Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2544747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:813986 original size:18 final size:18
Alignment explanation
Indices: 813963--814083 Score: 67
Period size: 17 Copynumber: 6.8 Consensus size: 18
813953 GAAAAGAAAT
813963 AAAAATGAAAATAAATAA
1 AAAAATGAAAATAAATAA
* *
813981 AAAAAT-AAACCT-AATTA
1 AAAAATGAAA-ATAAATAA
813998 AAAAATGATAAATAAATAA
1 AAAAATGA-AAATAAATAA
*
814017 ATAAA-GAGAAA-AAATAA
1 AAAAATGA-AAATAAATAA
* *
814034 AACAAAT-AAGAAAAAATGA
1 AA-AAATGAA-AATAAATAA
* * *
814053 TAATA-GAAAAGAAAT-A
1 AAAAATGAAAATAAATAA
*
814069 AAAAATGATAATAAA
1 AAAAATGAAAATAAA
814084 ATAAGGTTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 21
0.68 0.13 0.18
Matches are distributed among these distances:
16 4 0.05
17 34 0.44
18 24 0.31
19 16 0.21
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAATGAAAATAAATAA
Found at i:814044 original size:21 final size:20
Alignment explanation
Indices: 813971--814049 Score: 54
Period size: 22 Copynumber: 3.7 Consensus size: 20
813961 ATAAAAATGA
*
813971 AAATAAATAAAAAAATAAACC
1 AAATAAAGAAAAAAATAAA-C
* *
813992 TAATTAAA-AAATGATAAATAAAT
1 -AAATAAAGAAA--A-AAATAAAC
814015 AAATAAAGAGAAAAAATAAAAC
1 AAATAAAGA-AAAAAAT-AAAC
814037 AAAT-AAGAAAAAA
1 AAATAAAGAAAAAA
814050 TGATAATAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
20 5 0.11
21 11 0.23
22 20 0.43
23 2 0.04
24 9 0.19
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAAAGAAAAAAATAAAC
Found at i:814055 original size:13 final size:13
Alignment explanation
Indices: 814039--814084 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
814029 AATAAAACAA
*
814039 ATAAGAAAAAATG
1 ATAATAAAAAATG
*
814052 ATAATAGAAAA-G
1 ATAATAAAAAATG
814064 A-AATAAAAAATG
1 ATAATAAAAAATG
814076 ATAATAAAA
1 ATAATAAAA
814085 TAAGGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 8 0.29
12 4 0.14
13 16 0.57
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (13 bp):
ATAATAAAAAATG
Found at i:814552 original size:13 final size:13
Alignment explanation
Indices: 814534--814559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
814524 AACAAAAAAT
814534 TAAAAGGAAATAA
1 TAAAAGGAAATAA
814547 TAAAAGGAAATAA
1 TAAAAGGAAATAA
814560 AATAAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
TAAAAGGAAATAA
Found at i:814631 original size:28 final size:29
Alignment explanation
Indices: 814600--814670 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
814590 ATCTATATGT
* *
814600 ATATATATATAAGAAATAATGAT-ATAAA
1 ATATATATATAAAAAATAATAATAATAAA
*
814628 ATATATGTGTAATAAAAAATAATAATAATAAA
1 ATATA--TAT-ATAAAAAATAATAATAATAAA
814660 ATATA-ATATAA
1 ATATATATATAA
814671 CATAACATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
28 9 0.26
29 1 0.03
30 2 0.06
31 13 0.37
32 10 0.29
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (29 bp):
ATATATATATAAAAAATAATAATAATAAA
Found at i:814656 original size:16 final size:16
Alignment explanation
Indices: 814637--814667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
814627 AATATATGTG
814637 TAATAAAAAATAATAA
1 TAATAAAAAATAATAA
*
814653 TAATAAAATATAATA
1 TAATAAAAAATAATA
814668 TAACATAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATAAAAAATAATAA
Found at i:815883 original size:11 final size:11
Alignment explanation
Indices: 815867--815900 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
815857 AAAAATAGTA
*
815867 AAATAAGTAAT
1 AAATAAATAAT
815878 AAATAAATAAT
1 AAATAAATAAT
815889 AAATAAATAAT
1 AAATAAATAAT
815900 A
1 A
815901 TATATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:819665 original size:62 final size:60
Alignment explanation
Indices: 819540--819706 Score: 176
Period size: 62 Copynumber: 2.7 Consensus size: 60
819530 TAATTATTCA
* * * * * *
819540 CTTAAAATTTTAATAAAATTTAAAAATAGAACATTCTTTCT-TCTCTCTTTTCTTCATATTT
1 CTTAAAATTTTAATGAAATTTTAAAATAAAACATT-TTTCTCT-TCTCTTCTCTTCAAACTT
819601 CTTAAAATTTTAATGAAATTTTAAAATAAAAACATTTTCTCTCTTCTCTTCTC-TCACAACTT
1 CTTAAAATTTTAATGAAATTTTAAAAT-AAAACATTTT-TCTCTTCTCTTCTCTTCA-AACTT
* * * *
819663 CTTAAAATTTCATTGAAATTTTATAAAGAAAATATTTTTCTCTT
1 CTTAAAATTTTAATGAAATTTTA-AAATAAAACATTTTTCTCTT
819707 TTCTCCTCCC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
61 36 0.40
62 51 0.56
63 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (60 bp):
CTTAAAATTTTAATGAAATTTTAAAATAAAACATTTTTCTCTTCTCTTCTCTTCAAACTT
Found at i:824045 original size:26 final size:25
Alignment explanation
Indices: 824009--824059 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
823999 ATTTAGGGTG
824009 AGATCCGAAATTACATTGGAAATGTA
1 AGATCCGAAATTACATT-GAAATGTA
824035 AGATCCGAAATTACATTGAAATGTA
1 AGATCCGAAATTACATTGAAATGTA
824060 CACCTGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (25 bp):
AGATCCGAAATTACATTGAAATGTA
Found at i:824568 original size:21 final size:21
Alignment explanation
Indices: 824542--824599 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
824532 AAAATGCCTG
*
824542 AGTATCGATACCCCTACCGCC
1 AGTATCGATACCCCTACCACC
* *
824563 AGTATCGATA-CTCTACTACC
1 AGTATCGATACCCCTACCACC
*
824583 AGTATCGATACTCCTAC
1 AGTATCGATACCCCTAC
824600 GAGTACTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCCCTACCACC
Found at i:826215 original size:90 final size:88
Alignment explanation
Indices: 826097--826266 Score: 261
Period size: 89 Copynumber: 1.9 Consensus size: 88
826087 TCCCGAATAT
* *
826097 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCCAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCCAATAAGATTAG
826162 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
* *
826186 TTAAATTCTAATTAATTTAAA-ATATATTTAATTAATTTGAAATAATAAAACCCTAATAAGATTA
1 TTAAATTC-AATTAA-TTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATAAGATTA
*
826250 GGGTAACTTGGCTATAA
64 GGGTAACTTGGATATAA
826267 AAGGGTGTGT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 35 0.47
90 34 0.46
91 5 0.07
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATAAGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:831307 original size:31 final size:33
Alignment explanation
Indices: 831249--831309 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
831239 GAGTCGTATT
*
831249 TAATTATTTTTGCTAAGCTTGCATTTCTTTGAA
1 TAATCATTTTTGCTAAGCTTGCATTTCTTTGAA
831282 TAATCATTTTTAG-TAA-CTTG-ATTTCTTT
1 TAATCATTTTT-GCTAAGCTTGCATTTCTTT
831310 TTGTCTTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 8 0.31
32 4 0.15
33 13 0.50
34 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (33 bp):
TAATCATTTTTGCTAAGCTTGCATTTCTTTGAA
Found at i:831792 original size:21 final size:21
Alignment explanation
Indices: 831768--831809 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
831758 TTTGCATCTT
831768 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
831789 TACATTACATGATATACATTG
1 TACATTACATGATATACATTG
831810 CATCTCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:834727 original size:19 final size:20
Alignment explanation
Indices: 834703--834741 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
834693 CCATTTTATG
834703 CCTTA-GGGTATCAGTACCA
1 CCTTAGGGGTATCAGTACCA
*
834722 CCTTAGGGGTATCGGTACCA
1 CCTTAGGGGTATCAGTACCA
834742 TTGCATGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (20 bp):
CCTTAGGGGTATCAGTACCA
Found at i:834754 original size:22 final size:21
Alignment explanation
Indices: 834727--834784 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 21
834717 TACCACCTTA
834727 GGGGTATCGGTACCATTGCAT-G
1 GGGGTATCGGTACCATT--ATGG
*
834749 GGGGTATCGATACC--TATGG
1 GGGGTATCGGTACCATTATGG
834768 GGGGTATCGGTACCATT
1 GGGGTATCGGTACCATT
834785 CGAGCATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 1 0.03
21 1 0.03
22 13 0.42
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (21 bp):
GGGGTATCGGTACCATTATGG
Found at i:839356 original size:54 final size:53
Alignment explanation
Indices: 839294--840013 Score: 1110
Period size: 54 Copynumber: 13.5 Consensus size: 53
839284 CTGCTCCCTA
839294 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGG-CTCGCTCTCTCT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCT-T
* * *
839348 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCTGCTCTCTC
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* * * *
839401 TTCCTTCAAGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTC
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* *
839454 TTTCTTCAGGGAGTAGAACTCGAATAATAATATTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
*
839507 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTATGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* * *
839561 TTTCTTCAGGGAGTAAGAACTCAAACAATAATCTTCCTACGAGTCCGCTCTCTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
*
839615 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* *
839668 TTTCTTCAAGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
839722 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
839775 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
* * *
839829 TTTCTTCAGAGAGTAGAAATCGAACAATAATCTTCCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTT
* * *
839882 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACAGGTCCAC-C-CTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
839934 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGC-C-CTAT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-T
*
839986 TTTCTTTAGGGAGTAGAACTCGAACAAT
1 TTTCTTCAGGGAGTAGAACTCGAACAAT
840014 CTTCTGTTGC
Statistics
Matches: 619, Mismatches: 39, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
51 34 0.05
52 45 0.07
53 260 0.42
54 278 0.45
55 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (53 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTT
Found at i:839408 original size:107 final size:107
Alignment explanation
Indices: 839286--840013 Score: 1141
Period size: 107 Copynumber: 6.8 Consensus size: 107
839276 AATCGTGTCT
*
839286 GCTCCCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGG-CTCGCTCTCTCTTT
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCT-TTT
* *
839350 TCTTCAGGGAGT-AGAACTCGAACAATCATCTTCCTACGGGTCT
64 TCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
* * * * *
839393 GCTCTCTCTTCCTTCAAGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCCGCTCTCTCTTTC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTC
* *
839458 TTCAGGGAGT-AGAACTCGAATAATAATATTCCTACGGGTCC
66 TTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
* *
