Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002709.1 Hibiscus syriacus cultivar Beakdansim tig00005592_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: 76648
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:13485 original size:31 final size:31
Alignment explanation
Indices: 13435--13509 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
13425 TTTAATGGCC
* **
13435 AAAGTATAATGTTGTAAAAGTTTAGGAACCAA
1 AAAGTATAATTTTCCAAAAGTTTAGGAACC-A
*
13467 AAAG-ATAATTTTCCAAAAGTTTAGGGACCA
1 AAAGTATAATTTTCCAAAAGTTTAGGAACCA
13497 AAAGTATAATTTT
1 AAAGTATAATTTT
13510 AAAAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 5 0.13
31 29 0.76
32 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (31 bp):
AAAGTATAATTTTCCAAAAGTTTAGGAACCA
Found at i:16521 original size:12 final size:12
Alignment explanation
Indices: 16461--16521 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
16451 GTGATCATGT
16461 ATATCATATCAC
1 ATATCATATCAC
*
16473 -T-TCATATCATG
1 ATATCATATCA-C
* *
16484 TTCTCATATCAC
1 ATATCATATCAC
**
16496 AGGTCATATCAC
1 ATATCATATCAC
16508 ATATCATATCAC
1 ATATCATATCAC
16520 AT
1 AT
16522 GAACATATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 8 0.21
11 1 0.03
12 22 0.56
13 8 0.21
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (12 bp):
ATATCATATCAC
Found at i:18858 original size:21 final size:20
Alignment explanation
Indices: 18834--18875 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
18824 TGCTAACTAT
18834 TAATATAGT-TAGTATCAAATA
1 TAATATAGTATA-TA-CAAATA
*
18855 TAATTTAGTATATACAAATA
1 TAATATAGTATATACAAATA
18875 T
1 T
18876 TATGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 10 0.53
22 2 0.11
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATATAGTATATACAAATA
Found at i:25567 original size:29 final size:30
Alignment explanation
Indices: 25496--25555 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
25486 CAATTTAAGG
25496 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
25527 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
25556 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:25693 original size:15 final size:15
Alignment explanation
Indices: 25673--25702 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25663 CCCCCGTAGG
25673 GGGTACAGATACCCC
1 GGGTACAGATACCCC
25688 GGGTACAGATACCCC
1 GGGTACAGATACCCC
25703 CCAGGGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:25713 original size:20 final size:20
Alignment explanation
Indices: 25670--25723 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
25660 TCTCCCCCGT
25670 AGGGGGTACAGATA--CCCC
1 AGGGGGTACAGATACCCCCC
25688 ---GGGTACAGATACCCCCC
1 AGGGGGTACAGATACCCCCC
25705 AGGGGGTACAGATACCCCC
1 AGGGGGTACAGATACCCCC
25724 TGCAGGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.35
17 4 0.13
20 16 0.52
ACGTcount: A:0.26, C:0.33, G:0.30, T:0.11
Consensus pattern (20 bp):
AGGGGGTACAGATACCCCCC
Found at i:25924 original size:20 final size:22
Alignment explanation
Indices: 25886--25925 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
25876 TTTTAATATA
25886 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
25908 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
25926 ATATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:26179 original size:34 final size:32
Alignment explanation
Indices: 26140--26209 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
26130 TTTTGTAAAG
* *
26140 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
26174 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
26206 GGGA
1 GGGA
26210 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:27102 original size:20 final size:19
Alignment explanation
Indices: 27069--27116 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
27059 AATGATTTTC
*
27069 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAAC-AAAATGAAA
27088 TTTTGAAAGACAAAATGAAA
1 TTTTGAAA-ACAAAATGAAA
27108 TTTTGAAAA
1 TTTTGAAAA
27117 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (19 bp):
TTTTGAAAACAAAATGAAA
Found at i:28427 original size:29 final size:30
Alignment explanation
Indices: 28356--28415 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
28346 CAATTTAAGG
28356 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
28387 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
28416 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:28537 original size:23 final size:21
Alignment explanation
Indices: 28505--28569 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 21
28495 TTCAAGATTG
*
28505 CCCA-GGGGTATAGATTCTCCC
1 CCCAGGGGGTATAGATAC-CCC
*
28526 CCCTAGGGGGTACAGATACCCC
1 CCC-AGGGGGTATAGATACCCC
28548 CCCAGGGGGTATAGATACCCC
1 CCCAGGGGGTATAGATACCCC
28569 C
1 C
28570 TGCAGGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 21 0.54
22 7 0.18
23 11 0.28
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
