Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000681.1 Hibiscus syriacus cultivar Beakdansim tig00001323_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: 57745
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:1615 original size:20 final size:20
Alignment explanation
Indices: 1590--1628 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
1580 AAATTTAAGT
1590 TTTTTAAAAAATAAT-TTTAA
1 TTTTT-AAAAATAATATTTAA
1610 TTTTTAAAAATAATATTTA
1 TTTTTAAAAATAATATTTA
1629 TATAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTAAAAATAATATTTAA
Found at i:8784 original size:21 final size:21
Alignment explanation
Indices: 8758--8798 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8748 TATCACATTA
8758 CGATTTTCCAAATACGCGTTG
1 CGATTTTCCAAATACGCGTTG
* *
8779 CGATTTTCCTAATTCGCGTT
1 CGATTTTCCAAATACGCGTT
8799 ACGAATACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (21 bp):
CGATTTTCCAAATACGCGTTG
Found at i:8958 original size:20 final size:20
Alignment explanation
Indices: 8811--8957 Score: 231
Period size: 20 Copynumber: 7.3 Consensus size: 20
8801 GAATACGTAA
* *
8811 ATCGTAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
8831 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
8851 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
8871 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
8891 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
8911 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
8931 ATCGCAATGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
8951 ATCGCAA
1 ATCGCAA
8958 TACTAAATTT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 119 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:9825 original size:24 final size:24
Alignment explanation
Indices: 9798--9851 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
9788 GTATTCGAAA
9798 TTTGATCTTGGTCAATACACGGAC
1 TTTGATCTTGGTCAATACACGGAC
* *
9822 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACACGGAC
9846 TTTGAT
1 TTTGAT
9852 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACACGGAC
Found at i:10063 original size:14 final size:14
Alignment explanation
Indices: 10038--10073 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10028 GAAAAAGAAG
10038 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
10053 AAGAAAAATCCCCG
1 AAGAAAAATCCCCA
10067 AAGAAAA
1 AAGAAAA
10074 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:12302 original size:20 final size:20
Alignment explanation
Indices: 12277--12345 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
12267 CAACGCGGAA
12277 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
12297 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
12317 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
12337 ATCGCAACG
1 ATCGCAACG
12346 AGAGAATCGC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:12367 original size:33 final size:33
Alignment explanation
Indices: 12258--12430 Score: 168
Period size: 33 Copynumber: 5.0 Consensus size: 33
12248 GACATTTATT
* *
12258 TGACTATCGCAACGCG-GAAATCGCAACGCGAATA
1 TGACTATCGCAACGAGAG-AATCGCAATGCGAA-A
* *
12292 TGACTATCGCAACACGGAAATGACTATCGCAACGCGGAAA
1 TGACTATCGC-A-AC-GAGA-GA--ATCGCAATGC-GAAA
12332 TGACTATCGCAACGAGAGAATCGCAATGCGAAA
1 TGACTATCGCAACGAGAGAATCGCAATGCGAAA
** *
12365 TGAAAATCGCAACGAGAGAATCGTAATGCGAAA
1 TGACTATCGCAACGAGAGAATCGCAATGCGAAA
** *
12398 TGAAAATCACAACGAGAGAATCGCAATGCGAAA
1 TGACTATCGCAACGAGAGAATCGCAATGCGAAA
12431 ATAAAAATCG
Statistics
Matches: 122, Mismatches: 9, Indels: 17
0.82 0.06 0.11
Matches are distributed among these distances:
33 65 0.53
34 19 0.16
35 1 0.01
36 4 0.03
37 4 0.03
38 3 0.02
39 2 0.02
40 21 0.17
41 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
TGACTATCGCAACGAGAGAATCGCAATGCGAAA
Found at i:12374 original size:19 final size:19
Alignment explanation
Indices: 12350--12405 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
12340 GCAACGAGAG
12350 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
12369 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
12383 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
12402 AATC
1 AATC
12406 ACAACGAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 14 0.48
