Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001320.1 Hibiscus syriacus cultivar Beakdansim tig00002573_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: 147732
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:84 original size:20 final size:20
Alignment explanation
Indices: 59--138 Score: 133
Period size: 20 Copynumber: 4.0 Consensus size: 20
49 CAACGAGAGA
59 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
79 ATCGCAATGCAAAAAAAACT
1 ATCGCAATGCGAAAATGACT
99 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
119 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
139 CGCAACGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:212 original size:20 final size:20
Alignment explanation
Indices: 187--254 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
177 GCGATTCTCT
187 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
207 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
*
227 CATTGCGATAGTC-ATTTCG
1 CATTGCGATAGTCAAATTCG
*
246 CGTTGCGAT
1 CATTGCGAT
255 TTTGTTGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:877 original size:21 final size:21
Alignment explanation
Indices: 786--890 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
776 GACTCACCTG
*
786 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
808 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
828 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
849 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
870 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
891 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:883 original size:42 final size:42
Alignment explanation
Indices: 783--893 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
773 CCCGACTCAC
* * * *
783 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
825 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
867 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
894 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:2264 original size:14 final size:14
Alignment explanation
Indices: 2245--2280 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2235 ATTGTTTAAT
2245 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2259 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2273 TGATTTGT
1 TGATTTGT
2281 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2449 original size:20 final size:20
Alignment explanation
Indices: 2424--2584 Score: 78
Period size: 20 Copynumber: 8.7 Consensus size: 20
2414 GAATCGCTAA
*
2424 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATATTCAT
*
2444 TTTCGCATTGCG--ATTCA-
1 TTTCGCGTTGCGATATTCAT
* *
2461 ---CTCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATATTCAT
*
2477 TTTCGCATTGCG--ATTC--
1 TTTCGCGTTGCGATATTCAT
* * *
2493 TCTC--GTTGCGATAGTAAT
1 TTTCGCGTTGCGATATTCAT
* * *
2511 TTCCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATATTCAT
* * *
2531 TTCCGCATTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* *
2551 TTTCGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
*
2571 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
2585 TTCTGCGTTG
Statistics
Matches: 107, Mismatches: 23, Indels: 22
0.70 0.15 0.14
Matches are distributed among these distances:
14 12 0.11
16 9 0.08
17 3 0.03
18 6 0.06
19 7 0.07
20 70 0.65
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATATTCAT
Found at i:2486 original size:33 final size:34
Alignment explanation
Indices: 2429--2504 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
2419 GCTAATTTCG
2429 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
2463 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
2496 CGTTGCGAT
1 CGTTGCGAT
2505 AGTAATTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 27 0.66
34 14 0.34
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:2513 original size:33 final size:33
Alignment explanation
Indices: 2444--2524 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
2434 CGATTTTCAT
** *
2444 TTTCGCATTGCGATTCACTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
*
2477 TTTCGCATTGCGATTCTCTCGTTGCGATAGTAA
1 TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
*
2510 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
2525 AGTCAATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (33 bp):
TTTCGCATTGCGATTCACTCGTTGCGATAGTAA
Found at i:2561 original size:40 final size:40
Alignment explanation
Indices: 2498--2584 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
2488 GATTCTCTCG
2498 TTGCGATAGTAATTTCCGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTAATTTCCGCGTTGCGATAGTCATATT-CGCA
* * * *
2538 TTGCGATAGTCATTTTCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTAATTTCCGCGTTGCGATAGTCATATTCGCA
2578 TTGCGAT
1 TTGCGAT
2585 TTCTGCGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 39 0.93
41 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTAATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:5073 original size:24 final size:24
Alignment explanation
Indices: 5006--5065 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
4996 CTGAAAAATC
5006 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
5030 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
5054 ATCAAATTTCGA
1 ATCAAAATTCGA
5066 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:5944 original size:20 final size:20
Alignment explanation
Indices: 5916--5968 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
5906 CGATAGTCAG
* *
5916 AATCTCGTTGTGATTTACGT
1 AATCGCGTTGCGATTTACGT
5936 AATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
* *
5956 ATTCGCATTGCGA
1 AATCGCGTTGCGA
5969 ATTAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
AATCGCGTTGCGATTTACGT
Found at i:5989 original size:21 final size:21
Alignment explanation
Indices: 5965--6010 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
5955 TATTCGCATT
5965 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
5986 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
6007 GCGA
1 GCGA
6011 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:9454 original size:18 final size:18
Alignment explanation
Indices: 9433--9467 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9423 GGCTTGTATC
9433 ATTTTTTTTATAACTTTA
