Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold506
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: 486993
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:8307 original size:13 final size:13
Alignment explanation
Indices: 8288--8318 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8278 GCAATTCATC
8288 ATGTATCGATACA
1 ATGTATCGATACA
*
8301 TTGTATCGATACA
1 ATGTATCGATACA
8314 ATGTA
1 ATGTA
8319 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8324 original size:33 final size:33
Alignment explanation
Indices: 8269--8333 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8259 TTAGAAGCAA
* *
8269 TGTATCGATGCAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCACCATGTATCGATACAT
8302 TGTATCGATACAATGT-ACCATGTATCGATACA
1 TGTATCGATACAAT-TCACCATGTATCGATACA
8334 AACAGTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCGATACAT
Found at i:8388 original size:20 final size:20
Alignment explanation
Indices: 8363--8418 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
8353 CTGCCAGTTT
* **
8363 CATGTATCGATACTATTGTC
1 CATGTATCGATACTAATGAA
*
8383 CATGTATTGATA-TAATGAA
1 CATGTATCGATACTAATGAA
8402 CATGTATCGATAC-AATG
1 CATGTATCGATACTAATG
8419 TATCTATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACTAATGAA
Found at i:12893 original size:62 final size:62
Alignment explanation
Indices: 12827--13114 Score: 281
Period size: 62 Copynumber: 4.7 Consensus size: 62
12817 CCTTTTATTT
* ** * *
12827 TTTTAGTCCTCAAAGAGCAAGATGTTTTTTTCTTTTTAAAGCCCTTACGAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCTTACGAGTTGGTAGCACC
* *
12889 TTTTAGTCCTCAAACAGCAGGATGCCTTTTTCTTTTTAAAG-CC-TACATGAGTTGGT-GCCACC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCTTAC--GAGTTGGTAG-CACC
* **** * *
12951 TTTTAGTCCTCAAAGAGTAGGATG-C--AGAGC----AAGATGCCTTTCACGAGTTGGTAGCATC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAA-A-GCCCTT-ACGAGTTGGTAGCACC
* * *
13009 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCCTTTTAAAGCCCATAAGAGTTGGTAGCACC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCTTACGAGTTGGTAGCACC
* *
13071 TTTTAGTCCTTAAAGAGCAGGATGCCTTTTTCCTTTCAAAGCCC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCC
13115 ACGTGAATTT
Statistics
Matches: 184, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
55 2 0.01
56 1 0.01
57 1 0.01
58 34 0.18
59 3 0.02
60 5 0.03
61 5 0.03
62 126 0.68
63 4 0.02
64 1 0.01
65 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
TTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCTTACGAGTTGGTAGCACC
Found at i:13046 original size:120 final size:120
Alignment explanation
Indices: 12873--13095 Score: 340
Period size: 120 Copynumber: 1.9 Consensus size: 120
12863 TAAAGCCCTT
* * * * *
12873 ACGAGTTGGTGGCACCTTTTAGTCCTCAAACAGCAGGATGCCTTTTTCTTTTTAAAGCCTACATG
1 ACGAGTTGGTAGCACCTTTTAGTCCTCAAACAGCAAGATGCCTTTTTCCTTTTAAAGCCCACAAG
*
12938 AGTTGGT-GCCACCTTTTAGTCCTCAAAGAGTAGGATGCAGAGCAAGATGCCTTTC
66 AGTTGGTAG-CACCTTTTAGTCCTCAAAGAGCAGGATGCAGAGCAAGATGCCTTTC
* * *
12993 ACGAGTTGGTAGCATCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCCTTTTAAAGCCCATAAG
1 ACGAGTTGGTAGCACCTTTTAGTCCTCAAACAGCAAGATGCCTTTTTCCTTTTAAAGCCCACAAG
*
13058 AGTTGGTAGCACCTTTTAGTCCTTAAAGAGCAGGATGC
66 AGTTGGTAGCACCTTTTAGTCCTCAAAGAGCAGGATGC
13096 CTTTTTCCTT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 91 0.99
121 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (120 bp):
ACGAGTTGGTAGCACCTTTTAGTCCTCAAACAGCAAGATGCCTTTTTCCTTTTAAAGCCCACAAG
AGTTGGTAGCACCTTTTAGTCCTCAAAGAGCAGGATGCAGAGCAAGATGCCTTTC
Found at i:13478 original size:159 final size:157
Alignment explanation
Indices: 13217--13604 Score: 401
Period size: 159 Copynumber: 2.5 Consensus size: 157
13207 TTTAACCTCA
* * * * * * *
13217 TTATTTTCAAAGTATTAAAATTTTCATCTCGGGGATACTCCAACCTCGTTATTTTGAGGGTATAT
1 TTATTTCCAAAATATTAAAATTTTCAACTCGGAGATACTCAAACCTCGTTATTTTGAGGGGATAC
* ** * * *
13282 TCTAACCCTATTTTTATTTTTGAAATATTAAAATTTTCATCTCGGGGATATTCC-AGCCCCGTTA
66 TCCAACCCTATTTTTATTTTCAAAATATTAAAATTTTCACCTCGGGGATAATCCGA-CACCGTTA
*
13346 TTTTCGAAGGGATA-TCCAACCTC-ATTT
130 TTTCCGAAGGGATACTCCAACC-CAATTT
** * *
13373 TTA-TTCTTGAAATATTAAAATTTTCAACTCGGAGATACTTAAACCCTTGTTATTTCTCGAGGGG
1 TTATTTC-CAAAATATTAAAATTTTCAACTCGGAGATACTCAAA-CCTCGTTATTT-T-GAGGGG
* * *
13437 ATACTCCAACGCC-ATTTTTATTTTCAAAATATTAAATTTTTCACCTTGGGGATAATCCGACATC
62 ATACTCCAAC-CCTATTTTTATTTTCAAAATATTAAAATTTTCACCTCGGGGATAATCCGACACC
*
13501 GTTATTTCCGAGGGGATACTCCAACCCAATTT
126 GTTATTTCCGAAGGGATACTCCAACCCAATTT
* * ** * * *
13533 TTATTTCCAAAATATTAAAATTTTCATCATCGGGGGCACTCCAACCTCG-TATTTAGAAGGGATA
1 TTATTTCCAAAATATTAAAATTTTCAAC-TCGGAGATACTCAAACCTCGTTATTTTGAGGGGATA
13597 CTCCAACC
65 CTCCAACC
13605 TTGTTTCTTT
Statistics
Matches: 189, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
155 2 0.01
156 33 0.17
157 25 0.13
158 1 0.01
159 76 0.40
160 39 0.21
161 13 0.07
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (157 bp):
TTATTTCCAAAATATTAAAATTTTCAACTCGGAGATACTCAAACCTCGTTATTTTGAGGGGATAC
TCCAACCCTATTTTTATTTTCAAAATATTAAAATTTTCACCTCGGGGATAATCCGACACCGTTAT
TTCCGAAGGGATACTCCAACCCAATTT
Found at i:13537 original size:79 final size:79
Alignment explanation
Indices: 13217--13604 Score: 398
Period size: 78 Copynumber: 4.9 Consensus size: 79
13207 TTTAACCTCA
* * *
13217 TTATTTTCAAAGTATTAAAATTTTCATCTCGGGGATACTCCAA-CCTCGTTATTT-TGAGGGTAT
1 TTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTCGTTATTTCCGAGGGGAT
* *
13280 ATTCTAACCCTATTT
66 ACTCCAACCC-ATTT
** * * * *
13295 TTATTTTTGAAATATTAAAATTTTCATCTCGGGGATATTCCAGCCC-CGTTATTTTCGAAGGGAT
1 TTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTCGTTATTTCCGAGGGGAT
13359 A-TCCAACCTCATTT
66 ACTCCAACC-CATTT
* * * ** *
13373 TTATTCTT-GAAATATTAAAATTTTCAACTCGGAGATACTTAAACCCTTGTTATTTCTCGAGGGG
1 TTATT-TTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTCGTTATTTC-CGAGGGG
13437 ATACTCCAACGCCATTT
64 ATACTCCAAC-CCATTT
* * * * * *
13454 TTATTTTCAAAATATTAAATTTTTCACCTTGGGGATAATCCGA-CATCGTTATTTCCGAGGGGAT
1 TTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTCGTTATTTCCGAGGGGAT
13518 ACTCCAACCCAATTT
66 ACTCCAACCC-ATTT
* ** * *
13533 TTATTTCCAAAATATTAAAATTTTCATCATCGGGGGCACTCCAA-CCTCG-TATTT-AGAAGGGA
1 TTATTTTCAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACCCTCGTTATTTCCGAGGGGA
13595 TACTCCAACC
65 TACTCCAACC
13605 TTGTTTCTTT
Statistics
Matches: 259, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
78 111 0.43
79 70 0.27
80 35 0.14
81 42 0.16
82 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (79 bp):
TTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTCGTTATTTCCGAGGGGAT
ACTCCAACCCATTT
Found at i:15473 original size:22 final size:24
Alignment explanation
Indices: 15442--15488 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
15432 TGTTGATCAT
15442 TTATCCATAT-CACTAGTCAT-TCA
1 TTATCCATATCCACTA-TCATCTCA
15465 TTAT-CATATCCACTATCATCTCA
1 TTATCCATATCCACTATCATCTCA
15488 T
1 T
15489 CATAAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATCCATATCCACTATCATCTCA
Found at i:17504 original size:23 final size:23
Alignment explanation
Indices: 17478--17546 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
17468 TTCACCTCTA
17478 TTTAATTTTTTGTCCATACACAT
1 TTTAATTTTTTGTCCATACACAT
* ** *
17501 TTTAA--TCTTCACC-T-C-TA-
1 TTTAATTTTTTGTCCATACACAT
17518 TTTAATTTTTTGTCCATACACAT
1 TTTAATTTTTTGTCCATACACAT
17541 TTTAAT
1 TTTAAT
17547 CTTCACCTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 6 0.19
20 2 0.06
21 6 0.19
22 1 0.03
23 11 0.34
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAATTTTTTGTCCATACACAT
Found at i:17514 original size:40 final size:40
Alignment explanation
Indices: 17459--17554 Score: 183
Period size: 40 Copynumber: 2.4 Consensus size: 40
17449 TCATGCGTCT
*
17459 ATTTTATTCTTCACCTCTATTTAATTTTTTGTCCATACAC
1 ATTTTAATCTTCACCTCTATTTAATTTTTTGTCCATACAC
17499 ATTTTAATCTTCACCTCTATTTAATTTTTTGTCCATACAC
1 ATTTTAATCTTCACCTCTATTTAATTTTTTGTCCATACAC
17539 ATTTTAATCTTCACCT
1 ATTTTAATCTTCACCT
17555 TCACCCTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.51
Consensus pattern (40 bp):
ATTTTAATCTTCACCTCTATTTAATTTTTTGTCCATACAC
Found at i:19445 original size:51 final size:50
Alignment explanation
Indices: 19354--19449 Score: 138
Period size: 51 Copynumber: 1.9 Consensus size: 50
19344 TCTAACCCCA
** *
19354 TTTTTATTTCAAAATATTAAAATTTTTTTCTCGAATATACTCCAATCTCG
1 TTTTTATTTCAAAATATTAAAATTTTCATCTCGAAGATACTCCAATCTCG
**
19404 TTTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAA
1 TTTTTA-TTTCAAAATATTAAAATTTTCATCTCGAAGATACTCCAA
19450 CCCTATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 6 0.15
51 34 0.85
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (50 bp):
TTTTTATTTCAAAATATTAAAATTTTCATCTCGAAGATACTCCAATCTCG
Found at i:19487 original size:79 final size:79
Alignment explanation
Indices: 19390--19687 Score: 402
Period size: 79 Copynumber: 3.8 Consensus size: 79
19380 TTTCTCGAAT
* * * *
19390 ATACTCCAATCTCGTTTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
19455 TTATTTTTGAGGGG
66 TTATTTTTGAGGGG
* *
19469 ATACTCCAACCCCATTTTTGTTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTG
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
19534 TTATTTTTGAGGGG
66 TTATTTTTGAGGGG
* * ** *
19548 ATACTCAAACCCCA-TTTTATTTTCAAAATATTAAAATTTTCATCTTAGGGATAATCCAACCCTA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
* *
19612 TTATTTTCGAAGGG
66 TTATTTTTGAGGGG
* * * * * *
19626 ATACTCCAACCTC-TTTTTATTCCCAAATTATTAAATTTTTCATCATCGGGGGTACTCTAACC
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACC
19688 TCGTATTCAG
Statistics
