Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 290 of 438
Found at i:90874564 original size:24 final size:24
Alignment explanation
Indices: 90874537--90874583 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
90874527 AAGAAACATT
90874537 ATTAGAACTAGAATCAGAATCAGA
1 ATTAGAACTAGAATCAGAATCAGA
* *
90874561 ATTAGAATTAGAATTAGAATCAG
1 ATTAGAACTAGAATCAGAATCAG
90874584 GTGACAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (24 bp):
ATTAGAACTAGAATCAGAATCAGA
Found at i:90874594 original size:37 final size:37
Alignment explanation
Indices: 90874551--90874703 Score: 123
Period size: 37 Copynumber: 4.5 Consensus size: 37
90874541 GAACTAGAAT
* ** * *
90874551 CAGAATCAGAATTAGAATTAGAATTAGAATCAGGTGA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
* *
90874588 CAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
90874625 CAGAATCAGAAT------CAG--T----ATCAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
* * * *
90874650 CAAAATTAGAATCAGAACTAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
90874687 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
90874704 TATGAATGCA
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
25 18 0.20
29 1 0.01
31 5 0.06
33 1 0.01
37 64 0.72
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
Found at i:90874600 original size:19 final size:19
Alignment explanation
Indices: 90874570--90874701 Score: 101
Period size: 19 Copynumber: 6.7 Consensus size: 19
90874560 AATTAGAATT
* *
90874570 AGAATTAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
*
90874589 AGAATCAAAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
90874607 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
90874626 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAG----A--ATCAGGTAAC
* *
90874651 AAAATTAGAATCA-G-AAC
1 AGAATCAGAATCAGGTAAC
*
90874668 TAGAATCAGAATTAGGTAAC
1 -AGAATCAGAATCAGGTAAC
90874688 AGAATCAGAATCAG
1 AGAATCAGAATCAG
90874702 AATATGAATG
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
17 4 0.04
18 24 0.27
19 39 0.44
20 5 0.06
21 1 0.01
23 1 0.01
25 15 0.17
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:90874628 original size:25 final size:25
Alignment explanation
Indices: 90874600--90874666 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
90874590 GAATCAAAAT
* *
90874600 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
90874625 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
90874650 CAAAATTAGAATCAGAA
1 CAGAATCAGAATCAGAA
90874667 CTAGAATCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:90874646 original size:62 final size:62
Alignment explanation
Indices: 90874564--90874704 Score: 210
Period size: 62 Copynumber: 2.3 Consensus size: 62
90874554 AATCAGAATT
* * * *
90874564 AGAATTAGAATTAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAACCAGAATCAGAATTAGGTAAC
* * * *
90874626 AGAATCAGAATCAGTATCAGGTAACAAAATTAGAATCAGAACTAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAACCAGAATCAGAATTAGGTAAC
90874688 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
90874705 ATGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (62 bp):
AGAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAACCAGAATCAGAATTAGGTAAC
Found at i:90874871 original size:27 final size:26
Alignment explanation
Indices: 90874823--90874882 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
90874813 GCGAGGCTGC
*
90874823 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
90874850 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
90874876 CAGATAT
1 CAGATAT
90874883 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90875239 original size:27 final size:27
Alignment explanation
Indices: 90875209--90875564 Score: 446
Period size: 27 Copynumber: 13.2 Consensus size: 27
90875199 AACACCCTAG
* * *
90875209 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
** *
90875236 GGGTAAAACGGCAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
90875263 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
90875290 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
90875317 GGGTAAAACT-TTAATTCTGTAAATCGA
1 GGGTAAAA-TAGTAATTCTGTAAATCGA
** * *
90875344 AAGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
90875371 GGGTAAAATAGTAACTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
90875398 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
90875425 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
90875452 GGGTAAACT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
*
90875479 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
90875506 GGGTAAAATAATAATTCTATAAATAGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
90875533 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
90875560 GGGTA
1 GGGTA
90875565 CTTTGATAAT
Statistics
Matches: 282, Mismatches: 43, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 278 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTGTAAATCGA
Found at i:90875574 original size:27 final size:26
Alignment explanation
Indices: 90875409--90875686 Score: 119
Period size: 27 Copynumber: 10.3 Consensus size: 26
90875399 GGTAAAATAG
* **
90875409 TAATTCTATAAATCGAGGGTAAAAT-A
1 TAATTTTATAAATCGAGGGT-ATTTGA
* **
90875435 GTAATTCTATAAATCGAGGGTAAACTGA
1 -TAATTTTATAAATCGAGGGT-ATTTGA
* ****
90875463 TAATTTTGTAAATCGAGGGTAAAACA
1 TAATTTTATAAATCGAGGGTATTTGA
* * ** *
90875489 GTAATTCTGTAAATCGAGGGTAAAATAA
1 -TAATTTTATAAATCGAGGGT-ATTTGA
* * ** *