1 ATTTTTTTTATAACTTTA
*
9451 ATTTTTTTTATATCTTT
1 ATTTTTTTTATAACTTT
9468 TCTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTTATAACTTTA
Found at i:18486 original size:33 final size:33
Alignment explanation
Indices: 18449--18634 Score: 214
Period size: 33 Copynumber: 5.6 Consensus size: 33
18439 GTAGAACTGG
*
18449 AATTCTAAACCTGCTAGATATCGGCTCTTAACT
1 AATTCCAAACCTGCTAGATATCGGCTCTTAACT
* * *
18482 AATT-CTAAGCTGGCTAGATATTGGCTCTTAACT
1 AATTCCAAACCT-GCTAGATATCGGCTCTTAACT
* * * ** *
18515 AGTTCTAAGCAGGCTAGATATGGGCTCTTAACT
1 AATTCCAAACCTGCTAGATATCGGCTCTTAACT
18548 AATTCCAAGA-CTGCTAGATATCGGCTCTTAACT
1 AATTCCAA-ACCTGCTAGATATCGGCTCTTAACT
* *
18581 AATTCCAAGCCTGCTAGATATCAGCTCTTAACT
1 AATTCCAAACCTGCTAGATATCGGCTCTTAACT
* *
18614 AATTCCAAGCCTGTTAGATAT
1 AATTCCAAACCTGCTAGATAT
18635 AGACTATAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.03
33 123 0.96
34 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (33 bp):
AATTCCAAACCTGCTAGATATCGGCTCTTAACT
Found at i:18564 original size:66 final size:65
Alignment explanation
Indices: 18461--18634 Score: 240
Period size: 66 Copynumber: 2.6 Consensus size: 65
18451 TTCTAAACCT
* * * *
18461 GCTAGATATCGGCTCTTAACTAATTCTAAGCTGGCTAGATATTGGCTCTTAACTAGTTCTAAGCA
1 GCTAGATATCGGCTCTTAACTAATTCCAAGCT-GCTAGATATCGGCTCTTAACTAATTCCAAGCA
18526 G
65 G
* *
18527 GCTAGATATGGGCTCTTAACTAATTCCAAGACTGCTAGATATCGGCTCTTAACTAATTCCAAGCC
1 GCTAGATATCGGCTCTTAACTAATTCCAAG-CTGCTAGATATCGGCTCTTAACTAATTCCAAGCA
*
18592 T
65 G
* *
18593 GCTAGATATCAGCTCTTAACTAATTCCAAGCCTGTTAGATAT
1 GCTAGATATCGGCTCTTAACTAATTCCAAG-CTGCTAGATAT
18635 AGACTATAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 94 0.98
67 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (65 bp):
GCTAGATATCGGCTCTTAACTAATTCCAAGCTGCTAGATATCGGCTCTTAACTAATTCCAAGCAG
Found at i:26570 original size:6 final size:6
Alignment explanation
Indices: 26559--26643 Score: 134
Period size: 6 Copynumber: 14.2 Consensus size: 6
26549 GACACGTATT
* * *
26559 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACT ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
26607 ACCTCG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
26644 GCCAAGACGA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.31, C:0.49, G:0.15, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:32563 original size:6 final size:6
Alignment explanation
Indices: 32549--32614 Score: 89
Period size: 6 Copynumber: 11.2 Consensus size: 6
32539 GACACGTATT
* * * *
32549 ACCACG ACCATG ACCACG ACCTCG ACCTCG ACCTCG ACCAC- ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
32596 ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG A
32615 GCCGAGCCGA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.09
6 50 0.91
ACGTcount: A:0.30, C:0.48, G:0.15, T:0.06
Consensus pattern (6 bp):
ACCACG
Found at i:32622 original size:5 final size:5
Alignment explanation
Indices: 32612--32675 Score: 65
Period size: 5 Copynumber: 12.8 Consensus size: 5
32602 ACCACGACCA
* * * * *
32612 CGAGC CGAGC CGAGC CGAGC CGAGC CGTGT CGTGC CGTGC CGTGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
* *
32662 CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAG
32676 ACGAACGGCG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.17, C:0.34, G:0.41, T:0.08
Consensus pattern (5 bp):
CGAGC
Found at i:37037 original size:36 final size:36
Alignment explanation
Indices: 36988--37169 Score: 204
Period size: 36 Copynumber: 5.1 Consensus size: 36
36978 TCCGTTCTAG
* * *
36988 TTGAATCGGAAGTGCAGATGCTTCATTCCATTTGAT
1 TTGAATCGGAAGTGCCGATGCTTCATTCCATTCGAC
* *
37024 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCATTCCATTCGAC
* * *
37060 TTGAACCGGAAGTGCCGATGCTTCATTCCGTTCAAC
1 TTGAATCGGAAGTGCCGATGCTTCATTCCATTCGAC
* * * *
37096 TTAAATCGGAAGTGCCGATGCTTCCCTT-CGTTCAAC
1 TTGAATCGGAAGTGCCGATGCTT-CATTCCATTCGAC
* ** *
37132 TTGAATCAGAAGTGCCGATGCTTCCCTCCATTCAAC
1 TTGAATCGGAAGTGCCGATGCTTCATTCCATTCGAC
37168 TT
1 TT
37170 TGTTGAAAAC
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
35 3 0.02
36 123 0.95
37 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCATTCCATTCGAC
Found at i:37072 original size:72 final size:73
Alignment explanation
Indices: 36978--37169 Score: 235
Period size: 72 Copynumber: 2.7 Consensus size: 73
36968 TAGTAAACCA
* * * ** * *
36978 TCCGTTCTAGTTGAATCGGAAGTGCAGATGCTTCATTCCATTTGATTTGAATCGAAAGTGCCGAT
1 TCCGTTCAACTTGAATCGGAAGTGCCGATGCTTCATTCCATTCAACTTAAATCGAAAGTGCCGAT
37043 GCTT-CAT
66 GCTTCCAT
* * * *
37050 TCCGTTCGACTTGAACCGGAAGTGCCGATGCTTCATTCCGTTCAACTTAAATCGGAAGTGCCGAT
1 TCCGTTCAACTTGAATCGGAAGTGCCGATGCTTCATTCCATTCAACTTAAATCGAAAGTGCCGAT
*
37115 GCTTCCCT
66 GCTTCCAT
* **
37123 T-CGTTCAACTTGAATCAGAAGTGCCGATGCTTCCCTCCATTCAACTT
1 TCCGTTCAACTTGAATCGGAAGTGCCGATGCTTCATTCCATTCAACTT
37170 TGTTGAAAAC
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 99 0.97
73 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (73 bp):
TCCGTTCAACTTGAATCGGAAGTGCCGATGCTTCATTCCATTCAACTTAAATCGAAAGTGCCGAT
GCTTCCAT
Found at i:37476 original size:19 final size:20
Alignment explanation
Indices: 37437--37512 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
37427 ATCAGATTGT
37437 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
37457 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
37475 CCA---GGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
37492 CCAGAGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
37512 C
1 C
37513 TGCATGGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 1 0.02
15 7 0.15
17 5 0.11
18 5 0.11
20 28 0.60
21 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.26, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:37729 original size:21 final size:21
Alignment explanation
Indices: 37695--37734 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
37685 TTTTTGCATA
*
37695 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
37717 AAAAT-ATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
37735 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 1 0.06
22 5 0.29
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:39917 original size:19 final size:20
Alignment explanation
Indices: 39874--39921 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
