Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003906.1 Hibiscus syriacus cultivar Beakdansim tig00008449_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: 176608
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:1838 original size:11 final size:10
Alignment explanation
Indices: 1809--1838 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
1799 AAAAATTAAC
1809 TTTTAAATTT
1 TTTTAAATTT
1819 TTTTAAATTT
1 TTTTAAATTT
1829 TTTTATAATT
1 TTTTA-AATT
1839 AATTAGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:4911 original size:23 final size:23
Alignment explanation
Indices: 4885--4953 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
4875 GTCGAGGGTT
4885 CTATATGGTCATTCGGGACAAAC
1 CTATATGGTCATTCGGGACAAAC
*
4908 CTATATGGTCATTCGGGACAAAA
1 CTATATGGTCATTCGGGACAAAC
* * *
4931 CTATGTGGTCCTTCGAGACAAAC
1 CTATATGGTCATTCGGGACAAAC
4954 ATGTGGCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
CTATATGGTCATTCGGGACAAAC
Found at i:4959 original size:21 final size:22
Alignment explanation
Indices: 4885--4980 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 22
4875 GTCGAGGGTT
*
4885 CTATATGGTCATTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
*
4907 CCTATATGGTCATTCGGGACAAAA
1 -CTATGTGGTCATTCGGGAC-AAA
* *
4931 CTATGTGGTCCTTCGAGACAAA
1 CTATGTGGTCATTCGGGACAAA
4953 C-ATGTGG-CACTTCGGTG-CAAA
1 CTATGTGGTCA-TTCGG-GACAAA
*
4974 TTATGTG
1 CTATGTG
4981 AGTTATGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
20 1 0.02
21 14 0.22
22 10 0.16
23 35 0.56
24 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (22 bp):
CTATGTGGTCATTCGGGACAAA
Found at i:11797 original size:23 final size:22
Alignment explanation
Indices: 11756--11846 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 22
11746 GTCGAGGGTT
* * *
11756 CTATCTGGTCTTTCAGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
* *
11778 CTTATGTGGTCATTCGGGACAATC
1 C-TATGTGGTCCTTCGGGACAA-A
*
11802 CTATGTGGTCCTTCGGGATAAAA
1 CTATGTGGTCCTTCGGGA-CAAA
*
11825 CTATGTTGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
11847 TATATGGCAC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
22 4 0.07
23 50 0.88
24 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:14388 original size:2 final size:2
Alignment explanation
Indices: 14383--14434 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
14373 TCAAAAAATA
14383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14425 AT AT AT AT AT
1 AT AT AT AT AT
14435 GACAATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16604 original size:19 final size:19
Alignment explanation
Indices: 16568--16605 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16558 CTCAAAATAT
*
16568 TATTAATTTATATATTTAA
1 TATTAATATATATATTTAA
16587 TATTAATATACTAT-TTTAA
1 TATTAATATA-TATATTTAA
16606 CATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAATATATATATTTAA
Found at i:16883 original size:17 final size:17
Alignment explanation
Indices: 16863--16919 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
16853 AAGTTTAAAT
16863 TTTTAATAATATTATTA
1 TTTTAATAATATTATTA
16880 TTTTAATAAGTATT-TGATA
1 TTTTAATAA-TATTAT--TA
*
16899 TAATTAATAATA-TATTA
1 T-TTTAATAATATTATTA
16916 TTTT
1 TTTT
16920 TATTTTAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
16 2 0.06
17 13 0.39
18 5 0.15
19 6 0.18
20 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTTAATAATATTATTA
Found at i:16926 original size:42 final size:41
Alignment explanation
Indices: 16866--16971 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
16856 TTTAAATTTT
* * * *
16866 TAATAA-TATTATTATTTTAATAAGTATTTGATATAATTAA
1 TAATAATTATTTTTATTTTAATAAATAATTAATATAATTAA
* *
16906 TAATATATTATTTTTATTTTAAGAAATAATTAATATAATTTA
1 TAATA-ATTATTTTTATTTTAATAAATAATTAATATAATTAA
16948 TAATAATT-TTATTT-TTTTAATAAA
1 TAATAATTATT-TTTATTTTAATAAA
16972 ATACAATAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 16 0.29
41 7 0.12
42 33 0.59
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (41 bp):
TAATAATTATTTTTATTTTAATAAATAATTAATATAATTAA
Found at i:16979 original size:27 final size:30
Alignment explanation
Indices: 16949--17004 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
16939 TATAATTTAT
16949 AATAAT-TT-TATTTTT-TTAATAAAATAC
1 AATAATCTTATATTTTTATTAATAAAATAC
*
16976 AATAATCTTAATATTTTTATTCATAAAAT
1 AATAATCTT-ATATTTTTATTAATAAAAT
17005 TATAGACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
30 7 0.29
31 9 0.38
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
AATAATCTTATATTTTTATTAATAAAATAC
Found at i:17090 original size:18 final size:19
Alignment explanation
Indices: 17062--17105 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17052 TAAAATATTC
17062 TAATA-TTTTAAT-AATAA
1 TAATATTTTTAATAAATAA
17079 TAATATTTTTAATAAATAA
1 TAATATTTTTAATAAATAA
*
17098 TATTATTT
1 TAATATTT
17106 ATTATATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATTTTTAATAAATAA
Found at i:17414 original size:30 final size:30
Alignment explanation
Indices: 17362--17420 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17352 TCCATTTAAT
* *
17362 TTTAAAAAAGTACTTTCTGTTTCTGTTTTC
1 TTTAAAAAAGTACTTTCAGTTTCAGTTTTC
*
17392 TTTAAAAAA-TATTTTTCAGTTTCAGTTTT
1 TTTAAAAAAGTA-CTTTCAGTTTCAGTTTT
17421 ATGAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTAAAAAAGTACTTTCAGTTTCAGTTTTC
Found at i:21531 original size:27 final size:27
Alignment explanation
Indices: 21493--21547 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21483 AGAGATGTTA
21493 CCAAAACATTAAGTCGACATAAACCTC
1 CCAAAACATTAAGTCGACATAAACCTC
*
21520 CCAAAACATTAAGTTGACATAAACCTC
1 CCAAAACATTAAGTCGACATAAACCTC
21547 C
1 C
21548 ACCAAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.07, T:0.20
Consensus pattern (27 bp):
CCAAAACATTAAGTCGACATAAACCTC
Found at i:22085 original size:75 final size:75
Alignment explanation
Indices: 21882--22091 Score: 352
Period size: 74 Copynumber: 2.8 Consensus size: 75
21872 CAAAGTCAAA
*
21882 AATTCCAG-ATTGCTCAGAGGGAACCGATTCCCCCCCCCCAAGGGGGTACCGATTCCCCCCTGAA
1 AATTCCAGTA-TGCTCGGAGGGAACCGATT---CCCCCCC-AGGGGGTACCGATTCCCCCCTGAA
21946 TGGTTTGTCTCCGAG
61 TGGTTTGTCTCCGAG
21961 AATTCCAGTATGCTCGGAGGGAACCGATT-CCCCCCAGGGGGTACCGATTCCCCCCTGAATGGTT
1 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGGTT
22025 TGTCTCCGAG
66 TGTCTCCGAG
22035 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCAGGGGGTACCGATTCCCCCCT
1 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCAGGGGGTACCGATTCCCCCCT
22092 TGTATAACGG
Statistics
Matches: 128, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
74 68 0.53
75 33 0.26
79 26 0.20
80 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.21
Consensus pattern (75 bp):
AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGGTT
TGTCTCCGAG
Found at i:27906 original size:23 final size:21
Alignment explanation
Indices: 27854--27915 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
27844 TTTTGGTGCA
*
27854 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
27874 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
27895 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
27916 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:29899 original size:15 final size:15
Alignment explanation
Indices: 29879--29920 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
29869 TCAACATTAT
*
29879 ATTTTGGATTGTTTG
1 ATTTTGGATTGTTGG
29894 ATTTTGTGGATTGTTGG
1 A-TTT-TGGATTGTTGG
29911 ATTTTGGATT
1 ATTTTGGATT
29921 TATGAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (15 bp):
ATTTTGGATTGTTGG
Found at i:29905 original size:17 final size:17
Alignment explanation
Indices: 29883--29916 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29873 CATTATATTT
*
29883 TGGATTGTTTGATTTTG
1 TGGATTGTTGGATTTTG
29900 TGGATTGTTGGATTTTG
1 TGGATTGTTGGATTTTG
29917 GATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGGATTTTG
Found at i:30646 original size:76 final size:76
Alignment explanation
Indices: 30520--30725 Score: 355
Period size: 76 Copynumber: 2.7 Consensus size: 76
30510 CAAAGTCAAA
* *
30520 AATTCCAG-ATTGCTCAGAGGGAACCGATTCCCCCCCAAGGGGGTACCGATTCCCCCCTGAATGG
1 AATTCCAGTA-TGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGG
30584 TTTGTCTCCGAG
65 TTTGTCTCCGAG
30596 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGGT
1 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGGT
30661 TTGTCTCCGAG
66 TTGTCTCCGAG
*
30672 AATTCCAGTATGCTCGGAGGGAACCGATT--CCCCCCAGTGGGTACCGATTCCCCC
1 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCC
30726 TTGTATAACG
Statistics
Matches: 126, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
