Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008318.1 Hibiscus syriacus cultivar Beakdansim tig00111016_pilon, whole genome shotgun sequence
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: 501449
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3543 original size:20 final size:20
Alignment explanation
Indices: 3518--3568 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
3508 CATTCATTGA
*
3518 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
3538 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
3558 TTATCGCAACG
1 CTATCGCAACG
3569 AGAATATCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:3619 original size:14 final size:15
Alignment explanation
Indices: 3599--3670 Score: 67
Period size: 18 Copynumber: 4.5 Consensus size: 15
3589 GACAAATCGC
3599 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
3614 -TTGCGATTTTCATTCG
1 ATTGCGATTTTC--TCG
*
3630 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
3648 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
3664 -TTGCGAT
1 ATTGCGAT
3671 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
14 18 0.37
16 7 0.14
18 23 0.47
20 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:3637 original size:18 final size:18
Alignment explanation
Indices: 3595--3660 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
3585 AAATGACAAA
3595 TCGCATTGCGATTTTC--
1 TCGCATTGCGATTTTCAT
3611 TCG--TTGCGATTTTCAT
1 TCGCATTGCGATTTTCAT
3627 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCA-T
3645 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
3661 TCGTTGCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.25
16 6 0.14
17 5 0.11
18 18 0.41
19 4 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTTCAT
Found at i:3812 original size:14 final size:14
Alignment explanation
Indices: 3776--3812 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3766 CATCAATTAA
*
3776 ACAAATCAACATTT
1 ACAAATCATCATTT
*
3790 ACAAATCATCTTTT
1 ACAAATCATCATTT
3804 ACAAATCAT
1 ACAAATCAT
3813 TAAACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCATCATTT
Found at i:5665 original size:19 final size:18
Alignment explanation
Indices: 5625--5745 Score: 106
Period size: 19 Copynumber: 6.7 Consensus size: 18
5615 TAGTTTACTT
* *
5625 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAA-TGAAA
*
5644 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGA-AA
**
5663 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAAT-GAAA
*
5683 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATG-AAA
*
5702 TCGCAA--CGACA--AAA
1 TCGCAACGCGAAATGAAA
5716 TCGCAACGCGAAATGAAA
1 TCGCAACGCGAAATGAAA
5734 TCGCAACGCGAA
1 TCGCAACGCGAA
5746 CACAAATCGC
Statistics
Matches: 85, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
14 9 0.11
16 4 0.05
17 4 0.05
18 18 0.21
19 34 0.40
20 15 0.18
21 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (18 bp):
TCGCAACGCGAAATGAAA
Found at i:5779 original size:19 final size:19
Alignment explanation
Indices: 5752--5886 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
5742 CGAACACAAA
*
5752 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5771 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
5787 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
5803 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
5819 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
5836 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
5855 TCCGCGTTGCGATAGTCATTT
1 T-CGCGTTGCGATTTTCA-TT
*
5876 TCGTGTTGCGA
1 TCGCGTTGCGA
5887 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 19 0.20
15 3 0.03
16 6 0.06
17 2 0.02
18 14 0.15
19 23 0.25
20 23 0.25
21 3 0.03
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5793 original size:14 final size:14
Alignment explanation
Indices: 5774--5831 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
5764 TTTCATTTCG
5774 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
5788 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
5804 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
5820 CGTTGCGATTTT
1 CGTTGCGATTTT
5832 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:5838 original size:33 final size:33
Alignment explanation
Indices: 5757--5847 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
5747 ACAAATCGCA
5757 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
5790 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
5822 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
5848 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:5866 original size:20 final size:19
Alignment explanation
Indices: 5832--5886 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
5822 TTGCGATTTT
*
5832 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
5851 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
5871 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
5887 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:6382 original size:18 final size:18
Alignment explanation
Indices: 6356--6400 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6346 GTCGATCAGA
*
6356 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
6374 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
6392 TGATGGCTC
1 TGATGGCTC
6401 CCGAAGTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:7743 original size:20 final size:20
Alignment explanation
Indices: 7718--7755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7708 AATAGTTTCT
7718 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
7738 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
7756 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:8044 original size:22 final size:22
Alignment explanation
Indices: 8019--8062 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8009 GATTTAGATA
8019 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
8041 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
8063 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:8275 original size:20 final size:20
Alignment explanation
Indices: 8250--8299 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
8240 GATTATGTAT
*
8250 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
8270 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
8290 TATCTCGTTG
1 TATCGCGTTG
8300 TGATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:8336 original size:20 final size:20
Alignment explanation
Indices: 8230--8344 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
8220 CGCTTTGAAA
*
8230 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
8251 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
8271 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * ** * *
8291 ATCTCGTTGTGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
8312 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
8332 ATCGCATTGCGAT
1 ATCGCATTGCGAT
8345 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.66
21 23 0.31
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:8346 original size:41 final size:41
Alignment explanation
Indices: 8270--8347 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
8260 CGAAAGTCAG
* * * *
8270 TATCGCGTTGCGAAAGTAAGTATCTCGTTGTGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
8311 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
8348 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:8363 original size:41 final size:41
Alignment explanation
Indices: 8333--8428 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
8323 ATAGTCAGTA
* * *
8333 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
8374 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
8415 TCGCATTGCGAATT
1 TCGCATTGCGAATT
8429 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:8377 original size:20 final size:20
Alignment explanation
Indices: 8333--8425 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
8323 ATAGTCAGTA
* **
8333 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
8354 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
8374 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
8395 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
8415 TCGCATTGCGA
1 TCGCATTGCGA
8426 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:10311 original size:35 final size:35
Alignment explanation
Indices: 10267--10336 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10257 TGGTATTGAG
* *