39864 TCTAAATCAT
*
39874 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
39894 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
39913 TTTTCAAAA
1 TTTTCAAAA
39922 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:41276 original size:19 final size:20
Alignment explanation
Indices: 41237--41312 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
41227 ATCAGATTGT
41237 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
41257 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
41275 CC---GGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
41292 CCAGAGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
41312 C
1 C
41313 TGCATGGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
17 4 0.09
18 4 0.09
20 29 0.62
21 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:41451 original size:21 final size:21
Alignment explanation
Indices: 41425--41466 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
41415 ATTTGAATAT
*
41425 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
41446 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
41467 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:41528 original size:21 final size:21
Alignment explanation
Indices: 41495--41534 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
41485 TTTTTGCATA
*
41495 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
41517 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
41535 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:43718 original size:19 final size:20
Alignment explanation
Indices: 43675--43722 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
43665 TCTAAATCCT
*
43675 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
43695 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
43714 TTTTCAAAA
1 TTTTCAAAA
43723 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:45066 original size:20 final size:20
Alignment explanation
Indices: 45041--45078 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45031 CATATTGTCT
45041 AGGGGGTAGAGATTCCCCCC
1 AGGGGGTAGAGATTCCCCCC
**
45061 AGGGGGTATCGATTCCCC
1 AGGGGGTAGAGATTCCCC
45079 GGGAACAGAT
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:0.18, C:0.29, G:0.34, T:0.18
Consensus pattern (20 bp):
AGGGGGTAGAGATTCCCCCC
Found at i:45254 original size:21 final size:21
Alignment explanation
Indices: 45228--45269 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45218 ATTTGAATAT
* *
45228 TATGAAGGGGTATCGATTCCC
1 TATGAAGAGGTACCGATTCCC
45249 TATGAAGAGGTACCGATTCCC
1 TATGAAGAGGTACCGATTCCC
45270 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAGAGGTACCGATTCCC
Found at i:45331 original size:21 final size:21
Alignment explanation
Indices: 45298--45337 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
45288 TTTTTGCATA
*
45298 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
45320 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
45338 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:48193 original size:12 final size:11
Alignment explanation
Indices: 48173--48202 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
48163 TTTTATTCTT
48173 AAAAAATTAAA
1 AAAAAATTAAA
48184 AAATAAATTAAA
1 AAA-AAATTAAA
48196 AAAAAAT
1 AAAAAAT
48203 CGACGATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:52249 original size:39 final size:39
Alignment explanation
Indices: 52205--52281 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
52195 AAGGAAAAAT
52205 AATTTATTTGAAAATTATTAACCGAACCAAATTAACCGA
1 AATTTATTTGAAAATTATTAACCGAACCAAATTAACCGA
52244 AATTTATTTGAAAATTATTAACCGAACCAAATTAACCG
1 AATTTATTTGAAAATTATTAACCGAACCAAATTAACCG
52282 GATTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (39 bp):
AATTTATTTGAAAATTATTAACCGAACCAAATTAACCGA
Found at i:52391 original size:80 final size:80
Alignment explanation
Indices: 52274--52443 Score: 270
Period size: 80 Copynumber: 2.1 Consensus size: 80
52264 ACCGAACCAA
* * **
52274 ATTAACCGGATTTTTTTTCTTTAACATTAATCTAACCGAAATTATTTGATCGTTAATCGAACTGA
1 ATTAACC-GATTTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCA
*
52339 AATTTATTTGAAAATT
65 AATTTATTTAAAAATT
52355 ATTAACCGA-TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCGATTTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCA
52419 AATTTATTTAAAAATT
65 AATTTATTTAAAAATT
52435 ATTAACCGA
1 ATTAACCGA
52444 ATAAAATAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
79 13 0.16
80 63 0.76
81 7 0.08
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (80 bp):
ATTAACCGATTTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTAAAAATT
Found at i:52411 original size:26 final size:26
Alignment explanation
Indices: 52298--52427 Score: 84
Period size: 26 Copynumber: 4.9 Consensus size: 26
52288 TTTTCTTTAA
* *
52298 CATTAATCTAACCGAAATTATTTGAT
1 CATTAATCGAACCGAAATTATTTGAC
* * *
52324 CGTTAATCGAACTGAAATTTATTTGAA
1 CATTAATCGAACCGAAA-TTATTTGAC
* * ** * *
52351 AATT-AT-TAACCGATTTTTTTCTTTAAC
1 CATTAATCGAACCGA---AATTATTTGAC
52378 CATTAATCGAACCGAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
* *
52404 CGTTAATCGAACCCAAATTTATTT
1 CATTAATCGAACCGAAA-TTATTT
52428 AAAAATTATT
Statistics
Matches: 76, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
25 5 0.07
26 38 0.50
27 25 0.33
28 2 0.03
29 6 0.08
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (26 bp):
CATTAATCGAACCGAAATTATTTGAC
Found at i:52557 original size:160 final size:166
Alignment explanation
Indices: 52358--52735 Score: 507
Period size: 160 Copynumber: 2.3 Consensus size: 166
52348 GAAAATTATT
* * *
52358 AACCGATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCAAATT
1 AACCGATTTTTTTCTTTAACCATTAATTGAACTGAAATTATTTGACCATTAATCGAACCCAAATT
*
52423 TATTTAAAAATTATTAACCGAA-TAA-AAT-AAAT-AA-T-TTTTTCCTTAACCGGTAATCGAAC
66 TATTTAAAAATTATTAACCAAATTAACAATAAAATAAATTATTTTTCCTTAACCGGTAATCGAAC
52482 CAAAATTTATTTGAAAATTATTAACCGAACCAAATC
131 CAAAATTTATTTGAAAATTATTAACCGAACCAAATC
* * * * *
52518 AACCGATTATTTTCTTTAACTATTAATTGAACTGAAATTATTTGACCATTAATTGAATCGAAATT
1 AACCGATTTTTTTCTTTAACCATTAATTGAACTGAAATTATTTGACCATTAATCGAACCCAAATT
* * *
52583 TATTTGAAAATTATTAACCAAATTAACTGAATAAAATAAATTATTTTTCCTTAATCGTTAATCGA
66 TATTTAAAAATTATTAACCAAATTAAC--AATAAAATAAATTATTTTTCCTTAACCGGTAATCGA
* * * *