CCCAGGGGGTATAGATACCCC
Found at i:28686 original size:21 final size:21
Alignment explanation
Indices: 28660--28702 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
28650 ATTTGAATAT
*
28660 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
28681 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
28702 T
1 T
28703 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:28759 original size:21 final size:21
Alignment explanation
Indices: 28730--28769 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
28720 TTTGAGTATA
28730 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCC-AACGGCTCC
*
28752 AAAA-CATCCTCAACGGCT
1 AAAATCATCCCCAACGGCT
28770 ATATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:29023 original size:34 final size:32
Alignment explanation
Indices: 28984--29053 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
28974 TTTTGTAAAG
* *
28984 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
29018 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
29050 GGGA
1 GGGA
29054 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:34162 original size:21 final size:21
Alignment explanation
Indices: 34119--34171 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
34109 GTTACCCTGT
*** *
34119 GTATCGATACTTTTGTCAGAA
1 GTATCGATACTTTCCCCAAAA
34140 GTATCGATACTTTCCCCAAAA
1 GTATCGATACTTTCCCCAAAA
*
34161 GTATGGATACT
1 GTATCGATACT
34172 CTTGCTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (21 bp):
GTATCGATACTTTCCCCAAAA
Found at i:37908 original size:31 final size:31
Alignment explanation
Indices: 37872--37930 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
37862 AACTTAAAAA
* *
37872 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
37903 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
37931 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:37981 original size:22 final size:22
Alignment explanation
Indices: 37955--37997 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
37945 TAATAAATTA
37955 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
37977 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
37998 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38006 original size:22 final size:22
Alignment explanation
Indices: 37957--38005 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
37947 ATAAATTATT
**
37957 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
37979 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
38002 TAAA
1 TAAA
38006 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:38009 original size:54 final size:54
Alignment explanation
Indices: 37945--39136 Score: 1113
Period size: 54 Copynumber: 21.5 Consensus size: 54
37935 ACAACTACAA
37945 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
37999 TAATAAATTATTTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATC-CAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
38056 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
38111 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATTAGTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATAC
38166 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
38220 TAATATATTATTTAAAATAAATCAA-CACATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATC-CATA-TTTTAAAATAAATCAATCCATAC
* *
38273 T-AT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATAT
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
38332 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
38386 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
38440 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * *
38497 TTTTAAAATAAAT-CAATCAATCAATACAAATAAATTATTTAAAATAAATCAA-CTCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATC-CATAC
* *
38556 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATTAGTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATAC
38611 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
38665 TAATATATTATTTAAAATAAATCAA-CACATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATC-CATA-TTTTAAAATAAATCAATCCATAC
* *
38718 T-AT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATAT
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
38777 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTT-TAAAATAAATCAATCCATAC
38832 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
38886 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * *
38943 TTTTAAAATAAAT-CAATCAATCAATACAAATAAATTATTTAAAATAAATCAA-CTCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATC-CATAC
39002 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
39056 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
39110 TAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
39137 TATACAACTA
Statistics
Matches: 937, Mismatches: 126, Indels: 150
0.77 0.10 0.12
Matches are distributed among these distances:
48 30 0.03