Matches: 191, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 93 0.49
79 98 0.51
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.38
Consensus pattern (79 bp):
ATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTA
TTATTTTTGAGGGG
Found at i:19599 original size:157 final size:157
Alignment explanation
Indices: 19405--19687 Score: 442
Period size: 157 Copynumber: 1.8 Consensus size: 157
19395 CCAATCTCGT
* * * *
19405 TTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGGGA
1 TTTTATTTTCAAAATATTAAAATTTTCATCTCAGGGATAATCCAACCCTATTATTTTCGAAGGGA
* *
19470 TACTCCAACCCCATTTTTGTTTCCAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACCCTG
66 TACTCCAACCCC-TTTTTATTCCCAAAATATTAAAATTTTCATCATCGGGGATACTCCAACCCTG
19534 TTATTTTTGAGGGGATACTCAAACCCCA
130 TTATTTTTGAGGGGATACTCAAACCCCA
*
19562 TTTTATTTTCAAAATATTAAAATTTTCATCTTAGGGATAATCCAACCCTATTATTTTCGAAGGGA
1 TTTTATTTTCAAAATATTAAAATTTTCATCTCAGGGATAATCCAACCCTATTATTTTCGAAGGGA
* * * * *
19627 TACTCCAACCTCTTTTTATTCCCAAATTATTAAATTTTTCATCATCGGGGGTACTCTAACC
66 TACTCCAACCCCTTTTTATTCCCAAAATATTAAAATTTTCATCATCGGGGATACTCCAACC
19688 TCGTATTCAG
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
156 27 0.24
157 86 0.76
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (157 bp):
TTTTATTTTCAAAATATTAAAATTTTCATCTCAGGGATAATCCAACCCTATTATTTTCGAAGGGA
TACTCCAACCCCTTTTTATTCCCAAAATATTAAAATTTTCATCATCGGGGATACTCCAACCCTGT
TATTTTTGAGGGGATACTCAAACCCCA
Found at i:19616 original size:78 final size:78
Alignment explanation
Indices: 19405--19687 Score: 397
Period size: 78 Copynumber: 3.6 Consensus size: 78
19395 CCAATCTCGT
19405 TTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGGGA
1 TTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGGGA
19470 TACTCCAACCCCA
66 TACTCCAACCCCA
*
19483 TTTT-TGTTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTGTTATTTTTGAGGG
1 TTTTAT-TTT-CAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGG
*
19547 GATACTCAAACCCCA
64 GATACTCCAACCCCA
** * * *
19562 TTTTATTTTCAAAATATTAAAATTTTCATCTTAGGGATAATCCAACCCTATTATTTTCGAAGGGA
1 TTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGGGA
* *
19627 TACTCCAACCTCT
66 TACTCCAACCCCA
** * * * *
19640 TTTTATTCCCAAATTATTAAATTTTTCATCATCGGGGGTACTCTAACC
1 TTTTATTTTCAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACC
19688 TCGTATTCAG
Statistics
Matches: 181, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.01
78 93 0.51
79 86 0.48
80 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (78 bp):
TTTTATTTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCTATTATTTTTGAGGGGA
TACTCCAACCCCA
Found at i:22145 original size:13 final size:13
Alignment explanation
Indices: 22127--22154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22117 ATTACTCAAA
22127 TGTATCGATACAT
1 TGTATCGATACAT
22140 TGTATCGATACAT
1 TGTATCGATACAT
22153 TG
1 TG
22155 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26588 original size:20 final size:20
Alignment explanation
Indices: 26563--26656 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
26553 TTTTAACTAG
*
26563 ATGTATCAATAAATTGAAAA
1 ATGTATCAATACATTGAAAA
* *
26583 ATGTATCGATACATTGAAGA
1 ATGTATCAATACATTGAAAA
** * * *
26603 ATGTATTGATACATTCACAC
1 ATGTATCAATACATTGAAAA
*
26623 ATGTATCTATACATTGAAAA
1 ATGTATCAATACATTGAAAA
*
26643 ACGTATCAATACAT
1 ATGTATCAATACAT
26657 CTGGGTAAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGTATCAATACATTGAAAA
Found at i:26695 original size:20 final size:20
Alignment explanation
Indices: 26670--26707 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26660 GGTAAAAGAC
26670 AAAATGTATCAATACATTAA
1 AAAATGTATCAATACATTAA
*
26690 AAAATGTATCGATACATT
1 AAAATGTATCAATACATT
26708 TGGGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAATGTATCAATACATTAA
Found at i:27800 original size:20 final size:20
Alignment explanation
Indices: 27777--27892 Score: 116
Period size: 20 Copynumber: 6.5 Consensus size: 20
27767 ACATTTAATT
27777 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
27797 GTATCGATACA--TT-----
1 GTATCGATACATGTTGCACA
27810 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
27830 GTATCGATACA--TT-----
1 GTATCGATACATGTTGCACA
27843 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
**
27863 GTATCGATACATGTTGCATT
1 GTATCGATACATGTTGCACA
27883 GTATCGATAC
1 GTATCGATAC
27893 TTGAAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 28
0.73 0.02 0.25
Matches are distributed among these distances:
13 22 0.28
15 4 0.05
18 4 0.05
20 50 0.62
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCACA
Found at i:27815 original size:13 final size:13
Alignment explanation
Indices: 27797--27854 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
27787 ATGTTGCACA
27797 GTATCGATACATT
1 GTATCGATACATT
27810 GTATCGATACA-T
1 GTATCGATACATT
*
27822 GT-T-G-CACA--
1 GTATCGATACATT
27830 GTATCGATACATT
1 GTATCGATACATT
27843 GTATCGATACAT
1 GTATCGATACAT
27855 GTTGCACAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 2 0.05
9 4 0.11
10 2 0.05
11 4 0.11
12 3 0.08
13 23 0.61
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:27816 original size:33 final size:33
Alignment explanation
Indices: 27774--27874 Score: 202
Period size: 33 Copynumber: 3.1 Consensus size: 33
27764 TACACATTTA
27774 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
27807 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
27840 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
27873 AT
1 AT
27875 GTTGCATTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:27971 original size:19 final size:20
Alignment explanation
Indices: 27947--27997 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
27937 TAGCCAAACT
*
27947 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
27966 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
27986 TGTATCGATACA
1 TGTATCGATACA
27998 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:34185 original size:13 final size:13
Alignment explanation
Indices: 34167--34205 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34157 ACAGTATTCT
34167 TTGTATCGATACA
1 TTGTATCGATACA
34180 TTGTATCGATACA
1 TTGTATCGATACA
*
34193 CTGTATCGATACA
1 TTGTATCGATACA
34206 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:36689 original size:33 final size:33
Alignment explanation
Indices: 36642--36704 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
36632 TACACATTTA
36642 ATTGCATCGATACATGTTGCACAGTATCGACAC
1 ATTGCATCGATACATGTTGCACAGTATCGACAC
* **
36675 ATTGTATCGATACATGTTGCATTGTATCGA
1 ATTGCATCGATACATGTTGCACAGTATCGA
36705 TACTTGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (33 bp):
ATTGCATCGATACATGTTGCACAGTATCGACAC
Found at i:36798 original size:13 final size:13
Alignment explanation
Indices: 36780--36805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36770 TACACAAAGT
36780 ATGTATCGATACA
1 ATGTATCGATACA
36793 ATGTATCGATACA
1 ATGTATCGATACA
36806 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:36822 original size:33 final size:32
Alignment explanation
Indices: 36762--36825 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
36752 TAGCCAAACT
*
36762 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
36794 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
36826 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:37775 original size:32 final size:32
Alignment explanation
Indices: 37694--37778 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
37684 AAAATAGTTG
*
37694 CCACTGACTTGTGTGGGCTTTAAAAAAAGGTG
1 CCACTGACTTGTGTGGGCTTTAAAAAAAGGTA
* * * *
37726 CCACTAACTAGTGTGGGCTTTAAAAAGAGTTA
1 CCACTGACTTGTGTGGGCTTTAAAAAAAGGTA
*
37758 CCA-TCGACTTGTCTGGGCTTT
1 CCACT-GACTTGTGTGGGCTTT
37779 GCAAGGGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (32 bp):
CCACTGACTTGTGTGGGCTTTAAAAAAAGGTA
Found at i:37824 original size:28 final size:27
Alignment explanation
Indices: 37786--38093 Score: 420
Period size: 28 Copynumber: 11.0 Consensus size: 27
37776 TTTGCAAGGG
37786 GATGCCACTGACTTGTGGGCTTTGAAA
1 GATGCCACTGACTTGTGGGCTTTGAAA
* *
37813 TGGTGCCACTGACTTATGGGCTTTGAAA
1 -GATGCCACTGACTTGTGGGCTTTGAAA
*
37841 CGATGCCACTAACTTGTGGGCTTTGAAA
1 -GATGCCACTGACTTGTGGGCTTTGAAA
37869 GGATGCCACTGACTTGTGGGCTTTGAAA
1 -GATGCCACTGACTTGTGGGCTTTGAAA
37897 GGATGCCACTGACTTGTGGG-TTTGAAA
1 -GATGCCACTGACTTGTGGGCTTTGAAA
*
37924 GGGTGCCACTGACTTGTGGGCTTTGAAAA
1 -GATGCCACTGACTTGTGGGCTTTG-AAA
* *
37953 TATGCCACCGACTTGTGGGCTTTGAGAA
1 GATGCCACTGACTTGTGGGCTTTGA-AA
*
37981 GAATGCCACTGACTTGTGGGCTTTAAAAA
1 G-ATGCCACTGACTTGTGGGCTTT-GAAA
*
38010 GATGCCACTAACTTGTGGGCTTTGAAAA
1 GATGCCACTGACTTGTGGGCTTTG-AAA
38038 GATGCCACTGACTTGTGGGCTTTGAGAA
1 GATGCCACTGACTTGTGGGCTTTGA-AA
*
38066 GGATGCCACTGACTTGTTGGCTTTGAAA
1 -GATGCCACTGACTTGTGGGCTTTGAAA
38094 AGGGTCGTAT
Statistics
Matches: 253, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
27 28 0.11
28 173 0.68
29 51 0.20
30 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
GATGCCACTGACTTGTGGGCTTTGAAA
Found at i:38035 original size:85 final size:84
Alignment explanation
Indices: 37786--38095 Score: 480
Period size: 85 Copynumber: 3.7 Consensus size: 84
37776 TTTGCAAGGG
* *
37786 GATGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTGACTTATGGGCTTTGAAACGATGCCAC
1 GATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCAC
*
37850 TAACTTGTGGGCTTTGAAAG
65 TAACTTGTGGGCTTTGAAAA
* *
37870 GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGG-TTTGAAAGGGTGCCACT
1 GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT
*
37934 GACTTGTGGGCTTTGAAAA
66 AACTTGTGGGCTTTGAAAA
* * * *
37953 TATGCCACCGACTTGTGGGCTTTGAGAAGAATGCCACTGACTTGTGGGCTTTAAAAAGATGCCAC