52648 ACCAAAATTTATTTGAAAATTATTAACGGAATCGAATT
129 ACCAAAATTTATTTGAAAATTATTAACCGAACCAAATC
* * *
52686 AACCGAATTTTTTTCTGTAACCATTAATTGAACTAAAATTTATTTAACCA
1 AACCG-ATTTTTTTCTTTAACCATTAATTGAACTGAAA-TTATTTGACCA
52736 AATAATTTGT
Statistics
Matches: 187, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
160 77 0.41
161 3 0.02
164 3 0.02
165 4 0.02
166 2 0.01
167 1 0.01
168 59 0.32
169 28 0.15
170 10 0.05
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (166 bp):
AACCGATTTTTTTCTTTAACCATTAATTGAACTGAAATTATTTGACCATTAATCGAACCCAAATT
TATTTAAAAATTATTAACCAAATTAACAATAAAATAAATTATTTTTCCTTAACCGGTAATCGAAC
CAAAATTTATTTGAAAATTATTAACCGAACCAAATC
Found at i:52580 original size:26 final size:27
Alignment explanation
Indices: 52539--52589 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
52529 TTCTTTAACT
52539 ATTAATTGAACTGAAA-TTATTTGACC
1 ATTAATTGAACTGAAATTTATTTGACC
52565 ATTAATTGAA-TCGAAATTTATTTGA
1 ATTAATTGAACT-GAAATTTATTTGA
52590 AAATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 1 0.04
26 14 0.61
27 8 0.35
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (27 bp):
ATTAATTGAACTGAAATTTATTTGACC
Found at i:54856 original size:2 final size:2
Alignment explanation
Indices: 54849--54887 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
54839 GCTCCGTGAG
54849 TA TA TA TA TA 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 TA TA TA TA TA T
54888 CTTTTCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57510 original size:37 final size:37
Alignment explanation
Indices: 57456--57552 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
57446 TTTTTTCGTC
57456 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
* ** * *
57493 TTGTTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
*
57530 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
57553 GATAGGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAAAATT
Found at i:58095 original size:21 final size:21
Alignment explanation
Indices: 58056--58105 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
58046 ATATACATAT
*
58056 ATTTTTTATTTATTTATATTC
1 ATTTTTTATTTATTAATATTC
58077 ATTTTGTTATTT-TTAATATT-
1 ATTTT-TTATTTATTAATATTC
*
58097 ATTATTTAT
1 ATTTTTTAT
58106 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 12 0.46
22 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTTTATTTATTAATATTC
Found at i:58428 original size:23 final size:22
Alignment explanation
Indices: 58402--58450 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
58392 TATATATATA
58402 TATTAATATTT-CATTTATTTATT
1 TATTAAT-TTTCCATTTATTT-TT
* *
58425 TATTTATTTTCCTTTTATTTTT
1 TATTAATTTTCCATTTATTTTT
58447 TATT
1 TATT
58451 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTAATTTTCCATTTATTTTT
Found at i:58453 original size:13 final size:13
Alignment explanation
Indices: 58437--58485 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
58427 TTTATTTTCC
58437 TTTTATTTTTTAT
1 TTTTATTTTTTAT
58450 TTTTATTTTTT-T
1 TTTTATTTTTTAT
**
58462 ACTTA-TTTTTAT
1 TTTTATTTTTTAT
58474 TCTTTATTTTTT
1 T-TTTATTTTTT
58486 TTCATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 14 0.48
14 5 0.17
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:58458 original size:18 final size:19
Alignment explanation
Indices: 58415--58474 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
58405 TAATATTTCA
58415 TTTA-TTTATTTATTTATT
1 TTTATTTTATTTATTTATT
**
58433 TTCCTTTTATTT-TTTATT
1 TTTATTTTATTTATTTATT
*
58451 TTTATTTT-TTTACTTATT
1 TTTATTTTATTTATTTATT
58469 TTTATT
1 TTTATT
58475 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.09
18 25 0.71
19 7 0.20
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTATTTATTTATT
Found at i:58501 original size:31 final size:31
Alignment explanation
Indices: 58419--58502 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
58409 ATTTCATTTA
* *
58419 TTTATTTATTTA-TTTTCCTTTTATTTTTTATT
1 TTTATTTATTTACTTAT--TTTTATTCTTTATT
*
58451 TTTATTTTTTTACTTATTTTTATTCTTTATT
1 TTTATTTATTTACTTATTTTTATTCTTTATT
58482 TTT-TTTCATTTA-TTCATTTTT
1 TTTATTT-ATTTACTT-ATTTTT
58503 TCCCTCTAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 5 0.11
31 26 0.58
32 11 0.24
33 3 0.07
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTATTTATTTACTTATTTTTATTCTTTATT
Found at i:62960 original size:16 final size:15
Alignment explanation
Indices: 62937--62986 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
62927 AAAAAGGGCA
62937 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
62951 AAGAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
*
62968 AAAACAAAAAAAAAG
1 AAAACAAAAAAGAAG
62983 AAAA
1 AAAA
62987 AGGGACAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.50
16 12 0.38
17 2 0.06
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:62961 original size:15 final size:15
Alignment explanation
Indices: 62939--62978 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
62929 AAAGGGCAAA
62939 AACAAAAAAGAAAAG
1 AACAAAAAAGAAAAG
62954 AAGCAAAAAAGAAGAA-
1 AA-CAAAAAAGAA-AAG
62970 AACAAAAAA
1 AACAAAAAA
62979 AAAGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 12 0.52
17 2 0.09
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (15 bp):
AACAAAAAAGAAAAG
Found at i:62970 original size:19 final size:18
Alignment explanation
Indices: 62935--62984 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
62925 ACAAAAAGGG
62935 CAAAAACAAAA-AAGAAAA
1 CAAAAA-AAAAGAAGAAAA
* *
62953 GAAGCAAAAAAGAAGAAAA
1 CAA-AAAAAAAGAAGAAAA
62972 CAAAAAAAAAGAA
1 CAAAAAAAAAGAA
62985 AAAGGGACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAAGAAGAAAA
Found at i:63021 original size:24 final size:23
Alignment explanation
Indices: 62977--63020 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
62967 GAAAACAAAA
62977 AAAAAGAAAAAGGGACAAAAATC
1 AAAAAGAAAAAGGGACAAAAATC
63000 AAAAAGAAAAAGGGACAAAAA
1 AAAAAGAAAAAGGGACAAAAA
63021 AGCACATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.73, C:0.07, G:0.18, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAAAGGGACAAAAATC
Found at i:63667 original size:22 final size:22
Alignment explanation
Indices: 63613--63655 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
63603 AGCACCCCAT
63613 CAAACCTTTGAGCATCAAATGA
1 CAAACCTTTGAGCATCAAATGA