10267 TCTCTGTAGGTTCAACTCCGATCAAGCTGGTAATT
1 TCTCAGTAGGTTCAACACCGATCAAGCTGGTAATT
10302 TCTCAGTAGGTTCAACACCGATCAAGCTGGTAATT
1 TCTCAGTAGGTTCAACACCGATCAAGCTGGTAATT
10337 CATTATGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (35 bp):
TCTCAGTAGGTTCAACACCGATCAAGCTGGTAATT
Found at i:15421 original size:5 final size:5
Alignment explanation
Indices: 15369--15403 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
15359 GTAATCTAAT
*
15369 AAATA AAATA AAATA AAATA AAATG AAATGA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT-A AAAT
15404 GGTGATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:19034 original size:2 final size:2
Alignment explanation
Indices: 19029--19057 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19019 AATTTTTTTA
19029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19058 AAATAAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27696 original size:12 final size:13
Alignment explanation
Indices: 27676--27707 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27666 ATCTTCAATT
27676 TTTTA-AAATA-A
1 TTTTATAAATATA
27687 TTTTATAAATATA
1 TTTTATAAATATA
27700 TTTTATAA
1 TTTTATAA
27708 TTTTAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 5 0.26
12 5 0.26
13 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTATAAATATA
Found at i:29253 original size:51 final size:52
Alignment explanation
Indices: 29191--29293 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
29181 CATCGTTATA
* * * * *
29191 TATTTTTAAATTATTATT-TCATTTTTAATTAATCCTTAAATCTTTAAATTT
1 TATTTTCAAATTATAATTCTCATTTTAAATTAATACTTAAATATTTAAATTT
* * *
29242 TATTTTCAAATTATAATTCTTATTTTAAATTGATATTTAAATATTTAAATTT
1 TATTTTCAAATTATAATTCTCATTTTAAATTAATACTTAAATATTTAAATTT
29294 CATTCTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 16 0.37
52 27 0.63
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (52 bp):
TATTTTCAAATTATAATTCTCATTTTAAATTAATACTTAAATATTTAAATTT
Found at i:33277 original size:31 final size:31
Alignment explanation
Indices: 33239--33425 Score: 322
Period size: 31 Copynumber: 6.0 Consensus size: 31
33229 CCCGAAGGAC
* *
33239 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
33270 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
33301 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
33332 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
33363 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
33394 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
33425 C
1 C
33426 CCTCGACCCT
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:33629 original size:23 final size:24
Alignment explanation
Indices: 33603--33649 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
33593 ATATACTTGT
*
33603 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
33626 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
33650 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:34192 original size:21 final size:21
Alignment explanation
Indices: 34162--34205 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
34152 ATTCTGCCGT
* *
34162 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
34183 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
34204 TT
1 TT
34206 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:41105 original size:31 final size:31
Alignment explanation
Indices: 41087--41151 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
41077 TATTTGTTAA
41087 TTTTTTAATAGGATATTTTGATTGAGATAAT
1 TTTTTTAATAGGATATTTTGATTGAGATAAT
*
41118 TTTTTTAATAGGATATTTTGACTGAGATAAT
1 TTTTTTAATAGGATATTTTGATTGAGATAAT
41149 TTT
1 TTT
41152 AAAATTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (31 bp):
TTTTTTAATAGGATATTTTGATTGAGATAAT
Found at i:41691 original size:2 final size:2
Alignment explanation
Indices: 41684--41713 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41674 TTTATAACTC
41684 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
41714 TTGCACAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49806 original size:65 final size:65
Alignment explanation
Indices: 49666--49827 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 65
49656 ACTGTTCAGT
* * *
49666 GTGTATCGATGCACAGGAAGTGCATCGATGCA-CCCATTAAAAATGAAAACGTCGAATGCAATTA
1 GTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAAGGCAATTA
* * **
49730 GTGCATCGATGCATAAGG-AGTGCATCGATGCACCCCCCTT-AAAATGAAAACATCGAAGGTGAT
1 GTGTATCGATGCAT-AGGAAGTGCATCGATGCA-CCCCATTAAAAATGAAAACATCGAAGGCAAT
*
49793 TG
64 TA
* *
49795 GTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 GTGTATCGATGCATAGGAAGTGCATCGATGCAC
49828 ATGTTAAAGA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 29 0.35
65 50 0.60
66 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (65 bp):
GTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAAGGCAATTA
Found at i:49860 original size:20 final size:22
Alignment explanation
Indices: 49815--49872 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
49805 GCATGGGTAG
49815 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
49839 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
49859 TGCATCGATGCACT
1 TGCATCGATGCACT
49873 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:50760 original size:23 final size:23
Alignment explanation
Indices: 50702--50763 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
50692 CATTTTATAT
*
50702 GGCACTTCGGTGCAATCCTACGT
1 GGCACTTCGGTGCAATCCTACGC
* * * * *
50725 GGCACTACAGTGCATTTCTATGC
1 GGCACTTCGGTGCAATCCTACGC
50748 GGCACTTCGGTGCAAT
1 GGCACTTCGGTGCAAT
50764 TATACGAGCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATCCTACGC
Found at i:56104 original size:12 final size:13
Alignment explanation
Indices: 56036--56114 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 13
56026 CAGAGGGAAA
*
56036 AAATGAATAAATG
1 AAATAAATAAATG
*
56049 AAA-AAATGAA-G
1 AAATAAATAAATG
* *
56060 AATAAAAATAAGT-
1 AA-ATAAATAAATG
* *
56073 AAAAAAATAAAAG
1 AAATAAATAAATG
*
56086 GAA-AAATAAAT-
1 AAATAAATAAATG
56097 AAATAAATAAATG
1 AAATAAATAAATG
56110 AAATA
1 AAATA
56115 TATATATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.10
12 29 0.57
13 17 0.33
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (13 bp):
AAATAAATAAATG
Found at i:56119 original size:2 final size:2
Alignment explanation
Indices: 56112--56160 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
56102 AATAAATGAA
56112 AT AT AT AT AT 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 AT AT AT AT AT
56154 AT AT AT A
1 AT AT AT A
56161 AATGAGTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56234 original size:20 final size:20
Alignment explanation
Indices: 56178--56232 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
56168 AAAATAGAAA
*
56178 AATAATAATCATAAAAATAAT
1 AATAGTAAT-ATAAAAATAAT
*
56199 AATAGTAATATGAAAAT-AT
1 AATAGTAATATAAAAATAAT
56218 AATA-TAATATAAAAA
1 AATAGTAATATAAAAA
56233 AAACCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.32
19 6 0.19
20 7 0.23
21 8 0.26
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AATAGTAATATAAAAATAAT
Found at i:56383 original size:2 final size:2
Alignment explanation
Indices: 56376--56410 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
56366 GATAATTACA
*
56376 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56411 GTAATAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:56477 original size:21 final size:21
Alignment explanation
Indices: 56453--56552 Score: 73
Period size: 21 Copynumber: 4.7 Consensus size: 21
56443 AAAAAAAGTG
56453 TATATATATAAAAATAATAAA
1 TATATATATAAAAATAATAAA
*
56474 TATAGTAT-TAAAAATAACCAAA
1 TATA-TATATAAAAATAA-TAAA
*
56496 TGA-ATATA-AATAAATAAAAAA
1 T-ATATATATAA-AAATAATAAA
* *
56517 TATATGTATAGATAATAAT-AA
1 TATATATATA-AAAATAATAAA
*
56538 TATATAGTGTAAAAA
1 TATATA-TATAAAAA
56553 AATCAATTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
20 1 0.02
21 36 0.58
22 23 0.37
23 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (21 bp):
TATATATATAAAAATAATAAA
Found at i:56531 original size:23 final size:24
Alignment explanation
Indices: 56500--56548 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
56490 ACCAAATGAA
56500 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
* *
56523 TATAGATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
56547 TA
1 TA
56549 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Found at i:57110 original size:37 final size:37
Alignment explanation
