Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008459.1 Hibiscus syriacus cultivar Beakdansim tig00111272_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: 632685
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:367 original size:19 final size:19
Alignment explanation
Indices: 339--403 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
329 AACCCTCCTT
*
339 TTTCTCTTTTATTTTTTCA
1 TTTCTTTTTTATTTTTTCA
358 TTTCTTTTTTCA-TTTTTCA
1 TTTCTTTTTT-ATTTTTTCA
* *
377 TTTTTTTTTTTTCTTTTTCA
1 TTTCTTTTTTAT-TTTTTCA
397 TTT-TTTT
1 TTTCTTTT
404 CATTTTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTTATTTTTTCA
Found at i:419 original size:19 final size:18
Alignment explanation
Indices: 351--419 Score: 72
Period size: 15 Copynumber: 3.8 Consensus size: 18
341 TCTCTTTTAT
351 TTTTTCATTTCTTTTTTCA
1 TTTTTCATTT-TTTTTTCA
370 TTTTTCATTTTTTTTTTTTC-
1 TTTTTCA---TTTTTTTTTCA
390 TTTTTCA--TTTTTTTCA
1 TTTTTCATTTTTTTTTCA
*
406 TTTTTCATCTTTTT
1 TTTTTCATTTTTTT
420 ATTTGTTCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.18
16 7 0.16
18 5 0.11
19 7 0.16
20 7 0.16
21 7 0.16
22 3 0.07
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCATTTTTTTTTCA
Found at i:11697 original size:2 final size:2
Alignment explanation
Indices: 11690--11729 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
11680 ATCATTTGTA
*
11690 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT CAT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
11730 CAAAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12768 original size:18 final size:19
Alignment explanation
Indices: 12747--12785 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
12737 AAGGAATTAA
12747 ATAAAATAAA-ATTAAAAT
1 ATAAAATAAAGATTAAAAT
12765 ATAAAATAAAGGATTAAAAT
1 ATAAAATAAA-GATTAAAAT
12785 A
1 A
12786 AAAGATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAATAAAGATTAAAAT
Found at i:12786 original size:18 final size:18
Alignment explanation
Indices: 12735--12788 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
12725 TTACTGAAAT
12735 TAAAGGAATT-AAATAAAA
1 TAAAGG-ATTAAAATAAAA
12753 TAAA--ATTAAAATATAAAA
1 TAAAGGATT-AAA-ATAAAA
12771 TAAAGGATTAAAATAAAA
1 TAAAGGATTAAAATAAAA
12789 GATATCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.10
17 2 0.06
18 20 0.65
19 3 0.10
20 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
TAAAGGATTAAAATAAAA
Found at i:14794 original size:20 final size:20
Alignment explanation
Indices: 14747--14963 Score: 132
Period size: 20 Copynumber: 10.2 Consensus size: 20
14737 AATGACCAAC
* *
14747 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
14766 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
14786 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* * **
14806 AAGATCGCAACACGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
14827 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
14848 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
*
14868 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--TAG
*
14890 AATCGCGAGAATCGCAACGCGATTAAG
1 -A-----A-AATCGCAACGCGATTTAG
**
14917 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
14938 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
14959 AAAAT
1 AAAAT
14964 GAGTAAATTC
Statistics
Matches: 154, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
19 18 0.12
20 73 0.47
21 14 0.09
22 28 0.18
23 1 0.01
26 1 0.01
27 3 0.02
28 1 0.01
29 15 0.10
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:14875 original size:62 final size:62
Alignment explanation
Indices: 14747--14932 Score: 182
Period size: 62 Copynumber: 2.9 Consensus size: 62
14737 AATGACCAAC
* * * *
14747 AAAATCGCAACGCGAT-AT-CAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATCATCCAAGAATCGCAACGCGATTAAGAAAATCGCAACG-CGATAAAG
* * * **
14806 AAGATCGCAACACGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATCATCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATAAAG
*
14868 AAAATCGCAACGCGATTCCAAGAATCGCGAGAATCGCAACGCGATTAAGAAAATCGCAACGCGAT
1 AAAATCGCAACGCGA-T-C----ATC-CAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGAT
14933 CTTCCAAGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
59 14 0.14
60 1 0.01
61 5 0.05
62 42 0.41
63 1 0.01
64 1 0.01
68 2 0.02
69 37 0.36
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (62 bp):
AAAATCGCAACGCGATCATCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATAAAG
Found at i:14922 original size:49 final size:50
Alignment explanation
Indices: 14850--14946 Score: 169
Period size: 49 Copynumber: 1.9 Consensus size: 50
14840 CGATTAAGAA
*
14850 AATCGCAACGCGATTCAGAAAATCGCAACGCGA-TTCCAAGAATCGCGAG
1 AATCGCAACGCGATTAAGAAAATCGCAACGCGACTTCCAAGAATCGCGAG
14899 AATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAGAATCGC
1 AATCGCAACGCGATTAAGAAAATCGCAACGCGA-CTTCCAAGAATCGC
14947 AACGCGATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 32 0.71
51 13 0.29
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (50 bp):
AATCGCAACGCGATTAAGAAAATCGCAACGCGACTTCCAAGAATCGCGAG
Found at i:14960 original size:69 final size:68
Alignment explanation
Indices: 14828--14960 Score: 207
Period size: 69 Copynumber: 1.9 Consensus size: 68
14818 CGATCTTCCA
14828 AGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCCAAGAAT
1 AGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATT-CAAGAAT
14893 CGCG
65 CGCG
*
14897 AGAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATT-AAGA
1 AGAATCGCAACGCGATTAAGAAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCAAGA
14960 A
63 A
14961 AATGAGTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
69 40 0.67
71 18 0.30
72 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (68 bp):
AGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAAGAATC
GCG
Found at i:15080 original size:6 final size:6
Alignment explanation
Indices: 15071--15121 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
15061 CATTACCATT
15071 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
15119 ACC
1 ACC
15122 CGAGACGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:15627 original size:6 final size:6
Alignment explanation
Indices: 15611--15744 Score: 261
Period size: 6 Copynumber: 22.5 Consensus size: 6
15601 TCTCGTCTCG
15611 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
15658 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
15706 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
15745 AATACGTGTC
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.04
6 123 0.96
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:15896 original size:20 final size:20
Alignment explanation
Indices: 15848--16129 Score: 301
Period size: 20 Copynumber: 13.7 Consensus size: 20
15838 TCATTTTCTT
15848 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
15868 AAGATCGCGTTGCGATTCTTGG
1 -A-ATCGCGTTGCGATTCTTGG
*
15890 AATCGCGTTGCGATT-TTCTG
1 AATCGCGTTGCGATTCTT-GG
15910 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
15930 AATCGCGTTGCGATTTTCTT--
1 AATCGCGTTGCGA--TTCTTGG
15950 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
15970 AAGATCGCGTTGCGATT-TTCTG
1 -A-ATCGCGTTGCGATTCTT-GG
*
15992 AATCGCGTTGCGATT-TTCTG
1 AATCGCGTTGCGATTCTT-GG
*
16012 AATCGCGTTGCGATT-TTCTG
1 AATCGCGTTGCGATTCTT-GG
*
16032 AATCGCGTTGCGATT-TTCTG
1 AATCGCGTTGCGATTCTT-GG
16052 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
16072 AAGATCGCGTTGCGATT-TTATG
1 -A-ATCGCGTTGCGATTCTT-GG
*
16094 AATCGCATTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
16114 AAGATCGCGTTGCGAT
1 -A-ATCGCGTTGCGAT
16130 CTTCTTTTCA
Statistics
Matches: 236, Mismatches: 8, Indels: 33
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.02
19 2 0.01
20 146 0.62
21 17 0.07
22 66 0.28
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
AATCGCGTTGCGATTCTTGG
Found at i:15915 original size:40 final size:39
Alignment explanation
Indices: 15848--16191 Score: 336
Period size: 40 Copynumber: 8.4 Consensus size: 39
15838 TCATTTTCTT
*
15848 AATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATT-TTGG
15890 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT-TTGG
*
15930 AATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT-TTGG
*
15970 AAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTCTG
1 -A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTT-GG
