Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003667.1 Hibiscus syriacus cultivar Beakdansim tig00007834_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: 107722
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Found at i:7837 original size:23 final size:23
Alignment explanation
Indices: 7772--7840 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
7762 CACCATAACT
* *
7772 CGTATAAATGCACCGAAGTACCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
7795 CGTAGAATTGCACTGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
7818 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
7841 TATAAGATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:15592 original size:2 final size:2
Alignment explanation
Indices: 15585--15611 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15575 TACGATTTCT
15585 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 T
15612 GTTTATCGTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19119 original size:21 final size:21
Alignment explanation
Indices: 19081--19120 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19071 AAAAAATATT
* * *
19081 AAGACCTTAAAGTTTTTTAAC
1 AAGACCCTAAAATGTTTTAAC
19102 AAGACCCTAAAATGTTTTA
1 AAGACCCTAAAATGTTTTA
19121 CCAAATTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
AAGACCCTAAAATGTTTTAAC
Found at i:20052 original size:21 final size:21
Alignment explanation
Indices: 20028--20071 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20018 TTAAAAAAAA
*
20028 TTAGTAATTCA-ATTTTTAATT
1 TTAGT-ATTCATATATTTAATT
*
20049 TTAGTATTTATATATTTAATT
1 TTAGTATTCATATATTTAATT
20070 TT
1 TT
20072 TCTATATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTAGTATTCATATATTTAATT
Found at i:27831 original size:13 final size:14
Alignment explanation
Indices: 27813--27841 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27803 TTTTGAAAAC
27813 TATTTG-AAAATAA
1 TATTTGAAAAATAA
27826 TATTTGAAAAATAA
1 TATTTGAAAAATAA
27840 TA
1 TA
27842 ATACATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TATTTGAAAAATAA
Found at i:28389 original size:44 final size:44
Alignment explanation
Indices: 28336--28432 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
28326 GGCAGTGTGC
*
28336 ATCGATGCACATTC-AA-GGAGTCCATCGGTGCATCTTCAT-GATGT
1 ATCGATGCACATTCAAAGGGA-TCCATCGATGCA-CTTCATAG-TGT
*
28380 ATCGATGCACATTCAAAGGGATGCATCGATGCACTTCATAGTGT
1 ATCGATGCACATTCAAAGGGATCCATCGATGCACTTCATAGTGT
28424 ATCGATGCA
1 ATCGATGCA
28433 TTATGCACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 32 0.67
45 13 0.27
46 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGGATCCATCGATGCACTTCATAGTGT
Found at i:28429 original size:20 final size:21
Alignment explanation
Indices: 28359--28432 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 21
28349 CAAGGAGTCC
*
28359 ATCGGTGCATCTTCAT-GATGT
1 ATCGATGCA-CTTCATAGATGT
* *
28380 ATCGATGCACATTCAAAGGGATGC
1 ATCGATGCAC-TTCATA--GATGT
28404 ATCGATGCACTTCATAG-TGT
1 ATCGATGCACTTCATAGATGT
28424 ATCGATGCA
1 ATCGATGCA
28433 TTATGCACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
20 12 0.27
21 13 0.30
23 5 0.11
24 14 0.32
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
ATCGATGCACTTCATAGATGT
Found at i:38383 original size:31 final size:33
Alignment explanation
Indices: 38333--38394 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
38323 GTTTATTGTC
38333 AAATGGTTGAGAGTATTTAAAATAAATATTATT
1 AAATGGTTGAGAGTATTTAAAATAAATATTATT
* *
38366 AAATGG-T-AGAGTCTTTAAAATAGATATTA
1 AAATGGTTGAGAGTATTTAAAATAAATATTA
38395 CCATGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 1 0.04
33 6 0.22
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (33 bp):
AAATGGTTGAGAGTATTTAAAATAAATATTATT
Found at i:42104 original size:16 final size:18
Alignment explanation
Indices: 42069--42105 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
42059 TTATACAATC
42069 AATATTTATCGTATTTAA
1 AATATTTATCGTATTTAA
*
42087 AATA-TTATCTTA-TTAA
1 AATATTTATCGTATTTAA
42103 AAT
1 AAT
42106 TTCGATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
AATATTTATCGTATTTAA
Found at i:47088 original size:21 final size:21
Alignment explanation
Indices: 47064--47103 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47054 TTTATTTTAT
47064 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
47085 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
47104 AACTTGAAGT
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:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:47151 original size:33 final size:33
Alignment explanation
Indices: 47098--47196 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
47088 TTTGTTTCAA
47098 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
47130 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
47163 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
47196 T
1 T
47197 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:47225 original size:13 final size:13
Alignment explanation
Indices: 47182--47236 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
47172 TTGGAAGTAT
47182 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
47195 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
47209 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
47222 TTAAGTATTTGAA
1 TTAAGTATTTCAA
47235 TT
1 TT
47237 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:47458 original size:21 final size:21
Alignment explanation
Indices: 47432--47488 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
47422 TGGAGCGTGG
*
47432 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
47453 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
47474 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
47489 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:49459 original size:37 final size:38
Alignment explanation
Indices: 49407--49483 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
49397 TAAAAAGAAG
* * *
49407 ATTTTATCTCGCTTGAGATAGTTTC-CTTTGAAACA-AA
1 ATTTTATCTCACTTGAGACAATTTCTC-TTGAAACATAA
*
49444 ATTTTGTCTCACTTGAGACAATTTCTCTTGAAACATAA
1 ATTTTATCTCACTTGAGACAATTTCTCTTGAAACATAA
49482 AT
1 AT
49484 ATTGAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (38 bp):
ATTTTATCTCACTTGAGACAATTTCTCTTGAAACATAA
Found at i:49541 original size:36 final size:36
Alignment explanation
Indices: 49494--49578 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
49484 ATTGAAAACA
* *
49494 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
* *
49530 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
49567 TTTCTCTTGAAA
1 TTTCCCTTGAAA