49 2 0.00
50 4 0.00
52 8 0.01
53 7 0.01
54 415 0.44
55 179 0.19
56 37 0.04
57 55 0.06
58 110 0.12
59 26 0.03
60 26 0.03
62 2 0.00
63 4 0.00
64 32 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:38015 original size:32 final size:32
Alignment explanation
Indices: 37977--39265 Score: 641
Period size: 32 Copynumber: 46.4 Consensus size: 32
37967 CAATCCATAT
37977 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38009 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
38039 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38057 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38089 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38121 TTTAAAATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38147 ---AAAATAAATTAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38176 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38198 TTTAAAATAAATCAATCCATACTAATATATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38230 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
* **
38260 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38285 -------TAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38310 TTTAAAATAAATCAATCTATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38342 TTTAAAATAAATCAATCC--A-T-AT---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38367 ---AAAAAAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38396 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38418 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38450 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
38480 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
38505 --T-AAATCAATCAATCAATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38534 TTTAAAATAAATCAA-CTCATACTAATAAATTA
1 TTTAAAATAAATCAATC-CATACTAATAAATTA
38566 TTTAAAATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38592 ---AAAATAAATTAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38621 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38643 TTTAAAATAAATCAATCCATACTAATATATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38675 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
* **
38705 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38730 -------TAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
38755 TTTAAAATAAATCAATCTATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38787 TTTAAAATAAATCAATCCATA-T--TTAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38814 ---AAAA-AAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38842 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38864 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
38896 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
38926 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
38951 --T-AAATCAATCAATCAATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
38980 TTTAAAATAAATCAA-CTCATACTAATAAATTA
1 TTTAAAATAAATCAATC-CATACTAATAAATTA
39012 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39034 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39066 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
39088 TTTAAAGTAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
39120 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
39150 --T--AATAAATTAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39175 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39200 TTTAAAATAAATC-A---AT-C-AAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39222 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
39254 TTTAAAATAAAT
1 TTTAAAATAAAT
39266 TATTTTAAAA
Statistics
Matches: 991, Mismatches: 79, Indels: 374
0.69 0.05 0.26
Matches are distributed among these distances:
20 1 0.00
22 175 0.18
23 72 0.07
24 17 0.02
25 29 0.03
26 149 0.15
27 14 0.01
28 32 0.03
29 17 0.02
30 14 0.01
31 40 0.04
32 430 0.43
33 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:38050 original size:80 final size:83
Alignment explanation
Indices: 37945--38862 Score: 568
Period size: 80 Copynumber: 11.0 Consensus size: 83
37935 ACAACTACAA
37945 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38010 TTAAAATAAATCAA-CACATAC
63 TTAAAATAAATCAATC-CATAC
* *
38031 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*
38092 AAAATAAATCAATCTATAC
65 AAAATAAATCAATCCATAC
* *
38111 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTA
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTA
38176 TTTAAAATAAATCAATCCATA-
62 TTTAAAATAAATCAATCCATAC
** * ** *
38197 TTTTAAA-A-TAAATCAATCCATACTAATATATTATTTAAAATAAATCAA-CACATAC-AACTAC
1 TAATAAATATTAAATAAAT-CA-A-T-CCATA-T-TTTAAAATAAATCAATC-CATACTAA-TAA
*
38258 A--A--T--AATAAATCAATCTATA-
58 ATTATTTAAAATAAATCAATCCATAC
** * * * * *
38277 TTTTAAA-A-TAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATATTAATAAAT
1 TAATAAATATTAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAAT
*
38340 TATTTAAAATAAATCAATCCATATT
60 TATTTAAAATAAATCAATCCATA-C
* * * * ** **
38365 TAAAAAAAAATCAATCCATACTAATAAAT-TATTTAAAATAAATCAAT-C---C--AT--A-T-T
1 TAATAAATATTAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTAT
38419 TTAAAATAAATCAATCCATAC
63 TTAAAATAAATCAATCCATAC
* ** **
38440 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA
1 TAATAAA-TA-TT-AAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
* *
38504 --A--T-AAATCAATCAATCAATAC
59 TTATTTAAAATAAATCAATCCATAC
*
38524 AAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAATCCATA-T
1 TAATAAA-TA-TT-AAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATACT
* *
38588 --T---TTA---AAAATAAATTAGTCCATAC
53 AATAAATTATTTAAAATAAATCAATCCATAC
*
38611 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATATATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38676 TTAAAATAAATCAA-CACATAC
63 TTAAAATAAATCAATC-CATAC
* * *
38697 -AACTACA-A-T-AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
* *
38758 AAAATAAATCAATCTATAT
65 AAAATAAATCAATCCATAC
* *
38777 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATACTAATAAATTA
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTT-TAAAATAAATCAATCCATACTAATAAATTA
38842 TTTAAAATAAATCAATCCATA
62 TTTAAAATAAATCAATCCATA
38863 TTTTAAAATA
Statistics
Matches: 677, Mismatches: 72, Indels: 165
0.74 0.08 0.18
Matches are distributed among these distances:
75 6 0.01
76 27 0.04
77 26 0.04
78 11 0.02
79 5 0.01
80 208 0.31
81 19 0.03
82 9 0.01
83 5 0.01
84 48 0.07
85 15 0.02
86 118 0.17
87 136 0.20
88 6 0.01
89 3 0.00
90 29 0.04
91 4 0.01
92 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (83 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AAATAAATCAATCCATAC
Found at i:38096 original size:14 final size:14
Alignment explanation
Indices: 38079--38132 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
38069 CAATCCATAC
38079 AAATAAATTATTTA
1 AAATAAATTATTTA
*
38093 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
38110 CTAATAAATTATTTA
1 -AAATAAATTATTTA
38125 AAATAAAT
1 AAATAAAT
38133 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:38202 original size:22 final size:22
Alignment explanation
Indices: 38176--38218 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38166 TAATAAATTA
38176 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
38198 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38219 CTAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38317 original size:14 final size:14
Alignment explanation
Indices: 38300--38353 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
38290 CAATCCATAC
38300 AAATAAATTATTTA
1 AAATAAATTATTTA
*
38314 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
38331 TTAATAAATTATTTA
1 -AAATAAATTATTTA
38346 AAATAAAT
1 AAATAAAT
38354 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:38328 original size:221 final size:220
Alignment explanation
Indices: 37945--39332 Score: 2207
Period size: 221 Copynumber: 6.3 Consensus size: 220
37935 ACAACTACAA
37945 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38010 TTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATC-CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
38074 CATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCC
130 CATACAAATAAATTATTTAAAATAAATCAA-CTATACTAATAAATTATTTAAAATAAATCAATCC
* *
38139 ATATTTTAAAAATAAATTAGTCCATAC
194 ATATTTTAAAAATAAATCAATCCATAC
*
38166 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATATATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
38231 TTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATC-CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
38295 CATACAAATAAATTATTTAAAATAAATCAATCTATATTAATAAATTATTTAAAATAAATCAATCC
130 CATACAAATAAATTATTTAAAATAAATCAA-CTATACTAATAAATTATTTAAAATAAATCAATCC
*
38360 ATA-TTTAAAAAAAAATCAATCCATAC
194 ATATTTTAAAAATAAATCAATCCATAC
38386 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38451 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC-
38516 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
130 --C-ATACAAATAAATTATTTAAAATAAATCAACT-ATACTAATAAATTATTTAAAATAAATCAA
* *
38581 TCCATATTTTAAAAATAAATTAGTCCATAC
191 TCCATATTTTAAAAATAAATCAATCCATAC
*
38611 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATATATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
38676 TTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATC-CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
38740 CATACAAATAAATTATTTAAAATAAATCAATCTATATTAATAAATTATTTAAAATAAATCAATCC
130 CATACAAATAAATTATTTAAAATAAATCAA-CTATACTAATAAATTATTTAAAATAAATCAATCC
* *
38805 ATATTTAAAAAAAAAATCAATCCATAC
194 ATATTTTAAAAATAAATCAATCCATAC
38832 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38897 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC-
38962 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
