Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003281.1 Hibiscus syriacus cultivar Beakdansim tig00006906_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: 118994
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:404 original size:28 final size:28
Alignment explanation
Indices: 333--398 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
323 TTATAAAATT
** * *
333 ATTTATAAAAGTTTTACACTTTATTATA
1 ATTTATAAAAAATTTGCACTTCATTATA
361 A-TTATAAACAAATTTGCACTTCATTATA
1 ATTTATAAA-AAATTTGCACTTCATTATA
389 ATTTATAAAA
1 ATTTATAAAA
399 CCTTTGTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.22
28 18 0.56
29 7 0.22
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (28 bp):
ATTTATAAAAAATTTGCACTTCATTATA
Found at i:5436 original size:2 final size:2
Alignment explanation
Indices: 5429--5459 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5419 CTTTTAACGC
5429 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
5460 ATGGTTGATT
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:6248 original size:15 final size:15
Alignment explanation
Indices: 6228--6257 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6218 AGAGTATTAG
6228 GATTCAAACAGTTAA
1 GATTCAAACAGTTAA
6243 GATTCAAACAGTTAA
1 GATTCAAACAGTTAA
6258 AATCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
GATTCAAACAGTTAA
Found at i:7591 original size:23 final size:23
Alignment explanation
Indices: 7534--7595 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 23
7524 ATCAACACTA
* *
7534 AGGGTATCGGTACCT-TTGGGAT
1 AGGGTATCAGTACCTCTTTGGAT
* *
7556 A-GGTATCATTACCTCTTTGTAT
1 AGGGTATCAGTACCTCTTTGGAT
*
7578 AGGGTATCCGTACC-CTTT
1 AGGGTATCAGTACCTCTTT
7596 TTGCATTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 11 0.34
22 11 0.34
23 10 0.31
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (23 bp):
AGGGTATCAGTACCTCTTTGGAT
Found at i:7595 original size:22 final size:23
Alignment explanation
Indices: 7534--7595 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
7524 ATCAACACTA
*
7534 AGGGTATCGGTA-CCTTTGGGAT
1 AGGGTATCAGTACCCTTTGGGAT
* *
7556 A-GGTATCATTACCTCTTT-GTAT
1 AGGGTATCAGTACC-CTTTGGGAT
*
7578 AGGGTATCCGTACCCTTT
1 AGGGTATCAGTACCCTTT
7596 TTGCATTCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.25
22 10 0.31
23 14 0.44
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (23 bp):
AGGGTATCAGTACCCTTTGGGAT
Found at i:8556 original size:25 final size:25
Alignment explanation
Indices: 8523--8606 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
8513 TTTTAAAAGA
*
8523 AAATCATTTTCATTTTTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
8548 AAATCATTTTCATTTCTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
8573 AAATCATTTTCATTTCTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
*
8598 AATTCATTT
1 AAATCATTT
8607 GTTTCATGGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (25 bp):
AAATCATTTTCATTTCTAAAATTAG
Found at i:10724 original size:81 final size:81
Alignment explanation
Indices: 10601--11796 Score: 1503
Period size: 81 Copynumber: 14.9 Consensus size: 81
10591 CCCAAAGGCA
* * * * * * *
10601 TTTAACCTTTCATCTAACTTGCATTATTGACACATCTATACCAAATGCACAGGTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
10666 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
* *
10682 TTTATCCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
10747 ATTTTACTCAACGGTT
66 CTTTTACTCAACGGTC
* * *
10763 TTTAACCGTTCATCTAACTGGTATAATTGATACCTTTCTACCAAATGCACAGCTAGGCCATTCAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
10828 CTTTTACTCAACGGTA
66 CTTTTACTCAACGGTC
** * *
10844 TTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTGGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
10909 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** * * * **
10925 TTTAAATG-T--TC--A-T--C-TAATTGACACCTTTCTGCCAAAGGCACAACTATACCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
10981 ATTTTACTCAACAGTC
66 CTTTTACTCAACGGTC
* * * *
10997 TTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGCCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
11062 CTTTTACTCAACAGTT
66 CTTTTACTCAACGGTC
** *
11078 TTTAACCGTTCATCTAACTCACATAATTGACACCTTTCTACCAAATACACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
11143 CTTTTACTCAATGGTC
66 CTTTTACTCAACGGTC
* * * *
11159 TTTAACCGTTCATTTAACTGGCATAATTGACACATTTCTACCAAATGCATAGCTAGGCCAGTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
11224 CTTTTACTCAACGGTT
66 CTTTTACTCAACGGTC
* * * * * * *
11240 TTTAACCATTCATCTAACTGGAAAAATTGACACATTTCTATCGAATGCACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
11305 GTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** *
11321 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGA-GGAATGCACAACTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT-ACCAAATGCACAGCTAGGCCATTTA
*
11385 TCTTTTACTCAATGGTC
65 TCTTTTACTCAACGGTC
* * * * ** * *
11402 TTTAACTGTTCATCAAACTGGCTTAATTGATACCTTTCGGCCCAATGCATAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
11467 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
* * * ***
11483 TTTAACCGTTCATCTAACTGGCATAATTGACAACTTTCTACCAAAGGCACATCTATTTCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
11548 CTTTTACTCAATGGTC
66 CTTTTACTCAACGGTC
* * * * **
11564 TTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGTACATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
11629 CTTTTACTCAATGATC
66 CTTTTACTCAACGGTC
* * * ** *
11645 TTTAACCATTCATCTAACTGGCATAATTGAAACCCTTCTACCAAATGCACAGCTATTCCATTTAA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
11710 CTTTTACTTAACGGTC
66 CTTTTACTCAACGGTC
* * * * *
11726 TTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCCAGACCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
11791 CTTTTA
66 CTTTTA
11797 ATCTTAGAAT
Statistics
Matches: 965, Mismatches: 139, Indels: 22
0.86 0.12 0.02
Matches are distributed among these distances:
72 57 0.06
73 2 0.00
75 3 0.00
76 1 0.00
77 1 0.00
78 3 0.00
80 2 0.00
81 895 0.93
82 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
CTTTTACTCAACGGTC
Found at i:10986 original size:72 final size:72
Alignment explanation
Indices: 10867--11094 Score: 222
Period size: 72 Copynumber: 3.0 Consensus size: 72
10857 CTAACTGGCA
* * * * * * *
10867 TAATTGACACCTTTCTGCCAAATGCACAGCTGGGCCATTTATCTTTTACTCAACGGTCTTTAAAT
1 TAATTGACACCTTTCTGCCAAAGGCACAACTAGACCATTTATATTTTACTCAACAGTCTTTAAAC
10932 GTTCATC
66 GTTCATC
* *
10939 TAATTGACACCTTTCTGCCAAAGGCACAACTATACCATTTATATTTTACTCAACAGTCTTTAACC
1 TAATTGACACCTTTCTGCCAAAGGCACAACTAGACCATTTATATTTTACTCAACAGTCTTTAAAC
11004 GTTCATCTAACTGGC
66 G-T--TC--A-T--C
* ** * * * * *
11019 ATAATTGACACATTTCTGCCAAATACACAGCTAGCCCATTTATCTTTTACTCAACAGTTTTTAAC
1 -TAATTGACACCTTTCTGCCAAAGGCACAACTAGACCATTTATATTTTACTCAACAGTCTTTAAA
11084 CGTTCATC
65 CGTTCATC
11092 TAA
1 TAA
11095 CTCACATAAT
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
72 60 0.46
73 2 0.02
75 3 0.02
76 1 0.01
77 1 0.01
78 3 0.02
80 2 0.02
81 58 0.45
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (72 bp):