74 24 0.19
76 101 0.80
77 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.22
Consensus pattern (76 bp):
AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCCAGGGGGTACCGATTCCCCCCTGAATGGT
TTGTCTCCGAG
Found at i:31750 original size:42 final size:41
Alignment explanation
Indices: 31702--31858 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 41
31692 AAAATCATAC
31702 TTTAGCGGCGTTTTTTAAACAAACGTCGCAATAGAGTGGTAA
1 TTTAGCGGCG-TTTTTAAACAAACGTCGCAATAGAGTGGTAA
* ** *
31744 TTTAGCGGCGTTTATAGCTCAAACGTCGCAATAGAGTTGT--
1 TTTAGCGGCGTTTTTA-AACAAACGTCGCAATAGAGTGGTAA
* * * *
31784 TTATAGTGGCGTTTTTCAACAAACGCCACAATAGAGTGGTAA
1 TT-TAGCGGCGTTTTTAAACAAACGTCGCAATAGAGTGGTAA
* ** * *
31826 TGTAGCGGCGTTTTTGTACAAACGCCGCGATAG
1 TTTAGCGGCGTTTTTAAACAAACGTCGCAATAG
31859 TGTTATTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 20 0.22
41 42 0.45
42 31 0.33
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAAACAAACGTCGCAATAGAGTGGTAA
Found at i:31799 original size:82 final size:81
Alignment explanation
Indices: 31708--31890 Score: 242
Period size: 82 Copynumber: 2.2 Consensus size: 81
31698 ATACTTTAGC
* * * * *
31708 GGCGTTTTTTAAACAAACGTCGCAATAGAGTGGTAATTTAGCGGCGTTTATAGCT-CAAACGTCG
1 GGCG-TTTTTCAACAAACGCCACAATAGAGTGGTAATGTAGCGGCGTTT-TAG-TACAAACGCCG
*
31772 CAATAGAGTTGTTTATAGT
63 CAATAGAGTTATTTATAGT
* *
31791 GGCGTTTTTCAACAAACGCCACAATAGAGTGGTAATGTAGCGGCGTTTTTGTACAAACGCCGCGA
1 GGCGTTTTTCAACAAACGCCACAATAGAGTGGTAATGTAGCGGCGTTTTAGTACAAACGCCGCAA
*
31856 TAGTGTTATTTATAGT
66 TAGAGTTATTTATAGT
31872 GGCGTTTGTTCAACAAACG
1 GGCGTTT-TTCAACAAACG
31891 ATGGTATAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 33 0.37
82 51 0.57
83 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (81 bp):
GGCGTTTTTCAACAAACGCCACAATAGAGTGGTAATGTAGCGGCGTTTTAGTACAAACGCCGCAA
TAGAGTTATTTATAGT
Found at i:31818 original size:40 final size:40
Alignment explanation
Indices: 31763--31890 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 40
31753 GTTTATAGCT
*
31763 CAAACGTCGCAATAGAGTTGTTTATAGTGGCGTTTTTCAA
1 CAAACGCCGCAATAGAGTTGTTTATAGTGGCGTTTTTCAA
* * * * * **
31803 CAAACGCCACAATAGAGTGGTAATGTAGCGGCGTTTTTGTA
1 CAAACGCCGCAATAGAGTTGT-TTATAGTGGCGTTTTTCAA
* * *
31844 CAAACGCCGCGATAGTGTTATTTATAGTGGCGTTTGTTCAA
1 CAAACGCCGCAATAGAGTTGTTTATAGTGGCGTTT-TTCAA
31885 CAAACG
1 CAAACG
31891 ATGGTATAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
40 29 0.43
41 39 0.57
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
CAAACGCCGCAATAGAGTTGTTTATAGTGGCGTTTTTCAA
Found at i:32463 original size:22 final size:22
Alignment explanation
Indices: 32437--32486 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
32427 AAGTGTTTTT
32437 TTGCTTTCGAATAGAAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
*
32459 TTGCTTTCGAATAGGAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
*
32481 TAGCTT
1 TTGCTT
32487 CTGAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (22 bp):
TTGCTTTCGAATAGAAAAATAA
Found at i:33484 original size:23 final size:23
Alignment explanation
Indices: 33458--33507 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
33448 AACTTCTGGC
33458 TTAATTAAAATGTATGATTATTG
1 TTAATTAAAATGTATGATTATTG
*
33481 TTAATTAAAATGTATGATTGTTG
1 TTAATTAAAATGTATGATTATTG
33504 TTAA
1 TTAA
33508 GTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (23 bp):
TTAATTAAAATGTATGATTATTG
Found at i:34200 original size:13 final size:13
Alignment explanation
Indices: 34182--34213 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34172 GGTAAGCAGC
34182 TTCTTCTCTTCTG
1 TTCTTCTCTTCTG
34195 TTCTTCTCTTCTG
1 TTCTTCTCTTCTG
*
34208 TACTTC
1 TTCTTC
34214 AATCGTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.31, G:0.06, T:0.59
Consensus pattern (13 bp):
TTCTTCTCTTCTG
Found at i:35485 original size:25 final size:25
Alignment explanation
Indices: 35455--35511 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
35445 GTCGTTTGGA
35455 GCTTCTTGAAGTTTAATTTGGAATT
1 GCTTCTTGAAGTTTAATTTGGAATT
35480 GCTTCTTGAAGTTTAATTTGGAATT
1 GCTTCTTGAAGTTTAATTTGGAATT
35505 GCTTCTT
1 GCTTCTT
35512 CTAACCCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (25 bp):
GCTTCTTGAAGTTTAATTTGGAATT
Found at i:54166 original size:41 final size:44
Alignment explanation
Indices: 54129--54340 Score: 158
Period size: 44 Copynumber: 4.8 Consensus size: 44
54119 CATTTTTTTA
* * *
54129 ACAAACGCCGTTATATATCA-ACCTTTAGTGGCGTTTTTAGAAT
1 ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTTTAGAAT
** ***
54172 ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTACATCCT
1 ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTTTAGAAT
* ** ** * * ***
54216 AAAAACGATGCTATATACCAGATATTTAACGGCGTTTGTATTCT
1 ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTTTAGAAT
* * * * * *
54260 AAAAATGCCGCTATATACCAGACATTTAGCGGCGTTTATATACT
1 ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTTTAGAAT
* * *
54304 GA-AAATGCCGCTATATACCAGAGCTTTAGCGACGTTT
1 -ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTT
54341 GTATCCTAAA
Statistics
Matches: 140, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
43 18 0.13
44 121 0.86
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAACGCCGCTATATACCAGACCTTTAGCGGCGTTTTTAGAAT
Found at i:54222 original size:44 final size:44
Alignment explanation
Indices: 54174--54358 Score: 228
Period size: 44 Copynumber: 4.2 Consensus size: 44
54164 TTTAGAATAC
* *
54174 AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTACATCCTAA
1 AAACGCCGCTATATACCAGACATTTAGCGGCGTTTATATCCTAA
** * * * *
54218 AAACGATGCTATATACCAGATATTTAACGGCGTTTGTATTCTAA
1 AAACGCCGCTATATACCAGACATTTAGCGGCGTTTATATCCTAA
* * *
54262 AAATGCCGCTATATACCAGACATTTAGCGGCGTTTATATACTGA
1 AAACGCCGCTATATACCAGACATTTAGCGGCGTTTATATCCTAA
* * *
54306 AAATGCCGCTATATACCAGAGC-TTTAGCGACGTTTGTATCCTAA
1 AAACGCCGCTATATACCAGA-CATTTAGCGGCGTTTATATCCTAA
54350 AAACGCCGC
1 AAACGCCGC
54359 GAAATCTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 118 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
AAACGCCGCTATATACCAGACATTTAGCGGCGTTTATATCCTAA
Found at i:54279 original size:88 final size:88
Alignment explanation
Indices: 54174--54358 Score: 253
Period size: 88 Copynumber: 2.1 Consensus size: 88
54164 TTTAGAATAC
* * * *
54174 AAACGCCGCTATATACCAGACCTTTAGCGGCGTTTACATCCTAAAAACGATGCTATATACCAGAT
1 AAACGCCGCTATATACCAGACATTTAGCGGCGTTTACATACTAAAAACGACGCTATATACCAGAG
* *
54239 ATTTAACGGCGTTTGTATTCTAA
66 ATTTAACGACGTTTGTATCCTAA
* * * * *
54262 AAATGCCGCTATATACCAGACATTTAGCGGCGTTTATATACTGAAAATGCCGCTATATACCAGAG
1 AAACGCCGCTATATACCAGACATTTAGCGGCGTTTACATACTAAAAACGACGCTATATACCAGAG
* *
54327 CTTTAGCGACGTTTGTATCCTAA
66 ATTTAACGACGTTTGTATCCTAA
54350 AAACGCCGC
1 AAACGCCGC
54359 GAAATCTCAA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (88 bp):
AAACGCCGCTATATACCAGACATTTAGCGGCGTTTACATACTAAAAACGACGCTATATACCAGAG
ATTTAACGACGTTTGTATCCTAA
Found at i:69349 original size:21 final size:21
Alignment explanation
Indices: 69325--69372 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
69315 AGCTGGAAAT
69325 TTCCCAAGAGAAATT-GATTAC
1 TTCCCAAGAGAAATTAG-TTAC
69346 TTCCCAAGAGAAATTAGTTAC
1 TTCCCAAGAGAAATTAGTTAC
69367 TTCCCA
1 TTCCCA
69373 GAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (21 bp):
TTCCCAAGAGAAATTAGTTAC
Found at i:72772 original size:34 final size:32
Alignment explanation
Indices: 72705--72773 Score: 77
Period size: 34 Copynumber: 2.1 Consensus size: 32
72695 CGAATTTAAA
* *
72705 TTCAAGATTTATCTTTATTTTTTAGGATTTAAT
1 TTCAAGAATTATCTTTATTTTTTA-GATGTAAT
72738 TTCAAGAATTATCTTTTATGATTTTTA-ATGTAAT
1 TTCAAGAATTATC-TTTAT--TTTTTAGATGTAAT
72772 TT
1 TT
72774 TAGGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 12 0.39
34 13 0.42
36 6 0.19
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (32 bp):
TTCAAGAATTATCTTTATTTTTTAGATGTAAT
Found at i:74492 original size:15 final size:16
Alignment explanation
Indices: 74459--74513 Score: 76
Period size: 15 Copynumber: 3.4 Consensus size: 16
74449 GAAATCGTCG
*
74459 ACCCGGAAGTTCCGGGT
1 ACCCGGAAATT-CGGGT
74476 ACCCGGAAATT-GGGT
1 ACCCGGAAATTCGGGT
*
74491 ACCCGAAAATTCGGGT
1 ACCCGGAAATTCGGGT
74507 ACCCGGA
1 ACCCGGA
74514 TTTGCACACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.41
16 10 0.29
17 10 0.29
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.16
Consensus pattern (16 bp):
ACCCGGAAATTCGGGT
Found at i:81511 original size:17 final size:17
Alignment explanation
Indices: 81482--81515 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
81472 ATCGTTTGGA
81482 TATTATTGATTTATTTT
1 TATTATTGATTTATTTT
81499 TATT-TTGAGTTTATTTT