130 --C-ATACAAATAAATTATTTAAAATAAATCAACT-ATACTAATAAATTATTTAAAATAAATCAA
39027 TCCATATTTT-AAAATAAATCAATCCATAC
191 TCCATATTTTAAAAATAAATCAATCCATAC
* *
39056 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
39121 TTAAAATAAATCAATCTATACAACTACAATAATAAATTAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
39186 ATACTAATAAATTATTTAAAATAAATC-A--AT-C-AAT--A-T-TTTAAAATAAATCAATCCAT
131 ATACAAATAAATTATTTAAAATAAATCAACTATACTAATAAATTATTTAAAATAAATCAATCCAT
* * *
39242 A--CT---AATAAAT-TAT--TTA-
196 ATTTTAAAAATAAATCAATCCATAC
* * **
39258 AAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-TAT-TTTA-TAATAAATTA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
39320 TTTTAAAATAAAT
65 -TTTAAAATAAAT
39333 TATTTTAAAA
Statistics
Matches: 1114, Mismatches: 36, Indels: 54
0.93 0.03 0.04
Matches are distributed among these distances:
200 10 0.01
201 15 0.01
202 11 0.01
203 35 0.03
205 2 0.00
206 7 0.01
208 1 0.00
210 21 0.02
211 1 0.00
212 1 0.00
214 3 0.00
215 1 0.00
216 2 0.00
219 1 0.00
220 171 0.15
221 404 0.36
222 4 0.00
223 3 0.00
224 210 0.19
225 211 0.19
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (220 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAACTATACTAATAAATTATTTAAAATAAATCAATCCAT
ATTTTAAAAATAAATCAATCCATAC
Found at i:38366 original size:21 final size:22
Alignment explanation
Indices: 38340--38384 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
38330 ATTAATAAAT
*
38340 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAAAAAATCAATCCA
38361 TATTTAAAAAAAAATCAATCCA
1 TATTTAAAAAAAAATCAATCCA
38383 TA
1 TA
38385 CTAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (22 bp):
TATTTAAAAAAAAATCAATCCA
Found at i:38422 original size:22 final size:22
Alignment explanation
Indices: 38396--38438 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38386 TAATAAATTA
38396 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
38418 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38439 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38447 original size:22 final size:22
Alignment explanation
Indices: 38398--38446 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38388 ATAAATTATT
**
38398 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
38420 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
38443 TAAA
1 TAAA
38447 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:38527 original size:22 final size:22
Alignment explanation
Indices: 38454--38531 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
38444 AAATTATTTA
*
38454 AAATAAATCAATCCATACAACTAC
1 AAATAAATCAATCAAT-CAA-TAC
**
38478 AATAATAAATCAATCCATAT-TTTA-
1 -A-AATAAATCAAT-CA-ATCAATAC
38502 AAATAAATCAATCAATCAATAC
1 AAATAAATCAATCAATCAATAC
38524 AAATAAAT
1 AAATAAAT
38532 TATTTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 2 0.05
21 4 0.09
22 19 0.44
23 1 0.02
25 3 0.07
26 11 0.26
27 1 0.02
28 2 0.05
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCAATCAATAC
Found at i:38647 original size:22 final size:22
Alignment explanation
Indices: 38621--38663 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38611 TAATAAATTA
38621 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
38643 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38664 CTAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38762 original size:14 final size:14
Alignment explanation
Indices: 38745--38798 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
38735 CAATCCATAC
38745 AAATAAATTATTTA
1 AAATAAATTATTTA
*
38759 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
38776 TTAATAAATTATTTA
1 -AAATAAATTATTTA
38791 AAATAAAT
1 AAATAAAT
38799 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:38770 original size:445 final size:446
Alignment explanation
Indices: 37945--39222 Score: 2376
Period size: 445 Copynumber: 2.9 Consensus size: 446
37935 ACAACTACAA
37945 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38010 TTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATC-CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
38074 ---C-ATACAAATAAATTATTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATC
130 AATCAATACAAATAAATTATTTAAAATAAATCAACTC-ATACTAATAAATTATTTAAAATAAATC
38134 AATCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATT
194 AATCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATT
38199 TTAAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAACACATACAACTACAATAAT
259 TTAAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAACACATACAACTACAATAAT
38264 AAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTA
324 AAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTA
38329 TATTAATAAATTATTTAAAATAAATCAATCCATATTT-AAAAAAAAATCAATCCATAC
389 TATTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATAC
38386 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38451 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