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:12608 original size:14 final size:14
Alignment explanation
Indices: 12589--12625 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12579 CATCAATTAA
12589 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
12603 ACAAATCATCTTTT
1 ACAAATCAACATTT
12617 ACAAATCAA
1 ACAAATCAA
12626 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:14102 original size:42 final size:42
Alignment explanation
Indices: 13995--14106 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
13985 TCTAGAATGT
* * * *
13995 TGGGAGG-GACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGTG-CCTCTTGAACGATGACAGGGGCCTCTTAAACGA
* ** *
14037 TGGGAGGTGACTCTTGAGGGATGATAGGGGCCTCTTAAACGA
1 TGGGAGGTGCCTCTTGAACGATGACAGGGGCCTCTTAAACGA
14079 TAGGG-GAG-GCCTCTTGAACGATGACAGG
1 T-GGGAG-GTGCCTCTTGAACGATGACAGG
14107 TGAGTCGAGC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGGTGCCTCTTGAACGATGACAGGGGCCTCTTAAACGA
Found at i:14611 original size:20 final size:20
Alignment explanation
Indices: 14588--14638 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
14578 AACTTAAAAT
14588 CGCAACGCGAAAATGACTAC
1 CGCAACGCGAAAATGACTAC
** *
14608 CGCAACTTGAAAATGACTAT
1 CGCAACGCGAAAATGACTAC
*
14628 CGCAATGCGAA
1 CGCAACGCGAA
14639 TTTAACTATC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
CGCAACGCGAAAATGACTAC
Found at i:14646 original size:20 final size:20
Alignment explanation
Indices: 14623--14672 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
14613 CTTGAAAATG
14623 ACTATCGCAATGCGAATTTA
1 ACTATCGCAATGCGAATTTA
*
14643 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAATTTA
14663 ACTATCGCAA
1 ACTATCGCAA
14673 CGAGAGAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
ACTATCGCAATGCGAATTTA
Found at i:14748 original size:20 final size:20
Alignment explanation
Indices: 14723--14805 Score: 112
Period size: 20 Copynumber: 4.2 Consensus size: 20
14713 CTTTCGTTGT
*
14723 GATAGTCAAATTCGTATTGC
1 GATAGTCAAATTCGCATTGC
14743 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
**
14763 GATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGC
** *
14783 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
14803 GAT
1 GAT
14806 TTTGTTGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:14836 original size:33 final size:34
Alignment explanation
Indices: 14779--14872 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
14769 CATTTTCGCA
* * * *
14779 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
**
14813 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
14846 TTGCGATAGTCATTTTCGCATTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
14873 AGTAAACTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.53
34 24 0.47
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
Found at i:16776 original size:20 final size:20
Alignment explanation
Indices: 16753--16902 Score: 142
Period size: 20 Copynumber: 7.6 Consensus size: 20
16743 TTTGAAACTT
*
16753 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
16773 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
**
16793 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
16812 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** * **
16832 ACTATCGTAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** **
16852 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
16872 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
16891 AAAATCGCAACG
1 AAAATCGCAACG
16903 ACAGAATCGC
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.26
20 83 0.74
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:16854 original size:59 final size:59
Alignment explanation
Indices: 16753--16901 Score: 192
Period size: 59 Copynumber: 2.5 Consensus size: 59
16743 TTTGAAACTT
16753 AAAATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
** * * ** *
16812 AAAATCGCAACACGAAAATGACTATCGTAACGCGAATTTGACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAA-ATG
** *
16872 ACTATCGCAACGCG-AAATGAAAATCGCAAC
1 AAAATCGCAACACGAAAATGAAAATCGCAAC
16902 GACAGAATCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 63 0.83
60 13 0.17
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (59 bp):
AAAATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAAATG
Found at i:17300 original size:22 final size:22
