Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014665.1 Kokia drynarioides strain JFW-HI SEQ_129704, 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: 263728
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 48 characters in sequence are not A, C, G, or T
Found at i:153 original size:17 final size:17
Alignment explanation
Indices: 119--151 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109 TTTTAAATTT
*
119 TTAATATTTTAGACAAA
1 TTAATATTTTAGAAAAA
136 TTAAT-TTTTAGAAAAA
1 TTAATATTTTAGAAAAA
152 ATATTACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
TTAATATTTTAGAAAAA
Found at i:2848 original size:22 final size:21
Alignment explanation
Indices: 2823--2870 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
2813 TAAATATTGA
*
2823 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
2845 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
2866 TTAAT
1 TTAAT
2871 TATGAAAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:3815 original size:41 final size:40
Alignment explanation
Indices: 3718--3863 Score: 166
Period size: 41 Copynumber: 3.5 Consensus size: 40
3708 TGGAATACTG
*
3718 ATGTCTCGAAATGAGAATGAGAATTTGATTTAAAAAAGACTC
1 ATGTCTCGAAATGAGAATGAG-ATTTGA-TTAAGAAAGACTC
* * * *
3760 GTGTCTCGAGATGAGAATGAGATTATGAATAAGAAAGTCTC
1 ATGTCTCGAAATGAGAATGAGATT-TGATTAAGAAAGACTC
* *
3801 ATGTCTCGAAATGAGAATGAGATTTTGGTTAAGGAAGACTC
1 ATGTCTCGAAATGAGAATGAGA-TTTGATTAAGAAAGACTC
** *
3842 ATGTCTATAGATGAGAATGAGA
1 ATGTCTCGAAATGAGAATGAGA
3864 ATGAGAATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 64 0.73
42 24 0.27
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (40 bp):
ATGTCTCGAAATGAGAATGAGATTTGATTAAGAAAGACTC
Found at i:3872 original size:82 final size:83
Alignment explanation
Indices: 3718--3872 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 83
3708 TGGAATACTG
* * *
3718 ATGTCTCGAAATGAGAATGAGAATTTGATTTAAAAAAGACTCGTGTCTCGAGATGAGAATGAGAT
1 ATGTCTCGAAATGAGAATGAGAATTTGAGTTAAAAAAGACTCATGTCTAGAGATGAGAATGAGAT
*
3783 TATGAATAAGAAAGTCTC
66 GATGAATAAGAAAGTCTC
* ** *
3801 ATGTCTCGAAATGAGAATGAGATTTTG-GTTAAGGAAGACTCATGTCTATAGATGAGAATGAGAA
1 ATGTCTCGAAATGAGAATGAGAATTTGAGTTAAAAAAGACTCATGTCTAGAGATGAGAATGAG-A
3865 TGA-GAATA
65 TGATGAATA
3873 TAGTTAAAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
82 34 0.54
83 29 0.46
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (83 bp):
ATGTCTCGAAATGAGAATGAGAATTTGAGTTAAAAAAGACTCATGTCTAGAGATGAGAATGAGAT
GATGAATAAGAAAGTCTC
Found at i:4371 original size:22 final size:23
Alignment explanation
Indices: 4346--4393 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
4336 TTTGAGAATT
* *
4346 CTACATATTTGTTTCGGTA-GAA
1 CTACATACTTGTATCGGTATGAA
4368 CTAC-TACTTGTATCGGTATGAA
1 CTACATACTTGTATCGGTATGAA
4390 -TACA
1 CTACA
4394 GGGTAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (23 bp):
CTACATACTTGTATCGGTATGAA
Found at i:30312 original size:21 final size:21
Alignment explanation
Indices: 30274--30314 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30264 TGCTCTGTAC
*
30274 TTCTACTGATACATGCATGAG
1 TTCTACTGATACAAGCATGAG
30295 TTCTACTGGA-ACAAGCATGA
1 TTCTACT-GATACAAGCATGA
30315 AGATTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (21 bp):
TTCTACTGATACAAGCATGAG
Found at i:32439 original size:26 final size:23
Alignment explanation
Indices: 32383--32437 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
32373 CCCACCATCA
*
32383 CGACCACCAGTCGTCGATGATGG
1 CGACCATCAGTCGTCGATGATGG
32406 CGACCATCAGTCGTCGATGATGG
1 CGACCATCAGTCGTCGATGATGG
32429 CGACCATCA
1 CGACCATCA
32438 TCTTTGGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (23 bp):
CGACCATCAGTCGTCGATGATGG
Found at i:33867 original size:81 final size:79
Alignment explanation
Indices: 33706--34733 Score: 850
Period size: 81 Copynumber: 12.7 Consensus size: 79
33696 TTTGATTTAG
* * *
33706 GGGTAAAAGATTGGATGAATTCAATCTGCCCCATGGTCGGGGTAAGA-TTTAGATGGTGTCTTCA
1 GGGTAAAAGATTGGATGACTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
*
33770 ATCTGCCTTTTGGTTA
65 ATCTGCC-TCTGGTTA
* * ** * * *
33786 GGGTAAAAGATTGGATGGCTTCAATTTGTCCCATTATCGGGGTAAGAGATTAGATGGTATCTTTA
1 GGGTAAAAGATTGGATGACTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
33851 ATCTGCTCTCTGGTTA
65 ATCTGC-CTCTGGTTA
* * * *
33867 GGGTAAAAGATTGGATGACTTCAATCTGCCCTATGGTCGAGGTAAAAGATTGGATGACT-TCTTT
1 GGGTAAAAGATTGGATGACTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGATG-GTGTCTTC
*
33931 AATCTACCCTCTGGTTA
64 AATCT-GCCTCTGGTTA
* *
33948 AGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTTGGGGTAAGAGATTGGATGGTGTCTTCA
1 GGGTAAAAGATTGGATGACTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
*
34013 ATCTGCCTTCTAGTTA
65 ATCTGCC-TCTGGTTA
* * * *
34029 GGGTAAAAGATTAGATTG-CTTCAATCTGCCCCATGGT-GAAGGTAATAGATTGGATGGTCTCTT
1 GGGTAAAAGATTGGA-TGACTTCAATCTG-CCCATGGTCG-GGGTAAGAGATTGGATGGTGTCTT
* * *
34092 TAATTTGCCTTCTGATTA
63 CAATCTGCC-TCTGGTTA
* **
34110 GGGTAAAAGATTGGATGGCTTC-ATCTGCCTTGTGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
1 GGGTAAAAGATTGGATGACTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
34174 ATCTGCCCTCTGGTTA
65 ATCTG-CCTCTGGTTA
* * ** * *
34190 GGGTAAAAAGATTGGATGACTTCAATTTGCCTCATAGTCGATGTAAGAGATTGTATAGTGTCTTC
1 GGGT-AAAAGATTGGATGACTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
* *
34255 AATTTGCCCTCTAGTTA
64 AATCTG-CCTCTGGTTA
* *
34272 GGGTAAAAGATTGGATGACTTCAATCTGTCCCATAGTCGGGGTAAGAGATT-G--GCTGTCTTCA
1 GGGTAAAAGATTGGATGACTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
* **
34334 ATCTGCCCTATGGTCG
65 ATCTG-CCTCTGGTTA
* * * * * ** *
34350 GGGTAAGAGATTGGCTGGTGTCTTTAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT-G-G-CT
1 GGGTAAAAGATT-G--GATGACTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGATGGTGTCT
* *
34412 TCAATTTGCCTCATGG-TC
62 TCAATCTGCCTC-TGGTTA
* * * * * ** *
34430 GATGTAAAAGATTGTATAGTGTA-TTTAATCTGCCCTCTAGTTAGGGTAAAAGATTGGAT-G-GT
1 G-GGTAAAAGATTG--GA-TG-ACTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGATGGTGT
* **
34492 -TTCAATCTGTCC-CATAGTCG
60 CTTCAATCTG-CCTC-TGGTTA
* * * * * * *
34512 GGGTAAGAGATTGGTTGTCTTTAATTTGCCCTATGGTCGAGGTAAGAGATTGGTTGGTGTCTTCA
1 GGGTAAAAGATTGGATGACTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGATGGTGTCTTCA
34577 ATCTGCCCTCTGGTTA
65 ATCTG-CCTCTGGTTA
* * * * *
34593 GGGTAAAAGATTGGATGGCTTCGATCTACCCCATGATCGGGGTAAGAGATTGGATGACT-TCTTC
1 GGGTAAAAGATTGGATGACTTCAATCT-GCCCATGGTCGGGGTAAGAGATTGGATG-GTGTCTTC
* *
34657 AATCTACCATCTAGTTA
64 AATCTGCC-TCTGGTTA
* * * *
34674 GGGTAAAAGATTAGATGGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGAATGGTGT
1 GGGTAAAAGATTGGATGACTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGGTGT
34734 AACTTCGCTC
Statistics
Matches: 777, Mismatches: 130, Indels: 81