38516 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
131 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
38581 TCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
196 TCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
38646 AAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAACACATACAACTACAATAATAA
261 AAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAACACATACAACTACAATAATAA
38711 ATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATA
326 ATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATA
38776 TTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATAC
391 TTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATAC
38832 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
38897 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
38962 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
131 ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
* *
39027 TCCATATTTT-AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
196 TCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
* * * *
39091 AAAGTAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATC-TATACAACTACAATAATA
261 AAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAA-CACATACAACTACAATAATA
* * * *
39155 AATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAAT
325 AATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTAT
39220 ATT
390 ATT
39223 TTAAAATAAA
Statistics
Matches: 819, Mismatches: 10, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
441 127 0.16
442 1 0.00
444 1 0.00
445 462 0.56
446 228 0.28
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (446 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
ATCAATACAAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAA
TCCATATTTTAAAAATAAATTAGTCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTT
AAAATAAATCAATCCATACTAATATATTATTTAAAATAAATCAACACATACAACTACAATAATAA
ATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCTATA
TTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAAAAAATCAATCCATAC
Found at i:38811 original size:21 final size:22
Alignment explanation
Indices: 38785--38830 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
38775 ATTAATAAAT
*
38785 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAAAAAATCAATCCA
38806 TATTTAAAAAAAAAATCAATCCA
1 TATTT-AAAAAAAAATCAATCCA
38829 TA
1 TA
38831 CTAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
23 17 0.77
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (22 bp):
TATTTAAAAAAAAATCAATCCA
Found at i:38868 original size:22 final size:22
Alignment explanation
Indices: 38842--38884 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38832 TAATAAATTA
38842 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
38864 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
38885 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:38893 original size:22 final size:22
Alignment explanation
Indices: 38844--38892 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38834 ATAAATTATT
**
38844 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
38866 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
38889 TAAA
1 TAAA
38893 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:38973 original size:22 final size:22
Alignment explanation
Indices: 38900--38977 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
38890 AAATTATTTA
*
38900 AAATAAATCAATCCATACAACTAC
1 AAATAAATCAATCAAT-CAA-TAC
**
38924 AATAATAAATCAATCCATAT-TTTA-
1 -A-AATAAATCAAT-CA-ATCAATAC
38948 AAATAAATCAATCAATCAATAC
1 AAATAAATCAATCAATCAATAC
38970 AAATAAAT
1 AAATAAAT
38978 TATTTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 2 0.05
21 4 0.09
22 19 0.44
23 1 0.02
25 3 0.07
26 11 0.26
27 1 0.02
28 2 0.05
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCAATCAATAC
Found at i:39038 original size:22 final size:22
Alignment explanation
Indices: 39012--39054 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
39002 TAATAAATTA
39012 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
39034 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
39055 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:39063 original size:22 final size:22
Alignment explanation
Indices: 39014--39062 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
39004 ATAAATTATT
**
39014 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
39036 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
39059 TAAA
1 TAAA
39063 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:39210 original size:54 final size:54
Alignment explanation
Indices: 39151--39267 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
39141 CAACTACAAT
*
39151 AATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATTAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