Alignment explanation
Indices: 17238--17302 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
17228 TGACCGTGAA
*
17238 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
17260 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
17282 TGATTTCGTCGGAGATGGGGA
1 TGATTTCGTCGGAGATGGGGA
17303 TGGATGTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.22, C:0.12, G:0.40, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:17524 original size:20 final size:20
Alignment explanation
Indices: 17501--17576 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
17491 CGATAGTCAG
* * **
17501 ATTCGCGTTGTGATTTATAT
1 ATTCGCATTGCGATTTACGT
17521 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
17541 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
17561 ATTCGCATTGCGATTT
1 ATTCGCATTGCGATTT
17577 TGGAAAATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:30470 original size:13 final size:13
Alignment explanation
Indices: 30452--30478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30442 ATACAAACGC
30452 GCATATGAAGACT
1 GCATATGAAGACT
30465 GCATATGAAGACT
1 GCATATGAAGACT
30478 G
1 G
30479 TTCAACTATG
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:31623 original size:2 final size:2
Alignment explanation
Indices: 31618--31649 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31608 AAAAAATAAT
31618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31650 AGGGTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32598 original size:2 final size:2
Alignment explanation
Indices: 32591--32642 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
32581 ATTTAAGTAA
32591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32632 AT -T AT AT AT AT
1 AT AT AT AT AT AT
32643 GGATAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33465 original size:165 final size:165
Alignment explanation
Indices: 33202--34382 Score: 1361
Period size: 165 Copynumber: 7.1 Consensus size: 165
33192 CCCTTCTTAC
* * * * * * *
33202 CTTAGGCTATGTTGTAAATGATGTGCCCTAGAACCGAGCGTAGTCGAACTCGAAGGTCTTTTTGG
1 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTTGG
*
33267 TCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
65 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
33332 CAAACTCGAGGGACTTTGGCAGATAGCCCTTCTCGA
130 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * * *
33368 CTTAAGCTATGCTGGAAATAATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGTTCTTTTGGT
1 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT
* * *
33433 AACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATC
66 CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
* *
33498 GAACTTGAGGGTCTTTGGAAGATAGCCCTTCTCGA
131 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * * * *
33533 CTTAAGTTATTCTGCAAATGATGCGCCTTTGGAGCTGCGCGTAGTCGAACTCCAAGGTCTTTTGG
1 CTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
*
33598 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAAT
65 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
*
33663 CGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGA
130 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * * * *
33699 CTTAAGCTATTCTACAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGT
1 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT
33764 CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
66 CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
*
33829 GAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGA
131 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * *
33864 CTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTC-TTTGGT
1 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-
** * * * * * * *
33928 TGGCAGATAACCCTTCTCGACTTAAATTATGCTGCAAATAATGTACCCTCGAAGCTGAGTGTAAT
65 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
33993 CAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGA
130 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * *
34029 CTTAAGCCATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTTGAAGGTC-TTTGGT
1 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-
* * * * * * * * * * *
34093 TGACAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAA-CTGAGCGTAGT
65 TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * * *
34157 TGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGC
130 CGAACTCGAGGGTC-TTT-G-G-CAGATAGCCCTTCTCGA
* * * * * * * * **
34197 CTTGAGTTATACTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGAACTCGGGGGGTC-TTTG
1 CTTAAGCTATGCTGCAAATGATGTGC-CTTGGAGCTGAGCGTAGTCGAACTC-GAAGGTCTTTTG
* * * * * * * * * *
34261 G---CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGTTGAGCGTAG
64 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* * * *
34322 TCGAACTCGAAGGTCTTTGGTTGGCTGATAACCCTTTTCGA
129 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGA
* *
34363 CTTAAGTTATGCTACAAATG
1 CTTAAGCTATGCTGCAAATG
34383 TTGTCTTTAA
Statistics
Matches: 891, Mismatches: 112, Indels: 24
0.87 0.11 0.02
Matches are distributed among these distances:
164 24 0.03
165 507 0.57
166 289 0.32
167 4 0.00
168 36 0.04
169 21 0.02
170 10 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT
CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
Found at i:33636 original size:331 final size:330
Alignment explanation
Indices: 33237--34382 Score: 1372
Period size: 331 Copynumber: 3.5 Consensus size: 330
33227 CCCTAGAACC
*
33237 GAGCGTAGTCGAACTCGAAGGTCTTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
1 GAGCGTAGTCGAACTCGAAGGTC-TTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
*
33302 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGACTTTGGCAGATAGCCCTTCTCG
65 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCG
* * *
33367 ACTTAAGCTATGCTGGAAATAATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGTTCTTTTGG
130 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGG
*
33432 TAACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
195 TAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
* *
33497 CGAACTTGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGCGCCTT
260 CGAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGCGCC-T
33562 TGGAGCT
324 TGGAGCT
* *
33569 GCGCGTAGTCGAACTCCAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 GAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* * *
33634 AATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGA
66 AATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * * * * *
33699 CTTAAGCTATTCTACAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGT
131 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGGT
* *
33764 CACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATC
196 AACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATC
* * * * * *
33829 GAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAATTGATGTGCCTTG
261 GAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGCGCCTTG
33894 GAGCT
326 GAGCT
* * ** * * * * *
33899 GAGCATAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAATTATGCTGC
1 GAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
* * *
33963 AAATAATGTACCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
65 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCG
* *
34028 ACTTAAGCCATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTTGAAGGTC-TTTGG
130 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGG
* * * * * * * * * *
34092 TTGACAGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAA-CTGAGCGTAG
195 -TAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAA
* * * * * * * *
34156 TTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGT
259 TCGAACTCGAGGGTC-TTT-G-GA-AGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGC
* *
34221 GCTCTCGAAGCT
320 GC-CTTGGAGCT
* * ** * * * * *
34233 GAGTGTAATCGAACTCGGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGTTATGCTGC
1 GAGCGTAGTCGAACTC-GAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
* * * * * * * * *
34294 AAATGATGTG-CCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCTGATAACCCTT
65 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTT
* * *
34358 TTCGACTTAAGTTATGCTACAAATG
126 CTCGACTTAAGCTATGCTGCAAATG
34383 TTGTCTTTAA
Statistics
Matches: 702, Mismatches: 100, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
329 30 0.04
330 237 0.34
331 314 0.45
332 23 0.03
333 34 0.05
334 54 0.08
335 10 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (330 bp):
GAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
AATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGGT
AACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATC
GAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGCGCCTTG
GAGCT
Found at i:34275 original size:496 final size:494
Alignment explanation
Indices: 33237--34341 Score: 1351
Period size: 496 Copynumber: 2.2 Consensus size: 494
33227 CCCTAGAACC
* * *
33237 GAGCGTAGTCGAACTCGAAGGTCTTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
1 GAGCGTAATCGAACTCAAAGGTC-TTTTGG--ACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
* *
33302 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGACTTTGGCAGATAGCCCTTCTCG
63 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCG
* * * *
33367 ACTTAAGCTATGCTGGAAATAATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGTTCTTTTGG
128 ACTTAAGCTATGCTGCAAATAATGTGCCTTGGAGCTGAACATAGTCAAACTCGAAGGTCTTTTGG
* * * * * * *
33432 TAACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
193 TAACAGATAACCCTTCTAGACTTAAATTATGCTGCAAATAATATACCCTCGAAGCTGAGTGTAAT
* * ** *
33497 CGAACTTGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGCGCCTT
258 CAAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGCGCCTT
** * *
33562 TGGAGCTGCGCGTAGTCGAACTCCAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTA
323 TGGAGCTGAACGTAGTCGAACTCCAAGGTCTTTTGGTCACAGATAACCCTTCTAGACTTAAGTTA
* * * *
33627 TGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAGGGTCTTTAGCAGATAGCCC
388 TGCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTAGCAGATAACCC
* * * *
33692 TTCTCGACTTAAGCTATTCTACAAATGATATACCTTGGAGCT
453 TTCTAGACTTAAGCTATACTACAAATGATATACCTCGAAGCT
*
33734 GAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 GAGCGTAATCGAACTCAAAGGTCTTTTGG--ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
*
33799 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGA
64 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* * *
33864 CTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTC-TTTGGT
129 CTTAAGCTATGCTGCAAATAATGTGCCTTGGAGCTGAACATAGTCAAACTCGAAGGTCTTTTGG-
** * *
33928 TGGCAGATAACCCTTCTCGACTTAAATTATGCTGCAAATAATGTACCCTCGAAGCTGAGTGTAAT
193 TAACAGATAACCCTTCTAGACTTAAATTATGCTGCAAATAATATACCCTCGAAGCTGAGTGTAAT
* * *
33993 CAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCC-T
258 CAAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGCGCCTT
** * * *
34057 TGGAGCTGAACGTAGTCGAACTTGAAGGTC-TTTGGTTGACAGATAACCCTTTTCGACTTAAGTT
323 TGGAGCTGAACGTAGTCGAACTCCAAGGTCTTTTGG-TCACAGATAACCCTTCTAGACTTAAGTT
* * * * *
34121 ATGCTGCAAATGATATGCCTTGGAA-CTGAGCGTAGTTGAACTCGAAGGTCTTTTGGTGACAGAT
387 ATGCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTT--AG-CAGAT
* * * ** * *
34185 AACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCTCTCGAAGCT
448 AACCCTTCTAGACTTAAGCTATACTACAAATGATATAC-CTCGAAGCT
* *** * * * * *
34233 GAGTGTAATCGAACTCGGGGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAA
1 GAGCGTAATCGAACTC-AAAGGTCTTTTGGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAA
* * * * * *
34296 ATGATGTG-CCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGG
65 ATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG
34342 TTGGCTGATA
Statistics
Matches: 523, Mismatches: 77, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
494 27 0.05
495 110 0.21
496 300 0.57
497 23 0.04
498 33 0.06
499 26 0.05
500 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (494 bp):
GAGCGTAATCGAACTCAAAGGTCTTTTGGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACT
TAAGCTATGCTGCAAATAATGTGCCTTGGAGCTGAACATAGTCAAACTCGAAGGTCTTTTGGTAA
CAGATAACCCTTCTAGACTTAAATTATGCTGCAAATAATATACCCTCGAAGCTGAGTGTAATCAA
ACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGCGCCTTTGG
AGCTGAACGTAGTCGAACTCCAAGGTCTTTTGGTCACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTAGCAGATAACCCTTC
TAGACTTAAGCTATACTACAAATGATATACCTCGAAGCT
Found at i:34381 original size:84 final size:84
Alignment explanation
Indices: 33186--34382 Score: 962
Period size: 84 Copynumber: 14.4 Consensus size: 84
33176 TTTTATTGAA
* * * * * * * * *
33186 AGATAACCCTTCT-TACCTTAGGCTATGTTGTAAATGATGTGCCCTAGAACCGAGCGTAGTCGAA
1 AGATAACCCTTCTCGA-CTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
33250 CTCGAAGGTCTTT--TTGGTCAC
65 CTCGAAGGTCTTTGGTTGG---C