*
16012 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTCTG
1 AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTT-GG
* *
16052 AATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATTTTATG
1 AATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTTT-GG
* * * **
16094 AATCGCATTGCGATTCTT-GGAAGATCGCGTTGCGATCTTCT
1 AATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTTTGG
** * * * *
16135 TTTCAACGTTGCGCTTTTCTAAATCGCGTTGCGGTTTT-G
1 AATC-GCGTTGCGATTTTCTGAATCGCGTTGCGATTTTGG
16174 ATATCGCGTTGCGATTTT
1 A-ATCGCGTTGCGATTTT
16192 GTTGGTCATT
Statistics
Matches: 268, Mismatches: 24, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.04
40 129 0.48
41 15 0.06
42 113 0.42
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.38
Consensus pattern (39 bp):
AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTGG
Found at i:16016 original size:102 final size:101
Alignment explanation
Indices: 15840--16191 Score: 473
Period size: 102 Copynumber: 3.5 Consensus size: 101
15830 GAATTTACTC
*
15840 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTCTTGGAATCGCGTTGCGATT
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATT-TTTGAATCGCGTTGCGATT
*
15905 TTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
65 TTCTGAATCGCGTTGCGATTCTTCGAATCGCGTTGCG
15942 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTT-TGAATCGCGTTGCGATT
16007 TTCTGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
65 TTCTGAATCGCGTTGCGATTCTTC-GAATCGCGTTGCG
* *
16044 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTATGAATCGCATTGCGATT
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTT-TGAATCGCGTTGCGATT
* *** *
16109 CTT-GGAAGATCGCGTTGCGA-TCTTCTTTTCAACGTTGCG
65 -TTCTG-A-ATCGCGTTGCGATTCTTCGAATC-GCGTTGCG
* * * *
16148 CTTTTCTAAATCGCGTTGCGGTT-TT-G-ATATCGCGTTGCGATTTT
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTT
16192 GTTGGTCATT
Statistics
Matches: 229, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
101 21 0.09
102 158 0.69
103 8 0.03
104 42 0.18
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.39
Consensus pattern (101 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTTGAATCGCGTTGCGATTT
TCTGAATCGCGTTGCGATTCTTCGAATCGCGTTGCG
Found at i:16147 original size:42 final size:40
Alignment explanation
Indices: 15993--16129 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 40
15983 GATTTTCTGA
* * *
15993 ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT-TTCTG-A-
1 ATCGCGTTGCGATTTTATCAAT--CGTTGCGATTCTT-GGAAG
* *
16033 ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTTTATCAAT--CGTTGCGATTCTTGGAAG
*
16075 ATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTTTATCAATCG--TTGCGATTCTTGGAAG
16117 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
16130 CTTCTTTTCA
Statistics
Matches: 90, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
40 37 0.41
41 3 0.03
42 50 0.56
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (40 bp):
ATCGCGTTGCGATTTTATCAATCGTTGCGATTCTTGGAAG
Found at i:16161 original size:82 final size:78
Alignment explanation
Indices: 15848--16192 Score: 325
Period size: 82 Copynumber: 4.2 Consensus size: 78
15838 TCATTTTCTT
** * *
15848 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAAT
1 AATCGCGTTGCGATT-TTGGAA-ATCGCGTTGCGA-TCTTCTAATCACGTTGCGATTTTCTAAAT
*
15913 CGCGTTGCGATTCTTGG
63 CGCGTTGCGATT-TTTG
*** ** * *
15930 AATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAAT
1 AATCGCGTTGCGATTTTGGAAATCGCGTTGCGA-TCTT-CTA-ATCACGTTGCGATTTTCTAAAT
15995 CGCGTTGCGATTTTCTG
63 CGCGTTGCGATTTT-TG
* * * **
16012 AATCGCGTTGCGATTTTCTG-AATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTGGAAGA
1 AATCGCGTTGCGATTTT-GGAAATCGCGTTGCGATCTTCT-AATCACGTTGCGATT-TTCTAA-A
16076 TCGCGTTGCGATTTTATG
62 TCGCGTTGCGATTTT-TG
* ** *
16094 AATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATCTTCTTTTCAACGTTGCGCTTTTCTAAAT
1 AATCGCGTTGCGATT-TTGGAA-ATCGCGTTGCGATCTTCTAATC-ACGTTGCGATTTTCTAAAT
*
16159 CGCGTTGCG-GTTTTG
63 CGCGTTGCGATTTTTG
16174 ATATCGCGTTGCGATTTTG
1 A-ATCGCGTTGCGATTTTG
16193 TTGGTCATTT
Statistics
Matches: 226, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
80 37 0.16
81 30 0.13
82 124 0.55
83 9 0.04
84 26 0.12
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.38
Consensus pattern (78 bp):
AATCGCGTTGCGATTTTGGAAATCGCGTTGCGATCTTCTAATCACGTTGCGATTTTCTAAATCGC
GTTGCGATTTTTG
Found at i:16164 original size:20 final size:20
Alignment explanation
Indices: 16141--16191 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
16131 TTCTTTTCAA
* *
16141 CGTTGCGCTTTTCTAAATCG
1 CGTTGCGATTTTCTGAATCG
*
16161 CGTTGCG-GTTT-TGATATCG
1 CGTTGCGATTTTCTGA-ATCG
16180 CGTTGCGATTTT
1 CGTTGCGATTTT
16192 GTTGGTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 14 0.54
20 10 0.38
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCTGAATCG
Found at i:17471 original size:18 final size:18
Alignment explanation
Indices: 17423--17473 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
17413 GAAGCTAATT
*
17423 TTTTATTATATTATAATTA
1 TTTTATTATATT-TTATTA
*
17442 -TTTA--ATAGTTTATTA
1 TTTTATTATATTTTATTA
17457 TTTTATTATATTTTATT
1 TTTTATTATATTTTATT
17474 GTACTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
18 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATATTTTATTA
Found at i:19560 original size:102 final size:102
Alignment explanation
Indices: 19380--19578 Score: 224
Period size: 102 Copynumber: 2.0 Consensus size: 102
19370 AACAAACTAA
* * * ** *
19380 TAGTTGAATGCCTTCCCCTTGAACTTGAAGGCATCGAGTCATATGGGTTTTGAACTGAGTGTTGT
1 TAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATCGAGTCAAATGGGTACTGAACTGAGTATTGT
* * *
19445 GTCGTATGTATCTCCACATTGAGGTCAAAGAAGCTTG
66 GTCGAAAGTATCTCCACATTCAGGTCAAAGAAGCTTG
* * *
19482 TAGTTGAATGTCTCCCCCTGGAACTTGAAGGCATC-ATGTCAAATGGGTACTGCACAT-ATTATT
1 TAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATCGA-GTCAAATGGGTACTGAAC-TGAGTATT
* *
19545 GTGTC-AAAGTCATCTCCATATTCAGGTTAAAGAA
64 GTGTCGAAAGT-ATCTCCACATTCAGGTCAAAGAA
19579 ATTGGCAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
101 4 0.05
102 75 0.94
103 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (102 bp):
TAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATCGAGTCAAATGGGTACTGAACTGAGTATTGT
GTCGAAAGTATCTCCACATTCAGGTCAAAGAAGCTTG
Found at i:21235 original size:67 final size:65
Alignment explanation
Indices: 21149--21295 Score: 149
Period size: 67 Copynumber: 2.2 Consensus size: 65
21139 AGTCATCAAT
* ** * *
21149 TTTAAATTTATAAAGATTGAGG-TCTAATTTATTTAACTT-TGAAATTTATAAGA-ATTTAAAAA
1 TTTAAATTTAAAAAGATTGAGGCT-TAATTTAACTAA-TTGTAAAATTTAT-AGACACTTAAAAA
21211 ATA
63 ATA
* *
21214 TTTAAATTTGAAAAAGAATTGATGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAGAAA
1 TTTAAATTT-AAAAAG-ATTGAGGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAAAAA
21279 TA
64 TA
*
21281 TTTAAA-TAAAAAAGA
1 TTTAAATTTAAAAAGA
21296 AAGGGCAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
64 1 0.01
65 15 0.22
66 11 0.16
67 41 0.59
68 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (65 bp):
TTTAAATTTAAAAAGATTGAGGCTTAATTTAACTAATTGTAAAATTTATAGACACTTAAAAAATA
Found at i:22045 original size:19 final size:19
Alignment explanation
Indices: 22002--22100 Score: 58
Period size: 19 Copynumber: 5.1 Consensus size: 19
21992 ATATTTACAA
*
22002 AATATAATTAAATTAAAAT
1 AATATAATAAAATTAAAAT
* * *
22021 ATTATAATAAAATTGATAT
1 AATATAATAAAATTAAAAT
* *
22040 AATATACATGAAAACTAACATT
1 AATATA-AT-AAAATTAA-AAT
*
22062 AAGATAATATAAATATAAAAT
1 AATATAATA-AAAT-TAAAAT
* *
22083 CATGT--TAAAATTAAAAT
1 AATATAATAAAATTAAAAT
22100 A
1 A
22101 TTAATATTTA
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 6 0.10
18 4 0.07
19 22 0.37
20 3 0.05
21 15 0.25
22 9 0.15
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
AATATAATAAAATTAAAAT
Found at i:33306 original size:14 final size:13
Alignment explanation
Indices: 33281--33316 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
33271 ATTTTGGTTT
33281 TTTTTGTTTTTTTG
1 TTTTT-TTTTTTTG
33295 TCTTTTTTTTTTTG
1 T-TTTTTTTTTTTG
33309 TTTTTTTT
1 TTTTTTTT
33317 AAATAGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 10 0.48
15 4 0.19
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:33315 original size:8 final size:8
Alignment explanation