63635 CAAACCTTTGAGCATCAAATG
1 CAAACCTTTGAGCATCAAATG
63656 CTACACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:64105 original size:18 final size:19
Alignment explanation
Indices: 64082--64118 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
64072 CCAACATCAA
64082 ATATTGGGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
64100 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
64119 GGATTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:64711 original size:106 final size:106
Alignment explanation
Indices: 64492--65972 Score: 2054
Period size: 106 Copynumber: 14.0 Consensus size: 106
64482 ATATCGTGCT
* * * * * *
64492 ACTCAAGACAACACAAGTTCAACTTCAC-AACGAAGGGACGGCTGGTTGTCAAC-AATAATTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
64555 CAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * **
64597 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACTGCTGGTTGTCAATAAACAGTTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
64662 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
64703 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
64768 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
64809 ACTCCAGGCAACGCAAGTTCAACTTCACGACA-AAGAGACCGTTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGA-AGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
64873 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
64915 ACTCCAGACAACGCAAGTTCAACTTCACGACA-AAGGAACCGCTGGTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGA-AGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
*
64979 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
65021 ACTCCAGACAACGCAAGTTCAACATCAC-AACGAAGGGACCGTTGGTTGCCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGGTTGTCAACAAACAACTTCC
65085 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
65127 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
65192 AATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
65233 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
65298 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
65339 ACTCAAGACAACGCACGTTCAACTTTATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
65404 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
65445 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
65510 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
65551 ACTCCAGATAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
65616 AATTTCAGAGCCAATTTCAACTTCACAACGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
65657 ACTCAAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
65722 AATTTCATAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * ** * *
65763 AC-CCAAGGTAACACAAGCTCAACTTCACGGTGAAGAGG-CGGCTGATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGAAGAAG-GGACCGCTGGTTGTCAACAAACAACTTC
* * *
65822 TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
65863 ACTCGAGATAACACAAGTTCAACTTCAC-AACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGGTTGTCAACAAACAACTTCC
** * * *
65927 CGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65969 ACTC
1 ACTC
65973 AGAACAATGC
Statistics
Matches: 1244, Mismatches: 115, Indels: 33
0.89 0.08 0.02
Matches are distributed among these distances:
99 2 0.00
100 74 0.06
101 4 0.00
102 3 0.00
103 4 0.00
104 4 0.00
105 50 0.04
106 1100 0.88
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:66615 original size:37 final size:37
Alignment explanation
Indices: 66571--66675 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
66561 CCTTTTCGTC
*
66571 CTACTAGGATTCAAACTGCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
66608 TTGCTAGGA-TCTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTC-AAACTCCTAAAAATAGGATAGAATT
* * *
66645 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
66676 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.04
37 54 0.95
38 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:67543 original size:4 final size:4
Alignment explanation
Indices: 67530--67569 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
67520 TATATATTAA
67530 TATT TCATT TATT TATT TATT TATT TA-T T-TT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TATT T
67570 TTACTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.12
4 25 0.76
5 4 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:67564 original size:10 final size:10
Alignment explanation
Indices: 67537--67584 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
67527 TAATATTTCA
67537 TTTATTTATTT
1 TTTATTTA-TT
67548 ATTTATTTATT
1 -TTTATTTATT
67559 TTTATTTATT
1 TTTATTTATT
*
67569 TTTACTTATT
1 TTTATTTATT
67579 TTTATT
1 TTTATT
67585 CTTCATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 24 0.71
11 2 0.06
12 8 0.24
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTATT
Found at i:67572 original size:20 final size:22
Alignment explanation
Indices: 67536--67584 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
67526 TTAATATTTC
*
67536 ATTTATTTATTTATTTATTTATT
1 ATTTATTTATTTACTTATTT-TT
67559 -TTTATTTATTTTTACTTATTTTT
1 ATTTATTTA--TTTACTTATTTTT
67582 ATT
1 ATT
67585 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTATTTATTTACTTATTTTT
Found at i:80400 original size:2 final size:2
Alignment explanation
Indices: 80393--80429 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
80383 CATGACTTCT
80393 TA TA TA TA 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 TA TA TA TA T
80430 TTAATCTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82627 original size:20 final size:19
Alignment explanation
Indices: 82590--82640 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
82580 TTCAATGATT
82590 TAATT-AATAACATTTTAA
1 TAATTAAATAACATTTTAA
*
82608 TAATTAAATAACCGTTTTAA
1 TAATTAAATAA-CATTTTAA
*
82628 TAATTAAAAAACA
1 TAATTAAATAACA
82641 ACTACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 17 0.61
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
TAATTAAATAACATTTTAA
Found at i:82867 original size:21 final size:19
Alignment explanation
Indices: 82822--82868 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
82812 TTTAATTATT
82822 CTTTTTATTTTCTAAATAA
1 CTTTTTATTTTCTAAATAA
*
82841 CATTTTATTTAT-TATATATAA
1 CTTTTTATTT-TCTA-A-ATAA
82862 CTTTTTA
1 CTTTTTA