39205 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATTAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
39259 AATAAATTA
1 AATAAATTA
39268 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATTAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:39226 original size:22 final size:22
Alignment explanation
Indices: 39200--39302 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 22
39190 TAATAAATTA
39200 TTTAAAATAAATCAATCAATAT
1 TTTAAAATAAATCAATCAATAT
*
39222 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCAATA-T
** * ** * *
39245 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCAA-TAT
*
39269 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCAATAT
39291 TTTAAAATAAAT
1 TTTAAAATAAAT
39303 TATTTTATAA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 35 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCAATAT
Found at i:39274 original size:15 final size:15
Alignment explanation
Indices: 39245--39347 Score: 127
Period size: 15 Copynumber: 6.5 Consensus size: 15
39235 AATCCATACT
39245 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
39259 AATAAATTATTTTAA
1 AATAAATTATTTTAA
39274 AATAAATCAATCCATATTTTAA
1 AAT--A--AAT---TATTTTAA
*
39296 AATAAATTATTTTAT
1 AATAAATTATTTTAA
39311 AATAAATTATTTTAA
1 AATAAATTATTTTAA
39326 AATAAATTATTTTAA
1 AATAAATTATTTTAA
39341 AATAAAT
1 AATAAAT
39348 AACCTCATTA
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
14 9 0.11
15 51 0.65
17 1 0.01
18 3 0.04
19 3 0.04
20 1 0.01
22 11 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:39275 original size:69 final size:67
Alignment explanation
Indices: 39191--39347 Score: 237
Period size: 69 Copynumber: 2.3 Consensus size: 67
39181 AATCCATACT
39191 AATAAATTA-TTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCAATATTTTAAAATAAAT-AAT-CATA-TAATAAATTAT
39254 TTTAA
63 TTTAA
* * **
39259 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATTATTTTATAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCAATATTTTAAAATAAATAATCATATAATAAATTATTTT
39324 AA
66 AA
39326 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
39348 AACCTCATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
66 10 0.12
67 29 0.35
68 11 0.13
69 33 0.40
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCAATATTTTAAAATAAATAATCATATAATAAATTATTTT
AA
Found at i:39288 original size:47 final size:50
Alignment explanation
Indices: 39003--39332 Score: 213
Period size: 54 Copynumber: 6.4 Consensus size: 50
38993 AACTCATACT
* * ** *
39003 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTTAAAATAAATCAATCCATA-TCT-AAATAAAT-TAT-TTTA-A
* * * *
39057 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATACT
1 AATAAATTATTTTAAAATAAATCAATCCATA-TCTAAA-TAAAT-TAT-TTTA-A
* * *
39111 AATAAATTA-TTTAAAATAAATCAATCTATA-C-AACTACAA-TA--AT-A
1 AATAAATTATTTTAAAATAAATCAATCCATATCTAAATA-AATTATTTTAA
*
39155 AATTAATCCATATTTTAAAATAAATCAATCCATA-CT-AATAAATTA-TTTAA
1 AATAAAT---TATTTTAAAATAAATCAATCCATATCTAAATAAATTATTTTAA
39205 AATAAATCAATCAATATTTTAAAATAAATCAATCCATA-CT-AATAAATTA-TTTAA
1 AAT--A--AAT---TATTTTAAAATAAATCAATCCATATCTAAATAAATTATTTTAA
* *
39259 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATTATTTTAT
1 AATAAATTATTTTAAAATAAATCAATCCATA-TCT-AAATAAATTATTTTAA
39311 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
39333 TATTTTAAAA
Statistics
Matches: 243, Mismatches: 14, Indels: 40
0.82 0.05 0.13
Matches are distributed among these distances:
44 6 0.02
46 2 0.01
47 28 0.12
48 26 0.11
49 3 0.01
50 9 0.04
51 13 0.05
52 27 0.11
53 3 0.01
54 126 0.52
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.37
Consensus pattern (50 bp):
AATAAATTATTTTAAAATAAATCAATCCATATCTAAATAAATTATTTTAA
Found at i:57166 original size:14 final size:13
Alignment explanation
Indices: 57147--57234 Score: 60
Period size: 13 Copynumber: 6.8 Consensus size: 13
57137 AAATAAATTA
*
57147 AATATTAGTTTTTT
1 AATATTA-TATTTT
*
57161 AATATTATATTAT
1 AATATTATATTTT
57174 AGATATTA-ATTTT
1 A-ATATTATATTTT
*
57187 AATATTAATTTTTT
1 AATATT-ATATTTT
* *
57201 AA-A-TA-AATTA
1 AATATTATATTTT
57211 AATATTA-ATTTTT
1 AATATTATA-TTTT
57224 AATATTATATT
1 AATATTATATT
57235 ATAGATATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.07
11 2 0.03
12 9 0.16
13 23 0.40
14 20 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
AATATTATATTTT
Found at i:57191 original size:63 final size:63
Alignment explanation
Indices: 57101--57251 Score: 245
Period size: 63 Copynumber: 2.4 Consensus size: 63
57091 ATTTTATATT
* *
57101 ATATTATATT-T-GATTTTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAGTTTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTA-ATTTTTA
57162 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTA
57225 ATATTATATTATAGATATTTAATTTTA
1 ATATTATATTATAGATA-TTAATTTTA
57252 TATCATATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
61 10 0.12
62 1 0.01
