Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014106.1 Kokia drynarioides strain JFW-HI SEQ_129137, 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: 126817
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 101 characters in sequence are not A, C, G, or T
Found at i:3355 original size:52 final size:52
Alignment explanation
Indices: 3282--3526 Score: 355
Period size: 52 Copynumber: 4.7 Consensus size: 52
3272 CGTAAAGGAA
*
3282 ATTCATGTACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
* ** * *
3334 ATTCATTTACTCATAATGACACTTAGTCATCGGACCTCACAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
* * * *
3386 ATTCATATACTTACAATGACACTTAGTCATTGGACCTCATAATCTATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
* * **
3438 ATTCATATACTCACGATGACACTTAGTCATTGGACCTCGTAATCTGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
*
3490 ATTCATATACTCACGATGACACTTAGTCATCAGACCT
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCT
3527 TTTTCATTTA
Statistics
Matches: 175, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 175 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTCATAATCCATAAAGG
Found at i:4654 original size:21 final size:21
Alignment explanation
Indices: 4604--4655 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 21
4594 TAAACGGAAC
4604 TAACAGAAAGTACCAAAGTACT
1 TAACAG-AAGTACCAAAGTACT
4626 T-ACTAGAAGTACCAAAGTACT
1 TAAC-AGAAGTACCAAAGTACT
4647 TAACAGAAG
1 TAACAGAAG
4656 AACATAACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.19
Consensus pattern (21 bp):
TAACAGAAGTACCAAAGTACT
Found at i:4698 original size:26 final size:26
Alignment explanation
Indices: 4664--4745 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
4654 AGAACATAAC
*
4664 TGCTGGGGAAACAAAAGCACATACAG
1 TGCTGGGGAAACAAAAGCACACACAG
4690 TGCTGGGGAAACAAAAGCACACACAG
1 TGCTGGGGAAACAAAAGCACACACAG
* *
4716 TGTTGGGGAAACAGAAGCACACACAG
1 TGCTGGGGAAACAAAAGCACACACAG
4742 TGCT
1 TGCT
4746 AATCAGAGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (26 bp):
TGCTGGGGAAACAAAAGCACACACAG
Found at i:6238 original size:14 final size:13
Alignment explanation
Indices: 6214--6243 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6204 TCAAATTCTC
6214 TAAAAATCTCACT
1 TAAAAATCTCACT
6227 TAAAATATCTCACT
1 TAAAA-ATCTCACT
6241 TAA
1 TAA
6244 TAGAAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATCTCACT
Found at i:8350 original size:17 final size:18
Alignment explanation
Indices: 8320--8357 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8310 TACCAACTTA
8320 ATTAAAATAGTATAC-AT
1 ATTAAAATAGTATACAAT
8337 ATTACAAATA-TATACAAT
1 ATTA-AAATAGTATACAAT
8355 ATT
1 ATT
8358 TTATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (18 bp):
ATTAAAATAGTATACAAT
Found at i:9324 original size:16 final size:16
Alignment explanation
Indices: 9299--9336 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9289 ACGCTAGTAA
* *
9299 AAAAAATTTAAAAATT
1 AAAAATTTTAAAAAAT
9315 AAAAATTTTAAAAAAT
1 AAAAATTTTAAAAAAT
9331 AAAAAT
1 AAAAAT
9337 AAAATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTTTAAAAAAT
Found at i:9327 original size:23 final size:23
Alignment explanation
Indices: 9307--9350 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9297 AAAAAAAATT
9307 TAAAAATTAAAAATTT-TAAAAAA
1 TAAAAA-TAAAAATTTCTAAAAAA
*
9330 TAAAAATAAAATTTTCTAAAA
1 TAAAAATAAAAATTTCTAAAA
9351 GAGTAGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAATAAAAATTTCTAAAAAA
Found at i:12563 original size:30 final size:30
Alignment explanation
Indices: 12492--12602 Score: 125
Period size: 31 Copynumber: 3.6 Consensus size: 30
12482 CCTCCCAAAG
* *
12492 TTTTTAAAAATTTTAGTTATACCCTTAAAA
1 TTTTTAAAAATTTTAATTAAACCCTTAAAA
*
12522 TTTTCTAAAAATTTTAATTAAACCCCTAAAA
1 TTTT-TAAAAATTTTAATTAAACCCTTAAAA
* * *
12553 ATTTTAAAAATTATT-ATTAAACCTTTGAAAG
1 TTTTTAAAAATT-TTAATTAAACCCTT-AAAA
*
12584 TTTTTAAAAATTTCAATTA
1 TTTTTAAAAATTTTAATTA
12603 GACTCTTTAG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
30 22 0.32
31 46 0.68
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTTTAAAAATTTTAATTAAACCCTTAAAA
Found at i:12729 original size:22 final size:22
Alignment explanation
Indices: 12696--12739 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
12686 TATTCTCATT
12696 AAAATTTTCAAA-ATTTCAAAA
1 AAAATTTTCAAACATTTCAAAA
*
12717 AAAATTATTCAAACTTTTCAAAA
1 AAAATT-TTCAAACATTTCAAAA
12740 TTTAATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATTTTCAAACATTTCAAAA
Found at i:13771 original size:2 final size:2
Alignment explanation
Indices: 13766--13796 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13756 CACTCGTACA
*
13766 CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
13797 AATCCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
CT
Found at i:18609 original size:30 final size:29
Alignment explanation
Indices: 18573--18642 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
18563 AAAAATTGAT
* *
18573 AAAAAAAAAATTTTAAATCCTTAAAAACTA
1 AAAAAAAAAATTTGAAACCCTTAAAAA-TA
*
18603 AAAAAAAAAATTTGAACCCCTTAAAAATA
1 AAAAAAAAAATTTGAAACCCTTAAAAATA
18632 AAAAAATAAAA
1 AAAAAA-AAAA
18643 AAATTTAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 8 0.22
30 28 0.78
ACGTcount: A:0.67, C:0.10, G:0.01, T:0.21
Consensus pattern (29 bp):
AAAAAAAAAATTTGAAACCCTTAAAAATA
Found at i:23753 original size:2 final size:2
Alignment explanation
Indices: 23746--23775 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23736 GTTTTCTTTC
23746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23776 TGATGAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24904 original size:5 final size:5
Alignment explanation
Indices: 24894--24938 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
24884 GTCTTATTTA
* * *