Indices: 33279--33315 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
33269 AAATTTTGGT
33279 TTTTTTTG
1 TTTTTTTG
33287 TTTTTTTG
1 TTTTTTTG
*
33295 -TCTTTT-
1 TTTTTTTG
33301 TTTTTTTG
1 TTTTTTTG
33309 TTTTTTT
1 TTTTTTT
33316 TAAATAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 10 0.40
8 15 0.60
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (8 bp):
TTTTTTTG
Found at i:34287 original size:19 final size:19
Alignment explanation
Indices: 34263--34304 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
34253 ATTGAAAATT
34263 CGTAATATTTACAAAATCC
1 CGTAATATTTACAAAATCC
*
34282 CGTAATATTTACAAAATCT
1 CGTAATATTTACAAAATCC
34301 CGTA
1 CGTA
34305 TTAATCCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (19 bp):
CGTAATATTTACAAAATCC
Found at i:38447 original size:20 final size:19
Alignment explanation
Indices: 38414--38451 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
38404 TCTGTTAGTT
38414 ATTAGATAAGATCAGTTTTA
1 ATTAGATAAGATCA-TTTTA
38434 ATTAGAT-AGAATCATTTT
1 ATTAGATAAG-ATCATTTT
38452 TTTATTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
ATTAGATAAGATCATTTTA
Found at i:38461 original size:53 final size:53
Alignment explanation
Indices: 38398--38505 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
38388 TAACTAGATA
* *
38398 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCATTT
1 TTTTATTCTGTTAGTTATTAGATAAAATCAGTTTTAATTAGATAGAATCAGTT
38451 TTTTATTCTGTTAGTTATTAGATAAAATCAGTTTTAATTAGATAGAATCAGTT
1 TTTTATTCTGTTAGTTATTAGATAAAATCAGTTTTAATTAGATAGAATCAGTT
38504 TT
1 TT
38506 ATTCTTTTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (53 bp):
TTTTATTCTGTTAGTTATTAGATAAAATCAGTTTTAATTAGATAGAATCAGTT
Found at i:38492 original size:20 final size:20
Alignment explanation
Indices: 38467--38506 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
38457 TCTGTTAGTT
38467 ATTAGATAAAATCAGTTTTA
1 ATTAGATAAAATCAGTTTTA
*
38487 ATTAGATAGAATCAGTTTTA
1 ATTAGATAAAATCAGTTTTA
38507 TTCTTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
ATTAGATAAAATCAGTTTTA
Found at i:41604 original size:2 final size:2
Alignment explanation
Indices: 41599--41631 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41589 ATATATATAC
41599 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
41632 CCTATGTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42163 original size:19 final size:19
Alignment explanation
Indices: 42125--42163 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
42115 CAGTGTATGG
* * *
42125 TTTTTAAATTACATTTAAA
1 TTTTTAAATAAAATTGAAA
42144 TTTTTAAATAAAATTGAAA
1 TTTTTAAATAAAATTGAAA
42163 T
1 T
42164 GCTTAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTTAAATAAAATTGAAA
Found at i:48486 original size:5 final size:5
Alignment explanation
Indices: 48476--48509 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
48466 ACAGAAATAC
48476 TAGAA TAGAA TAGAA TAGAA TAGAA TAGAA TAGA
1 TAGAA TAGAA TAGAA TAGAA TAGAA TAGAA TAGA
48510 CTATTGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (5 bp):
TAGAA
Found at i:49301 original size:15 final size:15
Alignment explanation
Indices: 49281--49315 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49271 AGACATTACT
*
49281 CGCCCCGCATCCGCC
1 CGCCCCACATCCGCC
49296 CGCCCCACATCCGCC
1 CGCCCCACATCCGCC
*
49311 TGCCC
1 CGCCC
49316 AGCTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.66, G:0.17, T:0.09
Consensus pattern (15 bp):
CGCCCCACATCCGCC
Found at i:50467 original size:19 final size:20
Alignment explanation
Indices: 50401--50459 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
50391 GGAATGTAAG
*
50401 ATTATCAGTGGGAATAAAAT
1 ATTACCAGTGGGAATAAAAT
* *
50421 ATTACAAGTGAGAATAAAAT
1 ATTACCAGTGGGAATAAAAT
50441 ATTACCAGTGGGAATAAAA
1 ATTACCAGTGGGAATAAAA
50460 GATACCAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTACCAGTGGGAATAAAAT
Found at i:51468 original size:17 final size:17
Alignment explanation
Indices: 51443--51484 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
51433 ATCACTTTAA
* *
51443 ATTTTAATTTTTCAGAT
1 ATTTAAATTTTTCACAT
51460 ATTTAAA--TTTCACAT
1 ATTTAAATTTTTCACAT
51475 ATTTAAATTT
1 ATTTAAATTT
51485 GAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTTTCACAT
Found at i:51476 original size:15 final size:15
Alignment explanation
Indices: 51452--51484 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51442 AATTTTAATT
*
51452 TTTCAGATATTTAAA
1 TTTCACATATTTAAA
51467 TTTCACATATTTAAA
1 TTTCACATATTTAAA
51482 TTT
1 TTT
51485 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTCACATATTTAAA
Found at i:51881 original size:51 final size:51
Alignment explanation
Indices: 51826--51950 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 51
51816 GTGTGATAAA
* * * * *
51826 TTTTAATAAAAACT-TGTATTTTATTAAAACTCGTCATCTCGATGTGACTAG
1 TTTTAATAAAAA-TATATATTTTATTAAAACTCGTCACCTCAAAGTGACGAG
* **
51877 TTTTAATAAATATATATATTTTATTCGAACTCGTCACCTCAAAGTGACGAG
1 TTTTAATAAAAATATATATTTTATTAAAACTCGTCACCTCAAAGTGACGAG
*
51928 TTTAAATAAAAATAT-T-TTTTATT
1 TTTTAATAAAAATATATATTTTATT
51951 GAAATTTATC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 7 0.11
50 2 0.03
51 54 0.86
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (51 bp):
TTTTAATAAAAATATATATTTTATTAAAACTCGTCACCTCAAAGTGACGAG
Found at i:52243 original size:2 final size:2
Alignment explanation
Indices: 52236--52272 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
52226 CATAAAATTC
52236 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
52273 CCAACTTTTA
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:54092 original size:56 final size:56
Alignment explanation
Indices: 54006--54118 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
53996 GATGTGTGCT
* *
54006 TGGTGTGCTGGTTGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
1 TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
* * **
54062 TGGTGAGCTGGTGGGAGATAAATGTACACATGGTTGACAGCGCGCGTGTATATATA
1 TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
54118 T
1 T
54119 ATATATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (56 bp):
TGGTGAGCTGGTGGGAGATAAATGTACACATAGTTGACAGCGCACGCATATATATA
Found at i:54115 original size:2 final size:2
Alignment explanation
Indices: 54110--54134 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54100 AGCGCGCGTG
54110 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 T
54135 GACGTTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55977 original size:16 final size:17
Alignment explanation
Indices: 55956--55992 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
55946 TTTTATCTCA
*
55956 AAATAAATAATAATAT-
1 AAATAAATAAAAATATC
55972 AAATAAATAAAAATATC
1 AAATAAATAAAAATATC
55989 AAAT
1 AAAT
55993 CAATTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATAAAAATATC
Found at i:64661 original size:31 final size:33
Alignment explanation
Indices: 64596--64661 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
64586 AAATCCATAC
*
64596 TTGTTTATTTATAATATTGCTAAGTTGTAATTTT
1 TTGTTTATTTATAATATT-CTAAGTTATAATTTT
64630 TTGTTATATTTATAATA-T-TAA-TTATAATTTT
1 TTGTT-TATTTATAATATTCTAAGTTATAATTTT
64661 T
1 T
64662 AATATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 10 0.33
32 3 0.10
34 6 0.20
35 11 0.37
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (33 bp):
TTGTTTATTTATAATATTCTAAGTTATAATTTT
Found at i:64972 original size:30 final size:31
Alignment explanation
Indices: 64938--64997 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
64928 TTCAATAACC
* *
64938 AAAATGTAA-CAATCTATAATGTAAGTGACA
1 AAAATGTAATAAATCGATAATGTAAGTGACA
64968 AAAATGTAATAAATCGATAATGTAAGTGAC
1 AAAATGTAATAAATCGATAATGTAAGTGAC
64998 TGGATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (31 bp):
AAAATGTAATAAATCGATAATGTAAGTGACA
Found at i:68316 original size:20 final size:20
Alignment explanation
Indices: 68291--68543 Score: 197
Period size: 20 Copynumber: 12.5 Consensus size: 20
68281 TTTACAGAAC
** *
68291 CGCAACGCGAATATGAAAAT
1 CGCAACGCGAATCCGTAAAT
* * *
68311 CGCAACGCGATTCTG-ATTAT
1 CGCAACGCGAATCCGTA-AAT
* *
68331 CGCAACGAGTATCCGTAAAAT
1 CGCAACGCGAATCCGT-AAAT
* * *
68352 TGTAACGCGTATCCGTAAAT
1 CGCAACGCGAATCCGTAAAT
* *
68372 CGCAATGAC-AATACGTAAAAT
1 CGCAACG-CGAATCCGT-AAAT
*
68393 CGCAACGCGTATCCGTAAAT
1 CGCAACGCGAATCCGTAAAT
* *
68413 CGCAACGAGAATACGTAAAT
1 CGCAACGCGAATCCGTAAAT
* * * *
68433 CTCAACGTGTATCTGTAAAT