Indices: 57020--57112 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
57010 GGATCATATC
* * * *
57020 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
* *
57057 TTAAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
57094 TTTAGGAGTTTGAATCCTA
1 TTTAGGAGTTTGAATCCTA
57113 ATAGGACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGCAAAACTCTATCCTATT
Found at i:57939 original size:17 final size:16
Alignment explanation
Indices: 57917--57950 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
57907 TAAAAACAGT
57917 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
57934 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
57950 A
1 A
57951 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:70087 original size:103 final size:102
Alignment explanation
Indices: 69836--70200 Score: 437
Period size: 103 Copynumber: 3.5 Consensus size: 102
69826 CGGGAAATTA
* * * *
69836 TTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGACTCTAATATCC
1 TTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCC
* * *
69901 TTCGCTGTGAAGTTGAAATTGACTCTG-AATGA-AAT
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGAAG
* * * * * * *
69936 TTTGTTGACAATCAGCCGCCCCTTCGTCGAGAAGTTGAGCTTGTGTTGTCTTGGGTCCAAGATCA
1 TTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCC
*
70001 TTCGCTGAGAAGTTGAAATTGGCTCTGAAATTATGAAG
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTA-GAAG
* * * *
70039 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCC
1 TTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCC
* *
70104 TTCGTTGTGAAGTTGAAATTGGATCTGAAATTGAGAAG
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-AGAAG
* * * * *
70142 TTATTTGTTGGCAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTTTCTTGAGT
1 ---TTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGT
70201 GGCACGATAT
Statistics
Matches: 222, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
100 79 0.36
101 4 0.02
103 89 0.40
104 1 0.00
106 49 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (102 bp):
TTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCC
TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGAAG
Found at i:71029 original size:22 final size:22
Alignment explanation
Indices: 71004--71080 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
70994 TTATGTTTGG
* *
71004 TCAAAGATTTGACATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
71026 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
71048 TCATAGGTTTGGCAGTTT-ATGC
1 TCAAAGGTTTGGCA-TTTGATGC
*
71070 TCAACGGTTTG
1 TCAAAGGTTTG
71081 ATGGGGTAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 46 0.94
23 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:71779 original size:172 final size:173
Alignment explanation
Indices: 71476--71822 Score: 569
Period size: 172 Copynumber: 2.0 Consensus size: 173
71466 TAAATAGGCC
*
71476 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATTCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATTCCTTCAA-CA-GTCCTG
* *
71541 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTTGAGTGAAGTGATTCAGTGATTCGAGAATG
64 CTCAAAATGTCTCTCTCTTGATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATG
71606 ATTGTGATTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGATTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
71651 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGT-CTTC-A-A-TCCTGC
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGAT-TCCTTCAACAGTCCTGC
71712 TCAAAATGTTTCTCTCTCTTGATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTC-AGGAA
65 TCAAAATG--TCTCTCTCTTGATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCGA-GAA
*
71776 TGATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
127 TGATTGTGATTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
71823 TTTTAGGGAA
Statistics
Matches: 164, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
170 14 0.09
171 1 0.01
172 97 0.59
174 1 0.01
175 50 0.30
176 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATTCCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTGATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGAT
TGTGATTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:71885 original size:16 final size:15
Alignment explanation
Indices: 71866--71933 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 15
71856 TTTTCCCTTT
*
71866 TTCTTTTTTATTTTTG
1 TTCTTTTCT-TTTTTG
*
71882 TTCTTGTTTCTCTTTT-
1 TTC-T-TTTCTTTTTTG
*
71898 TTCTTTGCTTTTTTG
1 TTCTTTTCTTTTTTG
71913 CTTCTTTTCTTTTTTG
1 -TTCTTTTCTTTTTTG
71929 TTCTT
1 TTCTT
71934 GATTGGATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.19
15 6 0.14
16 20 0.47
17 5 0.12
18 4 0.09
ACGTcount: A:0.01, C:0.15, G:0.07, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTTTTG
Found at i:76501 original size:14 final size:13
Alignment explanation
Indices: 76484--76525 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
76474 TGAATAAATG
76484 AAAAAATAAAGAAT
1 AAAAAA-AAAGAAT
76498 AAAAAAAAAGTAA-
1 AAAAAAAAAG-AAT
76511 AAAAAAAAA-AAT
1 AAAAAAAAAGAAT
76523 AAA
1 AAA
76526 TAAATAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 3 0.12
13 13 0.50
14 8 0.31
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (13 bp):
AAAAAAAAAGAAT
Found at i:76593 original size:52 final size:52
Alignment explanation
Indices: 76506--76606 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
76496 ATAAAAAAAA
* * *
76506 AGTAAAAAAAAAAAAATAAATAAATAAATGAAATATTAATATATATATATAT
1 AGTAAAAAAAAAAAAATAAATAAACAAATGAAATATGAAAATATATATATAT
* * * *
76558 AGTAAAATAAAAATAAT-AATCAACAAATAGTAATATGAAAATATATATA
1 AGTAAAAAAAAAAAAATAAATAAACAAAT-GAAATATGAAAATATATATA
76607 AAAAAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 9 0.22
52 32 0.78
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (52 bp):
AGTAAAAAAAAAAAAATAAATAAACAAATGAAATATGAAAATATATATATAT
Found at i:76620 original size:2 final size:2
Alignment explanation
Indices: 76615--76659 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
76605 TAAAAAAAAA
76615 AT AT AT AT AT 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 AT AT AT AT AT
76657 AT A
1 AT A
76660 AACCAAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76830 original size:19 final size:17
Alignment explanation
Indices: 76806--76912 Score: 63
Period size: 19 Copynumber: 5.6 Consensus size: 17
76796 TTAAAGTAAA
*
76806 ATATAAAAAAGTATATTAT
1 ATATAAAAAA-TA-AATAT
76825 ATATAAAATAATAAATAT
1 ATATAAAA-AATAAATAT
*
76843 ATATTAAAAAATAACCAAAT
1 ATA-TAAAAAATAA--ATAT
76863 GAATATAAATAAATAAAAATAT
1 --ATATAAA-AAAT--AAATAT
*
76885 ATATATAATAAT-AATAT
1 ATATA-AAAAATAAATAT
*
76902 ATGTAAAAAAT
1 ATATAAAAAAT
76913 CAATTGAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
16 5 0.07
17 9 0.12
18 12 0.17
19 15 0.21
20 13 0.18
21 6 0.08
22 10 0.14
24 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAAAAAATAAATAT
Found at i:76843 original size:18 final size:18
Alignment explanation
Indices: 76822--76909 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 18
76812 AAAAGTATAT
76822 TATATATAAAATAATAAA
1 TATATATAAAATAATAAA
*
76840 TATATATTAAAAAATAACCAAA
1 TATATA-T--AAAATAA-TAAA
*
76862 TGAATATAAATAAATAA-AAA
1 T--ATATATA-AAATAATAAA
*
76882 TATATATATAATAAT-AA
1 TATATATAAAATAATAAA
*
76899 TATATGTAAAA
1 TATATATAAAA
76910 AATCAATTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
17 16 0.29
18 12 0.21
19 1 0.02
20 4 0.07
21 8 0.14
22 10 0.18
24 5 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TATATATAAAATAATAAA
Found at i:77419 original size:37 final size:37
Alignment explanation
Indices: 77372--77460 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
77362 AGATCTTATC
* * *
77372 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATA-T
1 TTTAAGAGTTTAAATCATAGCAAAACTCTATCATATT
* * * *
77408 TTTAAGAAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAAG-AGTTTAAATCATAGCAAAACTCTATCATATT
77446 TTTAAGAGTTTAAAT
1 TTTAAGAGTTTAAAT
77461 TTTAATAGGA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
36 5 0.12
37 31 0.72
38 7 0.16
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (37 bp):
TTTAAGAGTTTAAATCATAGCAAAACTCTATCATATT
Found at i:79150 original size:130 final size:131
Alignment explanation
Indices: 78840--79230 Score: 622
Period size: 131 Copynumber: 3.0 Consensus size: 131
78830 TCTCCTTTGG
*
78840 AACTTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGCATTGATCGAGGTTCGTGTCAA
