Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005545.1 Hibiscus syriacus cultivar Beakdansim tig00012839_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: 119722
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:6841 original size:50 final size:50
Alignment explanation
Indices: 6783--6908 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
6773 TTAGCAGGAA
*
6783 AGCGCGCCCCCTGCACCGCGCTATATGCTGATTTGGCGCCACGTGGGTAC
1 AGCGCGCCCCCTGCACCGCGCTATATGCTGATCTGGCGCCACGTGGGTAC
* * * * * * *
6833 AGCGCGCCCCTTGCCCCGCGATATACGGTGATCTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATATGCTGATCTGGCGCCACGTGGGTAC
6883 AGCGCGCCCCCTG-ATCCGCGCTATAT
1 AGCGCGCCCCCTGCA-CCGCGCTATAT
6909 CTGGATATCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATATGCTGATCTGGCGCCACGTGGGTAC
Found at i:7114 original size:8 final size:8
Alignment explanation
Indices: 7101--7127 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
7091 GCTGATGCGA
7101 TAACATTT
1 TAACATTT
7109 TAACATTT
1 TAACATTT
7117 TAACATTT
1 TAACATTT
7125 TAA
1 TAA
7128 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (8 bp):
TAACATTT
Found at i:8651 original size:50 final size:50
Alignment explanation
Indices: 8597--8708 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
8587 TAGCGCGGAT
* * * *
8597 CAGGGGGCGCGCTATACCCACGTGGCGCCAGATCACCGTATATCGCAGGG
1 CAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGCGCAGGG
* *
8647 CAGGGGGCGCGCTATACCCACGTGACGCCAAATCAGCATATAGCGCAGTG
1 CAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGCGCAGGG
*
8697 CACGGGGCGCGC
1 CAGGGGGCGCGC
8709 GCTTTCCTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.21, C:0.32, G:0.34, T:0.12
Consensus pattern (50 bp):
CAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGCGCAGGG
Found at i:13745 original size:89 final size:89
Alignment explanation
Indices: 13636--13842 Score: 387
Period size: 89 Copynumber: 2.3 Consensus size: 89
13626 CAAACTAGTT
* * *
13636 AAAAAGCGTCGCAAAGCCAATATTCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGACCAAC
1 AAAAAGCATCGCAAAGCCAATAATCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGACCAAA
13701 CCCATAATTTAACCCATATGGTTA
66 CCCATAATTTAACCCATATGGTTA
13725 AAAAAGCATCGCAAAGCCAATAATCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGACCAAA
1 AAAAAGCATCGCAAAGCCAATAATCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGACCAAA
13790 CCCATAATTTAACCCATATGGTTA
66 CCCATAATTTAACCCATATGGTTA
13814 AAAAAGCATCGCAAAGCCAATAATCCCGG
1 AAAAAGCATCGCAAAGCCAATAATCCCGG
13843 GACCTTTGAT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 115 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.19
Consensus pattern (89 bp):
AAAAAGCATCGCAAAGCCAATAATCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGACCAAA
CCCATAATTTAACCCATATGGTTA
Found at i:13748 original size:40 final size:40
Alignment explanation
Indices: 13704--13837 Score: 94
Period size: 40 Copynumber: 3.1 Consensus size: 40
13694 GACCAACCCC
13704 ATAATTTAACCCATATGGTTAAAAAAGCATCGCAAAGCCA
1 ATAATTTAACCCATATGGTTAAAAAAGCATCGCAAAGCCA
* * * * *
13744 ATAATCCCGGTAAACCTCAAATTTGAGAATAATAAAAGGGA-C-CAAA-CCC
1 ATAAT-----TTAACC-C--ATATG-G-TTAA-AAAA-GCATCGCAAAGCCA
13793 ATAATTTAACCCATATGGTTAAAAAAGCATCGCAAAGCCA
1 ATAATTTAACCCATATGGTTAAAAAAGCATCGCAAAGCCA
13833 ATAAT
1 ATAAT
13838 CCCGGGACCT
Statistics
Matches: 69, Mismatches: 10, Indels: 30
0.63 0.09 0.28
Matches are distributed among these distances:
37 2 0.03
38 5 0.07
39 7 0.10
40 13 0.19
41 4 0.06
43 1 0.01
44 5 0.07
45 5 0.07
46 1 0.01
48 4 0.06
49 8 0.12
50 7 0.10
51 5 0.07
52 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (40 bp):
ATAATTTAACCCATATGGTTAAAAAAGCATCGCAAAGCCA
Found at i:14801 original size:20 final size:20
Alignment explanation
Indices: 14773--14814 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14763 TTTTACATGG
* *
14773 AACCGGCTGGAAACCGGTAA
1 AACCAGCTGAAAACCGGTAA
*
14793 AACCAGCTGAAAACCTGTAA
1 AACCAGCTGAAAACCGGTAA
14813 AA
1 AA
14815 TCAGTGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (20 bp):
AACCAGCTGAAAACCGGTAA
Found at i:22757 original size:33 final size:33
Alignment explanation
Indices: 22672--22776 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 33
22662 GAAAAAGTTC
* * * *
22672 ACACGAACCCGACACACGATTATGGA-AAAGTA
1 ACACGAATCCGGCACACGATTACGAAGAAAGTA
* * *
22704 AAACGAAT-CTG-ACACGATTACAAAGAAAGTA
1 ACACGAATCCGGCACACGATTACGAAGAAAGTA
22735 ACACGAATCCGGCACACGATTACGAAGAAAGTA
1 ACACGAATCCGGCACACGATTACGAAGAAAGTA
*
22768 ACACTAATC
1 ACACGAATC
22777 TGGCTCTCCT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
30 10 0.17
31 14 0.24
32 8 0.14
33 27 0.46
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (33 bp):
ACACGAATCCGGCACACGATTACGAAGAAAGTA
Found at i:33258 original size:24 final size:24
Alignment explanation
Indices: 33226--33348 Score: 115
Period size: 24 Copynumber: 5.2 Consensus size: 24
33216 CATTTAAATG
* *
33226 ATAAGCGAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
** **
33250 ATAAACGAACGGATGTAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
*
33274 ATAAACGAACAC-AATAAACGAGC
1 ATAAACGAACACAAATAAACGAAC
* *
33297 GTAAACGAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* * **
33321 GTAAACAAACAC-AATAAATAAAC
1 ATAAACGAACACAAATAAACGAAC
33344 ATAAA
1 ATAAA
33349 TGAATGTAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
23 31 0.39
24 48 0.61
ACGTcount: A:0.57, C:0.19, G:0.14, T:0.11
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACGAAC
Found at i:33302 original size:47 final size:47
Alignment explanation
Indices: 33226--33348 Score: 120
Period size: 47 Copynumber: 2.6 Consensus size: 47
33216 CATTTAAATG
* * ** **
33226 ATAAGCGAACACAAATGAACGAACATAAACGAACGGATGTAAACGAAC
1 ATAAACGAACAC-AATAAACGAACATAAACGAACACAAATAAACGAAC
* * *
33274 ATAAACGAACACAATAAACGAGCGTAAACGAACACAAATGAACGAAC
1 ATAAACGAACACAATAAACGAACATAAACGAACACAAATAAACGAAC
* * **
33321 GTAAACAAACACAATAAATAAACATAAA
1 ATAAACGAACACAATAAACGAACATAAA
33349 TGAATGTAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
47 49 0.82
48 11 0.18
ACGTcount: A:0.57, C:0.19, G:0.14, T:0.11
Consensus pattern (47 bp):
ATAAACGAACACAATAAACGAACATAAACGAACACAAATAAACGAAC
Found at i:33570 original size:24 final size:24
Alignment explanation
Indices: 33538--33591 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
33528 GATTGAGCTA
*
33538 AACATAAATGAACGCACATTAACG
1 AACATAAATGAACGCACATAAACG
*
33562 AACATAAATGAACGGACATAAACG
1 AACATAAATGAACGCACATAAACG
33586 AACATA
1 AACATA
33592 TTACCGAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.15
Consensus pattern (24 bp):
AACATAAATGAACGCACATAAACG