TAATTGACACCTTTCTGCCAAAGGCACAACTAGACCATTTATATTTTACTCAACAGTCTTTAAAC
GTTCATC
Found at i:12053 original size:54 final size:54
Alignment explanation
Indices: 11995--12142 Score: 158
Period size: 54 Copynumber: 2.7 Consensus size: 54
11985 ACATCTATTT
*
11995 CCATACGAAAAATCATACACTTAGTATGAATTTCTTAGTTCGAGC-AC-TGAGTGC
1 CCATACGAAAAATCATACACTTAGTATGAATTTCTTAGTTCGA-CAACAT-AGTAC
* * * * * **
12049 CCATAAGGAAATTCATACACTGAGTATGAATTTATTAGTTTTACATACATAGTAC
1 CCATACGAAAAATCATACACTTAGTATGAATTTCTTAGTTCGACA-ACATAGTAC
*
12104 CCATAC-AAAAATTCATACACTTAGTATGAATTCCTTAGT
1 CCATACGAAAAA-TCATACACTTAGTATGAATTTCTTAGT
12143 GTTGCACATA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 39 0.51
55 35 0.46
56 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
CCATACGAAAAATCATACACTTAGTATGAATTTCTTAGTTCGACAACATAGTAC
Found at i:12142 original size:55 final size:54
Alignment explanation
Indices: 11995--12142 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 54
11985 ACATCTATTT
*
11995 CCATACGAAAAA-TCATACACTTAGTATGAATTTCTTAGTTCGAGCACTGAGTGC
1 CCATAC-AAAAATTCATACACTTAGTATGAATTTCTTAGTTCGAGCACTGAGTAC
* * * **
12049 CCATA-AGGAAATTCATACACTGAGTATGAATTTATTAGTTTTA-CATACAT-AGTAC
1 CCATACA-AAAATTCATACACTTAGTATGAATTTCTTAGTTCGAGC--AC-TGAGTAC
*
12104 CCATACAAAAATTCATACACTTAGTATGAATTCCTTAGT
1 CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGT
12143 GTTGCACATA
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.01
53 4 0.05
54 32 0.41
55 39 0.50
56 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTCGAGCACTGAGTAC
Found at i:12508 original size:19 final size:19
Alignment explanation
Indices: 12484--12554 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
12474 TGGCTAACTA
* *
12484 GTATCGATACCCCACTACG
1 GTATCGATACCCTATTACG
12503 GTATCGATACTACTCTATTACG
1 GTATCGATAC--C-CTATTACG
*
12525 GTATCGATACTCTATTACG
1 GTATCGATACCCTATTACG
*
12544 GTACCGATACC
1 GTATCGATACC
12555 ATTTTTTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 27 0.61
21 1 0.02
22 16 0.36
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (19 bp):
GTATCGATACCCTATTACG
Found at i:12527 original size:22 final size:22
Alignment explanation
Indices: 12499--12553 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 22
12489 GATACCCCAC
12499 TACGGTATCGATACTACTCTAT
1 TACGGTATCGATACTACTCTAT
12521 TACGGTATCG--A-TACTCTAT
1 TACGGTATCGATACTACTCTAT
*
12540 TACGGTACCGATAC
1 TACGGTATCGATAC
12554 CATTTTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 17 0.59
20 1 0.03
21 1 0.03
22 10 0.34
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (22 bp):
TACGGTATCGATACTACTCTAT
Found at i:12600 original size:20 final size:20
Alignment explanation
Indices: 12575--12647 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
12565 TATGTGATCA
*
12575 ATGGTATCGATAC-CATCCTC
1 ATGGTATCGATACTC-CCCTC
12595 ATGGTATCGATACTCCCCTC
1 ATGGTATCGATACTCCCCTC
* *
12615 TTGGTATTGATACTCCCCTC
1 ATGGTATCGATACTCCCCTC
*
12635 TTGGTATCGATAC
1 ATGGTATCGATAC
12648 CACTTGAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGGTATCGATACTCCCCTC
Found at i:12887 original size:20 final size:20
Alignment explanation
Indices: 12859--12911 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
12849 TTCATTTAGT
*
12859 TTCTTAAAACATTTAAAATC
1 TTCTAAAAACATTTAAAATC
12879 TTCTAAAAACATTTAAAATC
1 TTCTAAAAACATTTAAAATC
*
12899 TTCTAAGAACATT
1 TTCTAAAAACATT
12912 CAATTCTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (20 bp):
TTCTAAAAACATTTAAAATC
Found at i:15389 original size:20 final size:19
Alignment explanation
Indices: 15366--15413 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
15356 CGATATACCA
15366 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
15386 GGTAACAAAATGATAAAATC
1 GGTAA-AAAATGATAAAACC
15406 GGTAAAAA
1 GGTAAAAA
15414 CGTTACCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:15462 original size:182 final size:181
Alignment explanation
Indices: 15156--15624 Score: 669
Period size: 181 Copynumber: 2.6 Consensus size: 181
15146 GATCCAAATT
* * * *
15156 AAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAA-CGGTATA-GAAATGATA
1 AAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGATA
* * * * *
15219 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
15284 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTAA
*
15337 AAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
1 AAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
* * * *
15402 AATCGGTAAAAACGTTACCTGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AACCGGT-AAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
15466 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** *
15518 AAAAAATATCGATCCAAAACGATATAACAGGTAAAAATATGAT-AAACCGGTATCAAAATGATAA
1 AAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
* *
15582 ACCCGGTAAAATGATA-CGGATATATTGAAAGTGTCGATACTTT
66 AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
15625 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
178 26 0.10
179 7 0.03
180 25 0.10
181 89 0.34
182 81 0.31
183 31 0.12
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:17804 original size:21 final size:21
Alignment explanation
Indices: 17778--17842 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
17768 AAGACAATCA
*
17778 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
17799 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
17820 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
17841 AG
1 AG
17843 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:17918 original size:33 final size:32
Alignment explanation
Indices: 17876--17940 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
17866 AAATAGATGG
*
17876 AGTGGGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
17908 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGG-GAAAGAAGTAGAGGTGTTAAGGGGTGA
17941 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (32 bp):
AGTGGGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:19767 original size:19 final size:18
Alignment explanation
Indices: 19724--19769 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
19714 TGTAGGGTTA
19724 ATTTTGTATAAGATTTAT
1 ATTTTGTATAAGATTTAT
*
19742 ATTTTGTATACGATTTAT
1 ATTTTGTATAAGATTTAT
19760 ATTTTTGTAT
1 A-TTTTGTAT
19770 GTGAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (18 bp):
ATTTTGTATAAGATTTAT
Found at i:20231 original size:200 final size:200
Alignment explanation
Indices: 19888--20893 Score: 1863
Period size: 200 Copynumber: 5.0 Consensus size: 200
19878 CAATATGGCC
* *
19888 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
19953 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
20018 GAATATGTCTAAATAATGCGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCTGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
20083 TGGAA
196 TGGAA
20088 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* * *
20153 CCAAAAGTATAATGTAATATGCAATTTTCCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
20218 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
20283 TGGAA
196 TGGAA
20288 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