1 GATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCAC
38018 TAACTTGTGGGCTTTGAAAA
65 TAACTTGTGGGCTTTGAAAA
*
38038 GATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTTGGCTTTGAAAAG
1 GATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAAG
38096 GGTCGTATTG
Statistics
Matches: 206, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
83 57 0.28
84 64 0.31
85 85 0.41
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (84 bp):
GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT
AACTTGTGGGCTTTGAAAA
Found at i:38147 original size:13 final size:13
Alignment explanation
Indices: 38103--38177 Score: 64
Period size: 13 Copynumber: 5.6 Consensus size: 13
38093 AAGGGTCGTA
*
38103 TTGACGAAAATTTC
1 TTGAC-AAAAGTTC
*
38117 TTGAC-AAAGTTT
1 TTGACAAAAGTTC
38129 TCTGACAAACA-TTC
1 T-TGACAAA-AGTTC
38143 TTGACAAAAGTTC
1 TTGACAAAAGTTC
* *
38156 TTGACGATAATTTC
1 TTGAC-AAAAGTTC
38170 TTGACAAA
1 TTGACAAA
38178 TGGCAAAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 7 0.14
13 21 0.42
14 21 0.42
15 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TTGACAAAAGTTC
Found at i:38170 original size:27 final size:26
Alignment explanation
Indices: 38103--38177 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
38093 AAGGGTCGTA
*
38103 TTGACGAAAATTTCTTGAC-AAAGTTT
1 TTGACG-AAATTTCTTGACAAAAGTTC
*
38129 TCTGAC-AAACATTCTTGACAAAAGTTC
1 T-TGACGAAA-TTTCTTGACAAAAGTTC
38156 TTGACGATAATTTCTTGACAAA
1 TTGACGA-AATTTCTTGACAAA
38178 TGGCAAAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
25 3 0.07
26 13 0.32
27 23 0.56
28 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (26 bp):
TTGACGAAATTTCTTGACAAAAGTTC
Found at i:51616 original size:20 final size:19
Alignment explanation
Indices: 51589--51651 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
51579 GTAAAAAGAC
51589 AAAATGTATTGATACATTG
1 AAAATGTATTGATACATTG
*
51608 AAGAATGTATTGATACATTC
1 AA-AATGTATTGATACATTG
* *
51628 ATACATGTATCGATACATTG
1 A-AAATGTATTGATACATTG
51648 AAAA
1 AAAA
51652 AAGTACCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 32 0.86
21 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (19 bp):
AAAATGTATTGATACATTG
Found at i:55677 original size:13 final size:13
Alignment explanation
Indices: 55659--55685 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55649 ACATTATGCT
55659 TTGTATCGATACA
1 TTGTATCGATACA
55672 TTGTATCGATACA
1 TTGTATCGATACA
55685 T
1 T
55686 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:55760 original size:20 final size:19
Alignment explanation
Indices: 55735--55788 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
55725 CTACCACTAT
55735 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
55755 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGA-GAA
55775 TTGTATCGATACAT
1 TTGTATCGATACAT
55789 TGCTTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:64788 original size:28 final size:28
Alignment explanation
Indices: 64732--64803 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
64722 GGAATAAAGC
** **
64732 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
64760 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
64788 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
64804 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:64881 original size:52 final size:51
Alignment explanation
Indices: 64814--64960 Score: 132
Period size: 51 Copynumber: 2.8 Consensus size: 51
64804 TCAATTGTGA
* * * *
64814 AAAATTGGGGTTTTTGGAAATAAAATCGGAGTTGGAGTATCGCCGATTAAAGG
1 AAAATTGGTG-TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCCATT-AAGG
* * * **
64867 AAAATTGGTGTTTTGAAAATAAAGCCGGGGTTGGAGTATCCCCCATTGTGG
1 AAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCCATTAAGG
* * * * * **
64918 AAAATCGATGATTTGGAAATAAAACTGGGGTTTTAGTATCCCC
1 AAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
64961 TCGAAGATAA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
51 37 0.48
52 31 0.40
53 9 0.12
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
AAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCCATTAAGG
Found at i:65052 original size:80 final size:80
Alignment explanation
Indices: 64892--65147 Score: 347
Period size: 80 Copynumber: 3.2 Consensus size: 80
64882 AAAATAAAGC
* * ** * * * **
64892 CGGGGTTGGAGTATCCCCCATTGTG-GAAAATCGATGA-TTTGGAAATAAA-ACTGGGGTTTTAG
1 CGGGGTTGGAGTATCCCCAATTATGAG-AAATTAAT-ATTTTAGAAATAAAGCCGGGGGTTGGAG
64954 TATCCCCTCGAAGATAA
64 TATCCCCTCGAAGATAA
64971 CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
*
65036 TCCCCTCGGAGATAA
66 TCCCCTCGAAGATAA
* * *
65051 CGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCTGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
*
65116 TCCCCTCGAAAATAA
66 TCCCCTCGAAGATAA
65131 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
65148 TAATGATTAA
Statistics
Matches: 158, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
79 40 0.25
80 117 0.74
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
TCCCCTCGAAGATAA
Found at i:65180 original size:27 final size:27
Alignment explanation
Indices: 65104--65181 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
65094 AATAAAGCTG
*
65104 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
** *
65132 GGGGTTGGAGTATCCCTAATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
65159 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
65182 AAATTGATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 28 0.67
28 13 0.31
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:65257 original size:51 final size:48
Alignment explanation
Indices: 65166--65279 Score: 117
Period size: 51 Copynumber: 2.3 Consensus size: 48
65156 AACGGGGTTG
*
65166 GAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCGGAGTT
1 GAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTT
* *
65213 AGAGTATCCCCGATTATAGAAAATT-AGTGTTTT-GAAAATGAAATCGAAGTT
1 -GAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAG-AAATAAAATCGAAGTT
*
65264 GGGATATCCCCGATTG
1 GAG-TATCCCCGATTG
65280 CGGAGAATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
48 12 0.22
49 1 0.02
50 5 0.09
51 37 0.67
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (48 bp):
GAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGAAGTT
Found at i:67097 original size:10 final size:10
Alignment explanation
Indices: 67084--67112 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
67074 CAATGGAATA
67084 GTGTTTTTTT
1 GTGTTTTTTT
67094 GTGTTTTTTT
1 GTGTTTTTTT
67104 G-GTTTTTTT
1 GTGTTTTTTT
67113 TGCTAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:67748 original size:34 final size:35
Alignment explanation
Indices: 67710--67776 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
67700 CCTTACAACA
67710 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
67744 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
67777 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:68254 original size:13 final size:13
Alignment explanation
Indices: 68236--68261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68226 ATTTTTTTTG
68236 TGTATCGATACAT
1 TGTATCGATACAT
68249 TGTATCGATACAT
1 TGTATCGATACAT
68262 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68384 original size:20 final size:20
Alignment explanation
Indices: 68331--68386 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
68321 ACATCTTTTT
*
68331 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
68351 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
68370 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
68387 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:71630 original size:84 final size:84
Alignment explanation
Indices: 71542--71706 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 84
71532 CATTTTCCAC
* * * * * *
71542 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAAAATTATTTTCTAAA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAA
71606 CTCATTGATTTACTTTCATT
65 CTCATTGATTTACTTTCATT
* * * *
71626 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
* *
71691 TTATTGATTTATTTTC
66 TCATTGATTTACTTTC
71707 TTCTTTGAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 4 0.06
84 64 0.94
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:73271 original size:34 final size:35
Alignment explanation
Indices: 73233--73299 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
73223 CCTTACAACA
73233 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
73267 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
73300 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:73777 original size:13 final size:13
Alignment explanation
Indices: 73759--73784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73749 ATTTTTTTTG
73759 TGTATCGATACAT
1 TGTATCGATACAT
73772 TGTATCGATACAT
1 TGTATCGATACAT
73785 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74383 original size:33 final size:33
Alignment explanation
Indices: 74325--74389 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
74315 AAAATTTCCA
*** *
74325 AATGTATCGATACAAAGATCCATGTATTGATAT
1 AATGTATCGATACAAAGAAAAATGTATCGATAT
*
74358 AATGTATCGATACATAGAAAAATGTATCGATA
1 AATGTATCGATACAAAGAAAAATGTATCGATA
74390 CATTTCCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAT
Found at i:75337 original size:28 final size:28
Alignment explanation
Indices: 75306--75392 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
75296 TGAGGACTAA
75306 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
75334 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
75360 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAA-GTGCCACCAACTCGTGTGGGCTTTG