0.79 0.13 0.08
Matches are distributed among these distances:
78 60 0.08
79 4 0.01
80 109 0.14
81 532 0.68
82 72 0.09
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATGACTTCAATCTGCCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCAA
TCTGCCTCTGGTTA
Found at i:33878 original size:42 final size:40
Alignment explanation
Indices: 33706--34731 Score: 517
Period size: 39 Copynumber: 25.5 Consensus size: 40
33696 TTTGATTTAG
** * **
33706 GGGTAAAAGATTGGAT-G-AATTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* *
33745 GGGT--AAGATTTAGATGGTGTCTTCAATCTGCCTTTTGGTTA
1 GGGTAAAAGA-TTGGATGGT-TCTTCAATCTGCC-TCTGGTTA
* ** **
33786 GGGTAAAAGATTGGATGG--CTTCAATTTGTCC-CATTATCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTC-TGGTTA
* * *
33825 GGGTAAGAGATTAGATGGTATCTTTAATCTGCTCTCTGGTTA
1 GGGTAAAAGATTGGATGGT-TCTTCAATCTGC-CTCTGGTTA
* * *
33867 GGGTAAAAGATTGGAT-G-ACTTCAATCTGCCCTATGG-TC
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTCTGGTTA
* * *
33905 GAGGTAAAAGATTGGATGACTTCTTTAATCTACCCTCTGGTTA
1 G-GGTAAAAGATTGGATG-GTTCTTCAATCT-GCCTCTGGTTA
* * * *
33948 AGGTAAAAGATTGGAT-G-ACTTCAATCTGCCCCATGGTTG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* *
33987 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTTCTAGTTA
1 GGGTAAAAGATTGGATGGT-TCTTCAATCTGCC-TCTGGTTA
* * * *
34029 GGGTAAAAGATTAGAT--TGCTTCAATCTGCCCCATGGTGA
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* * * * *
34068 AGGTAATAGATTGGATGGTCTCTTTAATTTGCCTTCTGATTA
1 GGGTAAAAGATTGGATGGT-TCTTCAATCTGCC-TCTGGTTA
* **
34110 GGGTAAAAGATTGGATGG--CTTC-ATCTGCCTTGTGGTCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCC-TCTGGTTA
*
34148 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGGT-TCTTCAATCTG-CCTCTGGTTA
* * * *
34190 GGGTAAAAAGATTGGAT-G-ACTTCAATTTGCCTCATAG-TC
1 GGGT-AAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* * * * * *
34229 GATGTAAGAGATTGTATAGTGTCTTCAATTTGCCCTCTAGTTA
1 G-GGTAAAAGATTGGATGGT-TCTTCAATCTG-CCTCTGGTTA
* * **
34272 GGGTAAAAGATTGGAT-G-ACTTCAATCTGTCC-CATAGTCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTC-TGGTTA
* * * **
34311 GGGTAAGAGATTGGCT-G-TCTTCAATCTGCCCTATGGTCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTCTGGTTA
* * *
34350 GGGTAAGAGATTGGCTGGTGTCTTTAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGGT-TCTTCAATCTG-CCTCTGGTTA
* *
34392 GGGTAAAAGATTGGATGG--CTTCAATTTGCCTCATGG-TC
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* * * * * *
34430 GATGTAAAAGATTGTATAGTGTATTTAATCTGCCCTCTAGTTA
1 G-GGTAAAAGATTGGATGGT-TCTTCAATCTG-CCTCTGGTTA
* **
34473 GGGTAAAAGATTGGATGG-T-TTCAATCTGTCC-CATAGTCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTC-TGGTTA
* * * * * *
34512 GGGTAAGAGATTGG-TTG-TCTTTAATTTGCCCTATGG-TC
1 GGGTAAAAGATTGGATGGTTCTTCAATCTG-CCTCTGGTTA
* *
34550 GAGGTAAGAGATTGGTTGGTGTCTTCAATCTGCCCTCTGGTTA
1 G-GGTAAAAGATTGGATGGT-TCTTCAATCTG-CCTCTGGTTA
* * * * **
34593 GGGTAAAAGATTGGATGG--CTTCGATCTACCCCATGATCG
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* * * *
34632 GGGTAAGAGATTGGATGACTTCTTCAATCTACCATCTAGTTA
1 GGGTAAAAGATTGGATG-GTTCTTCAATCTGCC-TCTGGTTA
* * *
34674 GGGTAAAAGATTAGATGG--CTTCAATCTGCCCCATGGTCA
1 GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTC-TGGTTA
* *
34713 GGGTAAGAGATTGAATGGT
1 GGGTAAAAGATTGGATGGT
34732 GTAACTTCGC
Statistics
Matches: 754, Mismatches: 162, Indels: 141
0.71 0.15 0.13
Matches are distributed among these distances:
37 4 0.01
38 55 0.07
39 332 0.44
40 23 0.03
41 27 0.04
42 277 0.37
43 36 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTTCTTCAATCTGCCTCTGGTTA
Found at i:34466 original size:201 final size:199
Alignment explanation
Indices: 33705--34725 Score: 989
Period size: 201 Copynumber: 5.1 Consensus size: 199
33695 TTTTGATTTA
** * * *
33705 GGGGTAAAAGATTGGATGAATTCAATCTGCCCCATGGTCGGGGTAAGA-TTTAGATGGTGTCTTC
1 GGGGTAAAAGATTGGATGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
* * *
33769 AATCTGCCTTTTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTGTCC-CATTA-TCGGGGTAAG
66 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTG-CCTCA-TAGTCGAGGTAAG
* * * * *
33832 AGATTAGATGGTATCTTTAATCTGCTCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGCC
129 AGATT-GATAGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCC
*
33897 CTATGGTC
193 C-ATAGTC
* * * * *** * *
33905 GAGGTAAAAGATTGGATGACTTCTTTAATCTACCCTCTGGTTAAGGTAAAAGATTGGA---TGAC
1 GGGGTAAAAGATTGGATG---TCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTC
* * * *
33967 TTCAATCTGCCC-CATGGTTGGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTTC-TAGT-TA
63 TTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGAT-G-G-CTTCAATTTGCC-TCATAGTCGA
* * * * * *
34029 GGGTAAAAGATTAGAT--TG-CTTCAATCTGCCC-CATGGTGAAGGTAATAGATTGGATGGTCTC
123 -GGTAAGAGATT-GATAGTGTCTTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTGGAT-G--AC
* * *
34090 TTTAATTTGCCTTC-T-GATT
182 TTCAATCTGCC--CATAG-TC
* * * *
34109 AGGGTAAAAGATTGGATGGCTTC-ATCTGCCTTGTGGTCGGGGTAAGAGATTGGATGGTGTCTTC
1 GGGGTAAAAGATTGGATGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
* *
34173 AATCTGCCCTCTGGTTAGGGTAAAAAGATTGGATGACTTCAATTTGCCTCATAGTCGATGTAAGA
66 AATCTGCCCTCTGGTTAGGGT-AAAAGATTGGATGGCTTCAATTTGCCTCATAGTCGAGGTAAGA
*
34238 GATTGTATAGTGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGTCC
130 GATTG-ATAGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTG-CC
34303 CATAGTC
193 CATAGTC
* * * *
34310 GGGGTAAGAGATTGGCTGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGCTGGTGTCTTT
1 GGGGTAAAAGATTGGATGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
* * *
34375 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTGCCTCATGGTCGATGTAAAAG
66 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTGCCTCATAGTCGAGGTAAGAG
* * **
34440 ATTGTATAGTGTATTTAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGGTTTCAATCTGTCCC
131 ATTG-ATAGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTG-CCC
34505 ATAGTC
194 ATAGTC
* * * * * *
34511 GGGGTAAGAGATTGGTTGTCTTTAATTTGCCCTATGGTCGAGGTAAGAGATTGGTTGGTGTCTTC
1 GGGGTAAAAGATTGGATGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
* * * * *
34576 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCGATCTACCCCAT-GATCGGGGTAAGA
66 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTGCCTCATAG-TCGAGGTAAGA
* * * * *
34640 GATTGGATGACT-TCTTCAATCTACCATCTAGTTAGGGTAAAAGATTAGATGGCTTCAATCTGCC
130 GATT-GAT-AGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTG-C
*
34704 CCATGGTC
192 CCATAGTC
* *
34712 AGGGTAAGAGATTG
1 GGGGTAAAAGATTG
34726 AATGGTGTAA
Statistics
Matches: 684, Mismatches: 99, Indels: 75
0.80 0.12 0.09
Matches are distributed among these distances:
200 47 0.07
201 414 0.61
202 68 0.10