82869 GTACATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.48
20 2 0.09
21 10 0.43
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (19 bp):
CTTTTTATTTTCTAAATAA
Found at i:83660 original size:21 final size:21
Alignment explanation
Indices: 83631--83719 Score: 133
Period size: 21 Copynumber: 4.2 Consensus size: 21
83621 AATATGTAAA
83631 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
83652 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
83673 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
** *
83694 TCGCAACGCGATATTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
83715 TCGCA
1 TCGCA
83720 ACGCGATAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:83720 original size:21 final size:21
Alignment explanation
Indices: 83606--83727 Score: 106
Period size: 21 Copynumber: 5.9 Consensus size: 21
83596 AACTGACCAA
83606 CAAATTCGCAACGCGAATATGT-
1 CAAATTCGCAACGCG-ATAT-TC
** *
83628 -AAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
*** *
83647 CAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
*** *
83668 CAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
83689 CAAATTCGCAACGCGATATTC
1 CAAATTCGCAACGCGATATTC
83710 CAAATTCGCAACGCGATA
1 CAAATTCGCAACGCGATA
83728 GTCAAATATT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 11 0.12
21 74 0.83
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (21 bp):
CAAATTCGCAACGCGATATTC
Found at i:83726 original size:42 final size:42
Alignment explanation
Indices: 83606--83719 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
83596 AACTGACCAA
83606 CAAATTCGCAACGCGAATATGT--AAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCG-ATAT-TCCAAATTCGCATTGCGATTTTC
*** * *
83647 CAAATTCGCGTTGCGATTTTCCAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATATTCCAAATTCGCATTGCGATTTTC
83689 CAAATTCGCAACGCGATATTCCAAATTCGCA
1 CAAATTCGCAACGCGATATTCCAAATTCGCA
83720 ACGCGATAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.02
40 3 0.05
41 15 0.25
42 41 0.68
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
CAAATTCGCAACGCGATATTCCAAATTCGCATTGCGATTTTC
Found at i:83895 original size:22 final size:22
Alignment explanation
Indices: 83870--83935 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
83860 ACATCTGTCC
83870 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
* *
83892 CCATCTCCGATGAATTCCGTCT
1 CCATCTCCGACGAAATCCGTCT
*
83914 CCATTTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
83936 ATCTCCATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:86444 original size:42 final size:42
Alignment explanation
Indices: 86397--86496 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
86387 GCCCGATGCA
* * *
86397 CCTATCATCATTCAAGAGGCGCCTCAT-ATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAAGCCCCTC-TCACCGTTCAAGAGGCC
86439 CCTATCATCA-TCGAAGAAGCCCCTCTCACCGTTCAAGAGGCC
1 CCTATCATCATTC-AAGAAGCCCCTCTCACCGTTCAAGAGGCC
* * *
86481 ACTGTCATCGTTCAAG
1 CCTATCATCATTCAAG
86497 TGGTCTCGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 44 0.90
43 2 0.04
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCATTCAAGAAGCCCCTCTCACCGTTCAAGAGGCC
Found at i:86476 original size:21 final size:21
Alignment explanation
Indices: 86397--86496 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 21
86387 GCCCGATGCA
* *
86397 CCTATCATCATTCAAGAGGCG
1 CCTATCATCGTTCAAGAGGCC
86418 CCTCAT-ATCGTTCAAGAGGCC
1 CCT-ATCATCGTTCAAGAGGCC
* *
86439 CCTATCATC-ATCGAAGAAGCC
1 CCTATCATCGTTC-AAGAGGCC
* *
86460 CCTCTCACCGTTCAAGAGGCC
1 CCTATCATCGTTCAAGAGGCC
* *
86481 ACTGTCATCGTTCAAG
1 CCTATCATCGTTCAAG
86497 TGGTCTCGCC
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.06
21 56 0.88
22 4 0.06
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (21 bp):
CCTATCATCGTTCAAGAGGCC
Found at i:87921 original size:14 final size:14
Alignment explanation
Indices: 87902--87941 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
87892 TTTTGATTAA
87902 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
87916 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
87930 TTGATTTGTAAA
1 TTGATTTGTAAA
87942 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:87934 original size:61 final size:65
Alignment explanation
Indices: 87851--87988 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 65
87841 TTTTACATTG
87851 AAAGTTGATTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
* ** * * *
87912 AAAGTTGATTTGTTTA-ATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTG-TTACAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTG
87976 TA
64 TA
87978 AAAGTTGATTT
1 AAAGTTGATTT
87989 ACTGTTTCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
61 26 0.40
62 4 0.06
63 1 0.02
64 6 0.09
66 28 0.43
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (65 bp):
AAAGTTGATTTGTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:88115 original size:34 final size:34
Alignment explanation
Indices: 88077--88146 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
88067 AGTCAAATTA
88077 GCAACGCGAT-TTTCG-GTTTGCGAATTTGACTATC
1 GCAACGC-ATATTTCGCG-TTGCGAATTTGACTATC
* *
88111 GCAACGCTTATTTCGCGTTGCGAATTTGACTTTC
1 GCAACGCATATTTCGCGTTGCGAATTTGACTATC
88145 GC
1 GC
88147 GTTGATCGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 1 0.03
34 30 0.94
35 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (34 bp):
GCAACGCATATTTCGCGTTGCGAATTTGACTATC
Found at i:88382 original size:39 final size:39
Alignment explanation
Indices: 88323--88411 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
88313 ACTCAAGTTG
88323 TAGATTTTGATTTCCCTTTGCTTGGCACCATATGAGATT
1 TAGATTTTGATTTCCCTTTGCTTGGCACCATATGAGATT
* *
88362 TAGATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTT
1 TAGATTTTGATTTCCCTTTGCTTGGCACCATATGAGATT
*
88401 TGGATTTTGAT
1 TAGATTTTGAT
88412 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (39 bp):
TAGATTTTGATTTCCCTTTGCTTGGCACCATATGAGATT
Found at i:89158 original size:25 final size:25
Alignment explanation
Indices: 89101--89150 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
89091 ATTATTTTTC
* *
89101 CAAATAATGTACCCATAACAATGTT
1 CAAATGATGTACCCACAACAATGTT
89126 CAAATGATGTACCCACAACAATGTT
1 CAAATGATGTACCCACAACAATGTT
89151 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (25 bp):