75389 AAAG
1 AAAG
75393 AAAAGGCATC
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 8 0.20
27 11 0.27
28 14 0.34
29 8 0.20
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:75442 original size:59 final size:59
Alignment explanation
Indices: 75285--75714 Score: 584
Period size: 59 Copynumber: 7.3 Consensus size: 59
75275 AATAAAGTGT
* * *
75285 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* *
75340 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* *
75400 ATCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGT
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * * *
75459 GTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
*
75518 ATCC-GCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* ** * *
75576 GTCCCACTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGT
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * **
75635 GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGC
*
75696 ATCCTGCTCTTTCAGGACT
1 ATCCTGCTCTTTGAGGACT
75715 AAAAAGCGAA
Statistics
Matches: 334, Mismatches: 32, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
55 43 0.13
58 53 0.16
59 162 0.49
60 54 0.16
61 22 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (59 bp):
ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:75557 original size:117 final size:119
Alignment explanation
Indices: 75285--75714 Score: 597
Period size: 117 Copynumber: 3.7 Consensus size: 119
75275 AATAAAGTGT
* *
75285 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCT
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* *
75345 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGC
66 ACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * *
75400 ATCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCT
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* *
75464 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGC
66 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * *
75518 ATCC-GCTCTTTAAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* *
75581 ACTCTTTGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGT
66 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* * * * *
75635 GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
1 ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGCGTCC
* *
75700 TGCTCTTTCAGGACT
65 TACTCTTTGAGGACT
75715 AAAAAGCGAA
Statistics
Matches: 282, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
114 25 0.09
115 18 0.06
117 109 0.39
118 53 0.19
119 55 0.20
120 22 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
ATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:75600 original size:176 final size:179
Alignment explanation
Indices: 75286--75714 Score: 658
Period size: 176 Copynumber: 2.4 Consensus size: 179
75276 ATAAAGTGTA
* * * * *
75286 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTG
1 TCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTG
* * *
75346 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCCGCTCTT
66 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTT
75411 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
131 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
* *
75460 TCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAAGCATCC-G
1 TCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTG
*
75523 CTCTTTAAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCACTCTT
66 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTT
*
75587 TGAGGACTGAAGGTGCTACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
131 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
* *
75636 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCT
1 TCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GCATCCT
*
75701 GCTCTTTCAGGACT
65 GCTCTTTAAGGACT
75715 AAAAAGCGAA
Statistics
Matches: 231, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
173 24 0.10
174 17 0.07
176 113 0.49
177 50 0.22
178 14 0.06
179 13 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (179 bp):
TCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTG
CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCACTCTT
TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
Found at i:76729 original size:18 final size:18
Alignment explanation
Indices: 76702--76741 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
76692 CTTTTCTCTC
76702 TTTTTCTTTG-TTTTGTTT
1 TTTTTCTTTGCTTTT-TTT
*
76720 TTTTTTTTTGCTTTTTTT
1 TTTTTCTTTGCTTTTTTT
76738 TTTT
1 TTTT
76742 AAGAGAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (18 bp):
TTTTTCTTTGCTTTTTTT
Found at i:76734 original size:13 final size:13
Alignment explanation
Indices: 76712--76741 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76702 TTTTTCTTTG
*
76712 TTTTGTTTTTTTT
1 TTTTGCTTTTTTT
76725 TTTTGCTTTTTTT
1 TTTTGCTTTTTTT
76738 TTTT
1 TTTT
76742 AAGAGAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (13 bp):
TTTTGCTTTTTTT
Found at i:88662 original size:32 final size:30
Alignment explanation
Indices: 88626--88684 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
88616 GAAATCAAAT
88626 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
88658 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
88685 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:88983 original size:13 final size:13
Alignment explanation
Indices: 88965--88990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88955 ATATTTTTTG
88965 TGTATCGATACAT
1 TGTATCGATACAT
88978 TGTATCGATACAT
1 TGTATCGATACAT
88991 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91090 original size:21 final size:20
Alignment explanation
Indices: 91061--91103 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
91051 GACTAGTGTG
* *
91061 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGGGACCT
*
91082 GGGAGTGCCGGTCGGGACCT
1 GGGACTGCCGGTCGGGACCT
91102 GG
1 GG
91104 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.26, G:0.47, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGGGACCT
Found at i:91552 original size:13 final size:13
Alignment explanation
Indices: 91534--91571 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
91524 ATAATCCCCC
91534 TGTATCGATACAG
1 TGTATCGATACAG
*
91547 TGTATCGATACAT
1 TGTATCGATACAG
91560 TGTATCGATACA
1 TGTATCGATACA
91572 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:93665 original size:15 final size:15
Alignment explanation
Indices: 93645--93675 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93635 ATTTCGTTTG
*
93645 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
93660 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
93675 G
1 G
93676 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:95506 original size:21 final size:21
Alignment explanation
Indices: 95477--95521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95467 AAATTTTTAT
*
95477 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
95497 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
95519 TTT
1 TTT
95522 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:97438 original size:32 final size:30
Alignment explanation
Indices: 97402--97460 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
97392 GAAATCAAAT
97402 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
97434 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
97461 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:97758 original size:13 final size:13
Alignment explanation
Indices: 97740--97765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97730 ATATTTTTTG
97740 TGTATCGATACAT
1 TGTATCGATACAT
97753 TGTATCGATACAT
1 TGTATCGATACAT
97766 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:97776 original size:32 final size:33
Alignment explanation
Indices: 97719--97783 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
97709 TACAAGCCAA
97719 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
97753 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
97784 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:97777 original size:19 final size:19
Alignment explanation
Indices: 97719--97783 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
97709 TACAAGCCAA
97719 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
97740 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
97753 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
97772 TGTATCGATACA
1 TGTATCGATACA
97784 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:99146 original size:78 final size:78
Alignment explanation
Indices: 99045--99249 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 78
99035 AGATAATAAT
* * * ** *
99045 GGGATTGGAGTGTCCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCAATGA-
1 GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-AT
*
99109 TTAGAAAAAAAATC
65 TTAGAAAAAAAACC
*
99123 GGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
1 GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-T
* * * *
99188 TTGGGAATAAAGCC
65 TTAGAAAAAAAACC
* * * **
99202 GGGGTAGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCAAT
1 GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAT
99250 GAAATAACGA
Statistics
Matches: 107, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 55 0.51
79 51 0.48
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (78 bp):
GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
TAGAAAAAAAACC
Found at i:99320 original size:52 final size:51
Alignment explanation
Indices: 99260--99427 Score: 194
Period size: 52 Copynumber: 3.3 Consensus size: 51
99250 GAAATAACGA