20353 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
20418 GAATATGTCTAAATAATGTGTCGATACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
20483 TGGAA
196 TGGAA
* *
20488 AACAGGGTGCAACCATAAACTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
20553 ACAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
20618 GAATATGTCTAAAT-ATGTGTCGACAC-TTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
20681 TGGAA
196 TGGAA
20686 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
20751 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
**
20816 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTTTATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
20881 TGGAA
196 TGGAA
20886 AACAGGGT
1 AACAGGGT
20894 ATTATTATTT
Statistics
Matches: 784, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
198 183 0.23
199 23 0.03
200 578 0.74
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
TGGAA
Found at i:23021 original size:183 final size:183
Alignment explanation
Indices: 22746--23238 Score: 891
Period size: 183 Copynumber: 2.7 Consensus size: 183
22736 GCAATGCTAT
* *
22746 CGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
22811 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAACGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAACGTGTCGAC
22875 AGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
130 AGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
22929 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
22994 GTGTCGGTACTTAATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTTAAAAA-GTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCA-TTTAAAAACGTGTCGAC
* *
23058 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 AGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
23112 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
23177 GTGTCGGTACTTTATGTCCAGATTGGTAGAAAAATGTGTCGATACCATTTAAAAACGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAACGTGTCG
23239 GTAATTTTAA
Statistics
Matches: 299, Mismatches: 8, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
182 8 0.03
183 282 0.94
184 7 0.02
185 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAACGTGTCGACA
GTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:24808 original size:23 final size:23
Alignment explanation
Indices: 24777--24849 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
24767 ATAGGTAAAA
*
24777 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
24800 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
24823 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
24846 ATAT
1 ATAT
24850 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:25255 original size:22 final size:22
Alignment explanation
Indices: 25206--25277 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
25196 TATAGGTAAA
* *
25206 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCG-TT
*
25229 ATATAATGTAATATGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
25251 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TCGTT
25274 ATAT
1 ATAT
25278 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:25665 original size:23 final size:23
Alignment explanation
Indices: 25634--25706 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
25624 ATAGGTAAAA
*
25634 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
25657 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
25680 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
25703 ATAT
1 ATAT
25707 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:25843 original size:429 final size:430
Alignment explanation
Indices: 24575--26907 Score: 4412
Period size: 428 Copynumber: 5.4 Consensus size: 430
24565 GTTAATGTTG
24575 TTAAATTTAAATTCTAAATATTATTTTAT-AAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
24639 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
24704 AATTACATAACTTTAAACAAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
24769 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
24834 TAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
24899 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
24964 GTCTAATGATTTATTTTTTACGTTCCGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
25004 TTAAATTTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAA-TTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
25069 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
25134 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT-A
130 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
25198 TAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCG-TTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
25261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
25326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
25391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
25432 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
25497 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAATATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
25561 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
25626 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
25691 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATATTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
25756 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
25821 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTG
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
25861 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
25926 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
25990 AATTACATAACTTTAAACAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
26054 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
26119 TAGGTAGTGGTTATATTGTAAAGTATCTATTCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
26184 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
26249 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTG
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
26289 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
26354 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
26419 AATTACATAACTTTAAACAAAGTATAGATCCTTTTTATAAAAAGTATGTACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
26484 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
26549 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
*
26614 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATACTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
26679 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
26719 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
*
26784 ATGAAATTATTAAATTCATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
26848 AAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAA
130 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
26908 CATATTATAA
Statistics
Matches: 1870, Mismatches: 26, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
426 78 0.04
427 113 0.06
428 608 0.33
429 436 0.23
430 374 0.20
431 261 0.14