CAAATGATGTACCCACAACAATGTT
Found at i:89586 original size:18 final size:18
Alignment explanation
Indices: 89560--89600 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
89550 ATGTGAAGCC
* *
89560 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
89578 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
89596 GATTT
1 GATTT
89601 CCTTTTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:91868 original size:24 final size:24
Alignment explanation
Indices: 91841--91894 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
91831 CCATCACATC
* *
91841 ATCAAAATCCGAGTATTGATCAAG
1 ATCAAAATACGAGTATTGACCAAG
* * *
91865 ATCAAAGTATGGGTATTGACCAAG
1 ATCAAAATACGAGTATTGACCAAG
91889 ATCAAA
1 ATCAAA
91895 TTTTGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATACGAGTATTGACCAAG
Found at i:92669 original size:22 final size:22
Alignment explanation
Indices: 92644--92691 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
92634 ATGGGGAAGA
92644 ATGTCGTTGGATATAGGAACGG
1 ATGTCGTTGGATATAGGAACGG
*
92666 ATGTCGTTTGATATAGGAACGG
1 ATGTCGTTGGATATAGGAACGG
92688 ATGT
1 ATGT
92692 AGCCGGAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (22 bp):
ATGTCGTTGGATATAGGAACGG
Found at i:92845 original size:20 final size:20
Alignment explanation
Indices: 92809--93038 Score: 136
Period size: 19 Copynumber: 11.6 Consensus size: 20
92799 ACTAAAACTT
*
92809 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
92828 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
*
92847 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
92866 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
* *
92886 GTTGAGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
* *
92906 GTTGCAAATTTGGAATATCGC
1 GTTGCGAATTTGAAAT-TCGC
*** * *
92927 AACGTGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
***
92948 AACGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* * *
92968 GTTGCGAAATTGGAAACT-GG
1 GTTGCG-AATTTGAAATTCGC
*
92988 GTTGCGAAATT-AGAATTCGC
1 GTTGCGAATTTGA-AATTCGC
*
93008 GTTGCGAATTTGAGATT-GC
1 GTTGCGAATTTGAAATTCGC
93027 GTTGCGAATTTG
1 GTTGCGAATTTG
93039 TTGGTCATTT
Statistics
Matches: 166, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.01
19 67 0.40
20 64 0.39
21 25 0.15
22 7 0.04
23 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:92936 original size:21 final size:21
Alignment explanation
Indices: 92912--92951 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
92902 TCGCGTTGCA
*
92912 AATTTGGAATATCGCAACGTG
1 AATTTGGAAAATCGCAACGTG
92933 AATTTGGAAAATCGCAACG
1 AATTTGGAAAATCGCAACG
92952 CGATTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (21 bp):
AATTTGGAAAATCGCAACGTG
Found at i:93028 original size:19 final size:21
Alignment explanation
Indices: 92809--93038 Score: 107
Period size: 20 Copynumber: 11.6 Consensus size: 21
92799 ACTAAAACTT
*
92809 GTTGCGAAATT-A-AATTCGC
1 GTTGCGAATTTGAGAATTCGC
*
92828 GTTGCGAATTTGA-AATTC-A
1 GTTGCGAATTTGAGAATTCGC
*
92847 GTTGCGAATTTGA-AATTC-A
1 GTTGCGAATTTGAGAATTCGC
**
92866 GTTGCGAATTTGA-CTTTCGC
1 GTTGCGAATTTGAGAATTCGC
* **
92886 GTTGAGAATTTGACTA-TCGC
1 GTTGCGAATTTGAGAATTCGC
*
92906 GTTGCAAATTTG-GAATATCGC
1 GTTGCGAATTTGAGAAT-TCGC
*** * *
92927 AACGTGAATTTG-GAAAATCGC
1 GTTGCGAATTTGAG-AATTCGC
*** *
92948 AACGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGAGA-ATTCGC
* * *
92968 GTTGCGAAATTG-GAA-ACTGG
1 GTTGCGAATTTGAGAATTC-GC
*
92988 GTTGCGAAATT-AGAATTCGC
1 GTTGCGAATTTGAGAATTCGC
93008 GTTGCGAATTTGAG-ATT-GC
1 GTTGCGAATTTGAGAATTCGC
93027 GTTGCGAATTTG
1 GTTGCGAATTTG
93039 TTGGTCATTT
Statistics
Matches: 166, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
19 62 0.37
20 74 0.45
21 28 0.17
22 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (21 bp):
GTTGCGAATTTGAGAATTCGC
Found at i:93882 original size:3 final size:3
Alignment explanation
Indices: 93874--93918 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
93864 TTTTAACATG
93874 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93919 GGTTTTCTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100810 original size:2 final size:2
Alignment explanation
Indices: 100803--100854 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
100793 GAAGATTTTA
100803 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
100845 AT AT AT AT AT
1 AT AT AT AT AT
100855 GTAGGGATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106682 original size:20 final size:21
Alignment explanation
Indices: 106657--106708 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
106647 TTTTCCCAAT
*
106657 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
106677 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAGAAAA
106698 TCGCAATGCGA
1 TCGCAATGCGA
106709 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:106722 original size:20 final size:20
Alignment explanation
Indices: 106697--106810 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
106687 AATTGAGAAA
*
106697 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
106717 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
106737 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
106758 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
106778 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
106798 TTCGCAACGCGAT
1 ATCGCAACGCGAT
106811 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:106725 original size:61 final size:62
Alignment explanation
Indices: 106657--106789 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 62
106647 TTTTCCCAAT
* * * *
106657 TCGCAATGCGAATAAGTA-AATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACTA
1 TCGCAATGCGAATAAGTACAATCGCAACGCGATAAT-ACAAAATCGCAACGAGATACTGACTA
** * * *
106718 TCGCAATGCG-ATACTTACTATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTT
1 TCGCAATGCGAATAAGTACAATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTA
*
106779 TCGCAACGCGA
1 TCGCAATGCGA
106790 TTCTGACTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
60 5 0.08
61 52 0.88
62 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (62 bp):
TCGCAATGCGAATAAGTACAATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTA
Found at i:106790 original size:61 final size:61
Alignment explanation