24894 TGTGT TGTGT TGTGT TGTGT TGTGT TGCGT TGCGT TGCGT TGTGT
1 TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT TGTGT
24939 ATGCAGGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.00, C:0.07, G:0.40, T:0.53
Consensus pattern (5 bp):
TGTGT
Found at i:26073 original size:20 final size:20
Alignment explanation
Indices: 26039--26085 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26029 TATATAAATG
*
26039 TAAAGTATTTGTAAAAGTATA
1 TAAA-TATTTGTAAAAATATA
*
26060 TAAATATTTTTAAAAATATA
1 TAAATATTTGTAAAAATATA
26080 -AAATAT
1 TAAATAT
26086 ACATTGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (20 bp):
TAAATATTTGTAAAAATATA
Found at i:29127 original size:2 final size:2
Alignment explanation
Indices: 29120--29144 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29110 TTTTAACTTT
29120 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29145 TTAGAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33501 original size:96 final size:96
Alignment explanation
Indices: 33313--33504 Score: 242
Period size: 96 Copynumber: 2.0 Consensus size: 96
33303 ATTTTGGGAA
* ** *
33313 AAGGATGTTCGATTATCCCGATTTGACGAAAGGTTGCCCCTAGTAAGTTAAGACGCAAATTTTCA
1 AAGGATGTTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAATTTTCA
* * **
33378 GAATCGGAGATAAGGAAACATTACCTCGATT
66 AAATCGGAAATAAAAAAACATTACCTCGATT
* ** *
33409 AAGGGTGTTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCA
1 AAGGATGTTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAATTTTCA
* *
33474 AAACTC-GAAATAAAAAAATATTGCCTCGATT
66 AAA-TCGGAAATAAAAAAACATTACCTCGATT
33505 TTAAAGTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 79 0.98
97 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (96 bp):
AAGGATGTTCGATTATCCCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAATTTTCA
AAATCGGAAATAAAAAAACATTACCTCGATT
Found at i:33871 original size:29 final size:28
Alignment explanation
Indices: 33839--34115 Score: 221
Period size: 29 Copynumber: 9.4 Consensus size: 28
33829 AAAATAGAGG
* * *
33839 TTTTGGAGGTTCGGGGGTAAAAATAGAAA
1 TTTTGGAAGTTTGGGGGTAAAAAT-GAAT
* ** *
33868 TTTTGGAAATTTTAGGGTCGAAAATGACAT
1 TTTTGGAAGTTTGGGGGT-AAAAATGA-AT
* * *
33898 TTTTGGAAGTTCGAGGTTAAAAATGGAAT
1 TTTTGGAAGTTTGGGGGTAAAAAT-GAAT
* * *
33927 TTTTGGAAGTTTTGGGGTCAAAATGGGAT
1 TTTTGGAAGTTTGGGGGTAAAAAT-GAAT
* * * *
33956 TTTTGGAAGTTCGAGGATAAAATTGAAAT
1 TTTTGGAAGTTTGGGGGTAAAAATG-AAT
*
33985 TTTTGGAAGTTTTGGGGTTAAAAATGAGAT
1 TTTTGGAAG-TTTGGGGGTAAAAATGA-AT
*
34015 TTTTGGAAGTTTAGGGGTAAAAATAGAAT
1 TTTTGGAAGTTTGGGGGTAAAAAT-GAAT
* * * *
34044 TTTTAGAAGTTTTGAGGTTAAAAATGGGAT
1 TTTTGGAAG-TTTGGGGGTAAAAAT-GAAT
*
34074 TTTTGGAAGTTCGGGGGTAAAAATGAAAT
1 TTTTGGAAGTTTGGGGGTAAAAATG-AAT
34103 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
34116 AGGGACCTCC
Statistics
Matches: 195, Mismatches: 43, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.01
29 119 0.61
30 74 0.38
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (28 bp):
TTTTGGAAGTTTGGGGGTAAAAATGAAT
Found at i:33892 original size:59 final size:58
Alignment explanation
Indices: 33828--34119 Score: 247
Period size: 59 Copynumber: 5.0 Consensus size: 58
33818 TTTTGAGATA
* *
33828 AAAAATAGAGGTTTTGGAGGTTCGGGGGTAAAAATAGAAATTTTGGAAATTTTAGGGTC
1 AAAAAT-GAGGTTTTGGAAGTTCGGGGGTAAAAATAGAAATTTTGGAAGTTTTAGGGTC
* ** * * * * *
33887 GAAAATGACATTTTTGGAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGA-GGTTTTGGAAGTTCGGGGGTAAAAATAGAAATTTTGGAAGTTTTAGGGTC
* * * * *
33946 -AAAATG-GGATTTTTGGAAGTTCGAGGAT-AAAATTGAAATTTTTGGAAGTTTTGGGGTT
1 AAAAATGAGG--TTTTGGAAGTTCGGGGGTAAAAATAGAAA-TTTTGGAAGTTTTAGGGTC
* ** * * *
34004 AAAAATGAGATTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTAGAAGTTTT-GAGGTT
1 AAAAATGAG-GTTTTGGAAGTTCGGGGGTAAAAATAGAAATTTTGGAAGTTTTAG-GGTC
34063 AAAAATG-GGATTTTTGGAAGTTCGGGGGTAAAAAT-GAAATTTTTGGACAG-TTTAGGG
1 AAAAATGAGG--TTTTGGAAGTTCGGGGGTAAAAATAGAAA-TTTTGGA-AGTTTTAGGG
34120 ACCTCCAAGG
Statistics
Matches: 190, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
57 8 0.04
58 48 0.25
59 122 0.64
60 12 0.06
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.35
Consensus pattern (58 bp):
AAAAATGAGGTTTTGGAAGTTCGGGGGTAAAAATAGAAATTTTGGAAGTTTTAGGGTC
Found at i:33920 original size:88 final size:85
Alignment explanation
Indices: 33828--34119 Score: 278
Period size: 88 Copynumber: 3.3 Consensus size: 85
33818 TTTTGAGATA
* * ** * *
33828 AAAAATAGAGGTTTTGGAGGTTCGGGGGTAAAAATAGAAATTTTGGAAATTTTAGGGTCGAAAAT
1 AAAAAT-GAGTTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTGGAAGTTTTAGGGT--AAAAT
* *
33893 GACATTTTTGGAAGTTCGAGGTT
63 GAAATTTTTGGAAGTTCGGGGTT
* * * * * ** *
33916 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAATGGGATTTTTGGAAGTTCGAGGATAAAATTG
1 AAAAAT-GAGTTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTGGAAGTTTTAGGGTAAAA-TG
*
33981 AAATTTTTGGAAGTTTTGGGGTT
64 AAATTTTTGGAAG-TTCGGGGTT
* *
34004 AAAAATGAGATTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTAGAAGTTTTGAGGTTAAAAAT
1 AAAAATGAG-TTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTGGAAGTTTT-AGGGT-AAAAT
** *
34069 GGGATTTTTGGAAGTTCGGGGGT
63 GAAATTTTTGGAAGTTCGGGGTT
*
34092 AAAAATGAAATTTTTGGACAGTTTAGGG
1 AAAAATG-AGTTTTTGGA-AGTTTAGGG
34120 ACCTCCAAGG
Statistics
Matches: 166, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
86 4 0.02
87 16 0.10
88 115 0.69
89 27 0.16
90 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.35
Consensus pattern (85 bp):
AAAAATGAGTTTTTGGAAGTTTAGGGGTAAAAATAGAATTTTTGGAAGTTTTAGGGTAAAATGAA
ATTTTTGGAAGTTCGGGGTT
Found at i:35956 original size:6 final size:6
Alignment explanation
Indices: 35913--35995 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
35903 TTTTAGTTAA
* * * *
35913 TTAAATT TTAAAT TCAAA- TTAATT TTAAAC TT-AAT TTAAAT TTAAAC
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