90875517 TAATTCTATAAATAGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGT-ATTTGA
*
90875544 TAATTTTGTAAATCGAGGGTACTTTGA
1 TAATTTTATAAATCGAGGGTA-TTTGA
* ** *
90875571 TAATTTTACATGTCGAGGGTATTTCA
1 TAATTTTATAAATCGAGGGTATTTGA
** *
90875597 GTAATTTTGCAAA-CTGAGGATATTTCGA
1 -TAATTTTATAAATC-GAGGGTATTT-GA
* * * *
90875625 TAATTTTACAAATCAAGGATATTTGGG
1 TAATTTTATAAATCGAGGGTATTT-GA
* *
90875652 TAATTTTATAAACCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTA-TTTGA
90875679 TAATTTTA
1 TAATTTTA
90875687 CAACTGGGGG
Statistics
Matches: 205, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
26 9 0.04
27 186 0.91
28 10 0.05
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (26 bp):
TAATTTTATAAATCGAGGGTATTTGA
Found at i:90875589 original size:54 final size:54
Alignment explanation
Indices: 90875209--90875689 Score: 278
Period size: 54 Copynumber: 8.9 Consensus size: 54
90875199 AACACCCTAG
* * *** ** * **
90875209 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGCAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* ** *
90875263 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAAT-AGTAATTCTATC-AATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTA-CAAATCGA
* * ** ** ** *
90875317 GGGTAAAACT-TTAATTCTGTAAATCGAAAGTAAAAT-AGTAATTTTGTAAATTGA
1 GGGTAAAA-TAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
* * ** * *
90875371 GGGTAAAATAGTAACTCTGTAAATCGAGGGTAAAAT-AGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
* * ** **
90875425 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAACTGATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * ** * * * *
90875479 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATAGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * **
90875533 GGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
** * * *
90875587 GGGT-ATTTCAGTAATTTTGCAAA-CTGAGGAT-ATTTCGATAATTTTACAAATCAA
1 GGGTAAAAT-AGTAATTTTGTAAATC-GAGGGTAATTT-GATAATTTTACAAATCGA
* ** * * * * *
90875641 GGAT-ATTTGGGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAA
1 GGGTAAAAT-AGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAA
90875690 CTGGGGGTAT
Statistics
Matches: 351, Mismatches: 65, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
53 7 0.02
54 338 0.96
55 6 0.02
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
Found at i:90875707 original size:26 final size:26
Alignment explanation
Indices: 90875558--90875710 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 26
90875548 TTTGTAAATC
* **
90875558 GAGGGTACTTTGA-TAATTTTACATGT
1 GAGGGTA-TTTCAGTAATTTTACAACT
*
90875584 CGAGGGTATTTCAGTAATTTTGCAAACT
1 -GAGGGTATTTCAGTAATTTTAC-AACT
* *
90875612 GAGGATATTTC-GATAATTTTACAAAT
1 GAGGGTATTTCAG-TAATTTTACAACT
* * ** * *
90875638 CAAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCAGTAATTTTA-CAACT
*
90875666 GAGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCAGTAATTTTACAACT
*
90875692 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
90875711 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.03
26 24 0.24
27 65 0.65
28 8 0.08
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (26 bp):
GAGGGTATTTCAGTAATTTTACAACT
Found at i:90878717 original size:37 final size:37
Alignment explanation
Indices: 90878653--90879321 Score: 594
Period size: 37 Copynumber: 18.3 Consensus size: 37
90878643 AATGAATATC
* * * *
90878653 GATTCTATTG-AAGTGCT-GAATGAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
90878688 GATTCTACTAAAAGTGCTCAAACGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * *
90878725 GATTCTATTTAACGTGCTCAAACAAGAAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * *
90878762 GATTTTACTGAAAGTGCTC-AATGAGCAAT-GCCACA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
90878797 GATCCTACTGAATGTGCTCAAACGAG-AATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
90878833 GATTTTACTGGAAGTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
90878870 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
90878907 GGTACTACAGAAAGTGCTC-AACGAGCAATATCTA--
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * *
90878941 -ATCCTATTGAATA-TGATCAAATGAACAATGTCTACT
1 GATTCTACTGAA-AGTGCTCAAACGAGCAATATCTACT
* *
90878977 GATTCTACTGAAAGTGCTCAAACAAGAAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
90879014 GATTCTACTGAAAGTGCTC-AACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * * *
90879050 GATCCTACTGAATGTGCTCAACCAAGCAATGTTTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
90879087 GATTCTACT-AAAGTGCTCAAATGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
90879123 GGTTCTACT-AGAAGTGCTC-AACGAGCAATATCTGCT
1 GATTCTACTGA-AAGTGCTCAAACGAGCAATATCTACT
* * ** * *
90879159 GATCCTACTGAATGTAATCAAACAAGCAATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
90879196 GATTCTACTG-AACTGCTCAAACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
90879232 GATTCTACTGATTAGTTGCTCAAACGAGCAATATCCATT
1 GATTCTACTGA-AAG-TGCTCAAACGAGCAATATCTACT
* * * *
90879271 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTCTACTGAAAG--TGCTCAAACGAGCAATATCTACT
*
90879310 GATTATACTGAA
1 GATTCTACTGAA
90879322 TAAGATTTTT
Statistics
Matches: 509, Mismatches: 106, Indels: 34
0.78 0.16 0.05
Matches are distributed among these distances:
33 11 0.02
34 13 0.03
35 30 0.06
36 173 0.34
37 215 0.42
38 2 0.00
39 65 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (37 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