839499 GCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTATGGGTCCGCTCTCTTTTT
1 GCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTT
* *
839564 CTTCAGGGAGTAAGAACTCAAACAATAATCTTCCTACGAGTCC
65 CTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
*
839607 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGCCCGCTCTCTTTTTC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTC
*
839672 TTCAAGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
66 TTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
839714 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTC
839779 TTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
66 TTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
* * * *
839821 GCTCTCTTTTTCTTCAGAGAGTAGAAATCGAACAATAATCTTCCTACGGG-CTCGCTCTCTATTT
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTTTTT
*
839885 CTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACAGGTCC
65 CTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
*
839928 AC-C-CTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGC-C-CTATTTT
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCT-TTTT
*
839989 CTTTAGGGAGT-AGAACTCGAACAAT
65 CTTCAGGGAGTAAGAACTCGAACAAT
840014 CTTCTGTTGC
Statistics
Matches: 576, Mismatches: 39, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
103 16 0.03
104 14 0.02
105 45 0.08
106 63 0.11
107 389 0.68
108 49 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (107 bp):
GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTC
TTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
Found at i:841353 original size:1 final size:1
Alignment explanation
Indices: 841349--841423 Score: 78
Period size: 1 Copynumber: 75.0 Consensus size: 1
841339 CTTTTATTTG
** * * * **
841349 TTTTTTTTTTTTTTTTTTCATTTTTTTTTTTTTTTTATTTTTTATTTTTTTATTTTTCATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
841414 TTCTTTTTTT
1 TTTTTTTTTT
841424 CATCTTCAAG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:841371 original size:24 final size:23
Alignment explanation
Indices: 841340--841423 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 23
841330 TGAAGCCCCC
841340 TTTT-ATTTGTTTTTTTTTTTTTT
1 TTTTCATTT-TTTTTTTTTTTTTT
841363 TTTTCATTTTTTTTTTTTTTTTAT
1 TTTTCATTTTTTTTTTTTTTTT-T
* *
841387 TTTTTATTTTTTTATTTTTCATTTT
1 TTTTCATTTTTTT-TTTTT-TTTTT
841412 TTTTC-TTTTTTT
1 TTTTCATTTTTTT
841424 CATCTTCAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 17 0.31
24 24 0.44
25 10 0.19
26 3 0.06
ACGTcount: A:0.07, C:0.04, G:0.01, T:0.88
Consensus pattern (23 bp):
TTTTCATTTTTTTTTTTTTTTTT
Found at i:841408 original size:39 final size:37
Alignment explanation
Indices: 841340--841423 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 37
841330 TGAAGCCCCC
* *
841340 TTTTATTTGTTTTTTTTTTTTTTTTTTCATTTTTTTT
1 TTTTTTTTATTTTTTTTTTTTTTTTTTCATTTTTTTT
841377 TTTTTTTTATTTTTTATTTTTTTATTTTTCATTTTTTTT
1 TTTTTTTTATTTTTT-TTTTTTT-TTTTTCATTTTTTTT
*
841416 CTTTTTTT
1 TTTTTTTT
841424 CATCTTCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 13 0.31
38 7 0.17
39 22 0.52
ACGTcount: A:0.07, C:0.04, G:0.01, T:0.88
Consensus pattern (37 bp):
TTTTTTTTATTTTTTTTTTTTTTTTTTCATTTTTTTT
Found at i:841431 original size:24 final size:24
Alignment explanation
Indices: 841359--841431 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
841349 TTTTTTTTTT
* **
841359 TTTTTTTTCATTTTTTT-TTTTTTT
1 TTTTTTTT-ATTTTTTTATTCTTCA
*
841383 TTATTTTTTATTTTTTTATTTTTCA
1 TT-TTTTTTATTTTTTTATTCTTCA
*
841408 TTTTTTTTCTTTTTTTCA-TCTTCA
1 TTTTTTTTATTTTTTT-ATTCTTCA
841432 AGTAAAACCC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTTTATTTTTTTATTCTTCA
Found at i:850774 original size:177 final size:177
Alignment explanation
Indices: 850478--850831 Score: 708
Period size: 177 Copynumber: 2.0 Consensus size: 177
850468 CACTTCTCCT
850478 TAGCCCTAAACACATGAAACCCCTCGCCCCTCAGCCGCTTTCTAATTTCTCTCAACCTAAACCCC
1 TAGCCCTAAACACATGAAACCCCTCGCCCCTCAGCCGCTTTCTAATTTCTCTCAACCTAAACCCC
850543 CTTTGCAACCCTAAAAACCCAAGGCCTCCGTGACCTCCGCCGTTCAACGGCTCCGATGAGGAGCC
66 CTTTGCAACCCTAAAAACCCAAGGCCTCCGTGACCTCCGCCGTTCAACGGCTCCGATGAGGAGCC
850608 ACACAAGCCCCGATGATAACTCGAAGCAGACCTCTACCTAAAACCAA
131 ACACAAGCCCCGATGATAACTCGAAGCAGACCTCTACCTAAAACCAA
850655 TAGCCCTAAACACATGAAACCCCTCGCCCCTCAGCCGCTTTCTAATTTCTCTCAACCTAAACCCC
1 TAGCCCTAAACACATGAAACCCCTCGCCCCTCAGCCGCTTTCTAATTTCTCTCAACCTAAACCCC
850720 CTTTGCAACCCTAAAAACCCAAGGCCTCCGTGACCTCCGCCGTTCAACGGCTCCGATGAGGAGCC
66 CTTTGCAACCCTAAAAACCCAAGGCCTCCGTGACCTCCGCCGTTCAACGGCTCCGATGAGGAGCC
850785 ACACAAGCCCCGATGATAACTCGAAGCAGACCTCTACCTAAAACCAA
131 ACACAAGCCCCGATGATAACTCGAAGCAGACCTCTACCTAAAACCAA
850832 ACCTTAACCC
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 177 1.00
ACGTcount: A:0.29, C:0.39, G:0.14, T:0.18
Consensus pattern (177 bp):
TAGCCCTAAACACATGAAACCCCTCGCCCCTCAGCCGCTTTCTAATTTCTCTCAACCTAAACCCC
CTTTGCAACCCTAAAAACCCAAGGCCTCCGTGACCTCCGCCGTTCAACGGCTCCGATGAGGAGCC
ACACAAGCCCCGATGATAACTCGAAGCAGACCTCTACCTAAAACCAA
Found at i:852714 original size:23 final size:23
Alignment explanation
Indices: 852664--852762 Score: 134
Period size: 23 Copynumber: 4.4 Consensus size: 23
852654 CCCCGTAGAG
*
852664 GGTATCGATA-CCA-TC-AGGGA
1 GGTATCGATACCCATTCAAAGGA
852684 GGTATCGATACCCATTCAAA-GA
1 GGTATCGATACCCATTCAAAGGA
*
852706 TGGTATCGATACCTATTCAAAGGA
1 -GGTATCGATACCCATTCAAAGGA
*
852730 GGTATCGATACCTATTCAAAGGA
1 GGTATCGATACCCATTCAAAGGA
852753 GGTATCGATA
1 GGTATCGATA
852763 TTAGTCTTAG
Statistics
Matches: 72, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
20 10 0.14
21 3 0.04
22 4 0.06
23 53 0.74
24 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (23 bp):
GGTATCGATACCCATTCAAAGGA
Found at i:856913 original size:480 final size:482
Alignment explanation
Indices: 856010--856972 Score: 1894
Period size: 480 Copynumber: 2.0 Consensus size: 482
856000 AAATGTCACA
* *
856010 TTTCCTCCATTTTTGGCGTTAAGCTCTATGAACCGGCTTTTATCTCCGGTCATGTGTCTTGAGCA
1 TTTCCTCCAGTTTTGGCGTTAAGCTCTATGAACCGGCTTTTATCTCCGGTCATGTGTCTTGAGAA
856075 TCCACTATCAAGGTACCATGAGTTTGAATTTGTTTCCTATGCCTTGTAGCAATGCTCCTTTTCCT
66 TCCACTATCAAGGTACCATGAGTTTGAATTTGTTTCCTATGCCTTGTAGCAATGCTCCTTTTCCT
856140 ACAAACATAGATTATTTTTTTATTTTTGGTACCCAAATTCTTTTGGGTCCATATTAATTAGTTTC
131 ACAAACATAGATTATTTTTTTATTTTTGGTACCCAAATTCTTTTGGGTCCATATTAATTAGTTTC
856205 CAAAATCCTAGTCCCCCTTAGGTATCCATTTGTGTAGAATATCCTCATCTTTAGTAGTAATGAGT
196 CAAAATCCTAGTCCCCCTTAGGTATCCATTTGTGTAGAATATCCTCATCTTTAGTAGTAATGAGT
856270 TCTTTAGGAACCAATATACTTCTAATAATCTTTCCATTAGAGGTTCTTCAGGGACCTCTATGATT
261 TCTTTAGGAACCAATATACTTCTAATAATCTTTCCATTAGAGGTTCTTCAGGGACCTCTATGATT
856335 GTAGTTTTTAAAACTTTTTCTAACAAAGTTAGATTTTGAATTTTCTCAATTTTCAAAACGTTTTG
326 GTAGTTTTTAAAACTTTTTCTAACAAAGTTAGATTTTGAATTTTCTCAATTTTCAAAACGTTTTG
856400 TTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCTTTGACCTTT
391 TTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCTTTGACCTTT
856465 GAAAGTAAATTATGCAAATCATAATTT
456 GAAAGTAAATTATGCAAATCATAATTT
856492 TTTCCTCCAGTTTTGGCGTTAAGCTCTATGAACCGGCTTTTATCTCCGGTCATGTGTCTTGAGAA
1 TTTCCTCCAGTTTTGGCGTTAAGCTCTATGAACCGGCTTTTATCTCCGGTCATGTGTCTTGAGAA
856557 TCCACTATCAAGGTACCATGAGTTTGAATTTGTTTCCTATGCCTTGTAGCAATGCTCCTTTTCCT
66 TCCACTATCAAGGTACCATGAGTTTGAATTTGTTTCCTATGCCTTGTAGCAATGCTCCTTTTCCT
856622 ACAAACATAGATTA-TTTTTTATTTTTGGTACCCAAATTCTTTTGGGTCCATATTAATTAGTTTC
131 ACAAACATAGATTATTTTTTTATTTTTGGTACCCAAATTCTTTTGGGTCCATATTAATTAGTTTC
856686 CAAAATCCTAGT-CCCCTTAGGTATCCATTTGTGTAGAATATCCTCATCTTTAGTAGTAATGAGT
196 CAAAATCCTAGTCCCCCTTAGGTATCCATTTGTGTAGAATATCCTCATCTTTAGTAGTAATGAGT
856750 TCTTTAGGAACCAATATACTTCTAATAATCTTTCCATTAGAGGTTCTTCAGGGACCTCTATGATT
261 TCTTTAGGAACCAATATACTTCTAATAATCTTTCCATTAGAGGTTCTTCAGGGACCTCTATGATT
856815 GTAGTTTTTAAAACTTTTTCTAACAAAGTTAGATTTTGAATTTTCTCAATTTTCAAAACGTTTTG
326 GTAGTTTTTAAAACTTTTTCTAACAAAGTTAGATTTTGAATTTTCTCAATTTTCAAAACGTTTTG
856880 TTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCTTTGACCTTT
391 TTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCTTTGACCTTT
856945 GAAAGTAAATTATGCAAATCATAATTT
456 GAAAGTAAATTATGCAAATCATAATTT
856972 T
1 T
856973 CTTTTCAACT
Statistics
Matches: 479, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
480 275 0.57
481 62 0.13
482 142 0.30
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (482 bp):
TTTCCTCCAGTTTTGGCGTTAAGCTCTATGAACCGGCTTTTATCTCCGGTCATGTGTCTTGAGAA
TCCACTATCAAGGTACCATGAGTTTGAATTTGTTTCCTATGCCTTGTAGCAATGCTCCTTTTCCT
ACAAACATAGATTATTTTTTTATTTTTGGTACCCAAATTCTTTTGGGTCCATATTAATTAGTTTC
CAAAATCCTAGTCCCCCTTAGGTATCCATTTGTGTAGAATATCCTCATCTTTAGTAGTAATGAGT
TCTTTAGGAACCAATATACTTCTAATAATCTTTCCATTAGAGGTTCTTCAGGGACCTCTATGATT
GTAGTTTTTAAAACTTTTTCTAACAAAGTTAGATTTTGAATTTTCTCAATTTTCAAAACGTTTTG
TTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCTTTGACCTTT
GAAAGTAAATTATGCAAATCATAATTT
Found at i:859009 original size:19 final size:20
Alignment explanation
Indices: 858985--859023 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
858975 TCGTTATATG
858985 CCTTA-GGGTATCGGTACCA
1 CCTTAGGGGTATCGGTACCA
859004 CCTTAGGGGTATCGGTACCA
1 CCTTAGGGGTATCGGTACCA
859024 TTACATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (20 bp):
CCTTAGGGGTATCGGTACCA
Found at i:859484 original size:54 final size:54
Alignment explanation
Indices: 859408--859751 Score: 406
Period size: 54 Copynumber: 6.4 Consensus size: 54
859398 GGGCACTATA
* * ** *
859408 TGTGTAACCCAC-AGAATTCATAATAAGTTTATGAACGACCTTATCGGTACTATG
1 TGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
* *
859462 TGTGCAACCCACGAAATTCATAAGAAGTTTATGAATGACCGTATCGACACTAAG
1 TGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
859516 TGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
1 TGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
** * * * * *
859570 TGCACAACCCACAAAATTCATAATAAGTTTATGAATGATCGTGTTGACACTAAG
1 TGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
* * * * * *
859624 TGTGCAATCCATGAAATTCACAATAAGTTTATGAACGACCGTATTGAAACTTAG
1 TGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
* * * *
859678 TGTACAACCCACGAAATTCATAATAAGTTTATGAACGACTGAATCTG-CATTAAG
1 TGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATC-GACACTAAG
* *
859732 TGTGCAAACCATGAAATTCA
1 TGTGCAACCCACGAAATTCA
859752 AAAAGAGCTT
Statistics
Matches: 247, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.00
54 243 0.98
55 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
TGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAG
Found at i:860669 original size:18 final size:16