1 CGCAACGCGAATCCGTAAAT
* *
68453 CGCAACGAGAATACGTAAAT
1 CGCAACGCGAATCCGTAAAT
* *
68473 CGCAATGCGTATCCGTAAAT
1 CGCAACGCGAATCCGTAAAT
*
68493 CGCAACGAC-AATACGTAAAAT
1 CGCAACG-CGAATCCGT-AAAT
*
68514 CGCAACGCGTATCCGTAAAT
1 CGCAACGCGAATCCGTAAAT
68534 CGCAACGCGA
1 CGCAACGCGA
68544 TTTTTAAAGC
Statistics
Matches: 182, Mismatches: 42, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
19 1 0.01
20 132 0.73
21 48 0.26
22 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
CGCAACGCGAATCCGTAAAT
Found at i:68374 original size:41 final size:41
Alignment explanation
Indices: 68291--68540 Score: 312
Period size: 41 Copynumber: 6.2 Consensus size: 41
68281 TTTACAGAAC
* * * *
68291 CGCAACGCGAATATG-AAAATCGCAACGCG-ATTC-TGATTAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT-A-AAT
* * * *
68331 CGCAACGAGTATCCGTAAAATTGTAACGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
* *
68372 CGCAATGACAATACGTAAAATCGCAACGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
* * *
68413 CGCAACGAGAATACGT-AAATCTCAACGTGTATCTGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
*
68453 CGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
*
68493 CGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAAT
1 CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
68534 CGCAACG
1 CGCAACG
68541 CGATTTTTAA
Statistics
Matches: 181, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
40 83 0.46
41 93 0.51
42 4 0.02
43 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
CGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAAT
Found at i:68860 original size:16 final size:16
Alignment explanation
Indices: 68836--68869 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68826 AGGGTTAGTT
* *
68836 TTTTTAATTATTTTTA
1 TTTTGAATTATTTGTA
68852 TTTTGAATTATTTGTA
1 TTTTGAATTATTTGTA
68868 TT
1 TT
68870 ATTTTAGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTGAATTATTTGTA
Found at i:69159 original size:21 final size:21
Alignment explanation
Indices: 69098--69176 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
69088 TTCTAAACTT
69098 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GATAAATG
69118 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GATAAATG
**
69138 ACTATCGCAACGAGATAAATG
1 AAAATCGCAACGAGATAAATG
69159 AAAATCGCAACGAGATAA
1 AAAATCGCAACGAGATAA
69177 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAATCGCAACGAGATAAATG
Found at i:69245 original size:20 final size:19
Alignment explanation
Indices: 69196--69253 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
69186 GAAACCAAAA
**
69196 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
*
69215 TCGCGTTGCGATAGTCATT
1 TCGCATTGCGATAGTCATT
69234 TCCGCATTGCGATAGTCATT
1 T-CGCATTGCGATAGTCATT
69254 CTCTCGTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (19 bp):
TCGCATTGCGATAGTCATT
Found at i:69273 original size:20 final size:18
Alignment explanation
Indices: 69210--69266 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 18
69200 ATTGCGATTT
69210 TCATTTCGCGTTGCGATAG
1 TCATTTC-CGTTGCGATAG
69229 TCATTTCCGCATTGCGATAG
1 TCATTTCCG--TTGCGATAG
69249 TCATTCTCTCGTTGCGAT
1 TCATT-TC-CGTTGCGAT
69267 TTTCATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 21 0.62
21 2 0.06
22 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (18 bp):
TCATTTCCGTTGCGATAG
Found at i:71129 original size:94 final size:94
Alignment explanation
Indices: 70968--71347 Score: 665
Period size: 94 Copynumber: 4.1 Consensus size: 94
70958 TAGATTGCTT
* * *
70968 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
71033 ATTTGTATTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGT-CTTTGTTTTGTCTTTTGGTTGAA
71062 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
71127 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
71156 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
71221 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
71250 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
71315 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
71343 AGTAA
1 AGTAA
71348 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 26 0.09
94 252 0.91
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:71469 original size:14 final size:14
Alignment explanation
Indices: 71450--71507 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
71440 AACGCGAAAT
71450 GAATCGCAACGAGA
1 GAATCGCAACGAGA
71464 GAATCGCAACGAGAAA
1 GAATCGCAACGAG--A
*
71480 TGAAAATCGTAACGAGA
1 -G--AATCGCAACGAGA
71497 GAATCGCAACG
1 GAATCGCAACG
71508 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.59
16 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:71494 original size:33 final size:33
Alignment explanation
Indices: 71435--71559 Score: 146
Period size: 33 Copynumber: 3.8 Consensus size: 33
71425 AAAAATGACT
71435 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
71466 ATCGCAACGAGAAATGAAAATCGTAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
** * *
71499 ATCGCAACGCGAAACCAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * **
71532 ATCACAATGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
71560 CAAAACTATA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 15 0.18
33 67 0.82
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:71522 original size:19 final size:19
Alignment explanation
Indices: 71498--71565 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
71488 GTAACGAGAG
71498 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
71517 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
* *
71531 AATCACAATGCGAAACCAA
1 AATCGCAACGCGAAACCAA
*
71550 AATCGCAACGCAAAAC
1 AATCGCAACGCGAAAC
71566 TATAATCGCG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.50, C:0.29, G:0.13, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:71634 original size:20 final size:20
Alignment explanation
Indices: 71609--71655 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
71599 GATTCTCTCG
71609 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
71629 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
71649 TTGCGAT
1 TTGCGAT
71656 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:72230 original size:21 final size:21
Alignment explanation
Indices: 72139--72237 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
72129 GACTCACCTG
72139 TCATCGTTCAAGAGG-CA-TCC
1 TCATCGTTCAAGAGGCCACT-C
* * *
72159 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
72181 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* *
72202 TCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
72223 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
72238 TCCCTCCCAA
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.93
22 2 0.03
23 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:72243 original size:42 final size:41
Alignment explanation
Indices: 72136--72243 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
72126 CCCGACTCAC
* *
72136 CTGTCATCGTTCAAGAGGCATCCC-CTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGG--TCCCTCTACCGTTCAAGAGGCCA
* **
72178 CTATCATCCCTCAAGA-GTCCCCTCTCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGT-CCCTCT-ACCGTTCAAGAGGCCA
*
72220 CTGTCATCGTTGAAGAGGTCCCTC
1 CTGTCATCGTTCAAGAGGTCCCTC
72244 CCAACATTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.02
40 3 0.06
41 3 0.06
42 44 0.83
43 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGGTCCCTCTACCGTTCAAGAGGCCA
Found at i:73613 original size:14 final size:14
Alignment explanation
Indices: 73594--73629 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
73584 ATTGTTTAAT
73594 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
73608 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
73622 TGATTTGT
1 TGATTTGT
73630 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:73819 original size:34 final size:33
Alignment explanation
Indices: 73731--73826 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
73721 AAAACATATT
* **
73731 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
73765 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
73798 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
73827 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:73822 original size:20 final size:19
Alignment explanation
Indices: 73764--73831 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