* * *
99260 GGTTGGAGTATCATCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* ** * * *
99312 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAGCCGG
1 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * *
99364 GGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTT-GAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTG-TTTTGGAAATAAAACCGG
99415 GGTTGGAGTATCC
1 GGTTGGAGTATCC
99428 CCTCGAAGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 33 0.34
52 52 0.54
53 11 0.11
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:99460 original size:79 final size:78
Alignment explanation
Indices: 99361--99663 Score: 382
Period size: 80 Copynumber: 3.9 Consensus size: 78
99351 AAAATAAAGC
**
99361 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTT-GAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATT-TGAAAAATTAAT-ATTTTAGAAATAAAACCGGGGTTGGAGTA
99425 TCCCCTCGAAGATAA
64 TCCCCTCGAAGATAA
* *
99440 CGGGGTTGGAGTATCCCCGATTTTGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGA-TTTGAAAAATTAATATTTTAGAAATAAAACC-GGGGTTGGAGTA
* *
99505 TCCTCTCGGAGATAA
64 TCCCCTCGAAGATAA
* * *
99520 CGGGGTTGGAGTATCCCCGATTATTAGAAATTAATATTTTAGAAATAAAGCCGAGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATT-TGAAAAATTAATATTTTAGAAATAAAACCG-GGGTTGGAGTA
*
99585 T-CCC-CGATGATTAA
64 TCCCCTCGAAGA-TAA
* * * *
99599 CGGGGTTGGAGTATCCCCGA--TGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTGGAGTATC
1 CGGGGTTGGAGTATCCCCGATTTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
99662 CC
66 CC
99664 TGATTATAGA
Statistics
Matches: 200, Mismatches: 17, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
75 11 0.05
76 26 0.13
78 9 0.05
79 67 0.34
80 87 0.44
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGAAGATAA
Found at i:99698 original size:51 final size:51
Alignment explanation
Indices: 99622--99719 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
99612 TCCCCGATGA
*
99622 AAAATTGATGTTTTAGAAATAAAATCGGAGTT-GGAGTATCCCTGATTATAG
1 AAAATTGATGTTTTAGAAATAAAATCGGAGTTGGGA-TATCCCCGATTATAG
*
99673 AAAATT-AGTGTTTT-GAAAATGAAATCGGAGTTGGGATATCCCCGATT
1 AAAATTGA-TGTTTTAG-AAATAAAATCGGAGTTGGGATATCCCCGATT
99720 GCGGAGAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.05
51 37 0.88
52 3 0.07
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (51 bp):
AAAATTGATGTTTTAGAAATAAAATCGGAGTTGGGATATCCCCGATTATAG
Found at i:102077 original size:20 final size:20
Alignment explanation
Indices: 102022--102077 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
102012 TAAAATTTCC
* *
102022 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACATAGAA
**
102042 CCATGTATCGATACATAGAA
1 AAATGTATCGATACATAGAA
102062 AAATGTATCGATACAT
1 AAATGTATCGATACAT
102078 TTCCTTGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (20 bp):
AAATGTATCGATACATAGAA
Found at i:102183 original size:21 final size:21
Alignment explanation
Indices: 102157--102233 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
102147 GTTGGGACCT
102157 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
102178 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
102199 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
102220 TGTATCGATACATT
1 TGTATCGATACATT
102234 TGGATAAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:102636 original size:21 final size:20
Alignment explanation
Indices: 102610--102654 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
102600 TGAAAATAAA
* *
102610 TTTTTATCAAGGGTGGAAATT
1 TTTTTATCAAAGG-GAAAATT
102631 TTTTTATCAAAGGGAAAATT
1 TTTTTATCAAAGGGAAAATT
102651 TTTT
1 TTTT
102655 AATGAGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTTTATCAAAGGGAAAATT
Found at i:102646 original size:19 final size:21
Alignment explanation
Indices: 102610--102655 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
102600 TGAAAATAAA
* *
102610 TTTTTATCAAGGGTGGAAATT
1 TTTTTATCAAGAGTGGAAAAT
102631 TTTTTATCAA-AG-GGAAAAT
1 TTTTTATCAAGAGTGGAAAAT
102650 TTTTTA
1 TTTTTA
102656 ATGAGAGCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTTTATCAAGAGTGGAAAAT
Found at i:111489 original size:20 final size:20
Alignment explanation
Indices: 111466--111538 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
111456 ACAATTCAAA
111466 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
111486 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
111507 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
111527 GTATCGATACAT
1 GTATCGATACAT
111539 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:111510 original size:21 final size:21
Alignment explanation
Indices: 111484--111559 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
111474 ACATGTTGCA
111484 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
111505 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
111523 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
111546 ATGTATCGATACAT
1 ATGTATCGATACAT
111560 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:111517 original size:41 final size:41
Alignment explanation
Indices: 111466--111559 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
111456 ACAATTCAAA
* *
111466 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
111507 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
111548 GTATCGATACAT
1 GTATCGATACAT
111560 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:111616 original size:13 final size:13
Alignment explanation
Indices: 111598--111623 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111588 TACAGCAAGT
111598 ATGTATCGATACA
1 ATGTATCGATACA
111611 ATGTATCGATACA
1 ATGTATCGATACA
111624 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:113866 original size:21 final size:21
Alignment explanation
Indices: 113833--113877 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
113823 TTGCAAGTTG
*
113833 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
113855 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
113875 AAA
1 AAA
113878 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:117795 original size:20 final size:21
Alignment explanation
Indices: 117726--117803 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
117716 AATGTCCAAA
*
117726 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
117746 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
117771 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
117791 TTGTATCGATACA
1 ATGTATCGATACA
117804 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:117810 original size:13 final size:13
Alignment explanation
Indices: 117792--117829 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
117782 CATTTTTCTT
117792 TGTATCGATACAA
1 TGTATCGATACAA
*
117805 TGTATCGATACAC
1 TGTATCGATACAA
117818 TGTATCGATACA
1 TGTATCGATACA
117830 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:120237 original size:20 final size:20
Alignment explanation
Indices: 120214--120286 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
120204 ACAATTCAAA
120214 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
120234 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
120255 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
120275 GTATCGATACAT
1 GTATCGATACAT
120287 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:120258 original size:21 final size:21
Alignment explanation
Indices: 120232--120307 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
120222 ACATGTTGCA
120232 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
120253 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
120271 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
120294 ATGTATCGATACAT
1 ATGTATCGATACAT
120308 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:120265 original size:41 final size:41
Alignment explanation
Indices: 120214--120307 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
120204 ACAATTCAAA
* *
120214 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
120255 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
120296 GTATCGATACAT
1 GTATCGATACAT
120308 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:120346 original size:13 final size:13
Alignment explanation
Indices: 120328--120352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120318 TAGCCAAACT
120328 TGTATCGATACAA
1 TGTATCGATACAA
120341 TGTATCGATACA
1 TGTATCGATACA
120353 CAAAAAATTG
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:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:122138 original size:28 final size:28
Alignment explanation
Indices: 122105--122174 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
122095 AGTTGAATCT
* * *
122105 TTTCAAATCTCACAAGTTAATGGCACCC
1 TTTCAAAGCCCACAACTTAATGGCACCC
* *
122133 TTTCAAAGCCCATAACTTAGTGGCACCC
1 TTTCAAAGCCCACAACTTAATGGCACCC
* *
122161 TTTTAAAGCACACA
1 TTTCAAAGCCCACA
122175 CTAGCTGGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
TTTCAAAGCCCACAACTTAATGGCACCC
Found at i:124801 original size:32 final size:33
Alignment explanation
Indices: 124738--124802 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
124728 CATATCTAGA
* *
124738 TGTATCGATACATCATGCTTTGTATTGATACAT
1 TGTATCGATACATCATGCATTATATTGATACAT
124771 TGTATCGATACATGC-T-CATTATATTGATACAT
1 TGTATCGATACAT-CATGCATTATATTGATACAT
124803 ACTCAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATCATGCATTATATTGATACAT
Found at i:124821 original size:20 final size:19
Alignment explanation
Indices: 124768--124822 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
124758 TGTATTGATA
*
124768 CATTGTATCGATACATGCT
1 CATTGTATCGATACATACT
* *
