38
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (56 bp):
CATGATCTAAGACTTTTATGTAATTTCATAAATGTTGGGATCATTTAGATCATTTC
Found at i:99870 original size:17 final size:17
Alignment explanation
Indices: 99830--99871 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
99820 TTAAAAAAAA
99830 AATTGA-ACATACTTAT
1 AATTGACACATACTTAT
*
99846 -GTTAGACACATACTTAT
1 AATT-GACACATACTTAT
99863 AATTGACAC
1 AATTGACAC
99872 TTGCACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.10
16 2 0.10
17 15 0.71
18 2 0.10
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (17 bp):
AATTGACACATACTTAT
Found at i:100080 original size:9 final size:9
Alignment explanation
Indices: 100056--100090 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
100046 GGGAAAAGAC
*
100056 GAAGATGAG
1 GAAGATGAT
*
100065 GACGATGAT
1 GAAGATGAT
100074 GAAGATGAT
1 GAAGATGAT
100083 GAAGATGA
1 GAAGATGA
100091 GGCGGATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.03, G:0.37, T:0.17
Consensus pattern (9 bp):
GAAGATGAT
Found at i:101867 original size:14 final size:16
Alignment explanation
Indices: 101850--101882 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
101840 TTCAATTAAG
101850 AAAAAAA-TAAA-ATT
1 AAAAAAATTAAATATT
101864 AAAAAAATTAAATATT
1 AAAAAAATTAAATATT
101880 AAA
1 AAA
101883 TTTATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAATTAAATATT
Found at i:101987 original size:8 final size:8
Alignment explanation
Indices: 101974--102009 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
101964 GGAGACTTAT
101974 ATAATTTA
1 ATAATTTA
101982 ATAATTT-
1 ATAATTTA
101989 A-AATTTA
1 ATAATTTA
101996 ATAATTTA
1 ATAATTTA
102004 ATAATT
1 ATAATT
102010 CGAGAGCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 5 0.19
7 2 0.08
8 19 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATTTA
Done.