73754 GCAACGAGAG
73764 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
73783 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
73797 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
73817 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
73832 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:73898 original size:33 final size:34
Alignment explanation
Indices: 73841--73919 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 34
73831 ACTAATTTCG
73841 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
73875 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
73908 CATTGCGATTTT
1 CGTTGCGATTTT
73920 ATACAGTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
33 29 0.67
34 14 0.33
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:75529 original size:20 final size:20
Alignment explanation
Indices: 75504--75614 Score: 143
Period size: 20 Copynumber: 5.5 Consensus size: 20
75494 CAAAATCGCA
75504 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCTCG
* *
75524 TTGCGATTTACAG-ATACGCG
1 TTGCGATTTAC-GTATTCTCG
75544 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCTCG
* * *
75564 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCTCG
*
75584 TTGCGATTTTACGTATTGTCG
1 TTGCGA-TTTACGTATTCTCG
75605 TTGCGATTTA
1 TTGCGATTTA
75615 TAGATACGCG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 59 0.77
21 17 0.22
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCTCG
Found at i:75607 original size:41 final size:40
Alignment explanation
Indices: 75504--75713 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
75494 CAAAATCGCA
75504 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
*
75544 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
* *
75584 TTGCGATTTTACGTATTGTCGTTGCGATTTATAGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATACGCG
* * * *
75625 TTGCGATTTTACGGATACTCATTGCGATAGT-CAGA-ATCGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGAT-TTACAGATA-CGCG
** * * * * *
75666 TTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
75706 TTGCGATT
1 TTGCGATT
75714 CTGAAAAATC
Statistics
Matches: 145, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 75 0.52
41 68 0.47
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
Found at i:75626 original size:20 final size:20
Alignment explanation
Indices: 75522--75713 Score: 114
Period size: 20 Copynumber: 9.5 Consensus size: 20
75512 TACGTATTCT
*
75522 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTATAGATACG
* * *
75542 CGTTGCGATTTA-CGTATTCT
1 CGTTGCGATTTATAG-ATACG
**
75562 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTATAGATACG
*
75582 CGTTGCGATTT-TACG-TATTG
1 CGTTGCGATTTATA-GATA-CG
75602 TCGTTGCGATTTATAGATACG
1 -CGTTGCGATTTATAGATACG
*
75623 CGTTGCGATTT-TACGGATACT
1 CGTTGCGATTTATA--GATACG
*
75644 CATTGCGA--TAGTCAGA-ATCG
1 CGTTGCGATTTA-T-AGATA-CG
*
75664 CGTTGCGATTTATATG-TTCG
1 CGTTGCGATTTATA-GATACG
* *
75684 CGTTGCGATTT-TCATATTCG
1 CGTTGCGATTTAT-AGATACG
75704 CGTTGCGATT
1 CGTTGCGATT
75714 CTGAAAAATC
Statistics
Matches: 137, Mismatches: 16, Indels: 38
0.72 0.08 0.20
Matches are distributed among these distances:
19 8 0.06
20 93 0.68
21 29 0.21
22 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTATAGATACG
Found at i:75627 original size:61 final size:60
Alignment explanation
Indices: 75504--75713 Score: 171
Period size: 61 Copynumber: 3.5 Consensus size: 60
75494 CAAAATCGCA
* * * *
75504 TTGCGATTTACGTATTCTCGTTGCGATT-TACAG-ATACGCGTTGCGATTTACGTAT-T-CTCG
1 TTGCGATTTACGGATACGCGTTGCGATTGT-CAGAAT-CGCGTTGCGATTTA--TATGTACGCG
* * *
75564 TTGCGATTTACGGATACGCGTTGCGATT-TTACGTATTGTCGTTGCGATTTATA-GATACGCG
1 TTGCGATTTACGGATACGCGTTGCGATTGTCA-GAATCG-CGTTGCGATTTATATG-TACGCG
* * * *
75625 TTGCGATTTTACGGATACTCATTGCGATAGTCAGAATCGCGTTGCGATTTATATGTTCGCG
1 TTGCGA-TTTACGGATACGCGTTGCGATTGTCAGAATCGCGTTGCGATTTATATGTACGCG
* ** *
75686 TTGCGATTTTCATATTCGCGTTGCGATT
1 TTGCGATTTACGGATACGCGTTGCGATT
75714 CTGAAAAATC
Statistics
Matches: 121, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
59 3 0.02
60 44 0.36
61 48 0.40
62 24 0.20
63 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (60 bp):
TTGCGATTTACGGATACGCGTTGCGATTGTCAGAATCGCGTTGCGATTTATATGTACGCG
Found at i:75688 original size:81 final size:80
Alignment explanation
Indices: 75497--75713 Score: 217
Period size: 81 Copynumber: 2.7 Consensus size: 80
75487 GCGAAACCAA
* ** * * * * *
75497 AATCGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTC
1 AATCGCGTTGCGATTTATATGTTCGCGTTGCGATTTATAGATACGCGTTGCGATTTTACGGATAC
* *
75561 TCGTTGCGATTTACG
66 TCATTGCGATTCACG
* * *
75576 GATACGCGTTGCGATTT-TACGTATTGTCGTTGCGATTTATAGATACGCGTTGCGATTTTACGGA
1 AAT-CGCGTTGCGATTTATATGT-TCG-CGTTGCGATTTATAGATACGCGTTGCGATTTTACGGA
75640 TACTCATTGCGATAGTCA-G
63 TACTCATTGCGAT--TCACG
* *
75659 AATCGCGTTGCGATTTATATGTTCGCGTTGCGATTT-TCATATTCGCGTTGCGATT
1 AATCGCGTTGCGATTTATATGTTCGCGTTGCGATTTAT-AGATACGCGTTGCGATT
75714 CTGAAAAATC
Statistics
Matches: 112, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
79 3 0.03
80 14 0.12
81 53 0.47
82 33 0.29
83 7 0.06
84 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (80 bp):
AATCGCGTTGCGATTTATATGTTCGCGTTGCGATTTATAGATACGCGTTGCGATTTTACGGATAC
TCATTGCGATTCACG
Found at i:75774 original size:42 final size:42
Alignment explanation
Indices: 75681--75774 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
75671 ATTTATATGT
*
75681 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGAAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGAAAAA
** ** *
75722 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGAAAAA
75764 TCGCGTTGCGA
1 TCGCGTTGCGA
75775 TTCTGGGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGAAAAA
Found at i:84924 original size:3 final size:3
Alignment explanation
Indices: 84916--84962 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
84906 TTAAAGGGTA
84916 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
84963 ATTTTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87292 original size:18 final size:19
Alignment explanation
Indices: 87264--87300 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
87254 CTGTTATAGT
87264 CGGAGGAGAAGAAGAACGG
1 CGGAGGAGAAGAAGAACGG
*
87283 CGGA-GAGAAGAGGAACGG
1 CGGAGGAGAAGAAGAACGG
87301 GAGGCGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.41, C:0.11, G:0.49, T:0.00
Consensus pattern (19 bp):
CGGAGGAGAAGAAGAACGG
Found at i:87342 original size:25 final size:26
Alignment explanation
Indices: 87305--87354 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
87295 GAACGGGAGG
87305 CGAGAGAAAGAGG-ATTGGGAATGGA
1 CGAGAGAAAGAGGAATTGGGAATGGA
**
87330 CGAGAGAGGGAGGAATTGGGAATGG
1 CGAGAGAAAGAGGAATTGGGAATGG
87355 TTGCTCGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.48, T:0.12
Consensus pattern (26 bp):
CGAGAGAAAGAGGAATTGGGAATGGA
Found at i:92346 original size:18 final size:18
Alignment explanation
Indices: 92304--92351 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
92294 GTTATAGTCG
92304 GAGGAGAAGAAGAACGGC
1 GAGGAGAAGAAGAACGGC
* * *
92322 AAAGAGAAGAGGAACGGC
1 GAGGAGAAGAAGAACGGC
92340 GAGGAG-AGAAGA
1 GAGGAGAAGAAGA
92352 GATTGGGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.48, C:0.08, G:0.44, T:0.00
Consensus pattern (18 bp):
GAGGAGAAGAAGAACGGC
Found at i:94065 original size:30 final size:29
Alignment explanation
Indices: 93991--94075 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
93981 TAAAATGAAA
* * *
93991 ATTAAATTTATCGGATTATTATAAATTAATT
1 ATTAAATTTATTGAATTATTATAAA-TGA-T
*
94022 AATAAATTTTATTGAATTATTATAAATGAT
1 ATTAAA-TTTATTGAATTATTATAAATGAT
* *
94052 AGTTAAATTTATTGATTTTTTATA
1 A-TTAAATTTATTGAATTATTATA
94076 CTTATTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 17 0.38
31 11 0.24
32 17 0.38
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (29 bp):
ATTAAATTTATTGAATTATTATAAATGAT
Found at i:95426 original size:7 final size:7
Alignment explanation
Indices: 95391--95433 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
95381 TAATAAAACT
95391 GAAAGTAA
1 GAAAG-AA
95399 GAAAGTAA
1 GAAAG-AA
*
95407 GAAAGCA
1 GAAAGAA
95414 -AAAGAA
1 GAAAGAA
95420 GAAAGAA
1 GAAAGAA
95427 GAAAGAA
1 GAAAGAA
95434 TGGAGAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 5 0.16
7 14 0.44
8 13 0.41