Alignment explanation
Indices: 860605--860669 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
860595 CAACACAGAG
*
860605 AAAAAAGAGAAGATAAGA
1 AAAAAAAAGAAG--AAGA
860623 AAAAAAAAGAAGAA-A
1 AAAAAAAAGAAGAAGA
860638 AAAACATAAA-AAG-AGA
1 AAAA-A-AAAGAAGAAGA
*
860654 CAAAAAAAGAAGAAGA
1 AAAAAAAAGAAGAAGA
860670 TAGAGAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
14 3 0.08
15 10 0.25
16 13 0.32
17 3 0.08
18 11 0.28
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAGAAGA
Found at i:860711 original size:22 final size:21
Alignment explanation
Indices: 860606--860710 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 21
860596 AACACAGAGA
*
860606 AAAAAGAGA-AGATAAGAAAA-
1 AAAAAGAGAGAGA-AAAAAAAG
*
860626 AAAAAGA-AGA-AAAAAACA-
1 AAAAAGAGAGAGAAAAAAAAG
* *
860644 TAAAA-AGAGA-CAAAAAAAG
1 AAAAAGAGAGAGAAAAAAAAG
* * *
860663 AAGAAGATAGAGAAAAGAAAG
1 AAAAAGAGAGAGAAAAAAAAG
*
860684 CAAAAAGGGAGAGAAAAAAAAG
1 -AAAAAGAGAGAGAAAAAAAAG
860706 AAAAA
1 AAAAA
860711 AAAAGGAGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
17 1 0.02
18 18 0.28
19 5 0.08
20 12 0.18
21 12 0.18
22 17 0.26
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAAGAGAGAGAAAAAAAAG
Found at i:860712 original size:24 final size:27
Alignment explanation
Indices: 860675--860733 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
860665 GAAGATAGAG
*
860675 AAAAGAAAGCAAAAAGGGAG-A-GAAAA
1 AAAAGAAA-CAAAAAAGGAGAACGAAAA
860701 AAAAGAAA-AAAAAAGGAGAACGAAAA
1 AAAAGAAACAAAAAAGGAGAACGAAAA
860727 AAGAAGA
1 AA-AAGA
860734 CAAATCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.31
25 1 0.03
26 15 0.52
27 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (27 bp):
AAAAGAAACAAAAAAGGAGAACGAAAA
Found at i:860719 original size:22 final size:21
Alignment explanation
Indices: 860605--860731 Score: 80
Period size: 22 Copynumber: 6.0 Consensus size: 21
860595 CAACACAGAG
* *
860605 AAAAAAGAG-AAGATAAGAAA
1 AAAAAAGAGAAAAAAAAGAAA
* *
860625 AAAAAAGA-AGAAAAAA-ACA
1 AAAAAAGAGAAAAAAAAGAAA
* *
860644 TAAAAAGAGACAAAAAAAGAAG
1 AAAAAAGAGA-AAAAAAAGAAA
* * *
860666 AAGATAGAGAAAAGAAAGCAAA
1 AAAAAAGAGAAAAAAAAG-AAA
***
860688 AAGGGAGAGAAAAAAAAGAAA
1 AAAAAAGAGAAAAAAAAGAAA
860709 AAAAAAGGAGAACGAAAAAAGAA
1 AAAAAA-GAGAA--AAAAAAGAA
860732 GACAAATCAA
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.11
20 13 0.16
21 19 0.24
22 30 0.38
24 9 0.11
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAAAGAAA
Found at i:862878 original size:33 final size:34
Alignment explanation
Indices: 862835--862900 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
862825 AAGTTTCTTG
*
862835 GTGATTTTTCAAATGAATTTT-AAAGAAGCTAAC
1 GTGAGTTTTCAAATGAATTTTGAAAGAAGCTAAC
862868 GTGAGTTTTCAAATGAATTTTGAAAGAAGCTAA
1 GTGAGTTTTCAAATGAATTTTGAAAGAAGCTAA
862901 GTCCAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (34 bp):
GTGAGTTTTCAAATGAATTTTGAAAGAAGCTAAC
Found at i:862884 original size:89 final size:90
Alignment explanation
Indices: 862772--862955 Score: 257
Period size: 89 Copynumber: 2.1 Consensus size: 90
862762 ATGTTACCCG
* **
862772 GCTAACGTGATTTTTTCAAATGAATTTTGAAAAAAGATAAGTCCAATTTTCGGAAGTTTCTTGG-
1 GCTAACGTGATGTTTTCAAATGAATTTTGAAAAAAGATAAGTCCAATTTTCAAAAGTTTC-TGGA
*
862836 TGATTTTTCAAATGAATTTT-AAAGAA
65 TGATTTTT-AAATAAATTTTGAAAGAA
* * *
862862 GCTAACGTGA-GTTTTCAAATGAATTTTGAAAGAAGCTAAGTCCAATTTTCAAAATTTTCTGGAT
1 GCTAACGTGATGTTTTCAAATGAATTTTGAAAAAAGATAAGTCCAATTTTCAAAAGTTTCTGGAT
862926 GATTTTTAAATAAATTTTGAAAGAA
66 GATTTTTAAATAAATTTTGAAAGAA
*
862951 ACTAA
1 GCTAA
862956 GTTTGATTTC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
88 13 0.15
89 61 0.73
90 10 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (90 bp):
GCTAACGTGATGTTTTCAAATGAATTTTGAAAAAAGATAAGTCCAATTTTCAAAAGTTTCTGGAT
GATTTTTAAATAAATTTTGAAAGAA
Found at i:862911 original size:34 final size:33
Alignment explanation
Indices: 862840--862914 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 33
862830 TCTTGGTGAT
* *
862840 TTTTCAAATGAATTTTAAAGAAGCTAACGTGAG
1 TTTTCAAATGAATTTTAAAGAAGCTAACGTCAA
862873 TTTTCAAATGAATTTTGAAAGAAGCTAA-GTCCAA
1 TTTTCAAATGAATTTT-AAAGAAGCTAACGT-CAA
862907 TTTTCAAA
1 TTTTCAAA
862915 ATTTTCTGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 18 0.47
34 20 0.53
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTTCAAATGAATTTTAAAGAAGCTAACGTCAA
Found at i:862948 original size:55 final size:55
Alignment explanation
Indices: 862873--863172 Score: 245
Period size: 55 Copynumber: 5.5 Consensus size: 55
862863 CTAACGTGAG
* * * * ** * *
862873 TTTTCAAATGAATTTTGAAAGAAGCTAAGTCCAATTTTCAAAATTTTCTGGATGA
1 TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCAGAATTTTCTTGATGA
* * * *
862928 TTTTTAAATAAATTTTGAAAGAAACTAAGTTTGATTTCCAGAAGTTTCTTGATGA
1 TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCAGAATTTTCTTGATGA
* * *
862983 ATTTTAAATAAGTTTTCAAAGAAACTAAGTCTGATTTTTAGAATTTTCTTGATGA
1 TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCAGAATTTTCTTGATGA
* * * **
863038 -TTTTAAATGAGTTTTCAAAGAAGCTAAGTCTGATTTTCAGGGGTTTT-TTGATG-
1 TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCA-GAATTTTCTTGATGA
* * * * * * * *
863091 TTTTCAAATGAATGTTAAAAGAATCTAAGCCTAATTTT-ATTG-GTTTT-TTGATG-
1 TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCA--GAATTTTCTTGATGA
* * *
863144 TTTTCAAATAAATTTTTAAAGAAGCTAAG
1 TTTTTAAATAAATTTTCAAAGAAACTAAG
863173 CCTAAGTTTT
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
53 37 0.18
54 73 0.35
55 98 0.47
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (55 bp):
TTTTTAAATAAATTTTCAAAGAAACTAAGTCTGATTTTCAGAATTTTCTTGATGA
Found at i:863040 original size:110 final size:109
Alignment explanation
Indices: 862872--863172 Score: 308
Period size: 109 Copynumber: 2.8 Consensus size: 109
862862 GCTAACGTGA
* * * * * *
862872 GTTTTCAAATGAATTTTGAAAGAAGCTAAGTCCAATTTTCAAAATTTTCTGGATGATTTTTAAAT
1 GTTTTCAAATGAATTTTAAAAGAAACTAAGTCTAATTTTTAGAATTTTCTTGATGATTTTTAAAT
* * *
862937 AAATTTTGAAAGAAACTAAGTTTGATTTCCAGAAGTTTCTTGAT
66 AAATTTTCAAAGAAGCTAAGTCTGATTTCCAGAAGTTTCTTGAT
* *
862981 GAATTTT-AAAT-AAGTTTTCAAAGAAACTAAGTCTGATTTTTAGAATTTTCTTGATGA-TTTTA
1 G--TTTTCAAATGAA-TTTTAAAAGAAACTAAGTCTAATTTTTAGAATTTTCTTGATGATTTTTA
* * * ** *
863043 AATGAGTTTTCAAAGAAGCTAAGTCTGATTTTCAGGGGTTTTTTGAT
63 AATAAATTTTCAAAGAAGCTAAGTCTGATTTCCAGAAGTTTCTTGAT
* * * * * *
863090 GTTTTCAAATGAATGTTAAAAGAATCTAAGCCTAATTTTATTG-GTTTT-TTGATG-TTTTCAAA
1 GTTTTCAAATGAATTTTAAAAGAAACTAAGTCTAATTTT-TAGAATTTTCTTGATGATTTTTAAA
*
863152 TAAATTTTTAAAGAAGCTAAG
65 TAAATTTTCAAAGAAGCTAAG
863173 CCTAAGTTTT
Statistics
Matches: 158, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
107 34 0.22
108 29 0.18
109 51 0.32
110 40 0.25
111 4 0.03
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (109 bp):
GTTTTCAAATGAATTTTAAAAGAAACTAAGTCTAATTTTTAGAATTTTCTTGATGATTTTTAAAT
AAATTTTCAAAGAAGCTAAGTCTGATTTCCAGAAGTTTCTTGAT
Found at i:863190 original size:54 final size:53
Alignment explanation
Indices: 863026--863197 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 53
863016 ATTTTTAGAA
* * * *
863026 TTTTCTTGATGATTTT-AAATGAGTTTTCAAAGAAGCTAAGTCTGATTTTCAGGGG
1 TTTT-TTGATG-TTTTCAAATGAATTTTAAAAGAAGCTAAGCCTAATTTT-AGGGG
* * **
863081 TTTTTTGATGTTTTCAAATGAATGTTAAAAGAATCTAAGCCTAATTTTATTGG
1 TTTTTTGATGTTTTCAAATGAATTTTAAAAGAAGCTAAGCCTAATTTTAGGGG
* *
863134 TTTTTTGATGTTTTCAAATAAATTTTTAAAGAAGCTAAGCCTAAGTTTTAGGGG
1 TTTTTTGATGTTTTCAAATGAATTTTAAAAGAAGCTAAGCCTAA-TTTTAGGGG
*
863188 TTTCTTGATG
1 TTTTTTGATG
863198 ATAAATGTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
53 47 0.47
54 49 0.49
55 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (53 bp):
TTTTTTGATGTTTTCAAATGAATTTTAAAAGAAGCTAAGCCTAATTTTAGGGG
Found at i:864871 original size:117 final size:117
Alignment explanation
Indices: 864665--864878 Score: 331
Period size: 117 Copynumber: 1.8 Consensus size: 117
864655 TTTCTAATTT
864665 AAGGGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAAGTTCATAATGAGAAGAACATGT
1 AAGGGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAAGTTCATAATGAGAAGAACATGT
* *
864730 TCAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTATGTAG
66 TCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAACATTTATGTAG
* * * *
864782 AAGGGTTCGTAATGAGAAGAACT-AGTCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 AAGGGTTCATAATGAGAAGAACTCA-TCCGACGAGGGAGAAAAAGTTCATAATGAGAAGAACATG
* * *
864846 TTCAACTTTAGCTCGTTTCCATCACATAAGGAG
65 TTCAACCTTAGCTCGATTCCATCACAGAAGGAG
864879 TTAGAACAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 1 0.01
117 86 0.99
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (117 bp):
AAGGGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAAGTTCATAATGAGAAGAACATGT
TCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAACATTTATGTAG
Found at i:865259 original size:203 final size:203
Alignment explanation
Indices: 864740--865535 Score: 960
Period size: 203 Copynumber: 3.9 Consensus size: 203
864730 TCAACCTTGG
* * * *
864740 TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTAT-GTAGAAGGGTTCGTAATGAGAAGAAC
1 TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTAGT-GGAGAGTTCATAATGAGAAGAAC
* * *
864804 T-AGTCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTAGCTCGTTTCCAT
65 TCA-TCCGACGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCAT
* * * *
864868 CACATAAGGAGTTAGAACAACACAAATACTTGGCTTTTCCATCGCATATGGAGTTGGATCAACAT
129 CACATAAGGAGTTGGAACAACACCAATACTTGGCTTATCCATCACATATGGAGTTGGATCAACAT
**
864933 CATCACCTTAG
194 CATCA-CTTTT
* * * *
864944 TTCGATTCCATCACAGAAGAATGTGGATCAA-AATTTTAGTGGAAGGGTTCATAATGAGAAGAAC
1 TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTAGTGG-AGAGTTCATAATGAGAAGAAC
* **
865008 TCATCTGACGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCTGTC
65 TCATCCGACGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATC
* * * *
865073 ATATAAGAAGTTGGAACATCACCAATACTTGGCTTATCCATCACATATGGAGTTGGATAAACATC
130 ACATAAGGAGTTGGAACAACACCAATACTTGGCTTATCCATCACATATGGAGTTGGATCAACATC
865138 ATCACTTTT
195 ATCACTTTT
** * * *
865147 TTCGATTTTATCACAGAATGAGGTGGATCAACATTTTTAGTGGAGAATTCATAATGAGAAGAATT
1 TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTAGTGGAGAGTTCATAATGAGAAGAACT
* * *
865212 CATCCGATGAGGGAGAAGAAGCTCATAATAAGAAGAACTTTTTCAACCTTAGCTCGTTTCCATCA
66 CATCCGACGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCA
*
865277 CATAAGGAGTTGGAACAACACCAATACTTGG-TTCATCTATCACATATGGAGTTGGATCAACATC
131 CATAAGGAGTTGGAACAACACCAATACTTGGCTT-ATCCATCACATATGGAGTTGGATCAACATC