35960 TTAAAA TAAAAGT TTAAACT TTAAA- CTAAAT TTAAA
1 TTAAAT TTAAA-T TTAAA-T TTAAAT TTAAAT TTAAA
35996 CCCAAAATGA
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
5 11 0.19
6 32 0.55
7 15 0.26
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:35969 original size:17 final size:17
Alignment explanation
Indices: 35914--36019 Score: 70
Period size: 17 Copynumber: 6.0 Consensus size: 17
35904 TTTAGTTAAT
*
35914 TAAATTTTAAA-TTCAAAT
1 TAAA-TTTAAACTT-AAAA
* **
35932 TAATTTTAAACTTAATT
1 TAAATTTAAACTTAAAA
35949 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
*
35966 TAAAAGTTTAAACTTTAAAC
1 T-AAA-TTTAAAC-TTAAAA
**
35986 TAAATTTAAACCCAAAA
1 TAAATTTAAACTTAAAA
* * *
36003 TGAATTAAAATTTAAAA
1 TAAATTTAAACTTAAAA
36020 ACTTAAAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
17 39 0.56
18 15 0.21
19 10 0.14
20 6 0.09
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:39850 original size:24 final size:24
Alignment explanation
Indices: 39823--40118 Score: 252
Period size: 24 Copynumber: 11.9 Consensus size: 24
39813 GTTCAATACA
* * *
39823 TTTATGCTCGTCAGCTAAGATACG
1 TTTACGCTCGTCAGCTAATATGCG
* *
39847 TTTACGCTCGCCGGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
* **
39871 TTTATGCTCGTCAGCTAATATATG
1 TTTACGCTCGTCAGCTAATATGCG
*
39895 TTTACGCTCGTCAACTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
39919 TTTACGCTCGTCAGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
* *
39943 TTTACGCTCGCCAACTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCG
* * *
39967 TTTACGCTTGCCAGCTAATACGCG
1 TTTACGCTCGTCAGCTAATATGCG
* * *
39991 TTTACGCTCGCCAG-TAATGACGAG
1 TTTACGCTCGTCAGCTAAT-ATGCG
*
40015 CTAATATACGTTTACGCTCATCAGCTAATATGCG
1 -T--T-T------ACGCTCGTCAGCTAATATGCG
* * *
40049 TTTATGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCG
* * *
40073 TTTATGCTCGTCAGCTAATTTGCA
1 TTTACGCTCGTCAGCTAATATGCG
* *
40097 TTTACGCTCGCCAGTTAATATG
1 TTTACGCTCGTCAGCTAATATG
40119 AGAAACATTG
Statistics
Matches: 222, Mismatches: 38, Indels: 24
0.78 0.13 0.08
Matches are distributed among these distances:
23 4 0.02
24 196 0.88
25 1 0.00
27 1 0.00
28 1 0.00
30 1 0.00
31 1 0.00
33 1 0.00
34 12 0.05
35 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTAATATGCG
Found at i:39879 original size:48 final size:48
Alignment explanation
Indices: 39823--40118 Score: 313
Period size: 48 Copynumber: 6.0 Consensus size: 48
39813 GTTCAATACA
* * * *
39823 TTTATGCTCGTCAGCTAAGATACGTTTACGCTCGCCGGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
* ** * *
39871 TTTATGCTCGTCAGCTAATATATGTTTACGCTCGTCAACTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
*
39919 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAACTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
* * * *
39967 TTTACGCTTGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACGAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCG-C--------C-AGCTAATATGCG
* * *
40025 TTTACGCTCATCAGCTAATATGCGTTTATGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
* * * *
40073 TTTATGCTCGTCAGCTAATTTGCATTTACGCTCGCCAGTTAATATG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATG
40119 AGAAACATTG
Statistics
Matches: 212, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
48 169 0.80
49 2 0.01
57 2 0.01
58 39 0.18
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (48 bp):
TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
Found at i:39945 original size:72 final size:72
Alignment explanation
Indices: 39823--40118 Score: 286
Period size: 72 Copynumber: 4.0 Consensus size: 72
39813 GTTCAATACA
* * * * * * *
39823 TTTATGCTCGTCAGCTAAGATACGTTTACGCTCGCCGGCTAATATGCGTTTATGCTCGTCAGCTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTA
**
39888 ATATATG
66 ATATGCG
* * * *
39895 TTTACGCTCGTCAACTAATATGCGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAACTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTA
39960 ATATGCG
66 ATATGCG
* ** *
39967 TTTACGCTTGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACGAGCTAATATACGTTTACGC
1 TTTACGCTCGCCAGCTAATATACGTTTACGCT---C-G---T--C-AGCTAATATGCGTTTACGC
**
40032 TCATCAGCTAATATGCG
56 TCGCCAGCTAATATGCG
* * * * *
40049 TTTATGCTCGCCAGCTAATATACGTTTATGCTCGTCAGCTAATTTGCATTTACGCTCGCCAGTTA
1 TTTACGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTA
40114 ATATG
66 ATATG
40119 AGAAACATTG
Statistics
Matches: 184, Mismatches: 30, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
72 117 0.64
73 1 0.01
75 2 0.01
76 1 0.01
78 1 0.01
79 2 0.01
81 1 0.01
82 59 0.32
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTACGCTCGCCAGCTAATATACGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTA
ATATGCG
Found at i:40033 original size:82 final size:83
Alignment explanation
Indices: 39931--40091 Score: 225
Period size: 82 Copynumber: 2.0 Consensus size: 83
39921 TACGCTCGTC
* * * *
39931 AGCTAATATGCGTTTACGCTCGCCAACTAATATGCGTTTACGCTTGCCAGCTAATACGCGTTTAC
1 AGCTAATATACGTTTACGCTCACCAACTAATATGCGTTTACGCTCGCCAGCTAATACACGTTTAC
39996 GCTCGCCAG-TAATGACG
66 GCTCGCCAGCTAATGACG
* * * * *
40013 AGCTAATATACGTTTACGCTCATCAGCTAATATGCGTTTATGCTCGCCAGCTAATATACGTTTAT
1 AGCTAATATACGTTTACGCTCACCAACTAATATGCGTTTACGCTCGCCAGCTAATACACGTTTAC
*
40078 GCTCGTCAGCTAAT
66 GCTCGCCAGCTAAT
40092 TTGCATTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
82 64 0.94
83 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (83 bp):
AGCTAATATACGTTTACGCTCACCAACTAATATGCGTTTACGCTCGCCAGCTAATACACGTTTAC
GCTCGCCAGCTAATGACG
Found at i:40050 original size:58 final size:59
Alignment explanation
Indices: 39957--40067 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 59
39947 CGCTCGCCAA
* **
39957 CTAATATGCGTTTACGCTTGCCAGCTAATACGCGTTTACGCTCGCCAG-TAATGACGAG
1 CTAATATACGTTTACGCTCACCAGCTAATACGCGTTTACGCTCGCCAGCTAATGACGAG