203 54 0.08
204 98 0.14
205 2 0.00
206 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (199 bp):
GGGGTAAAAGATTGGATGTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATTGGATGGTGTCTTC
AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAATTTGCCTCATAGTCGAGGTAAGAG
ATTGATAGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCAT
AGTC
Found at i:34917 original size:97 final size:95
Alignment explanation
Indices: 34735--34923 Score: 211
Period size: 97 Copynumber: 2.0 Consensus size: 95
34725 GAATGGTGTA
* * * * * *
34735 ACTTCGCTCCATTCCACTATAACTTCAGGGAGATTGAGGTCTGTTACTTGTTTTATTCTGCCCTC
1 ACTTCACTCCATTCCACTACAACTTCAGGGAGATAGAGATCTATTACTTGTTTTAATCTG-CCTC
* * * *
34800 CTATAATTTTTAGGGTATAAGAGTTGGGATG
65 CTACAACTTTAAGAGTATAAGAGTTGGGATG
*
34831 ACTTCACTCCTTTCCACTACAACTTCAGTGGAGATAGAGATCTATTACTTGTTTTAATCTG-CTG
1 ACTTCACTCCATTCCACTACAACTTCAG-GGAGATAGAGATCTATTACTTGTTTTAATCTGCCT-
*
34895 CACTACAACTTTAAGAAG-ATAAGATTTGG
64 C-CTACAACTTTAAG-AGTATAAGAGTTGG
34924 TGTTAAAGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
95 2 0.03
96 26 0.34
97 48 0.62
98 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (95 bp):
ACTTCACTCCATTCCACTACAACTTCAGGGAGATAGAGATCTATTACTTGTTTTAATCTGCCTCC
TACAACTTTAAGAGTATAAGAGTTGGGATG
Found at i:35103 original size:101 final size:100
Alignment explanation
Indices: 34979--35292 Score: 306
Period size: 101 Copynumber: 3.2 Consensus size: 100
34969 TCTAGTATGT
** *
34979 CTTCATCTTGCTCCACTATAACTTTAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGTTC
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATACGTTC
35044 CTTGCAACTTCGAGGATATAGGATTTGATGTTGTAG
66 CTTGCAACTTC-AGGATATAGGATTTGATGTTGTAG
* * * * *
35080 CTTCTTCTTGCTCCATTGCAACTTTAGGGAGATAAAGATTTG-C--TATTA-CTTTAATTTTC-T
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAAGATTTGCCAATGTTAGTTTTAA--TACGT
** * * *
35140 TAATTGCATCTTCAGGAAGATAGGATTTG--G-TGTGG
64 TCCTTGCAACTTCAGG-ATATAGGATTTGATGTTGTAG
* * * * *
35175 CTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAAG-TTCTGCCAATGTTAGTTTTAATATGAT
1 CTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAAGATT-TGCCAATGTTAGTTTTAATACGTT
* *
35239 CCTTGCAACTTTAAGGATATAGGACTT-AGTGTTGTAG
65 CCTTGCAAC-TTCAGGATATAGGATTTGA-TGTTGTAG
*
35276 CGTCATCTTGCTCCACT
1 CTTCATCTTGCTCCACT
35293 ACAAATTCAA
Statistics
Matches: 167, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
94 2 0.01
95 38 0.23
96 2 0.01
97 9 0.05
98 46 0.28
99 12 0.07
100 2 0.01
101 56 0.34
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (100 bp):
CTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATACGTTC
CTTGCAACTTCAGGATATAGGATTTGATGTTGTAG
Found at i:35224 original size:196 final size:196
Alignment explanation
Indices: 34985--35364 Score: 494
Period size: 196 Copynumber: 1.9 Consensus size: 196
34975 ATGTCTTCAT
* * * *
34985 CTTGCTCCACTATAACTTTAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATCCGTTCCTTGCA
1 CTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATACGATCCTTGCA
* * * * * * * * * *
35050 ACTTCGAGGATATAGGA-TTTGATGTTGTAGCTTCTTCTTGCTCCATTGCAACTTTAGGGAGATA
66 ACTTCAAGGATATAGGACTTAG-TGTTGTAGCGTCATCTTGCTCCACTACAAATTCAAGGAAATA
* ** * * *
35114 AAGATTTGCTATTACTTTAATTTTCTTAATTGCATCTTCAGGAAGATAGGATTTGGTGTGGCTTT
130 AAGATTTGCTACTACTTTAATTCGCTTAATTGCAACTTCAAGAAAATAGGATTTGGTGTGGCTTT
35179 AA
195 AA
* *
35181 CTTGCTCCACTGCAACTTCAGGGAGATAAAG-TTCTGCCAATGTTAGTTTTAATATGATCCTTGC
1 CTTGCTCCACTACAACTTCAGGGAGATAAAGATT-TGCCAATGTTAGTTTTAATACGATCCTTGC
*
35245 AACTTTAAGGATATAGGACTTAGTGTTGTAGCGTCATCTTGCTCCACTACAAATTCAAGGAAATA
65 AACTTCAAGGATATAGGACTTAGTGTTGTAGCGTCATCTTGCTCCACTACAAATTCAAGGAAATA
* * *
35310 CAGATTTGCTACTACTTTAATTCGCTTCATTGCAACTTCAAGAAAATAGTATTTG
130 AAGATTTGCTACTACTTTAATTCGCTTAATTGCAACTTCAAGAAAATAGGATTTG
35365 ACATTGTAAC
Statistics
Matches: 156, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
195 2 0.01
196 151 0.97
197 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (196 bp):
CTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCCAATGTTAGTTTTAATACGATCCTTGCA
ACTTCAAGGATATAGGACTTAGTGTTGTAGCGTCATCTTGCTCCACTACAAATTCAAGGAAATAA
AGATTTGCTACTACTTTAATTCGCTTAATTGCAACTTCAAGAAAATAGGATTTGGTGTGGCTTTA
A
Found at i:36024 original size:20 final size:21
Alignment explanation
Indices: 35993--36031 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35983 AAAAATGACA
35993 TTGGTAAAAAATTGGCAAATG
1 TTGGTAAAAAATTGGCAAATG
*
36014 TTGGT-AAAAATTTGCAAA
1 TTGGTAAAAAATTGGCAAA
36032 CATCGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (21 bp):
TTGGTAAAAAATTGGCAAATG
Found at i:36360 original size:33 final size:33
Alignment explanation
Indices: 36322--36393 Score: 110
Period size: 34 Copynumber: 2.2 Consensus size: 33
36312 TCGACCTCTC
36322 TTTTTTCTTTCTTC-TTTTTCCTTTTTTTTTCT
1 TTTTTTCTTTCTTCTTTTTTCCTTTTTTTTTCT
* *
36354 TATTTTTCTTTTTTCTTTTTTCTTTTTTTTTTCT
1 T-TTTTTCTTTCTTCTTTTTTCCTTTTTTTTTCT
36388 TTTTTT
1 TTTTTT
36394 GGGTGAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 1 0.03
33 17 0.47
34 18 0.50
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (33 bp):
TTTTTTCTTTCTTCTTTTTTCCTTTTTTTTTCT
Found at i:36365 original size:25 final size:25
Alignment explanation
Indices: 36323--36391 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 25
36313 CGACCTCTCT
36323 TTTTTCTTTCTTCTTTTTCCTTTTTT-
1 TTTTT-TTT-TTCTTTTTCCTTTTTTC
*
36349 TTTCTTATTTTTCTTTTTTCTTTTTTC
1 TTT-TT-TTTTTCTTTTTCCTTTTTTC
36376 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
36392 TTGGGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.28
26 20 0.51
27 8 0.21
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTTTTTTTTCTTTTTCCTTTTTTC
Found at i:36392 original size:7 final size:7
Alignment explanation
Indices: 36320--36385 Score: 75
Period size: 7 Copynumber: 9.9 Consensus size: 7
36310 TCTCGACCTC
36320 TCTTTTT
1 TCTTTTT
*
36327 TCTTTCT
1 TCTTTTT
36334 TCTTTTT
1 TCTTTTT
*
36341 CCTTTTT
1 TCTTTTT
*
36348 T-TTTCT
1 TCTTTTT
*
36354 T-ATTTT
1 TCTTTTT
36360 TCTTTTT
1 TCTTTTT
36367 TCTTTTT
1 TCTTTTT
36374 TCTTTTT
1 TCTTTTT
36381 T-TTTT
1 TCTTTT
36386 CTTTTTTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
6 13 0.26
7 37 0.74
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (7 bp):
TCTTTTT
Found at i:36392 original size:20 final size:20
Alignment explanation
Indices: 36322--36393 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 20
36312 TCGACCTCTC
36322 TTTTTTCTTTCTTCTTTTTCCTTT
1 TTTTTTCTTT-TT-TTTTT-C-TT
*
36346 TTTTTTCTTATTTTTCTTTTTT
1 TTTTTTCTT-TTTTT-TTTCTT
36368 CTTTTTTCTTTTTTTTTTCTT
1 -TTTTTTCTTTTTTTTTTCTT
36389 TTTTT
1 TTTTT
36394 GGGTGAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 5 0.12
21 5 0.12
22 7 0.16
23 11 0.26
24 14 0.33