1 AACTTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGCATTGATCGATGTTCGTGTCAA
* * * *
78905 TGTCAATTGATTCCTTGTTATTATGTTGATATATAAGTTTTCAAAGACGCATGTTCTTGTGATCA
66 TGTCAATTGATTCCTCGTTATCATGTTGATATATAAGTTGTCAAAGACGCATGTCCTTGTGATCA
78970 T
131 T
* **
78971 AAATTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGTGTTGATCGATGTTCGTGTCAA
1 AACTTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGCATTGATCGATGTTCGTGTCAA
* *
79036 TGTCAATTGATTCCTCATTATCATGTTGATATATAAGTTGTCAAA-TCGCATGTCCTTGTGATCA
66 TGTCAATTGATTCCTCGTTATCATGTTGATATATAAGTTGTCAAAGACGCATGTCCTTGTGATCA
79100 T
131 T
* * *
79101 AACTTGACTATTGAGCTTGTGTATCCTGAAATTATTGTTAATGCATTGATCGATGTTCATGTCAA
1 AACTTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGCATTGATCGATGTTCGTGTCAA
* **
79166 TGGTCAATTGATTCCTCGTTATCATGTTGATATATAAGTTGTCAACGAATCATGTCCTTGTGATC
66 T-GTCAATTGATTCCTCGTTATCATGTTGATATATAAGTTGTCAAAGACGCATGTCCTTGTGATC
79231 GTTTGTTACA
Statistics
Matches: 237, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 78 0.33
131 144 0.61
132 15 0.06
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (131 bp):
AACTTGACTGTTGAGCTTGTGTATCCTGAAATGATTGTTAATGCATTGATCGATGTTCGTGTCAA
TGTCAATTGATTCCTCGTTATCATGTTGATATATAAGTTGTCAAAGACGCATGTCCTTGTGATCA
T
Found at i:90975 original size:14 final size:15
Alignment explanation
Indices: 90945--90977 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
90935 TATACATGAT
*
90945 TATATGCATATGTGA
1 TATATGCATATGAGA
90960 TATATG-ATATGAGA
1 TATATGCATATGAGA
90974 TATA
1 TATA
90978 ACCAATGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (15 bp):
TATATGCATATGAGA
Found at i:97343 original size:49 final size:50
Alignment explanation
Indices: 97244--97348 Score: 158
Period size: 49 Copynumber: 2.1 Consensus size: 50
97234 TTTTTGAGAA
* * *
97244 TAAAGTCATTTTGAGTTTAGGATGAAAAAAAAAACATAATTCGAGAAAATAT
1 TAAAGTCAGTTTGAGTTTAGGATG--AAAAAAAACACAACTCGAGAAAATAT
97296 TAAAGTCAGTTTGAGTTTAGGATG-AAAAAAACACAACTCGAGAAAATAT
1 TAAAGTCAGTTTGAGTTTAGGATGAAAAAAAACACAACTCGAGAAAATAT
97345 TAAA
1 TAAA
97349 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
49 27 0.54
52 23 0.46
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.27
Consensus pattern (50 bp):
TAAAGTCAGTTTGAGTTTAGGATGAAAAAAAACACAACTCGAGAAAATAT
Found at i:98726 original size:14 final size:15
Alignment explanation
Indices: 98707--98739 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
98697 TTTGGATAGA
98707 AAAAATAT-ATTAAC
1 AAAAATATAATTAAC
*
98721 AAAAATATAATTTAC
1 AAAAATATAATTAAC
98736 AAAA
1 AAAA
98740 GAGATCCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATATAATTAAC
Found at i:99419 original size:2 final size:2
Alignment explanation
Indices: 99412--99436 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99402 TATTTTTACC
99412 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
99437 AAACAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101515 original size:21 final size:21
Alignment explanation
Indices: 101474--101515 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
101464 TGGGAATTCG
* *
101474 GGTTCTGGTTTGACAAGAATT
1 GGTTCTGGTTTCACAAAAATT
101495 GGTTC-GGTTTCATCAAAAATT
1 GGTTCTGGTTTCA-CAAAAATT
101516 CACAGCCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (21 bp):
GGTTCTGGTTTCACAAAAATT
Found at i:103291 original size:36 final size:36
Alignment explanation
Indices: 103174--103290 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 36
103164 TCAATTGAAT
* * *
103174 ATTGGAAAAAGTGCTTAAATTAGGTATTTCCACTGGC
1 ATTGGAAAAA-TGCTCAAGTTAGGTATTTCCACTAGC
* * * * *
103211 ATTAGAAAAATACTCAAGTTCGGTTTTTCCGCTAGC
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
* *
103247 ATTGGAAATATGCTCAAGTTAGGTATTTCCACTAGT
1 ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
103283 ATTGGAAA
1 ATTGGAAA
103291 TGACTATTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
36 56 0.86
37 9 0.14
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (36 bp):
ATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAGC
Found at i:106388 original size:31 final size:31
Alignment explanation
Indices: 106350--106412 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
106340 CCCAAGAGTT
106350 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
*
106381 TGGGAGTTCCTAGTGAGAATGACATATTGAA
1 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
106412 T
1 T
106413 TCACCGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (31 bp):
TGGGAGTTCCTAGTGAGAAGGACATATTGAA
Found at i:107095 original size:36 final size:36
Alignment explanation
Indices: 106977--107094 Score: 173
Period size: 36 Copynumber: 3.2 Consensus size: 36
106967 CTCAATTGAA
* *
106977 TATTGGAAAAAATGCTTAAATTAGGTATTTCCACTAG
1 TATTGG-AAAAATGCTCAAGTTAGGTATTTCCACTAG
* * *
107014 CATTGGAAAAATGCTCAAGTTAAGTTTTTCCACTAG
1 TATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAG
*
107050 TATTGGAAATATGCTCAAGTTAGGTATTTCCACTAG
1 TATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAG
107086 TATTGGAAA
1 TATTGGAAA
107095 TGACTATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 67 0.93
37 5 0.07
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (36 bp):
TATTGGAAAAATGCTCAAGTTAGGTATTTCCACTAG
Found at i:108239 original size:19 final size:20
Alignment explanation
Indices: 108215--108252 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
108205 TATATTAGAT
108215 AAAATAAACATT-TAATTAA
1 AAAATAAACATTATAATTAA
*
108234 AAAATAAATATTATAATTA
1 AAAATAAACATTATAATTA
108253 TCTATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAAACATTATAATTAA
Found at i:110929 original size:3 final size:3
Alignment explanation
Indices: 110921--110945 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110911 TTACCCAGTA
110921 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
110946 GGTGATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:111602 original size:11 final size:11
Alignment explanation
Indices: 111573--111609 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
111563 TTAAAATATG
111573 ATAATTATTT-
1 ATAATTATTTA
111583 ATAATTATTTA
1 ATAATTATTTA
*
111594 ATAAATATTTA
1 ATAATTATTTA
111605 A-AATT
1 ATAATT
111610 TCAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 13 0.54
11 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:115511 original size:34 final size:34
Alignment explanation
Indices: 115464--115531 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
115454 ATTAAGGAAT
115464 CCCCCAATCACTACACAACCTTCTATTCACCCTA
1 CCCCCAATCACTACACAACCTTCTATTCACCCTA
* * *
115498 CCCCCAGTGACTACACAATCTTCTATTCACCCTA
1 CCCCCAATCACTACACAACCTTCTATTCACCCTA
115532 TCTCTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.44, G:0.03, T:0.25
Consensus pattern (34 bp):
CCCCCAATCACTACACAACCTTCTATTCACCCTA
Found at i:116793 original size:98 final size:98
Alignment explanation
Indices: 116622--116820 Score: 312
Period size: 98 Copynumber: 2.0 Consensus size: 98
116612 TAAACCTTAC
* * *
116622 AAATCACAAAGAGAATATATTATGCACGATCACTAGCACAGAGATTCAAAATGCTCGACATATGC
1 AAATCACAAAGAGAATATATTATACACGATCACTAGCACAGAGACTCAAAATGCTCGACATATGA
*
116687 AGCTATGACGTATAGAAGTCAGCTATTCGTGGG
66 AGCCATGACGTATAGAAGTCAGCTATTCGTGGG
*
116720 AAATCACAAAGAG-A-ATATTATACACGATCATTAGCACAGAAAGACTCAAAATGCTCGACATAT
1 AAATCACAAAGAGAATATATTATACACGATCACTAGCACAG--AGACTCAAAATGCTCGACATAT
*
116783 GAAGCCATGACGTATAGAAGTCAGCTATTTGTGGG
64 GAAGCCATGACGTATAGAAGTCAGCTATTCGTGGG
116818 AAA
1 AAA
116821 CGCCAACAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
96 23 0.25
97 1 0.01
98 69 0.74
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (98 bp):
AAATCACAAAGAGAATATATTATACACGATCACTAGCACAGAGACTCAAAATGCTCGACATATGA
AGCCATGACGTATAGAAGTCAGCTATTCGTGGG
Found at i:122588 original size:15 final size:15
Alignment explanation
Indices: 122564--122595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
122554 TTAATTATCT
*
122564 TTTAAGATTATTAAA
1 TTTAAAATTATTAAA
122579 TTTAAAATTATTAAA
1 TTTAAAATTATTAAA
122594 TT
1 TT
122596 AAACGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTAAAATTATTAAA
Found at i:123188 original size:22 final size:22
Alignment explanation
Indices: 123160--123202 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
123150 ACTTTTGTTA
* *
123160 TCTCAAAGGTATAATGACTTTT
1 TCTCAAACGTATAATAACTTTT
123182 TCTCAAACGTATAATAACTTT
1 TCTCAAACGTATAATAACTTT
123203 ATAGTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
TCTCAAACGTATAATAACTTTT
Found at i:126982 original size:24 final size:25