865341 ATCA-TTTT
195 ATCACTTTT
* * * * * * ** *
865349 GTTTGATTTCATGATAAAAGGAGGTGGATCAATATTTCCAGTTGAGAGTTCATAATGAGAAGAAC
1 -TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTAGTGGAGAGTTCATAATGAGAAGAAC
** * * * * **
865414 TCATTTGACGAGGGAGTAA-AAGTTAATATTGAGAAGAACTTGTTCAACCTTAGCTTGAGTCCAT
65 TCATCCGACGAGGGAG-AAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCAT
* * * * **
865478 CACATAAGGAGTTGAAACAACACC--GACTTTGGCTCATCCATCGCATAAAGAGTTGGAT
129 CACATAAGGAGTTGGAACAACACCAATAC-TTGGCTTATCCATCACATATGGAGTTGGAT
865536 TAGCATAATC
Statistics
Matches: 511, Mismatches: 72, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
201 2 0.00
202 29 0.06
203 298 0.58
204 181 0.35
205 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (203 bp):
TTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTAGTGGAGAGTTCATAATGAGAAGAACT
CATCCGACGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCA
CATAAGGAGTTGGAACAACACCAATACTTGGCTTATCCATCACATATGGAGTTGGATCAACATCA
TCACTTTT
Found at i:865608 original size:42 final size:42
Alignment explanation
Indices: 865514--865616 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
865504 CTTTGGCTCA
* * *
865514 TCCATCGCATAAAGAGTTGGATTAGCATAATCATTTTGCTTG
1 TCCATCACATAAAGAGTTGGATCAACATAATCATTTTGCTTG
* * * * *
865556 CCCTTTACATAAGGAGTTGGATCAACATCATCATTTCT-CTTG
1 TCCATCACATAAAGAGTTGGATCAACATAATCATTT-TGCTTG
865598 TCCATCACATAAAGAGTTG
1 TCCATCACATAAAGAGTTG
865617 TATTAGCATT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (42 bp):
TCCATCACATAAAGAGTTGGATCAACATAATCATTTTGCTTG
Found at i:868971 original size:60 final size:59
Alignment explanation
Indices: 868839--868971 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 59
868829 ACCGAGTAAT
868839 CATTT-TATAACTTTTAATAGTCGAGGGAATCAACAAAAAATGCCCTATAATCAAAGGAC
1 CATTTGTAT-ACTTTTAATAGTCGAGGGAATCAACAAAAAATGCCCTATAATCAAAGGAC
* * * * * *
868898 AATTTCGTA-ACTTTTAATAGTC-ATGTGACTCAACAAAGCAATGCCTTATAATC-AGGAGAC
1 CATTT-GTATACTTTTAATAGTCGA-GGGAATCAACAAA-AAATGCCCTATAATCAAAG-GAC
868958 CATTTGTATACTTT
1 CATTTGTATACTTT
868972 ACCCAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
58 1 0.02
59 33 0.54
60 25 0.41
61 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (59 bp):
CATTTGTATACTTTTAATAGTCGAGGGAATCAACAAAAAATGCCCTATAATCAAAGGAC
Found at i:870544 original size:2 final size:2
Alignment explanation
Indices: 870537--870584 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
870527 GAACAGGATT
* * *
870537 GA GA GA GA GA GG GA GA GA GA GA GG GA GA GA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
870579 GA GA GA
1 GA GA GA
870585 TGTGAACCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:870554 original size:12 final size:12
Alignment explanation
Indices: 870537--870583 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
870527 GAACAGGATT
870537 GAGAGAGAGAGG
1 GAGAGAGAGAGG
870549 GAGAGAGAGAGG
1 GAGAGAGAGAGG
* *
870561 GAGAGAGAAAGA
1 GAGAGAGAGAGG
870573 GAGAGAGAGAG
1 GAGAGAGAGAG
870584 ATGTGAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:872601 original size:54 final size:54
Alignment explanation
Indices: 872369--872601 Score: 279
Period size: 54 Copynumber: 4.3 Consensus size: 54
872359 ATAAGTCCTT
* * * * * * *
872369 TGGGGTGCACACGTAGCATCGATACAGTCGTTCATAAACATATTATGAATATCG
1 TGGGTTGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTTCA
* * *
872423 TGGGTTGTACACTTAG-AGCCGATACGGTCGTTCATAAACATATTATTAATTCCA
1 TGGGTTGCACACTTAGTA-CCGATACGGTCGTTCATAAACATATTATGAATTTCA
* * * * *
872477 TGGGTTGCACACCTAGTGCCAATACGGTCGTTCATAAAAATATTATGAATTTCG
1 TGGGTTGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTTCA
* * *
872531 TGGGTTGCACACTTAGTACTGATACGGTCATTCATAAACCTATTATGAATTTCA
1 TGGGTTGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTTCA
*
872585 TGGGTTGCACATTTAGT
1 TGGGTTGCACACTTAGT
872602 GCTAATAGTA
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 150 0.99
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTTCA
Found at i:872603 original size:108 final size:108
Alignment explanation
Indices: 872390--872595 Score: 315
Period size: 108 Copynumber: 1.9 Consensus size: 108
872380 CGTAGCATCG
* * *
872390 ATACAGTCGTTCATAAACATATTATGAATATCGTGGGTTGTACACTTAGAGCCGATACGGTCGTT
1 ATACAGTCGTTCATAAAAATATTATGAATATCGTGGGTTGCACACTTAGAGCCGATACGGTCATT
*
872455 CATAAACATATTATTAATTCCATGGGTTGCACACCTAGTGCCA
66 CATAAACATATTATGAATTCCATGGGTTGCACACCTAGTGCCA
* * *
872498 ATACGGTCGTTCATAAAAATATTATGAATTTCGTGGGTTGCACACTTAGTA-CTGATACGGTCAT
1 ATACAGTCGTTCATAAAAATATTATGAATATCGTGGGTTGCACACTTAG-AGCCGATACGGTCAT
* *
872562 TCATAAACCTATTATGAATTTCATGGGTTGCACA
65 TCATAAACATATTATGAATTCCATGGGTTGCACA
872596 TTTAGTGCTA
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 87 0.99
109 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (108 bp):
ATACAGTCGTTCATAAAAATATTATGAATATCGTGGGTTGCACACTTAGAGCCGATACGGTCATT
CATAAACATATTATGAATTCCATGGGTTGCACACCTAGTGCCA
Found at i:874638 original size:196 final size:197
Alignment explanation
Indices: 874293--874691 Score: 755
Period size: 196 Copynumber: 2.0 Consensus size: 197
874283 CCTTTGCACC
* *
874293 CAAACCGTAATACTTTTTCCAAGGAGATACTTTCATAAATTCTTTATCCCTCACGTGATATTCAA
1 CAAACCGTAAGACTTTTTCCAAGGAGATACTTTCAGAAATTCTTTATCCCTCACGTGATATTCAA
874358 TCTCTTTTCTTTTTAGATCAGCATAAGATTTATGTCGATTCGAGGCTATCTTCAAATTATCTTGG
66 TCTCTTTTCTTTTTAGATCAGCATAAGATTTATGTCGATTCGAGGCTATCTTCAAATTATCTTGG
874423 TTAATATTCACCTTCTCCTCCATTTCTTTCATCAAATCCGGGCCAACTAAGTCTTGATCTTTTAA
131 TTAATATTCACCTTCTCCTCCATTTCTTTCATCAAATCCGGGCCAACTAAGTCTTGATCTTTTAA
874488 CT
196 CT
**
874490 CAAACCGT-AGACTTTTTCCAAGGAGATACTTTCAGAAATTCTTTATTTCTCACGTGATATTCAA
1 CAAACCGTAAGACTTTTTCCAAGGAGATACTTTCAGAAATTCTTTATCCCTCACGTGATATTCAA
874554 TCTCTTTTCTTTTTAGATCAGCATAAGATTTATGTCGATTCGAGGCTATCTTCAAATTATCTTGG
66 TCTCTTTTCTTTTTAGATCAGCATAAGATTTATGTCGATTCGAGGCTATCTTCAAATTATCTTGG
874619 TTAATATTCACCTTCTCCTCCATTTCTTTCATCAAATCCGGGCCAACTAAGTCTTGATCTTTTAA
131 TTAATATTCACCTTCTCCTCCATTTCTTTCATCAAATCCGGGCCAACTAAGTCTTGATCTTTTAA
874684 CT
196 CT
874686 CAAACC
1 CAAACC
874692 AATTTAAGCA
Statistics
Matches: 198, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
196 190 0.96
197 8 0.04
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.40
Consensus pattern (197 bp):
CAAACCGTAAGACTTTTTCCAAGGAGATACTTTCAGAAATTCTTTATCCCTCACGTGATATTCAA
TCTCTTTTCTTTTTAGATCAGCATAAGATTTATGTCGATTCGAGGCTATCTTCAAATTATCTTGG
TTAATATTCACCTTCTCCTCCATTTCTTTCATCAAATCCGGGCCAACTAAGTCTTGATCTTTTAA
CT
Found at i:876995 original size:37 final size:37
Alignment explanation
Indices: 876942--877015 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
876932 ATTCTTCTGG
*
876942 AAATTCCTTAACTGTTGGGTTATCATTTAATCTCACT
1 AAATTCCTTAACTGTTGGGATATCATTTAATCTCACT
*
876979 AAATTCCTTAATTGTTGGGATATCATTTAATCTCACT
1 AAATTCCTTAACTGTTGGGATATCATTTAATCTCACT
877016 TCCTGTACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (37 bp):
AAATTCCTTAACTGTTGGGATATCATTTAATCTCACT
Found at i:879445 original size:54 final size:54
Alignment explanation
Indices: 879372--879715 Score: 397
Period size: 54 Copynumber: 6.4 Consensus size: 54
879362 GTCATTTAGA
* * * *
879372 TTGCACA-TGTAGTGCCGATATAATCGTTTATAAATATATTATGAATTTCGTGGG
1 TTGCACACT-TAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTCGTGGG
* * * *
879426 TTACACACTTAGTGCCGATACAGTTGTTCATAAACATATTATGAACTTCGTAGG
1 TTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTCGTGGG
* * * * * * *
879480 TTTCACACTTAATGCTGCTAC-GTTCCTTCATAAACATATTATGAATTCCATGGG
1 TTGCACACTTAGTGCCGATACAG-TCGTTCATAAACATATTATGAATTTCGTGGG
* *
879534 TTGCACATTTAGTGCCGATACAGTCGTTCATAAACATATTATGAA-TTCAATGGG
1 TTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTC-GTGGG
* * * *
879588 TTGCACACTTACTGTCGATACAATCGTTCATAAACATATTATTAATTTCGTGGG
1 TTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTCGTGGG
* * * * *
879642 TTACACTCTTAGTGCTGATACGGTCGTTCATAAACATATTATAAATTTCGTGGG
1 TTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTCGTGGG
*
879696 TTGCACACTTAGTGTCGATA
1 TTGCACACTTAGTGCCGATA
879716 GTACATATAG
Statistics
Matches: 242, Mismatches: 43, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.01
54 234 0.97
55 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (54 bp):
TTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTTCGTGGG
Found at i:879674 original size:162 final size:162
Alignment explanation
Indices: 879372--879715 Score: 447
Period size: 162 Copynumber: 2.1 Consensus size: 162
879362 GTCATTTAGA
* * * * *
879372 TTGCACATGTAGTGCCGATATAATCGTTTATAAATATATTATGAATTTCGTGGGTTACACACTTA
1 TTGCACATTTAGTGCCGATACAATCGTTCATAAACATATTATGAATTTCATGGGTTACACACTTA
* * * * *
879437 GTGCCGATACAGTTGTTCATAAACATATTATGAACTTCGTAGGTTTCACACTTAATGCTGCTACG
66 CTGCCGATACAATCGTTCATAAACATATTATGAACTTCGTAGGTTACACACTTAATGCTGATACG
* *
879502 TTCCTTCATAAACATATTATGAATTCCATGGG
131 GTCCTTCATAAACATATTATAAATTCCATGGG
* *
879534 TTGCACATTTAGTGCCGATACAGTCGTTCATAAACATATTATGAA-TTCAATGGGTTGCACACTT
1 TTGCACATTTAGTGCCGATACAATCGTTCATAAACATATTATGAATTTC-ATGGGTTACACACTT
* * * * * *
879598 ACTGTCGATACAATCGTTCATAAACATATTATTAATTTCGTGGGTTACACTCTTAGTGCTGATAC
65 ACTGCCGATACAATCGTTCATAAACATATTATGAACTTCGTAGGTTACACACTTAATGCTGATAC
* * *
879663 GGTCGTTCATAAACATATTATAAATTTCGTGGG
130 GGTCCTTCATAAACATATTATAAATTCCATGGG
* *
879696 TTGCACACTTAGTGTCGATA
1 TTGCACATTTAGTGCCGATA
879716 GTACATATAG
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
161 3 0.02
162 153 0.98
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (162 bp):
TTGCACATTTAGTGCCGATACAATCGTTCATAAACATATTATGAATTTCATGGGTTACACACTTA
CTGCCGATACAATCGTTCATAAACATATTATGAACTTCGTAGGTTACACACTTAATGCTGATACG
GTCCTTCATAAACATATTATAAATTCCATGGG
Found at i:884407 original size:17 final size:18
Alignment explanation
Indices: 884385--884419 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
884375 AAAAGGGGAA
884385 TTCTTTCTTCTC-TGTTT
1 TTCTTTCTTCTCATGTTT
*
884402 TTCTTTTTTCTCATGTTT
1 TTCTTTCTTCTCATGTTT
884420 AAGGTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.03, C:0.20, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTCTTCTCATGTTT
Found at i:885973 original size:99 final size:99
Alignment explanation
Indices: 885791--885989 Score: 247
Period size: 99 Copynumber: 2.0 Consensus size: 99
885781 GCTACTAAGA
* * * * *
885791 ATGCTACGATAAAACAATAAGCAAAAATCTCTTTTACGCTAAATGGTGCTCTCACATATGCTGAT
1 ATGCTACGACAAAACAATAAGCAAAAATATCTTTTACGCTAAATAGTGCTCTCACATACGCTCAT
* * * *
885856 TTTATGCAGACTATAGTACATCTCTCGAAGCATT