49579 CATAAACATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:49583 original size:102 final size:102
Alignment explanation
Indices: 49407--49782 Score: 481
Period size: 102 Copynumber: 3.7 Consensus size: 102
49397 TAAAAAGAAG
* * * * * *
49407 ATTTTATCTCGCTTGAGATAGTTTCCTTTGAAACAAAATTTTGTCTCACTTGAGACAATTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
*
49472 TGAAACATAAATATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
* *
49509 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * *
49574 TGAAACATAAACATTGAAACCATTTCCATTGAAATAA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
* *
49611 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * * * *
49675 TGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACAA
66 TGAAACATAAAT-ATTGAAAAC-ATTTCCCTTGAAATAA
* * * * *
49712 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
*
49776 TAAAACA
66 TGAAACA
49783 AATTTTATCT
Statistics
Matches: 243, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
100 14 0.06
101 104 0.43
102 125 0.51
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
Found at i:49649 original size:36 final size:36
Alignment explanation
Indices: 49609--49683 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
49599 CCATTGAAAT
49609 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
*
49645 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
49681 AAA
1 AAA
49684 ATCTTTGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (36 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
Found at i:49714 original size:101 final size:100
Alignment explanation
Indices: 49407--50188 Score: 597
Period size: 101 Copynumber: 7.7 Consensus size: 100
49397 TAAAAAGAAG
* * * * * * * *
49407 ATTTTATCTCGCTTGAGATAGTTTCCTTTGAAACAAAATTTTGTCTCACTTGAGACAATTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * **
49472 TGAAACATAAAT-ATTGAAAACATTTCCCTTGAAATGA
65 TGAAACA-AAATCTTTG-AAACGTTTTCCTTGAAACAA
* * * * *
49509 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* ** *
49574 TGAAACATAAA-CATTGAAACCATTTCCATTGAAATAA
65 TGAAACA-AAATCTTTGAAACGTTTTCC-TTGAAACAA
*
49611 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
*
49676 GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
66 GAAACAAAATCTTTGAAAC-GTTTTCCTTGAAACAA
* * * * *
49712 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCT
* * * *
49776 TAAAACAAATTTTATCTCTCTTAAGACATTTTCTCTTAAAACAA
65 TGAAACAAA----ATCT-T-TGAA-ACGTTTTC-CTTGAAACAA
* * * * **
49820 ATTTTTTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAACTTTG--AAT-TT-----A-TTAT-C
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTT--AAAACAAATTTTGTCTCTCTTGAGACAGTT-TCC
* * *
49875 CTTGAAACAAAGTTTTGTCTCTCTTGAGACAG-TTTCTCTTAAAACAA
63 CTTGAAACAAA-------ATCT-TTGAAAC-GTTTTC-CTTGAAACAA
* * * *
49922 ATTTCGTCTCCCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* * *
49987 GAAACAAAATTTTTGAATCTGTTTTCCTTAAAACAA
66 GAAACAAAATCTTTGAAAC-GTTTTCCTTGAAACAA
** * ****
50023 ATTTCATGTCCCTTGAGACAGTTAATTTTAAAACAAATTTTGTCTCTCTTGAGA-ATGTTTCCCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCT
* *
50087 TGAAACGAAATCTTT-AAATCTGTTTTCCTTGAAATAA
65 TGAAACAAAATCTTTGAAA-C-GTTTTCCTTGAAACAA
* ** *
50124 ATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
50189 AAAATTTTGT
Statistics
Matches: 569, Mismatches: 76, Indels: 71
0.79 0.11 0.10
Matches are distributed among these distances:
100 28 0.05
101 282 0.50
102 171 0.30
103 4 0.01
104 8 0.01
105 4 0.01
106 1 0.00
107 10 0.02
108 34 0.06
109 17 0.03
110 4 0.01
111 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (100 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAAATCTTTGAAACGTTTTCCTTGAAACAA
Found at i:49783 original size:137 final size:132
Alignment explanation
Indices: 49595--50333 Score: 488
Period size: 137 Copynumber: 5.5 Consensus size: 132
49585 CATTGAAACC
* *
49595 ATTTCCATTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCT
1 ATTTCC-TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
*
49660 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAATTTCGTCTCCCT
65 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAA-TTCGTCT---T
49725 TGAGA-CA
126 TGA-ATCA
* *
49732 ATTTCCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCTTAAAACAAATTTTATCTCTCT
1 ATTTCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
* * * * * * **
49797 TAAGACATTTTCTCTTAAAACAAATTTTTTCTCTCTTGAGA-CAGTTTCCCTTGAAA-AAA--AA
65 TGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCTGTTTCCCTTGAAACAAATTCG
* **
49858 ACTTTGAATTT
122 TCTTTGAATCA
* *
49869 ATTATCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTCGTCTCCC
1 ATT-TCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTC
* * * * * * *
49934 TTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCCCGTGAAACAAAAT-
64 TTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCTGTTTCCCTTGAAACAAATTC
*
49997 -T-TTTGAATCTG
121 GTCTTTGAATC-A
* * ** *
50008 TTTTCCTTAAAACAAATTTCATGTC-C-CTTGAGACAGTTAATTTTAAAACAAATTTTGTCTCTC
1 ATTTCCTTGAAACAAATTT--TGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTC
* * * *
50071 TTGAGA-ATGTTTCCCTTGAAACGAAATCTTTAAATCTGTTTTCCTTGAAATAAATTTCGTCTCC
64 TTGAGACA-GTTTCCCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAA-TTCGTCT--
50135 CTTGAGA-CA
125 -TTGA-ATCA
* * * * *
50144 GTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTT---A-AAATTTTGTCTCTCT
1 ATTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
* * * * *
50205 GGAGACAGTTTCACTTGGAACAAAAATCTTTGAAT-TAGTTTCCCTTGAAGCAAAATC-T-TTT-
65 TGAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATCT-GTTTCCCTTGAAACAAATTCGTCTTTG
50266 AATCTA
128 AATC-A
* * * ** *
50272 TTTTCCTT-AAA-AAA--TCGTCTCTCTCGAGACAGTTTCTCTT-GGA-AAATTTTGTCTCCCTT
1 ATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTT
50331 GAG
66 GAG
50334 GTATTTTCTT
Statistics
Matches: 495, Mismatches: 70, Indels: 86
0.76 0.11 0.13
Matches are distributed among these distances:
123 22 0.04
125 21 0.04
126 4 0.01
127 4 0.01
128 7 0.01
129 1 0.00
130 18 0.04
131 5 0.01
132 1 0.00
133 35 0.07
134 28 0.06
135 4 0.01
136 16 0.03
137 163 0.33
138 131 0.26
139 9 0.02
140 2 0.00
143 6 0.01
144 17 0.03
145 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (132 bp):
ATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTCGTCTTTGAAT
CA
Found at i:49796 original size:21 final size:20
Alignment explanation
Indices: 49771--49833 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
49761 TGAGACAGTT
49771 TCTCTTAAAACAAATTTTATC
1 TCTCTTAAAACAAATTTT-TC
*
49792 TCTCTTAAGAC--A--TTT-
1 TCTCTTAAAACAAATTTTTC
49807 TCTCTTAAAACAAATTTTTTC
1 TCTCTTAAAACAAA-TTTTTC
49828 TCTCTT
1 TCTCTT