63 42 0.50
64 31 0.37
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (63 bp):
ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTA
Found at i:57199 original size:40 final size:37
Alignment explanation
Indices: 57147--57230 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 37
57137 AAATAAATTA
* *
57147 AATATTAGTTTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAATTTTT
57187 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
57224 AATATTA
1 AATATTA
57231 TATTATAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
36 7 0.17
37 12 0.29
38 6 0.15
39 1 0.02
40 15 0.37
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (37 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
Found at i:57247 original size:21 final size:20
Alignment explanation
Indices: 57158--57254 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 20
57148 ATATTAGTTT
57158 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
* * *
57179 -TTAATTTTAATATTA-ATTT
1 TTTAATATT-ATATTATAATA
* *
57198 TTTAAATAAATTA-AATATTAATT
1 TTT-AAT--ATTATATTA-TAATA
57221 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
*
57242 TTTAATTTTATAT
1 TTTAATATTATAT
57255 CATATAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
19 1 0.02
20 16 0.28
21 29 0.50
22 4 0.07
23 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAATATTATATTATAATA
Found at i:57286 original size:16 final size:17
Alignment explanation
Indices: 57245--57290 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
57235 ATAGATATTT
*
57245 AATTTTATATCATATAA
1 AATTTTATATTATATAA
57262 ATTATTTTATATTAT-TAA
1 A--ATTTTATATTATATAA
57280 AATTTTATATT
1 AATTTTATATT
57291 TATTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 4 0.15
19 11 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTATATTATATAA
Found at i:57842 original size:17 final size:15
Alignment explanation
Indices: 57820--57863 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
57810 GTTTTTTTGG
57820 TTCGGTTCGGTTTTT
1 TTCGGTTCGGTTTTT
*
57835 TTAACGGTTCGG-GTTT
1 TT--CGGTTCGGTTTTT
57851 TTCGGTTCGGTTT
1 TTCGGTTCGGTTT
57864 ATCGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 5 0.21
17 8 0.33
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.52
Consensus pattern (15 bp):
TTCGGTTCGGTTTTT
Found at i:58228 original size:31 final size:31
Alignment explanation
Indices: 58191--58250 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
58181 TAGTTGTATG
* *
58191 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
58222 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
58251 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:65115 original size:25 final size:25
Alignment explanation
Indices: 65081--65156 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
65071 AAACACATCA
65081 GAATCGCGTCCAACGTTCAAAAAAG
1 GAATCGCGTCCAACGTTCAAAAAAG
65106 GAATCGCGTCCAACGTTCAAAAAAG
1 GAATCGCGTCCAACGTTCAAAAAAG
65131 GAATCGCGTCCAACGTTCAAAAAAG
1 GAATCGCGTCCAACGTTCAAAAAAG
65156 G
1 G
65157 TCCCTTGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (25 bp):
GAATCGCGTCCAACGTTCAAAAAAG
Found at i:66083 original size:22 final size:23
Alignment explanation
Indices: 66056--66106 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
66046 GAATGATCGC
66056 ATAGATGAGTCCCGAAGG-CCAT
1 ATAGATGAGTCCCGAAGGACCAT
** *
66078 ATAGATTTGTTCCGAAGGACCAT
1 ATAGATGAGTCCCGAAGGACCAT
66101 ATAGAT
1 ATAGAT
66107 TTGTCGCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (23 bp):
ATAGATGAGTCCCGAAGGACCAT
Found at i:66104 original size:23 final size:22
Alignment explanation
Indices: 66067--66128 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
66057 TAGATGAGTC
66067 CCGAAGG-CCATATAGATTTGTT
1 CCGAAGGACCATATAGATTTG-T
66089 CCGAAGGACCATATAGATTTGT
1 CCGAAGGACCATATAGATTTGT
* *
66111 CGCGAAGAACCACATAGA
1 C-CGAAGGACCATATAGA
66129 ACCATCGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 9 0.25
23 27 0.75
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (22 bp):
CCGAAGGACCATATAGATTTGT
Found at i:68822 original size:21 final size:22
Alignment explanation
Indices: 68792--68832 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
68782 TGGTTATTAT
*
68792 TGGAGGAAAGTAGA-GAAAATA
1 TGGAGAAAAGTAGAGGAAAATA
68813 TGGAGAAAAGTAGAGGAAAA
1 TGGAGAAAAGTAGAGGAAAA
68833 GAAGTAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.34, T:0.12
Consensus pattern (22 bp):
TGGAGAAAAGTAGAGGAAAATA
Found at i:75930 original size:21 final size:21
Alignment explanation
Indices: 75906--75952 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
75896 GCGTTTGGTT
75906 GAGAAAAAT-AGAAGCTTCGAA
1 GAGAAAAATGA-AAGCTTCGAA
* *
75927 GAGAAAGATGAAAGCTTTGAA
1 GAGAAAAATGAAAGCTTCGAA
75948 GAGAA
1 GAGAA
75953 TGGGGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.51, C:0.06, G:0.28, T:0.15
Consensus pattern (21 bp):
GAGAAAAATGAAAGCTTCGAA
Done.