25 1 0.02
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTCTT
Found at i:42999 original size:43 final size:44
Alignment explanation
Indices: 42914--43143 Score: 274
Period size: 43 Copynumber: 5.2 Consensus size: 44
42904 TAAGTTCTCT
* * * *
42914 CATTTACA-ATAATCT-TATGCTCTTACCGAGACATAAGTTCTTC
1 CATTTATACATAATCTCTATGCTCATCCCGAGACATGAG-TCTTC
*
42957 CATTTATACTTAATCTCT-TGCTCATCCCGAGACATGAGTCTTC
1 CATTTATACATAATCTCTATGCTCATCCCGAGACATGAGTCTTC
* * * *
43000 CATTTATATATACA-CAATCTTATTCTCATCTCGAGACATGAGTCTTT
1 CATTTATACATA-ATC--TC-TATGCTCATCCCGAGACATGAGTCTTC
* *
43047 CATTTATACATAATCTC-ATGCTCATCCCAAGACTTGAGTCTTC
1 CATTTATACATAATCTCTATGCTCATCCCGAGACATGAGTCTTC
43090 CATTTATACATAATCT-TATGCTCATCCCGAGACATGAGTCTTC
1 CATTTATACATAATCTCTATGCTCATCCCGAGACATGAGTCTTC
43133 CATTTATACAT
1 CATTTATACAT
43144 CAAGTGATTC
Statistics
Matches: 160, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
43 95 0.59
44 24 0.15
45 5 0.03
46 2 0.01
47 34 0.21
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (44 bp):
CATTTATACATAATCTCTATGCTCATCCCGAGACATGAGTCTTC
Found at i:70192 original size:64 final size:64
Alignment explanation
Indices: 70091--70218 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
70081 AGAAAAACCC
70091 ATGTTGGTCAATGATACAGCATTAGTACTATCATCAGAGTACTGTGTTGTATCTATTAGGTTAA
1 ATGTTGGTCAATGATACAGCATTAGTACTATCATCAGAGTACTGTGTTGTATCTATTAGGTTAA
70155 ATGTTGGTCAATGATACAGCATTAGTACTATCATCAGAGTACTGTGTTGTATCTATTAGGTTAA
1 ATGTTGGTCAATGATACAGCATTAGTACTATCATCAGAGTACTGTGTTGTATCTATTAGGTTAA
70219 CTCCAATGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (64 bp):
ATGTTGGTCAATGATACAGCATTAGTACTATCATCAGAGTACTGTGTTGTATCTATTAGGTTAA
Found at i:88745 original size:63 final size:61
Alignment explanation
Indices: 88602--88882 Score: 161
Period size: 63 Copynumber: 4.5 Consensus size: 61
88592 AAGGTGTCTG
* * * * * * ** *
88602 TGCATGGAATGATTGTTCATGTTATGGTGCTTGTGAATAATAAA-TTGGTGATGGTTGTGTCGA
1 TGCAGGGAATGATTGTGCGTGTTGTGATGCTTGTG-TTAATAAACTT--TGATGAATGTGTTGA
* * *
88665 TACAAGGAATGAATGTGCGTGTTGTGATGCTTGTGTGTAATAAACCTTTGATGAATGTGTTGA
1 TGCAGGGAATGATTGTGCGTGTTGTGATGCTTGTGT-TAATAAA-CTTTGATGAATGTGTTGA
* * ** * * * * *
88728 TGCAGGGAAAGATTGTGCATGCAGCGATGCTTGCGTTAAATAAAGTGGTGATGAATGTGTTGG
1 TGCAGGGAATGATTGTGCGTGTTGTGATGCTTGTGTT-AATAAACT-TTGATGAATGTGTTGA
* ** * * * * **
88791 TGCATGGAATGATTACGCGTGATGTGGTGCTCT-TGTAAAATAAACTTATGTTTTATGTGTTGA
1 TGCAGGGAATGATTGTGCGTGTTGTGATGCT-TGTGT-TAATAAACTT-TGATGAATGTGTTGA
* * *
88854 TGTAGGGAATGATTGTGTGTGTTATGATG
1 TGCAGGGAATGATTGTGCGTGTTGTGATG
88883 ATGCTGTAGA
Statistics
Matches: 162, Mismatches: 48, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
62 2 0.01
63 157 0.97
64 1 0.01
65 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.37
Consensus pattern (61 bp):
TGCAGGGAATGATTGTGCGTGTTGTGATGCTTGTGTTAATAAACTTTGATGAATGTGTTGA
Found at i:94118 original size:21 final size:21
Alignment explanation
Indices: 94068--94121 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
94058 ACAGGGAGTT
* *
94068 ACACGGTCATGTGACCCATCC
1 ACACGGCCATGTAACCCATCC
* *
94089 GCACAGCCATGTAACCCA-CTC
1 ACACGGCCATGTAACCCATC-C
94110 ACACGGCCATGT
1 ACACGGCCATGT
94122 GGCCTATCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.26, C:0.39, G:0.19, T:0.17
Consensus pattern (21 bp):
ACACGGCCATGTAACCCATCC
Found at i:105024 original size:23 final size:23
Alignment explanation
Indices: 104998--105043 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
104988 TATAGATCTG
104998 ATTT-TTTTCTATTTATTTTAATT
1 ATTTCTTTT-TATTTATTTTAATT
*
105021 ATTTCTTTTTATTTGTTTTAATT
1 ATTTCTTTTTATTTATTTTAATT
105044 TGAGTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (23 bp):
ATTTCTTTTTATTTATTTTAATT
Found at i:109075 original size:3 final size:3
Alignment explanation
Indices: 109067--109096 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
109057 AGACAGTGAC
*
109067 GAG GAG GAG GAC GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
109097 ATGGACGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:109081 original size:12 final size:12
Alignment explanation
Indices: 109064--109107 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
109054 GAAAGACAGT
109064 GACGAGGAGGAG
1 GACGAGGAGGAG
109076 GACGAGGAGGAG
1 GACGAGGAGGAG
*
109088 GAGGAGGA-GATG
1 GACGAGGAGGA-G
109100 GACGAGGA
1 GACGAGGA
109108 TAAATGAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 2 0.07
12 27 0.93
ACGTcount: A:0.34, C:0.07, G:0.57, T:0.02
Consensus pattern (12 bp):
GACGAGGAGGAG
Found at i:117492 original size:58 final size:58
Alignment explanation
Indices: 117422--117538 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
117412 GGAACACCTA
117422 GGGCACTAATAAGTGATCAAGGTACTCACTTTCACAACAATCAAGTTGTGACAGCATT
1 GGGCACTAATAAGTGATCAAGGTACTCACTTTCACAACAATCAAGTTGTGACAGCATT
117480 GGGCACTAATAAGTGATCAAGGTACTCACTTTCACAACAATCAAGTTGTGACAGCATT
1 GGGCACTAATAAGTGATCAAGGTACTCACTTTCACAACAATCAAGTTGTGACAGCATT
117538 G
1 G
117539 AAAAGATATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (58 bp):
GGGCACTAATAAGTGATCAAGGTACTCACTTTCACAACAATCAAGTTGTGACAGCATT
Found at i:120575 original size:18 final size:18
Alignment explanation
Indices: 120548--120585 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
120538 AATTCATACA
120548 TTTATATTGTCATCGCAT
1 TTTATATTGTCATCGCAT
* *
120566 TTTATTTTGTCATTGCAT
1 TTTATATTGTCATCGCAT
120584 TT
1 TT
120586 GTTTTGTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTATATTGTCATCGCAT
Found at i:134132 original size:25 final size:26
Alignment explanation
Indices: 134096--134155 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
134086 TCAATATTAA
*
134096 TTTAA-TTAAAA-ATTATTAAAATATT
1 TTTAATTTAAAATATAATTAAAAT-TT
*
134121 TTTAATTTAAAATATAATTAATATTT
1 TTTAATTTAAAATATAATTAAAATTT
134147 TTATAATTT
1 TT-TAATTT
134156 TAGATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 15 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTAATTTAAAATATAATTAAAATTT
Found at i:144059 original size:28 final size:26
Alignment explanation
Indices: 144028--144089 Score: 63
Period size: 30 Copynumber: 2.2 Consensus size: 26
144018 AACACAAAGC
*
144028 ACGAATAATTATACA-AATAAATAAATAT
1 ACGAATAAATATA-AGAA-AAATAAA-AT
144056 ACGAAAATAAATATAAGAAAAATAAAAT
1 ACG--AATAAATATAAGAAAAATAAAAT
144084 ACGAAT
1 ACGAAT
144090 TGTGAATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 3 0.10
28 8 0.27
29 8 0.27
30 11 0.37
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (26 bp):
ACGAATAAATATAAGAAAAATAAAAT
Found at i:144065 original size:14 final size:14
Alignment explanation
Indices: 144046--144088 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
144036 TTATACAAAT
144046 AAATAAATATACGA
1 AAATAAATATACGA
*
144060 AAATAAATATAAGAA