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (7 bp):
GAAAGAA
Found at i:96549 original size:30 final size:30
Alignment explanation
Indices: 96500--96556 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
96490 ATTACCTTCA
*
96500 AATTATTTATCAACCCAATATGTTTTTCTC
1 AATTATTTATCAACACAATATGTTTTTCTC
*
96530 AATTATTTATCCAA-ACAATATTTTTTT
1 AATTATTTAT-CAACACAATATGTTTTT
96557 TAATAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTATTTATCAACACAATATGTTTTTCTC
Found at i:100779 original size:48 final size:48
Alignment explanation
Indices: 100726--100818 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
100716 ACCCAACCTT
*
100726 AATATTGAATTATG-TCGAATAAAGCTTCAATCGAGAAGTATTGAAGTA
1 AATATTGAATTATGCT-GAACAAAGCTTCAATCGAGAAGTATTGAAGTA
* * * *
100774 AATATTGAATTCTGCTTAACAAAGCTTTAATCGGGAAGTATTGAA
1 AATATTGAATTATGCTGAACAAAGCTTCAATCGAGAAGTATTGAA
100819 ATAATTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (48 bp):
AATATTGAATTATGCTGAACAAAGCTTCAATCGAGAAGTATTGAAGTA
Found at i:102128 original size:21 final size:22
Alignment explanation
Indices: 102099--102151 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
102089 ATTCTGACTA
102099 TCGCATTGCGATTTTCC-AATT
1 TCGCATTGCGATTTTCCTAATT
*
102120 TCGCGTTGCGATTTTCCTAA-T
1 TCGCATTGCGATTTTCCTAATT
*
102141 TCGCAATGCGA
1 TCGCATTGCGA
102152 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCTAATT
Found at i:102166 original size:20 final size:20
Alignment explanation
Indices: 102141--102193 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
102131 TTTTCCTAAT
102141 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
102161 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
102181 TCACAACGCGAAT
1 TCGCAATGCGAAT
102194 CTGACTATCG
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:0.42, C:0.23, G:0.17, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:102207 original size:20 final size:20
Alignment explanation
Indices: 102193--102246 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
102183 ACAACGCGAA
102193 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
102213 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
102233 TCTGACTATCGCAA
1 TCTGACTATCGCAA
102247 TACTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
TCTGACTATCGCAACGAGAT
Found at i:103140 original size:24 final size:24
Alignment explanation
Indices: 103089--103142 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
103079 GTATTCGAAA
*
103089 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCAGGAC
* * *
103113 TTTGATCTTGGTCAATACTAGGAT
1 TTTGATATTGGTCAATACCAGGAC
103137 TTTGAT
1 TTTGAT
103143 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCAGGAC
Found at i:105599 original size:20 final size:21
Alignment explanation
Indices: 105574--105660 Score: 110
Period size: 20 Copynumber: 4.3 Consensus size: 21
105564 CAACGTGGAA
*
105574 ATCGCAACGC-GAATATGACC
1 ATCGCAACGCAGAATATGACT
*
105594 ATCGCAACACAGAA-ATGACT
1 ATCGCAACGCAGAATATGACT
*
105614 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCAGAATATGACT
*
105634 ATCGCAACGC-GAAAATGACT
1 ATCGCAACGCAGAATATGACT
105654 ATCGCAA
1 ATCGCAA
105661 AGAGAGAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCAGAATATGACT
Found at i:105638 original size:40 final size:40
Alignment explanation
Indices: 105574--105660 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
105564 CAACGTGGAA
105574 ATCGCAACGCGAATATGACCATCGCAACAC-AGAAATGACT
1 ATCGCAACGCGAATATGACCATCGCAACACGA-AAATGACT
* *
105614 ATCGCAACGCGGAAT-TGACTATCGCAACGCGAAAATGACT
1 ATCGCAACGC-GAATATGACCATCGCAACACGAAAATGACT
105654 ATCGCAA
1 ATCGCAA
105661 AGAGAGAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 38 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACCATCGCAACACGAAAATGACT
Found at i:105793 original size:33 final size:33
Alignment explanation
Indices: 105711--105795 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
105701 TTTAGTTTCG
105711 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
* *
105745 CGTTGAGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
**
105778 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
105796 CACGTTGCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.72
34 13 0.28
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:105931 original size:14 final size:14
Alignment explanation
Indices: 105912--105948 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
105902 CATCAATTAA
105912 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
105926 ACAAATCATCTTTT
1 ACAAATCAACATTT
105940 ACAAATCAA
1 ACAAATCAA
105949 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:107395 original size:41 final size:41
Alignment explanation
Indices: 107317--107412 Score: 97
Period size: 41 Copynumber: 2.3 Consensus size: 41
107307 CGTGTGAATC
* *
107317 GGGCTCTAGAATGTTGGGAGGGACCTCTTCAACGATGACA-
1 GGGCTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAT
* ** *
107357 GTGGCTCTTGAATGGTGGGAGGGGA-CTCTTGAGGGATGATAT
1 G-GGCTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAT
107399 GGGCATCTTGAATG
1 GGGC-TCTTGAATG
107413 ATAGGGGAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
40 1 0.02
41 31 0.67
42 14 0.30
ACGTcount: A:0.22, C:0.15, G:0.38, T:0.26
Consensus pattern (41 bp):
GGGCTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAT
Found at i:107963 original size:20 final size:20
Alignment explanation
Indices: 107927--108092 Score: 143
Period size: 20 Copynumber: 8.4 Consensus size: 20
107917 GCAACGCGAA
107927 TGCGATAGTCA-TTTCGCAT
1 TGCGATAGTCATTTTCGCAT
*
107946 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCAT
107966 TGCGATAGTCATTTT-G--T
1 TGCGATAGTCATTTTCGCAT
*
107983 TGCGATAGTCA-TTTCGCGT
1 TGCGATAGTCATTTTCGCAT
*
108002 TGCGATTTTGTTGCGATTTT--CAT
1 TGCGA--TAG-T-C-ATTTTCGCAT
* * * *
108025 TTCGCATTGTGATTCTCG--T
1 TGCG-ATAGTCATTTTCGCAT
*
108044 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCAT
108064 TGCGATAGTCATTTTCGCAT
1 TGCGATAGTCATTTTCGCAT
108084 TGCGATAGT
1 TGCGATAGT
108093 AAACTATTCT
Statistics
Matches: 121, Mismatches: 11, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.02
17 13 0.11
18 10 0.08
19 26 0.21
20 51 0.42
21 3 0.02
22 4 0.03
23 6 0.05
24 2 0.02
25 3 0.02
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.42
Consensus pattern (20 bp):
TGCGATAGTCATTTTCGCAT
Found at i:108012 original size:30 final size:30
Alignment explanation
Indices: 107976--108069 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
107966 TGCGATAGTC
107976 ATTTTGTTGCGATAGTCATTTCGCGTTGCG
1 ATTTTGTTGCGATAGTCATTTCGCGTTGCG
** * *
108006 ATTTTGTTGCGATTTTCATTTCGCATTGTG
1 ATTTTGTTGCGATAGTCATTTCGCGTTGCG
*
108036 ATTCTCGTTGCGATAGTCATTTTCGCGTTGCG
1 ATT-TTGTTGCGATAGTCA-TTTCGCGTTGCG
108068 AT
1 AT
108070 AGTCATTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 29 0.55
31 12 0.23
32 12 0.23
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (30 bp):
ATTTTGTTGCGATAGTCATTTCGCGTTGCG
Found at i:109994 original size:20 final size:20
Alignment explanation
Indices: 109971--110010 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
109961 CTGAAACTTT
109971 AAATCACAACACGAAAATGA
1 AAATCACAACACGAAAATGA
*
109991 AAATCGCAACACGAAAATGA
1 AAATCACAACACGAAAATGA
110011 CTATCGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.10
Consensus pattern (20 bp):
AAATCACAACACGAAAATGA
Found at i:110016 original size:20 final size:20
Alignment explanation
Indices: 109977--110040 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
109967 CTTTAAATCA
**
109977 CAACACGAAAATGAAAATCG
1 CAACACGAAAATGACTATCG
109997 CAACACGAAAATGACTATCG
1 CAACACGAAAATGACTATCG
* **
110017 CAACGCGAATTTGACTATCG
1 CAACACGAAAATGACTATCG
110037 CAAC
1 CAAC
110041 GCAAGAATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.16
Consensus pattern (20 bp):
CAACACGAAAATGACTATCG
Found at i:110436 original size:22 final size:22
Alignment explanation
Indices: 110374--110439 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
110364 TGACCGTGAA
*
110374 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
110396 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
110418 TGATTTTGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
110440 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.12, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:110659 original size:20 final size:20