49834 GAGACAGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
17 3 0.09
19 1 0.03
20 3 0.09
21 16 0.47
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.48
Consensus pattern (20 bp):
TCTCTTAAAACAAATTTTTC
Found at i:49797 original size:173 final size:174
Alignment explanation
Indices: 49609--49999 Score: 570
Period size: 173 Copynumber: 2.2 Consensus size: 174
49599 CCATTGAAAT
49609 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * * *
49674 TTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAA-TTTCGTCTCCCTTGAGACAATTTC-
66 TTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAATTTCT
* * * *
49737 CTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCTTAAAAC
131 CTTAAAACAAA-TTTCGTCTACCTTGAGACAATTTCTCTTAAAAC
* * * * *
49782 AAATTTTATCTCTCTTAAGACATTTTCTCTTAAAACAAATTTTTTCTCTCTTGAGACAGTTTCCC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * * *
49847 TTGAAAAAAAAACTTTGAATTTATTATCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
66 TTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAATTTCT
*
49912 CTTAAAACAAATTTCGTCTCCCTTGAGACAATTTCTCTTAAAAC
131 CTTAAAACAAATTTCGTCTACCTTGAGACAATTTCTCTTAAAAC
* *
49956 AAATTTTGTCTCTCTTGAGACAGTTTCCCGTGAAACAAAATTTT
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTT
50000 TGAATCTGTT
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
173 94 0.49
174 80 0.42
175 17 0.09
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (174 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
TTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAATTTCT
CTTAAAACAAATTTCGTCTACCTTGAGACAATTTCTCTTAAAAC
Found at i:49809 original size:36 final size:36
Alignment explanation
Indices: 49698--49853 Score: 181
Period size: 36 Copynumber: 4.3 Consensus size: 36
49688 TTGAATCTGT
* * * *
49698 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAA
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
* *
49733 TTTC-CTTGAAACAAAGTTTTGTCTATCTTGAGACAG
1 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAG
* * *
49769 TTTCTCTTAAAACAAATTTTATCTCTCTTAAGACAT
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
49805 TTTCTCTTAAAACAAATTTTTTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
49841 TTTCCCTTGAAAA
1 TTTCTCTT-AAAA
49854 AAAAACTTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.14
36 76 0.72
37 14 0.13
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:49826 original size:19 final size:19
Alignment explanation
Indices: 49769--49830 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 19
49759 CTTGAGACAG
49769 TTTCTCTTAAAACAAATTT
1 TTTCTCTTAAAACAAATTT
*
49788 TATCTCTCTTAAGAC--A--T
1 T-T-TCTCTTAAAACAAATTT
49805 TTTCTCTTAAAACAAATTT
1 TTTCTCTTAAAACAAATTT
49824 TTTCTCT
1 TTTCTCT
49831 CTTGAGACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
17 3 0.09
19 10 0.29
20 1 0.03
21 10 0.29
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.48
Consensus pattern (19 bp):
TTTCTCTTAAAACAAATTT
Found at i:49937 original size:36 final size:36
Alignment explanation
Indices: 49879--50076 Score: 175
Period size: 36 Copynumber: 5.7 Consensus size: 36
49869 ATTATCCTTG
49879 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTA
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTA
* * *
49916 AAACAAATTTCGTCTCCCTTGAGACAATTTCTCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* * *
49952 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* *
49988 AAACAAA----AT-T-T-TTGA-ATCTGTTT-TCCTTA
1 AAACAAATTTTGTCTCTCTTGAGA-CAGTTTCT-CTTA
** *
50017 AAACAAATTTCATGTC-C-CTTGAGACAGTTAATTTTA
1 AAACAAATTT--TGTCTCTCTTGAGACAGTTTCTCTTA
50053 AAACAAATTTTGTCTCTCTTGAGA
1 AAACAAATTTTGTCTCTCTTGAGA
50077 ATGTTTCCCT
Statistics
Matches: 128, Mismatches: 18, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
28 1 0.01
29 18 0.14
30 1 0.01
31 1 0.01
32 1 0.01
34 4 0.03
35 2 0.02
36 91 0.71
37 9 0.07
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
Found at i:50169 original size:36 final size:32
Alignment explanation
Indices: 50122--50216 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 32
50112 TCCTTGAAAT
* * **
50122 AAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAA
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTT---A
*
50157 CAAATTTTGTCTCTCTTGAGACATTTTCCCTTA
1 -AAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
*
50190 AAATTTTGTCTCTCTGGAGACAGTTTC
1 AAATTTTGTCTCTCTTGAGACAGTTTC
50217 ACTTGGAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 25 0.48
33 1 0.02
36 26 0.50
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (32 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
Found at i:50312 original size:412 final size:407
Alignment explanation
Indices: 49508--50333 Score: 952
Period size: 412 Copynumber: 2.0 Consensus size: 407
49498 CCTTGAAATG
* * * * * *
49508 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
1 AATTTCGTCTCCCTTGAGACAATTTCCCTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCC
* * * **
49573 TTGAAACATAAACATTGAAACCATTTCCATTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCC
66 GTGAAACATAAACATTGAAACCATTTCCATTAAAACAAATTTTGTCTCTCTTGAGACAGTTAACC
*
49638 TTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCC
131 TTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATCTGTTTTCC
*
49703 TTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCTTGAAACAAAGTTTTGTCTATCTTGAGACA
196 TTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCTTAAAACAAAGTTTTGTCTATCTTGAGACA
* * * * **
49768 GTTTCTCTTAAAACAAATTTTATCTCTCTTAAGACATTTTCTCTTAAAACAAATTTTTTCTCTCT
261 GTTTCCCTT--AACAAATTTTATCTCTCTGAAGACAGTTTCACTTAAAACAAA----TAATCTCT
*
49833 TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAATTTATTATCCTTGAAACAAAGTTTTGTCTCTC
320 TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTTGTCTCTC
49898 TTGAGACAGTTTCTCTTAAAACA
385 TTGAGACAGTTTCTCTTAAAACA
* *
49921 AATTTCGTCTCCCTTGAGACAATTTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCC
1 AATTTCGTCTCCCTTGAGACAATTTCCCTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCC
** * **
49985 GTGAAACA-AAATTTTTGAATCTGTTTTCC-TTAAAACAAATTTCATGTC-C-CTTGAGACAGTT
66 GTGAAACATAAA-CATTGAAAC-CATTTCCATTAAAACAAATTT--TGTCTCTCTTGAGACAGTT
** *
50046 AATTTTAAAACAAATTTTGTCTCTCTTGAGA-ATGTTTCCCTTGAAACGAAATCTTTAAATCTGT
127 AACCTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAAATCTTTAAATCTGT
* * * *
50110 TTTCCTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAA-TTTTGTCTCTCTT
191 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTC-CTTAAAACAAAGTTTTGTCTATCTT
* * * **
50174 GAGACATTTTCCCTT-A-AAATTTTGTCTCTCTGGAGACAGTTTCACTTGGAACAAA-AATCT-T