1 TATTATTGA-TTTATTTT
81516 GGATAGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TATTATTGATTTATTTT
Found at i:85421 original size:20 final size:19
Alignment explanation
Indices: 85396--85434 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
85386 GGAGGCAACC
*
85396 ATTTTATTATTCTTTTATTT
1 ATTTTATTACT-TTTTATTT
85416 ATTTTATTACTTTTTATTT
1 ATTTTATTACTTTTTATTT
85435 TTGGTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTATTACTTTTTATTT
Found at i:89315 original size:29 final size:29
Alignment explanation
Indices: 89277--89358 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
89267 ACAGTGATCA
*
89277 TAGGATGCCATGCAATCCAGGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
89306 TAGGACGCCATGCAATCCAGGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
89335 TAGGACGCCATGCAATCCAGGCGA
1 TAGGACGCCATGCAATCCAGGCGA
89359 CATATGGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.20
Consensus pattern (29 bp):
TAGGACGCCATGCAATCCAGGCGATCTTG
Found at i:89415 original size:35 final size:35
Alignment explanation
Indices: 89369--89446 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
89359 CATATGGGAA
89369 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
89404 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
89439 CATACGAG
1 CATACGAG
89447 TGTTCTCCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (35 bp):
CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
Found at i:89463 original size:26 final size:26
Alignment explanation
Indices: 89434--89491 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
89424 CCCATGCATA
* *
89434 CGAGCCATACGAGTGTTCTCCCTATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89460 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89486 CGAGCC
1 CGAGCC
89492 CCATGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.36, G:0.24, T:0.21
Consensus pattern (26 bp):
CGAGCCATACGAGCGTTCTCCCCATG
Found at i:89506 original size:67 final size:67
Alignment explanation
Indices: 89423--89642 Score: 260
Period size: 67 Copynumber: 3.0 Consensus size: 67
89413 CAATGGTTCT
89423 CCCCATGCATACGAGCCATACGAGTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCCATGCG
1 CCCCATGCATACGAGCCATACGAGTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCCATGCG
89488 AG
66 AG
* *
89490 CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
1 CCCCATGCATACGAGCCATACGAGTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCCATGCG
89555 AGGTGG
66 A----G
*
89561 TTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGAGCG
1 ----CCCCATGCATACGAGCCATACGAG----T-GTTCT-CCC-T--ATGCGAGCCATACGAGCG
89626 TTCTCCCCATGCGAG
53 TTCTCCCCATGCGAG
89641 CC
1 CC
89643 ATACGAGCGT
Statistics
Matches: 131, Mismatches: 5, Indels: 25
0.81 0.03 0.16
Matches are distributed among these distances:
67 64 0.49
71 1 0.01
75 24 0.18
76 2 0.02
80 6 0.05
81 3 0.02
84 31 0.24
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.20
Consensus pattern (67 bp):
CCCCATGCATACGAGCCATACGAGTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCCATGCG
AG
Found at i:89532 original size:26 final size:26
Alignment explanation
Indices: 89501--89668 Score: 161
Period size: 26 Copynumber: 6.2 Consensus size: 26
89491 CCCATGCATA
89501 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89527 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
*
89553 CGAG------GTG-GTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89572 CATACGAGCCATACGAGCCAATGGTTCTCCCCATG
1 ----CGAGCCATACGAG-C----GTTCTCCCCATG
89607 CATACGAGCCATACGAGCGTTCTCCCCATG
1 ----CGAGCCATACGAGCGTTCTCCCCATG
89637 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89663 CGAGCC
1 CGAGCC
89669 CCATGCATAC
Statistics
Matches: 124, Mismatches: 2, Indels: 32
0.78 0.01 0.20
Matches are distributed among these distances:
19 12 0.10
20 2 0.02
23 4 0.03
26 62 0.50
29 2 0.02
30 12 0.10
34 1 0.01
35 29 0.23
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (26 bp):
CGAGCCATACGAGCGTTCTCCCCATG
Found at i:89604 original size:35 final size:35
Alignment explanation
Indices: 89558--89624 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
89548 CCATGCGAGG
89558 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAA
1 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAA
89593 TGGTTCTCCCCATGCATACGAGCCATACGAGC
1 TGGTTCTCCCCATGCATACGAGCCATACGAGC
89625 GTTCTCCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (35 bp):
TGGTTCTCCCCATGCATACGAGCCATACGAGCCAA
Found at i:89613 original size:110 final size:97
Alignment explanation
Indices: 89418--89733 Score: 406
Period size: 93 Copynumber: 3.5 Consensus size: 97
89408 CGAGCCAATG
* *
89418 GTTCTCCCCATGCATACGAGCCATACGAGTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCC
1 GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCC
89483 ATGCGAGCCCCATGCATACGAGCCATACGAGC
66 ATGCGAGCCCCATGCATACGAGCCATACGAGC
*
89515 GTTCTCCCCATG----CGAGCCATACGAGCGTTCTCCCCATGCGAG------GTG-GTTCTCCCC
1 GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCC
** * *
89569 ATGC-A-TACGA-GCCATACGAGCCA-A--TG-
66 ATGCGAGCCCCATG-CATACGAGCCATACGAGC
89595 GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCC
1 GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCC
89660 ATGCGAGCCCCATGCATACGAGCCATACGAGC
66 ATGCGAGCCCCATGCATACGAGCCATACGAGC
89692 GTTCTCCCCATG----CGAGCCATACGAGCGTTCTCCCCATGCGAG
1 GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAG
89734 GTGGCCATGC
Statistics
Matches: 188, Mismatches: 12, Indels: 42
0.78 0.05 0.17
Matches are distributed among these distances:
80 12 0.06
81 1 0.01
83 2 0.01
84 43 0.23
85 1 0.01
86 13 0.07
87 2 0.01
90 2 0.01
91 13 0.07
92 1 0.01
93 71 0.38
94 2 0.01
96 1 0.01
97 24 0.13
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.20
Consensus pattern (97 bp):
GTTCTCCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCC
ATGCGAGCCCCATGCATACGAGCCATACGAGC
Found at i:89677 original size:177 final size:177
Alignment explanation
Indices: 89381--89737 Score: 696
Period size: 177 Copynumber: 2.0 Consensus size: 177
89371 TACGAGCCAA
89381 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGA
1 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGA
* *
89446 GTGTTCTCCCTATGCGAGCCATACGAGCGTTCTCCCCATGCGAGCCCCATGCATACGAGCCATAC
66 GCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGCCCCATGCATACGAGCCATAC
89511 GAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGG
131 GAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGG
89558 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGA
1 TGGTTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGA
89623 GCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGCCCCATGCATACGAGCCATAC
66 GCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGCCCCATGCATACGAGCCATAC
89688 GAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGG
131 GAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGG
89735 TGG
1 TGG
89738 CCATGCAGTG
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (177 bp):
TGGTTCTCCCCATGCATACGAGCCATACGAGCCAATGGTTCTCCCCATGCATACGAGCCATACGA
GCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGCCCCATGCATACGAGCCATAC
GAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCGAGG
Found at i:89679 original size:67 final size:67
Alignment explanation
Indices: 89600--89733 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
89590 CAATGGTTCT
89600 CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
1 CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
89665 AG
66 AG
89667 CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
1 CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
89732 AG
66 AG
89734 GTGGCCATGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.21, C:0.39, G:0.22, T:0.18
Consensus pattern (67 bp):
CCCCATGCATACGAGCCATACGAGCGTTCTCCCCATGCGAGCCATACGAGCGTTCTCCCCATGCG
AG
Found at i:89709 original size:26 final size:26
Alignment explanation
Indices: 89678--89733 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
89668 CCCATGCATA
89678 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89704 CGAGCCATACGAGCGTTCTCCCCATG
1 CGAGCCATACGAGCGTTCTCCCCATG
89730 CGAG
1 CGAG
89734 GTGGCCATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.18
Consensus pattern (26 bp):
CGAGCCATACGAGCGTTCTCCCCATG
Found at i:89806 original size:29 final size:29
Alignment explanation
Indices: 89756--89864 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
89746 TGGAATAGAG
* *
89756 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
89785 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