* * * * * * * * * *
33271 AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* *
33336 CTCGAGGGAC--T--TTGGC
65 CTCGAAGGTCTTTGGTTGGC
* * * * *
33352 AGATAGCCCTTCTCGACTTAAGCTATGCTGGAAATAATGTGCCTTGGAGCTGAACGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* **
33417 TCGAAGTTCTTTTGG-TAAC
66 TCGAAGGTC-TTTGGTTGGC
* * * * * * * * * *
33436 AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* * *
33501 CTTGAGGGTC--T--TTGGA
65 CTCGAAGGTCTTTGGTTGGC
* * * *
33517 AGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGCGCCTTTGGAGCTGCGCGTAGTCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAA
* **
33582 CTCCAAGGTCTTTTGG-TCAC
65 CTCGAAGGTC-TTTGGTTGGC
* * * * * * *
33602 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* *
33667 CTCGAGGGTC--T--TTAGC
65 CTCGAAGGTCTTTGGTTGGC
* * * * * *
33683 AGATAGCCCTTCTCGACTTAAGCTATTCTACAAATGATATACCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* **
33748 TCAAAGGTCTTTTGG-TCAC
66 TCGAAGGTC-TTTGGTTGGC
* * * * * * * *
33767 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
**
33832 CTCGGGGGTC--T--TTGGC
65 CTCGAAGGTCTTTGGTTGGC
* * * * *
33848 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAATTGATGTGCCTTGGAGCTGAGCATAGTCAAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
33913 TCGAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTGGTTGGC
* * * * * * * *
33932 AGATAACCCTTCTCGACTTAAATTATGCTGCAAATAATGTACCCTCGAAGCTGAGTGTAATCAAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAA
**
33997 CTCGGGGGTC--T--TTGGC
65 CTCGAAGGTCTTTGGTTGGC
* ** *
34013 AGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
34078 TTGAAGGTCTTTGGTTGAC
66 TCGAAGGTCTTTGGTTGGC
* * * *
34097 AGATAACCCTTTTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAACTGAGCGTAGTTGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
34162 TCGAAGGTCTTTTGG-TGAC
66 TCGAAGGTC-TTTGGTTGGC
* * * * * * * * *
34181 AGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGAA
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC-CTTGGAGCTGAGCGTAGTCGAA
**
34246 CTCGGGGGGTC--T--TTGGC
65 CTC-GAAGGTCTTTGGTTGGC
* *
34263 AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
34328 TCGAAGGTCTTTGGTTGGC
66 TCGAAGGTCTTTGGTTGGC
* * *
34347 TGATAACCCTTTTCGACTTAAGTTATGCTACAAATG
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
34383 TTGTCTTTAA
Statistics
Matches: 859, Mismatches: 212, Indels: 83
0.74 0.18 0.07
Matches are distributed among these distances:
80 108 0.13
81 219 0.25
82 45 0.05
83 4 0.00
84 258 0.30
85 196 0.23
86 29 0.03
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (84 bp):
AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGGC
Found at i:44858 original size:45 final size:46
Alignment explanation
Indices: 44809--44898 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 46
44799 GTAAAATCTT
* *
44809 TAGAAATTAATAATGTTGGGAGCCTGGGACTATG-AATTTTATTAC
1 TAGAAATTAATAATGTTGGGAGCCTGGAACTACGTAATTTTATTAC
*
44854 TAGAAATTAATAATGTTGGGAGTCTGGAACTACGTAATTTTATTA
1 TAGAAATTAATAATGTTGGGAGCCTGGAACTACGTAATTTTATTA
44899 ATTTAACGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 31 0.76
46 10 0.24
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (46 bp):
TAGAAATTAATAATGTTGGGAGCCTGGAACTACGTAATTTTATTAC
Found at i:48451 original size:18 final size:18
Alignment explanation
Indices: 48428--48465 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48418 AGAACCATTC
48428 ACTAGCTCACCAGTTTGT
1 ACTAGCTCACCAGTTTGT
48446 ACTAGCTCACCAGTTTGT
1 ACTAGCTCACCAGTTTGT
48464 AC
1 AC
48466 AATTGCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (18 bp):
ACTAGCTCACCAGTTTGT
Found at i:49789 original size:2 final size:2
Alignment explanation
Indices: 49782--49808 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49772 ATTTCTTCAA
49782 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 A
49809 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49813 original size:2 final size:2
Alignment explanation
Indices: 49808--49842 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
49798 ATATATATAT
*
49808 AG AG AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
49843 TCCAACAAAA
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:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Done.