Found at i:35755 original size:20 final size:20
Alignment explanation
Indices: 35718--35756 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35708 GAATATTCGG
**
35718 TTAATATTTATTTTATTTTA
1 TTAATATTTATTAAATTTTA
*
35738 TTAATTTTTATTAAATTTT
1 TTAATATTTATTAAATTTT
35757 TAGAAAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTAATATTTATTAAATTTTA
Found at i:36013 original size:20 final size:20
Alignment explanation
Indices: 35978--36020 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
35968 AGGGTAAAAT
35978 AATTTTGAAATTAAAAATAAA
1 AATTTTGAAATT-AAAATAAA
*
35999 AATTTT-AATTTAAAATAAA
1 AATTTTGAAATTAAAATAAA
36018 AAT
1 AAT
36021 AGTAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTTGAAATTAAAATAAA
Found at i:36026 original size:19 final size:19
Alignment explanation
Indices: 35986--36036 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
35976 ATAATTTTGA
* **
35986 AATTAAAAATAAAAATTTT
1 AATTTAAAATAAAAATAGT
36005 AATTTAAAATAAAAATAGT
1 AATTTAAAATAAAAATAGT
36024 AA--TAAAATAAAAA
1 AATTTAAAATAAAAA
36037 ATATAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 11 0.38
19 18 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AATTTAAAATAAAAATAGT
Found at i:36325 original size:31 final size:31
Alignment explanation
Indices: 36288--36348 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
36278 AAATTATATA
* *
36288 TTTAATCATTTAATTATTTTTATAATATTAC
1 TTTAATCATTCAATTATTTTTATAAAATTAC
*
36319 TTTAATCATTCAATTATTTTTCTAAAATTA
1 TTTAATCATTCAATTATTTTTATAAAATTA
36349 TATTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTAATCATTCAATTATTTTTATAAAATTAC
Found at i:42531 original size:23 final size:22
Alignment explanation
Indices: 42505--42548 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
42495 TTACTTTTTA
42505 CTATTATTATT-TATTTATTTATG
1 CTATTA-TATTATATTT-TTTATG
42528 CTATTATATTATATTTTTTAT
1 CTATTATATTATATTTTTTAT
42549 TATATACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
CTATTATATTATATTTTTTATG
Found at i:42630 original size:2 final size:2
Alignment explanation
Indices: 42623--42648 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42613 TATATTCTAC
42623 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
42649 TTTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43836 original size:10 final size:10
Alignment explanation
Indices: 43823--43856 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
43813 TTCATTTACC
43823 ATTTATTTTT
1 ATTTATTTTT
43833 ATTTATTTTT
1 ATTTATTTTT
* *
43843 ATCTATTTCT
1 ATTTATTTTT
43853 ATTT
1 ATTT
43857 TACTAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:47632 original size:21 final size:22
Alignment explanation
Indices: 47601--47666 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
47591 CTCGTATAAA
47601 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
47623 TGCA-CGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
47644 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
47666 T
1 T
47667 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.49
22 22 0.51
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:48393 original size:21 final size:21
Alignment explanation
Indices: 48367--48407 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48357 TATACGATGA
* *
48367 GGGGGTATCGGTTCCCCTCTT
1 GGGGGTACCGATTCCCCTCTT
48388 GGGGGTACCGATTCCCCTCT
1 GGGGGTACCGATTCCCCTCT
48408 AGCATTCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.32, G:0.32, T:0.29
Consensus pattern (21 bp):
GGGGGTACCGATTCCCCTCTT
Found at i:48442 original size:67 final size:67
Alignment explanation
Indices: 48302--48472 Score: 197
Period size: 67 Copynumber: 2.6 Consensus size: 67
48292 TTTTCTCATG
* * * *
48302 GGGGAATCGGTTCCCCCTTAGGGGTATCGATT-CCCTCAAGCAGTCTGGAATTTCATATACGATG
1 GGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATACGATG
*
48366 AG
66 AA
* * *
48368 GGGGTATCGGTTCCCCTCTTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-AT
1 GGGGTATCGGTTCCCC-CTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATACGA-
48431 TGAA
64 TGAA
*
48435 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCTTG--GGGGTACCGATTCCCCT
48473 AACCCAGAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
65 4 0.04
66 19 0.21
67 47 0.52
68 21 0.23
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATACGATG
AA
Found at i:48460 original size:21 final size:21
Alignment explanation
Indices: 48430--48472 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48420 ATTCATTTCA
* *
48430 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
48451 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
48472 T
1 T
48473 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:54510 original size:22 final size:22
Alignment explanation
Indices: 54493--54559 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
54483 CTCGTATAAA
54493 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
54515 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
54537 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
54559 T
1 T
54560 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:55317 original size:68 final size:67
Alignment explanation
Indices: 55198--55372 Score: 203
Period size: 68 Copynumber: 2.6 Consensus size: 67
55188 TTTTTCTCAT
* * * *
55198 GGGGGAATCGGTTCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAGTCTGGAATTTCATATACG
1 GGGGGTATCGGTT-CCCCCCTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCAT-TAC-
55263 A-TGA
63 ATTGA
* * *
55267 GGGGGTATCGGTTCCCCCCTTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCATT
1 GGGGGTATCGGTTCCCCCCTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATTACATT
55332 GA
66 GA
* *
55334 AGGGGTATCGGTT--CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTTG--GGGGTACCGATTCCCCT
55373 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
65 7 0.07
66 1 0.01
67 33 0.35
68 41 0.44
69 12 0.13
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTTGGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATTACATT
GA
Found at i:55360 original size:21 final size:21
Alignment explanation
Indices: 55330--55372 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
55320 ATTCATTTCA
* *
55330 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
55351 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
55372 T
1 T
55373 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:62358 original size:7 final size:7
Alignment explanation
Indices: 62342--62382 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
62332 TCCTAAGTTG
*
62342 AAAAAAA
1 AAAAAAC
*
62349 AAACAAAA
1 AAA-AAAC
62357 AAAAAAC
1 AAAAAAC