89814 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
89843 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
89865 CCATTCCCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:89883 original size:13 final size:13
Alignment explanation
Indices: 89865--89896 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
89855 AGTCCCGGCG
*
89865 CCATTCCCATCGT
1 CCATTCCCATCAT
89878 CCATTCCCATCAT
1 CCATTCCCATCAT
89891 CCATTC
1 CCATTC
89897 ACATGCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.47, G:0.03, T:0.31
Consensus pattern (13 bp):
CCATTCCCATCAT
Found at i:89940 original size:72 final size:72
Alignment explanation
Indices: 89850--89994 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
89840 TGTAGGTCGC
89850 CATGTAGTCCCGGCGCCATTCCCATCGTCCATTCCCATCATCCATTCACATGCAGCCATATAGAT
1 CATGTAGTCCCGGCGCCATTCCCATCGTCCATTCCCATCATCCATTCACATGCAGCCATATAGAT
89915 TCCTTCA
66 TCCTTCA
89922 CATGTAGTCCCGGCGCCATTCCCATCGTCCATTCCCATCATCCATTCACATGCAGCCATATAGAT
1 CATGTAGTCCCGGCGCCATTCCCATCGTCCATTCCCATCATCCATTCACATGCAGCCATATAGAT
89987 TCCTTCA
66 TCCTTCA
89994 C
1 C
89995 GTGTGCATGC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.22, C:0.38, G:0.12, T:0.28
Consensus pattern (72 bp):
CATGTAGTCCCGGCGCCATTCCCATCGTCCATTCCCATCATCCATTCACATGCAGCCATATAGAT
TCCTTCA
Found at i:89955 original size:13 final size:13
Alignment explanation
Indices: 89937--89968 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
89927 AGTCCCGGCG
*
89937 CCATTCCCATCGT
1 CCATTCCCATCAT
89950 CCATTCCCATCAT
1 CCATTCCCATCAT
89963 CCATTC
1 CCATTC
89969 ACATGCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.47, G:0.03, T:0.31
Consensus pattern (13 bp):
CCATTCCCATCAT
Found at i:90150 original size:25 final size:25
Alignment explanation
Indices: 90122--90173 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
90112 TGTACAATTA
*
90122 TTGGTGAAATAATTAAGGCAGTCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
*
90147 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
90172 TT
1 TT
90174 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TTGGTGAAATAATTAAGGCAGCCGG
Found at i:90268 original size:21 final size:21
Alignment explanation
Indices: 90236--90286 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
90226 TTGCAGCCGA
90236 GAAA-AAA-AAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
90255 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
*
90276 GAAAGTAAGAA
1 GAAAGAAAGAA
90287 GAAGAAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 22 0.76
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (21 bp):
GAAAGAAAGAAAGGGAGAAAG
Found at i:90491 original size:40 final size:39
Alignment explanation
Indices: 90447--90572 Score: 105
Period size: 40 Copynumber: 3.1 Consensus size: 39
90437 TATACATAAA
90447 TTAAAAATTATTTAATTAGTATATGTTGATAGTTATATAG
1 TTAAAAATTATTTAATTAGT-TATGTTGATAGTTATATAG
* * *
90487 TTAAAAAATAATTAATTAGTTTGTATTGTTAATAGTTAGTTATA-
1 TTAAAAATTATTTAATTAG--T-TA-TGTTGATAGTTA--TATAG
* * *
90531 TAAAAAAATTATTTAATTAGTT-TG-TGTTAGTTAAATAG
1 T-TAAAAATTATTTAATTAGTTATGTTGATAGTTATATAG
90569 TTAA
1 TTAA
90573 GTTATATTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
37 5 0.07
38 1 0.01
39 7 0.10
40 19 0.28
42 4 0.06
43 12 0.18
44 1 0.01
45 19 0.28
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (39 bp):
TTAAAAATTATTTAATTAGTTATGTTGATAGTTATATAG
Found at i:90531 original size:47 final size:47
Alignment explanation
Indices: 90489--90579 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
90479 TTATATAGTT
90489 AAAAAA-TAATTAATTAGTTTGTATT-GTT-AATAGTTAGTTATATA
1 AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATA
* *
90533 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTT-AGTTATAT
90580 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 6 0.15
45 17 0.41
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (47 bp):
AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATA
Found at i:92894 original size:17 final size:17
Alignment explanation
Indices: 92872--92904 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92862 CAATGATTTT
*
92872 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
92889 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
92905 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:92921 original size:24 final size:22
Alignment explanation
Indices: 92889--92957 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
92879 AAATCATTAC
92889 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
92911 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
92936 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
92958 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:93150 original size:26 final size:26
Alignment explanation
Indices: 93112--93403 Score: 234
Period size: 26 Copynumber: 11.7 Consensus size: 26
93102 TAACTAAATA
* *
93112 ATTATTATAAAATCATGATTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
93138 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
93163 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
93184 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
93210 ATTATTA-CTAAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
93236 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* * *
93262 ATTATTATCAAACCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
93287 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
93308 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
93334 ATTATTA-CTTAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
93360 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
93386 ATTATTATCAAATCATTA
1 ATTATTATCAAATCATTA
93404 CTAAATCATC
Statistics
Matches: 209, Mismatches: 41, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
21 8 0.04
22 4 0.02
23 27 0.13
24 12 0.06
25 12 0.06
26 144 0.69
27 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (26 bp):
ATTATTATCAAATCATTATTATAATG
Found at i:93261 original size:124 final size:124
Alignment explanation
Indices: 93112--93461 Score: 646
Period size: 124 Copynumber: 2.8 Consensus size: 124
93102 TAACTAAATA
* * *
93112 ATTATTATAAAATCATGATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
93177 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
*
93236 ATTATTATCAAATCATTACTATAATGATTATTATCAAACCATTACTAAATCATCAAATCATTAAA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
*
93301 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTTAATCATTATTATAATG
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
93360 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
*
93425 TATTTAAATCATTATTAAATTATTTTTATAATGATTA
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTA
93462 ATAAATACAT
Statistics
Matches: 219, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 219 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (124 bp):
ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
Found at i:97171 original size:28 final size:30
Alignment explanation
Indices: 97131--97193 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
97121 ATTTTTTATA
*
97131 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
97161 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
97189 TAATA
1 TAATA
97194 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:97200 original size:28 final size:28
Alignment explanation
Indices: 97135--97200 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
97125 TTTATATAAT
*
97135 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
97163 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
97191 ATAATTTATA
1 ATAATATATA
97201 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:97203 original size:21 final size:21
Alignment explanation
Indices: 97170--97218 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
97160 CTAATATAAT
97170 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
97191 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
97212 ATTAACT
1 A-TAACT
97219 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:97707 original size:33 final size:34
Alignment explanation
Indices: 97647--97716 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 34
97637 CCATGCACAG
97647 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCA
1 TTCCCACGTCCAATG--CCATCCCCTCCCCCATGCA
*
97683 TTCCCACGTCCCATG-CATCCCCTCCCCCATGCA
1 TTCCCACGTCCAATGCCATCCCCTCCCCCATGCA
97716 T
1 T
97717 CCCCTCCCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 19 0.58
36 14 0.42
ACGTcount: A:0.17, C:0.53, G:0.09, T:0.21
Consensus pattern (34 bp):
TTCCCACGTCCAATGCCATCCCCTCCCCCATGCA