1 AAATAAATATACG-A
144075 AAATAAA-ATACGA
1 AAATAAATATACGA
144088 A
1 A
144089 TTGTGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 2 0.08
14 16 0.62
15 8 0.31
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATATACGA
Found at i:144210 original size:21 final size:21
Alignment explanation
Indices: 144184--144225 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
144174 GAAAATGAAG
* * *
144184 TTTTGGAGAGTTTTGGGGTAA
1 TTTTGGAAAATTTAGGGGTAA
144205 TTTTGGAAAATTTAGGGGTAA
1 TTTTGGAAAATTTAGGGGTAA
144226 AAATATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (21 bp):
TTTTGGAAAATTTAGGGGTAA
Found at i:144264 original size:28 final size:28
Alignment explanation
Indices: 144224--144418 Score: 125
Period size: 28 Copynumber: 6.9 Consensus size: 28
144214 ATTTAGGGGT
*
144224 AAAAATATAATTTTGAGGAAGTTCAGGG
1 AAAAATATGATTTTGAGGAAGTTCAGGG
144252 AAAAATATGATTTTTGA-GAAGTTCGAGGG
1 AAAAATATGA-TTTTGAGGAAGTTC-AGGG
* * * *
144281 TAAAATCTGATTTT-TGGAAGTTTAGGGG
1 AAAAATATGATTTTGAGGAAGTTCA-GGG
* * * **
144309 CAAAATGTAATTTTGA-GAAGTTTGGGG
1 AAAAATATGATTTTGAGGAAGTTCAGGG
* *
144336 TAAAAATGTGATTTT-CGGAAGTTCGAGGG
1 -AAAAATATGATTTTGAGGAAGTTC-AGGG
* *
144365 AAAAA-ATGTATTTT-TGGAAGTTTAAGGG
1 AAAAATATG-ATTTTGAGGAAG-TTCAGGG
*
144393 CAAAAATATAATTTTTGA-GAAGTTCA
1 -AAAAATATGA-TTTTGAGGAAGTTCA
144419 AGGACCTATC
Statistics
Matches: 132, Mismatches: 21, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
27 6 0.05
28 84 0.64
29 32 0.24
30 10 0.08
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (28 bp):
AAAAATATGATTTTGAGGAAGTTCAGGG
Found at i:144387 original size:56 final size:56
Alignment explanation
Indices: 144219--144418 Score: 199
Period size: 56 Copynumber: 3.5 Consensus size: 56
144209 GGAAAATTTA
* *
144219 GGGGTAAAAATATAATTTTGAGGAAGTTCAGGGAAAAATATG-ATTTTTGAGAAGTTC
1 GGGGTAAAAATATGATTTT-AGGAAGTTCAGGGAAAAA-ATGTATTTTTGAGAAGTTT
* * * ** *
144276 GAGGGT-AAAATCTGATTTTTGGAAGTTTAGGGGCAAAATGTAATTTTGAGAAGTTT
1 G-GGGTAAAAATATGATTTTAGGAAGTTCAGGGAAAAAATGTATTTTTGAGAAGTTT
* *
144332 GGGGTAAAAATGTGATTTTCGGAAGTTCGAGGGAAAAAATGTATTTTTG-GAAGTTT
1 GGGGTAAAAATATGATTTTAGGAAGTTC-AGGGAAAAAATGTATTTTTGAGAAGTTT
* * * *
144388 AAGGGCAAAAATATAATTTTTGAGAAGTTCA
1 -GGGGTAAAAATATGATTTTAG-GAAGTTCA
144419 AGGACCTATC
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
55 7 0.06
56 54 0.46
57 46 0.39
58 11 0.09
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (56 bp):
GGGGTAAAAATATGATTTTAGGAAGTTCAGGGAAAAAATGTATTTTTGAGAAGTTT
Found at i:145788 original size:17 final size:17
Alignment explanation
Indices: 145766--145802 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
145756 TATTGGGCTT
145766 ATTGGGCTTAGGGTGTA
1 ATTGGGCTTAGGGTGTA
145783 ATTGGGCTTAGGGTGTA
1 ATTGGGCTTAGGGTGTA
145800 ATT
1 ATT
145803 ACGGACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (17 bp):
ATTGGGCTTAGGGTGTA
Found at i:148677 original size:3 final size:3
Alignment explanation
Indices: 148651--148693 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
148641 CAAATATCAA
* *
148651 TAT TAGT TAT T-T AAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
148694 CTATTGTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 30 0.88
4 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:149113 original size:17 final size:18
Alignment explanation
Indices: 149091--149124 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
149081 ATAATTGTAA
*
149091 TTTAAAT-TTTAATTATT
1 TTTAAATGTGTAATTATT
149108 TTTAAATGTGTAATTAT
1 TTTAAATGTGTAATTAT
149125 CACAAGTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAAATGTGTAATTATT
Found at i:149142 original size:44 final size:44
Alignment explanation
Indices: 149092--149197 Score: 144
Period size: 43 Copynumber: 2.4 Consensus size: 44
149082 TAATTGTAAT
* *
149092 TTAAATTTTAATTATTTTTAAATGTGTAATTATCACAAGTTCTA
1 TTAAATTTTAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
149136 TTAAATTATAATTA-TTTTAAATGTATAATTATCACAACTTCTA
1 TTAAATTTTAATTATTTTTAAATGTATAATTATCACAACTTCTA
**
149179 TTTTATTTTATATT-TTTTT
1 TTAAATTTTA-ATTATTTTT
149198 GGTAAATTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
43 34 0.63
44 20 0.37
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (44 bp):
TTAAATTTTAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:149164 original size:17 final size:16
Alignment explanation
Indices: 149136--149167 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
149126 ACAAGTTCTA
149136 TTAAATTATAATTATT
1 TTAAATTATAATTATT
149152 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
149168 CACAACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:152062 original size:22 final size:22
Alignment explanation
Indices: 152034--152095 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
152024 CCATACATCC
152034 AAACTCTAAACTTCAAAACCGT
1 AAACTCTAAACTTCAAAACCGT
152056 AAACTCTAAACTTCAAAACCGT
1 AAACTCTAAACTTCAAAACCGT
*
152078 GAACTCTAAA--TCAAAACC
1 AAACTCTAAACTTCAAAACC
152096 TTGAACATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 8 0.21
22 31 0.79
ACGTcount: A:0.47, C:0.27, G:0.05, T:0.21
Consensus pattern (22 bp):
AAACTCTAAACTTCAAAACCGT
Found at i:152172 original size:21 final size:21
Alignment explanation
Indices: 152146--152210 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
152136 TAAACTTTGG
152146 GGTTTGAGATTTAAGGTTTAA
1 GGTTTGAGATTTAAGGTTTAA
*
152167 GGTTTGAG-TTTAATGTTTGAA
1 GGTTTGAGATTTAAGGTTT-AA
*
152188 -GTTCTGGGATTT-AGGTTTAA
1 GGTT-TGAGATTTAAGGTTTAA
152208 GGT
1 GGT
152211 AAAAGAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 14 0.38
21 20 0.54
22 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTTGAGATTTAAGGTTTAA
Found at i:157561 original size:18 final size:17
Alignment explanation
Indices: 157538--157634 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 17
157528 AATTTCCAGT
157538 TATTTTTAGAATTTTTTA
1 TATTTTTA-AATTTTTTA
* *
157556 TATTTTATTATTGTTTTTA
1 TATTTT-TAAAT-TTTTTA
157575 TAATTTTTAAGATTTTTTA
1 T-ATTTTTAA-ATTTTTTA
* * * *
157594 AATTTATATATTTTTAAA
1 TATTTTTAAATTTTT-TA
*
157612 TATTTTTAGATTTTCTT-
1 TATTTTTAAATTTT-TTA
157629 TATTTT
1 TATTTT
157635 CATATAATAC
Statistics
Matches: 61, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
17 12 0.20
18 26 0.43
19 17 0.28
20 6 0.10
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (17 bp):
TATTTTTAAATTTTTTA
Found at i:157634 original size:27 final size:26
Alignment explanation
Indices: 157571--157624 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
157561 TATTATTGTT
157571 TTTATA-ATTTTTAAGATTTTTTAAA
1 TTTATATATTTTTAAGATTTTTTAAA
*
157596 TTTATATATTTTTAA-ATATTTTTAGA
1 TTTATATATTTTTAAGAT-TTTTTAAA
157622 TTT
1 TTT
157625 TCTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTATATATTTTTAAGATTTTTTAAA
Found at i:157947 original size:27 final size:26
Alignment explanation
Indices: 157891--157949 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
157881 ATTATTTGAT
* *
157891 AAAAAATAAAAAATTTTAATAATTAA
1 AAAAAATAAAAAATTATAATAAATAA
*
157917 AAAATATAAAAGAATTATAA-AAATAA
1 AAAAAATAAAA-AATTATAATAAATAA
157943 GAAAAAA
1 -AAAAAA
157950 AATTGTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAAAATAAAAAATTATAATAAATAA
Found at i:158071 original size:16 final size:17
Alignment explanation
Indices: 158050--158082 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
158040 ACTATTTTTG
158050 AAATTA-TAAAAATGTA
1 AAATTACTAAAAATGTA
*
158066 AAATTACTAAAATTGTA
1 AAATTACTAAAAATGTA
158083 TGTCTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AAATTACTAAAAATGTA
Found at i:159008 original size:23 final size:23
Alignment explanation
Indices: 158981--159028 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
158971 TATTTATTTA
*
158981 TTTTTCTTT-ATTTTCCTTCTCTTC
1 TTTTCCTTTCATTTT-C-TCTCTTC
159005 TTTTCCTTTCATTTTCTCTCTTC
1 TTTTCCTTTCATTTTCTCTCTTC
159028 T
1 T
159029 CATATTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCCTTTCATTTTCTCTCTTC
Found at i:160663 original size:3 final size:3
Alignment explanation
Indices: 160655--160709 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
160645 TAGTTTGACC
160655 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
160703 CTT CTT C
1 CTT CTT C
160710 CATATTTTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:161296 original size:23 final size:23
Alignment explanation
Indices: 161280--161354 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
161270 GAACCAAATT
161280 GTTGACTTTGATCGAACCGAACC
1 GTTGACTTTGATCGAACCGAACC
* **
161303 GTTGACTTTGACCGAATTGAACC
1 GTTGACTTTGATCGAACCGAACC
**
161326 GTTGACTTTGATCGAACCGATTC
1 GTTGACTTTGATCGAACCGAACC
161349 GTTGAC
1 GTTGAC
161355 CATTGGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
GTTGACTTTGATCGAACCGAACC
Found at i:167786 original size:18 final size:18
Alignment explanation
Indices: 167734--167786 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
167724 ATTAGATATA
167734 TTGTGCATTGCATTATG-C
1 TTGTG-ATTGCATTATGAC
* * *
167752 TTGTGATTGTATCATGAT
1 TTGTGATTGCATTATGAC
*
167770 TTGTGATTACATTATGA
1 TTGTGATTGCATTATGA
167787 GCTATAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (18 bp):
TTGTGATTGCATTATGAC
Found at i:174008 original size:19 final size:21
Alignment explanation
Indices: 173984--174024 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
173974 AACCATTGAC
173984 CATTGACCA-TTGAC-TTTTT
1 CATTGACCAGTTGACGTTTTT
*
174003 CATTGACTAGTTGACGTTTTT
1 CATTGACCAGTTGACGTTTTT
174024 C
1 C
174025 GAGAAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
CATTGACCAGTTGACGTTTTT
Found at i:174744 original size:6 final size:6
Alignment explanation
Indices: 174735--174770 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
174725 TCTAATATCA
* *
174735 TGAGAT TGAGAT TGAGAT TGAGAT TAAAAT TGAGAT
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT
174771 ATACATGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (6 bp):
TGAGAT
Found at i:176885 original size:39 final size:40
Alignment explanation
Indices: 176841--176958 Score: 157
Period size: 40 Copynumber: 3.0 Consensus size: 40
176831 GTAGAGAACC
*
176841 AAATTATGTTACATTAAAATATAAAAACTAAA-CCCAAAA
1 AAATTATGTTAAATTAAAATATAAAAACTAAATCCCAAAA
* **
176880 AAATTAAGTTAAATTAAAATATAAAAACTAAATTACAAAA
1 AAATTATGTTAAATTAAAATATAAAAACTAAATCCCAAAA
* * * *
176920 ACATAATGTTAAAATAAAATATAAAAATTAAATCCCAAA
1 AAATTATGTTAAATTAAAATATAAAAACTAAATCCCAAA
176959 TATGAGCATT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 30 0.45
40 37 0.55
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (40 bp):
AAATTATGTTAAATTAAAATATAAAAACTAAATCCCAAAA
Found at i:183765 original size:5 final size:5
Alignment explanation
Indices: 183757--183781 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
183747 AAAGAAATCC
183757 AAGAG AAGAG AAGAG AAGAG AAGAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG
183782 CACAGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:199899 original size:10 final size:9
Alignment explanation
Indices: 199868--199910 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
199858 TAATTAAAAC
*
199868 GAGAAAGTT
1 GAGAGAGTT
*
199877 GAGAGACTT
1 GAGAGAGTT
*
199886 GAGAGGGTTT
1 GAGAGAG-TT
199896 GAGAGAGTT
1 GAGAGAGTT
199905 GAGAGA
1 GAGAGA
199911 ATGATTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.35, C:0.02, G:0.42, T:0.21
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:200861 original size:25 final size:24
Alignment explanation
Indices: 200814--200861 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
200804 GGCCATGCAT
200814 AAATTAATATAATATTAAGACATA
1 AAATTAATATAATATTAAGACATA
*
200838 AAATTATATTTAATAATTAA-ACAT
1 AAATTA-ATATAAT-ATTAAGACAT
200862 GAATTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTAATATAATATTAAGACATA
Found at i:211878 original size:24 final size:24
Alignment explanation
Indices: 211844--211890 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
211834 TTAAATCTTT
211844 TATTAATTTGCTTTGAC-ATTTTA
1 TATTAATTTGCTTTGACAATTTTA
211867 TATTACATTTGCTTTGACAATTTT
1 TATTA-ATTTGCTTTGACAATTTT
211891 TACTCTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 12 0.55
25 5 0.23
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TATTAATTTGCTTTGACAATTTTA
Found at i:213513 original size:18 final size:18
Alignment explanation
Indices: 213489--213538 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
213479 GTAGCCTGAC
213489 CAGATGC-GATCACATAACT
1 CAGATGCAG-TCACAT-ACT
213508 -AGATGCAGTCACATACT
1 CAGATGCAGTCACATACT
*
213525 CAGATGCAGCCACA
1 CAGATGCAGTCACA
213539 AGTTCGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (18 bp):
CAGATGCAGTCACATACT
Found at i:220414 original size:24 final size:24
Alignment explanation
Indices: 220383--220483 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
220373 CCACACTAGT
*
220383 CCAGAATGGTTAGCTCTTATGAGC
1 CCAGAATGATTAGCTCTTATGAGC
*
220407 CCAAAATGATTAGCTCTTATGAGC
1 CCAGAATGATTAGCTCTTATGAGC
* **
220431 GCAGAATGATTAGCTCTTACAAGC
1 CCAGAATGATTAGCTCTTATGAGC
* *
220455 CCGGAATGATCAGCTCTTATGAGC
1 CCAGAATGATTAGCTCTTATGAGC
220479 CCAGA
1 CCAGA
220484 TAGAGTTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CCAGAATGATTAGCTCTTATGAGC
Found at i:222779 original size:3 final size:3
Alignment explanation
Indices: 222771--222827 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
222761 GTATTGAGGT
222771 AGA AGA AGA AGA AGAA AGA A-A AGA AGA AGA A-A TAGA AG- AGA AGGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA -AGA AGA AGA A-GA