124787 CATTATATTGATACATACT
1 CATTGTATCGATACATACT
124806 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
124823 GAAACTAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:124877 original size:20 final size:20
Alignment explanation
Indices: 124852--124904 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
124842 CTAAGTGAAA
* *
124852 TGTATCGAGACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
124872 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
124892 TGTATCGATACAT
1 TGTATCGATACAT
124905 TATGCCCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:129815 original size:21 final size:21
Alignment explanation
Indices: 129759--129816 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
129749 TTACCAACAA
* *
129759 AATGTATTGACACA-ATACAT
1 AATGTATTGATACATTTACAT
* * * *
129779 GATGCATCGATGCATTTACAT
1 AATGTATTGATACATTTACAT
129800 AATGTATTGATACATTT
1 AATGTATTGATACATTT
129817 TCACTTATAT
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATTGATACATTTACAT
Found at i:131852 original size:23 final size:24
Alignment explanation
Indices: 131826--131879 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
131816 GGTGCGGGGT
*
131826 AAGGGTGGACAA-GGGTGCTCTGC
1 AAGGGTGGACAAGGGGTGCTCGGC
* *
131849 AAGGATGGGCAAGGGGTGCTCGGC
1 AAGGGTGGACAAGGGGTGCTCGGC
*
131873 ATGGGTG
1 AAGGGTG
131880 CTCGACAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.20, C:0.15, G:0.48, T:0.17
Consensus pattern (24 bp):
AAGGGTGGACAAGGGGTGCTCGGC
Found at i:132642 original size:22 final size:21
Alignment explanation
Indices: 132617--132658 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
132607 ATAGAATTTG
*
132617 AAGATCATTCAACATGAATCAA
1 AAGATCAATCAACAT-AATCAA
*
132639 AAGATCAATCAATATAATCA
1 AAGATCAATCAACATAATCA
132659 CCAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (21 bp):
AAGATCAATCAACATAATCAA
Found at i:138500 original size:21 final size:21
Alignment explanation
Indices: 138444--138500 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
138434 TTGCCAATAA
*
138444 AATGTATTGATACA-ATACAT
1 AATGTATTGATACATTTACAT
* *
138464 -ATGTATTAATATATTTACAT
1 AATGTATTGATACATTTACAT
*
138484 AATGTATCGATACATTT
1 AATGTATTGATACATTT
138501 TCACTTGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (21 bp):
AATGTATTGATACATTTACAT
Found at i:139547 original size:21 final size:20
Alignment explanation
Indices: 139500--139553 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
139490 CATTTCAGAC
*
139500 ATGTATGAATACATTCACTT
1 ATGTATCAATACATTCACTT
139520 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTCACTT
*
139540 ATTGTATCGATACA
1 A-TGTATCAATACA
139554 AATTATAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:141257 original size:153 final size:154
Alignment explanation
Indices: 141010--141337 Score: 385
Period size: 152 Copynumber: 2.1 Consensus size: 154
141000 AAGTTCAAGG
* * * *
141010 AAAATTACAAAAATGCCCCTAAATGATACCTTCGACATAAAAATACTCGATACCCCTAAGGGACT
1 AAAATTACAAAAATACCCCTAAATGATACCTTCAACATAAAAATACCCGACACCCCTAAGGGACT
** * ** * *
141075 TAAAAAGGATTATAGATGGGATGAACCTATCCAAAATACCCACTTTCGACATAAAAGTGGACTCG
66 TAAAAAGGATTATAGAAAGGATGAACCTATCCAAAATACCCAC-CTCGACATAAAAGCAGACCCA
* * *
141140 GTGATAACATAGTACTCTATT-TTAA
130 GTGACAACATAGGACTCGATTCTT-A
* * * * * *
141165 AAAATTACCAAAATACTCCTAGA-GATATCTTCAACATAAAAGTACCCGACACCGCTGAA-GGAC
1 AAAATTACAAAAATACCCCTAAATGATACCTTCAACATAAAAATACCCGACACCCCT-AAGGGAC
* * *
141228 TT-AAAAGGATTATAGAAAGGATGAGCCTATCCTAAATACCCACCTCGGCATAAAAGCAGACCCA
65 TTAAAAAGGATTATAGAAAGGATGAACCTATCCAAAATACCCACCTCGACATAAAAGCAGACCCA
*
141292 GTGACAACGTAGGACTCGATTCTTA
130 GTGACAACATAGGACTCGATTCTTA
141317 AAAATTACAAAAATACCCCTA
1 AAAATTACAAAAATACCCCTA
141338 TGGGTATACC
Statistics
Matches: 145, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
152 52 0.36
153 39 0.27
154 33 0.23
155 21 0.14
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (154 bp):
AAAATTACAAAAATACCCCTAAATGATACCTTCAACATAAAAATACCCGACACCCCTAAGGGACT
TAAAAAGGATTATAGAAAGGATGAACCTATCCAAAATACCCACCTCGACATAAAAGCAGACCCAG
TGACAACATAGGACTCGATTCTTA
Found at i:142630 original size:165 final size:166
Alignment explanation
Indices: 142392--142780 Score: 421
Period size: 165 Copynumber: 2.3 Consensus size: 166
142382 TGGTAGTTTC
* ** * * * *
142392 ATAACAATATTAGATGAATTTTAAAAATTTTAGATCAA-AGAAAATTA-CCAAGAAAATATTTAT
1 ATAACAATATTAGATAAATTTTAAAAATTAAAAACCAAGA-AAAATCACCCCA-AAAA-ATTTAT
* * *
142455 GAAATAGAAAACTCAGTTTTTTGGGAAAAAAAGG-GATTTCAAAG-AAAAAATTCAAAACTCATG
63 GAAATAGAAAACTCAG-TTTTT-CGAAAAAAAGGCAATTTCAAAGAAAAAAATTAAAAACTCATG
* ** *
142518 AAAATGAGTTAAATTTTCAAAAA-TAATTTATTATTAATTAA
126 AAAATGAATT-AATTTTCAAAAACTAATTTAAAATGAATTAA
* * *
142559 ATAATAATATTTGATAAATTTT-AAAATTAAAAACCAAGAAAAATCACCCCAAAAAATTTATGGA
1 ATAACAATATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATCACCCCAAAAAATTTATGAA
* ** * * * *
142623 GTAGAAAACTTTGTTTTTCGAAAATAAGGCAATTTCAAGGAAAAAAATTAAAAATTTATGAAAAT
66 ATAGAAAACTCAGTTTTTCGAAAAAAAGGCAATTTCAAAGAAAAAAATTAAAAACTCATGAAAAT
* *
142688 GAATTAATTTTTAAAAACTGATTTAAAATGAATTAA
131 GAATTAATTTTCAAAAACTAATTTAAAATGAATTAA
* **
142724 ATAACAATATTAGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTTCCCAAAAAA
1 ATAACAATATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATCACCCCAAAAAA
142781 AATTTACGAA
Statistics
Matches: 185, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
163 9 0.05
164 24 0.13
165 76 0.41
166 53 0.29
167 23 0.12
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (166 bp):
ATAACAATATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATCACCCCAAAAAATTTATGAA
ATAGAAAACTCAGTTTTTCGAAAAAAAGGCAATTTCAAAGAAAAAAATTAAAAACTCATGAAAAT
GAATTAATTTTCAAAAACTAATTTAAAATGAATTAA
Found at i:142861 original size:19 final size:19
Alignment explanation
Indices: 142839--142878 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
142829 AAAGAAAATC
142839 AAGGAAATTTTCAAAAACT
1 AAGGAAATTTTCAAAAACT
142858 AAGGAAATTTTCAAAAACT
1 AAGGAAATTTTCAAAAACT
142877 AA
1 AA
142879 TTTGATGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (19 bp):
AAGGAAATTTTCAAAAACT
Found at i:145064 original size:166 final size:166
Alignment explanation
Indices: 144267--145087 Score: 810
Period size: 166 Copynumber: 4.9 Consensus size: 166
144257 CTTGTTTTCA
* * * **
144267 AAATACAGAGTTTTCTACT-TCGTAAATTTTTTCGAGAGGATTTTCATTTA--TCCAAAATTTTT
1 AAATACAGAGTTTTCTACTCT-GTAAATGTTTTCGAGAGGATTTT--TCTAGGTTCTTAATTTTT
* * *
144329 AAAATTCATCAAATATTATTATTTAATTCATGTTAAATTAGTTTTCAAAATTTCATTTATTTTCA
63 AAAATTCATCAAATATTATTATTTAATTCATGTTAAATCAATTTTCAAAAATTCATTTATTTTCA
* *
144394 TAAATATTTCTA-TTTTTCCTTAAAAATCTCCTATTTCTG
128 TAAAT-TTTCAATTTTTTCCTTGAAAATCTCCTATTTCTG
* * ** * * * *
144433 AAATACAAAGCTTTCTACTCCATAAATGTTTTCAAGAGGATTTTTATCGGTTCTAAATTTTTAAA
1 AAATACAGAGTTTTCTACTCTGTAAATGTTTTCGAGAGGATTTTTCTAGGTTCTTAATTTTTAAA
* * * *
144498 ATTTATCAAATATTATTATTTAATTCATGTTAAATCATTTTTCAAAAATTCTTTTATTTTCAAAA
66 ATTCATCAAATATTATTATTTAATTCATGTTAAATCAATTTTCAAAAATTCATTTATTTTCATAA
* * * *
144563 ATTTTCCAAATTTTTCCATGAAAATCTCCTGTTTTTCTA
131 ATTTT-CAATTTTTTCCTTGAAAATCTCC--TATTTCTG
** * * * * ** *
144602 AAATATTGAGTTTTCTACTCCGTAAATGCTTTCGGGAGGCTTTTTCTTCGTTATTAATTTTTAAA
1 AAATACAGAGTTTTCTACTCTGTAAATGTTTTCGAGAGGATTTTTCTAGGTTCTTAATTTTTAAA
* * * *
144667 ACTCATCAAATATTATTAGTTAATTCATGATAAAT-AAGTTTTCAAAAATT-AGTTCATTTTCAT
66 ATTCATCAAATATTATTATTTAATTCATGTTAAATCAA-TTTTCAAAAATTCA-TTTATTTTCA-
* * * * * *
144730 TTATTTTTCATTTTTTTCCTTGGAATTCTCCTATTTCCG
128 TAAATTTTCAATTTTTTCCTTGAAAATCTCCTATTTCTG
* * * * *
144769 AAATATAGAGTTTTCTACTTTGTAAATGTTTTCAGGGGGGATTTTTCTTGGTTCTTAATTTTTAA
1 AAATACAGAGTTTTCTACTCTGTAAATGTTTTC-GAGAGGATTTTTCTAGGTTCTTAATTTTTAA
* * * * *
144834 AATTCCTAAAATATTATTATTTAATTCATGTTAAATTATTTTTCAAAAATTCATTTATTTTCATG
65 AATTCATCAAATATTATTATTTAATTCATGTTAAATCAATTTTCAAAAATTCATTTATTTTCATA
* ** * * * * *
144899 AGTTTTTTATTTTTTTCTTGAGACTCTCTTATTACTG
130 AATTTTCAATTTTTTCCTTGAAAATCTCCTATTTCTG
* * * *
144936 AAATACGGAGTTTTCTACTCTATAAATGTTTTCGAGAGGATTTTTCTAGTTTTTTAATTTTTAAA
1 AAATACAGAGTTTTCTACTCTGTAAATGTTTTCGAGAGGATTTTTCTAGGTTCTTAATTTTTAAA
* * * * *
145001 ATTCATTAAATATT-TTCATTTAATTTATATTAAATCAATTTTCAAAAATTAATTTATTTTCATG
66 ATTCATCAAATATTATT-ATTTAATTCATGTTAAATCAATTTTCAAAAATTCATTTATTTTCATA
* * *
145065 AGTTTTGAATTTTTTCTTTGAAA
130 AATTTTCAATTTTTTCCTTGAAA
145088 TTTTCTTATT
Statistics
Matches: 540, Mismatches: 101, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
164 2 0.00
165 5 0.01
166 212 0.39
167 107 0.20
168 80 0.15
169 129 0.24
170 5 0.01
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (166 bp):
AAATACAGAGTTTTCTACTCTGTAAATGTTTTCGAGAGGATTTTTCTAGGTTCTTAATTTTTAAA
ATTCATCAAATATTATTATTTAATTCATGTTAAATCAATTTTCAAAAATTCATTTATTTTCATAA
ATTTTCAATTTTTTCCTTGAAAATCTCCTATTTCTG
Found at i:145145 original size:166 final size:166
Alignment explanation
Indices: 144322--145245 Score: 581
Period size: 166 Copynumber: 5.5 Consensus size: 166
144312 ATTTATCCAA
* * * * * *
144322 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATGTTAAATTAGTTTTCAAAATTTCATTT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTT
* * ** * * * * *
144387 ATTTTCATAAATATTTCTA-TTTTTCCTTAAAAATCTCCTATTT-CTGAAATA-CAAAGCTTTCT
66 ATTTTCATGAGT-TTTGAATTTTTTCTTTGAAATTCTCTTATTTAC-GAAATATC-AAGTTTTCT
* * * * * * * * *
144449 ACTCCATAAATGTTTTCA-AGAGGATTTTTATCGGTTCTA
128 ATTCTATAAATGTTTT-AGGGGGGATTTTTCTAGATTTTT
* * * * **
144488 AATTTTTAAAATTTATCAAATATTATTATTTAATTCATGTTAAATCATTTTTCAAAAATTCTTTT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTT
** * * * ** * * * **
144553 ATTTTCAAAAATTTTCCAAATTTTTCCATGAAAATCTCCTGT-TTTTCTAAAATATTGAGTTTTC