Found at i:97711 original size:16 final size:16
Alignment explanation
Indices: 97665--97797 Score: 135
Period size: 16 Copynumber: 8.2 Consensus size: 16
97655 TCCAATGCAC
97665 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
* * *
97681 CATTCCCACGTCCCATG
1 CATCCCCTC-CCCCATG
97698 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
97714 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
* * *
97730 CATTCCCACATCCCATG
1 CATCCCCTC-CCCCATG
*
97747 TTGAT-CCCTCCCCCATG
1 --CATCCCCTCCCCCATG
* *
97764 CATTCCC-ACCCCATG
1 CATCCCCTCCCCCATG
97779 CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATG
97795 CAT
1 CAT
97798 TCCCATGTCC
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
15 15 0.16
16 49 0.52
17 25 0.26
18 4 0.04
19 2 0.02
ACGTcount: A:0.16, C:0.55, G:0.08, T:0.22
Consensus pattern (16 bp):
CATCCCCTCCCCCATG
Found at i:97718 original size:49 final size:49
Alignment explanation
Indices: 97665--97781 Score: 166
Period size: 49 Copynumber: 2.4 Consensus size: 49
97655 TCCAATGCAC
*
97665 CATCCCCTCCCCCATGCATTCCCACGTCCCATG-CATCCCCTCCCCCATG
1 CATCCCCTCCCCCATGCATTCCCACATCCCATGTCAT-CCCTCCCCCATG
*
97714 CATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCCTCCCCCATG
1 CATCCCCTCCCCCATGCATTCCCACATCCCATG-TCATCCCTCCCCCATG
* *
97764 CATTCCC-ACCCCATGCAT
1 CATCCCCTCCCCCATGCAT
97782 CCCCTCCCCC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
49 42 0.68
50 18 0.29
51 2 0.03
ACGTcount: A:0.16, C:0.54, G:0.08, T:0.22
Consensus pattern (49 bp):
CATCCCCTCCCCCATGCATTCCCACATCCCATGTCATCCCTCCCCCATG
Found at i:97760 original size:34 final size:34
Alignment explanation
Indices: 97715--97816 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 34
97705 TCCCCCATGC
97715 ATCCCCTCCCCCATGCATTCCCACATCCCATGTTG
1 ATCCCCTCCCCCATGCATTCCCAC-TCCCATGTTG
*
97750 AT-CCCTCCCCCATGCATTCCCAC-CCCATG--C
1 ATCCCCTCCCCCATGCATTCCCACTCCCATGTTG
*
97780 ATCCCCTCCCCCATGCATTCCCATGTCCCATGTTG
1 ATCCCCTCCCCCATGCATTCCCA-CTCCCATGTTG
97815 AT
1 AT
97817 TGCATGGCGA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
30 2 0.03
31 20 0.34
32 6 0.10
33 6 0.10
34 21 0.36
35 4 0.07
ACGTcount: A:0.17, C:0.49, G:0.09, T:0.25
Consensus pattern (34 bp):
ATCCCCTCCCCCATGCATTCCCACTCCCATGTTG
Found at i:97786 original size:65 final size:66
Alignment explanation
Indices: 97692--97816 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 66
97682 ATTCCCACGT
*
97692 CCCATGCATCCCCTCCCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCCTC
1 CCCATGCATCCCCTACCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCCTC
97757 C
66 C
* **
97758 CCCATGCATTCCC-ACCCCATGCATCCCCTCCCCCATGCATTCCCATGTCCCATGTTGAT
1 CCCATGCATCCCCTACCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGAT
97817 TGCATGGCGA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
65 43 0.78
66 12 0.22
ACGTcount: A:0.16, C:0.51, G:0.09, T:0.24
Consensus pattern (66 bp):
CCCATGCATCCCCTACCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCCTC
C
Found at i:97891 original size:29 final size:29
Alignment explanation
Indices: 97849--97966 Score: 236
Period size: 29 Copynumber: 4.1 Consensus size: 29
97839 TAATACACAC
97849 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97878 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97907 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97936 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97965 AG
1 AG
97967 ACCACTGTAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:99047 original size:13 final size:13
Alignment explanation
Indices: 99029--99054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99019 TTTAAAATCT
99029 TAGTTATTTATTA
1 TAGTTATTTATTA
99042 TAGTTATTTATTA
1 TAGTTATTTATTA
99055 AAATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TAGTTATTTATTA
Found at i:102192 original size:84 final size:82
Alignment explanation
Indices: 102075--102327 Score: 269
Period size: 81 Copynumber: 3.0 Consensus size: 82
102065 ATATTATTGA
* * * * * *
102075 CAGATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGTTGTGCCTTAGAGTTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
102140 CTCGAAGGTCTTTGGTTGG
65 CTCGAAGGTCTTT-GTTGG
* * * * * * * *
102159 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATACCCTCGAAACTGAGTGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-GCCTTG-AGCTGAGCGTAGTCGA
**
102224 ACTCGGGGGTC--T-TTGG
64 ACTCGAAGGTCTTTGTTGG
102240 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCATTGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAA
* *
102305 CTCAAAGGTCTTTTGTTAG
65 CTCGAAGGTC-TTTGTTGG
102324 CAGA
1 CAGA
102328 CACTCCTTCT
Statistics
Matches: 134, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
80 23 0.17
81 44 0.33
83 2 0.01
84 41 0.31
85 24 0.18
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGTTGG
Found at i:102703 original size:106 final size:106
Alignment explanation
Indices: 102518--104322 Score: 2991
Period size: 106 Copynumber: 17.0 Consensus size: 106
102508 TATTGTTCTA
* * * * * *
102518 AGTCCAATATCCTCCGCCGTGAAGTTGTAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
102583 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
102624 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
102689 CGGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
102730 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGTTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
102795 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
102836 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
102901 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
102942 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
103007 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
103048 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
103113 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
103154 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
103219 CAGCGGTCCCTTCATCGTGAAGTTGAACATGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
103260 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
103325 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
103366 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
103431 C-GACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
103472 AGTCCAATATCCTTCGCTGTGATGTTGAAATTGGCTCTGAAGTTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
103537 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
103578 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
103643 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
103684 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
103749 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
103790 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
103855 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
103896 AATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
103961 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
104002 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
104067 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
104108 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
104173 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
104214 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAAT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * *
104279 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
104320 AGT
1 AGT
104323 GGCACGATAC
Statistics
Matches: 1601, Mismatches: 96, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
105 1 0.00
106 1599 1.00
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:112023 original size:57 final size:58
Alignment explanation
Indices: 111962--112071 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
111952 AAATCCCTCT
** *
111962 CATAA-TTTTTAAAAATTCTCATTAAACCTCTC-AAAATTTTAAAAATTTTAATCATAC
1 CATAATTTTTTAAAAATT-AAACTAAACCTCTCAAAAATTTTAAAAATTTTAATCATAC
* * *
112019 CATAATTTTTTTAAAATTAAACTAAACCTTTCAAAAATTTTGAAAATTTTAAT
1 CATAATTTTTTAAAAATTAAACTAAACCTCTCAAAAATTTTAAAAATTTTAAT
112072 TTTTATTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 15 0.33
58 30 0.67
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.42
Consensus pattern (58 bp):
CATAATTTTTTAAAAATTAAACTAAACCTCTCAAAAATTTTAAAAATTTTAATCATAC
Found at i:147988 original size:20 final size:20
Alignment explanation
Indices: 147927--148155 Score: 212
Period size: 20 Copynumber: 11.4 Consensus size: 20
147917 GATTTTCAAG
* ** *
147927 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
147947 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