* * *
40015 CTAATATACGTTTACGCTCATCAGCTAATATGCGTTTATGCTCGCCAGCTAAT
1 CTAATATACGTTTACGCTCACCAGCTAATACGCGTTTACGCTCGCCAGCTAAT
40068 ATACGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 42 0.91
59 4 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (59 bp):
CTAATATACGTTTACGCTCACCAGCTAATACGCGTTTACGCTCGCCAGCTAATGACGAG
Found at i:40101 original size:106 final size:106
Alignment explanation
Indices: 39909--40111 Score: 307
Period size: 106 Copynumber: 1.9 Consensus size: 106
39899 CGCTCGTCAA
* * *
39909 CTAATATGCGTTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAACTAATATGCGTTTACGC
1 CTAATATACGTTTACGCTCATCAGCTAATATGCGTTTACGCTCGCCAACTAATATACGTTTACGC
* *
39974 TTGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACGAG
66 TCGCCAGCTAATACGCATTTACGCTCGCCAGTAATGACGAG
* * *
40015 CTAATATACGTTTACGCTCATCAGCTAATATGCGTTTATGCTCGCCAGCTAATATACGTTTATGC
1 CTAATATACGTTTACGCTCATCAGCTAATATGCGTTTACGCTCGCCAACTAATATACGTTTACGC
* **
40080 TCGTCAGCTAATTTGCATTTACGCTCGCCAGT
66 TCGCCAGCTAATACGCATTTACGCTCGCCAGT
40112 TAATATGAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 86 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (106 bp):
CTAATATACGTTTACGCTCATCAGCTAATATGCGTTTACGCTCGCCAACTAATATACGTTTACGC
TCGCCAGCTAATACGCATTTACGCTCGCCAGTAATGACGAG
Found at i:40116 original size:130 final size:130
Alignment explanation
Indices: 39883--40116 Score: 351
Period size: 130 Copynumber: 1.8 Consensus size: 130
39873 TATGCTCGTC
* * * *
39883 AGCTAATATATGTTTACGCTCGTCAACTAATATGCGTTTACGCTCGTCAGCTAATATGCGTTTAC
1 AGCTAATATACGTTTACGCTCATCAACTAATATGCGTTTACGCTCGCCAGCTAATATACGTTTAC
* *
39948 GCTCGCCAACTAATATGCGTTTACGCTTGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACG
66 GCTCGCCAACTAATATGCATTTACGCTCGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACG
* * *
40013 AGCTAATATACGTTTACGCTCATCAGCTAATATGCGTTTATGCTCGCCAGCTAATATACGTTTAT
1 AGCTAATATACGTTTACGCTCATCAACTAATATGCGTTTACGCTCGCCAGCTAATATACGTTTAC
* * * *
40078 GCTCGTCAGCTAATTTGCATTTACGCTCGCCAGTTAATA
66 GCTCGCCAACTAATATGCATTTACGCTCGCCAGCTAATA
40117 TGAGAAACAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (130 bp):
AGCTAATATACGTTTACGCTCATCAACTAATATGCGTTTACGCTCGCCAGCTAATATACGTTTAC
GCTCGCCAACTAATATGCATTTACGCTCGCCAGCTAATACGCGTTTACGCTCGCCAGTAATGACG
Found at i:41148 original size:15 final size:16
Alignment explanation
Indices: 41128--41160 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41118 ATTTCATAGT
*
41128 TTCAAAA-TCTAACAA
1 TTCAAAACTCAAACAA
41143 TTCAAAACTCAAACAA
1 TTCAAAACTCAAACAA
41159 TT
1 TT
41161 TCACTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (16 bp):
TTCAAAACTCAAACAA
Found at i:43126 original size:2 final size:2
Alignment explanation
Indices: 43119--43144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43109 ATTTTATTTG
43119 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
43145 GACAGATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44174 original size:69 final size:70
Alignment explanation
Indices: 44074--44210 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 70
44064 TAATTTATAT
* *
44074 AAAAAATACTGAGGGTCTATGGGCATGAAAGTTTATATAAATATACAATATCTAGAACTTTA-TA
1 AAAAAATACTAAGGGCCTATGGGCATGAAAGTTTATATAAATATACAATATCTAGAACTTTATTA
44138 TAAAA
66 TAAAA
44143 AAAAAATACTAAGGGCCTATGGGCATGAAAGTTTATATAAATATACAATATCTAGAACTTTATTA
1 AAAAAATACTAAGGGCCTATGGGCATGAAAGTTTATATAAATATACAATATCTAGAACTTTATTA
44208 TAA
66 TAA
44211 GCCAACTAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 60 0.92
70 5 0.08
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (70 bp):
AAAAAATACTAAGGGCCTATGGGCATGAAAGTTTATATAAATATACAATATCTAGAACTTTATTA
TAAAA
Found at i:50042 original size:45 final size:45
Alignment explanation
Indices: 49992--50120 Score: 242
Period size: 45 Copynumber: 2.9 Consensus size: 45
49982 CCGGGACATG
49992 ATGAGAAGCGGAACCCAACACACACAACTCTTTTAGATTTTATAC
1 ATGAGAAGCGGAACCCAACACACACAACTCTTTTAGATTTTATAC
50037 ATGAGAAGCGGAACCCAACACACACAACTCTTTTAGATTTTATAC
1 ATGAGAAGCGGAACCCAACACACACAACTCTTTTAGATTTTATAC
50082 ATGAGAAGCGGAACCCAACACACACAACTCATTTT-GATT
1 ATGAGAAGCGGAACCCAACACACACAACTC-TTTTAGATT
50121 GTAATATATT
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 79 0.95
46 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (45 bp):
ATGAGAAGCGGAACCCAACACACACAACTCTTTTAGATTTTATAC
Found at i:54761 original size:23 final size:22
Alignment explanation
Indices: 54729--54808 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 22
54719 GCTAGGGAAA
*
54729 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
54751 CTAGTAGGCACACACACTGCAAT
1 C-AGTAGGCACACACAGTGCAAT
* * *
54774 CAGTAGGCGCACATAGCGCAAGT
1 CAGTAGGCACACACAGTGCAA-T
54797 CAGTAGGCACAC
1 CAGTAGGCACAC
54809 GAAGTGCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 17 0.35
23 32 0.65
ACGTcount: A:0.35, C:0.29, G:0.23, T:0.14
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:54823 original size:23 final size:23
Alignment explanation
Indices: 54797--54872 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
54787 TAGCGCAAGT
*
54797 CAGTAGGCACACGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
**
54820 CAGTAAGCATGCGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
54843 CAGTAAGCACACAAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
54866 CAGTAAG
1 CAGTAAG
54873 TGCGCTAGCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.11
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:61238 original size:31 final size:31
Alignment explanation
Indices: 61180--61244 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
61170 CCGTTGTGTT
* * **
61180 ATTCATCTTTTTCATTAAACCCGAACTTCTA
1 ATTCATATTTTTCAATAAACAAGAACTTCTA
* *
61211 ATTCATATTTTTCAATAAACAATAACTTTTA
1 ATTCATATTTTTCAATAAACAAGAACTTCTA