Found at i:90878934 original size:73 final size:74
Alignment explanation
Indices: 90878653--90879321 Score: 594
Period size: 73 Copynumber: 9.2 Consensus size: 74
90878643 AATGAATATC
* * * * *
90878653 GATTCTATTG-AAGTGCT-GAATGAGCAATATCTATTGATTCTACTAAAAGTGCTCAAACGAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
90878716 ATATCTACT
66 ATATCTACT
* * * * * * *
90878725 GATTCTATTTAACGTGCTCAAACAAGAAATATCTACTGATTTTACTGAAAGTGCTC-AATGAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* * *
90878789 AT-GCCACA
66 ATATCTACT
* * * * * *
90878797 GATCCTACTGAATGTGCTCAAACGAG-AATGTCTACTGATTTTACTGGAAGTGCTCAAACAAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
*
90878861 ATATCTATT
66 ATATCTACT
* * * * * *
90878870 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATTGGTACTACAGAAAGTGCTC-AACGAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
90878934 ATATCTA--
66 ATATCTACT
* * * * * * * *
90878941 -ATCCTATTGAATA-TGATCAAATGAACAATGTCTACTGATTCTACTGAAAGTGCTCAAACAAGA
1 GATTCTACTGAA-AGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGC
90879004 AATATCTACT
65 AATATCTACT
* * * * * *
90879014 GATTCTACTGAAAGTGCTC-AACGAGAAATATCTATTGATCCTACTGAATGTGCTCAACCAAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* * *
90879078 ATGTTTATT
66 ATATCTACT
* *
90879087 GATTCTACT-AAAGTGCTCAAATGAGCAATATCTACTGGTTCTACT-AGAAGTGCTC-AACGAGC
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGA-AAGTGCTCAAACGAGC
*
90879149 AATATCTGCT
65 AATATCTACT
* * ** * * * *
90879159 GATCCTACTGAATGTAATCAAACAAGCAATGTCTACTGATTCTACTG-AACTGCTCAAACGAGAA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
*
90879223 ATATCTATT
66 ATATCTACT
* * * * *
90879232 GATTCTACTGATTAGTTGCTCAAACGAGCAATATCCATTGATTATACTGAATGCTTGCTCAAACG
1 GATTCTACTGA-AAG-TGCTCAAACGAGCAATATCTACTGATTCTACTGAAAG--TGCTCAAACG
* *
90879297 AGCATTATCCACT
62 AGCAATATCTACT
*
90879310 GATTATACTGAA
1 GATTCTACTGAA
90879322 TAAGATTTTT
Statistics
Matches: 468, Mismatches: 108, Indels: 37
0.76 0.18 0.06
Matches are distributed among these distances:
70 41 0.09
71 41 0.09
72 77 0.16
73 188 0.40
74 65 0.14
75 26 0.06
76 1 0.00
78 29 0.06
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (74 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
ATATCTACT
Found at i:90879129 original size:109 final size:111
Alignment explanation
Indices: 90878653--90879321 Score: 641
Period size: 109 Copynumber: 6.1 Consensus size: 111
90878643 AATGAATATC
* * * * *
90878653 GATTCTATTG-AAGTGCT-GAATGAGCAATATCTATTGATTCTACTAAAAGTGCTCAAACGAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* * * * * *
90878716 ATATCTACTGATTCTATTTAACGTGCTCAAACAAGAAATATCTACT
66 ATATCTACTGATCCTACTGAATGTGCTCAAACAAGCAATGTCTACT
* * * * * * *
90878762 GATTTTACTGAAAGTGCTC-AATGAGCAAT-GCCACAGATCCTACTGAATGTGCTCAAACGAG-A
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* ** * *
90878824 ATGTCTACTGATTTTACTGGAA-GTGCTCAAACAAGCAATATCTATT
66 ATATCTACTGATCCTACT-GAATGTGCTCAAACAAGCAATGTCTACT
* * * * * *
90878870 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATTGGTACTACAGAAAGTGCTC-AACGAGCA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* * * *
90878934 ATATCTA---ATCCTATTGAATATGATCAAATGAA-CAATGTCTACT
66 ATATCTACTGATCCTACTGAATGTGCTCAAA-CAAGCAATGTCTACT
* * *
90878977 GATTCTACTGAAAGTGCTCAAACAAGAAATATCTACTGATTCTACTGAAAGTGCTC-AACGAGAA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
* * * *
90879041 ATATCTATTGATCCTACTGAATGTGCTCAACCAAGCAATGTTTATT
66 ATATCTACTGATCCTACTGAATGTGCTCAAACAAGCAATGTCTACT
* *
90879087 GATTCTACT-AAAGTGCTCAAATGAGCAATATCTACTGGTTCTACT-AGAAGTGCTC-AACGAGC
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGA-AAGTGCTCAAACGAGC
* **
90879149 AATATCTGCTGATCCTACTGAATGTAATCAAACAAGCAATGTCTACT
65 AATATCTACTGATCCTACTGAATGTGCTCAAACAAGCAATGTCTACT
* * * *
90879196 GATTCTACTG-AACTGCTCAAACGAGAAATATCTATTGATTCTACTGATTAGTTGCTCAAACGAG
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGA-AAG-TGCTCAAACGAG
* * ** * * * *
90879260 CAATATCCATTGATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
64 CAATATCTACTGATCCTACTGAATG--TGCTCAAACAAGCAATGTCTACT
*
90879310 GATTATACTGAA
1 GATTCTACTGAA
90879322 TAAGATTTTT
Statistics
Matches: 459, Mismatches: 81, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
106 3 0.01
107 84 0.18
108 59 0.13
109 176 0.38
110 79 0.17
111 5 0.01
112 26 0.06
114 26 0.06
115 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (111 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGAGCA
ATATCTACTGATCCTACTGAATGTGCTCAAACAAGCAATGTCTACT
Found at i:90889773 original size:40 final size:39
Alignment explanation
Indices: 90889608--90889791 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
90889598 AAATTGAATG
* * *
90889608 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
90889648 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
90889688 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
90889728 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
90889767 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
90889792 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:90889774 original size:80 final size:80
Alignment explanation
Indices: 90889652--90889800 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90889642 GAAATTATAA
* * * *
90889652 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
90889717 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
90889732 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