255 GAGACAGTTTCCCTTAACAAATTTTATCTCTCTGAAGACAGTTTCACTTAAAACAAATAATCTCT
* ** * * * *
50235 TGA-ATTAGTTTCCCTTGAAGCAAAATCTTTTAATCTATTTTCCTT-AAA-AAA---TCGTCTCT
320 TGAGA-CAGTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTTGTCTCT
* **
50294 CTCGAGACAGTTTCTCTT-GGA-A
384 CTTGAGACAGTTTCTCTTAAAACA
*
50316 AATTTTGTCTCCCTTGAG
1 AATTTCGTCTCCCTTGAG
50334 GTATTTTCTT
Statistics
Matches: 356, Mismatches: 50, Indels: 32
0.81 0.11 0.07
Matches are distributed among these distances:
395 18 0.05
396 1 0.00
397 24 0.07
400 3 0.01
401 4 0.01
402 37 0.10
403 3 0.01
408 32 0.09
409 1 0.00
411 4 0.01
412 181 0.51
413 44 0.12
414 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (407 bp):
AATTTCGTCTCCCTTGAGACAATTTCCCTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCC
GTGAAACATAAACATTGAAACCATTTCCATTAAAACAAATTTTGTCTCTCTTGAGACAGTTAACC
TTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATCTGTTTTCC
TTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCTTAAAACAAAGTTTTGTCTATCTTGAGACA
GTTTCCCTTAACAAATTTTATCTCTCTGAAGACAGTTTCACTTAAAACAAATAATCTCTTGAGAC
AGTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTTGTCTCTCTTGAGA
CAGTTTCTCTTAAAACA
Found at i:50393 original size:37 final size:37
Alignment explanation
Indices: 50352--50422 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
50342 TTTTGATACT
*
50352 AAGTTTTGTCTCTCTTGAGATAATTTCCCTTAAAATA
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAAATA
* * *
50389 AAGTTTTGTCTCTTTTGAGACAGTTTCTCTTAAA
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAA
50423 GCACCAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (37 bp):
AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAAATA
Found at i:52683 original size:16 final size:18
Alignment explanation
Indices: 52648--52684 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
52638 TTATACAATC
52648 AATATTTATCGTATTTAA
1 AATATTTATCGTATTTAA
*
52666 AATA-TTATCTTA-TTAA
1 AATATTTATCGTATTTAA
52682 AAT
1 AAT
52685 TTCGATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
AATATTTATCGTATTTAA
Found at i:56753 original size:37 final size:38
Alignment explanation
Indices: 56701--56777 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
56691 TAAAAAGAAG
* * *
56701 ATTTTATCTCGCTTGAGATAGTTTC-CTTTGAAACA-AA
1 ATTTTATCTCACTTGAGACAATTTCTC-TTGAAACATAA
*
56738 ATTTTGTCTCACTTGAGACAATTTCTCTTGAAACATAA
1 ATTTTATCTCACTTGAGACAATTTCTCTTGAAACATAA
56776 AT
1 AT
56778 ATTGAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 29 0.85
38 5 0.15
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (38 bp):
ATTTTATCTCACTTGAGACAATTTCTCTTGAAACATAA
Found at i:56835 original size:36 final size:36
Alignment explanation
Indices: 56788--56872 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
56778 ATTGAAAACA
* *
56788 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
* *
56824 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
56861 TTTCTCTTGAAA
1 TTTCCCTTGAAA
56873 CATAAACATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:56877 original size:102 final size:102
Alignment explanation
Indices: 56701--57151 Score: 516
Period size: 102 Copynumber: 4.4 Consensus size: 102
56691 TAAAAAGAAG
* * * * * *
56701 ATTTTATCTCGCTTGAGATAGTTTCCTTTGAAACAAAATTTTGTCTCACTTGAGACAATTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
*
56766 TGAAACATAAATATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
* *
56803 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * *
56868 TGAAACATAAACATTGAAACCATTTCCATTGAAATAA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
* *
56905 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * * * *
56969 TGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACAA
66 TGAAACATAAAT-ATTGAAAAC-ATTTCCCTTGAAATAA
* * * *
57006 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * * * *
57070 TGAAACA-AATTTTATATCTCTTAAGACATTTTCTCTTAAAACAA
66 TGAAACATAA----ATA--T-TGAAAACA-TTTCCCTTGAAATAA
*
57114 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
57152 ACTTTGAATC
Statistics
Matches: 297, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
100 14 0.05
101 108 0.36
102 125 0.42
105 2 0.01
106 1 0.00
107 1 0.00
108 35 0.12
109 11 0.04
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACATAAATATTGAAAACATTTCCCTTGAAATAA
Found at i:56943 original size:36 final size:36
Alignment explanation
Indices: 56903--56977 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
56893 CCATTGAAAT
56903 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
*
56939 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
56975 AAA
1 AAA
56978 ATCTTTGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (36 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC
Found at i:57008 original size:101 final size:101
Alignment explanation
Indices: 56701--57479 Score: 599
Period size: 101 Copynumber: 7.6 Consensus size: 101
56691 TAAAAAGAAG
* * * * * * * *
56701 ATTTTATCTCGCTTGAGATAGTTTCCTTTGAAACAAAATTTTGTCTCACTTGAGACAATTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * * **
56766 TGAAACATAAAT-ATTGAAAAC-ATTTCCCTTGAAATGA
65 TGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACAA
* * * * *
56803 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * ** *
56868 TGAAACATAAA-CATTGAAAC-CATTTCCATTGAAATAA
65 TGAAACA-AAATCTTTGAATCTGTTTTCC-TTGAAACAA
*
56905 ATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
56970 GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
66 GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
* * * *
57006 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCT
*
57070 TGAAAC-AAAT-TTT-ATATCTCTTAAGACATTTTCTCTTAAAACAA
65 TGAAACAAAATCTTTGA-A--TC-T--G---TTTTC-CTTGAAACAA
* * * ** *
57114 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAACTTTGAATCTATT-----A---T-CC
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTT--AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * *
57170 TTGAAACAAAGTTTTGTCTCTCTTGAGA-CAGTTTCT-CTTAAAACAA
64 TTGAAACAAA-------ATCT-TTGA-ATCTGTTT-TCCTTGAAACAA
* * * *
57216 ATTTCGTCTCCCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* * *
57281 GAAACAAAATTTTTGAATCTGTTTTCTTTAAAACAA
66 GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
** * ****
57317 ATTTCATGTCCCTTGAGACAGTTAATTTTAAAACAAATTTTGTCTCTCTTGAGA-ATGTTTCCCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCT
* * * *
57381 TGAAACGAAATCTTTAAATCTGTTTTCATTGAAATAA
65 TGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
* ** *
57418 ATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCC
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
57480 TTTAAAATTT
Statistics