Alignment explanation
Indices: 126927--126985 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
126917 TTATTAGTTT
126927 AATTATAAATAGTTCATTAAATAAAAA
1 AATTATAAATAGTTCATT--ATAAAAA
* *
126954 AATTATAAATGGTTCATT-TTAAAA
1 AATTATAAATAGTTCATTATAAAAA
126978 AATTATAA
1 AATTATAA
126986 TTTAATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 13 0.43
27 17 0.57
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (25 bp):
AATTATAAATAGTTCATTATAAAAA
Found at i:127161 original size:34 final size:30
Alignment explanation
Indices: 127122--127185 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
127112 CTTAATCATA
127122 ATTTAAAATTATTTAACAAATGTTAACTATTTAT
1 ATTT-AAATTATTTAAC-AAT-TTAA-TATTTAT
* *
127156 ATTTAAATTTTTTATCAATTTAATATTTAT
1 ATTTAAATTATTTAACAATTTAATATTTAT
127186 TCGTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.25
31 4 0.14
32 3 0.11
33 10 0.36
34 4 0.14
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTAAATTATTTAACAATTTAATATTTAT
Found at i:130733 original size:32 final size:32
Alignment explanation
Indices: 130689--130760 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
130679 AATTACTGAC
* * *
130689 ATGACATATATCACATTATTATTTTAAGTGAT
1 ATGACATATATCACATAATCATTTTAAATGAT
* *
130721 ATGATATATATCACATAATCGTTTTAAATGAT
1 ATGACATATATCACATAATCATTTTAAATGAT
130753 AT-ACATAT
1 ATGACATAT
130761 CATATCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 5 0.15
32 29 0.85
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (32 bp):
ATGACATATATCACATAATCATTTTAAATGAT
Found at i:131866 original size:72 final size:75
Alignment explanation
Indices: 131785--131921 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 75
131775 AGTATAATTT
* *
131785 GGGAAAAGATAATGTAATAAATAGTAGATTAGGAAAAGAAGAT-A-A-TAATACTATTAGTTATT
1 GGGAAAAGATAATATAATAAATAGCAGATTAGGAAAAGAAGATGAGATTAATACTATTAGTTATT
131847 GTTATATATG
66 GTTATATATG
* * * *
131857 GGGAAAAGATAATATATTAAATAGCATATTGGGAAAAGAAGATGAGATTAATACTATTATTTATT
1 GGGAAAAGATAATATAATAAATAGCAGATTAGGAAAAGAAGATGAGATTAATACTATTAGTTATT
131922 ACTATACTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
72 38 0.68
73 1 0.02
74 1 0.02
75 16 0.29
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (75 bp):
GGGAAAAGATAATATAATAAATAGCAGATTAGGAAAAGAAGATGAGATTAATACTATTAGTTATT
GTTATATATG
Found at i:140345 original size:15 final size:15
Alignment explanation
Indices: 140322--140359 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
140312 ATATTTATGT
140322 GGGGCGGGCGGATGC
1 GGGGCGGGCGGATGC
*
140337 GGGGTGGGCGGATGC
1 GGGGCGGGCGGATGC
140352 GGGGCGGG
1 GGGGCGGG
140360 TAATGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.71, T:0.08
Consensus pattern (15 bp):
GGGGCGGGCGGATGC
Found at i:142591 original size:2 final size:2
Alignment explanation
Indices: 142584--142614 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
142574 TTTTACTAAA
142584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
142615 AACAGCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:145054 original size:2 final size:2
Alignment explanation
Indices: 145047--145074 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
145037 TTAAAATCCA
145047 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
145075 TAAAATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150473 original size:24 final size:24
Alignment explanation
Indices: 150448--150554 Score: 126
Period size: 24 Copynumber: 4.5 Consensus size: 24
150438 AAACGGAGAT
*
150448 ATCAGAAATCA-AAGCAGAATTCAT
1 ATCAGAAATCATAA-CAGAATTCAG
* * *
150472 ATCATATATCATAACAGAATCCAG
1 ATCAGAAATCATAACAGAATTCAG
150496 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCATAACAGAATTCAG
* * * *
150520 ATCAGAAATCAAAACATATTTCAA
1 ATCAGAAATCATAACAGAATTCAG
150544 ATCAGAAATCA
1 ATCAGAAATCA
150555 GATAAAATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
24 69 0.97
25 2 0.03
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCATAACAGAATTCAG
Found at i:152675 original size:19 final size:19
Alignment explanation
Indices: 152651--152687 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
152641 AGTATGTTCA
152651 GGGGGTATCGATTCCCCTG
1 GGGGGTATCGATTCCCCTG
152670 GGGGGTATCGATTCCCCT
1 GGGGGTATCGATTCCCCT
152688 AAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.27, G:0.35, T:0.27
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:153414 original size:31 final size:31
Alignment explanation
Indices: 153261--153414 Score: 222
Period size: 31 Copynumber: 5.0 Consensus size: 31
153251 GGTCGAGGGT
*
153261 TTACCTATGTTCTTCGGGACATATGAACT-A
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
153291 TTTACCTATGTTCTTCGGGACATATGGACTGT
1 -TTACCTATGTTCTTCGGGACATATGGACTGA
*
153323 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
153354 TTACCTATGTTCTTCGGGACATATAGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
153385 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
153415 GTCCTTCGGG
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:157916 original size:64 final size:64
Alignment explanation
Indices: 157848--158025 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
157838 GAACACTTGA
* ** *
157848 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
*** * **
157912 TGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * * *
157977 TGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
158026 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.53
65 45 0.47
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:157997 original size:19 final size:19
Alignment explanation
Indices: 157973--158023 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
157963 GAAAATATTC
157973 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
157992 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
158011 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
158024 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:157999 original size:65 final size:65
Alignment explanation
Indices: 157866--158025 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
157856 TGCACCAAGT
* ****
157866 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGTCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
* **
157930 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAG
157994 A
65 A
* *
157995 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
158026 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
Found at i:163985 original size:22 final size:21
Alignment explanation
Indices: 163959--164005 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
163949 AAGGTCAAAA
*
163959 ATCAAATTGTTTGAAAATTG-AT
1 ATCAAATGGTTT-AAAA-TGAAT
163981 ATC-AATGGTTTAAAATGAAT
1 ATCAAATGGTTTAAAATGAAT
164001 ATCAA
1 ATCAA
164006 TTACGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (21 bp):
ATCAAATGGTTTAAAATGAAT
Found at i:166159 original size:45 final size:46
Alignment explanation
Indices: 166095--166199 Score: 151
Period size: 45 Copynumber: 2.3 Consensus size: 46
166085 TGCACCAAGT
* *
166095 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTG-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATAGCCAGA
**
166140 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGA
166186 GTGCATCGATGCAT
1 GTGCATCGATGCAT
166200 GGAGAGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
45 36 0.67
46 18 0.33
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGA
Found at i:166207 original size:19 final size:19
Alignment explanation
Indices: 166183--166219 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
166173 GAAAATATTC
166183 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
166202 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
166220 AAATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:167632 original size:12 final size:12
Alignment explanation
Indices: 167595--167665 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
167585 GGAAAAAATG
*
167595 AATAAATGAAAA
1 AATAAATAAAAA
*
167607 AATGAAATATAAA
1 AAT-AAATAAAAA
*
167620 AATAAGTAAAAA
1 AATAAATAAAAA
*
167632 AATAAA-AGGAAA
1 AATAAATA-AAAA
*
167644 AATAAATAAATA
1 AATAAATAAAAA
167656 AATAAATAAA
1 AATAAATAAA
167666 TGAAATATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
11 1 0.02
12 36 0.75
13 11 0.23
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:167654 original size:8 final size:8
Alignment explanation
Indices: 167590--167672 Score: 57