90889796 GTGCG
65 GTGCG
90889801 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:90889816 original size:80 final size:81
Alignment explanation
Indices: 90889648--90889819 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
90889638 GCTGGAAATT
* * * *
90889648 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
90889713 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
90889729 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
90889792 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
90889808 ATAACCGGGCTA
1 ATAACCGGGCTA
90889820 TGTCCCAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:90894403 original size:48 final size:47
Alignment explanation
Indices: 90894328--90894551 Score: 192
Period size: 48 Copynumber: 4.8 Consensus size: 47
90894318 CAAATGGTAG
* * *
90894328 GATGCCAATG-TCATATCCCAGATATGGTCTTACATGCGATCACATATC
1 GATGCCAATGCT-ATGTCCCAGACATGGTCTTACATG-GATCATATATC
* *
90894376 GATGCCAATGCTATGTCCCAAACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCTATGTCCCAGACATGGTCTTACAT-GGATCATATATC
* **
90894424 GATGCTAATGCCGTGTCCCAGACATGGTCTTACATTGGATCATATATC
1 GATGCCAATGCTATGTCCCAGACATGGTCTTACA-TGGATCATATATC
* * * * * *
90894472 GATGCC---G--ATATCCCAG-CTATGGTCTTATACGAAATTACATATC
1 GATGCCAATGCTATGTCCCAGAC-ATGGTCTTACATG-GATCATATATC
* * *
90894515 CATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
1 GATGCCAATGCTATGTCCCAGACATGGTCTTACATGG
90894552 GATCGTGCAT
Statistics
Matches: 142, Mismatches: 23, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.01
43 30 0.21
45 1 0.01
46 1 0.01
48 104 0.73
49 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCAATGCTATGTCCCAGACATGGTCTTACATGGATCATATATC
Found at i:90897782 original size:48 final size:46
Alignment explanation
Indices: 90897670--90897790 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
90897660 TGATATGTGT
* * * * *
90897670 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAAGAAA
* * *
90897716 GCTAGTGTAAGAAATGTCTGGGACATGCATTAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-AGA-AA
* *
90897764 GCTAGTGTAAGACCTGTCTCGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
90897791 GCGTCAGCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 36 0.58
47 1 0.02
48 25 0.40
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAAGAAA
Found at i:90897866 original size:49 final size:49
Alignment explanation
Indices: 90897810--90897982 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
90897800 TGTTGTGTGT
*
90897810 CAGTGTAAGACCTATCT-GGATCATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGA-CATGGCATCAAC-CTCGATAGATGAAAGC
* * * * * **
90897859 CAGTGTAAGACCTGTCTGGGACACGGTATCAGCCTCGATATATGAAATT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
90897908 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
*
90897955 CAGTGTAAGACCATCTCTGGGACATGGC
1 CAGTGTAAGACC-TATCTGGGACATGGC
90897983 GTCGGCATCT
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
47 15 0.15
48 15 0.15
49 67 0.67
50 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:90903451 original size:19 final size:19
Alignment explanation
Indices: 90903427--90903467 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
90903417 ATCTCATTTC
90903427 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
90903446 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
90903465 ATT
1 ATT
90903468 TACTTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:90906435 original size:29 final size:29
Alignment explanation
Indices: 90906392--90906470 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
90906382 CTTAATAATC
* *
90906392 AACCACGCTCACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
90906422 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
90906451 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
90906471 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:90907127 original size:2 final size:2
Alignment explanation
Indices: 90907109--90907150 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
90907099 TGATGGCCGA
* *
90907109 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90907151 CAACTATACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90925680 original size:24 final size:24
Alignment explanation
Indices: 90925652--90925712 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
90925642 AATCGTATTT
* * *
90925652 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
90925676 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
90925700 GCACACATAGTGC
1 GCACACATAGTGC
90925713 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:90930710 original size:45 final size:45
Alignment explanation
Indices: 90930618--90930788 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 45
90930608 CGAATTCATC
* * *
90930618 CACCGGCATT-TCGCTTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* *
90930660 CACCGGCATTATAGCCTGCCAGGCTCGAAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* *
90930705 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
90930750 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
90930789 TTACTGTACG
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 10 0.09
43 15 0.13
44 5 0.04
45 85 0.73
46 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.22
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:90935080 original size:40 final size:40
Alignment explanation
Indices: 90935026--90935219 Score: 336