Indices: 106676--106810 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
106666 GAATAAGTAA
* * * * * *
106676 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
* * *
106737 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
*
106798 TTCGCAACGCGAT
1 ATCGCAACGCGAT
106811 TTACATAGCG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
Found at i:107102 original size:1 final size:1
Alignment explanation
Indices: 107096--107120 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
107086 CGAGGGTTAG
107096 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
107121 GAAAATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:107373 original size:19 final size:19
Alignment explanation
Indices: 107334--107400 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
107324 TTCGAGAATG
107334 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
**
107354 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
107373 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
107392 AAAATCGCA
1 AAAATCGCA
107401 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.49, C:0.25, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:107418 original size:19 final size:19
Alignment explanation
Indices: 107396--107566 Score: 181
Period size: 19 Copynumber: 9.1 Consensus size: 19
107386 GAAACCAAAA
*
107396 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
107415 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
107434 TCGTGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
107453 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
107473 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
107489 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
107506 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
107525 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
107545 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
107565 TC
1 TC
107567 AACCAAAAGA
Statistics
Matches: 131, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.08
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 66 0.50
20 50 0.38
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:107473 original size:39 final size:38
Alignment explanation
Indices: 107396--107566 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 38
107386 GAAACCAAAA
*
107396 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
107434 TCGTGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
107473 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
** *
107506 TCGCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGATTTTCATT
*
107545 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
107567 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
33 27 0.25
35 1 0.01
36 2 0.02
38 21 0.19
39 41 0.38
40 17 0.16
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:109625 original size:42 final size:42
Alignment explanation
Indices: 109565--109657 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
109555 GCCCGACTCG
* *
109565 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* * *
109607 CCTATCATTCCTCGAGAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* *
109649 ACTGTCATC
1 CCTATCATC
109658 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.25
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
Found at i:109645 original size:21 final size:21
Alignment explanation
Indices: 109576--109645 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
109566 CTATCATCCC
* *
109576 TCAAGAGTCCACTCCTATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * ** *
109597 TGAAGAGGCCCCTATCATTC-C
1 TCAAGAGTCCCCTCCCA-TCGT
*
109618 TCGAGAGTCCCCTCCCATCGT
1 TCAAGAGTCCCCTCCCATCGT
109639 TCAAGAG
1 TCAAGAG
109646 GCCACTGTCA
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCATCGT
Found at i:111065 original size:14 final size:14
Alignment explanation
Indices: 111046--111081 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
111036 ATTGTTTAAT
111046 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
111060 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
111074 TGATTTGT
1 TGATTTGT
111082 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:111282 original size:19 final size:19
Alignment explanation
Indices: 111260--111410 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
111250 CAAAATTAAA
111260 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
111279 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
111294 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
111312 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
111326 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
111345 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
111360 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
111378 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
111397 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
111411 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:111306 original size:33 final size:32
Alignment explanation
Indices: 111264--111390 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
111254 ATTAAATTCG
111264 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
111297 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
111330 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
111363 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
111391 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:111353 original size:66 final size:66
Alignment explanation
Indices: 111257--111389 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
111247 ACGCAAAATT
*
111257 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
111322 G
66 G
*
111323 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
111388 G
66 G
111389 A
1 A
111390 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:120785 original size:31 final size:31
Alignment explanation
Indices: 120722--120786 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
120712 GTGTAGACAT
**
120722 CTAAAAGTGTAACAGAGAAAATATTAGTCAC
1 CTAAAAGTGTAACAGAGAAAATATTAAACAC
***
120753 CTAAAAGTGTAGTGGAGAAAATATTAAACAC
1 CTAAAAGTGTAACAGAGAAAATATTAAACAC
120784 CTA
1 CTA
120787 TTTTTAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (31 bp):
CTAAAAGTGTAACAGAGAAAATATTAAACAC
Done.