62364 AAAAAAC
1 AAAAAAC
62371 AAAAAAC
1 AAAAAAC
62378 AAAAA
1 AAAAA
62383 GAGAAGAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:62358 original size:11 final size:11
Alignment explanation
Indices: 62342--62374 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
62332 TCCTAAGTTG
62342 AAAAAAAAAAC
1 AAAAAAAAAAC
62353 AAAAAAAAAAC
1 AAAAAAAAAAC
62364 AAAAAACAAAA
1 AAAAAA-AAAA
62375 AACAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:63403 original size:105 final size:105
Alignment explanation
Indices: 63221--63840 Score: 1114
Period size: 105 Copynumber: 5.9 Consensus size: 105
63211 AGGTTTTACC
63221 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
63286 ATGAAGGGACCGCTGGTTGTTAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
63326 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
63391 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
63431 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
63496 ACGAAGGGACCGCTGTTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
63536 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
63601 ACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
63641 CAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
63706 GCGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* *
63747 CAGAGCCAATTTCAACGTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
63812 ACGAAGGGACCGCTGGTTGTCAATAAACA
66 ACGAAGGGACCGCTGGTTGTCAACAAACA
63841 ATTGCCCAAT
Statistics
Matches: 498, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
105 399 0.80
106 99 0.20
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:65959 original size:20 final size:19
Alignment explanation
Indices: 65936--65995 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
65926 ATTTCCCCCT
*
65936 TTTACTTTTTACTATTATTA
1 TTTATTTTTTACTATTA-TA
65956 TTTATTTATTTATGCTATTATA
1 TTTATTT-TTTA--CTATTATA
*
65978 TTATATTTTTTATTATTA
1 TT-TATTTTTTACTATTA
65996 AATACGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 11 0.32
21 4 0.12
22 8 0.24
23 11 0.32
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTTTTTACTATTATA
Found at i:65973 original size:23 final size:22
Alignment explanation
Indices: 65947--65990 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
65937 TTACTTTTTA
65947 CTATTATTATT-TATTTATTTATG
1 CTATTA-TATTATATTT-TTTATG
65970 CTATTATATTATATTTTTTAT
1 CTATTATATTATATTTTTTAT
65991 TATTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
CTATTATATTATATTTTTTATG
Found at i:66115 original size:14 final size:14
Alignment explanation
Indices: 66096--66122 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66086 TATTTTATTT
66096 ATTATTATTTCATC
1 ATTATTATTTCATC
66110 ATTATTATTTCAT
1 ATTATTATTTCAT
66123 TACTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTTCATC
Found at i:66267 original size:23 final size:25
Alignment explanation
Indices: 66241--66288 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
66231 CCATTTATAT
66241 TTTA-TTATATTTTC-TTCTTTTTC
1 TTTATTTATATTTTCGTTCTTTTTC
* *
66264 TTTATTTGTATTTTCGTTTTTTTTC
1 TTTATTTATATTTTCGTTCTTTTTC
66289 CTTTGCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 8 0.38
ACGTcount: A:0.10, C:0.10, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTATTTATATTTTCGTTCTTTTTC
Found at i:72314 original size:36 final size:37
Alignment explanation
Indices: 72249--72318 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
72239 TCAGTACCAG
72249 AGGACAAAATTGAAAATCTTGAGACTAAATATAAGGT
1 AGGACAAAATTGAAAATCTTGAGACTAAATATAAGGT
*
72286 AGGACAAAATTG-AAATCTTGAGAGTAAATATAA
1 AGGACAAAATTGAAAATCTTGAGACTAAATATAA
72319 AGTAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 20 0.62
37 12 0.38
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (37 bp):
AGGACAAAATTGAAAATCTTGAGACTAAATATAAGGT
Found at i:72395 original size:31 final size:27
Alignment explanation
Indices: 72342--72399 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 27
72332 ATGTGAAGAT
72342 CTTGTATTTTATTTTTTTAATATGGCC
1 CTTGTATTTTATTTTTTTAATATGGCC
72369 CTTGTATTATTATTATTATTTCAATATGGCC
1 CTTGTATT-TTATT-TT-TTT-AATATGGCC
72400 ATCTAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 8 0.30
28 5 0.19
29 2 0.07
30 3 0.11
31 9 0.33
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.55
Consensus pattern (27 bp):
CTTGTATTTTATTTTTTTAATATGGCC
Found at i:75215 original size:21 final size:20
Alignment explanation
Indices: 75129--75286 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
75119 AAATGACCAA
**
75129 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
75148 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
75168 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
75188 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
75209 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
75230 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
75250 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
75271 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
75287 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:75315 original size:20 final size:20
Alignment explanation
Indices: 75253--75446 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
75243 CGATTTTCCA
* ** *
75253 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
75273 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
75293 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
75313 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
75333 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
75353 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
75373 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
75393 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
75413 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
75434 AAATCGCAACGCG
1 AAATCGCAACGCG
75447 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:75337 original size:60 final size:60
Alignment explanation
Indices: 75253--75446 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
75243 CGATTTTCCA
* ** * *
75253 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
75313 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
75373 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
75434 AAATCGCAACGCG
1 AAATCGCAACGCG
75447 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:75867 original size:33 final size:33
Alignment explanation
Indices: 75828--75898 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
75818 TTCACTTAGA
* *
75828 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
75861 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
75894 TTTCA
1 TTTCA