61242 ATT
1 ATT
61245 TATTTCATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (31 bp):
ATTCATATTTTTCAATAAACAAGAACTTCTA
Found at i:66139 original size:96 final size:96
Alignment explanation
Indices: 65972--66150 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
65962 AACAACTTCA
* * *
65972 GCTTCAGAGACAGCAGCCTCAGCAGAATCATTAGCTAAACCATCTCCACTGCAATCACCATTAAC
1 GCTTCAGAGACAGCAGCCTCAGCACAATCATTAGCTAAACCATCTCCACTGAAATCACCATCAAC
66037 AACTACAGCCACTTCAGATTCCTCAACATTG
66 AACTACAGCCACTTCAGATTCCTCAACATTG
** * * * ** *
66068 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTTGAAATCACCATCAGC
1 GCTTCAGAGACAGCAGCCTCAGCACAATCATTAGCTAAACCATCTCCACTGAAATCACCATCAAC
* * *
66133 AGCTACAGTCATTTCAGA
66 AACTACAGCCACTTCAGA
66151 GCCCTCTTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (96 bp):
GCTTCAGAGACAGCAGCCTCAGCACAATCATTAGCTAAACCATCTCCACTGAAATCACCATCAAC
AACTACAGCCACTTCAGATTCCTCAACATTG
Found at i:66283 original size:120 final size:120
Alignment explanation
Indices: 66061--67011 Score: 1021
Period size: 120 Copynumber: 7.9 Consensus size: 120
66051 CAGATTCCTC
* * * *
66061 AACATTGGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTTGAAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * *
66126 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTCTGACCTGGAGTCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * *
66181 AAAATTAGTTTCAGAGACAGTGGCGTTTGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* ** * * * * *
66246 CATCAGCAGCTACAGAAACTCCAGAGCCCTCTTTCTCTTCTGAACTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* ** * * * *
66301 AACATTGGCTTCAGAGACAGTGGCCACAGCACTATCATTAGATAAACCATTTGCATTGCAATCGC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* *
66366 CATCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCTGGAACCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * **
66421 AACGCTGGCTTCAGAGACTGTGGCCTTAGCACTATCATTAGCTAAACTGTCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * **
66486 CATCATCAGCTACAACTAATTCAGAGCGCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
*** * * ** *
66541 AATGCTGGCTTCAGAGACAGTGGCCTCATTATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * ** *
66606 CATCATCGGTTACAGCCATTTCAGAGCCCTCATTATCTTTTGACTTAAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * *
66661 AACATTAGCTTCAGA-ATCAGTAGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATC
1 AACATTAGCTTCAGAGA-CAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCATTGCAATC
* * * *
66724 TCCATCACCAGCTACAGCCATTTCAGAGCCC-CGATTCTCTTTTGACCTGAAATCGAGT
64 ACCATCATCAGCTACAGCCATTTCAGAGCCCTC-ATTCTCTTTTGACCTGGAATC-AAT
* * * * * * *
66782 -TCATTAGCTTCAGAAACAGGGGCCTCAACACTATCATTAACTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* ** * * * *
66846 CATCATCAGCTACTGTTATTTCGGAGCCCTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * *
66901 AACATCAGCTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCATTGCAATCA
* *
66965 CCATCATCAGCTACAGCTATTTCAGAGCCCTCATTCTCTTCTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCT
67012 AAAATCAAGA
Statistics
Matches: 701, Mismatches: 121, Indels: 18
0.83 0.14 0.02
Matches are distributed among these distances:
119 8 0.01
120 690 0.98
121 3 0.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:68355 original size:18 final size:18
Alignment explanation
Indices: 68332--68366 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68322 ATTCACATAT
68332 AATAAAATTTAAATTAAG
1 AATAAAATTTAAATTAAG
* *
68350 AATAAAGTTTAATTTAA
1 AATAAAATTTAAATTAA
68367 ATCCGTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATAAAATTTAAATTAAG
Found at i:70896 original size:36 final size:37
Alignment explanation
Indices: 70833--70905 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
70823 AATAATTGAT
* *
70833 TTTTCAAATATTTGAAATTTAGTATTTTTAT-TTTTA
1 TTTTCAAACATTTGAAATTTAGTATTTTCATATTTTA
70869 TTTTCAAACATTT-AAATTTCA-TAATTTTCATATTTTA
1 TTTTCAAACATTTGAAATTT-AGT-ATTTTCATATTTTA
70906 AAATCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 7 0.22
36 20 0.62
37 5 0.16
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.58
Consensus pattern (37 bp):
TTTTCAAACATTTGAAATTTAGTATTTTCATATTTTA
Found at i:74084 original size:25 final size:25
Alignment explanation
Indices: 74028--74080 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
74018 TATTTTATTG
*
74028 TTAAGTATTTATTTGTTAATAATATA
1 TTAA-TATTTATTGGTTAATAATATA
74054 TTAATATTTATTGGTTAA-AAT-TA
1 TTAATATTTATTGGTTAATAATATA
74077 TTAA
1 TTAA
74081 AATAAAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.23
24 3 0.12
25 13 0.50
26 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
TTAATATTTATTGGTTAATAATATA
Found at i:75512 original size:27 final size:29
Alignment explanation
Indices: 75477--75547 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
75467 AAATTTTAAA
* * *
75477 TTAATAATGATAAAATTGTACTTT-A-GT
1 TTAAAAATGATAAAATTGTAATTTAATCT
*
75504 TTAAAAATGATAAAATTTTAATTTAATTCT
1 TTAAAAATGATAAAATTGTAATTTAA-TCT
75534 TTAAAAATGATAAA
1 TTAAAAATGATAAA
75548 TATATAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 21 0.57
28 1 0.03
30 15 0.41
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (29 bp):
TTAAAAATGATAAAATTGTAATTTAATCT
Found at i:75528 original size:22 final size:22
Alignment explanation
Indices: 75464--75529 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 22
75454 TTTATAGTTT
* *
75464 ATAAAATTTTAAATTAATAATG
1 ATAAAATTTTAATTTAAAAATG
*
75486 ATAAAATTGTACTTTAGTTTAAAAATG
1 ATAAAA---T--TTTAATTTAAAAATG
75513 ATAAAATTTTAATTTAA
1 ATAAAATTTTAATTTAA
75530 TTCTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
22 15 0.43
24 1 0.03
25 1 0.03
27 18 0.51
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (22 bp):
ATAAAATTTTAATTTAAAAATG