Matches: 565, Mismatches: 69, Indels: 87
0.78 0.10 0.12
Matches are distributed among these distances:
98 1 0.00
99 4 0.01
100 37 0.07
101 280 0.50
102 162 0.29
103 3 0.01
104 2 0.00
105 2 0.00
106 1 0.00
107 5 0.01
108 31 0.05
109 17 0.03
110 10 0.02
111 8 0.01
112 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (101 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
Found at i:57061 original size:36 final size:35
Alignment explanation
Indices: 56890--56977 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 35
56880 ATTGAAACCA
*
56890 TTTCCATTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCC-TTGAAACAAATTTTGTCTCTCTTGAGACAG
*
56926 TTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAG
56962 TTTCCCTTGAAACAAA
1 TTT-CCTTGAAACAAA
56978 ATCTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 46 0.96
37 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (35 bp):
TTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:57080 original size:137 final size:132
Alignment explanation
Indices: 56889--57628 Score: 486
Period size: 137 Copynumber: 5.5 Consensus size: 132
56879 CATTGAAACC
* *
56889 ATTTCCATTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCT
1 ATTTCC-TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
* *
56954 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAATTTCGTCTCCCT
65 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAACAAA-TTCGTCT---T
57019 TGAGA-CA
126 TGA-ATCA
* * *
57026 ATTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATATCTCT
1 ATTTCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
* * * * * **
57091 TAAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCCCTTGAAA-AAA--AA
65 TGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCAGTTTCCCTTGAAACAAATTCG
* *
57152 ACTTTGAATCT
122 TCTTTGAATCA
* *
57163 ATTATCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTCGTCTCCC
1 ATT-TCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTC
* * * * * *
57228 TTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCCCGTGAAACAAAAT-
64 TTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCAGTTTCCCTTGAAACAAATTC
*
57291 -T-TTTGAATCTG
121 GTCTTTGAATC-A
* * * ** *
57302 TTTTCTTTAAAACAAATTTCATGTC-C-CTTGAGACAGTTAATTTTAAAACAAATTTTGTCTCTC
1 ATTTCCTTGAAACAAATTT--TGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTC
* * * * * *
57365 TTGAGA-ATGTTTCCCTTGAAACGAAATCTTTAAATCTGTTTTCATTGAAATAAATTTCGTCTCC
64 TTGAGACA-GTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAACAAA-TTCGTCT--
57429 CTTGAGA-CA
125 -TTGA-ATCA
* * * * *
57438 GTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTC-CTT--TA-AAATTTTGTCTCTCT
1 ATTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCT
* * * * *
57499 GGAGACAGTTTCACTTGGAACAAAAATCTTTGAATCAGTTTCCCTTGAAGCAAAATC-T-TTT-A
65 TGAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATCAGTTTCCCTTGAAACAAATTCGTCTTTGA
57561 ATCTA
129 ATC-A
* * * * ** *
57566 TTTTCCTT-AAA-AAA-ATCGTCTCTCTCGAGACAGTTTCTCTT-GGA-AAATTTTGTCTCCCTT
1 ATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTT
57626 GAG
66 GAG
57629 GTATTTTCTT
Statistics
Matches: 494, Mismatches: 73, Indels: 83
0.76 0.11 0.13
Matches are distributed among these distances:
124 19 0.04
125 6 0.01
126 22 0.04
127 4 0.01
128 7 0.01
129 1 0.00
130 17 0.03
131 5 0.01
132 1 0.00
133 34 0.07
134 28 0.06
135 4 0.01
136 18 0.04
137 162 0.33
138 131 0.27
139 9 0.02
140 2 0.00
143 6 0.01
144 17 0.03
145 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (132 bp):
ATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAACAAATTCGTCTTTGAAT
CA
Found at i:57090 original size:36 final size:36
Alignment explanation
Indices: 56992--57146 Score: 206
Period size: 36 Copynumber: 4.3 Consensus size: 36
56982 TTGAATCTGT
* * *
56992 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
57027 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
* * * *
57063 TTTCTCTTGAAACAAATTTTATATCTCTTAAGACAT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
57099 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
57135 TTTCCCTTGAAA
1 TTTCTCTTGAAA
57147 AAAAAACTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 15 0.14
36 78 0.75
37 11 0.11
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:57111 original size:173 final size:174
Alignment explanation
Indices: 56896--57293 Score: 584
Period size: 173 Copynumber: 2.3 Consensus size: 174
56886 ACCATTTCCA
*
56896 TTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
* * * *
56961 GTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAA-TTTCGTCTCCCTTGAGAC
66 GTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGAC
* * * *
57025 AATTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
131 AATTTCTCTTAAAACAAA-TTTCGTCTCCCTTGAGACAATTTCTC
* * * * *
57069 TTGAAACAAATTTTATATCTCTTAAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
* *
57134 GTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTTGTCTCTCTTGAGAC
66 GTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGAC
*
57199 AGTTTCTCTTAAAACAAATTTCGTCTCCCTTGAGACAATTTCTC
131 AATTTCTCTTAAAACAAATTTCGTCTCCCTTGAGACAATTTCTC
* * *
57243 TTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGTGAAACAAAATTTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTT
57294 TGAATCTGTT
Statistics
Matches: 197, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
173 101 0.51
174 79 0.40
175 17 0.09
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (174 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
GTTTCCCTTGAAAAAAAAACTTTGAATCTATTATCCTTGAAACAAAGTTTCGTCTCCCTTGAGAC
AATTTCTCTTAAAACAAATTTCGTCTCCCTTGAGACAATTTCTC
Found at i:57231 original size:36 final size:36
Alignment explanation
Indices: 57173--57370 Score: 175
Period size: 36 Copynumber: 5.7 Consensus size: 36
57163 ATTATCCTTG
57173 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTA
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTA
* * *
57210 AAACAAATTTCGTCTCCCTTGAGACAATTTCTCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* * *
57246 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
* *
57282 AAACAAA----AT-T-T-TTGA-ATCTGTTT-TCTTTA
1 AAACAAATTTTGTCTCTCTTGAGA-CAGTTTCTC-TTA
** *
57311 AAACAAATTTCATGTC-C-CTTGAGACAGTTAATTTTA
1 AAACAAATTT--TGTCTCTCTTGAGACAGTTTCTCTTA
57347 AAACAAATTTTGTCTCTCTTGAGA
1 AAACAAATTTTGTCTCTCTTGAGA
57371 ATGTTTCCCT
Statistics
Matches: 128, Mismatches: 18, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
28 2 0.02
29 17 0.13
30 1 0.01
31 1 0.01
32 1 0.01
34 4 0.03
35 2 0.02
36 91 0.71
37 9 0.07
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTA
Found at i:57493 original size:32 final size:34
Alignment explanation
Indices: 57416--57510 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 34
57406 TCATTGAAAT
* * *
57416 AAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCCTTT--AAC
*
57452 AAATTTTGTCTCTCTTGAGACATTTTCCTTT-A-
1 AAATTTTGTCTCTCTTGAGACAGTTTCCTTTAAC
*
57484 AAATTTTGTCTCTCTGGAGACAGTTTC
1 AAATTTTGTCTCTCTTGAGACAGTTTC
57511 ACTTGGAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.47
33 1 0.02
36 27 0.51
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (34 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCCTTTAAC
Found at i:57563 original size:29 final size:30
Alignment explanation
Indices: 57504--57563 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
57494 TCTCTGGAGA
57504 CAGTTTCACTTGGAACAAAAATCTTTGAAT
1 CAGTTTCACTTGGAACAAAAATCTTTGAAT
* *
57534 CAGTTTCCCTT-GAAGC-AAAATCTTTTAAT
1 CAGTTTCACTTGGAA-CAAAAATCTTTGAAT
57563 C
1 C
57564 TATTTTCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (30 bp):
CAGTTTCACTTGGAACAAAAATCTTTGAAT
Found at i:57688 original size:37 final size:37
Alignment explanation
Indices: 57647--57717 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
57637 TTTTGATACT
*
57647 AAGTTTTGTCTCTCTTGAGATAATTTCCCTTAAAATA
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAAATA
* * *
57684 AAGTTTTGTCTCTTTTGAGACAGTTTCTCTTAAA
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAA
57718 GCACCAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (37 bp):
AAGTTTTGTCTCTCTTGAGACAATTTCCCTTAAAATA
Found at i:59976 original size:16 final size:18
Alignment explanation
Indices: 59941--59977 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
59931 TTATACAATC
59941 AATATTTATCGTATTTAA
1 AATATTTATCGTATTTAA
*
59959 AATA-TTATCTTA-TTAA
1 AATATTTATCGTATTTAA
59975 AAT
1 AAT
59978 TTCAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
AATATTTATCGTATTTAA
Found at i:64557 original size:30 final size:30
Alignment explanation
Indices: 64521--64653 Score: 178
Period size: 30 Copynumber: 4.2 Consensus size: 30
64511 TAATAAGGTT
64521 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
64551 ATTTATTATAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
64581 ATTTATTTTAAAATAATTTATTATAAAATATGGA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A
*
64615 TTGATTTATTTTAAAATAATTTATT-TTAAATA
1 ---ATTTATTTTAAAATAATTTATTATAAAATA
64647 ATTTATT
1 ATTTATT
64654 AGTATGAATT
Statistics
Matches: 93, Mismatches: 3, Indels: 15
0.84 0.03 0.14
Matches are distributed among these distances:
29 7 0.08
30 52 0.56
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 22 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:64578 original size:45 final size:48
Alignment explanation
Indices: 64520--64679 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 48
64510 TTAATAAGGT
64520 TATTTATTTTAAAATAATTTATTATAAAATAATTTATTAT-AAA-AT-A
1 TATTTATTTTAAAATAATTTATT-TAAAATAATTTATTATAAAATATGA
*
64566 -ATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGA
1 TATTTATTTTAAAATAATTTA-TTTAAAATAATTTATTATAAAATAT-GA
* *
64615 TTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT-TG-
1 -T-ATTTATTTTAAAATAATTTATTTAAAATAATTTATTA-TA-AAATATGA
64665 -ATTTATTTTAAAATA
1 TATTTATTTTAAAATA
64680 TGGATTGATT
Statistics
Matches: 100, Mismatches: 4, Indels: 19
0.81 0.03 0.15
Matches are distributed among these distances:
45 35 0.35
46 5 0.05
47 17 0.17
49 1 0.01
51 17 0.17
52 22 0.22
53 3 0.03
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (48 bp):
TATTTATTTTAAAATAATTTATTTAAAATAATTTATTATAAAATATGA
Found at i:64621 original size:22 final size:22
Alignment explanation
Indices: 64596--64695 Score: 67
Period size: 22 Copynumber: 4.4 Consensus size: 22
64586 TTTTAAAATA
64596 ATTTATTATAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
* ** *
64618 ATTTATTTTAAAATAATTTATTTTA
1 ATTTATTATAAAAT-ATGGA--TTG
* * * * *
64643 AATAATT-TATTAGTATGAATTG
1 ATTTATTATA-AAATATGGATTG
*
64665 ATTTATTTTAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
64687 ATTTATTAT
1 ATTTATTAT
64696 TGTAGTTGTA
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
22 37 0.66
23 5 0.09
24 5 0.09
25 9 0.16
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
ATTTATTATAAAATATGGATTG
Found at i:64647 original size:14 final size:15
Alignment explanation
Indices: 64521--64653 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
64511 TAATAAGGTT
64521 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
64536 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
64551 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
64566 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
64581 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
64596 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
64615 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
64633 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
64647 ATTTATT
1 ATTTATT
64654 AGTATGAATT
Statistics
Matches: 107, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
14 12 0.11
15 74 0.69
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 7 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:64727 original size:80 final size:80
Alignment explanation
Indices: 64633--64939 Score: 481
Period size: 80 Copynumber: 3.8 Consensus size: 80
64623 TTTTAAAATA
64633 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
64698 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
64713 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTA--TT--
*
64778 ATAATTTA-TTAGTATGGATTG
62 AT--TGTAGTT-GTATGGATTG
* * ** *
64799 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATTAATTAATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
64864 TAGTTGTATGGATTG
66 TAGTTGTATGGATTG
*
64879 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
64940 TTAAATAATT
Statistics
Matches: 208, Mismatches: 11, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
80 129 0.62
81 2 0.01
82 4 0.02
84 4 0.02
85 2 0.01
86 67 0.32
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTG
Found at i:64745 original size:32 final size:32
Alignment explanation
Indices: 64703--64842 Score: 192
Period size: 32 Copynumber: 4.7 Consensus size: 32
64693 TATTGTAGTT
64703 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
64735 GTATGAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
64758 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
64789 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
64821 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
64843 ATATTAATTA
Statistics
Matches: 95, Mismatches: 3, Indels: 20