147967 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
147987 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
148007 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
148027 AATCGCAATGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
*
148047 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
148067 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * **
148087 AATCGCAACGAGAATATGTA
1 AATCGCAACGCGTATCCGTA
*
148107 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
148127 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
148147 AATCACAAC
1 AATCGCAAC
148156 ACTGAAATTT
Statistics
Matches: 171, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 167 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:148887 original size:24 final size:24
Alignment explanation
Indices: 148848--148894 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
148838 AAATTTGGTC
148848 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
148872 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
148895 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:149086 original size:12 final size:12
Alignment explanation
Indices: 149069--149093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
149059 ATATAATCCT
149069 GAAGAAGAAAAA
1 GAAGAAGAAAAA
149081 GAAGAAGAAAAA
1 GAAGAAGAAAAA
149093 G
1 G
149094 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:151459 original size:19 final size:19
Alignment explanation
Indices: 151390--151703 Score: 372
Period size: 19 Copynumber: 17.7 Consensus size: 19
151380 GCAACGAGAC
151390 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151409 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
151423 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
151443 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
151462 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151481 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
151495 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
151515 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151534 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
151548 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
151567 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151586 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
151600 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
151619 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151638 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
151652 AATCGCAATGCAGAAATGAA
1 AATCGCAATGC-GAAATGAA
151672 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
151691 AATCGCATTGCGA
1 AATCGCAATGCGA
151704 TTCTCTCGTT
Statistics
Matches: 256, Mismatches: 11, Indels: 56
0.79 0.03 0.17
Matches are distributed among these distances:
14 52 0.20
15 4 0.02
16 7 0.03
17 11 0.04
18 2 0.01
19 138 0.54
20 42 0.16
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:151483 original size:72 final size:72
Alignment explanation
Indices: 151390--151694 Score: 325
Period size: 72 Copynumber: 4.3 Consensus size: 72
151380 GCAACGAGAC
151390 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAAAATCGCAATGC-GAAATGAAAATCGCAATGC
151454 GAAATGAA
65 GAAATGAA
* * *
151462 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAAAATCGCAATGC-GAAATGAAAATCGCAATGC
151526 GAAATGAA
65 GAAATGAA
* * * * *
151534 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAAAATCGCAATGCGAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
151594 CG--A-GAG
64 CGAAATGAA
* *
151600 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAAAATCGCAATGCGAAATGAAAATCGCAA
151660 TGCAGAAATGAA
62 TGC-GAAATGAA
151672 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
151695 GCATTGCGAT
Statistics
Matches: 201, Mismatches: 15, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
64 1 0.00
65 6 0.03
66 26 0.13
67 2 0.01
68 1 0.00
69 5 0.02
71 32 0.16
72 120 0.60
73 7 0.03
74 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:151505 original size:105 final size:101
Alignment explanation
Indices: 151376--151697 Score: 477
Period size: 105 Copynumber: 3.1 Consensus size: 101
151366 CGGAAATTAC
* *
151376 AATCGCAACGAGACAATCGCAATGCGAAATGAAAATCCCAA-C-ATGAAAATCGCAATGCGGAAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCAATGAAAATCGCAA--C-G--A
*
151439 TGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61 -GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
151481 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA-GC--AATGAAAATCGCAACGAG
151546 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
62 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
151586 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-GC--AATGAAAATCGCAACGAGA
151651 GAATCGCAATGCAGAAATGAAAATCGCAATGCGAAATGAA
63 GAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
151691 AATCGCA
1 AATCGCA
151698 TTGCGATTCT
Statistics
Matches: 207, Mismatches: 3, Indels: 14
0.92 0.01 0.06
Matches are distributed among these distances:
104 52 0.25
105 123 0.59
106 16 0.08
108 2 0.01
109 1 0.00
111 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (101 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCAATGAAAATCGCAACGAGAGAA
TCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:151585 original size:52 final size:52
Alignment explanation
Indices: 151376--151697 Score: 510
Period size: 52 Copynumber: 6.1 Consensus size: 52
151366 CGGAAATTAC
* *
151376 AATCGCAACGAGACAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
151423 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
151481 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
151534 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
151586 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
151638 AATCGCAACGAGAGAATCGCAATGCAGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
151691 AATCGCA
1 AATCGCA
151698 TTGCGATTCT
Statistics
Matches: 259, Mismatches: 3, Indels: 20
0.92 0.01 0.07
Matches are distributed among these distances:
47 8 0.03
49 1 0.00
50 1 0.00
52 118 0.46
53 115 0.44
55 2 0.01
56 1 0.00
58 13 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:151731 original size:53 final size:52
Alignment explanation
Indices: 151674--151789 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
151664 GAAATGAAAA
*
151674 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATTT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCA-TT
** ** **
151727 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
151779 TCGCATTGCGA
1 TCGCATTGCGA
151790 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 13 0.23
53 43 0.77
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:151803 original size:52 final size:53
Alignment explanation
Indices: 151693--151809 Score: 227
Period size: 52 Copynumber: 2.2 Consensus size: 53
151683 GAAATGAAAA
151693 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
151746 TCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
151798 TCGCATTGCGAT
1 TCGCATTGCGAT
151810 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 33 0.52
53 31 0.48
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
Found at i:151817 original size:19 final size:19
Alignment explanation
Indices: 151712--151809 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
151702 GATTCTCTCG
151712 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
151732 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
151751 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
151765 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
151784 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
151803 TTGCGAT
1 TTGCGAT
151810 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 39 0.55
20 12 0.17
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:151935 original size:14 final size:14
Alignment explanation
Indices: 151916--151952 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
151906 CATCAATTAC
151916 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
151930 ACAAATCATCTTTT
1 ACAAATCAACTTTT
151944 ACAAATCAA
1 ACAAATCAA
151953 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:153851 original size:19 final size:19
Alignment explanation
Indices: 153827--153945 Score: 122
Period size: 19 Copynumber: 6.5 Consensus size: 19
153817 TGGTTGAAGT
* *
153827 AATCGCAACGCGAAATGAG
1 AATCGCAACGCGAAATCAA
* *
153846 AATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATCAA
*
153865 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATCAA
*
153884 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATCAA
*
153903 AATCGCAA--CG--A-CAG
1 AATCGCAACGCGAAATCAA
* *
153917 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATCAA
153936 AATCGCAACG
1 AATCGCAACG
153946 AGAGAATCGC
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 68 0.82
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAATCAA
Found at i:153930 original size:33 final size:33
Alignment explanation
Indices: 153884--153976 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
153874 GCGAAACCAA
*
153884 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGACAG
*
153917 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGACAG
*
153950 AATCGCAACT-AGAAATGAAAATCGCAA
1 AATCGCAA-TGCGAAATGAAAATCGCAA
153977 TACGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGACAG
Found at i:154001 original size:19 final size:18
Alignment explanation
Indices: 153979--154068 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 18
153969 AATCGCAATA
153979 CGATTTTGGTTTCGCGTTG
1 CGATTTT-GTTTCGCGTTG
153998 CGATTTTG--T--CGTTG
1 CGATTTTGTTTCGCGTTG
154012 CGATTTTGGTTTCGCGTTG
1 CGATTTT-GTTTCGCGTTG
*
154031 CGATTCTG--T--CGTTG
1 CGATTTTGTTTCGCGTTG
*
154045 CGATTTTCATTTCGCGTTG
1 CGATTTT-GTTTCGCGTTG
154064 CGATT
1 CGATT
154069 CTCTCGTTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
14 23 0.40
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 28 0.48
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.47
Consensus pattern (18 bp):
CGATTTTGTTTCGCGTTG
Found at i:154012 original size:14 final size:14
Alignment explanation
Indices: 153993--154051 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
153983 TTTGGTTTCG
153993 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
154007 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
154024 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
154040 CGTTGCGATTTT
1 CGTTGCGATTTT
154052 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:154021 original size:33 final size:33
Alignment explanation
Indices: 153979--154100 Score: 172
Period size: 33 Copynumber: 3.7 Consensus size: 33
153969 AATCGCAATA
*
153979 CGATTTTGGTTTCGCGTTGCGATTTTGTCGTTG
1 CGATTTTGGTTTCGCGTTGCGATTCTGTCGTTG
154012 CGATTTTGGTTTCGCGTTGCGATTCTGTCGTTG
1 CGATTTTGGTTTCGCGTTGCGATTCTGTCGTTG
** *
154045 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
1 CGATTTTGGTTTCGCGTTGCGATTCTGTCGTTG
* * *
154078 TGATTTTAAGTTTCGTGTTGCGA
1 CGATTTT-GGTTTCGCGTTGCGA
154101 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 68 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
CGATTTTGGTTTCGCGTTGCGATTCTGTCGTTG
Found at i:154357 original size:93 final size:93
Alignment explanation
Indices: 154198--154605 Score: 782
Period size: 93 Copynumber: 4.4 Consensus size: 93
154188 TCAGGGTATT
154198 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
154263 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
154291 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAAACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
154356 TACTATTTCACAGTGTTAAAGAATACAT
66 TACTATTTCACAGTGTTAAAGAATACAC
154384 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
154449 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
154477 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
154542 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
154570 AGTTTAGCAGAATTGGCAGCAACCGAA-TAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
154606 AAGCAATCTA
Statistics
Matches: 310, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
92 8 0.03
93 302 0.97
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:156323 original size:20 final size:20
Alignment explanation
Indices: 156292--156398 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 20
156282 TTTTGGTTGA
156292 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
156312 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
156332 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
156351 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
156366 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
156385 AATGAAAATCGCAA
1 AATGAAAATCGCAA
156399 TGCGATTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.41
20 17 0.23
21 12 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:156344 original size:21 final size:21
Alignment explanation
Indices: 156290--156354 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
156280 TCTTTTGGTT
156290 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
156311 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
156331 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
156352 GAA
1 GAA
156355 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:156434 original size:14 final size:14
Alignment explanation
Indices: 156415--156471 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
156405 TTTGGTTTCG
156415 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
156429 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
156448 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
156462 CGTTGCGATT
1 CGTTGCGATT
156472 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:156447 original size:33 final size:33
Alignment explanation
Indices: 156399--156479 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
156389 AAAATCGCAA
**
156399 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
156432 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
156465 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
156480 TCTCGTTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:156482 original size:21 final size:21
Alignment explanation
Indices: 156456--156532 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
156446 CGCGTTGCGA
156456 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
156477 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
156499 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
156519 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
156533 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:156654 original size:33 final size:33
Alignment explanation
Indices: 156612--156682 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
156602 AATACTAACT
156612 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
156645 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
156678 TGAAA
1 TGAAA
156683 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:157087 original size:20 final size:20
Alignment explanation
Indices: 157062--157254 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
157052 CTTTAAAAAT
157062 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
157082 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
157102 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
157123 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
157143 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
157163 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
157183 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
157203 CGTGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
157223 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
157243 CGCGTTGCGATT
1 CGCGTTGCGATT
157255 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 132 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:157805 original size:39 final size:39
Alignment explanation
Indices: 157761--157844 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
157751 GATCTGACGT
*
157761 GTGTTAGCACATGATCATGACACGTGTCATTGGTGACAC
1 GTGTTAACACATGATCATGACACGTGTCATTGGTGACAC
* * *
157800 GTGTTAACACATGATCATGATATGTGTTATTGGTGACAC
1 GTGTTAACACATGATCATGACACGTGTCATTGGTGACAC
157839 GTGTTA
1 GTGTTA
157845 CCACCTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (39 bp):
GTGTTAACACATGATCATGACACGTGTCATTGGTGACAC
Found at i:158471 original size:16 final size:18
Alignment explanation
Indices: 158450--158483 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
158440 ATTTCTTATT
158450 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
158466 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
158484 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:158630 original size:21 final size:21
Alignment explanation
Indices: 158606--158648 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
158596 TATTACCTTA
158606 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
158627 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
158648 A
1 A
158649 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:158666 original size:35 final size:35
Alignment explanation