Found at i:76120 original size:38 final size:40
Alignment explanation
Indices: 76053--76140 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 40
76043 AAAAAGCATC
*
76053 TATATTTAAAAACACTAACATAAAAATAATAAATGTTTTAT
1 TATA-TTAAAAACACTAACATAAAAATAATAAATATTTTAT
* *
76094 TATATTAAAAATAC-AA-ATAAATATAATAAATATTTTAT
1 TATATTAAAAACACTAACATAAAAATAATAAATATTTTAT
*
76132 TGTATTAAA
1 TATATTAAA
76141 TATAAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.65
39 2 0.05
40 9 0.21
41 4 0.09
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (40 bp):
TATATTAAAAACACTAACATAAAAATAATAAATATTTTAT
Found at i:76281 original size:167 final size:170
Alignment explanation
Indices: 76094--76428 Score: 489
Period size: 167 Copynumber: 2.0 Consensus size: 170
76084 AATGTTTTAT
76094 TATATTAAAAATACAAATAAATATAATAAATATTTTATTGTATTAAATATAAATTTTAAAATTTT
1 TATATTAAAAATACAAATAAATATAATAAATATTTTATTGTATTAAATATAAATTTTAAAATTTT
* ** * * * *
76159 ATATTTTGGGTTGGGTTA-TTAGTTGGGTAAG-TT-TTTTGAGTCTTGAGGAAT-GAGTTTAATT
66 ATATTTTGGATTAAGTTATTTAGTTAGGTAAGTTTATTTTAAGTCTTCAGCAATGGA-TTTAATT
* **
76220 GTTATTGGTTTAACGATGTAATATAAATATAAATATATAAC
130 ATTATTGAATTAACGATGTAATATAAATATAAATATATAAC
*
76261 TATATTAAAAATATAAATAAATATAATAAATATTTTATTGTATTAAATATAAATTTTAAAATTTT
1 TATATTAAAAATACAAATAAATATAATAAATATTTTATTGTATTAAATATAAATTTTAAAATTTT
76326 ATATTTTGGATTAAGTTATTTAGTTAGGTAAGTTTATTTTAAGTCTTCAGCAATGGATTTAATTA
66 ATATTTTGGATTAAGTTATTTAGTTAGGTAAGTTTATTTTAAGTCTTCAGCAATGGATTTAATTA
* * * * *
76391 TTATTGAATTAATGATTTTATATATATATATATATATA
131 TTATTGAATTAACGATGTAATATAAATATAAATATATA
76429 TATATATATA
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
167 79 0.53
168 12 0.08
169 2 0.01
170 53 0.36
171 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.46
Consensus pattern (170 bp):
TATATTAAAAATACAAATAAATATAATAAATATTTTATTGTATTAAATATAAATTTTAAAATTTT
ATATTTTGGATTAAGTTATTTAGTTAGGTAAGTTTATTTTAAGTCTTCAGCAATGGATTTAATTA
TTATTGAATTAACGATGTAATATAAATATAAATATATAAC
Found at i:76284 original size:19 final size:18
Alignment explanation
Indices: 76242--76293 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
76232 ACGATGTAAT
*
76242 ATAAATATAAATATATAA
1 ATAAATATAAAAATATAA
* *
76260 CTATAT-TAAAAATATAA
1 ATAAATATAAAAATATAA
76277 ATAAATATAATAAATAT
1 ATAAATATAA-AAATAT
76294 TTTATTGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 14 0.52
18 7 0.26
19 6 0.22
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATATAAAAATATAA
Found at i:76461 original size:14 final size:15
Alignment explanation
Indices: 76446--76495 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 15
76436 ATATATATAT
76446 ATATTATTTAACAT-
1 ATATTATTTAACATA
* *
76460 ATA-TAATTAATATA
1 ATATTATTTAACATA
76474 ATATTGATTTATACATA
1 ATATT-ATTTA-ACATA
76491 ATATT
1 ATATT
76496 CGAGCCGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 8 0.29
14 6 0.21
15 1 0.04
16 4 0.14
17 9 0.32
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTATTTAACATA
Found at i:76464 original size:2 final size:2
Alignment explanation
Indices: 76409--76449 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
76399 TTAATGATTT
76409 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76450 TATTTAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89974 original size:21 final size:20
Alignment explanation
Indices: 89931--89979 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
89921 ATTAAAAATA
* *
89931 TTTATTTATTTGTTTTAGGG
1 TTTATTTATTTATTTTAGAG
89951 TTTTATTTATTTATTTATA-AG
1 -TTTATTTATTTATTT-TAGAG
89972 TTTATTTA
1 TTTATTTA
89980 GGTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTATTTTAGAG
Found at i:93726 original size:2 final size:2
Alignment explanation
Indices: 93721--93751 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93711 TAACAGTTTT
93721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93752 CTCAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94220 original size:23 final size:23
Alignment explanation
Indices: 94193--94263 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
94183 ATTTAATTAA
94193 AATAATATACAAATTGATCCTGT
1 AATAATATACAAATTGATCCTGT
* **
94216 AATAA-A-A-AATATTTAAT--TAA
1 AATAATATACAA-A-TTGATCCTGT
94236 AATAATATACAAATTGATCCTGT
1 AATAATATACAAATTGATCCTGT
94259 AATAA
1 AATAA
94264 GACAACCCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 8 0.23
21 7 0.20
22 7 0.20
23 13 0.37
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (23 bp):
AATAATATACAAATTGATCCTGT
Found at i:94223 original size:43 final size:43
Alignment explanation
Indices: 94176--94263 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
94166 AAAGAAAAAG
94176 AAAAAATATTTAATTAAAATAATATACAAATTGATCCTGTAAT
1 AAAAAATATTTAATTAAAATAATATACAAATTGATCCTGTAAT
94219 AAAAAATATTTAATTAAAATAATATACAAATTGATCCTGTAAT
1 AAAAAATATTTAATTAAAATAATATACAAATTGATCCTGTAAT
94262 AA
1 AA
94264 GACAACCCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (43 bp):
AAAAAATATTTAATTAAAATAATATACAAATTGATCCTGTAAT
Found at i:95605 original size:3 final size:3
Alignment explanation
Indices: 95597--95626 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
95587 TTGCAGACAG
95597 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
95627 GTACAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:99255 original size:18 final size:18
Alignment explanation
Indices: 99232--99268 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
99222 TTTGTGATCA
99232 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
99250 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
99268 A
1 A
99269 TATGAGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:100440 original size:29 final size:29
Alignment explanation
Indices: 100398--100468 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
100388 ATCAGAGTTG
* *