66 TTTATACAGAATACAGTACATCTCTCGAAACATT
* * * * *
885890 ATGCTACGACAATACACTAAG-AAAAATTATCTTTTACGCTAAATATTGCTCTCACGTACGTTCA
1 ATGCTACGACAAAACAATAAGCAAAAA-TATCTTTTACGCTAAATAGTGCTCTCACATACGCTCA
*
885954 TTTTATACAGAATGCAGTACATCTCTCGAAACATT
65 TTTTATACAGAATACAGTACATCTCTCGAAACATT
885989 A
1 A
885990 CTAGGTTGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 5 0.06
99 79 0.94
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (99 bp):
ATGCTACGACAAAACAATAAGCAAAAATATCTTTTACGCTAAATAGTGCTCTCACATACGCTCAT
TTTATACAGAATACAGTACATCTCTCGAAACATT
Found at i:889527 original size:26 final size:26
Alignment explanation
Indices: 889497--889555 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
889487 TTCGGTCAAA
889497 TGATGAAGTTATAGAACATTGTGTTT
1 TGATGAAGTTATAGAACATTGTGTTT
* *
889523 TGATGAAGTTGTAGAACTTTGTGTTT
1 TGATGAAGTTATAGAACATTGTGTTT
889549 TGATGAA
1 TGATGAA
889556 ATTTGATTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (26 bp):
TGATGAAGTTATAGAACATTGTGTTT
Found at i:891298 original size:2 final size:2
Alignment explanation
Indices: 891291--891324 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
891281 TTTGATTATG
891291 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
891325 GTTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893023 original size:12 final size:13
Alignment explanation
Indices: 892994--893027 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
892984 AGAGTGCTAA
892994 AAAATAAATAAAT
1 AAAATAAATAAAT
*
893007 AAAATAAA-AACT
1 AAAATAAATAAAT
893019 AAAATAAAT
1 AAAATAAAT
893028 TGCATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:893822 original size:134 final size:132
Alignment explanation
Indices: 893552--893894 Score: 388
Period size: 134 Copynumber: 2.5 Consensus size: 132
893542 ACACTGCTTA
* * * * * * *
893552 TACATGATGAAGAGTTCTGGTCGTGGATGACACAGTTCCTATGCGATGAGTACGACTGGCCATCT
1 TACATGATGAGGAGATCAGGTCGTGGATGACACAGTTCCAACGAGATGAGGACGACT-GCCATCT
* *
893617 TTAGGGATAATGGTGATAACACGGTTCCTACGGGATGAGGACAACTAGTTATCTAAGGTTGACGC
65 TTAGGG---ATGATGATAACACGGTTCCTACGCGATGAGGACAACTAGTTATCTAAGGTTGACGC
893682 GACTCC
127 GACTCC
* * * *
893688 TACGTGATGAGGAGATCAGGTCGGTGGATGACACAGTTCCAACGTGATGAGGATGGCTGCCAATC
1 TACATGATGAGGAGATCAGGTC-GTGGATGACACAGTTCCAACGAGATGAGGACGACTGCC-ATC
* * *
893753 TTTAGGGATGATGATAACACGGTTCTTACGCGATGAGGA-ATATTGGTTATCTAAGGTTGACGCG
64 TTTAGGGATGATGATAACACGGTTCCTACGCGATGAGGACA-ACTAGTTATCTAAGGTTGACGCG
*
893817 GCTCC
128 ACTCC
* *
893822 TACATGATG-GGAGATCTA-GTCTGTGGATGACACGGTTCCTATC-AGATGAGGACGACTGACCA
1 TACATGATGAGGAGATC-AGGTC-GTGGATGACACAGTTCC-AACGAGATGAGGACGACTG-CCA
893884 TCTTTAGGGAT
62 TCTTTAGGGAT
893895 TAATGTTTCA
Statistics
Matches: 178, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
133 51 0.29
134 67 0.38
136 21 0.12
137 39 0.22
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (132 bp):
TACATGATGAGGAGATCAGGTCGTGGATGACACAGTTCCAACGAGATGAGGACGACTGCCATCTT
TAGGGATGATGATAACACGGTTCCTACGCGATGAGGACAACTAGTTATCTAAGGTTGACGCGACT
CC
Found at i:894001 original size:65 final size:66
Alignment explanation
Indices: 893897--894078 Score: 224
Period size: 65 Copynumber: 2.8 Consensus size: 66
893887 TTAGGGATTA
* * *
893897 ATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTGAAGGGAAACGATCACAAA-GAT
1 ATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATTCGTTTCAAGGGAAACAATCACAAAGGAT
893961 G
66 G
* * * * * *
893962 ATGTTTCAAGAGAAATTGTCTCAAAATAGACAAAATTCGTTTCAAGGGAAATAATCTCAAAGGTT
1 ATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATTCGTTTCAAGGGAAACAATCACAAAGGAT
894027 G
66 G
* ** *
894028 TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAACTT-GTTTCAAGAGAAA
1 ATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAA-TTCGTTTCAAGGGAAA
894079 TAATTTCAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
65 53 0.54
66 44 0.44
67 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (66 bp):
ATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATTCGTTTCAAGGGAAACAATCACAAAGGAT
G
Found at i:894062 original size:66 final size:66
Alignment explanation
Indices: 893898--894094 Score: 245
Period size: 66 Copynumber: 3.0 Consensus size: 66
893888 TAGGGATTAA
* ** * *
893898 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTGAAGGGAAACGATCACAAA-GATG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATAATCTCAAAGGTTG
*
893962 A
66 T
* * * *
893963 TGTTTCAAGAGAAATTGTCTCAAAATAGACAAAATTCGTTTCAAGGGAAATAATCTCAAAGGTTG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATAATCTCAAAGGTTG
894028 T
66 T
* * * *
894029 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAACTT-GTTTCAAGAGAAATAATTTCAAAGTTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTCGTTTCAAGGGAAATAATCTCAAAGGTT
894093 GT
65 GT
894095 CTTAAGGAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
65 52 0.46
66 58 0.52
67 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATAATCTCAAAGGTTG
T
Found at i:912477 original size:13 final size:13
Alignment explanation
Indices: 912461--912502 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
912451 TATGACGGGT
912461 ATTTATGACACTC
1 ATTTATGACACTC
*
912474 ATTTATGACACAC
1 ATTTATGACACTC
*
912487 ATTTATGACGCTC
1 ATTTATGACACTC
912500 ATT
1 ATT
912503 GAGCGTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (13 bp):
ATTTATGACACTC
Found at i:912588 original size:85 final size:84
Alignment explanation
Indices: 912499--912719 Score: 297
Period size: 85 Copynumber: 2.6 Consensus size: 84
912489 TTATGACGCT
*
912499 CATTGAGCGTCATTGAAGCCCCTGTCATAAATGAAGATGACACACATTTGTGTGGCATAAATTTA
1 CATTGAGTGTCATTGAAGCCCC-GTCATAAATGAAGATGACACACATTTGTGTGGCATAAATTTA
* *
912564 TGACATGCATGTATGACTTA
65 AGACACGCATGTATGACTTA
* * *
912584 CATTGAGTGTCATTGAAGCCCCCGTCATAAATGAAGTTGACACACAGTTGTGTGTCATAAATTTA
1 CATTGAGTGTCATTGAAG-CCCCGTCATAAATGAAGATGACACACATTTGTGTGGCATAAATTTA
912649 AGACACGCATGTATGACTTA
65 AGACACGCATGTATGACTTA
* * *
912669 CA-T--GTGTCATTGAAGCACACGTCATTAAA-AAAGATGACACACATTCGTGTG
1 CATTGAGTGTCATTGAAGC-CCCGTCA-TAAATGAAGATGACACACATTTGTGTG
912720 TCGTGGTTGT
Statistics
Matches: 122, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
81 1 0.01
82 36 0.30
83 4 0.03
84 1 0.01
85 76 0.62
86 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (84 bp):
CATTGAGTGTCATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGGCATAAATTTAA
GACACGCATGTATGACTTA
Found at i:913799 original size:12 final size:12
Alignment explanation
Indices: 913782--913812 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
913772 ATATATTGAT
913782 AATCAAATGAAA
1 AATCAAATGAAA
913794 AATCAAATGAAA
1 AATCAAATGAAA
*
913806 AAACAAA
1 AATCAAA
913813 CCTGGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:923958 original size:22 final size:22
Alignment explanation
Indices: 923930--923973 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
923920 ACTTTTTACA
923930 GATGAAACACAATTAAAAGTGT
1 GATGAAACACAATTAAAAGTGT
923952 GATGAAACACAATTAAAAGTGT
1 GATGAAACACAATTAAAAGTGT
923974 ACTCCGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
GATGAAACACAATTAAAAGTGT
Found at i:926524 original size:15 final size:16
Alignment explanation
Indices: 926504--926539 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
926494 TCCAAGAATT
*
926504 GAATAAATAAACTA-A
1 GAATAAAAAAACTAGA
926519 GAATAAAAAAACTAGA
1 GAATAAAAAAACTAGA
926535 GAATA
1 GAATA
926540 CCTCTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (16 bp):
GAATAAAAAAACTAGA
Found at i:929299 original size:19 final size:19
Alignment explanation
Indices: 929275--929319 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
929265 AGAATCCTAC
*
929275 ATGCCCTAGGAAAATTCTT
1 ATGCCCTAGGAAAATTCAT
*
929294 ATGCCCTAGTAAAATTCAT
1 ATGCCCTAGGAAAATTCAT
929313 ATGCCCT
1 ATGCCCT
929320 TCACAGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGCCCTAGGAAAATTCAT
Found at i:932349 original size:27 final size:27
Alignment explanation
Indices: 932317--932390 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
932307 GACAGTGTCG
* *
932317 GAGAAAGATGAACGAGATGACACGACA
1 GAGAAAGATGAACGAGACGACACAACA
* * *
932344 GGGAAAGATGAGCGAGGCGACACAACA
1 GAGAAAGATGAACGAGACGACACAACA
932371 GAGAAAGATGAACGAGACGA
1 GAGAAAGATGAACGAGACGA
932391 TAATGGAGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.34, T:0.05
Consensus pattern (27 bp):
GAGAAAGATGAACGAGACGACACAACA
Found at i:932672 original size:12 final size:12
Alignment explanation
Indices: 932644--932680 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
932634 ACGGGTAATC
932644 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
932657 CCCGCCCCGATA
1 CCCGCCCCGATA
*
932669 CCCGACCCGATA
1 CCCGCCCCGATA
932681 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:932742 original size:24 final size:26
Alignment explanation
Indices: 932715--932779 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
932705 ATATATATAT
*
932715 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
932739 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
932763 ATATATATATATATATA
1 ATA-ATATAAATATATA
932780 CCCGGCCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 18 0.53
25 1 0.03
26 1 0.03
27 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:932757 original size:19 final size:19
Alignment explanation
Indices: 932733--932772 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
932723 AATAAATTTA
932733 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
932752 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
932771 AT
1 AT
932773 ATATATACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:932821 original size:12 final size:12
Alignment explanation
Indices: 932777--932842 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
932767 ATATATATAT
* *
932777 ATACCCGGCCCG
1 ATACCCGACCCA
* *
932789 ATTCCCGGCCCA
1 ATACCCGACCCA
*
932801 ATA-CCGACCTA
1 ATACCCGACCCA
932812 ATACCCGACCCA
1 ATACCCGACCCA
* *
932824 ATTCCCGGCCCA
1 ATACCCGACCCA
932836 ATACCCG
1 ATACCCG
932843 TTTAAATAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 9 0.20
12 35 0.80
ACGTcount: A:0.24, C:0.47, G:0.15, T:0.14
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:933216 original size:29 final size:29
Alignment explanation
Indices: 933174--933243 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
933164 GTACATGAAT
933174 ATTGTGACACTTTCATTGAAACGGTGCGA
1 ATTGTGACACTTTCATTGAAACGGTGCGA
933203 ATTGTGACACTTTCATTGAAACGGTGCGA
1 ATTGTGACACTTTCATTGAAACGGTGCGA
933232 ATTGTG-CACTTT
1 ATTGTGACACTTT