Period size: 40 Copynumber: 4.9 Consensus size: 40
90935016 GATATAGCTT
*
90935026 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
90935066 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
90935106 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
90935146 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
90935186 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
90935220 CAATCCGAAT
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 134 0.91
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:90935135 original size:80 final size:80
Alignment explanation
Indices: 90934999--90935219 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
90934989 AAACCAAGTA
** * *
90934999 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
90935062 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
90935078 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
90935143 TAACTCGCACAAATG
66 TAACTCGCACAAATG
90935158 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
90935220 CAATCCGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
79 26 0.20
80 103 0.80
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:90941512 original size:17 final size:18
Alignment explanation
Indices: 90941490--90941528 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
90941480 TGAATAAATT
*
90941490 ATTAAAAAAATCAA-AAA
1 ATTAAAAAAATAAATAAA
90941507 ATT-AAAAAATAAATAAA
1 ATTAAAAAAATAAATAAA
90941524 ATTAA
1 ATTAA
90941529 TTTTGTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 9 0.47
18 1 0.05
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTAAAAAAATAAATAAA
Found at i:90942516 original size:22 final size:22
Alignment explanation
Indices: 90942491--90942538 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
90942481 ACACACGCTT
*
90942491 TCTCCCTCCTTCTCTCTCTCTC
1 TCTCCCTCCCTCTCTCTCTCTC
* *
90942513 TCTCCCTCCCTCTTTCTTTCTC
1 TCTCCCTCCCTCTCTCTCTCTC
90942535 TCTC
1 TCTC
90942539 TTATCTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (22 bp):
TCTCCCTCCCTCTCTCTCTCTC
Found at i:90955525 original size:55 final size:55
Alignment explanation
Indices: 90955441--90955550 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
90955431 GATCCACTAA
90955441 GTAAAACTAAAGTGGTTTTACATATTTTCGGAACTTTTTATATAATTAATATTTT
1 GTAAAACTAAAGTGGTTTTACATATTTTCGGAACTTTTTATATAATTAATATTTT
90955496 GTAAAACTAAAGTGGTTTTACATATTTTCGGAACTTTTTATATAATTAATATTTT
1 GTAAAACTAAAGTGGTTTTACATATTTTCGGAACTTTTTATATAATTAATATTTT
90955551 AACCATTTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (55 bp):
GTAAAACTAAAGTGGTTTTACATATTTTCGGAACTTTTTATATAATTAATATTTT
Found at i:90958064 original size:43 final size:44
Alignment explanation
Indices: 90957961--90958064 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 44
90957951 TCTGGAACGT
* * * ** *
90957961 TGGCATCGATTTTTGATTTACGTGTAAAACCATGTTTGGGACAT
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
* * *
90958005 TGGCATTG-TATATGATTT-CGCGTAAAACCCTGTCTACGACAG
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
90958047 TGGCATCGATATTTGATT
1 TGGCATCGATATTTGATT
90958065 ACATGTAAGA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 25 0.52
43 16 0.33
44 7 0.15
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
Found at i:90958095 original size:43 final size:43
Alignment explanation
Indices: 90957937--90958095 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
90957927 TATATGTCGT
* * * *
90957937 CGTGTAAGACCACGTCTGGAACGTTGGCATCGATTTTTGATTTA
1 CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGA-TTA
* * * * *
90957981 CGTGTAAAACCATGTTTGGGACATTGGCATTG-TATATGATTT
1 CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
* ** *
90958023 CGCGTAAAACC-CTGTCTACGACAGTGGCATCGATATTTGATTA
1 CGTGTAAAACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* *
90958066 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAAACCACGTCTGGGACATTGGCAT
90958096 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 24, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
42 26 0.30
43 35 0.40
44 27 0.31
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:90958747 original size:2 final size:2
Alignment explanation
Indices: 90958740--90958767 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90958730 GGTACAATGA
90958740 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
90958768 GATTAAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90960630 original size:21 final size:21
Alignment explanation
Indices: 90960575--90960636 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
90960565 ATAAGTGCTA
*
90960575 AACAGAAACCCGTAAAGGTTG
1 AACAGAAACCCATAAAGGTTG
* * * *
90960596 AACGGAAGCTCAT-AGGAGTTG
1 AACAGAAACCCATAAAG-GTTG
90960617 AACAGAAACCCATAAAGGTT
1 AACAGAAACCCATAAAGGTT
90960637 AAACTGAAGC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
AACAGAAACCCATAAAGGTTG
Found at i:90967296 original size:30 final size:30
Alignment explanation
Indices: 90967249--90967306 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
90967239 CCTTAAAAAC
90967249 CTTGAACTCTCCCTTAAGCTCATTGATCAT
1 CTTGAACTCTCCCTTAAGCTCATTGATCAT
*
90967279 CTTGAGCTC-CCCTTTAAGCTCATTGATC
1 CTTGAACTCTCCC-TTAAGCTCATTGATC
90967307 TCCTCCTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (30 bp):
CTTGAACTCTCCCTTAAGCTCATTGATCAT
Found at i:90970639 original size:58 final size:58
Alignment explanation
Indices: 90970575--90970750 Score: 134
Period size: 58 Copynumber: 3.1 Consensus size: 58