Indices: 158617--158702 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
158607 ATTGAAGTAT
** * *
158617 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
158652 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
158687 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
158703 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:159077 original size:13 final size:13
Alignment explanation
Indices: 159053--159085 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
159043 GTATTGATAC
159053 CTTCTT-TTTCTT
1 CTTCTTCTTTCTT
*
159065 TTTCTTCTTTCTT
1 CTTCTTCTTTCTT
159078 CTTCTTCT
1 CTTCTTCT
159086 CATATTGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTCTTCTTTCTT
Found at i:159305 original size:135 final size:134
Alignment explanation
Indices: 159124--159586 Score: 796
Period size: 132 Copynumber: 3.5 Consensus size: 134
159114 ATCGATTTCG
159124 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
1 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
* *
159189 TTTTCCTATTTTTTTTGTGTTGATTGAAATAGGGATAATGTTTTGAGCATGATGCTATGTTTGAA
66 TTTTCCT-TTTGTTTTGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTGAA
159254 CGACT
130 CGACT
159259 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
1 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
159324 TTTTCCTTTTGTTTTGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTGAAC
66 TTTTCCTTTTGTTTTGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTGAAC
*
159389 GAGT
131 GACT
* *
159393 GAAGTTCCTGGATTTTATTGTTTGGCT-G-GAGATAGGAATTTCACGGAAAATAATATGAATTTC
1 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
*
159456 TTTTCCTTTTGTTTAGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTG-A-
66 TTTTCCTTTTGTTTTGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTGAAC
159519 -AC-
131 GACT
* *
159521 GAA-TTCCTGGATTTGATTGTTTGGCTGGAGATAAAGGAATTTCACGGAAAATAATACGAATTTC
1 GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
159585 TT
66 TT
159587 GGATACAGAA
Statistics
Matches: 315, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
127 22 0.07
128 4 0.01
129 35 0.11
131 1 0.00
132 95 0.30
133 1 0.00
134 85 0.27
135 72 0.23
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (134 bp):
GAAGTTCCTGGATTTGATTGTTTGGCTGGAGAGAAAGGAATTTCACGGAAAATAATATGAATTTC
TTTTCCTTTTGTTTTGTGTTGATTGAAATAGGGATTATGTTTTGAGCATGATGCTATGTTTGAAC
GACT
Found at i:164804 original size:24 final size:24
Alignment explanation
Indices: 164776--164822 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
164766 TCCTGTAGCA
164776 GCTCCTTAAACTCAGAACTTTCGC
1 GCTCCTTAAACTCAGAACTTTCGC
164800 GCTCCTTAAACTCAGAACTTTCG
1 GCTCCTTAAACTCAGAACTTTCG
164823 AGGAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.30
Consensus pattern (24 bp):
GCTCCTTAAACTCAGAACTTTCGC
Found at i:171206 original size:7 final size:7
Alignment explanation
Indices: 171194--171237 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
171184 TGCTTTAGGT
171194 GAAAGGA
1 GAAAGGA
171201 GAAAGGA
1 GAAAGGA
171208 GAAAGGA
1 GAAAGGA
171215 GAAAGGA
1 GAAAGGA
171222 GAAAGGA
1 GAAAGGA
171229 GAAAGGA
1 GAAAGGA
171236 GA
1 GA
171238 TGAACTGCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAAAGGA
Found at i:171899 original size:20 final size:21
Alignment explanation
Indices: 171865--171912 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
171855 TATAATCCTC
171865 AAATTATAATATAAAAATAT-T
1 AAATT-TAATATAAAAATATAT
*
171886 AAATTTAATTTAAAAATATAT
1 AAATTTAATATAAAAATATAT
171907 AAATTT
1 AAATTT
171913 TAAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTAATATAAAAATATAT
Found at i:171914 original size:22 final size:21
Alignment explanation
Indices: 171865--171920 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
171855 TATAATCCTC
*
171865 AAATTATAATATAAAAATATT
1 AAATTTTAATATAAAAATATT
*
171886 AAA-TTTAATTTAAAAATATAT
1 AAATTTTAATATAAAAATAT-T
171907 AAATTTTAAATATA
1 AAATTTT-AATATA
171921 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.48
21 7 0.24
22 3 0.10
23 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTTTAATATAAAAATATT
Found at i:171929 original size:28 final size:28
Alignment explanation
Indices: 171872--171930 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
171862 CTCAAATTAT
*
171872 AATATAAAAATATTAAATTTAATTTAAA
1 AATATAAAAATATTAAATATAATTTAAA
* * * *
171900 AATATATAAATTTTAAATATATTTTTAA
1 AATATAAAAATATTAAATATAATTTAAA
171928 AAT
1 AAT
171931 GGAGTATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATAAAAATATTAAATATAATTTAAA
Found at i:172077 original size:18 final size:20
Alignment explanation
Indices: 172054--172090 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
172044 ACTGGGATGC
172054 TTTACAC-GTTA-TTGTTGT
1 TTTACACTGTTACTTGTTGT
172072 TTTACACTGTTACTTGTTG
1 TTTACACTGTTACTTGTTG
172091 GATATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 4 0.24
20 6 0.35
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (20 bp):
TTTACACTGTTACTTGTTGT
Found at i:173604 original size:21 final size:21
Alignment explanation
Indices: 173576--173640 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
173566 TTAAGTATCT
173576 ATACTTATTTTTTTATTATAAA
1 ATACTTATTTTTTTATTA-AAA
*
173598 ATA-TTATTTTTTAATTAAAA
1 ATACTTATTTTTTTATTAAAA
* *
173618 AAACTTAATTTTTT-TTACAAA
1 ATACTTATTTTTTTATTA-AAA
173639 AT
1 AT
173641 TTTAATGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.22
21 25 0.69
22 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATACTTATTTTTTTATTAAAA
Found at i:173609 original size:20 final size:21
Alignment explanation
Indices: 173576--173640 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
173566 TTAAGTATCT
*
173576 ATACTTATTTTTTTATTATAAA
1 ATACTTAATTTTTTATTA-AAA
173598 ATA-TT-ATTTTTTAATTAAAA
1 ATACTTAATTTTTT-ATTAAAA
*
173618 AAACTTAATTTTTT-TTACAAA
1 ATACTTAATTTTTTATTA-AAA
173639 AT
1 AT
173641 TTTAATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 14 0.39
21 12 0.33
22 10 0.28
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATACTTAATTTTTTATTAAAA
Found at i:175127 original size:20 final size:20
Alignment explanation
Indices: 175099--175214 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
175089 AATGACCAAA
175099 AAATTCGCAACGCGAATTCC
1 AAATTCGCAACGCGAATTCC
* * *
175119 AATTTCGCAACTC-AGTTTCC
1 AAATTCGCAACGCGA-ATTCC
**
175139 AAATTCGCAACGCGAATTTGT
1 AAATTCGCAACGCGAA-TTCC
** *
175160 AAA-TCGCAATACAGAAGT-C
1 AAATTCGCAACGC-GAATTCC
*
175179 AAATTCGCAACGCGATAGT-C
1 AAATTCGCAACGCGA-ATTCC
175199 AAATTCGCAACGCGAA
1 AAATTCGCAACGCGAA
175215 AGTCAAATGT
Statistics
Matches: 76, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
19 7 0.09
20 60 0.79
21 9 0.12
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACGCGAATTCC
Found at i:175167 original size:40 final size:40
Alignment explanation
Indices: 175099--175193 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
175089 AATGACCAAA
* **
175099 AAATTCGCAACGCGAATTCCAATTTCGCAACT-CAG-TTTCC
1 AAATTCGCAACGCGAATTCCAATATCGCAA-TACAGAAGT-C
**
175139 AAATTCGCAACGCGAATTTGTAA-ATCGCAATACAGAAGTC
1 AAATTCGCAACGCGAA-TTCCAATATCGCAATACAGAAGTC
175179 AAATTCGCAACGCGA
1 AAATTCGCAACGCGA
175194 TAGTCAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
39 1 0.02
40 41 0.87
41 5 0.11
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (40 bp):
AAATTCGCAACGCGAATTCCAATATCGCAATACAGAAGTC
Found at i:175218 original size:20 final size:20
Alignment explanation
Indices: 175174--175222 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
175164 CGCAATACAG
175174 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
175194 TAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
175214 AAGTCAAAT
1 AAGTCAAAT
175223 GTTTTTACGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:175365 original size:22 final size:22
Alignment explanation
Indices: 175339--175400 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
175329 TCTCTCACTC
* *
175339 TCTCCCACAAAATCCGTCCCCA
1 TCTCCGACGAAATCCGTCCCCA
*
175361 TCTCCGATGAAATCCGTCCCCA
1 TCTCCGACGAAATCCGTCCCCA
*
175383 TTTCCGACGAAATCCGTC
1 TCTCCGACGAAATCCGTC
175401 TATCTCCATC
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:0.24, C:0.42, G:0.11, T:0.23
Consensus pattern (22 bp):
TCTCCGACGAAATCCGTCCCCA
Found at i:175696 original size:19 final size:20
Alignment explanation
Indices: 175660--175697 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
175650 CCAAATTCGA
175660 AACGCGAAAATGAAAATCGC
1 AACGCGAAAATGAAAATCGC
*
175680 AACGCGAAACT-AAAATCG
1 AACGCGAAAATGAAAATCG
175698 GGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (20 bp):
AACGCGAAAATGAAAATCGC
Done.