Alignment explanation
Indices: 110643--110766 Score: 207
Period size: 20 Copynumber: 6.3 Consensus size: 20
110633 TAGATTCACT
*
110643 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
*
110663 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
110683 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
110703 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
110723 TTACGATTTAC-T-TTCGCA
1 TTGCGATTTACGTATTCGCA
110741 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
110761 TTGCGA
1 TTGCGA
110767 ATTAGGAAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
18 16 0.16
19 2 0.02
20 79 0.81
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:110687 original size:40 final size:39
Alignment explanation
Indices: 110618--110766 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 39
110608 GCTATGTAAA
* *
110618 TCGCATTGCGATAGTTA-G-ATTCACTTTGCGATTTACATAT
1 TCGCATTGCGAT--TTACGTATTCGCATTGCGATTTAC-TAT
*
110658 TCGCATTGCGATTTACGTATTCGTATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTAC-TAT
*
110698 TCGCATTGCGATTTACGTATTCGCATTACGATTTACT-T
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACTAT
110736 TCGCATTGCGATTTACGTATTCGCATTGCGA
1 TCGCATTGCGATTTACGTATTCGCATTGCGA
110767 ATTAGGAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 34 0.34
39 2 0.02
40 64 0.64
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (39 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTACTAT
Found at i:110787 original size:21 final size:21
Alignment explanation
Indices: 110763--110803 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
110753 TATTCGCATT
110763 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
110784 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
110804 TTCGATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:112840 original size:21 final size:21
Alignment explanation
Indices: 112816--112857 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112806 ACCATGACAG
* *
112816 TGCTACATTGTACCAATGCAC
1 TGCTACAGTATACCAATGCAC
*
112837 TGCTACAGTATACCGATGCAC
1 TGCTACAGTATACCAATGCAC
112858 AAAAACATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (21 bp):
TGCTACAGTATACCAATGCAC
Found at i:112903 original size:21 final size:21
Alignment explanation
Indices: 112878--112963 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
112868 AATATAAATT
* *
112878 GTGTATCGATGCACTGTTACA
1 GTGTACCGATGCACTGCTACA
*
112899 GTGTACCGATGCACTGCTATA
1 GTGTACCGATGCACTGCTACA
* * *
112920 GCGTACCAATGCACTGCTATA
1 GTGTACCGATGCACTGCTACA
* *
112941 GCGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
112962 GT
1 GT
112964 AACTTTAGCA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:113704 original size:31 final size:31
Alignment explanation
Indices: 113669--113837 Score: 266
Period size: 31 Copynumber: 5.5 Consensus size: 31
113659 ATAGATTCCA
* ** *
113669 AAGAACCTAGGTAAACAGGCCATATGTCTCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
113700 AAGAACATAGGTAAACAATCCATATGTCCCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
*
113731 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
*
113762 AAGAACATAGGTAAACAATTCATATGTCCCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
* *
113793 AAGAACATAGGTAAACATTCCATATGTCCTG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
113824 AAGAACATAGGTAA
1 AAGAACATAGGTAA
113838 CCCTCGACCC
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 128 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (31 bp):
AAGAACATAGGTAAACAATCCATATGTCCCG
Found at i:117508 original size:33 final size:34
Alignment explanation
Indices: 117434--117509 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 34
117424 ATTCCAATAA
*
117434 ACTTCAATTACATTCTAAACCCCAAATTTTAAAAT
1 ACTTTAATTACATTCTAAACCCCAAA-TTTAAAAT
* *
117469 ACTTTAATTACATTCTAAACCCTAAA-TTAAAGT
1 ACTTTAATTACATTCTAAACCCCAAATTTAAAAT
*
117502 ATTTTAAT
1 ACTTTAAT
117510 ATTTAGGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 13 0.35
35 24 0.65
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (34 bp):
ACTTTAATTACATTCTAAACCCCAAATTTAAAAT
Found at i:122066 original size:10 final size:10
Alignment explanation
Indices: 122027--122066 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
122017 TTCATCACAC
122027 CAAATTCTCT
1 CAAATTCTCT
*
122037 CAATTTCTCT
1 CAAATTCTCT
*
122047 CAACTTCTCT
1 CAAATTCTCT
*
122057 CAAATACTCT
1 CAAATTCTCT
122067 TATAATCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:122125 original size:9 final size:9
Alignment explanation
Indices: 122113--122146 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
122103 TAATATTTTG
122113 TATTTAATT
1 TATTTAATT
*
122122 TATTTAA-G
1 TATTTAATT
122130 TATTTAATT
1 TATTTAATT
122139 TATTTAAT
1 TATTTAAT
122147 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:122152 original size:17 final size:17
Alignment explanation
Indices: 122112--122150 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
122102 TTAATATTTT
122112 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
122129 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
122146 -TATTT
1 GTATTT
122151 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:123920 original size:15 final size:15
Alignment explanation
Indices: 123900--123931 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
123890 AGCTGCTCAG
123900 GAGGACGACGACGAT
1 GAGGACGACGACGAT
*
123915 GAGGACGACGATGAT
1 GAGGACGACGACGAT
123930 GA
1 GA
123932 TGATGGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.41, T:0.09
Consensus pattern (15 bp):
GAGGACGACGACGAT
Found at i:124116 original size:13 final size:13
Alignment explanation
Indices: 124076--124118 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
124066 GTATTTAGTA
*
124076 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* *
124089 TGTTTATTG-ACT
1 TTTTTATTGTAAT
124101 TTTTTATTGTAAT
1 TTTTTATTGTAAT
124114 TTTTT
1 TTTTT
124119 TATTATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:124215 original size:34 final size:34
Alignment explanation
Indices: 124160--124230 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
124150 CGTTAATATG
124160 GTTGGATTTATTTTAATTTATTTTG-TTAAATTT
1 GTTGGATTTATTTTAATTTATTTTGCTTAAATTT
*
124193 GTTGGACTTT-TTGTTAATTTATTTTGCTTAATTTT
1 GTTGGA-TTTATT-TTAATTTATTTTGCTTAAATTT
124228 GTT
1 GTT
124231 TATTACCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 8 0.24
34 16 0.47
35 10 0.29
ACGTcount: A:0.20, C:0.03, G:0.14, T:0.63
Consensus pattern (34 bp):
GTTGGATTTATTTTAATTTATTTTGCTTAAATTT
Found at i:129224 original size:2 final size:2
Alignment explanation
Indices: 129212--129243 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
129202 CTTCCTTCAT
*
129212 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
129244 CCCCCCCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:133121 original size:29 final size:29
Alignment explanation
Indices: 133062--133150 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
133052 ATTTTTACAT
**
133062 TAAAATAAAATATATTTAATAGGTTAAGA
1 TAAAATAAAATATATTTAATAAATTAAGA
*
133091 TAAAATAAAATATATTTAATAAATTACGA
1 TAAAATAAAATATATTTAATAAATTAAGA
* *
133120 TAAAAATACAAA-AAATTTAAAAAATTTAAGA
1 T-AAAATA-AAATATATTTAATAAA-TTAAGA
133151 ATCAAGATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
29 27 0.53
30 16 0.31
31 8 0.16
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
TAAAATAAAATATATTTAATAAATTAAGA
Found at i:133214 original size:15 final size:14
Alignment explanation
Indices: 133194--133242 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
133184 TGTTAATATA
133194 AAATATTATATTAAT
1 AAATATTATA-TAAT
133209 AAATA-TATATAAT
1 AAATATTATATAAT
*
133222 AAAAAATTATATAATT
1 -AAATATTATATAA-T
133238 AAATA
1 AAATA
133243 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 16 0.55
16 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATATTATATAAT
Found at i:134207 original size:2 final size:2
Alignment explanation
Indices: 134200--134230 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
134190 TTTAAATGTA
134200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134231 AGGTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:134684 original size:21 final size:21
Alignment explanation
Indices: 134658--134697 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