75899 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:76004 original size:21 final size:20
Alignment explanation
Indices: 75978--76116 Score: 108
Period size: 21 Copynumber: 7.5 Consensus size: 20
75968 TGCAGAAGAG
75978 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
75999 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
76019 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
76040 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
76054 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
76073 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
76087 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
76106 TCGCAACGAGA
1 TCGCAACGAGA
76117 GAATCGCAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
14 22 0.23
16 4 0.04
17 4 0.04
19 22 0.23
20 16 0.17
21 26 0.28
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:76022 original size:20 final size:20
Alignment explanation
Indices: 75978--76120 Score: 116
Period size: 19 Copynumber: 7.8 Consensus size: 20
75968 TGCAGAAGAG
*
75978 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
75999 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
76019 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
76040 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
76054 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
76073 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
76087 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
76106 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
76121 CGCAACGCGA
Statistics
Matches: 99, Mismatches: 8, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
14 18 0.18
16 8 0.08
17 6 0.06
19 24 0.24
20 20 0.20
21 23 0.23
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:76035 original size:41 final size:33
Alignment explanation
Indices: 75978--76143 Score: 197
Period size: 33 Copynumber: 4.7 Consensus size: 33
75968 TGCAGAAGAG
75978 TCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGA
1 TCGCAACGAG--AAATGAAAATCGCAACGAGAG-A--A
76016 CTGTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAA
1 ---TCGCAAC--GAGAAATGAAAATCGCAACGAGAGAA
*
76054 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
*
76087 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
* **
76120 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGAGAAATGAAAATCGCA
76144 TTGCGATTTT
Statistics
Matches: 120, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
33 80 0.67
35 7 0.06
38 1 0.01
40 1 0.01
41 28 0.23
43 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
Found at i:76057 original size:14 final size:14
Alignment explanation
Indices: 76038--76127 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
76028 GAGAAATGAA
76038 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76052 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
76071 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76085 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
76104 AATCGCAACGAGAG
1 AATCGCAACGAGAG
76118 AATCGCAACG
1 AATCGCAACG
76128 CGAAACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:76070 original size:33 final size:33
Alignment explanation
Indices: 76030--76143 Score: 210
Period size: 33 Copynumber: 3.5 Consensus size: 33
76020 CGCAACGAGA
76030 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
76063 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
76096 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
76129 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
76144 TTGCGATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:76161 original size:19 final size:19
Alignment explanation
Indices: 76139--76255 Score: 102
Period size: 19 Copynumber: 6.9 Consensus size: 19
76129 GAAACCAAAA
* *
76139 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
76158 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
*
76174 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
76191 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
76207 T--CGTTGCGATTTTCATC
1 TCGCGTTGCGATTTTCATC
76224 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
76240 T--CGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
76256 TTCAACCAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 28
0.72 0.04 0.25
Matches are distributed among these distances:
14 24 0.30
16 16 0.20
17 15 0.19
19 26 0.32
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATC
Found at i:76180 original size:14 final size:14
Alignment explanation
Indices: 76161--76250 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
76151 TTTCATTTCG
76161 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
76175 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
76194 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
76208 CGTTGCGATTTTCATCT
1 CGTTGCGA--TTC-TCT
76225 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
76241 CGTTGCGATT
1 CGTTGCGATT
76251 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
16 9 0.14
17 9 0.14
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:76186 original size:33 final size:33
Alignment explanation
Indices: 76144--76258 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
76134 CAAAATCGCA
76144 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
76177 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
76210 TTGCGATTTTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
76243 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
76259 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:78113 original size:93 final size:93
Alignment explanation
Indices: 77954--78334 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
77944 TAGATTGCTT
*
77954 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78019 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78047 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78112 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
78140 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78205 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78233 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78298 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78326 AGTAAATTT
1 AGTAAATTT
78335 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 285 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:78418 original size:19 final size:19
Alignment explanation
Indices: 78378--78506 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
78368 TAGTTTACTT
* *
78378 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
78398 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