0.81 0.03 0.17
Matches are distributed among these distances:
22 13 0.14
23 4 0.04
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.04
32 66 0.69
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:64761 original size:22 final size:22
Alignment explanation
Indices: 64736--64778 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
64726 AATTTATTAG
64736 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
64758 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
64779 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:64769 original size:54 final size:55
Alignment explanation
Indices: 64704--64954 Score: 277
Period size: 54 Copynumber: 4.6 Consensus size: 55
64694 ATTGTAGTTG
64704 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAGAAA
* *
64758 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT--AGAA---A
* * * ***
64818 TTTGTATGGATTGATTTATTTT-AA-AA--TATTA--ATTAATTTA-TTATTGTAGTTG
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAGAAA
*
64870 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAGAAA
64924 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
64955 TTGTAGTTGT
Statistics
Matches: 164, Mismatches: 16, Indels: 34
0.77 0.07 0.16
Matches are distributed among these distances:
48 18 0.11
49 2 0.01
50 2 0.01
52 5 0.03
54 86 0.52
55 8 0.05
56 1 0.01
57 8 0.05
58 6 0.04
60 6 0.04
62 2 0.01
63 2 0.01
64 18 0.11
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (55 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAGAAA
Found at i:64806 original size:166 final size:166
Alignment explanation
Indices: 64633--64954 Score: 590
Period size: 166 Copynumber: 1.9 Consensus size: 166
64623 TTTTAAAATA
* *
64633 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTAATTTATTATTG
64698 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGG
64763 ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
131 ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
64799 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATTAATTAATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTAATTTATTATTG
*
64864 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGG
64929 ATTGATTTATTTTAAATAATTTATTA
131 ATTGATTTATTTTAAATAATTTATTA
64955 TTGTAGTTGT
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 150 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (166 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTAATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGG
ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:64927 original size:22 final size:22
Alignment explanation
Indices: 64902--64944 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
64892 AATTTATTAG
64902 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
64924 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
64945 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:65026 original size:31 final size:31
Alignment explanation
Indices: 64969--65027 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
64959 AGTTGTATGG
* **
64969 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTACAAAACTAAA
65000 ATTATTTAAATCTCAGTATTACAAAACT
1 ATTATTTAAATCTCAGTATTACAAAACT
65028 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTACAAAACTAAA
Found at i:67588 original size:22 final size:23
Alignment explanation
Indices: 67563--67606 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
67553 AATTAAGTTT
67563 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
67585 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
67607 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:75233 original size:12 final size:12
Alignment explanation
Indices: 75212--75241 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
75202 AGATGAGCCT
75212 GAGCAACCCGAG
1 GAGCAACCCGAG
*
75224 GAGCAGCCCGAG
1 GAGCAACCCGAG
75236 GAGCAA
1 GAGCAA
75242 GCACATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.37, T:0.00
Consensus pattern (12 bp):
GAGCAACCCGAG
Found at i:79882 original size:165 final size:166
Alignment explanation
Indices: 79610--79942 Score: 659
Period size: 165 Copynumber: 2.0 Consensus size: 166
79600 TTATGACAAT
79610 ACTGATATCAAAACATTTATATTTAATTTCTCTTTCTTTTTTCTATAATTATTTTTCATGAAATC
1 ACTGATATCAAAACATTTATATTTAATTTCTCTTTCTTTTTTCTATAATTATTTTTCATGAAATC
79675 CACCTAAAATTGATAGAAATTAAATAAAAAAACTTCACCATTTATCGATTTGGAGGC-TTTTTAG
66 CACCTAAAATTGATAGAAATTAAATAAAAAAACTTCACCATTTATCGATTTGGAGGCTTTTTTAG
79739 ATTCGAGAGATTTGAGGCTTTTGTTCAAAAATTTGA
131 ATTCGAGAGATTTGAGGCTTTTGTTCAAAAATTTGA
79775 ACTGATATCAAAACATTTATATTTAATTTCTCTTTCTTTTTTCTATAATTATTTTTCATGAAATC
1 ACTGATATCAAAACATTTATATTTAATTTCTCTTTCTTTTTTCTATAATTATTTTTCATGAAATC
79840 CACCTAAAATTGATAGAAATTAAATAAAAAAACTTCACCATTTATCGATTTGGAGGCTTTTTTAG
66 CACCTAAAATTGATAGAAATTAAATAAAAAAACTTCACCATTTATCGATTTGGAGGCTTTTTTAG
79905 ATTCGAGAGATTTGAGGCTTTTGTTCAAAAATTTGA
131 ATTCGAGAGATTTGAGGCTTTTGTTCAAAAATTTGA
79941 AC
1 AC
79943 AATAATAGTT
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 122 0.73
166 45 0.27
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (166 bp):
ACTGATATCAAAACATTTATATTTAATTTCTCTTTCTTTTTTCTATAATTATTTTTCATGAAATC
CACCTAAAATTGATAGAAATTAAATAAAAAAACTTCACCATTTATCGATTTGGAGGCTTTTTTAG
ATTCGAGAGATTTGAGGCTTTTGTTCAAAAATTTGA
Found at i:86494 original size:17 final size:18
Alignment explanation
Indices: 86455--86497 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
86445 GGTTTTAGCA
*
86455 ATTTTTATTTCCTTTTAG
1 ATTTTTATTTCCTTATAG
*
86473 ATTTTTATTTCGTTATAG
1 ATTTTTATTTCCTTATAG
*
86491 TTTTTTA
1 ATTTTTA
86498 AATAGATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTCCTTATAG
Found at i:89267 original size:48 final size:47
Alignment explanation
Indices: 89166--89296 Score: 122
Period size: 48 Copynumber: 2.7 Consensus size: 47
89156 AATTATAATT
* * ** * *
89166 GAACCGAAATAAACCCAAATCGAAAGTAACCAGAACCGAAGTCAATCC
1 GAACCGAAA-AAACCCAAACCGAAAGTAACCCGAACAAAAATCAACCC
89214 GAACCGAAAACAACCCAAACCGAAAGTAACCCGAACAAAAAAT-AACCC
1 GAACCGAAAA-AACCCAAACCGAAAGTAACCCGAAC-AAAAATCAACCC
* * *
89262 TAACCGAAAATAACCCGAACTGAAA-TCAACCCGAA
1 GAACCGAAAA-AACCCAAACCGAAAGT-AACCCGAA
89297 TTTATTTTAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 65 0.93
49 3 0.04
ACGTcount: A:0.50, C:0.29, G:0.12, T:0.08
Consensus pattern (47 bp):
GAACCGAAAAAACCCAAACCGAAAGTAACCCGAACAAAAATCAACCC
Found at i:89286 original size:16 final size:16
Alignment explanation
Indices: 89166--89296 Score: 97
Period size: 16 Copynumber: 8.2 Consensus size: 16
89156 AATTATAATT
89166 GAACCG-AAATAAACCC
1 GAACCGAAAAT-AACCC
* * * *
89182 AAATCGAAAGTAACCA
1 GAACCGAAAATAACCC
* *
89198 GAACCG-AAGTCAATCC