100398 AAAATGAGACTTTTTAGATACCCGAGGGC
1 AAAATGATAATTTTTAGATACCCGAGGGC
* * * *
100427 AAAATGATAA-TTTTGGATTCTCGGGGGC
1 AAAATGATAATTTTTAGATACCCGAGGGC
*
100455 AAAATGGTAATTTT
1 AAAATGATAATTTT
100469 GGAAAAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAATGATAATTTTTAGATACCCGAGGGC
Found at i:100607 original size:59 final size:58
Alignment explanation
Indices: 100509--100706 Score: 168
Period size: 59 Copynumber: 3.3 Consensus size: 58
100499 AGATATCTGA
* ** * *
100509 GGGTAAAACGATAATTTTTAGAAAAAATCGAGAT-AAAAATGGAATTTTTGGGCA-TTCAG
1 GGGTAAAATG-TAATTTTT-GAAAATTTCGAGGTCAAAAATGGAATTTTT-GGAAGTTCAG
* * * ** * * *
100568 GGGTAAAATGGTAATTTTTTAGAGTTTCGAGGTGGAAAATAGAGTTTTTGGAAGTTTAG
1 GGGTAAAAT-GTAATTTTTGAAAATTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCAG
* *
100627 GGGTAAAATGTAATTTTTGAAAATTTTGAGGTCAAAAATGGAATTTTTTGGAAGTT-TG
1 GGGTAAAATGTAATTTTTGAAAATTTCGAGGTCAAAAATGGAA-TTTTTGGAAGTTCAG
100685 GAGGTAAAAAATGTAATTTTTG
1 G-GGT--AAAATGTAATTTTTG
100707 GGAAGTTTAG
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
58 39 0.35
59 56 0.50
60 1 0.01
61 15 0.14
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
GGGTAAAATGTAATTTTTGAAAATTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCAG
Found at i:100689 original size:31 final size:30
Alignment explanation
Indices: 100542--100714 Score: 110
Period size: 31 Copynumber: 5.8 Consensus size: 30
100532 AAAATCGAGA
* * *
100542 TAAAAATGGAATTTTTGGGCA-TTCAGG-GG
1 TAAAAATGGAATTTTTTGGAAGTT-TGGAGG
* *
100571 T-AAAATGGTAATTTTTTAG-AGTTTCGAGG
1 TAAAAATGG-AATTTTTTGGAAGTTTGGAGG
* * *
100600 TGGAAAATAG-AGTTTTTGGAAGTTTAGG-GG
1 T-AAAAATGGAATTTTTTGGAAGTTT-GGAGG
* * * *
100630 T-AAAATGTAA-TTTTTGAAAATTTTGAGG
1 TAAAAATGGAATTTTTTGGAAGTTTGGAGG
100658 TCAAAAATGGAATTTTTTGGAAGTTTGGAGG
1 T-AAAAATGGAATTTTTTGGAAGTTTGGAGG
* *
100689 TAAAAAATGTAATTTTTGGGAAGTTT
1 T-AAAAATGGAATTTTTTGGAAGTTT
100715 AGGGACCTTC
Statistics
Matches: 112, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 28 0.25
29 22 0.20
30 16 0.14
31 45 0.40
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.38
Consensus pattern (30 bp):
TAAAAATGGAATTTTTTGGAAGTTTGGAGG
Found at i:100707 original size:30 final size:29
Alignment explanation
Indices: 100612--100714 Score: 111
Period size: 31 Copynumber: 3.4 Consensus size: 29
100602 GAAAATAGAG
100612 TTTTTGGAAGTTTAGG-GGT-AAAATGTAA
1 TTTTTGGAAGTTT-GGAGGTAAAAATGTAA
* * * *
100640 TTTTTGAAAATTTTGAGGTCAAAAATGGAA
1 TTTTTGGAAGTTTGGAGGT-AAAAATGTAA
100670 TTTTTTGGAAGTTTGGAGGTAAAAAATGTAA
1 -TTTTTGGAAGTTTGGAGGT-AAAAATGTAA
100701 TTTTTGGGAAGTTT
1 TTTTT-GGAAGTTT
100715 AGGGACCTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.02
28 14 0.23
30 13 0.21
31 33 0.54
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (29 bp):
TTTTTGGAAGTTTGGAGGTAAAAATGTAA
Found at i:102452 original size:20 final size:20
Alignment explanation
Indices: 102415--102462 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
102405 TGTAAACATT
102415 TTGGAC-TTTGATTTTGTAA
1 TTGGACATTTGATTTTGTAA
*
102434 TTGGACATTT-ATGTTTGTAT
1 TTGGACATTTGAT-TTTGTAA
*
102454 TTGGGCATT
1 TTGGACATT
102463 AATTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.19, C:0.06, G:0.23, T:0.52
Consensus pattern (20 bp):
TTGGACATTTGATTTTGTAA
Found at i:102498 original size:17 final size:16
Alignment explanation
Indices: 102463--102521 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
102453 TTTGGGCATT
*
102463 AATTTAAATT-AAGTA
1 AATTTAAATTAAAATA
102478 AATTTAAACTTAAAATA
1 AATTTAAA-TTAAAATA
*
102495 AATTTAATTTTAAAATA
1 AATTTAA-ATTAAAATA
102512 AATTTAAATT
1 AATTTAAATT
102522 CTGTTGGGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 8 0.21
16 4 0.11
17 26 0.68
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AATTTAAATTAAAATA
Found at i:104059 original size:21 final size:22
Alignment explanation
Indices: 104033--104168 Score: 116
Period size: 23 Copynumber: 6.0 Consensus size: 22
104023 CGGAAAAAAT
*
104033 AGAGAGTAC-CAAAGTACTAAC
1 AGAGAGTACACAAAGTGCTAAC
*
104054 AGAGAG--CACGTAAGTGCTGGGCAAC
1 AGAGAGTACAC-AAAGTGCT----AAC
104079 AGAGAGTACACAAAGTGCTAAAC
1 AGAGAGTACACAAAGTGCT-AAC
* *
104102 AGAAAGTACACAAAGTACTAATC
1 AGAGAGTACACAAAGTGCTAA-C
*
104125 AGAGAGCACACAAAGTGCTAATC
1 AGAGAGTACACAAAGTGCTAA-C
* *
104148 AGAGAGCACACACAGTGCTAA
1 AGAGAGTACACAAAGTGCTAA
104169 TAACAGAGAA
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 12 0.12
22 2 0.02
23 61 0.64
25 9 0.09
26 7 0.07
27 3 0.03
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (22 bp):
AGAGAGTACACAAAGTGCTAAC
Found at i:104128 original size:46 final size:46
Alignment explanation
Indices: 104078--104202 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
104068 TGCTGGGCAA
* *
104078 CAGAGAGTACACAAAGTGCTAAACAGAAAGTACACAAAGTACTAAT
1 CAGAGAGAACACAAAGTGCTAAACAGAAAGCACACAAAGTACTAAT
* * * * *
104124 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
1 CAGAGAGAACACAAAGTGCTAAACAGAAAGCACACAAAGTACTAAT
* * * *
104170 AACAGAGAACACGAGACGTACTAAACAGAAAGC
1 CAGAGAGAACAC-A-AAGTGCTAAACAGAAAGC
104203 GCGCTAGTGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 49 0.77
47 1 0.02
48 14 0.22
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (46 bp):
CAGAGAGAACACAAAGTGCTAAACAGAAAGCACACAAAGTACTAAT
Found at i:104152 original size:69 final size:66
Alignment explanation
Indices: 104037--104168 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 66
104027 AAAAATAGAG
** *
104037 AGTACCAAAGTACTAACAGAGAGCACGTAAGTGCTGGGCAACAGAGAGTACACAAAGTGCTAAAC
1 AGTACCAAAGTACTAACAGAGAGCACCAAAGTGCT--G-AACAGAGAGCACACAAAGTGCTAAAC
104102 AGAA
63 AGAA
*
104106 AGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACACAGTGCTAA
1 AGTAC-CAAAGTACTAA-CAGAGAGCAC-CAAAGTGCTGAA-CAGAGAGCACACAAAGTGCTAA
104169 TAACAGAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