66 ATTTTCATGAGTTTT-GAATTTTTTCTTTGAAATTCT-CT-TATTTAC-GAAATATCAAGTTTTC
* ** * * * * * *
144617 TACTCCGTAAATGCTTTCGGGAGGCTTTTTCTTCG-TTATT
127 TATTCTATAAATGTTTTAGGGGGGATTTTTC-TAGATTTTT
* * * *
144657 AATTTTTAAAACTCATCAAATATTATTAGTTAATTCATGA-TAAAT-AAGTTTTCAAAAATTAGT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTCAT-ATTAAATCAA-TTTTCAAAAATTAAT
* * * * * * * * *
144720 TCATTTTCATTTATTTTTCATTTTTTTCCTTGGAATTCTCCTATTTCCGAAATAT-AGAGTTTTC
64 TTATTTTCA-TGAGTTTTGAATTTTTTCTTTGAAATTCTCTTATTTACGAAATATCA-AGTTTTC
* * * *
144784 TACTT-TGTAAATGTTTTCAGGGGGGATTTTTCTTGGTTCTT
127 TA-TTCTATAAATGTTTT-AGGGGGGATTTTTCTAGATTTTT
* * * * * *
144825 AATTTTTAAAATTCCTAAAATATTATTATTTAATTCATGTTAAATTATTTTTCAAAAATTCATTT
1 AATTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTT
** * * *
144890 ATTTTCATGAGTTTTTTATTTTTT-TCTTGAGACTCTCTTA-TTACTGAAATA-CGGAGTTTTCT
66 ATTTTCATGAGTTTTGAATTTTTTCT-TTGAAATTCTCTTATTTAC-GAAATATC-AAGTTTTCT
* * * * *
144952 ACTCTATAAATGTTTTCGAGAGGATTTTTCTAGTTTTTT
128 ATTCTATAAATGTTTTAGGGGGGATTTTTCTAGATTTTT
*
144991 AATTTTTAAAATTCATTAAATATT-TTCATTTAATTTATATTAAATCAATTTTCAAAAATTAATT
1 AATTTTTAAAATTCATTAAATATTATT-ATTTAATTCATATTAAATCAATTTTCAAAAATTAATT
* * * * *
145055 TATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTTCTTATTTTCGAAAAATCAAATTTTTTAT
65 TATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTCTCTTATTTACGAAATATCAAGTTTTCTAT
* * * * **
145120 TCCATAAATATTTTTGGGGGGATTTTTC-ACAATTTAA
130 TCTATAAATGTTTTAGGGGGGATTTTTCTA-GATTTTT
* * * **
145157 AATTTTTAAAATTCATCT-AATATTGTCATTAAATTCACCTTAAATCAA-TTTCAAAAAATTTAA
1 AATTTTTAAAATTCAT-TAAATATTATTATTTAATTCATATTAAATCAATTTTC-AAAAA-TTAA
*
145220 ATTA-TTTCATGCA-TTTTGAATTTTTT
63 TTTATTTTCATG-AGTTTTGAATTTTTT
145246 TATATATTGA
Statistics
Matches: 613, Mismatches: 112, Indels: 66
0.77 0.14 0.08
Matches are distributed among these distances:
165 10 0.02
166 284 0.46
167 106 0.17
168 86 0.14
169 119 0.19
170 8 0.01
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (166 bp):
AATTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTT
ATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTCTCTTATTTACGAAATATCAAGTTTTCTATT
CTATAAATGTTTTAGGGGGGATTTTTCTAGATTTTT
Found at i:148732 original size:28 final size:29
Alignment explanation
Indices: 148607--149082 Score: 526
Period size: 28 Copynumber: 16.6 Consensus size: 29
148597 CACTAACTTG
* * *
148607 TGTGGGCTTTGTAAAAAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAAGGGTGCCACTGACT
* * *
148637 TGTTTGGGCTTT-AAATAGAGTTACCACTAACT
1 TG--TGGGCTTTGAAA-AG-GGTGCCACTGACT
* * *
148669 TGTAGGCTTTGAAAAGAGTTACCACT-AGCT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGA-CT
*
148699 TATGGG-TTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
148727 TGTGGGCTTTGAAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
148755 TGTGGGCTTT-AAAAGGATGCTACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
148783 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
148811 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
148839 TGTGAGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
148868 TGTGGGCTCTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
148897 CGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
148925 CGTGAGCCTTGAAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
148953 TGTGGGCTATGAAAA-GGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
148981 TGTGGGCTATGAAAA-GGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
149009 TGTGGGCTTTGAAAATGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
149038 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
149067 TGTGGGCTTT-AAAAGG
1 TGTGGGCTTTGAAAAGG
149083 ATGAACATTC
Statistics
Matches: 394, Mismatches: 39, Indels: 28
0.85 0.08 0.06
Matches are distributed among these distances:
27 4 0.01
28 214 0.54
29 122 0.31
30 30 0.08
31 4 0.01
32 20 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:148892 original size:170 final size:171
Alignment explanation
Indices: 148660--149085 Score: 537
Period size: 170 Copynumber: 2.5 Consensus size: 171
148650 AATAGAGTTA
* * * * *
148660 CCACTAACTTGT-AGGCTTTGAAAA-GAGTTACCACTAGCTTATGGG-TTTGAAAAGGGTGCCAC
1 CCACTGACTTGTGA-GCTTTGAAAATG-G-TGCCACTAACTTGTGGGCTCTGAAAAGGGTGCCAC
* * * *
148722 TGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTG-GGCTTTAAAAGGATGCTACTAACTTG
63 TGACTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTGAGCCTTGAAAAGG-TGCCACTAACTTG
* * * *
148785 TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGATG
127 TGGGCTATGAAAAGGTGCCACTAACTTGTGGGCTATGAAAAGG-TG
* * * *
148830 CCACTGACTTGTGAGCTTTGAGAA-GGATGCCACTGACTTGTGGGCTCTGAGAAGGATGCCACTG
1 CCACTGACTTGTGAGCTTTGAAAATGG-TGCCACTAACTTGTGGGCTCTGAAAAGGGTGCCACTG
* *
148894 ACTCGTGGGCTTTG-AAAGGATGCCACTGACTCGTGAGCCTTGAAAAGGTGCCACTGACTTGTGG
65 ACTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTGAGCCTTGAAAAGGTGCCACTAACTTGTGG
148958 GCTATGAAAAGGTGCCACTAACTTGTGGGCTATGAAAAGGTG
130 GCTATGAAAAGGTGCCACTAACTTGTGGGCTATGAAAAGGTG
* * *
149000 CCATTGACTTGTGGGCTTTGAAAATGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGA
1 CCACTGACTTGTGAGCTTTGAAAATGGTGCCACTAACTTGTGGGCTCTGAAAAGGGTGCCACTGA
149065 CTTGTGGGCTTT-AAAAGGATG
66 CTTGTGGGCTTTGAAAAGGATG
149086 AACATTCTAG
Statistics
Matches: 221, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
169 19 0.09
170 184 0.83
171 18 0.08
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (171 bp):
CCACTGACTTGTGAGCTTTGAAAATGGTGCCACTAACTTGTGGGCTCTGAAAAGGGTGCCACTGA
CTTGTGGGCTTTGAAAAGGATGCCACTGACTCGTGAGCCTTGAAAAGGTGCCACTAACTTGTGGG
CTATGAAAAGGTGCCACTAACTTGTGGGCTATGAAAAGGTG
Found at i:155618 original size:33 final size:33
Alignment explanation
Indices: 155581--155647 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
155571 TTCAACGATT
155581 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
155614 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
155647 T
1 T
155648 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:155619 original size:13 final size:13
Alignment explanation
Indices: 155601--155625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155591 CATAAAATGT
155601 TGTATCGATACAA
1 TGTATCGATACAA
155614 TGTATCGATACA
1 TGTATCGATACA
155626 TATTTTTTTG
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:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:155706 original size:13 final size:13
Alignment explanation
Indices: 155688--155712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155678 ATTACTCAAA
155688 TGTATCGATACAT
1 TGTATCGATACAT
155701 TGTATCGATACA
1 TGTATCGATACA
155713 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155814 original size:52 final size:52
Alignment explanation
Indices: 155721--155848 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
155711 CACTGATCTT
*
155721 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
155772 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
155824 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
155849 TCATATTTCG
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 19 0.26
52 55 0.74
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:167944 original size:51 final size:49
Alignment explanation
Indices: 167882--168057 Score: 163
Period size: 51 Copynumber: 3.7 Consensus size: 49
167872 TTTTAACTAG
* * *
167882 ATGTATTGATACATTGAATAATGTATTGATACATCTGGGTAAAAAGATAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT-GGT-AAAAGATAAA
* * *
167933 ATGTATCGATACATTGAAGAATGTATCGATGCA--T--T----CAT-AC
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGTAAAAGATAAA
* * *
167973 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT-GGTAAAA-GATAAA
*
168024 ATGTATCGATACATTAAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
168058 TCATACATGT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
40 32 0.32
41 2 0.02
42 1 0.01
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
51 61 0.61
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (49 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTGGTAAAAGATAAA
Found at i:167957 original size:20 final size:20
Alignment explanation
Indices: 167932--168097 Score: 111
Period size: 20 Copynumber: 7.8 Consensus size: 20
167922 AAAAAGATAA
167932 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* *
167952 AATGTATCGATGCATTCATA-
1 AATGTATCGATACATTGA-AG
* *
167972 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAG
167992 AATGTATCGATACATCTAGGTAAAAGGACAG
1 AATGTATCGATACA--T---T-----GA-AG
*
168023 AATGTATCGATACATTAAAG
1 AATGTATCGATACATTGAAG
*
168043 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTGA-AG
* * * *
168063 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTGAAG
168083 AATGTATCGATACAT
1 AATGTATCGATACAT
168098 CTGGTAAAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 30
0.73 0.09 0.19
Matches are distributed among these distances:
19 2 0.02
20 91 0.78
21 3 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 15 0.13
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:168037 original size:91 final size:90
Alignment explanation
Indices: 167882--168107 Score: 344
Period size: 91 Copynumber: 2.5 Consensus size: 90
167872 TTTTAACTAG
* * * *
167882 ATGTATTGATACATTGAATAATGTATTGATACATCTGGGTAAAAAGATAAAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GGTAAAAAGACAAAATGTATCGATACAT
* *
167947 TGAAGAATGTATCGATGCATTCATAC
65 TAAAGAATGTATCGATACATTCATAC
* *
167973 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GGTAAAAAGACAAAATGTATCGATACAT
168038 TAAAGAATGTATCGATACATTCATAC
65 TAAAGAATGTATCGATACATTCATAC
* *
168064 ATGTATCGATATATTAAAAAATGTATCGATACATCTGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGTAAAAA
168108 TGTGATTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 7 0.06
91 116 0.94
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGTAAAAAGACAAAATGTATCGATACATT
AAAGAATGTATCGATACATTCATAC
Found at i:168995 original size:13 final size:13
Alignment explanation
Indices: 168972--169006 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
168962 TTGGTAAGTG
168972 AGAACAAAAAAAGA
1 AGAA-AAAAAAAGA
*
168986 GGAAAAAAAAAGA
1 AGAAAAAAAAAGA
168999 AGAAAAAA
1 AGAAAAAA
169007 GAAAAAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGA
Found at i:169011 original size:16 final size:15
Alignment explanation
Indices: 168988--169021 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
168978 AAAAAAGAGG
168988 AAAAAAAAAGAAGAA
1 AAAAAAAAAGAAGAA
*
169003 AAAAGAAAAAGTAGAA
1 AAAA-AAAAAGAAGAA
169019 AAA
1 AAA
169022 CTGGTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAGAA
Found at i:170612 original size:156 final size:154
Alignment explanation
Indices: 170288--170728 Score: 561
Period size: 154 Copynumber: 2.9 Consensus size: 154
170278 TGCTTTTGTG
* * * * ** * * * * *
170288 TCGAAGGTATCCCTTAAGGGTATTTTTGTGATTTCCTAGAACCAACTCTTAGGTCGTCACCGATT
1 TCGAAGGTATCCCCTAAGGGCATTTTTATAATTTTTTAAAACCAACTCCTAAGTCATCACCGAGT
*
170353 CCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT-C-TCTTAAAATCCTTTTTAAGTCC
66 CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCTTCTT-AAATCCTTTTTAAGTCC
*
170416 TTTAGGGGTATCGGGTACTTTTACA
130 TTTAGGGGTATCGGATACTTTTACA
*
170441 TCGAAGGTATTCCCTAAGGGCATTTTTATAATTTTTTTAAAACCAACTCCT-AGTTCATCACC-A
1 TCGAAGGTATCCCCTAAGGGCATTTTTATAA-TTTTTTAAAACCAACTCCTAAG-TCATCACCGA
* *
170504 GGTCTGCTTTTATGCTAAAGGTAGATATTTAGGATAGGTTCATCCTTTCTTAAATCCTTTTTAAG
64 -GTCCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCC-TTCTTAAATCCTTTTTAAG
*
170569 TCCTTTAGGGGTATCGGATATTTTTACA
127 TCCTTTAGGGGTATCGGATACTTTTACA
* * * * *
170597 TTGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACTAACTCCTAAGTCGTCACCGAGT
1 TCGAAGGTATCCCCTAAGGGCATTTTTATAATTTTTTAAAACCAACTCCTAAGTCATCACCGAGT
* *
170662 CCACTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTT-TTAAAACCTTTTTCAAG-C
66 CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCAT-CCTTCTTAAATCCTTTTT-AAGTC
170725 CTTT
129 CTTT
170729 TTAGAGGTAA
Statistics
Matches: 251, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
153 28 0.11
154 77 0.31
155 69 0.27
156 73 0.29
157 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (154 bp):
TCGAAGGTATCCCCTAAGGGCATTTTTATAATTTTTTAAAACCAACTCCTAAGTCATCACCGAGT
CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCTTCTTAAATCCTTTTTAAGTCCT
TTAGGGGTATCGGATACTTTTACA
Found at i:170788 original size:155 final size:153
Alignment explanation
Indices: 170288--170788 Score: 586
Period size: 156 Copynumber: 3.2 Consensus size: 153
170278 TGCTTTTGTG
* * * ** * * *
170288 TCGAAGGTATCCCTTAAGGGTATTTTTGTGATTTCCTAGAACCAACTCTTAGGTCGTCACCGATT
1 TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAACTCCTAAGTCGTCACCGAGT
* *
170353 CCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT--CTCTTAAAATCCTTTTTAAGTCC
66 CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTTAAAA-CCTTTTTAAGTCC
170416 TTTAGGGGTATCGGGTACTTTTACA
130 TTTAGGGGTATC-GGTACTTTTACA
* * * *
170441 TCGAAGGTATTCCCTAAGGGCATTTTTATAATTTTTTTAAAACCAACTCCT-AGTTCATCACC-A
1 TCGAAGGTATCCCCTAAGGGCATTTTTGTAA-TTTTTTAGAACCAACTCCTAAG-TCGTCACCGA
* * * *
170504 GGTCTGCTTTTATGCTAAAGGTAGATATTTAGGATAGGTTCATCCTTTCTTAAATCCTTTTTAAG
64 -GTCCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTT-TTAAAACCTTTTTAAG
*
170569 TCCTTTAGGGGTATCGGATATTTTTACA
127 TCCTTTAGGGGTATCGG-TACTTTTACA
* *
170597 TTGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACTAACTCCTAAGTCGTCACCGAGT
1 TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAACTCCTAAGTCGTCACCGAGT
*
170662 CCACTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTTAAAACCTTTTTCAAG-CC
66 CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTTAAAACCTTTTT-AAGTCC
* *
170726 TTTTTAGAGGTAAT-GAGTACTTTTACG
130 --TTTAGGGGT-ATCG-GTACTTTTACA
* *
170753 TCGAAGGTA-CCCTCTTAA-GGTATTTTCGTAATTTTT
1 TCGAAGGTATCCC-C-TAAGGGCATTTTTGTAATTTTT
170789 CTTGAATCGA
Statistics
Matches: 296, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
153 28 0.09
154 74 0.25
155 75 0.25
156 108 0.36
157 11 0.04
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (153 bp):
TCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAACTCCTAAGTCGTCACCGAGT
CCGCTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTTAAAACCTTTTTAAGTCCT
TTAGGGGTATCGGTACTTTTACA
Found at i:173147 original size:13 final size:13
Alignment explanation
Indices: 173129--173155 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
173119 ACAATTATGC
173129 ATGTATCGATACA
1 ATGTATCGATACA
173142 ATGTATCGATACA
1 ATGTATCGATACA
173155 A
1 A
173156 AGCAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:173762 original size:22 final size:22
Alignment explanation
Indices: 173734--173781 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
173724 GCTCTCGTTT
* *
173734 AAAAATTTTCTCCCCCTTGATA
1 AAAAATTTTCACCCCCTTAATA
173756 AAAAATTTTCACCCCCTTAATA
1 AAAAATTTTCACCCCCTTAATA
173778 AAAA
1 AAAA
173782 TTTACTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATTTTCACCCCCTTAATA
Found at i:178787 original size:19 final size:18
Alignment explanation
Indices: 178762--178826 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
178752 ATTTCAACGA
178762 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
178780 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
*
178796 --TATATCGATACATAAG
1 TTTGTATCGATACATAAG
178812 TTTTGTATCGATACA
1 -TTTGTATCGATACA
178827 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 8 0.21
15 4 0.11
17 4 0.11
18 1 0.03
19 21 0.55
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:178802 original size:32 final size:32
Alignment explanation
Indices: 178766--178834 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
178756 CAACGATTTG
*
178766 TATCGATACATAAGTGTTGTATCGATATAATA
1 TATCGATACATAAGTGTTGTATCGATACAATA
* *
178798 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATA
178830 TATCG
1 TATCG
178835 CTACGAAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATA
Found at i:178897 original size:13 final size:13
Alignment explanation
Indices: 178879--178903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178869 ATTACTCAAA
178879 TGTATCGATACAT
1 TGTATCGATACAT
178892 TGTATCGATACA
1 TGTATCGATACA
178904 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:178956 original size:52 final size:53
Alignment explanation
Indices: 178892--179040 Score: 223
Period size: 52 Copynumber: 2.9 Consensus size: 53
178882 ATCGATACAT
***
178892 TGTATCGATACACTAAT-CTTTGTATCGATACATACAGGTAAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGTAAATTTGCCCAGA
178944 TGTATCGATACACT-ATGAAATGTATCGATACATACAGGTAAATTTGCCCAGA
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGTAAATTTGCCCAGA
* * *
178996 TGTATCGATACACT-ATGAAACGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTAATGAAATGTATCGATACATACAGGTAAATTT
179041 TCATATTTCG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (53 bp):
TGTATCGATACACTAATGAAATGTATCGATACATACAGGTAAATTTGCCCAGA
Found at i:179910 original size:21 final size:20
Alignment explanation
Indices: 179881--179926 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
179871 GATAACAGCC
* *
179881 CATGATTCATGCATTTTCAG
1 CATGTTTCATGCATTTACAG
179901 CTATGTTTCATGCATTTACAG
1 C-ATGTTTCATGCATTTACAG
179922 CATGT
1 CATGT
179927 CCAACACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTACAG
Found at i:181196 original size:24 final size:26
Alignment explanation
Indices: 181169--181219 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
181159 ATCAAAATTT
181169 TATTCAT-C-GGGGACACTCCAACCC
1 TATTCATCCAGGGGACACTCCAACCC
*
181193 TATTCCTCCGAGGGGACACTCCAACCC
1 TATTCATCC-AGGGGACACTCCAACCC
181220 CGTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
27 16 0.70
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.20
Consensus pattern (26 bp):
TATTCATCCAGGGGACACTCCAACCC
Found at i:186287 original size:26 final size:26
Alignment explanation
Indices: 186251--186303 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
186241 CCCCTTAAAC
186251 AAGTAATTCAAACATATCAAAAATTT
1 AAGTAATTCAAACATATCAAAAATTT
186277 AAGTAATTCAAACATATCAAAAATTT
1 AAGTAATTCAAACATATCAAAAATTT
186303 A
1 A
186304 TTTGCACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (26 bp):
AAGTAATTCAAACATATCAAAAATTT
Found at i:188116 original size:13 final size:13
Alignment explanation
Indices: 188098--188123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
188088 ATAATCACCC
188098 TGTATCGATACAA
1 TGTATCGATACAA
188111 TGTATCGATACAA
1 TGTATCGATACAA
188124 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:190220 original size:15 final size:15
Alignment explanation
Indices: 190200--190230 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
190190 ATTTCGTTTG
*
190200 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
190215 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
190230 G
1 G
190231 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:192062 original size:21 final size:21
Alignment explanation
Indices: 192033--192077 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
192023 AAGTTTTTAT
*
192033 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
192053 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
192075 TTT
1 TTT
192078 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Done.