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (430 bp):
TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:26093 original size:23 final size:23
Alignment explanation
Indices: 26062--26134 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
26052 ATAGGTAAAA
*
26062 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26085 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26108 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
26131 ATAT
1 ATAT
26135 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:26227 original size:857 final size:855
Alignment explanation
Indices: 24575--26912 Score: 4401
Period size: 857 Copynumber: 2.7 Consensus size: 855
24565 GTTAATGTTG
24575 TTAAATTTAAATTCTAAATATTATTTTAT-AAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
24639 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
24704 AATTACATAACTTTAAACAAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
24769 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
24834 TAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
24899 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
24964 GTCTAATGATTTATTTTTTACGTTCCGATATATATTATTATTAAATTTTAAATTCTAAATATTAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA-TTTAAATTCTAAATATTAT
25029 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
455 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
25094 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTA
520 GGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTA
25159 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATATAGGTAAAATATGATGTAATAGGTAG
584 TCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATATAGGTAAAATATGATGTAATAGGTAG
*
25224 CGCTTATATAATGTAATATGTATCGTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
648 CGCTTATATAATGTAATAGGTATCGTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
25289 TATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
713 TATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
25354 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
778 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
25419 ATATATATTATTA
843 ATATATATTATTA
25432 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
*
25497 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAATATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
25561 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
25626 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
25691 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATATTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
25756 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
25821 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTATT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTTAAATTCTAAATATTATT
25886 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
456 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
*
25951 GTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATC
521 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATC
26016 GATCCTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGC
586 GATCCTTTTATAAAAAGTATGGACACTTTCAATAT-ATAGGT-AAAATATGATGTAATAGGTAGC
26081 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
649 GCTTATATAATGTAATAGGTATCG-TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATC
*
26146 TATTCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
713 TATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTT
26211 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
778 TGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG
*
26276 ATATATATTATTG
843 ATATATATTATTA
26289 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
26354 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
26419 AATTACATAACTTTAAACAAAGTATAGATCCTTTTTATAAAAAGTATGTACACTTTCAATATAAT
131 AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
26484 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
26549 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
*
26614 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATACTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
26679 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT-TAAATTCTAAATATTAT
* *
26744 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTCATATTGTA
455 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTA
26809 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTAT
520 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTAT
* * *
26874 CGATCATTTTTATAAAAAGTATGAACACTTTCAACATAT
585 CGATC-CTTTTATAAAAAGTATGGACACTTTCAATATAT
26913 TATAATGTAA
Statistics
Matches: 1449, Mismatches: 25, Indels: 12
0.98 0.02 0.01
Matches are distributed among these distances:
854 30 0.02
855 54 0.04
856 151 0.10
857 636 0.44
858 400 0.28
859 150 0.10
860 28 0.02
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (855 bp):
TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTTAAATTCTAAATATTATT
TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATC
GATCCTTTTATAAAAAGTATGGACACTTTCAATATATAGGTAAAATATGATGTAATAGGTAGCGC
TTATATAATGTAATAGGTATCGTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTAT
CCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGA
GTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATA
TATATTATTA
Found at i:26523 original size:23 final size:23
Alignment explanation
Indices: 26492--26564 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
26482 ATAGGTAAAA
*
26492 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26515 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
26538 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
26561 ATAT
1 ATAT
26565 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:28022 original size:27 final size:28
Alignment explanation
Indices: 27966--28022 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
27956 GACAAGTCAA
27966 ATATACTAACAAACATCATTAAAAACTC
1 ATATACTAACAAACATCATTAAAAACTC
*
27994 ATATTCTAACATAACA-C-TTAAAAACTC
1 ATATACTAACA-AACATCATTAAAAACTC
28021 AT
1 AT
28023 TTTTTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.44
28 11 0.41
29 4 0.15
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (28 bp):
ATATACTAACAAACATCATTAAAAACTC
Found at i:31723 original size:49 final size:46
Alignment explanation
Indices: 31608--31725 Score: 114
Period size: 49 Copynumber: 2.5 Consensus size: 46
31598 TTCATTTGGG
* *
31608 CATCCTTTCATACC-CATTATGTATTGTTTACGATTTTCCTTTATGA
1 CATCCTTTCATACCAC-TTATGCATTGTTTACGATTTTCCTATATGA
* * * * *
31654 AATCCATTCATACTAATTATGCATTGTTGTAC-ATTTTATATCTATATGA
1 CATCCTTTCATACCACTTATGCATTGTT-TACGA-TTT-T-CCTATATGA
31703 CATCCTTTCATACCACTTATGCA
1 CATCCTTTCATACCACTTATGCA
31726 CCGTTTATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
46 23 0.41
47 6 0.11
48 1 0.02
49 26 0.46
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (46 bp):
CATCCTTTCATACCACTTATGCATTGTTTACGATTTTCCTATATGA
Found at i:31872 original size:81 final size:81
Alignment explanation
Indices: 31785--36944 Score: 6228
Period size: 81 Copynumber: 63.8 Consensus size: 81