78417 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
78436 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
78450 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
78469 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
78483 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
78502 TCGCA
1 TCGCA
78507 TTGCCATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:78457 original size:33 final size:32
Alignment explanation
Indices: 78414--78506 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
78404 CGCGAAACCA
**
78414 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
78446 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
78479 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
78507 TTGCCATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:78504 original size:52 final size:52
Alignment explanation
Indices: 78378--78506 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
78368 TAGTTTACTT
**
78378 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
78430 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
78483 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
78507 TTGCCATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:78524 original size:19 final size:19
Alignment explanation
Indices: 78502--78619 Score: 96
Period size: 19 Copynumber: 6.8 Consensus size: 19
78492 GAAACCAAAA
*
78502 TCGCATTGCCATTTTCATT
1 TCGCATTGCGATTTTCATT
*
78521 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
78537 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
78554 TCGCATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
78570 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* **
78586 TCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
78605 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
78620 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.14
15 3 0.04
16 16 0.19
17 11 0.13
18 6 0.07
19 35 0.42
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:78543 original size:14 final size:14
Alignment explanation
Indices: 78524--78580 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
78514 TTTCATTTCG
78524 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
78538 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
78555 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
78571 CGTTGCGATT
1 CGTTGCGATT
78581 TCATTTCGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:78588 original size:32 final size:33
Alignment explanation
Indices: 78507--78598 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
78497 CAAAATCGCA
* *
78507 TTGCCATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
78540 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
78573 TTGCGA-TTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
78599 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 19 0.35
33 36 0.65
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:78598 original size:51 final size:47
Alignment explanation
Indices: 78524--78617 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 47
78514 TTTCATTTCG
78524 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
1 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
** *
78571 CGTTGCGATTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATT
1 CGTTGCGA-TTC-TTT--CGTTGCGATTTTCATTTCGCATTGCGATT
78618 TTAAGTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 8 0.20
48 3 0.08
49 3 0.08
51 26 0.65
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (47 bp):
CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
Found at i:78627 original size:20 final size:19
Alignment explanation
Indices: 78571--78635 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
78561 GCGATTCTGT
*
78571 CGTTGCGATTTCA-TTTCG
1 CGTTGCGATTTTAGTTTCG
*
78589 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
78608 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
78628 TGTTGCGA
1 CGTTGCGA
78636 AAGTAAACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.27
19 17 0.41
20 13 0.32
ACGTcount: A:0.11, C:0.17, G:0.28, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:80580 original size:14 final size:14
Alignment explanation
Indices: 80561--80596 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
80551 ATTGTTTAAT
80561 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
80575 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
80589 TGATTTGT
1 TGATTTGT
80597 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:80727 original size:19 final size:19
Alignment explanation
Indices: 80703--80800 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
80693 AAAATTGACT
80703 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
80722 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
80741 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
80755 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
80774 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
80794 ATCGCAA
1 ATCGCAA
80801 CGAGATAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:80832 original size:53 final size:53
Alignment explanation
Indices: 80703--80819 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
80693 AAAATTGACT
80703 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
80755 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
80808 ATCGCAATGCGA
1 ATCGCAATGCGA
80820 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:83155 original size:12 final size:12
Alignment explanation
Indices: 83138--83162 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83128 TCTTCGGGGG
83138 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83150 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83162 C
1 C
83163 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:83371 original size:24 final size:24
Alignment explanation
Indices: 83337--83383 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
83327 CTGAAACATC
83337 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
83361 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
83384 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:84094 original size:20 final size:20
Alignment explanation
Indices: 84066--84315 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
84056 AAATTTCAGT
* *
84066 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
84086 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
84106 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
84126 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
84146 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
84166 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