933244 TGTGGCGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
ATTGTGACACTTTCATTGAAACGGTGCGA
Found at i:936839 original size:16 final size:17
Alignment explanation
Indices: 936808--936840 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
936798 CTTTTTAATA
936808 CTTTCAATAAAAGACAT
1 CTTTCAATAAAAGACAT
*
936825 CTTTCAA-ACAAGACAT
1 CTTTCAATAAAAGACAT
936841 GTTTTCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (17 bp):
CTTTCAATAAAAGACAT
Found at i:936947 original size:10 final size:11
Alignment explanation
Indices: 936934--936993 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 11
936924 ATCAAATAAA
936934 AATAATAAT-T
1 AATAATAATAT
936944 AATAAT-ATAT
1 AATAATAATAT
936954 AATAATATATAT
1 AATAATA-ATAT
936966 AATATATATATAT
1 AATA-ATA-ATAT
936979 ATATATATATATAT
1 A-ATA-ATA-ATAT
936993 A
1 A
936994 TATATATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.04
10 13 0.29
12 8 0.18
13 9 0.20
14 13 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AATAATAATAT
Found at i:936955 original size:23 final size:23
Alignment explanation
Indices: 936929--937026 Score: 83
Period size: 25 Copynumber: 4.1 Consensus size: 23
936919 CAAAAATCAA
936929 ATAAAAATA-ATAATTAATA-ATAT
1 ATAAAAATATAT-A-TAATATATAT
*
936952 ATAATAATATATATAATATATAT
1 ATAAAAATATATATAATATATAT
*
936975 ATATATATATATATATATATATATAT
1 ATA-A-AAATATATATA-ATATATAT
* * *
937001 TTCAAAACTATATATAATACATAT
1 AT-AAAAATATATATAATATATAT
937025 AT
1 AT
937027 TTCAATATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.08
23 16 0.26
24 11 0.18
25 18 0.30
26 10 0.16
27 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAAAATATATATAATATATAT
Found at i:936957 original size:17 final size:19
Alignment explanation
Indices: 936935--936995 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
936925 TCAAATAAAA
936935 ATAATAAT-TA-ATAATAT
1 ATAATAATATATATAATAT
936952 ATAATAATATATATAATAT
1 ATAATAATATATATAATAT
936971 ATATATATATATATATATATAT
1 ATA-ATA-ATATATATA-ATAT
936993 ATA
1 ATA
936996 TATATTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.21
18 2 0.05
19 10 0.26
20 3 0.08
21 9 0.23
22 7 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATAATATATATAATAT
Found at i:937016 original size:2 final size:2
Alignment explanation
Indices: 936948--937000 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
936938 ATAATTAATA
936948 AT AT AT A- AT A- AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
936987 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
937001 TTCAAAACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:937041 original size:26 final size:27
Alignment explanation
Indices: 936985--937041 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
936975 ATATATATAT
* *
936985 ATATATATATATATATTTCAAAACTAT
1 ATATATATACATATATTTCAAAACTAA
* *
937012 ATATA-ATACATATATTTCAATATTAA
1 ATATATATACATATATTTCAAAACTAA
937038 ATAT
1 ATAT
937042 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (27 bp):
ATATATATACATATATTTCAAAACTAA
Found at i:937953 original size:26 final size:27
Alignment explanation
Indices: 937924--937983 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
937914 GGTTTGATTC
* * *
937924 TAGAAAATATTTTTTATTTT-TATTTT
1 TAGAAAATAGTTTTCATTTTCAATTTT
*
937950 TAGAAAATGGTTTTCATTTTCAATTTT
1 TAGAAAATAGTTTTCATTTTCAATTTT
937977 TA-AAAAT
1 TAGAAAAT
937984 TAGAAAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (27 bp):
TAGAAAATAGTTTTCATTTTCAATTTT
Found at i:948441 original size:81 final size:81
Alignment explanation
Indices: 948309--948794 Score: 621
Period size: 81 Copynumber: 6.0 Consensus size: 81
948299 ATATAATTCC
* * * * * * * * * *
948309 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCGTCTAACTTGCATGATTGAAACTTTTCTGCCA
1 TTTA-TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCA
*
948374 AATGCACAACTAGGCCA
65 AATGCACAGCTAGGCCA
* * *
948391 TTTATCTTTTACTCAACGGTATTTAACCATTCATCTAGCTGGCATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
* *
948456 ATGCACAGCGAGGCCG
66 ATGCACAGCTAGGCCA
* *
948472 TTTATCTTTTACTCAACGGTATTTAATCGTTTATCTAACTGGCATAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
* *
948537 ATGCACAGCTAAGCTA
66 ATGCACAGCTAGGCCA
* ** * * *
948553 TTTATCTTTTACTCAATGGTATTTAACTTTTCATCTAACTCGCATAATTGACACATTTCTCCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
*
948618 ATGCACAGCTAGACCA
66 ATGCACAGCTAGGCCA
** * * * *
948634 TTTATCTTTTACTCAACGGTATTTAATTGTTCATCTAACTGCCATAATTGATACATTTCTTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
*
948699 ATGCCCAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * *
948715 TTTATCATTTACTCAACGATATTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
*
948780 ATGCACAGTTAGGCC
66 ATGCACAGCTAGGCC
948795 TCAAAGGCAC
Statistics
Matches: 353, Mismatches: 51, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
81 349 0.99
82 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
ATGCACAGCTAGGCCA
Found at i:948728 original size:243 final size:244
Alignment explanation
Indices: 948309--948787 Score: 701
Period size: 243 Copynumber: 2.0 Consensus size: 244
948299 ATATAATTCC
* * * * *
948309 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCGTCTAACTTGCATGATTGAAACTTTTCTGCCA
1 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATCTAACTCGCATAATTGAAACATTTCTCCCA
* * *
948374 AATGCACAACTAGGCCATTTATCTTTTACTCAACGGTATTTAACCATTCATCTAGCTGGCATAAT
66 AATGCACAACTAGACCATTTATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGCCATAAT
* * * *
948439 TGACACCTTTCTGCCAAATGCACAGCGAGGCCGTTTATCTTTTACTCAACGGTATTTAA-TCGTT
131 TGACACATTTCTGCCAAATGCACAGCGAGGCCATTTATCATTTACTCAACGATATTTAACT-GTT
*
948503 TATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAAGCTA
195 CATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAAGCTA
* * * * *
948553 TTTA-TCTTTTACTCAATGGTATTTAACTTTTCATCTAACTCGCATAATTGACACATTTCTCCCA
1 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATCTAACTCGCATAATTGAAACATTTCTCCCA
* ***
948617 AATGCACAGCTAGACCATTTATCTTTTACTCAACGGTATTTAATTGTTCATCTAACTGCCATAAT
66 AATGCACAACTAGACCATTTATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGCCATAAT
* * * *
948682 TGATACATTTCTTCCAAATGCCCAGCTAGGCCATTTATCATTTACTCAACGATATTTAACTGTTC
131 TGACACATTTCTGCCAAATGCACAGCGAGGCCATTTATCATTTACTCAACGATATTTAACTGTTC
948747 ATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAG
196 ATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAG
948788 TTAGGCCTCA
Statistics
Matches: 208, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
243 203 0.98
244 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (244 bp):
TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATCTAACTCGCATAATTGAAACATTTCTCCCA
AATGCACAACTAGACCATTTATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGCCATAAT
TGACACATTTCTGCCAAATGCACAGCGAGGCCATTTATCATTTACTCAACGATATTTAACTGTTC
ATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAAGCTA
Found at i:948835 original size:68 final size:66
Alignment explanation
Indices: 948744--948933 Score: 281
Period size: 67 Copynumber: 2.8 Consensus size: 66
948734 TATTTAACTG
* **
948744 TTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACT-GAATAATTGACACCTTTCTGTC-AATGCACAGTTAGGCCTCAAAGGCACTTAG
948809 TCT
64 TCT
*
948812 TTCATCTAACTAGAATAATTGACACCTTTCTGTCAATGCACAGTTAGGCATCAAAGGCACTTAGT
1 TTCATCTAACT-GAATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGT
948877 CT
65 CT
** *
948879 TTCATCTGGCTGACATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCCCAAA
1 TTCATCTAACTGA-ATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAA
948934 TCTTTTATTT
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
66 2 0.02
67 80 0.71
68 30 0.27
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (66 bp):
TTCATCTAACTGAATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGTC
T
Found at i:953939 original size:81 final size:81
Alignment explanation
Indices: 953826--954013 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 81
953816 ACCTAAAGGA
* * * ** * * * * *
953826 ATTTAACCTTTCGTCTAACTTGCACGATTGACACTTTTTTGCCAAATGTACAACTAGGCCATTTA
1 ATTTAACCATTCATCTAACTGGCATAACTGACACCTTTATACCAAATGCACAACTAGGCCATTTA
**
953891 TCTTTTACTCAACGAT
66 AATTTTACTCAACGAT
* * *
953907 ATTTAAGCGTTCATCTAACTGGCATAACTGACACCTTTATACCAAATGCATAACTAGGCCATTTA
1 ATTTAACCATTCATCTAACTGGCATAACTGACACCTTTATACCAAATGCACAACTAGGCCATTTA
*
953972 AATTTTACTCAATGAT
66 AATTTTACTCAACGAT
953988 ATTTAACCATTCATCTAACTGGCATA
1 ATTTAACCATTCATCTAACTGGCATA
954014 TTTTGCCAAG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
ATTTAACCATTCATCTAACTGGCATAACTGACACCTTTATACCAAATGCACAACTAGGCCATTTA
AATTTTACTCAACGAT
Found at i:954147 original size:144 final size:144
Alignment explanation
Indices: 953887--954157 Score: 380
Period size: 144 Copynumber: 1.9 Consensus size: 144
953877 AACTAGGCCA
* * *
953887 TTTATCTTTTACTCAACGATATTTAAGCGTTCATCTAACTGGCATAACTGACACCTTTATACCAA
1 TTTATCTTTTACTCAACGATATTTAAGAGTTAATCTAACTCGCATAACTGACACCTTTATACCAA
* * *
953952 ATGCATAACTAGGCCATTTAAATTTTACTCAATGATATTTAACCATTCATCTAACTGGCATATTT
66 ATGCACAACTAGACCATTTAAATTTTACTCAATGATATTTAACCATTCATCTAAATGGCATATTT
954017 TGCCAAGTAGGTCT
131 TGCCAAGTAGGTCT
* * * * * *
954031 TTTATCTTTTTCTCAACGGTATTTAATAGTTAATCTAATTCGCATAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGATATTTAAGAGTTAATCTAACTCGCATAACTGACACCTTTATACCAA
** * ** *
954096 ATGCACAGTTAGATCATTTATCTTTTACTCAATGGTATTTAACCATTCATCTAAATGGCATA
66 ATGCACAACTAGACCATTTAAATTTTACTCAATGATATTTAACCATTCATCTAAATGGCATA
954158 ATTGACACCT
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 109 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (144 bp):
TTTATCTTTTACTCAACGATATTTAAGAGTTAATCTAACTCGCATAACTGACACCTTTATACCAA
ATGCACAACTAGACCATTTAAATTTTACTCAATGATATTTAACCATTCATCTAAATGGCATATTT
TGCCAAGTAGGTCT
Found at i:954166 original size:81 final size:81
Alignment explanation
Indices: 954031--954188 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
954021 AAGTAGGTCT
* * *
954031 TTTATCTTTTTCTCAACGGTATTTAATAGTTAATCTAATTCGCATAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGGTATTTAACAGTTAATCTAAATCGCATAATTGACACCTTTCTACCAA
*
954096 ATGCACAGTTAGATCA
66 ACGCACAGTTAGATCA
* * * *
954112 TTTATCTTTTACTCAATGGTATTTAACCA-TTCATCTAAATGGCATAATTGACACCTTTCTGCCA
1 TTTATCTTTTACTCAACGGTATTTAA-CAGTTAATCTAAATCGCATAATTGACACCTTTCTACCA
954176 AACGCACAGTTAG
65 AACGCACAGTTAG
954189 GCCTGATAGG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 67 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTATTTAACAGTTAATCTAAATCGCATAATTGACACCTTTCTACCAA