1 GAACCGAAAAT-AACCC
*
89214 GAACCGAAAACAACCC
1 GAACCGAAAATAACCC
* *
89230 AAACCGAAAGTAACCC
1 GAACCGAAAATAACCC
**
89246 GAACAAAAAATAACCC
1 GAACCGAAAATAACCC
*
89262 TAACCGAAAATAACCC
1 GAACCGAAAATAACCC
*
89278 GAACTG-AAATCAACCC
1 GAACCGAAAAT-AACCC
89294 GAA
1 GAA
89297 TTTATTTTAC
Statistics
Matches: 88, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
15 8 0.09
16 75 0.85
17 5 0.06
ACGTcount: A:0.50, C:0.29, G:0.12, T:0.08
Consensus pattern (16 bp):
GAACCGAAAATAACCC
Found at i:89861 original size:12 final size:12
Alignment explanation
Indices: 89840--89885 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
89830 GTTAGAATGC
*
89840 ATATATAAAATA
1 ATATAAAAAATA
89852 ATATAAAAAATTA
1 ATATAAAAAA-TA
*
89865 A-AT-TAAAATA
1 ATATAAAAAATA
89875 ATATAAAAAAT
1 ATATAAAAAAT
89886 TCTAGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
10 3 0.11
11 6 0.21
12 16 0.57
13 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:90389 original size:31 final size:31
Alignment explanation
Indices: 90354--90456 Score: 161
Period size: 31 Copynumber: 3.3 Consensus size: 31
90344 TGACCCATAC
90354 CGAAACCAACCAACCCGATACTAACCCGACT
1 CGAAACCAACCAACCCGATACTAACCCGACT
*
90385 CGAAACCAACCAACCCGATACTAACTCGACT
1 CGAAACCAACCAACCCGATACTAACCCGACT
* * *
90416 CGAAACCAACCGATCCGATATTAACCCGACT
1 CGAAACCAACCAACCCGATACTAACCCGACT
90447 CGAAAACCAA
1 CG-AAACCAA
90457 TTGATGCGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 59 0.89
32 7 0.11
ACGTcount: A:0.40, C:0.38, G:0.11, T:0.12
Consensus pattern (31 bp):
CGAAACCAACCAACCCGATACTAACCCGACT
Found at i:90483 original size:32 final size:31
Alignment explanation
Indices: 90418--90513 Score: 111
Period size: 32 Copynumber: 3.0 Consensus size: 31
90408 ACTCGACTCG
* * * *
90418 AAACCAACCGATCCGATATTAACCCGACTCGA
1 AAACCAACTGATCCGATTTTGA-CCGACCCGA
* *
90450 AAACCAATTGATGCGATTTTGACTCGACCCGA
1 AAACCAACTGATCCGATTTTGAC-CGACCCGA
90482 AAACCAACTGATCCGATTTTGACCTGACCCGA
1 AAACCAACTGATCCGATTTTGACC-GACCCGA
90514 TACCCGACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 2 0.04
32 52 0.96
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (31 bp):
AAACCAACTGATCCGATTTTGACCGACCCGA
Found at i:91457 original size:2 final size:2
Alignment explanation
Indices: 91446--91476 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
91436 TAATGTTTCC
91446 AT AT -T 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
91477 CATTTTAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:98541 original size:14 final size:14
Alignment explanation
Indices: 98522--98560 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
98512 GGAGGAGAAA
98522 AAGAATAAGAAGAG
1 AAGAATAAGAAGAG
*
98536 AAGAATAAGACGAG
1 AAGAATAAGAAGAG
*
98550 AAGAAGAAGAA
1 AAGAATAAGAA
98561 TGAATGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (14 bp):
AAGAATAAGAAGAG
Found at i:98554 original size:17 final size:16
Alignment explanation
Indices: 98516--98557 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
98506 AGGGGAGGAG
*
98516 GAGAAAAAGAATAAGA
1 GAGAAGAAGAATAAGA
98532 -AG-AGAAGAATAAGA
1 GAGAAGAAGAATAAGA
98546 CGAGAAGAAGAA
1 -GAGAAGAAGAA
98558 GAATGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 2 0.09
17 7 0.32
ACGTcount: A:0.64, C:0.02, G:0.29, T:0.05
Consensus pattern (16 bp):
GAGAAGAAGAATAAGA
Found at i:102064 original size:18 final size:18
Alignment explanation
Indices: 102041--102105 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
102031 ATGATAAACA
102041 ATATCATACATAATAGTC
1 ATATCATACATAATAGTC
* **
102059 ATATCAAAGCCATAATAAAC
1 ATATCATA--CATAATAGTC
102079 AATATCATACATAATAGTC
1 -ATATCATACATAATAGTC
102098 ATATCATA
1 ATATCATA
102106 TTCTTTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.39
19 8 0.21
20 8 0.21
21 7 0.18
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATCATACATAATAGTC
Found at i:102064 original size:39 final size:39
Alignment explanation
Indices: 102021--102103 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
102011 CTCATGATTT
*
102021 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATAATAAACAATATCATACATAATAGTCA
*
102060 TATCAAAGCCATAATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATAATAAACAATATCATACATAATAGTCA
102099 TATCA
1 TATCA
102104 TATTCTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (39 bp):
TATCAAAACCATAATAAACAATATCATACATAATAGTCA
Found at i:102183 original size:25 final size:25
Alignment explanation
Indices: 102133--102212 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
102123 ACAATAAAAA
* *
102133 ACTTTCAAATCTCATTTTCATC-TTTC
1 ACTTTCATAT-TCACTTTCA-CATTTC
102159 ACTTTCATATTCACTTTCACATTTC
1 ACTTTCATATTCACTTTCACATTTC
* *
102184 ATTTTCATAATCCGTACTTTCACATTTC
1 ACTTTCAT-ATTC--ACTTTCACATTTC
102212 A
1 A
102213 GAACTCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.02
25 19 0.41
26 12 0.26
28 14 0.30
ACGTcount: A:0.25, C:0.26, G:0.01, T:0.47
Consensus pattern (25 bp):
ACTTTCATATTCACTTTCACATTTC
Found at i:102233 original size:19 final size:18
Alignment explanation
Indices: 102209--102287 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 18
102199 ACTTTCACAT
102209 TTCAGAACTCATTTTCAGA
1 TTCAGAACT-ATTTTCAGA
102228 TTCAGAACT-TGTTTCAGGA
1 TTCAGAACTAT-TTTCA-GA
* *
102247 CTCAAAACT-TATTTCAGA
1 TTCAGAACTAT-TTTCAGA
*
102265 TTCATAACTTAATTTT-AGA
1 TTCAGAAC-T-ATTTTCAGA
102284 TTCA
1 TTCA
102288 TAGTTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.02
18 13 0.26
19 32 0.64
20 3 0.06
21 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (18 bp):
TTCAGAACTATTTTCAGA
Found at i:102288 original size:19 final size:18
Alignment explanation
Indices: 102221--102289 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
102211 CAGAACTCAT
* *
102221 TTTCAGATTCAGAACTTG
1 TTTCAGATTCATAACTTA
* *
102239 TTTCAGGACTCAAAACTTA
1 TTTCA-GATTCATAACTTA
102258 TTTCAGATTCATAACTTAA
1 TTTCAGATTCATAACTT-A
*
102277 TTTTAGATTCATA
1 TTTCAGATTCATA
102290 GTTTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (18 bp):
TTTCAGATTCATAACTTA
Found at i:105236 original size:38 final size:39
Alignment explanation
Indices: 105185--105262 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
105175 TACATTTTGG
105185 TCACTAACCAAAATTTTGGGG-TGTTACAAACATCATGT
1 TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
*
105223 TCACTAACTAAAATTTTGGGGTTGTTACAAACATCATGT
1 TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
105262 T
1 T
105263 AACAACTTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 20 0.53
39 18 0.47
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (39 bp):
TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
Done.