*
222816 AGA AAA AGA AGA
1 AGA AGA AGA AGA
222828 TTTTGCCCCG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 5 0.11
3 34 0.74
4 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:222797 original size:21 final size:22
Alignment explanation
Indices: 222771--222827 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
222761 GTATTGAGGT
222771 AGAAGAAGAAGAAGAAAGA-AA
1 AGAAGAAGAAGAAGAAAGAGAA
222792 AGAAGAAGAA-ATAG-AAGAGAA
1 AGAAGAAGAAGA-AGAAAGAGAA
* *
222813 GGAAGAAAAAGAAGA
1 AGAAGAAGAAGAAGA
222828 TTTTGCCCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 24 0.80
22 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAGAAGAAAGAGAA
Found at i:222826 original size:18 final size:17
Alignment explanation
Indices: 222774--222827 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
222764 TTGAGGTAGA
*
222774 AGAAGAAGAAGAAAGAAA
1 AGAAGAAGAA-AAAGAAG
*
222792 AGAAGAAGAAATAGAAG
1 AGAAGAAGAAAAAGAAG
222809 AGAAGGAAGAAAAAGAAG
1 AGAA-GAAGAAAAAGAAG
222827 A
1 A
222828 TTTTGCCCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 9 0.28
18 23 0.72
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (17 bp):
AGAAGAAGAAAAAGAAG
Found at i:225405 original size:24 final size:24
Alignment explanation
Indices: 225363--225417 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
225353 ACAATAAATT
*
225363 CAATCTTT-TATTAATTTGCTCTGA
1 CAAT-TTTATATTAATTTGCACTGA
225387 C-ATTTTATATTACATTTGCACTGA
1 CAATTTTATATTA-ATTTGCACTGA
225411 CAATTTT
1 CAATTTT
225418 TACACTTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 12 0.44
25 5 0.19
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (24 bp):
CAATTTTATATTAATTTGCACTGA
Found at i:231274 original size:38 final size:38
Alignment explanation
Indices: 231191--231279 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
231181 TGAGTCTATT
* * * *
231191 CAGAATTGCGCCCAAAATTGTCACTGCATGATGATGTC
1 CAGAATTGCGCCCAAAATTATCACTACATGAAGATGCC
* *
231229 CAAAATTGCGCCTAAAATTATCACTACAT-AAGCATGCC
1 CAGAATTGCGCCCAAAATTATCACTACATGAAG-ATGCC
231267 CAGAATTGTCGCC
1 CAGAATTG-CGCC
231280 ACAGGAACTC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 2 0.05
38 36 0.86
39 4 0.10
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (38 bp):
CAGAATTGCGCCCAAAATTATCACTACATGAAGATGCC
Found at i:233906 original size:34 final size:34
Alignment explanation
Indices: 233863--233950 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 34
233853 GTAAGCATTG
*
233863 TCATCACATTCCCACTGTCACTACATTTTAACTA
1 TCATCACATTCCCATTGTCACTACATTTTAACTA
* *
233897 TCATCACATTCCCATTTTCACTACATTTTAACTG
1 TCATCACATTCCCATTGTCACTACATTTTAACTA
* *
233931 TCATTACATTTCCATTGTCA
1 TCATCACATTCCCATTGTCA
233951 GTGCAATTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.27, C:0.30, G:0.03, T:0.40
Consensus pattern (34 bp):
TCATCACATTCCCATTGTCACTACATTTTAACTA
Found at i:233949 original size:17 final size:17
Alignment explanation
Indices: 233858--233980 Score: 66
Period size: 17 Copynumber: 7.2 Consensus size: 17
233848 TGTTAGTAAG
* *
233858 CATTGTCATCACATTCC
1 CATTGTCATTACATTTC
* * *
233875 CACTGTCACTACATTTT
1 CATTGTCATTACATTTC
* * * * *
233892 AACTATCATCACATTCC
1 CATTGTCATTACATTTC
* * *
233909 CATTTTCACTACATTTT
1 CATTGTCATTACATTTC
* *
233926 AACTGTCATTACATTTC
1 CATTGTCATTACATTTC
* * * *
233943 CATTGTCAGTGCAATTG
1 CATTGTCATTACATTTC
*
233960 CATTGTCATTGCATTTC
1 CATTGTCATTACATTTC
233977 CATT
1 CATT
233981 TGCCATTGTA
Statistics
Matches: 74, Mismatches: 32, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
17 74 1.00
ACGTcount: A:0.25, C:0.27, G:0.07, T:0.41
Consensus pattern (17 bp):
CATTGTCATTACATTTC
Found at i:234550 original size:3 final size:3
Alignment explanation
Indices: 234542--234601 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
234532 TCCCTCAGTC
234542 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
234590 ATA ATA ATA ATA
1 ATA ATA ATA ATA
234602 TGTATTTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:235782 original size:3 final size:3
Alignment explanation
Indices: 235774--235817 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
235764 TCAATCACAT
235774 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
235818 GTATGTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:236387 original size:38 final size:38
Alignment explanation
Indices: 236345--236463 Score: 134
Period size: 38 Copynumber: 3.1 Consensus size: 38
236335 GTCTATTTAG
*
236345 AATTGCGCCTAGAATTTTCACTGCATGACGATGTCCAA
1 AATTGCGCCTAGAATTATCACTGCATGACGATGTCCAA
* * *
236383 AATTGCGCATAGAATTATCACAGCATGACGATGTCCAG
1 AATTGCGCCTAGAATTATCACTGCATGACGATGTCCAA
* * * *
236421 AATTGTGCCCA-AAGTTGTCACTGCATGA-GCATGCCCAA
1 AATTGCGCCTAGAA-TTATCACTGCATGACG-ATGTCCAA
236459 AATTG
1 AATTG
236464 TCGCTGTAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.04
38 65 0.96
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (38 bp):
AATTGCGCCTAGAATTATCACTGCATGACGATGTCCAA
Found at i:239103 original size:17 final size:17
Alignment explanation
Indices: 239083--239126 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
239073 AACATTTTAG
* *
239083 TTGTCTTTGCATTTGCA
1 TTGTCATTGCATTTCCA
239100 TTGTCATTGCATTTCCA
1 TTGTCATTGCATTTCCA
239117 TTTGTCATTG
1 -TTGTCATTG
239127 TAATGTAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.52
Consensus pattern (17 bp):
TTGTCATTGCATTTCCA
Found at i:240207 original size:38 final size:38
Alignment explanation
Indices: 240165--240263 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
240155 TGAGTCTATT
* * *
240165 CAGAATTGTGCCCAAAATTGTCACTGCATGAAGATGTC
1 CAGAATTGCGCCTAAAATTGTCACTACATGAAGATGTC
* * * *
240203 CAGAATTGCGCATAGAATTGTAACTACATGACGATGTC
1 CAGAATTGCGCCTAAAATTGTCACTACATGAAGATGTC
*
240241 TAGAATTGCGCCTAAAATTGTCA
1 CAGAATTGCGCCTAAAATTGTCA
240264 TTGTATGAGT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (38 bp):
CAGAATTGCGCCTAAAATTGTCACTACATGAAGATGTC
Found at i:242941 original size:17 final size:17
Alignment explanation
Indices: 242911--242959 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
242901 TCACATTCCC
* * *
242911 ATTGTCACTACATTTTA
1 ATTGTCATTGCATTTGA
*
242928 ATTGTCATTGCATTTGC
1 ATTGTCATTGCATTTGA
*
242945 ATCGTCATTGCATTT
1 ATTGTCATTGCATTT
242960 CCATTTGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTGTCATTGCATTTGA
Found at i:243893 original size:38 final size:38
Alignment explanation
Indices: 243851--243948 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 38
243841 TGAGTTTATT
*
243851 CAGAATTGCGCCCAGAATTGTCACTACATGACAATGTC
1 CAGAATTGCGCCCAAAATTGTCACTACATGACAATGTC
* * * * * *
243889 CAGAACTGTGCACAAAATTGTCATTGCATGACGATGTC
1 CAGAATTGCGCCCAAAATTGTCACTACATGACAATGTC
*
243927 TAGAATTGCGCCCAAAATTGTC