ACGCACAGTTAGATCA
Found at i:954300 original size:66 final size:68
Alignment explanation
Indices: 954141--954311 Score: 222
Period size: 66 Copynumber: 2.5 Consensus size: 68
954131 TATTTAACCA
* * * *
954141 TTCATCTAAATGGCATAATTGACACCTTTCTGCCAA-ACGCACAGTTAGGCCTGATAGGCACTTA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATAC-CACAGTTAGGCCTGATAAGCACATA
954205 GCCT
65 GCCT
* *
954209 TTCATCTAACTGGCATAATTAACACCTTTCTGTCAATA-CACAGTTAGGCCTTA-AAGCACATAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATACCACAGTTAGGCCTGATAAGCACATAG
*
954272 TCT
66 CCT
* * *
954275 TTCATCTAACCGGTATAATTGACACCTTTTTGTCAAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAT
954312 GAATAGTTAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 43 0.47
67 14 0.15
68 33 0.36
69 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATACCACAGTTAGGCCTGATAAGCACATAG
CCT
Found at i:954629 original size:56 final size:58
Alignment explanation
Indices: 954500--954634 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 58
954490 AAACTCAAAT
* * *
954500 AATTTCTTAGT-TTTTT-CACATAAATGTCTTATACGAAAAATTCATTAACAAATTATG
1 AATTTCTTA-TCTTTTTGCACACAAATGTCTCATACGAAAAATTCATAAACAAATTATG
* * *
954557 AATTCCTTATCATTTTGCACACAAAGTGTC-CATAC-AAATATTCATAAACAAA-TATG
1 AATTTCTTATCTTTTTGCACACAAA-TGTCTCATACGAAAAATTCATAAACAAATTATG
954613 AATTTCTTATCTTTTTGCACAC
1 AATTTCTTATCTTTTTGCACAC
954635 TCAGTGCCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
56 25 0.37
57 27 0.40
58 11 0.16
59 4 0.06
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (58 bp):
AATTTCTTATCTTTTTGCACACAAATGTCTCATACGAAAAATTCATAAACAAATTATG
Found at i:955010 original size:22 final size:22
Alignment explanation
Indices: 954982--955050 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
954972 TACCCCCACC
954982 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
955004 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
955026 ATGGTATCGATACT-CTAT--T
1 ATGGTATCGATACTACTATACT
955045 ATGGTA
1 ATGGTA
955051 CATATACCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.15
21 4 0.09
22 36 0.77
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGGTATCGATACTACTATACT
Found at i:955146 original size:21 final size:21
Alignment explanation
Indices: 955120--955171 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
955110 TTCCCCTCTT
955120 GGTATCGATACCACTTGAATC
1 GGTATCGATACCACTTGAATC
955141 GGTATCGATACCACTTGAATC
1 GGTATCGATACCACTTGAATC
*
955162 -ATATCGATAC
1 GGTATCGATAC
955172 TACTCAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCACTTGAATC
Found at i:959495 original size:21 final size:21
Alignment explanation
Indices: 959469--959535 Score: 134
Period size: 21 Copynumber: 3.2 Consensus size: 21
959459 ATTATAATTC
959469 CTTTAGTCTTTTACCTAAAGG
1 CTTTAGTCTTTTACCTAAAGG
959490 CTTTAGTCTTTTACCTAAAGG
1 CTTTAGTCTTTTACCTAAAGG
959511 CTTTAGTCTTTTACCTAAAGG
1 CTTTAGTCTTTTACCTAAAGG
959532 CTTT
1 CTTT
959536 TAACCTTTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.45
Consensus pattern (21 bp):
CTTTAGTCTTTTACCTAAAGG
Found at i:959657 original size:81 final size:81
Alignment explanation
Indices: 959534--959906 Score: 397
Period size: 81 Copynumber: 4.7 Consensus size: 81
959524 CCTAAAGGCT
* * * ** * * *
959534 TTTAACCTTTCGTCTAACTTGCACGATTGACACTTTTCTGCCAAATGTACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
959599 CTTTTACTCAACGATA
66 CTTTTACTCAACGATA
* * * *
959615 TTTAAGCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCATAGCTAGGCCATTTAA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
*
959680 CTTTTACTCAATGATA
66 CTTTTACTCAACGATA
* * **
959696 TTTAACCATTTATCTAACTGGCATAATTGACATATTTCTG-C-----CA-AG-TAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* *
959753 CTTTTGCTCAACGGTA
66 CTTTTACTCAACGATA
** * * * **
959769 TTTAATAGTTCATCTAATTCGCATAATTGACACCTTTCTACCAAATGCACAGCTAGATCATTTA-
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* * *
959833 -TTTTACTTAATGGTA
66 CTTTTACTCAACGATA
* *
959848 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAACGCACAGTTAGGCC
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
959907 TAATAGGCAC
Statistics
Matches: 238, Mismatches: 46, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
73 55 0.23
74 3 0.01
75 2 0.01
79 64 0.27
80 3 0.01
81 111 0.47
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
CTTTTACTCAACGATA
Found at i:959807 original size:73 final size:73
Alignment explanation
Indices: 959668--959812 Score: 175
Period size: 73 Copynumber: 2.0 Consensus size: 73
959658 AATGCATAGC
* * * *
959668 TAGGCCATTTAACTTTTACTCAATGATATTTAACCATTTATCTAACTGGCATAATTGACATATTT
1 TAGGCCATTTAACTTTTACTCAACGATATTTAACCATTCATCTAACTCGCATAATTGACACATTT
*
959733 CTGCCAAG
66 CTACCAAG
* * * * * *
959741 TAGGCCATTTATCTTTTGCTCAACGGTATTTAA-TAGTTCATCTAATTCGCATAATTGACACCTT
1 TAGGCCATTTAACTTTTACTCAACGATATTTAACCA-TTCATCTAACTCGCATAATTGACACATT
959805 TCTACCAA
65 TCTACCAA
959813 ATGCACAGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 1 0.02
73 59 0.98
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (73 bp):
TAGGCCATTTAACTTTTACTCAACGATATTTAACCATTCATCTAACTCGCATAATTGACACATTT
CTACCAAG
Found at i:959813 original size:154 final size:152
Alignment explanation
Indices: 959587--959891 Score: 439
Period size: 154 Copynumber: 2.0 Consensus size: 152
959577 AATGTACAAC
* *
959587 TAGGCCATTTATCTTTTACTCAACGATATTTAAGCGTTCATCTAACTGGCATAATTGACACCTTT
1 TAGGCCATTTATCTTTTACTCAACGATATTTAAGAGTTCATCTAACTCGCATAATTGACACCTTT
* * * *
959652 ATGCCAAATGCATAGCTAGGCCATTTAACTTTTACTCAATGATATTTAACCATTTATCTAACTGG
66 ATACCAAATGCACAGCTAGACCATTT-A-TTTTACTCAATGATATTTAACCATTCATCTAACTGG
*
959717 CATAATTGACATATTTCTGCCAAG
129 CATAATTGACACATTTCTGCCAAG
* * * *
959741 TAGGCCATTTATCTTTTGCTCAACGGTATTTAATAGTTCATCTAATTCGCATAATTGACACCTTT
1 TAGGCCATTTATCTTTTACTCAACGATATTTAAGAGTTCATCTAACTCGCATAATTGACACCTTT
* * * * *
959806 CTACCAAATGCACAGCTAGATCATTTATTTTACTTAATGGTATTTAACCGTTCATCTAACTGGCA
66 ATACCAAATGCACAGCTAGACCATTTATTTTACTCAATGATATTTAACCATTCATCTAACTGGCA
*
959871 TAATTGACACCTTTCTGCCAA
131 TAATTGACACATTTCTGCCAA
959892 ACGCACAGTT
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
152 53 0.40
153 1 0.01
154 80 0.60
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (152 bp):
TAGGCCATTTATCTTTTACTCAACGATATTTAAGAGTTCATCTAACTCGCATAATTGACACCTTT
ATACCAAATGCACAGCTAGACCATTTATTTTACTCAATGATATTTAACCATTCATCTAACTGGCA
TAATTGACACATTTCTGCCAAG
Found at i:960001 original size:67 final size:67
Alignment explanation
Indices: 959856--960037 Score: 267
Period size: 67 Copynumber: 2.7 Consensus size: 67
959846 TATTTAACCG
* * *
959856 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAACGCACAGTTAGGCCTAATAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTAGGCCTAATAGGCACGTAG
959921 CCT
65 CCT
*
959924 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACATTTAGGCCTCAA-AGGCACGTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCT-AATAGGCACGTAG
*
959988 TCT
65 CCT
* * *
959991 TTCATCTAACTGGTATAATTGACACCTTTTTGTCAATGCAAAGTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
960038 ACCTGAAATC
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
67 69 0.66
68 35 0.34
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (67 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAGGCCTAATAGGCACGTAGC
CT
Found at i:960307 original size:57 final size:57
Alignment explanation
Indices: 960226--960350 Score: 180
Period size: 57 Copynumber: 2.2 Consensus size: 57
960216 AATTTTATAG
* * *
960226 TTTTTGCACATAAATGTCTTATACGAAAATTCATTAACAAATTATGAATTCCTTATC
1 TTTTTGCACACAAATGTCTCATACGAAAATTCATAAACAAATTATGAATTCCTTATC
* *
960283 TTTTTGCACACAAAGTGTC-CATACGAATATTCATAAACAAATTATGAATTTCTTATC
1 TTTTTGCACACAAA-TGTCTCATACGAAAATTCATAAACAAATTATGAATTCCTTATC
*
960340 TTTTTTCACAC
1 TTTTTGCACAC
960351 TCAGTGCCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 57 0.93
58 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (57 bp):
TTTTTGCACACAAATGTCTCATACGAAAATTCATAAACAAATTATGAATTCCTTATC
Found at i:960726 original size:22 final size:22
Alignment explanation
Indices: 960698--960759 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
960688 TACCCCCACC
960698 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
960720 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
960742 ATGGTATCGATACT-CTAT
1 ATGGTATCGATACTACTAT
960760 TACGGTACCG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (22 bp):
ATGGTATCGATACTACTATACT
Found at i:960766 original size:19 final size:21
Alignment explanation
Indices: 960698--960773 Score: 102
Period size: 22 Copynumber: 3.6 Consensus size: 21
960688 TACCCCCACC
960698 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
960720 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
960742 ATGGTATCGATACT-CTAT-T
1 ATGGTATCGATACTACTATAT
* *
960761 ACGGTACCGATAC
1 ATGGTATCGATAC
960774 CATTTTTGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 12 0.23
21 4 0.08
22 36 0.69
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (21 bp):
ATGGTATCGATACTACTATAT
Found at i:964872 original size:2 final size:2
Alignment explanation
Indices: 964865--964889 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
964855 TCTATTCTAT
964865 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
964890 CACATGTGAT
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:966431 original size:26 final size:26
Alignment explanation
Indices: 966384--966464 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
966374 TTCGTTTAGG
* *
966384 TTTATATATATT-ATTATAATTAATTA
1 TTTATATATGTTCA-TATTATTAATTA
966410 TTTATATATGTTCATATTATT-ATTA
1 TTTATATATGTTCATATTATTAATTA
* * *
966435 ATTATAT-GGGTCA-ATTATTAATTA
1 TTTATATATGTTCATATTATTAATTA
966459 -TTATAT
1 TTTATAT
966465 TTAGTCTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 12 0.25
24 8 0.17
25 10 0.21
26 17 0.35
27 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATATATGTTCATATTATTAATTA
Found at i:966572 original size:2 final size:2
Alignment explanation
Indices: 966565--966591 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
966555 ATTAAATCGA
966565 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
966592 CACATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:985298 original size:21 final size:21
Alignment explanation
Indices: 985283--985327 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
985273 TTAAATGTTA
985283 TTTTAATAAAATTAAAATTAT