90970565 TATTATCATT
90970575 ATTATTTTATATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCGA
1 ATTATTTTATATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCGA
* * * *** ** *** * *
90970633 ATTATTTT-T-TTATTCCACT--CTATA-ATATCAT-TAAATATTTA-ATTTTATTATC-A
1 ATTATTTTATATTAAT-CA-TAAATAAATATATCATCTATCCATGGAGACCCTA-AAGCGA
90970686 TTATTATTTTATATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCGA
1 --ATTATTTTATATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCGA
90970746 ATTAT
1 ATTAT
90970751 CCCAAGTCTC
Statistics
Matches: 79, Mismatches: 26, Indels: 26
0.60 0.20 0.20
Matches are distributed among these distances:
53 4 0.05
54 7 0.09
55 16 0.20
56 10 0.13
57 10 0.13
58 21 0.27
59 7 0.09
60 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (58 bp):
ATTATTTTATATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCGA
Found at i:90970662 original size:112 final size:113
Alignment explanation
Indices: 90970520--90970750 Score: 455
Period size: 113 Copynumber: 2.1 Consensus size: 113
90970510 CAATGTATTT
90970520 AATTATTTTTTTATTCCACTCTATAATATCATTAAATATTTAA-TTTATTATCATTATTATTTTA
1 AATTATTTTTTTATTCCACTCTATAATATCATTAAATATTTAATTTTATTATCATTATTATTTTA
90970584 TATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCG
66 TATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCG
90970632 AATTATTTTTTTATTCCACTCTATAATATCATTAAATATTTAATTTTATTATCATTATTATTTTA
1 AATTATTTTTTTATTCCACTCTATAATATCATTAAATATTTAATTTTATTATCATTATTATTTTA
90970697 TATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCG
66 TATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCG
90970745 AATTAT
1 AATTAT
90970751 CCCAAGTCTC
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 43 0.36
113 75 0.64
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (113 bp):
AATTATTTTTTTATTCCACTCTATAATATCATTAAATATTTAATTTTATTATCATTATTATTTTA
TATTAATCATAAATAAATATATCATCTATCCATGGAGACCCTAAAGCG
Found at i:90977279 original size:29 final size:29
Alignment explanation
Indices: 90977246--90977310 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
90977236 GGGTAGATGA
** *
90977246 TCGTGTGCTAAACTGTGTGAGCCACTCGG
1 TCGTGTGCTAAACCATGTGAGCCACACGG
*
90977275 TCGTGTGCTAGACCATGTGAGCCACACGG
1 TCGTGTGCTAAACCATGTGAGCCACACGG
*
90977304 GCGTGTG
1 TCGTGTG
90977311 AGCCCATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.25
Consensus pattern (29 bp):
TCGTGTGCTAAACCATGTGAGCCACACGG
Found at i:90978784 original size:22 final size:23
Alignment explanation
Indices: 90978757--90978821 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 23
90978747 TTTTGGTAAT
*
90978757 TAAATAATATTTTTTTTTTATGA
1 TAAATAATATTTTATTTTTATGA
* *
90978780 T-AATAGTA-TTTATATTTATGA
1 TAAATAATATTTTATTTTTATGA
* *
90978801 TAAATATTATATTATTTTTAT
1 TAAATAATATTTTATTTTTAT
90978822 TTTTAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 12 0.35
22 12 0.35
23 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TAAATAATATTTTATTTTTATGA
Found at i:90978799 original size:21 final size:23
Alignment explanation
Indices: 90978773--90978821 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
90978763 ATATTTTTTT
90978773 TTTATGAT-AATAGTAT-TTATA
1 TTTATGATAAATAGTATATTATA
* *
90978794 TTTATGATAAATATTATATTATT
1 TTTATGATAAATAGTATATTATA
90978817 TTTAT
1 TTTAT
90978822 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTATGATAAATAGTATATTATA
Found at i:90978873 original size:30 final size:30
Alignment explanation
Indices: 90978801--90978881 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
90978791 ATATTTATGA
90978801 TAAATATTATATTATTTTTATTTTTAATAT
1 TAAATATTATATTATTTTTATTTTTAATAT
*
90978831 TAAGATA-AATATTATTTAACTT-TTTTT-A-AT
1 TAA-ATATTATATTATTT---TTATTTTTAATAT
*
90978861 TAAATATTATATTATATTTAT
1 TAAATATTATATTATTTTTAT
90978882 GATAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 3 0.07
30 25 0.60
31 4 0.10
32 5 0.12
33 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TAAATATTATATTATTTTTATTTTTAATAT
Found at i:90978991 original size:26 final size:26
Alignment explanation
Indices: 90978950--90979022 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
90978940 ATGAATAAAA
*
90978950 ATATTATTTAAA-TTAAATTTTATATT
1 ATATT-TTTAAATTTAAATTTAATATT
* *
90978976 ATATTTTTAAATTTAAAATAAATATT
1 ATATTTTTAAATTTAAATTTAATATT
* *
90979002 AAATTTAATAAATTTAAATTT
1 ATATTT-TTAAATTTAAATTT
90979023 GGAATTAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.16
26 21 0.55
27 11 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTTTTAAATTTAAATTTAATATT
Found at i:90979103 original size:19 final size:18
Alignment explanation
Indices: 90979079--90979124 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
90979069 GGATTTTTAC
90979079 TAAAATTAAAAATATTATT
1 TAAAATTAAAAATATTA-T
* *
90979098 TAAAATTGAAATTATTAT
1 TAAAATTAAAAATATTAT
90979116 TAAAATTAA
1 TAAAATTAA
90979125 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAATTAAAAATATTAT
Found at i:90985144 original size:19 final size:19
Alignment explanation
Indices: 90985120--90985160 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
90985110 TGTTCATTTC
90985120 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
90985139 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
90985158 ATT
1 ATT
90985161 TAATTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:90985166 original size:20 final size:20
Alignment explanation
Indices: 90985125--90985166 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