68 2 0.04
69 25 0.45
70 11 0.20
71 10 0.18
72 7 0.13
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (66 bp):
AGTACCAAAGTACTAACAGAGAGCACCAAAGTGCTGAACAGAGAGCACACAAAGTGCTAAACAGA
A
Found at i:104181 original size:23 final size:23
Alignment explanation
Indices: 104078--104169 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
104068 TGCTGGGCAA
* *
104078 CAGAGAGTACACAAAGTGCTAAA
1 CAGAGAGCACACAAAGTGCTAAT
* * *
104101 CAGAAAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAT
104124 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
104147 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
104170 AACAGAGAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.14
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:110437 original size:9 final size:9
Alignment explanation
Indices: 110425--110488 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 9
110415 ATTAATTTTT
110425 AAAATATTA
1 AAAATATTA
*
110434 AAAAT-TCA
1 AAAATATTA
110442 AAAATATATA
1 AAAATAT-TA
*
110452 AAAACTATTTT
1 AAAA-TA-TTA
110463 AAAA-ATTA
1 AAAATATTA
110471 AAAATCATTA
1 AAAAT-ATTA
*
110481 AAATTATT
1 AAAATATT
110489 TTAAAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
8 13 0.30
9 10 0.23
10 13 0.30
11 7 0.16
12 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATATTA
Found at i:110483 original size:28 final size:29
Alignment explanation
Indices: 110431--110504 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
110421 TTTTAAAATA
110431 TTAAAAATTCAAAAATATATAAAAACTATT
1 TTAAAAATT-AAAAATATATAAAAACTATT
*
110461 TTAAAAATTAAAAATCAT-T-AAAATTATT
1 TTAAAAATTAAAAAT-ATATAAAAACTATT
*
110489 TTAAAAAATTTAAAAT
1 TT-AAAAATTAAAAAT
110505 TTAATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 10 0.25
29 19 0.47
30 11 0.28
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
TTAAAAATTAAAAATATATAAAAACTATT
Found at i:113032 original size:100 final size:98
Alignment explanation
Indices: 112875--113064 Score: 267
Period size: 101 Copynumber: 1.9 Consensus size: 98
112865 TTTTCACTTA
* * * *
112875 TTTTTCTTTTTGGTTTGCATGTTGTTATTTCATTAAGCACGAAAAAGATTTAAAATAAAAATT-T
1 TTTTGCTTTTTGGTATGAATGTTGTTATTTCATTAAGCACGAAAAAAATTTAAAAT-AAAATTCT
*
112939 TGAATTTTTTTTTTTCTGAAAATTAGAAACCTGTATC
65 TG-A-TTTTTTTTTT-TGAAAATCAGAAACCTGTATC
* *
112976 TTTTGCTTTTTGGTATGAATGTTGTTATTT-ATTAAGCAGGAAAAAAATTTAGAATAAAATTCTT
1 TTTTGCTTTTTGGTATGAATGTTGTTATTTCATTAAGCACGAAAAAAATTTAAAATAAAATTCTT
113040 GATTTTTTTTTTTGAAAATCAGAAA
66 GATTTTTTTTTTTGAAAATCAGAAA
113065 TCAGAAATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
97 12 0.15
98 10 0.12
99 7 0.09
100 25 0.31
101 27 0.33
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (98 bp):
TTTTGCTTTTTGGTATGAATGTTGTTATTTCATTAAGCACGAAAAAAATTTAAAATAAAATTCTT
GATTTTTTTTTTTGAAAATCAGAAACCTGTATC
Found at i:117957 original size:6 final size:7
Alignment explanation
Indices: 117941--117967 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
117931 ACCAGACCTC
117941 AAAAATA
1 AAAAATA
117948 AAAAATA
1 AAAAATA
117955 AAAAATA
1 AAAAATA
117962 AAAAAT
1 AAAAAT
117968 TACTTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:124716 original size:19 final size:18
Alignment explanation
Indices: 124677--124721 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
124667 TTTATAGGTT
*
124677 CAATATATTAGATAAGTC
1 CAATATATTAGATAAGCC
*
124695 CAATATATTATGTTAAGCC
1 CAATATATTA-GATAAGCC
*
124714 CAAAATAT
1 CAATATAT
124722 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (18 bp):
CAATATATTAGATAAGCC
Found at i:125516 original size:19 final size:19
Alignment explanation
Indices: 125477--125512 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
125467 AAATAAGTAA
*
125477 AAGTTCAAGTAAACAACAT
1 AAGTCCAAGTAAACAACAT
125496 AAGTCCAAGT-AACAACA
1 AAGTCCAAGTAAACAACA
125513 ATAACACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (19 bp):
AAGTCCAAGTAAACAACAT
Found at i:125952 original size:58 final size:58
Alignment explanation
Indices: 125888--126007 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
125878 AAAAGGACTT
*
125888 GTTTATGAG-GTTTATTTAGGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTA
1 GTTTATGAGTGTTT-TTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTA
* *
125946 GTTTATGAGTGTTTTTTAAGAATGAAATTATATTTGGGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTTTTTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTA
126004 GTTT
1 GTTT
126008 GTTAATGAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (58 bp):
GTTTATGAGTGTTTTTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTA
Found at i:126021 original size:58 final size:58
Alignment explanation
Indices: 125902--126022 Score: 170
Period size: 58 Copynumber: 2.1 Consensus size: 58
125892 ATGAGGTTTA
* * **
125902 TTTAGGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTAGTTTATGAGTGTTT
1 TTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTAGTTTATGAATGAGT
* * * *
125960 TTTAAGAATGAAATTATATTTGGGTTTAAAAATATTTGGGTTTAGTTTGTTAATGAGT
1 TTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTAGTTTATGAATGAGT
126018 TTTAA
1 TTTAA
126023 ATATTAGGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (58 bp):
TTTAAGAATAAAATTATATTTGGGTTTAAAAATATTTAGGTTTAGTTTATGAATGAGT
Found at i:126760 original size:20 final size:20
Alignment explanation
Indices: 126731--126790 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
126721 TTAAAACAAG
*
126731 TTTTTCTATTTTTAAATATA
1 TTTTTTTATTTTTAAATATA
126751 TTTTTTTATTTTT--ATA-A
1 TTTTTTTATTTTTAAATATA
*
126768 TTTTTTAATAATTTTAAATATA
1 TTTTTT--TATTTTTAAATATA
126790 T
1 T
126791 AAAGAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 6 0.18
20 12 0.36
21 3 0.09
22 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTTTATTTTTAAATATA
Done.