84186 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
84206 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
84226 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
84246 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
84266 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
84286 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
84306 GTTGCGATTT
1 GTTGCGATTT
84316 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:92042 original size:14 final size:14
Alignment explanation
Indices: 92021--92064 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
92011 AAATATGGTA
92021 ACTTTTGAATAATT
1 ACTTTTGAATAATT
** *
92035 TTTTTTGAA-AATC
1 ACTTTTGAATAATT
92048 ACTTTTGAATAATT
1 ACTTTTGAATAATT
92062 ACT
1 ACT
92065 CATATATAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (14 bp):
ACTTTTGAATAATT
Found at i:92111 original size:2 final size:2
Alignment explanation
Indices: 92104--92128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92094 GAATTTGATT
92104 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
92129 TGTTGCTCTT
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:92342 original size:51 final size:51
Alignment explanation
Indices: 92282--92383 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
92272 AATTACTTAC
92282 CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
1 CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
* *
92333 CACTTAAACCAACTCGTAGTAATTTCATTTTTATTTTTGTAATATTGTTAG
1 CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
92384 TAACATTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (51 bp):
CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
Found at i:92709 original size:21 final size:21
Alignment explanation
Indices: 92675--92714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
92665 AGAGGTAATA
* *
92675 AGATTATGATTTAGAGTTTAT
1 AGATTATAACTTAGAGTTTAT
*
92696 AGATTATAACTTAGGGTTT
1 AGATTATAACTTAGAGTTT
92715 TAAATTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (21 bp):
AGATTATAACTTAGAGTTTAT
Found at i:96594 original size:3 final size:3
Alignment explanation
Indices: 96586--96645 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
96576 AATTTAAATT
* *
96586 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA GTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
96632 TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA
96646 ATACATTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:96690 original size:18 final size:18
Alignment explanation
Indices: 96667--96704 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96657 TTTACAGGCT
96667 AATCCTGAAGCCCACTAC
1 AATCCTGAAGCCCACTAC
* *
96685 AATCCTGAGGCCCAGTAC
1 AATCCTGAAGCCCACTAC
96703 AA
1 AA
96705 GCTAACCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (18 bp):
AATCCTGAAGCCCACTAC
Found at i:99921 original size:32 final size:32
Alignment explanation
Indices: 99877--99938 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
99867 TCTTACATAT
* *
99877 ACTAACTAATTTCTTTTCTTTTATTTGTGTAC
1 ACTAACTAATTTCGTTTATTTTATTTGTGTAC
* *
99909 ACTAACTTATTTCGTTTATTTTGTTTGTGT
1 ACTAACTAATTTCGTTTATTTTATTTGTGT
99939 CATTTTTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (32 bp):
ACTAACTAATTTCGTTTATTTTATTTGTGTAC
Found at i:101138 original size:38 final size:36
Alignment explanation
Indices: 101086--101164 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 36
101076 CTATTACTTT
*
101086 TTTTTCTTAATATTATGTATATCT-TTATTTTTTATTTG
1 TTTTACTTAATATTA--TATATCTATTA-TTTTTATTTG
* *
101124 TTTTACTTAGTATTATATATTTATTATTTTTATTTG
1 TTTTACTTAATATTATATATCTATTATTTTTATTTG
101160 TTTTA
1 TTTTA
101165 GTAAATACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 21 0.57
37 3 0.08
38 13 0.35
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (36 bp):
TTTTACTTAATATTATATATCTATTATTTTTATTTG
Found at i:101337 original size:17 final size:17
Alignment explanation
Indices: 101297--101346 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
101287 TTCATTTGTT
101297 TTTTTTATTATTTTTACA
1 TTTTTTATTA-TTTTACA
* * *
101315 TGTTTTGTTATTTTCCA
1 TTTTTTATTATTTTACA
*
101332 TTTTTTCTTATTTTA
1 TTTTTTATTATTTTA
101347 TTTATTATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTTTATTATTTTACA
Found at i:104404 original size:26 final size:26
Alignment explanation
Indices: 104375--104426 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
104365 CAATCAGAAC
*
104375 AAAAAGAG-AAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAAACAAAG-GAAAAT
104401 AAAAAGAGAAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAAACAAAGGAAAAT
104427 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (26 bp):
AAAAAGAGAAAAAAACAAAGGAAAAT
Found at i:104424 original size:13 final size:14
Alignment explanation
Indices: 104377--104425 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
104367 ATCAGAACAA
*
104377 AAAGAG-AAAAAGC
1 AAAGAGAAAAAAAC
*
104390 AAAGAGAAAATAA-
1 AAAGAGAAAAAAAC
104403 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
104417 AAAG-GAAAA
1 AAAGAGAAAA
104426 TTGAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 23 0.74
14 8 0.26
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:104615 original size:68 final size:69
Alignment explanation
Indices: 104498--104634 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 69
104488 GATTCAAACT
*
104498 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
104563 TCAA
66 TCAA
* *
104567 ATGAGATTGATCAAGCACAATC-TTTCCGAATCATTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
104631 TCAA
66 TCAA
104635 GAGATAGAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 43 0.66
69 22 0.34
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
TCAA
Found at i:106339 original size:104 final size:103
Alignment explanation
Indices: 106203--106398 Score: 275
Period size: 104 Copynumber: 1.9 Consensus size: 103
106193 CAACACAAGT
* * *
106203 TCAACTCCACAAGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCA
1 TCAACTCCACAAGAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCA
106268 ACTTCACAGCGAAGGATATTGGACTCGAGAGAGCACGC
66 ACTTCACAGCGAAGGATATTGGACTCGAGAGAGCACGC
* * ** * *
106306 TCAACTTCACAATGAAGGGGCGACTGGCTGTCAACAAACAATTTCTTAGTTCCAGAGCCAATTTT
1 TCAACTCCACAA-GAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTC
* * *
106371 AACTTCACGGTGGAGGATATTGGACTCG
65 AACTTCACAGCGAAGGATATTGGACTCG
106399 GAACAATACA
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
103 11 0.14
104 69 0.86
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (103 bp):
TCAACTCCACAAGAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCA
ACTTCACAGCGAAGGATATTGGACTCGAGAGAGCACGC
Found at i:106641 original size:67 final size:66
Alignment explanation
Indices: 106531--106664 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 66
106521 AGACAGTTTC
** *
106531 CAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCTCCTAAAAC-AAATTTTGTCTCCCTTGAG
1 CAGTTTCCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAATTTTATCTCCCTTGAG
106595 A
66 A
* *
106596 CAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTC-CCTTAAAACAAAATTTTATTTCCCTT
1 CAGTTTCCCTTG-AA-ACAAAATCTTCAAATTTATTTCTCC-TAAAACAAAATTTTATCTCCCTT
106660 GAGA
63 GAGA
106664 C
1 C
106665 CATTTTTCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
65 11 0.18
66 4 0.07
67 26 0.43
68 19 0.32
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (66 bp):
CAGTTTCCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAATTTTATCTCCCTTGAG
A
Found at i:107576 original size:110 final size:110
Alignment explanation
Indices: 107378--107584 Score: 290
Period size: 110 Copynumber: 1.9 Consensus size: 110
107368 CTTCCCCAGT
* * * *
107378 TTCAGAGTCAATTTCAACTTCACAGCGAGGAATATTGGACTCAAGACAACACAAGCTCAGCTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCAAGGAATATTGAACTCAAGACAACAAAAGCTCAACTTCA
*
107443 CAACGAAGGGGCAACTGATTGTCAACAAACAACTTTTTAGTTTCA
66 CAACGAAGGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
* * *
107488 TTCAGAGTCAATTTCAACTTCACAGCAAATG-ATATTGAACTCAAGATAACAAAAGCTCAATTTC
1 TTCAGAGTCAATTTCAACTTCACAGC-AAGGAATATTGAACTCAAGACAACAAAAGCTCAACTTC
* ** *
107552 ACAGCGAAGGGGTGACTGGCTGTCAACAAACAA
65 ACAACGAAGGGGCAACTGACTGTCAACAAACAA
107585 TTTCCCGATT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 82 0.98
111 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAGCAAGGAATATTGAACTCAAGACAACAAAAGCTCAACTTCA
CAACGAAGGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
Found at i:108982 original size:14 final size:14
Alignment explanation
Indices: 108965--109044 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
108955 ATATTTTTCA
*
108965 TTATATTTTATTAT
1 TTATATTATATTAT
108979 TTATATTCAT-TTAT
1 TTATATT-ATATTAT
108993 TTATATTATATTAT
1 TTATATTATATTAT
*
109007 TTTTATTATA-TAT
1 TTATATTATATTAT
109020 TT-TA-TATCATTAT
1 TTATATTAT-ATTAT
*
109033 ATATATATATAT
1 TTATAT-TATAT
109045 AGAGTATTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
13 11 0.20
14 33 0.59
15 3 0.05
16 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATATTATATTAT
Found at i:109100 original size:18 final size:18
Alignment explanation
Indices: 109077--109141 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
109067 ACTATGTATA
109077 TATATTTTTTCTTAATAT
1 TATATTTTTTCTTAATAT
* * **
109095 TATATTTATACGTTTTTAT
1 TATATTTTTTC-TTAATAT
109114 ATATATTTTTTCTTAATAT
1 -TATATTTTTTCTTAATAT
*
109133 TCTATTTTT
1 TATATTTTT
109142 GTTTTTATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 17 0.47
19 10 0.28
20 9 0.25
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTTTCTTAATAT
Found at i:109187 original size:19 final size:19
Alignment explanation
Indices: 109143--109198 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
109133 TCTATTTTTG
*
109143 TTTT-TATTTATTTATATATA
1 TTTTATATTT-TTTA-ATTTA
*
109163 TATTATATTTTTTAATTTA
1 TTTTATATTTTTTAATTTA
109182 TTTTAT-TTTTTTCAATT
1 TTTTATATTTTTT-AATT
109199 ACTTCTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.19
19 13 0.42
20 7 0.23
21 5 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATATTTTTTAATTTA
Found at i:113537 original size:37 final size:37
Alignment explanation
Indices: 113495--113608 Score: 133
Period size: 37 Copynumber: 3.1 Consensus size: 37
113485 CCTTGGGGTG
* *
113495 TTTTTCTTGAAACAAATTTTTGTCTCGCTTGAGATAA
1 TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
* *
113532 TTTTTCTCAAAA-ACAATTTTTGTCTCGTTTGAGACAA
1 TTTTTCTTAAAACA-AATTTTTGTCTCGCTTGAGACAA
* * * *
113569 TTTCTCTAAAAACAAA-TGTTGTCTCACTTGAGACAA
1 TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
113605 TTTT
1 TTTT
113609 CCAAATTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
36 21 0.32
37 43 0.66
38 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
Found at i:113591 original size:36 final size:37
Alignment explanation
Indices: 113504--113607 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 37
113494 GTTTTTCTTG
* *
113504 AAACAAATTTTTGTCTCGCTTGAGATAATTTTTCTCAA
1 AAACAAA-TTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
113542 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCT-AA
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
113578 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATTTTGTCTCGCTTGAGACAATTT
113608 TCCAAATTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 28 0.48
37 24 0.41
38 6 0.10
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (37 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
Found at i:113669 original size:32 final size:32
Alignment explanation
Indices: 113633--113704 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
113623 TGTTTCACTG
* *
113633 GAAACAAACATCATCTTTGAGTC-GTTTCTTTT
1 GAAACAAA-AGCATCTTTGAGTCTATTTCTTTT
*
113665 GAAAC-AAAGGATCTTTGAGTCTATTTCTTTT
1 GAAACAAAAGCATCTTTGAGTCTATTTCTTTT
113696 GAAACAAAA
1 GAAACAAAA
113705 CTTTGTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.34
31 15 0.43
32 8 0.23
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
GAAACAAAAGCATCTTTGAGTCTATTTCTTTT
Found at i:113681 original size:30 final size:31
Alignment explanation
Indices: 113645--113703 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
113635 AACAAACATC
*
113645 ATCTTTGAGTC-GTTTCTTTTGAAACAAAGG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
113675 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
113704 ACTTTGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
Found at i:113866 original size:27 final size:26
Alignment explanation
Indices: 113808--113866 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
113798 ATTTTTTCTC
* *
113808 TTTTGAGAAAGTTTCTTTTGAAAGAA
1 TTTTGAGAAAGTTTCTTTGGAAAAAA
* *
113834 TCTTTGAGTATGTTTCTTTGGAAACAAA
1 T-TTTGAGAAAGTTTCTTTGGAAA-AAA
113862 TTTTG
1 TTTTG
113867 TCTCTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 23 0.85
28 3 0.11
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.46
Consensus pattern (26 bp):
TTTTGAGAAAGTTTCTTTGGAAAAAA
Found at i:113871 original size:63 final size:63
Alignment explanation
Indices: 113765--113951 Score: 177
Period size: 63 Copynumber: 3.0 Consensus size: 63
113755 TAAAACAAAA
* * *
113765 TGAAAAAATCTTTGAGTA--TTTCTTT-GATAAAAAATTTTTTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAAATCTTTGAGTATGTTTCTTTGGA-AACAAATTTTGTCTCTTTTAAGAAAGTTTCTTT