31775 CATTTAACAT
* * * * * * *
31785 TTCATCTAACTTGCATGATTGACACCTTTCTGCCAAATGCAAAACTAGGCCATTTCTCTTTTGCT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
31850 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * *
31866 TTCATCTAACTGACATAATTGACACCTTTCTTCCAAATGCACATCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
31931 CAACGGTCTTTAATCG
66 CAACGGTCTTTAACCG
* *
31947 TTCATCTAACTGGCATAATTGACAGATTTCTGCCAAATGCACATCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
32012 CAACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
** * * * * *
32028 TTCATCTAACAAGCATAATAT-ACACATTTCTTCCAAATACACAACTATGCCATTTATTTTTTAC
1 TTCATCTAACTGGCATAAT-TGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* * **
32092 TTAATGGTCTTTAATTG
65 TCAACGGTCTTTAACCG
* * * * *
32109 TTTATCTAACTGGAATAATTAACATC-TTTCTGCCAAATGCACAACTAGGTCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* *
32173 TTAATGGTCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * * *
32190 TTCATTTAACTGTCATAATTGACACCTTTCTGCCAAATGTATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
32255 CAACGGTCTTTAACTG
66 CAACGGTCTTTAACCG
** * * *
32271 TTCATCTAACTAACATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCATTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
32336 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * * *
32352 TTCATCTAACTGGTATAATTTACACCTATATGCCAAATGCAAAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
32417 CAATGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * *
32433 TTCATCTAACTAGCACAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
32498 CAACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
** *
32514 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGAAATTTATATTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
32579 CAACGGTCATTAACCA
66 CAACGGTCTTTAACCG
* * * **
32595 TTCATCTAACTGGCATAATTAACATATTTCTGCCAAATGCACAGTTAGATCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
32660 CAACGGTCTTTAACAG
66 CAACGGTCTTTAACCG
* * *
32676 TTCATCTAACTAGCATAATTGACATC-TTTCTGCCAAATGCACAGTTAGGCCATTTATCTTTTAT
1 TTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* *
32740 TCAACAGTCTTTAACCA
65 TCAACGGTCTTTAACCG
*** * * * * * * *
32757 TTCATCTAGGAGGCATAACTGACACCTTTATGCCAAATACACAGCTAGTCCATTTTTCTTTTGCT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
32822 CAACGATCTTTAATCA
66 CAACGGTCTTTAACCG
** * **
32838 TTCATCTAACTGGCGCAATTGACACCTCTT-TGCCAAATATACAGCTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACAT-TTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
** *
32902 TCAACAATCCTTAATCC-
65 TCAACGGTCTTTAA-CCG
* * * * * * *
32919 TTAATATAACTGGCATAATTGGCACATTTCTACCAAATACACAACTAGGCTATTTATCTTTCT-C
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTT-TAC
* * *
32983 TTAATGATCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * * * *
33000 TT-ATCTAACTGGCATAATTGACATATTTCTGTCAAATGAACAACTAGGCCATTTATCTCTTACG
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
33064 GAACGGTCTTTAACTG
66 CAACGGTCTTTAACCG
* * * * * *
33080 TTCATCTAACTCGCACAAATAACACATTTCTTCTAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
33145 CAACGGTCTTTCACCG
66 CAACGGTCTTTAACCG
* * * * * * *
33161 TTTATCTAACTGGCATAATTGACGCATTTCTTCCAGATACACAACTAGGCAATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
33226 CAACGATCATTAACCG
66 CAACGGTCTTTAACCG
* ** *
33242 TTCATCTAACTGACATAATTGACACATTTCTGATAAATGCACAGCTAGGCTATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
33307 CAAAGTTCTTTAACCA
66 CAACGGTCTTTAACCG
* * *
33323 TTCATCTAACTGGTATAATTGACATATTTCTGCCAAATGCACAGCTAGGCCAATTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
33388 CAACTGTCTTTAACTG
66 CAACGGTCTTTAACCG
* * * * *
33404 TTCATCCAACTGGCTTAATTGACACATTTCTGCCAAATGCATAGCTAGGCTATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
33469 CAACGATCTTTAACCG
66 CAACGGTCTTTAACCG
* * ** *
33485 TTCATCTAACTAGCATAATTGACATATTTCTGCCAAAAACACAGCTAGGCCATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
33550 CAACGATCTTTAACTG
66 CAACGGTCTTTAACCG
* * * * * *
33566 TTCATATAACTGGCACAATTGACACCA-TTCTACCAAATACACAGCTAGTCCATTTTTCTTTTAC
1 TTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
33630 TCAACGATCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * * *
33647 TTCATCTAACTGGCACAATTGACACCTTTCAGCCAAATGCATAGCTAGGCCACTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
33712 CAATGATCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * * * *
33728 TTTATCTAACTAGCATAACTCAAACCTTTATGCCAAATGCACAGCTAGGCCATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
33793 CAA-GGATCTTTAACTG
66 CAACGG-TCTTTAACCG
* * * * *
33809 TTCGTCTAACAT-GCATAATTGAAACCTTTCT-CCTAAATGCAGAACTAGGCCATTTATCTTTTA
1 TTCATCTAAC-TGGCATAATTGACACATTTCTGCC-AAATGCACAGCTAGGCCATTTATCTTTTA
* * * *
33872 CTCTATGGTCTTTATCTG
64 CTCAACGGTCTTTAACCG
* * * * *
33890 TTCATCTAACTGGCATAATTGACACTTTTTTGCGAAATGTACATCTAGGCCA-TTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* **
33954 CAACGGTTTTTAATTG
66 CAACGGTCTTTAACCG
* * * * * *
33970 TTTATCTAATTGACATGATTGAAACATTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
34035 CAACGGTCTTTATCCG
66 CAACGGTCTTTAACCG
* * * * * *
34051 TTCATCTAACTGGCATAATTTACACCTTTCTTCCAAATG-AAAACTAGGCCATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
34115 CAACGATATTTAACCT
66 CAACGGTCTTTAACCG
* * * * *
34131 TTCATCTAACTAGCACAATTGACACTTTTCTACCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
34196 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * *
34212 TTCATCTAACTTGAATAACTGACACATTTCTACCAAATGCACAGCTAGGCAATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
34277 CAAGGGTCATTAATCG
66 CAACGGTCTTTAACCG
* * * *
34293 TTCATCTAACTAGCATAATTGACAGATTTCTGCCAAATGTACAGCAAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
34358 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * *
34374 TTCATCTAACTGGCAAAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
34439 CAACTGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * ** *
34455 TTCATCTAACTGGCATAACTGACACCTTT-AACCAAATGCATAGCTAGGCCATTT-T-TTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
34517 CAACGATCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * *
34533 TTCCTCTAACTGGCACAATTGACACCTTTCTGCCAAATACATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
34598 CAACGATTTTTAACTG
66 CAACGGTCTTTAACCG
* * *
34614 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCATAGCTAAGCAATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
34679 CAACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * * * *
34695 TTCATATAACTAGCATAATTGACATATTTATGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
34760 CAATGGTTTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * * *
34776 TTCATCTAATTGACATAATTGACTCCTTTCTGCCAAATTCATAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
34841 CAACGGTTTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * *
34857 TTCATCTAACTAGCATAGTTGACATATTTCTTCCAAATGCACAACTAGGCAATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * *
34922 CAACTGTCATTAAACA