90985115 ATTTCATTCA
*
90985125 TTGCATTTAGATTAATTCAT
1 TTGCATTTAGATTAATTAAT
90985145 TTGCATTTA-ATTAATTTAAT
1 TTGCATTTAGATTAA-TTAAT
90985165 TT
1 TT
90985167 AACACCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTGCATTTAGATTAATTAAT
Found at i:90986643 original size:21 final size:21
Alignment explanation
Indices: 90986617--90986657 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
90986607 GAATGACGCT
90986617 TTAATCCAAATCCAAGTAGCC
1 TTAATCCAAATCCAAGTAGCC
90986638 TTAATCCAAATCCAAGTAGC
1 TTAATCCAAATCCAAGTAGC
90986658 AACACTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (21 bp):
TTAATCCAAATCCAAGTAGCC
Found at i:90992731 original size:21 final size:21
Alignment explanation
Indices: 90992688--90992759 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
90992678 TCAAAAGAGC
* *
90992688 TAAACGGAAACCCAT-TAAGGT
1 TAAACGGAAACTCATATGA-GT
90992709 TAAACGGAAACTCATATGAGT
1 TAAACGGAAACTCATATGAGT
* * *
90992730 T-AACTGAAGCTCATAAGA-T
1 TAAACGGAAACTCATATGAGT
90992749 CTAAACGGAAA
1 -TAAACGGAAA
90992760 GTAAACACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.37
21 23 0.56
22 2 0.05
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (21 bp):
TAAACGGAAACTCATATGAGT
Found at i:91003105 original size:25 final size:24
Alignment explanation
Indices: 91003077--91003581 Score: 431
Period size: 25 Copynumber: 20.7 Consensus size: 24
91003067 CCGTATAAAT
*
91003077 ATACA-AACATCACAGTAAACATAAC
1 ATACATAACATAACA-T-AACATAAC
91003102 ATACAT-ACATAACATAACATAAC
1 ATACATAACATAACATAACATAAC
91003125 ATAACATAACATAACATAACATAAC
1 AT-ACATAACATAACATAACATAAC
*
91003150 ATACATACAAATATACA-AACATAAC
1 ATACATA-ACATA-ACATAACATAAC
91003175 AGTAAACATAACAT-ACAT-ACATAAC
1 A-T--ACATAACATAACATAACATAAC
* *
91003200 AATACATAACATATAACATACACACAAAT
1 -ATACATAAC--ATAACATA-ACA-TAAC
91003229 ATACA-AACATAACAATAAACATAAC
1 ATACATAACATAAC-AT-AACATAAC
91003254 ATAACATAACATAACATAACATAAC
1 AT-ACATAACATAACATAACATAAC
* *
91003279 ATAACATAACATAACATAGCATAGC
1 AT-ACATAACATAACATAACATAAC
91003304 ATAGCATAACATAACATAACATAAC
1 ATA-CATAACATAACATAACATAAC
91003329 ATAACATAACATAACATAACATAAC
1 AT-ACATAACATAACATAACATAAC
91003354 ATAACATAACATAACATAACATAAC
1 AT-ACATAACATAACATAACATAAC
*
91003379 ATAACATAACATAACATAACATGAC
1 AT-ACATAACATAACATAACATAAC
* * *
91003404 AAAAATAACATAACAT-ACA-AAT
1 ATACATAACATAACATAACATAAC
91003426 ATACA-AACATAACAGTAAACATAAC
1 ATACATAACATAACA-T-AACATAAC
* *
91003451 AGACAT-ACATAATAGT-ACATAAC
1 ATACATAACATAACA-TAACATAAC
*
91003474 ATAACATAACA-AAAAT-ACATAAC
1 AT-ACATAACATAACATAACATAAC
*
91003497 AGTACATAACAT-ACATAATAT-AC
1 A-TACATAACATAACATAACATAAC
* ***
91003520 ATA-ACAGTTTAA-A-AACATAAC
1 ATACATAACATAACATAACATAAC
*
91003541 ATACAT-ACATAAACAGT-ACAGAAAC
1 ATACATAACAT-AACA-TAACA-TAAC
91003566 ATACATAACA-AACATA
1 ATACATAACATAACATA
91003582 CCTTTCACCC
Statistics
Matches: 403, Mismatches: 35, Indels: 85
0.77 0.07 0.16
Matches are distributed among these distances:
20 4 0.01
21 19 0.05
22 11 0.03
23 53 0.13
24 45 0.11
25 218 0.54
26 23 0.06
27 15 0.04
28 13 0.03
29 2 0.00
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.20
Consensus pattern (24 bp):
ATACATAACATAACATAACATAAC
Found at i:91003543 original size:5 final size:5
Alignment explanation
Indices: 91002955--91003525 Score: 484
Period size: 5 Copynumber: 114.8 Consensus size: 5
91002945 ACTTTCATTA
* * *
91002955 AACAT GACAT -ACAT AATAT -ACA- AACAT AACAGT AATAT AACAAAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACA-T AACAT AAC--AT
* * * *
91003000 AACA- AACAT ACAAAT ATGCAT -ACAT AATAT -ACAT AACAT -ATAT -ACAT
1 AACAT AACAT A-ACAT A-ACAT AACAT AACAT AACAT AACAT AACAT AACAT
* *
91003047 AACAGT -ACAT AACAT AACAT -CCGTAT AA-AT ATACA- AACAT CACAGT
1 AACA-T AACAT AACAT AACAT AAC--AT AACAT A-ACAT AACAT AACA-T
91003093 AAACAT AACAT -ACAT -ACAT AACAT AACAT AACAT AACAT AACAT AACAT
1 -AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
*
91003142 AACAT AACAT -ACAT ACAAAT ATACA- AACAT AACAGT AAACAT AACAT
1 AACAT AACAT AACAT A-ACAT A-ACAT AACAT AACA-T -AACAT AACAT
*
91003189 -ACAT -ACAT AACA- ATACAT AACATAT AACAT ACACAC AA-AT ATACA-
1 AACAT AACAT AACAT A-ACAT AAC--AT AACAT A-ACAT AACAT A-ACAT
91003234 AACAT AACAAT AAACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
1 AACAT AAC-AT -AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
* * *
91003286 AACAT AACAT AGCAT AGCAT AGCAT AACAT AACAT AACAT AACAT AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
91003336 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT
* * *
91003386 AACAT AACAT AACAT GACA- AAAAT AACAT AACAT ACAAAT ATACA- AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT A-ACAT A-ACAT AACAT
* *
91003436 AACAGT AAACAT AACA- GACAT -ACAT AATAGT -ACAT AACAT AACAT
1 AACA-T -AACAT AACAT AACAT AACAT AACA-T AACAT AACAT AACAT
* *
91003481 AACA- AAAAT -ACAT AACAGT -ACAT AACAT -ACAT AATAT -ACAT AACA
1 AACAT AACAT AACAT AACA-T AACAT AACAT AACAT AACAT AACAT AACA
91003526 GTTTAAAAAC
Statistics
Matches: 474, Mismatches: 39, Indels: 106
0.77 0.06 0.17
Matches are distributed among these distances:
4 89 0.19
5 317 0.67
6 44 0.09
7 24 0.05
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.20
Consensus pattern (5 bp):
AACAT
Found at i:91015445 original size:71 final size:71
Alignment explanation
Indices: 91015361--91015524 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
91015351 CGATTTGTCT