Period size: 8 Copynumber: 10.1 Consensus size: 8
167580 TAGAGGGAAA
*
167590 AAATGAAT
1 AAATAAAT
167598 AAATGAAA-
1 AAAT-AAAT
167606 AAATGAAAT
1 AAAT-AAAT
167615 ATAA-AAAT
1 A-AATAAAT
* *
167623 AAGTAAAA
1 AAATAAAT
167631 AAATAAA-
1 AAATAAAT
167638 AGGAA-AAAT
1 A--AATAAAT
167647 AAATAAAT
1 AAATAAAT
167655 AAATAAAT
1 AAATAAAT
167663 AAATGAAAT
1 AAAT-AAAT
167672 A
1 A
167673 TTAAAATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.06
8 45 0.73
9 11 0.18
10 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (8 bp):
AAATAAAT
Found at i:167763 original size:18 final size:19
Alignment explanation
Indices: 167714--167763 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
167704 TAGAAAAATA
*
167714 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
167734 AGT-ATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
167752 ATAATATAAAAA
1 ATAATATAAAAA
167764 AACCAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 6 0.24
20 3 0.12
21 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:167779 original size:33 final size:36
Alignment explanation
Indices: 167742--167829 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 36
167732 ATAGTATATG
167742 AAAATATAATATAATATAA-A-A-AAACCAAAAACA
1 AAAATATAATATAATATAATATATAAACCAAAAACA
* *
167775 AAAATA-AATA-AATA-AATATATAAACCAAATATA
1 AAAATATAATATAATATAATATATAAACCAAAAACA
167808 AAAATATACATATAATGATAAT
1 AAAATATA-ATATAAT-ATAAT
167830 TGGCTTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
30 2 0.04
31 5 0.11
32 5 0.11
33 22 0.49
34 1 0.02
35 3 0.07
36 3 0.07
37 1 0.02
38 3 0.07
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (36 bp):
AAAATATAATATAATATAATATATAAACCAAAAACA
Found at i:167992 original size:22 final size:22
Alignment explanation
Indices: 167967--168062 Score: 63
Period size: 22 Copynumber: 4.2 Consensus size: 22
167957 AAGTATATAT
167967 AAATAATAAATATAGTATTAAA
1 AAATAATAAATATAGTATTAAA
*
167989 AAATAACCAAATGA-A-TA-TAAA
1 AAATAA-TAAAT-ATAGTATTAAA
*
168010 TAAATAAAAAATATATGTATATATAA
1 -AAATAATAAATATA-GTAT-TA-AA
* * *
168036 TAATAATAATATATAGTGTAAAA
1 AAATAATAA-ATATAGTATTAAA
168059 AAAT
1 AAAT
168063 CAATTGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
20 1 0.02
21 9 0.16
22 14 0.25
23 12 0.21
24 2 0.04
25 12 0.21
26 7 0.12
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
AAATAATAAATATAGTATTAAA
Found at i:168613 original size:37 final size:37
Alignment explanation
Indices: 168520--168621 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
168510 GTGCTTGTGG
* * * * * *
168520 ATCCTATCTTTGGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
168557 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
168594 ATCCTATTTTTAGGAGTTTGAATTCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
168622 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:169650 original size:106 final size:106
Alignment explanation
Indices: 169322--170378 Score: 1461
Period size: 106 Copynumber: 10.0 Consensus size: 106
169312 GCATTGTTCT
* * *** * *
169322 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCAGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
169386 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
169428 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * ** *
169487 TCAGCCG-CCCATTCGTCGTGAAGTTGGGCTTGTGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
169529 G-GTCCAAGATTCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
****
169593 CCAATAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
169634 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
169699 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
169740 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
169804 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
169845 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
169910 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
169951 GAGTCCAATATCCTTCGCTGTGATGTTGAAATTGACTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
170016 CCAGTGGTCCCTTCGTCATGAAGTTGAACCTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
170057 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
170122 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
170163 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
170228 CCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
170269 GAGTCCAATATCCTTCGCTGTGAAGTTTAAATTGGCTCTGAAATTGGGAAGTTGCTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
170334 CCAGCCGTCCCTTTGTCGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
170375 GAGT
1 GAGT
170379 AGCACGATAT
Statistics
Matches: 852, Mismatches: 85, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
99 3 0.00
100 75 0.09
101 5 0.01
102 4 0.00
104 3 0.00
105 101 0.12
106 657 0.77
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:170313 original size:529 final size:524
Alignment explanation
Indices: 169321--170409 Score: 1596
Period size: 529 Copynumber: 2.1 Consensus size: 524
169311 AGCATTGTTC
*
169321 TGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCAGGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCAGGAAGTTGTTTGTTGACA
* *
169386 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* * * * **
169451 AGTTAAAATTGACTCTGAATGAAATTTTGTTGACAATCAGCCGCCCATTCGTCGTGAAGTTGGGC
131 AGTTAAAATTGACTCTAAATGAAATTTTATTGACAACCAGCCGCCCATTCGTCATGAAGTTGAAC
* ** *
169516 TTGTGTTGTCTTGGGTCCAAGATTCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
196 CTACGTTGTCTTGGGTCCAAGATTCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
169581 GTTTATTGACAACCAATAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATC
261 GTTTATTGACAACCAACAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
*
169646 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCT
326 CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCT
* *
169711 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGC
391 TCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGC
* *
169776 TCTGAAATTGGGAAATTG-TTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTT
456 TCTGAAATTGGGAAATTGCTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTT
169840 GTCT
521 GTCT
* ** *
169844 TGAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAA-TTGAGAAGTTTTTTGTTGA
1 TGAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGGCTCTGAAACCAG-GAAGTTGTTTGTTGA
* * *
169907 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGCTGT
64 CAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGT
* * * **
169972 GATGTTGAAATTGACTCTAAAATTGGGAAGTTGTTTATTGACAACCAGTGGTCCC-TTCGTCATG
129 GAAGTTAAAATTGACTCT-AAA-T--GAA-AT-TTTATTGACAACCAGCCG-CCCATTCGTCATG
* *
170036 AAGTTGAACCTACGTTGTC-TGGAGTCCAATA-TCATTCGCTGTGAAGTTGAAATTGGCTCTGAA
187 AAGTTGAACCTACGTTGTCTTGG-GTCCAAGATTC-TTCGCTGAGAAGTTGAAATTGGCTCTGAA
* **
170099 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
250 ATTGGGAAATTGTTTATTGACAACCAACAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
170164 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
315 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAAC
*
170229 CAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
380 CAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAG
* * *
170294 TTTAAATTGGCTCTGAAATTGGGAAGTTGCTTGTTGACAACCAGCCGTCCCTTTGTCGTGAAGTT
445 TTGAAATTGGCTCTGAAATTGGGAAATTGCTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTT
170359 GAACTTGTGTTGTCT
510 GAACTTGTGTTGTCT
* * *
170374 CGAGTAGCACGATATCCTCCGTCGTGGAGTTGAAAT
1 TGAGT--C-CAATATCCTCCGTCGTGAAGTTGAAAT
170410 CGCGGATGGC
Statistics
Matches: 503, Mismatches: 47, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
522 2 0.00
523 130 0.26
524 2 0.00
525 1 0.00
527 3 0.01
528 6 0.01
529 281 0.56
530 54 0.11
532 1 0.00
533 22 0.04
534 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (524 bp):
TGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCAGGAAGTTGTTTGTTGACA
ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
AGTTAAAATTGACTCTAAATGAAATTTTATTGACAACCAGCCGCCCATTCGTCATGAAGTTGAAC
CTACGTTGTCTTGGGTCCAAGATTCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
GTTTATTGACAACCAACAATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCT
TCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGC
TCTGAAATTGGGAAATTGCTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTT
GTCT
Found at i:171959 original size:22 final size:22
Alignment explanation
Indices: 171934--171982 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