66 CAACGGTCTTTAACCG
* * * *
34938 TTCATCTAATTGGCATAATTGACACATTTCTACTAAATGCACAGCTACGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
**
35003 CAGTGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * * *
35019 TTAATCTAACTGGCATAATTGACATATTTCTGCCAAATACAGAGCTTGACCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* **
35084 CAACGTTCTTTAATTG
66 CAACGGTCTTTAACCG
* * * *
35100 TTCATCTAACTGGCATAATTGACATC-TTTCGGCCTAATGCACAGCTATGCCAGTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* * *
35164 TCAACTGTCTTAAACTG
65 TCAACGGTCTTTAACCG
* * * * * * * * *
35181 TTAATATAACTGACTTAATTGACTCATATATGCCAAATGCACAG-TAAGACTATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCT-AGGCCATTTATCTTTTAC
*
35245 TCAATGGTCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * * *
35262 TTCATCGAACT-GCATAATTGACACATTTCTTCCAAATGCATAACTAGGCCATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
35326 CAACAATTTTTAACCG
66 CAACGGTCTTTAACCG
* * *
35342 TTCATCTAACTGGCACAATTGACACTTTTCTGTCAAATGCACAGCTAGGCCATGTT-TCTTTTAC
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCAT-TTATCTTTTAC
* *
35406 ACAACGATCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * * * * *
35423 TTCATCCAATTGGCACAATTGACATC-TTTCTTCCAAATACACAGCTAGTCCATTTATCTATTAC
1 TTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* *
35487 TCAATGGATCTTTAATCG
65 TCAACGG-TCTTTAACCG
* * * * *
35505 TTCATCTAACTGGCATAACTGACACCTTTATGCCAAATGCACAGCTAGCCCATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * *
35570 TAACGATCTTTAATCA
66 CAACGGTCTTTAACCG
* * *
35586 TTCATCTAACTGGTATAATTGACA-ACTTTCTTCCAAATGCATAGCTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACA-TTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* *
35650 TCAACGATCTTTAATCG
65 TCAACGGTCTTTAACCG
* * * *
35667 TTCATCTAACTAGCATAATTGACATATTTCTGCCAAATGCACAGCTAGGCAATTTATCTTTTTCT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
35732 CAACGGTCATTAATCA
66 CAACGGTCTTTAACCG
*
35748 TTCATCTAACTGGCATAATTGCCACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
**
35813 CAGTGGTCTTTAACCG
66 CAACGGTCTTTAACCG
*
35829 TTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
35894 CAACATTCTTTAACTG
66 CAACGGTCTTTAACCG
* * * *
35910 TTCATCTAACTTGCATAATTGACACCTTTATGCCAAATGTACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
35975 -AAGCGGTCTTTAACCG
66 CAA-CGGTCTTTAACCG
* * *
35991 TTCATCTAACTGGCAAAATTGACACATTTCTGCCAAATGCATAGCTAGGCCATTTATCTTGTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
36056 CAACGACCTTTTACCG
66 CAACGGTCTTTAACCG
*
36072 TTTATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
36137 CAAGGGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * * * * * *
36153 TTCATCTAACTGGTATAACTGACACCTTTATGCCAAATGGACAGCTAGGCGATTTTTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * *
36218 CAACGATTTTTAGCCA
66 CAACGGTCTTTAACCG
* * *
36234 TTCATCTAACTGGCACAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
36299 CAACGGTCTTTAGCCG
66 CAACGGTCTTTAACCG
* * * **
36315 TTCATCTAACTAGCATAATTGACACATTTATGCCAGATGCACAGCTAGGTAATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
36380 CAACGGTCATTAACCG
66 CAACGGTCTTTAACCG
* * *
36396 TTCATCTAAATGGCATAATTGACACATTTCTGCCAAATGCATAGCTAGGCCATTTATCTTTTAGT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
36461 -AAGTGGTCTTTAACAG
66 CAA-CGGTCTTTAACCG
* * *
36477 TTCATCTAACTAGCATAATTGACACATTTCTGCCAAATGCATAGCTAGACCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
36542 CAATGATCTTTAACCA
66 CAACGGTCTTTAACCG
* * * *
36558 TTCATCTAACTGGCATTATTGACACCTTTCTGCCAAATGCACAGCTAGGCCAGTTAGCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
36623 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* *
36639 TTTATATAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
36704 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
36720 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
36785 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * *
36801 TTCATCTAACTGGCATGATTGACACCTTTCTGCGAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
36866 TAACGGTCTTTAATCG
66 CAACGGTCTTTAACCG
* * * *
36882 TTCATCTAACTGGCATAATTAACACATTTCTGCCAAATGCCCAACTAGACCATTTATCTTTTA
1 TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTA
36945 ATCTTAGAAT
Statistics
Matches: 4357, Mismatches: 680, Indels: 84
0.85 0.13 0.02
Matches are distributed among these distances:
78 47 0.01
79 24 0.01
80 302 0.07
81 3900 0.90
82 84 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:37302 original size:55 final size:54
Alignment explanation
Indices: 37145--37305 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 54
37135 ACATTTATTT
* * * **
37145 CCCATACGAAAATTTATAGACTTAGTATGAATTTCTTAGTTCGCACACCGAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACATAGTG
* * * *
37199 CCCATAAGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTCACACATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTT-AGTTTGCACACATAGTG
* *
37254 CCCATACGAAAATTCATACACTTAGTATGAAATCCTTAGTGTTGCACACATA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGT-TTGCACACATA
37306 TAGTGCCATT
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 35 0.39
55 55 0.61
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (54 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACATAGTG
Found at i:37908 original size:44 final size:44
Alignment explanation
Indices: 37841--37936 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
37831 CATGCTTCGA
* * * *
37841 TATCGATA-TACTATACATAGTAGTATCGATACTCCTTGTATGG
1 TATCGATACTATTATACATAGTAGTATCAATACTCCTTGGACGG
*
37884 TATTGATACTATTATACATAGTAGTATCAATACTCCTTGGACGG
1 TATCGATACTATTATACATAGTAGTATCAATACTCCTTGGACGG
37928 TATCGATAC
1 TATCGATAC
37937 CGTTTGGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 7 0.15
44 39 0.85
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (44 bp):
TATCGATACTATTATACATAGTAGTATCAATACTCCTTGGACGG
Found at i:48294 original size:40 final size:40
Alignment explanation
Indices: 48226--48374 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
48216 ACCGTAGTGC
* *
48226 TACACATAAGGTTGTG-CCACCATATACACCAAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTACAT
* **
48265 TACACATAAGGTCGTGCTCACCATATACACCGAAA-TTTAT
1 TACACATAAGGTCGTGCCCACCATATACACC-AAAGTACAT
* * *
48305 TACACATAAGTTCATGCCCACCATATACACTAAAGTACAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTACAT
*
48345 TACACATAAGGTTGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
48375 TTAGTGTCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 18 0.19
40 73 0.78
41 3 0.03
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTACAT
Found at i:48367 original size:80 final size:79
Alignment explanation
Indices: 48226--48374 Score: 228
Period size: 80 Copynumber: 1.9 Consensus size: 79
48216 ACCGTAGTGC
* * *
48226 TACACATAAGGTTGTGCCACCATATACACCAAAGTGCATTACACATAAGGTCGTGCTCACCATAT
1 TACACATAAGGTTATGCCACCATATACACCAAAGTACATTACACATAAGGTCGTGCCCACCATAT
48291 ACACCGAAATTTAT
66 ACACCGAAATTTAT
* *
48305 TACACATAA-GTTCATGCCCACCATATACACTAAAGTACATTACACATAAGGTTGTGCCCACCAT