1 TTTTAATAAAATTAAAATTAT
* * *
985304 TTTTATTAAAATGAAAATTGT
1 TTTTAATAAAATTAAAATTAT
985325 TTT
1 TTT
985328 GGGTGCCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTAATAAAATTAAAATTAT
Found at i:989107 original size:14 final size:14
Alignment explanation
Indices: 989090--989136 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
989080 ACGCCTATAA
*
989090 CATCACCATTTTTT
1 CATCACCATTTTTC
* *
989104 CATCACTATCTTTC
1 CATCACCATTTTTC
*
989118 CATCACCA-TTCTC
1 CATCACCATTTTTC
989131 CATCAC
1 CATCAC
989137 ATTCACGCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (14 bp):
CATCACCATTTTTC
Found at i:997491 original size:24 final size:22
Alignment explanation
Indices: 997435--997480 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
997425 TCGAAGTAAC
*
997435 ATTCATAATAAACATCTTATAT
1 ATTCATAATAAAAATCTTATAT
* *
997457 ATTCATGATAAAAATCATATAT
1 ATTCATAATAAAAATCTTATAT
997479 AT
1 AT
997481 ATATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTCATAATAAAAATCTTATAT
Found at i:1012967 original size:21 final size:18
Alignment explanation
Indices: 1012928--1012984 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
1012918 CTTTGGCTAA
1012928 AAAAGATAAAAAGAAAAC
1 AAAAGATAAAAAGAAAAC
*
1012946 AAAAGAATGAAAAATGAGAAC
1 AAAAG-AT-AAAAA-GAAAAC
*
1012967 AAGAAAATAAAAAGAAAA
1 AA-AAGATAAAAAGAAAA
1012985 AAATAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 10 0.31
21 9 0.28
22 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAGATAAAAAGAAAAC
Found at i:1014880 original size:26 final size:25
Alignment explanation
Indices: 1014833--1014890 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
1014823 TCTATTTGGG
1014833 TTTATATATATTATTATAATTAGTTA
1 TTTATATATATTATTATAATTA-TTA
* *
1014859 TTTATATATGTTCA-TATTATTATTA
1 TTTATATATATT-ATTATAATTATTA
*
1014884 ATTATAT
1 TTTATAT
1014891 GGTTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 18 0.64
27 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTATATATATTATTATAATTATTA
Found at i:1014899 original size:22 final size:21
Alignment explanation
Indices: 1014849--1014912 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
1014839 TATATTATTA
*
1014849 TAATTAGTTATTTA-TATATGT
1 TAATTA-TTATTAATTATATGT
1014870 TCATATTATTATTAATTATATGGT
1 T-A-ATTATTATTAATTATAT-GT
*
1014894 TAATTATTAATAATTATAT
1 TAATTATTATTAATTATAT
1014913 TTAGTCATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 1 0.03
22 23 0.62
23 10 0.27
24 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
TAATTATTATTAATTATATGT
Found at i:1018003 original size:17 final size:18
Alignment explanation
Indices: 1017981--1018019 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1017971 GAAAAAAATT
1017981 ATTTTTTAATTACAAC-A
1 ATTTTTTAATTACAACTA
*
1017998 ATTTTTTAATTATAACTA
1 ATTTTTTAATTACAACTA
1018016 ATTT
1 ATTT
1018020 CTATAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTTAATTACAACTA
Found at i:1018773 original size:28 final size:28
Alignment explanation
Indices: 1018733--1018791 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1018723 TTCTTTGTTG
*
1018733 AGTCTCTCGACTATCAAGGTTACAAAAT
1 AGTCACTCGACTATCAAGGTTACAAAAT
*
1018761 AGTCACTCGACTATCATGGTTACAAAAT
1 AGTCACTCGACTATCAAGGTTACAAAAT
1018789 AGT
1 AGT
1018792 AACCCAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (28 bp):
AGTCACTCGACTATCAAGGTTACAAAAT
Found at i:1018801 original size:28 final size:28
Alignment explanation
Indices: 1018742--1018802 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
1018732 GAGTCTCTCG
* * *
1018742 ACTATCAAGGTTACAAAATAGTCACTCG
1 ACTATCAAGGTTACAAAATAGTAACCCA
*
1018770 ACTATCATGGTTACAAAATAGTAACCCA
1 ACTATCAAGGTTACAAAATAGTAACCCA
1018798 ACTAT
1 ACTAT
1018803 TCATATGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (28 bp):
ACTATCAAGGTTACAAAATAGTAACCCA
Found at i:1030965 original size:26 final size:26
Alignment explanation
Indices: 1030929--1030979 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
1030919 CCTTCTAGAG
1030929 AATTTTATGTTGGAAAAATTTATCAC
1 AATTTTATGTTGGAAAAATTTATCAC
1030955 AATTTTATGTTGGAAAAATTTATCA
1 AATTTTATGTTGGAAAAATTTATCA
1030980 TACTCTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (26 bp):
AATTTTATGTTGGAAAAATTTATCAC
Found at i:1039901 original size:15 final size:16
Alignment explanation
Indices: 1039883--1039920 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1039873 AATTTTAGGG
*
1039883 TTAGAGATTT-TAAGT
1 TTAGAGATTTATAAAT
*
1039898 TTAGGGATTTATAAAT
1 TTAGAGATTTATAAAT
1039914 TTAGAGA
1 TTAGAGA
1039921 GATCGAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (16 bp):
TTAGAGATTTATAAAT
Found at i:1041165 original size:17 final size:18
Alignment explanation
Indices: 1041145--1041180 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1041135 AAAATTTTTG
1041145 AAAACTTT-AAAAATCTC
1 AAAACTTTGAAAAATCTC
*
1041162 AAAACTTTGAAAATTCTC
1 AAAACTTTGAAAAATCTC
1041180 A
1 A
1041181 TTCCAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAACTTTGAAAAATCTC
Found at i:1041548 original size:23 final size:22
Alignment explanation
Indices: 1041521--1041564 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
1041511 AATATACATT
1041521 TTTTTATAAATATAATAATTTTTA
1 TTTTTATAAA-ATAA-AATTTTTA
*
1041545 TTTTTTTAAAATAAAATTTT
1 TTTTTATAAAATAAAATTTT
1041565 CAAAATAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTTATAAAATAAAATTTTTA
Found at i:1041548 original size:25 final size:22
Alignment explanation
Indices: 1041520--1041564 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 22
1041510 GAATATACAT
1041520 TTTTTTATAAATATAATAATTTTTA
1 TTTTTT-TAAA-ATAA-AATTTTTA
1041545 TTTTTTTAAAATAAAATTTT
1 TTTTTTTAAAATAAAATTTT
1041565 CAAAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 4 0.20
25 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTTTAAAATAAAATTTTTA
Found at i:1045928 original size:23 final size:24
Alignment explanation
Indices: 1045902--1045954 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1045892 TTATGTTGTC
1045902 CTTCGGGATA-AATCTATCTGGCA
1 CTTCGGGATATAATCTATCTGGCA
** *
1045925 CTTCGGTCTATAATCTATGTGGCA
1 CTTCGGGATATAATCTATCTGGCA
1045949 CTTCGG
1 CTTCGG
1045955 TGCAAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (24 bp):
CTTCGGGATATAATCTATCTGGCA
Found at i:1049193 original size:16 final size:16
Alignment explanation
Indices: 1049172--1049209 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1049162 TCCAAGAAAT
*
1049172 GTTTCTGAAGTACGGA
1 GTTTCTGAAGTACAGA
1049188 GTTTCTGAAGTACAGA
1 GTTTCTGAAGTACAGA
1049204 GTTTCT
1 GTTTCT
1049210 TGGGATTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (16 bp):
GTTTCTGAAGTACAGA
Found at i:1052690 original size:28 final size:28
Alignment explanation
Indices: 1052650--1052704 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
1052640 GCCCAAAGTG
1052650 TATGCCATGAGAATTAGAGGTATAATTA
1 TATGCCATGAGAATTAGAGGTATAATTA
*
1052678 TATGCTATGAGAATTAGAGGTATAATT
1 TATGCCATGAGAATTAGAGGTATAATT
1052705 GGCATGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
TATGCCATGAGAATTAGAGGTATAATTA
Found at i:1052800 original size:23 final size:23
Alignment explanation
Indices: 1052725--1052809 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
1052715 GAGTTGAGGG
* * **
1052725 ATTCTATGTGGTCCTTTAGGACA
1 ATTCTACGCGGTCCTTCGGGACA
* *
1052748 ATTCTATGTGGTCCTTCGGGACA
1 ATTCTACGCGGTCCTTCGGGACA
*
1052771 ATTCTACGCGGTCTTTCGGGACA
1 ATTCTACGCGGTCCTTCGGGACA
*
1052794 ATTCTACACGGTCCTT
1 ATTCTACGCGGTCCTT
1052810 TGGTGCATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTCTACGCGGTCCTTCGGGACA
Found at i:1056638 original size:17 final size:18
Alignment explanation
Indices: 1056616--1056649 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1056606 CTGAGCAACG
*
1056616 AAACCGAGAA-AACCGAA
1 AAACCGACAAGAACCGAA
1056633 AAACCGACAAGAACCGA
1 AAACCGACAAGAACCGA
1056650 GTAAAACGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.26, G:0.18, T:0.00
Consensus pattern (18 bp):
AAACCGACAAGAACCGAA
Found at i:1063930 original size:13 final size:14
Alignment explanation
Indices: 1063888--1063931 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1063878 AATTCAATAG
1063888 TTTTTTAAGTGTCAA
1 TTTTTTAA-TGTCAA
**
1063903 GCTTTTAATGTCAA
1 TTTTTTAATGTCAA
1063917 TTTTTTAATG-CAA
1 TTTTTTAATGTCAA
1063930 TT
1 TT
1063932 GTTGAGGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 5 0.20
14 14 0.56
15 6 0.24
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.52
Consensus pattern (14 bp):
TTTTTTAATGTCAA
Found at i:1073521 original size:21 final size:20
Alignment explanation
Indices: 1073485--1073527 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1073475 ATCTCTAAAC
*
1073485 ATCATTTCCATTCAATTTCA
1 ATCAATTCCATTCAATTTCA
1073505 ATCAATTCCATTTCAATTTCA
1 ATCAATTCCA-TTCAATTTCA
1073526 AT
1 AT
1073528 TCATCTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
ATCAATTCCATTCAATTTCA
Found at i:1073530 original size:11 final size:11
Alignment explanation
Indices: 1073488--1073530 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1073478 TCTAAACATC
*
1073488 ATTTCCATTCA
1 ATTTCAATTCA
1073499 ATTTCAA-TCA
1 ATTTCAATTCA
* *
1073509 ATTCCATTTCA
1 ATTTCAATTCA
1073520 ATTTCAATTCA
1 ATTTCAATTCA
1073531 TCTTCATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTCAATTCA
Found at i:1074368 original size:31 final size:29
Alignment explanation
Indices: 1074333--1074420 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 29
1074323 AATATATTTT
1074333 TTTTAGAAAATTACAGCTTTGGTCACTAAAC
1 TTTTA-AAAATTACA-CTTTGGTCACTAAAC
* *
1074364 TTTTACTAAATTTATACTTTGG-CTACTAAAC
1 TTTTA--AAAATTACACTTTGGTC-ACTAAAC
* *
1074395 TTTCAAAAATTACATTTTGGTCACTA
1 TTTTAAAAATTACACTTTGGTCACTA
1074421 GCCAAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
29 16 0.34
30 2 0.04
31 22 0.47
32 7 0.15
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATTACACTTTGGTCACTAAAC
Found at i:1074997 original size:39 final size:39
Alignment explanation
Indices: 1074953--1075031 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
1074943 TCTTAGTTTT
1074953 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
1 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
*
1074992 CATGGATTGAATAATCTTATCCGACATGGGAATAAATGG
1 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
1075031 C
1 C
1075032 TTCACATCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (39 bp):
CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
Done.