134648 GGTGCAGCGC
134658 TACCTAAAATGTTAATTTTGT
1 TACCTAAAATGTTAATTTTGT
134679 TACCTAAAATGTTAATTTT
1 TACCTAAAATGTTAATTTT
134698 TAATGTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TACCTAAAATGTTAATTTTGT
Found at i:138726 original size:64 final size:63
Alignment explanation
Indices: 138574--138728 Score: 149
Period size: 64 Copynumber: 2.4 Consensus size: 63
138564 CAATAAGGGT
* *
138574 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACCTG-TGCATCGGTGCATAAAATACATTCGATGTTCTATTATTA-TGAG
* * * * *
138638 ATGCATCGATGCA-TGCCTTATGCATCGTTGCACT-AATTGCATTCGATGTTTCTATT-TTA-GA
1 ATGCATCGATGCACTACC-TGTGCATCGGTGCA-TAAAATACATTCGATG-TTCTATTATTATG-
138699 AG
62 AG
138701 AGTGCATCGATGCACTACCTGTGCATCG
1 A-TGCATCGATGCACTACCTGTGCATCG
138729 ATACATCTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 60 0.80
65 11 0.15
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTCTATTATTATGAG
Found at i:145315 original size:21 final size:21
Alignment explanation
Indices: 145273--145315 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
145263 GATAGGGATG
* * *
145273 CAACCATTTCAGGTGGCTCCA
1 CAACCATTTCAGGCGCCACCA
*
145294 CAACTATTTCAGGCGCCACCA
1 CAACCATTTCAGGCGCCACCA
145315 C
1 C
145316 CTTTATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (21 bp):
CAACCATTTCAGGCGCCACCA
Found at i:145364 original size:21 final size:22
Alignment explanation
Indices: 145321--145368 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
145311 ACCACCTTTA
*
145321 TTTTAGATGCCATCACAGCAGG
1 TTTTAGATGCCATCACAGAAGG
145343 TTTT-GATGCCATCAC-GTAAGG
1 TTTTAGATGCCATCACAG-AAGG
145364 TTTTA
1 TTTTA
145369 AGACCCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
TTTTAGATGCCATCACAGAAGG
Found at i:145865 original size:26 final size:26
Alignment explanation
Indices: 145836--145889 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
145826 TTTATTTATT
*
145836 TTGTGTCTATTAATTAATTTGTTGAA
1 TTGTGTCTATTAATTAATTTGTTCAA
* * * *
145862 TTGTTTTTATTATTTAGTTTGTTCAA
1 TTGTGTCTATTAATTAATTTGTTCAA
145888 TT
1 TT
145890 TTAGTTCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.61
Consensus pattern (26 bp):
TTGTGTCTATTAATTAATTTGTTCAA
Found at i:150168 original size:2 final size:2
Alignment explanation
Indices: 150161--150195 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
150151 TTTGTTTTCA
*
150161 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
150196 AGAATAAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:152193 original size:26 final size:26
Alignment explanation
Indices: 152157--152214 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
152147 AGGTGACTAC
152157 CAATGGACTTGCAATCCCTGTTTACA
1 CAATGGACTTGCAATCCCTGTTTACA
152183 CAATGGACTTGCAATCCCTGTTTACA
1 CAATGGACTTGCAATCCCTGTTTACA
152209 CAATGG
1 CAATGG
152215 GTTGTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (26 bp):
CAATGGACTTGCAATCCCTGTTTACA
Found at i:156263 original size:57 final size:58
Alignment explanation
Indices: 156194--156308 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 58
156184 ACCAAAGGGC
156194 TTACCTTGAATTCAAAATGTCCATGATGAGTGCGAAAGGC-GTTTTGTAGATGTCTGT
1 TTACCTTGAATTCAAAATGTCCATGATGAGTGCGAAAGGCAGTTTTGTAGATGTCTGT
156251 TTACCTTGAATTCAAAATGTCCATGATGAGTGCGAAAGGCAGTTTTGTAGATGTCTGT
1 TTACCTTGAATTCAAAATGTCCATGATGAGTGCGAAAGGCAGTTTTGTAGATGTCTGT
156309 AGGCTGAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 40 0.70
58 17 0.30
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (58 bp):
TTACCTTGAATTCAAAATGTCCATGATGAGTGCGAAAGGCAGTTTTGTAGATGTCTGT
Found at i:156673 original size:46 final size:45
Alignment explanation
Indices: 156596--156687 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
156586 AAATCTTAAG
156596 GCCGCAAATTGACCGGGGCTGCACCCAGTTTAAGTGTAATTGAAT
1 GCCGCAAATTGACCGGGGCTGCACCCAGTTTAAGTGTAATTGAAT
156641 GCCGCAAATTGACCGGGGGCTGCACCCAGTTTAAGTGTAATTGAAT
1 GCCGCAAATTGACC-GGGGCTGCACCCAGTTTAAGTGTAATTGAAT
156687 G
1 G
156688 GGTCATGTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 14 0.30
46 32 0.70
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (45 bp):
GCCGCAAATTGACCGGGGCTGCACCCAGTTTAAGTGTAATTGAAT
Found at i:161698 original size:42 final size:44
Alignment explanation
Indices: 161640--161726 Score: 160
Period size: 42 Copynumber: 2.0 Consensus size: 44
161630 CCTTAAATTC
161640 TGTTTGTTGGACTTTGACTTGTA-GGGAATTGAATAT-ATATCT
1 TGTTTGTTGGACTTTGACTTGTATGGGAATTGAATATAATATCT
161682 TGTTTGTTGGACTTTGACTTGTATGGGAATTGAATATAATATCT
1 TGTTTGTTGGACTTTGACTTGTATGGGAATTGAATATAATATCT
161726 T
1 T
161727 AGATGCGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 23 0.53
43 13 0.30
44 7 0.16
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (44 bp):
TGTTTGTTGGACTTTGACTTGTATGGGAATTGAATATAATATCT
Found at i:168965 original size:98 final size:99
Alignment explanation
Indices: 168769--168966 Score: 373
Period size: 98 Copynumber: 2.0 Consensus size: 99
168759 CTAATCTCGC
168769 ACTACGGCACAATTAAAGTCATAATCTTTCAAATCATTGTAAATTATATCATATCTAGGGAACGG
1 ACTACGGCACAATTAAAGTCATAATCTTTCAAATCATTGTAAATTATATCATATCTAGGGAACGG
168834 TATGGGACTCGAACCAAACGGATTCTGATCCGAT
66 TATGGGACTCGAACCAAACGGATTCTGATCCGAT
168868 ACTACGGCACAATTAAAGTCATAATC-TTCAAATCATTGTAAATTATTATCATATCTAGGGAACG
1 ACTACGGCACAATTAAAGTCATAATCTTTCAAATCATTGTAAATTA-TATCATATCTAGGGAACG
168932 GTAT-GGACTCGAACCAAACGGATTCTGATCCGAT
65 GTATGGGACTCGAACCAAACGGATTCTGATCCGAT
168966 A
1 A
168967 TGATTTGATC
Statistics
Matches: 98, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
98 50 0.51
99 48 0.49
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (99 bp):
ACTACGGCACAATTAAAGTCATAATCTTTCAAATCATTGTAAATTATATCATATCTAGGGAACGG
TATGGGACTCGAACCAAACGGATTCTGATCCGAT
Found at i:169193 original size:18 final size:21
Alignment explanation
Indices: 169160--169204 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
169150 GTTAAATCTC
169160 TATTTTATTGAATAAA-ATAA
1 TATTTTATTGAATAAATATAA
*
169180 TATTTT-TT-AATAAATATAT
1 TATTTTATTGAATAAATATAA
169199 TATTTT
1 TATTTT
169205 GAGTTGGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTTATTGAATAAATATAA
Found at i:170195 original size:23 final size:21
Alignment explanation
Indices: 170160--170203 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
170150 ATAATTATTT
170160 AAAAAATTAAATAAAAATATAA
1 AAAAAATTAAATAAAAA-ATAA
*
170182 AAAAATATTTAATAAAAAATAA
1 AAAAA-ATTAAATAAAAAATAA
170204 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAATTAAATAAAAAATAA
Found at i:173026 original size:38 final size:38
Alignment explanation
Indices: 172972--173053 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
172962 TTAACTTTCT
* *
172972 CATTTATTTCCTTGGCAATAATAGTAGGATAGAGCATC
1 CATTCATTTCCTTGGCAATAATAGTAGGACAGAGCATC
173010 CATTCATTTCCTTGGCAATAATAGTAGGACAGAGCATC
1 CATTCATTTCCTTGGCAATAATAGTAGGACAGAGCATC
173048 CATTCA
1 CATTCA
173054 AGTCAAGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (38 bp):
CATTCATTTCCTTGGCAATAATAGTAGGACAGAGCATC
Found at i:180972 original size:13 final size:13
Alignment explanation
Indices: 180956--180980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180946 TCTTTTTAAA
180956 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
180969 AAAAAAAAAAAA
1 AAAAAAAAAAAA
180981 TGACAATGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:182495 original size:15 final size:15
Alignment explanation
Indices: 182451--182500 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
182441 CAAATCAACA
*
182451 TACATACATCAATAA
1 TACATACATCAATAC
* *
182466 AACATATATCAATAC
1 TACATACATCAATAC
182481 TACATACATCAATAC
1 TACATACATCAATAC
182496 ATACA
1 -TACA
182501 ATAACATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (15 bp):
TACATACATCAATAC
Found at i:182898 original size:36 final size:35
Alignment explanation
Indices: 182843--182980 Score: 161
Period size: 36 Copynumber: 3.9 Consensus size: 35
182833 TTTTGAGAAT
182843 TTTAAAACAAATTTTTGTCTCGCTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* * *
182879 TTTCGAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
182916 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
182950 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
182981 TTTTTCCTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 24 0.28
36 48 0.56
37 10 0.12
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Done.