1 TACACATAAGGTT-ATG-CCACCATATACACCAAAGTACATTACACATAAGGTCGTGCCCACCAT
48369 ATACAC
64 ATACAC
48375 TTAGTGTCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 3 0.05
79 11 0.17
80 49 0.78
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (79 bp):
TACACATAAGGTTATGCCACCATATACACCAAAGTACATTACACATAAGGTCGTGCCCACCATAT
ACACCGAAATTTAT
Found at i:48726 original size:24 final size:24
Alignment explanation
Indices: 48693--48740 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48683 GTCTTCCTTG
*
48693 TGATGTATAAAACATCTATGTACA
1 TGATGCATAAAACATCTATGTACA
48717 TGATGCATAAAACATCTATGTACA
1 TGATGCATAAAACATCTATGTACA
48741 ATGTCATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (24 bp):
TGATGCATAAAACATCTATGTACA
Found at i:57058 original size:22 final size:22
Alignment explanation
Indices: 56997--57058 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
56987 GGCATATGAA
*
56997 ATATGTCCCGAAGGACCAATGC
1 ATATGTCCCGAAGGACCTATGC
* *
57019 ATATGTCCCGAAAGACCTATGT
1 ATATGTCCCGAAGGACCTATGC
*
57041 ATATGTCCCGTAGGACCT
1 ATATGTCCCGAAGGACCT
57059 CTTTAACCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (22 bp):
ATATGTCCCGAAGGACCTATGC
Found at i:61058 original size:24 final size:25
Alignment explanation
Indices: 61025--61076 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
61015 TGAATAATTA
* *
61025 AATGATTTGGATAATTGGTGTTTTG
1 AATGATTTGGATAATTAGTATTTTG
*
61050 AATG-TTTGGATGATTAGTATTTTG
1 AATGATTTGGATAATTAGTATTTTG
61074 AAT
1 AAT
61077 TTGAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (25 bp):
AATGATTTGGATAATTAGTATTTTG
Found at i:62526 original size:20 final size:20
Alignment explanation
Indices: 62501--62553 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
62491 TGACTCAATA
*
62501 GTATCGATACCATCCTCATG
1 GTATCGATACCACCCTCATG
*
62521 GTATCGATACTC-CCCTCTTG
1 GTATCGATAC-CACCCTCATG
62541 GTATCGATACCAC
1 GTATCGATACCAC
62554 TTGAATAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCGATACCACCCTCATG
Found at i:63846 original size:23 final size:20
Alignment explanation
Indices: 63799--63849 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
63789 AATCTTTTGG
63799 AGTTGTTGGGGATAAATTAT
1 AGTTGTTGGGGATAAATTAT
*
63819 AGTTGTTGGTGATAAATTAT
1 AGTTGTTGGGGATAAATTAT
63839 AGTTGTTGGGG
1 AGTTGTTGGGG
63850 TAGTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.41
Consensus pattern (20 bp):
AGTTGTTGGGGATAAATTAT
Found at i:66953 original size:21 final size:22
Alignment explanation
Indices: 66924--66973 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
66914 TATCTTAGAG
*
66924 AAATTTATTT-TTATATTA-TAA
1 AAATATATTTATTA-ATTATTAA
66945 AAATATATTTATTAATTATTAA
1 AAATATATTTATTAATTATTAA
66967 AAATATA
1 AAATATA
66974 AAAGTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATATTTATTAATTATTAA
Found at i:67179 original size:44 final size:45
Alignment explanation
Indices: 67100--67184 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
67090 TGGATCAACG
* *
67100 TAAAGTATTTCACCCTTCAATTATTTTATAAACTTTCATCATACA
1 TAAAGTATTTCACCCGTCAATTATCTTATAAACTTTCATCATACA
* *
67145 TAAAGTATTTCA-CCGTCAATTATCTTGTATACTTTCATCA
1 TAAAGTATTTCACCCGTCAATTATCTTATAAACTTTCATCA
67185 CTAAATCTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 24 0.67
45 12 0.33
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (45 bp):
TAAAGTATTTCACCCGTCAATTATCTTATAAACTTTCATCATACA
Found at i:67705 original size:13 final size:13
Alignment explanation
Indices: 67687--67733 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
67677 GGATAGCCAA
67687 CAAACTCAAGTTT
1 CAAACTCAAGTTT
67700 CAAACTCAAGTTT
1 CAAACTCAAGTTT
67713 CAAACTCAAGTTT
1 CAAACTCAAGTTT
67726 CAAACTCA
1 CAAACTCA
67734 TGGTACCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (13 bp):
CAAACTCAAGTTT
Found at i:69582 original size:20 final size:20
Alignment explanation
Indices: 69557--69603 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
69547 AATTTGGTAT
69557 TCTACTCAACCAAATTAATC
1 TCTACTCAACCAAATTAATC
69577 TCTACTCAACCAAATTAATC
1 TCTACTCAACCAAATTAATC
*
69597 TATACTC
1 TCTACTC
69604 TTTTAACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.32
Consensus pattern (20 bp):
TCTACTCAACCAAATTAATC
Found at i:69949 original size:3 final size:3
Alignment explanation
Indices: 69936--69998 Score: 56
Period size: 3 Copynumber: 20.0 Consensus size: 3
69926 TTTGTCTGGG
* *
69936 TTA TTA TTTA TTA TTA TTA CTA TTA TTTA ATA TTA TTA TT- TTCA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA
*
69983 TTA ATA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
69999 CATAATTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 2 0.04
3 37 0.76
4 10 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:69961 original size:19 final size:19
Alignment explanation
Indices: 69937--69973 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
69927 TTGTCTGGGT
*
69937 TATTATTTATTATTATTAC
1 TATTATTTAATATTATTAC
69956 TATTATTTAATATTATTA
1 TATTATTTAATATTATTA
69974 TTTTCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTTAATATTATTAC
Found at i:69969 original size:22 final size:22
Alignment explanation
Indices: 69944--69999 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
69934 GGTTATTATT
69944 TATTATTATTACT-ATTATTTAA
1 TATTATTATTACTCATTA-TTAA
*
69966 TATTATTATT-TTCATTATTAA
1 TATTATTATTACTCATTATTAA
69987 TATTTATTATTAC
1 TA-TTATTATTAC
70000 ATAATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTACTCATTATTAA
Found at i:72390 original size:40 final size:40
Alignment explanation
Indices: 72335--72456 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
72325 TGCAGGTTTA
72335 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
72375 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTA
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
72415 TAATACACTTAGGTGTATATGGTGGGCAAGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
72455 TA
1 TA
72457 GCAATACGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:72628 original size:24 final size:24
Alignment explanation
Indices: 72600--72672 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
72590 GTAAGTATAC
72600 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
* * ** *
72624 TGGTACAAAT--G-GTA-AATATTT
1 TGGTA-AAATAAGCTTACGAGCTTA
72645 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
72669 TGGT
1 TGGT
72673 TAATATATGG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 8 0.24
22 3 0.09
23 3 0.09
24 12 0.35
25 4 0.12
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGTAAAATAAGCTTACGAGCTTA
Found at i:72650 original size:45 final size:45
Alignment explanation
Indices: 72561--72694 Score: 175
Period size: 45 Copynumber: 3.0 Consensus size: 45
72551 GTAAGCATGC
* *
72561 AAATAAGCTTACAAGCTTATGG-AATAATGGTAAGTATACTGGTA
1 AAATAAGCTTACGAGCTTATGGTAATAATGGTAAATATACTGGTA
**
72605 AAATAAGCTTACGAGCTTATGGTACA-AATGGTAAATATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGTA-ATAATGGTAAATATACTGGTA
*
72650 AAATAAGCTTACGAGCTTATGGTTAATATATGGTAAA-ATATTGGT
1 AAATAAGCTTACGAGCTTATGG-TAATA-ATGGTAAATATACTGGT