* * * *
113826 TGAAAGAATCTTTGAGTATGTTTCTTTGGAAACAAATTTTGTCTCTTTTTAGACAG-TTCCTT
1 TGAAAAAATCTTTGAGTATGTTTCTTTGGAAACAAATTTTGTCTCTTTTAAGAAAGTTTCTTT
* * * * * *
113888 TGAAGAAAAAACTTTAAGTCTGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTAAGAAAATTTCT
1 TG-A-AAAAATCTTTGAGTATGTTTCTT-TGGAAACAAA-TTTTGTCTCTTTTAAGAAAGTTTCT
113952 CTTAAAACTT
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
61 17 0.17
62 7 0.07
63 32 0.31
64 27 0.26
65 16 0.16
66 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (63 bp):
TGAAAAAATCTTTGAGTATGTTTCTTTGGAAACAAATTTTGTCTCTTTTAAGAAAGTTTCTTT
Found at i:114063 original size:30 final size:29
Alignment explanation
Indices: 113991--114069 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
113981 CAAAACCTAT
113991 TTTGAGTTTGTTATC-TTT-AAATAAAAGTC
1 TTTGAG-TTGTT-TCTTTTGAAATAAAAGTC
* *
114020 TGTGAGTTGTTTCTTTTGAAATAAAATTC
1 TTTGAGTTGTTTCTTTTGAAATAAAAGTC
114049 TTTGAGTCTGTTTCTTTTGAA
1 TTTGAGT-TGTTTCTTTTGAA
114070 CCAAAGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 2 0.05
28 8 0.18
29 21 0.48
30 13 0.30
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (29 bp):
TTTGAGTTGTTTCTTTTGAAATAAAAGTC
Found at i:114204 original size:94 final size:93
Alignment explanation
Indices: 114029--114212 Score: 255
Period size: 94 Copynumber: 2.0 Consensus size: 93
114019 CTGTGAGTTG
* * *
114029 TTTCTTTTGAAATAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTTGTTTCTCTTAAGAC
1 TTTCTTTTGAAACAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGAC
114094 AATTTCGTGAAAAAAAAATCTTTGAGACA
66 AATTTCGTG-AAAAAAAATCTTTGAGACA
* *
114123 TTTCTTTTGAAACCAAAA-TCTTTGAGTTTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGA
1 TTTCTTTTGAAA-CAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGA
* * *
114187 CAGTTTTCTTG-AGAAAAATCTTTGAG
65 CA-ATTTCGTGAAAAAAAATCTTTGAG
114213 TCTGTTCCTT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 14 0.17
94 56 0.70
95 10 0.12
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (93 bp):
TTTCTTTTGAAACAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGAC
AATTTCGTGAAAAAAAATCTTTGAGACA
Found at i:114224 original size:94 final size:93
Alignment explanation
Indices: 114013--114228 Score: 251
Period size: 94 Copynumber: 2.3 Consensus size: 93
114003 ATCTTTAAAT
* * * *
114013 AAAAGTCTGTGAGT-TGTTTCTTTTGAAATAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGT
1 AAAAATCTTTGAGTCTG-TTCTTTTGAAACAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGT
*
114077 TTTGTTTCTCTTAAGACAATTTCGTGAAAA
65 TTTGTCTCTCTTAAGACAATTTCGTG-AAA
* *
114107 AAAAATCTTTGAGACAT-TTCTTTTGAAACCAAAA-TCTTTGAGTTTGTTTCTTTTGAAACAAAG
1 AAAAATCTTTGAGTC-TGTTCTTTTGAAA-CAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAG
* * * *
114170 TTTTGTCTCTCTTGAGACAGTTTTCTTG-AG
64 TTTTGTCTCTCTTAAGACA-ATTTCGTGAAA
114200 AAAAATCTTTGAGTCTGTTCCTTTTGAAA
1 AAAAATCTTTGAGTCTGTT-CTTTTGAAA
114229 AATCTTTGAG
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
92 1 0.01
93 17 0.16
94 75 0.72
95 10 0.10
96 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (93 bp):
AAAAATCTTTGAGTCTGTTCTTTTGAAACAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTT
TTGTCTCTCTTAAGACAATTTCGTGAAA
Found at i:114771 original size:40 final size:39
Alignment explanation
Indices: 114716--114793 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
114706 TCCTAAAGAT
114716 GACCAGAACTCTTCATCACATATGAG-TCGTGTCATCCCCC
1 GACCAGAACTCTTCATCACATATGAGCT-GTGTCA-CCCCC
* *
114756 GACCAGATCTCTTCATCACGTATGAGCTGTGTCACCCC
1 GACCAGAACTCTTCATCACATATGAGCTGTGTCACCCC
114794 TAGATAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 4 0.11
40 30 0.86
41 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.26
Consensus pattern (39 bp):
GACCAGAACTCTTCATCACATATGAGCTGTGTCACCCCC
Found at i:114826 original size:134 final size:133
Alignment explanation
Indices: 114444--114936 Score: 615
Period size: 134 Copynumber: 3.7 Consensus size: 133
114434 AATCATTATC
* * * * * *
114444 CCTAAAGATGACCAGAACTCTTCATCATGTATGAGCCGTGTCATCTCCTGACCAGGTCT--TAAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCAT
* * * * * *
114507 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACATAGGAACCGTGTTATCGC
66 CACGTAGGAGCTGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATC-A
114572 CCTT
130 CCTT
* *
114576 CCTAAAGATGGCCATAACTCTTCATCACGTATGAGTCGTGTCAT-CCCCGA--AGATCTCCTCAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCAT
* * * *
114638 CGCGTAGGAG-TCGTGTCAACCATAGATAACCAGCTGTCCTCATCGCGTAGGAACCGAGTTATCA
66 CACGTAGGAGCT-GTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCA
114702 CCATT
130 CC-TT
* *
114707 CCTAAAGATGACCAGAACTCTTCATCACATATGAGTCGTGTCATCCCCCGACCAGATCTCTTCAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCAT
*
114772 CACGTATGAGCTGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 CACGTAGGAGCTGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
114837 GCTT
131 -CTT
* * * *
114841 ACTAAAGATGGCCAAGAACT-TTCATCACGTATGAG-CAGTGTCATCCCTCGACCAGATTTCCTC
1 CCTAAAGATGACC-AGAACTCTTCATCACGTATGAGTC-GTGTCATCCCCCGACCAGATCTCCTC
** * *
114904 ATCACGTAGGAATTGTGTCACCCTTAGACAACC
64 ATCACGTAGGAGCTGTGTCACCCCTAGATAACC
114937 CGAACTCTTC
Statistics
Matches: 312, Mismatches: 38, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
129 5 0.02
130 2 0.01
131 103 0.33
132 46 0.15
133 1 0.00
134 147 0.47
135 8 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (133 bp):
CCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCAT
CACGTAGGAGCTGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
CTT
Found at i:115130 original size:3 final size:3
Alignment explanation
Indices: 115122--115194 Score: 103
Period size: 3 Copynumber: 24.0 Consensus size: 3
115112 TAATTTAATT
*
115122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
115168 TATA TTA GTA TTA TTA TTA TT- TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA
115195 ATACATTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 2 0.03
3 55 0.87
4 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:115160 original size:19 final size:19
Alignment explanation
Indices: 115122--115187 Score: 116
Period size: 19 Copynumber: 3.5 Consensus size: 19
115112 TAATTTAATT
*
115122 TTATTATTAT-TATTATTA
1 TTATTATTATATATTAGTA
115140 TTATTATTATATATTAGTA
1 TTATTATTATATATTAGTA
115159 TTATTATTATATATTAGTA
1 TTATTATTATATATTAGTA
115178 TTATTATTAT
1 TTATTATTAT
115188 TTTATTAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 10 0.22
19 36 0.78
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTATTATATATTAGTA
Done.