171924 TCCATTTTTC
171934 TTTTTGAT-TTTTGTTCTTTCTT
1 TTTTTGATATTTT-TTCTTTCTT
** *
171956 TTTTTTCTATTTTTTCTTTGTT
1 TTTTTGATATTTTTTCTTTCTT
171978 TTTTT
1 TTTTT
171983 TCTTCTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTGATATTTTTTCTTTCTT
Found at i:171959 original size:38 final size:34
Alignment explanation
Indices: 171917--171991 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 34
171907 TTTGCATGTG
* *
171917 TTTTTTGTCCATTTTTCTTTTTGATTTTTGTTCTTTC
1 TTTTTTTTCCATTTTT-TCTTTG-TTTTTGTTC-TTC
* *
171954 TTTTTTTTCTATTTTTTCTTTGTTTTTTTTCTTC
1 TTTTTTTTCCATTTTTTCTTTGTTTTTGTTCTTC
171988 TTTT
1 TTTT
171992 GCTTCTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 7 0.21
35 8 0.24
36 5 0.15
37 14 0.41
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.79
Consensus pattern (34 bp):
TTTTTTTTCCATTTTTTCTTTGTTTTTGTTCTTC
Found at i:171970 original size:10 final size:9
Alignment explanation
Indices: 171928--172013 Score: 50
Period size: 9 Copynumber: 8.9 Consensus size: 9
171918 TTTTTGTCCA
171928 TTTTTCTTT
1 TTTTTCTTT
171937 TTGATTT-TTGT
1 TT--TTTCTT-T
*
171948 TCTTTCTTT
1 TTTTTCTTT
*
171957 TTTTTCTAT
1 TTTTTCTTT
171966 TTTTTCTTT
1 TTTTTCTTT
*
171975 GTTTTTTTTCT
1 -TTTTTCTT-T
171986 TCTTTTGC-TT
1 T-TTTT-CTTT
*
171996 CTTTTCTTT
1 TTTTTCTTT
172005 TTTGTTCTT
1 TTT-TTCTT
172014 GATTGGATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
8 1 0.02
9 29 0.49
10 18 0.31
11 11 0.19
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:171983 original size:22 final size:23
Alignment explanation
Indices: 171942--172012 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
171932 TCTTTTTGAT
171942 TTTTGTTCTTTCTTTTTTTTCTA
1 TTTTGTTCTTTCTTTTTTTTCTA
* *
171965 TTTT-TTCTTTGTTTTTTTTCTTC
1 TTTTGTTCTTTCTTTTTTTTC-TA
171988 TTTTGCTTCTTTTCTTTTTTGTTCT
1 TTTTG-TTC-TTTCTTTTTT-TTCT
172013 TGATTGGATC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 15 0.38
23 9 0.22
25 3 0.08
26 10 0.25
27 3 0.08
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTGTTCTTTCTTTTTTTTCTA
Found at i:172000 original size:17 final size:15
Alignment explanation
Indices: 171941--172013 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 15
171931 TTCTTTTTGA
171941 TTTTTGTTC-TTTCT
1 TTTTTGTTCTTTTCT
171955 TTTTT-TTCTATTT-T
1 TTTTTGTTCT-TTTCT
*
171969 TTCTTTGTTTTTTTTCT
1 TT-TTTG-TTCTTTTCT
171986 TCTTTTGCTTCTTTTCT
1 T-TTTTG-TTCTTTTCT
172003 TTTTTGTTCTT
1 TTTTTGTTCTT
172014 GATTGGATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.06
14 8 0.16
15 11 0.22
16 8 0.16
17 18 0.37
18 1 0.02
ACGTcount: A:0.01, C:0.14, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:176490 original size:16 final size:16
Alignment explanation
Indices: 176453--176493 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
176443 AAAAATGAAG
*
176453 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
176469 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
176484 AATAAATAAA
1 AATAAATAAA
176494 GAAATAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:176523 original size:2 final size:2
Alignment explanation
Indices: 176516--176548 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
176506 TGAAATATTA
176516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
176549 AATGAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:177468 original size:37 final size:37
Alignment explanation
Indices: 177375--177471 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
177365 GTGCTTGTGA
* * * *
177375 ATCATATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAATAAAACTCT
* *
177412 ATCCTATTTTTAGGAGTTTGAATCATAATAAAATTCT
1 ATCATATTTTTAGGAGTTTGAATCATAATAAAACTCT
*
177449 ATCATATTTTTAAGAGTTTGAAT
1 ATCATATTTTTAGGAGTTTGAAT
177472 TCTAGTAGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCATAATAAAACTCT
Found at i:177652 original size:2 final size:2
Alignment explanation
Indices: 177645--177673 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
177635 TAGTTAATCT
177645 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
177674 CATTTTTCAT
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:182216 original size:30 final size:30
Alignment explanation
Indices: 182180--182239 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
182170 ATTTTTTTTT
182180 TGATAAGAAGAGTAGGCCTCGTTAAAAAAC
1 TGATAAGAAGAGTAGGCCTCGTTAAAAAAC
182210 TGATAAGAAGAGTAGGCCTCGTTAAAAAAC
1 TGATAAGAAGAGTAGGCCTCGTTAAAAAAC
182240 CCCTTCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (30 bp):
TGATAAGAAGAGTAGGCCTCGTTAAAAAAC
Found at i:210237 original size:171 final size:166
Alignment explanation
Indices: 209957--210293 Score: 530
Period size: 171 Copynumber: 2.0 Consensus size: 166
209947 ATTTATTTTT
* *
209957 TACTTTTGGTATAATTCCAATTGTTGCCCCCTAATTTTTACTTATTTCCAATTTTGACCTTAAAA
1 TACTTTTGGTATAATTCCAATTGATGCCCCCTAATATTTACTTATTTCCAATTTTGACCTTAAAA
* * *
210022 TGTTTTTTTATTACGCCCTTGTTGTTTATTTTTTAAAATTGAGCAATTTTGGTAGAAAAAATTGA
66 TGTTTTTTTATTACGCCCATGTTGTTTACTTTTTAAAATTGAGCAATTTTGGTAGAAAAAAGTGA
*
210087 GTTGATTACCAATTGGTTAACTATCAATAAAAATTG
131 GTTGATTACCAATTGGTCAACTATCAATAAAAATTG
* *
210123 TACTTTTGGTATAATTCCAATTGATGCCCCCTCAATATTTACTTGTTTCCAGTTTTGACCTTAAA
1 TACTTTTGGTATAATTCCAATTGATGCCCCCT-AATATTTACTTATTTCCAATTTTGACCTTAAA
* *
210188 ATGTTTTTTGTTTGATTACGCCCATGTTGTTTACTTTTTAAATTTGAGCAATTTTGGTTGAAAAA
65 ATG--TTTT-TTT-ATTACGCCCATGTTGTTTACTTTTTAAAATTGAGCAATTTTGGTAGAAAAA
*
210253 AGTGAGTTGATTATCAATTGGTCAACTATCAATAAAAATTG
126 AGTGAGTTGATTACCAATTGGTCAACTATCAATAAAAATTG
210294 GTGATGTGAC
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
166 31 0.20
167 32 0.21
169 4 0.03
170 3 0.02
171 85 0.55
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (166 bp):
TACTTTTGGTATAATTCCAATTGATGCCCCCTAATATTTACTTATTTCCAATTTTGACCTTAAAA
TGTTTTTTTATTACGCCCATGTTGTTTACTTTTTAAAATTGAGCAATTTTGGTAGAAAAAAGTGA
GTTGATTACCAATTGGTCAACTATCAATAAAAATTG
Found at i:212048 original size:6 final size:5
Alignment explanation
Indices: 211999--212044 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
211989 CCGTCTCGTC
*
211999 TCGGG TCGGG TCGGG TCGGG ACGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
212045 TGGTAATACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 21 0.55
6 17 0.45
ACGTcount: A:0.02, C:0.20, G:0.54, T:0.24
Consensus pattern (5 bp):
TCGGG
Found at i:212147 original size:13 final size:13
Alignment explanation
Indices: 212129--212154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
212119 TTTTTAACTA
212129 TCGCAACGAATTT
1 TCGCAACGAATTT
212142 TCGCAACGAATTT
1 TCGCAACGAATTT
212155 GGAAAATCGC
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TCGCAACGAATTT
Found at i:212242 original size:21 final size:21
Alignment explanation
Indices: 212179--212242 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
212169 ACAACTGTAG
* *
212179 ACTATCACAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
212200 A-AATCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
212220 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
212241 AC
1 AC
212243 GCGAATTTGC
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:214210 original size:36 final size:37
Alignment explanation
Indices: 214141--214223 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 37
214131 ATAAAAGACA
*
214141 TAACATTTTAGGACCAATGAAAAATGTTAGGGAAATG
1 TAACATTTTAGGACCAATCAAAAATGTTAGGGAAATG
** *
214178 TAACATTTTAGGTTCAA-CAAAAATGTTTGGGAAATG
1 TAACATTTTAGGACCAATCAAAAATGTTAGGGAAATG
214214 TAACATTTTA
1 TAACATTTTA
214224 AATCGCGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 27 0.64
37 15 0.36
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (37 bp):
TAACATTTTAGGACCAATCAAAAATGTTAGGGAAATG
Found at i:216006 original size:20 final size:20
Alignment explanation
Indices: 215981--216055 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
215971 GACCAACAAA
215981 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* * *
216001 TTCGCAACGTGAACTCTAAT
1 TTCGCAACGCGAATTCCAAT
*
216021 TTCGCAAAC-C-AGATTCCAAA
1 TTCGC-AACGCGA-ATTCCAAT
216041 TTCGCAACGCGAATT
1 TTCGCAACGCGAATT
216056 TGTAAATCGC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 4 0.09
20 36 0.82
21 4 0.09
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:216242 original size:22 final size:21
Alignment explanation
Indices: 216217--216280 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
216207 CACTCTCTAT
* *