72695 TATGCAAATA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
44 21 0.26
45 40 0.50
46 11 0.14
47 8 0.10
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGTAATAATGGTAAATATACTGGTA
Found at i:74590 original size:13 final size:13
Alignment explanation
Indices: 74572--74599 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74562 TGATAACAAC
74572 AATGGTTGCGATT
1 AATGGTTGCGATT
74585 AATGGTTGCGATT
1 AATGGTTGCGATT
74598 AA
1 AA
74600 GTTGATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (13 bp):
AATGGTTGCGATT
Found at i:79835 original size:40 final size:40
Alignment explanation
Indices: 79716--79837 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
79706 TGCAGGTTTA
*
79716 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTC
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
79756 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * * *
79796 TAATACACTTCGGGGTATATTGTGGGCAAGGCCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
79836 TA
1 TA
79838 GCACTACGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:80051 original size:45 final size:44
Alignment explanation
Indices: 79942--80052 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 44
79932 GTAAGCATGC
*
79942 AAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATACTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGGTAAATATACTGGTA
* * * * **
79986 AAATAAGCTAAAGAGATTATGTTACA-AATGGTAAATATTTTGGTA
1 AAATAAGCTTACGAGCTTATG-GA-ATAATGGTAAATATACTGGTA
80031 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
80053 TTAATAAATG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
44 18 0.33
45 35 0.65
46 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGTAAATATACTGGTA
Found at i:81952 original size:13 final size:13
Alignment explanation
Indices: 81936--81963 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
81926 TGATATCAGC
81936 AATGGTTGCGATT
1 AATGGTTGCGATT
81949 AATGGTTGCGATT
1 AATGGTTGCGATT
81962 AA
1 AA
81964 GATGATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (13 bp):
AATGGTTGCGATT
Found at i:87133 original size:40 final size:40
Alignment explanation
Indices: 87073--87234 Score: 261
Period size: 40 Copynumber: 4.0 Consensus size: 40
87063 TGCAGGTTTA
*
87073 TAATTCACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
87113 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * *
87153 TAATACACTTCGGTGTATGTGGTGGGTACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * *
87193 TAATACACTTCAGTGTATATGGTGGGCACGAGCTTATATG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
87233 TA
1 TA
87235 GCACTACGGT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:87406 original size:24 final size:24
Alignment explanation
Indices: 87378--87450 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
87368 GTAAGTATAT
87378 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
* ** *
87402 TGGTACAAAT--G-TTA-AATATTT
1 TGGTA-AAATAAGCTTACGAGCTTA
87423 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
87447 TGGT
1 TGGT
87451 TAATAAATGG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 4 0.11
21 8 0.22
22 4 0.11
23 4 0.11
24 12 0.33
25 4 0.11
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGTAAAATAAGCTTACGAGCTTA
Found at i:87440 original size:45 final size:45
Alignment explanation
Indices: 87339--87472 Score: 175
Period size: 45 Copynumber: 3.0 Consensus size: 45
87329 GTAAGCATGC
** *
87339 AAATAAGCTTACGAGCTTACAG-AATAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGTAATAATGGTAAATATATTGGTA
* *
87383 AAATAAGCTTACGAGCTTATGGTACA-AATGTTAAATATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGTA-ATAATGGTAAATATATTGGTA
87428 AAATAAGCTTACGAGCTTATGGTTAATAAATGGTAAA-ATATTGGT
1 AAATAAGCTTACGAGCTTATGG-TAAT-AATGGTAAATATATTGGT
87473 TATGCAAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
44 20 0.26
45 40 0.51
46 10 0.13
47 8 0.10
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGTAATAATGGTAAATATATTGGTA
Found at i:88510 original size:20 final size:20
Alignment explanation
Indices: 88485--88525 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88475 CTCCATCCGA
*
88485 CGAGGGAGGGAAGAGAGAAG
1 CGAGGGAAGGAAGAGAGAAG
88505 CGAGGGAAGGAAGAGAGAAG
1 CGAGGGAAGGAAGAGAGAAG
88525 C
1 C
88526 CAAAGGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.51, T:0.00
Consensus pattern (20 bp):
CGAGGGAAGGAAGAGAGAAG
Found at i:89709 original size:15 final size:15
Alignment explanation
Indices: 89689--89717 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89679 TTTTTATCTT
89689 TTAAAATTATTTTTC
1 TTAAAATTATTTTTC
89704 TTAAAATTATTTTT
1 TTAAAATTATTTTT
89718 AAAAGGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAAATTATTTTTC
Found at i:96768 original size:26 final size:26
Alignment explanation
Indices: 96712--96768 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
96702 GTCCAGTTTA
* *
96712 CTTTATCCTCACTCTCTCATTTTTAT
1 CTTTATCCTCACTCTCTAATTTTAAT
*
96738 CTTTATCCTCA-TCTTTTAATTTTAAT
1 CTTTATCCTCACTC-TCTAATTTTAAT
*
96764 TTTTA
1 CTTTA
96769 AACCCCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (26 bp):
CTTTATCCTCACTCTCTAATTTTAAT
Found at i:98424 original size:16 final size:16
Alignment explanation
Indices: 98403--98436 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98393 GACTGGGTTG
98403 ATGCATTTGACATTTT
1 ATGCATTTGACATTTT
*
98419 ATGCATTTGTCATTTT
1 ATGCATTTGACATTTT
98435 AT
1 AT
98437 TTGCATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (16 bp):
ATGCATTTGACATTTT
Found at i:98479 original size:12 final size:12
Alignment explanation
Indices: 98451--98483 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
98441 ATTTGCATGT
*
98451 TGTTAAGCATTA
1 TGTTTAGCATTA
98463 TGTTTAGCATTA
1 TGTTTAGCATTA
98475 TGTTT-GCAT
1 TGTTTAGCAT
98484 ATTGTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (12 bp):
TGTTTAGCATTA
Found at i:111645 original size:19 final size:19
Alignment explanation
Indices: 111604--111645 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
111594 CATTTAATGT
* *
111604 TGTTTGCATTGTTTATTAG
1 TGTTTACATTGTTTATGAG
111623 TGTTTACATTGTTATATGA-
1 TGTTTACATTGTT-TATGAG
111642 TGTT
1 TGTT
111646 AAGCATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (19 bp):
TGTTTACATTGTTTATGAG
Found at i:112856 original size:65 final size:66
Alignment explanation
Indices: 112764--112911 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 66
112754 AATTAAATTT
* * * * *
112764 AAAAATATAAATCAAAGAAGGAAATATTAAATTT-TA-AAAAAAT-GTTATATAAAAATTGTTAA
1 AAAAATA-AAAT-AAAGAAGAAAATATTAAATTTCAAGAAAAAATAATGAAATAAAAA-TGTTAA
112826 AAGA
63 AAGA
112830 AAAAATAAAATAAATGAAGAAAATATTAAATTTCAAGAAAAAATAATGAAATAAAAATGTTAAAA
1 AAAAATAAAATAAA-GAAGAAAATATTAAATTTCAAGAAAAAATAATGAAATAAAAATGTTAAAA
112895 GA
65 GA
*
112897 GAAAATAAAAATAAA
1 AAAAAT-AAAATAAA
112912 AAAGTGGGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 3 0.04
65 21 0.30
66 8 0.11
67 22 0.31
68 17 0.24
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.24
Consensus pattern (66 bp):
AAAAATAAAATAAAGAAGAAAATATTAAATTTCAAGAAAAAATAATGAAATAAAAATGTTAAAAG
A
Done.