1 CAGAATTGCGCCCAAAATTGTC
243949 GTTGGATGAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
CAGAATTGCGCCCAAAATTGTCACTACATGACAATGTC
Found at i:245737 original size:2 final size:2
Alignment explanation
Indices: 245730--245754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
245720 AGAGAAAAAG
245730 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
245755 ACCTTTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:250711 original size:41 final size:41
Alignment explanation
Indices: 250654--250749 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
250644 GAATTTTATT
* * *
250654 TTAACTAGAATTCTAGTCAGCCAATTCTAACAATCTCTACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
250695 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
250736 TTAATAAGAATTCT
1 TTAACAAGAATTCT
250750 CTACGAACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:251971 original size:82 final size:82
Alignment explanation
Indices: 251834--251999 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
251824 AATGCGTAAA
*
251834 ACACATTGTTTTTCTGCTTCAGAAAGAATGTCCAAACTTTTCTGGAAAAATCATCAATAAGAGTT
1 ACACATTGCTTTTCTGCTTCAGAAAGAATGTCCAAACTTTTCTGGAAAAATCATCAATAAGAGTT
251899 AGCATATAATTAGCTCC
66 AGCATATAATTAGCTCC
251916 ACACATTGCTTTTCTGCTTCAGAAAGAATGTCCAAACTTTTCTGGAAAAATCATCAATAAGAGTT
1 ACACATTGCTTTTCTGCTTCAGAAAGAATGTCCAAACTTTTCTGGAAAAATCATCAATAAGAGTT
251981 AGCATATAATTAGCTCC
66 AGCATATAATTAGCTCC
251998 AC
1 AC
252000 CTCTCGAAGG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (82 bp):
ACACATTGCTTTTCTGCTTCAGAAAGAATGTCCAAACTTTTCTGGAAAAATCATCAATAAGAGTT
AGCATATAATTAGCTCC
Found at i:254367 original size:3 final size:3
Alignment explanation
Indices: 254359--254406 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
254349 AAATAATTTA
254359 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
254407 TTTAACAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:255326 original size:123 final size:122
Alignment explanation
Indices: 255175--255660 Score: 733
Period size: 123 Copynumber: 4.0 Consensus size: 122
255165 TTCTGTTATC
* * * *
255175 TTTCCTTTTATTTAATATATCATATTAAAACGAAAATATTCCTTTAGAGAAACATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAG-T
* * *
255240 TATTAAAAAATTATATCCTTTCTAAAAGGATTTTAACTTCCATGTTTTTAATATTCAA
65 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * * *
255298 TTTTCTTTAATTTAATATCTCATATTAAAATGAAAATATTCTTTTAGAGAAATATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAG-T
* *
255363 TGTTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
65 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * *
255421 TTTCCTTTTATTTAACATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATGAAAAGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
* *
255486 ATTAAAACATTATACCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCAA
66 ATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * *
255543 TTTCCTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTTGAGAAATATATAGAAAGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
*
255608 ATTAAAACATTATATCCTTTCCAAAAGGATATTAA-TATCAAT-TTTTTAATATT
66 ATTAAAACATTATATCCTTTCCAAAAGGATATTAACT-TCCATGTTTTTAATATT
255661 TAATGAAATA
Statistics
Matches: 333, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
121 12 0.04
122 153 0.46
123 168 0.50
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.43
Consensus pattern (122 bp):
TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
ATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
Found at i:255546 original size:21 final size:22
Alignment explanation
Indices: 255514--255560 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
255504 TTCCAAAAGG
255514 ATATTAACTTTCATGTT-TTTA
1 ATATTAACTTTCATGTTATTTA
* *
255535 ATATTCAA-TTTCCTTTTATTTA
1 ATATT-AACTTTCATGTTATTTA
255557 ATAT
1 ATAT
255561 CTCATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAACTTTCATGTTATTTA
Found at i:258729 original size:3 final size:3
Alignment explanation
Indices: 258721--258783 Score: 99
Period size: 3 Copynumber: 20.3 Consensus size: 3
258711 TTTTATTTAT
*
258721 ATA ATA ATA ATA ATA ATA ATAA ATA TTA TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA
258768 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
258784 ATATTATATT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
3 51 0.91
4 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:259498 original size:3 final size:3
Alignment explanation
Indices: 259490--259537 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
259480 AAATAATTTA
259490 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
259538 TTTAACAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:260457 original size:123 final size:122
Alignment explanation
Indices: 260306--260791 Score: 733
Period size: 123 Copynumber: 4.0 Consensus size: 122
260296 TTCTGTTATC
* * * *
260306 TTTCCTTTTATTTAATATATCATATTAAAACGAAAATATTCCTTTAGAGAAACATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAG-T
* * *
260371 TATTAAAAAATTATATCCTTTCTAAAAGGATTTTAACTTCCATGTTTTTAATATTCAA
65 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * * *
260429 TTTTCTTTAATTTAATATCTCATATTAAAATGAAAATATTCTTTTAGAGAAATATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAG-T
* *
260494 TGTTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
65 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * *
260552 TTTCCTTTTATTTAACATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATGAAAAGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
* *
260617 ATTAAAACATTATACCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCAA
66 ATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* * *
260674 TTTCCTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTTGAGAAATATATAGAAAGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
*
260739 ATTAAAACATTATATCCTTTCCAAAAGGATATTAA-TATCAAT-TTTTTAATATT
66 ATTAAAACATTATATCCTTTCCAAAAGGATATTAACT-TCCATGTTTTTAATATT
260792 TAATGAAATA
Statistics
Matches: 333, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
121 12 0.04
122 153 0.46
123 168 0.50
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.43
Consensus pattern (122 bp):
TTTCCTTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGAGAAATATATGGAAAGTT
ATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
Found at i:260677 original size:21 final size:22
Alignment explanation
Indices: 260645--260691 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
260635 TTCCAAAAGG
260645 ATATTAACTTTCATGTT-TTTA
1 ATATTAACTTTCATGTTATTTA
* *
260666 ATATTCAA-TTTCCTTTTATTTA
1 ATATT-AACTTTCATGTTATTTA
260688 ATAT
1 ATAT
260692 CTCATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAACTTTCATGTTATTTA
Done.