216217 GACGACATCCGTCCTCATCTCC
1 GACGA-ATCCATCATCATCTCC
*
216239 GACGTAATTCATCATCATCTCC
1 GACG-AATCCATCATCATCTCC
216261 GACGAAATCCATC-T-ATCTCC
1 GACG-AATCCATCATCATCTCC
216281 ATCTCTCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.17
21 1 0.03
22 28 0.78
23 1 0.03
ACGTcount: A:0.25, C:0.38, G:0.11, T:0.27
Consensus pattern (21 bp):
GACGAATCCATCATCATCTCC
Found at i:216650 original size:14 final size:14
Alignment explanation
Indices: 216631--216661 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
216621 ACACGAAAAT
216631 GAAAATCGCAACAC
1 GAAAATCGCAACAC
*
216645 GAAAATCGCAACGC
1 GAAAATCGCAACAC
216659 GAA
1 GAA
216662 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:216692 original size:20 final size:20
Alignment explanation
Indices: 216667--216719 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
216657 GCGAATTTAG
216667 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
216687 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
216707 TTTCGCATTGCGA
1 TTTCGCGTTGCGA
216720 ATTTAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:216730 original size:20 final size:20
Alignment explanation
Indices: 216657--216730 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
216647 AAATCGCAAC
216657 GCGAATTT-AGTTTCGCGTT
1 GCGAATTTCAGTTTCGCGTT
* *
216676 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAGTTTCGCGTT
* * *
216696 GCGATTTTCATTTTCGCATT
1 GCGAATTTCAGTTTCGCGTT
*
216716 GCGAATTTAAGTTTC
1 GCGAATTTCAGTTTC
216731 AGAAACTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 7 0.15
20 41 0.85
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (20 bp):
GCGAATTTCAGTTTCGCGTT
Found at i:218696 original size:4 final size:4
Alignment explanation
Indices: 218687--218731 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
218677 TTTTTCGGCA
* * *
218687 TTAT TTAT TTAT TTAT TTAT TTA- ATAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
218732 TCAGCGGCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 2 0.06
4 32 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:218716 original size:19 final size:19
Alignment explanation
Indices: 218692--218728 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
218682 CGGCATTATT
* *
218692 TATTTATTTATTTATTTAA
1 TATTTATGTATTAATTTAA
218711 TATTTATGTATTAATTTA
1 TATTTATGTATTAATTTA
218729 TTTTCAGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTATGTATTAATTTAA
Found at i:218722 original size:23 final size:23
Alignment explanation
Indices: 218688--218731 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
218678 TTTTCGGCAT
* *
218688 TATTTATTTATTTATTTATTTAA
1 TATTTATGTATTAATTTATTTAA
218711 TATTTATGTATTAATTTATTT
1 TATTTATGTATTAATTTATTT
218732 TCAGCGGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTTATGTATTAATTTATTTAA
Found at i:218926 original size:21 final size:21
Alignment explanation
Indices: 218918--219014 Score: 140
Period size: 21 Copynumber: 4.6 Consensus size: 21
218908 AGGCCCCTTT
218918 CATCGTTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGGTCCCTCC
*
218939 CATCGTTCAAGATGTCCCTCC
1 CATCGTTCAAGAGGTCCCTCC
* * **
218960 CACCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGTCCCTCC
218981 CATCGTTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGGTCCCTCC
*
219002 CACCGTTCAAGAG
1 CATCGTTCAAGAG
219015 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (21 bp):
CATCGTTCAAGAGGTCCCTCC
Found at i:220507 original size:64 final size:64
Alignment explanation
Indices: 220386--220543 Score: 237
Period size: 64 Copynumber: 2.5 Consensus size: 64
220376 TTAATTGAAT
* * *
220386 TTTACATTGATTTGTAAAAATTGATTTGTTTAATTGATGAGGAAATAATAATAATTTTTTGTTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAACTGATGAGGAAATAATAATAATTTTTTGATTG
* * *
220451 TTTAATTGATTTGTAAAAGTTGATTTGTTTAACTGATGTGTAAATTAA-AATTATTTTTTGATTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAACTGATGAGGAAA-TAATAATAATTTTTTGATTG
220515 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
220544 GTTTATTTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 79 0.92
65 7 0.08
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAACTGATGAGGAAATAATAATAATTTTTTGATTG
Found at i:220654 original size:20 final size:20
Alignment explanation
Indices: 220598--220661 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
220588 AATGTACACT
220598 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*** * *
220618 TTCGCGTTGAGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
220638 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
220658 TTCG
1 TTCG
220662 TGCTATGATT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:226680 original size:21 final size:19
Alignment explanation
Indices: 226649--226697 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
226639 AAAGGAGTTT
**
226649 AAAAATATT-TTTTTTACA
1 AAAAATATTATTTTTTTTA
*
226667 AAAAATATTATTTTTTTTG
1 AAAAATATTATTTTTTTTA
226686 AAAAATATTATT
1 AAAAATATTATT
226698 AAAGTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
AAAAATATTATTTTTTTTA
Found at i:229800 original size:144 final size:145
Alignment explanation
Indices: 229543--229929 Score: 548
Period size: 150 Copynumber: 2.7 Consensus size: 145
229533 GAAGAACAAC
* * * * *
229543 AAGAAGATCAGTGAAGCTCTAGATAACAAGGTTGTGGACCAAATTGAGGT---GAAGGTTGACGA
1 AAGAAGATCAGTGAAGCTCAAGATGACAAGGTTGTGGATCGAATTGAGGTGAAGAAGGTTGATGA
* * * * * *
229605 AAACGTAGAAGATAAGAAGGCCGAGGATAAATATGTTGAACGACTAAGTGCATCACAAATTTCGA
66 AAATGTAGAGGAAAAGAAGGCCGAGGATAAATATGTTGAACCACCAAGTGCATCACAAACTTCGA
229670 AAGTTGTCAAAGAG-
131 AAGTTGTCAAAGAGA
* *
229684 AAGAAGATCAGCGAAGCTCAAGATGACAAGGTTGTGGATCGAATCGAGGTGAAGAAGGTTGATGA
1 AAGAAGATCAGTGAAGCTCAAGATGACAAGGTTGTGGATCGAATTGAGGTGAAGAAGGTTGATGA
* *
229749 AAATGTAGAGGAAAAGAAGGCTGAGGATAAATGTGTTGAACCACCAAGTGCATCACAAACTTCGA
66 AAATGTAGAGGAAAAGAAGGCCGAGGATAAATATGTTGAACCACCAAGTGCATCACAAACTTCGA
229814 AAGTTGTCAAAGAGAAAA
131 AAGTTGTCAAAGAG---A
* *
229832 CCAAAAAGATCAGTGAAGCTCAAGATGACAAGGTTGTGGATCGAATTGAGGAGAAGAAGGTTGAT
1 --AAGAAGATCAGTGAAGCTCAAGATGACAAGGTTGTGGATCGAATTGAGGTGAAGAAGGTTGAT
229897 GAAAATGTAGAGGAAAAGAAGGCCGAGGATAAA
64 GAAAATGTAGAGGAAAAGAAGGCCGAGGATAAA
229930 AAAGTTGTTG
Statistics
Matches: 217, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
141 44 0.20
144 82 0.38
150 91 0.42
ACGTcount: A:0.41, C:0.11, G:0.29, T:0.19
Consensus pattern (145 bp):
AAGAAGATCAGTGAAGCTCAAGATGACAAGGTTGTGGATCGAATTGAGGTGAAGAAGGTTGATGA
AAATGTAGAGGAAAAGAAGGCCGAGGATAAATATGTTGAACCACCAAGTGCATCACAAACTTCGA
AAGTTGTCAAAGAGA
Found at i:231147 original size:28 final size:26
Alignment explanation
Indices: 231088--231156 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 26
231078 ATATTATAAA
* * *
231088 AATAAATTTTAAAAATAGGCCCTAAT
1 AATAAATATTAAAAATAAGCCCAAAT
231114 AATAAATATTAATAAATAAGCCCAAAAT
1 AATAAATATTAA-AAATAAGCCC-AAAT
231142 AATAAATATTAAAAA
1 AATAAATATTAAAAA
231157 AAGTAAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.29
27 12 0.32
28 15 0.39
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (26 bp):
AATAAATATTAAAAATAAGCCCAAAT
Found at i:234070 original size:20 final size:19
Alignment explanation
Indices: 234034--234088 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
234024 TATTCCACTA
234034 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
234053 TGCGATTTTCATTTTCGCGT
1 TGCGATTTT-AGTTTCGCGT
*
234073 TGCGAATTTAAGTTTC
1 TGCG-ATTTTAGTTTC
234089 AGAAACTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.29
20 18 0.58
21 4 0.13
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:235813 original size:21 final size:21
Alignment explanation
Indices: 235773--235813 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
235763 GAGTTATGTG
* * *
235773 ATGAGGTTGATGCTTTACGTC
1 ATGAGGTCGATACTTCACGTC
235794 ATGAGGTCGATACTTCACGT
1 ATGAGGTCGATACTTCACGT
235814 GAAGACAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (21 bp):
ATGAGGTCGATACTTCACGTC
Found at i:236247 original size:21 final size:21
Alignment explanation
Indices: 236223--236296 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
236213 GATTCATCTG
* * *
236223 TCATCGTTCAAGAGGCTCATT
1 TCATCGTTCAAGAGGCCCCTC
236244 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
236265 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
236286 TCATCGTTCAA
1 TCATCGTTCAA
236297 TGGGTTCCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.26
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Done.