91015361 CGTAGCTCTCTTGTCTACATGGTGTCCATCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCATCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
91015426 CTTTCA
66 CTTTCA
* *
91015432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCATCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
91015497 CTTTCA
66 CTTTCA
91015503 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
91015525 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCATCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:91015562 original size:71 final size:70
Alignment explanation
Indices: 91015361--91015558 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
91015351 CGATTTGTCT
* * * *
91015361 CGTAGCTCTCTTGTCTACATGGTGTCCATCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
91015426 CTTTCA
65 CTTTCA
* * * *
91015432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
91015497 CTTTCA
65 CTTTCA
* *
91015503 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
91015559 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:91024885 original size:40 final size:38
Alignment explanation
Indices: 91024828--91025011 Score: 136
Period size: 40 Copynumber: 4.6 Consensus size: 38
91024818 TCGAATGATG
91024828 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCTTTGTGC-AAGTGACTAAA
* * * * *
91024868 TCCGGACTAAGATCCGAAGGAATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGG-CTTTGTGCAAGTGACTAAA
* * * * * *
91024908 TCCGGGCTAAGCCCGAAGGCATGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCTTTGTGCAAGTGACTAAA
* * *
91024946 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCAAGTGACTA-AA
* *
91024987 -CAGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGC-TTTG
91025012 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 24 0.20
39 15 0.13
40 70 0.59
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCTTTGTGCAAGTGACTAAA
Found at i:91024963 original size:78 final size:80
Alignment explanation
Indices: 91024828--91025008 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
91024818 TCGAATGATG
* *
91024828 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGAATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGAATTT
91024893 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * * ** *
91024908 TCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGAATT
91024970 TGTGCGAGTTACT-AT
65 TGTGCGAGTTACTAAT
* * *
91024985 AACAGGGCTATGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCAT
91025009 TTGAACGAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.55
79 25 0.29
80 11 0.13
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGAATTT
GTGCGAGTTACTAAT
Found at i:91030800 original size:44 final size:44
Alignment explanation
Indices: 91030752--91031340 Score: 168
Period size: 44 Copynumber: 13.3 Consensus size: 44
91030742 ATATTTAGTC
*
91030752 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACT
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
* * * ***** ** *
91030796 TGCTCTCTTACTACCTCA-AAGAGATAAGACTGGTGGCTAAAATC
1 TGCTCCCTTGCTACCTCAGGA-AGATAAGACTACAATCTTCAATT
* * * * *
91030840 TACTCTCC-TGCTACCTCGGGAAGATAAGATTCACCAT-TTAAGATT
1 TGCTC-CCTTGCTACCTCAGGAAGATAAGACT-ACAATCTTCA-ATT
** * * * * * * *
91030885 TGCTCCAATACT-GCTTAGGGAGACAAAATCTACAATCTTCAGTT
1 TGCTCCCTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATT
* * * ***
91030929 TGTTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAGCC
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
* * * * **** ** *
91030973 TACTCCCCTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATC
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
* * ** * * **
91031017 TGCTCCCCTACTACCTTGGGAAGATAAGATTCT-CCATTTTTGATT
1 TGCTCCCTTGCTACCTCAGGAAGATAAGA--CTACAATCTTCAATT
* * * * * * *
91031062 TGCTCCAC-TACTA-CTTAGGGAGACAAAATCTACAATCTTCAGTC
1 TGCTCC-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATT
* * * * *
91031106 TGCTTCCTTGCTACCTTAGGAAGATAAGACTATAATCTTTAGTT
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
* * * **** ** *
91031150 TGCTCCCTTGCTGCCTCAGGGAGATAAGGCTAGTGGCTAAAATC
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
* ** * * *** ** *
91031194 TGCTCCCCTGCTACCTTGGGAAGATAAGATTCCCCGCCTTTGATC
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACT-ACAATCTTCAATT
* ** * * * *
91031239 TGCTCCATTGCTATATCAAGG-AGATAATATCTATAATCTTCAGTC
1 TGCTCCCTTGCTACCTC-AGGAAGATAAGA-CTACAATCTTCAATT
* **
91031284 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACC
1 TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
91031328 TGCTCCCTTGCTA
1 TGCTCCCTTGCTA
91031341 GATCAGAGAG
Statistics
Matches: 377, Mismatches: 149, Indels: 38
0.67 0.26 0.07
Matches are distributed among these distances:
43 5 0.01
44 263 0.70
45 103 0.27
46 6 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (44 bp):
TGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATT
Found at i:91030967 original size:177 final size:176
Alignment explanation
Indices: 91030736--91031448 Score: 924
Period size: 177 Copynumber: 4.0 Consensus size: 176
91030726 GAAGACAAGC
* * * *
91030736 TCTACAATATTTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTGCTC
1 TCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
* * * * * * * *
91030801 TCTTACTACCTCAAAGAGATAAGACTGGTGGCTAAAATCTACTCTCCTGCTACCTCGGGAAGATA
66 CCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
* * *
91030866 AGATTCACCATTTAAGATTTGCTCCAATACTGCTTAGGGAGACAAAA
131 AGATTCACCATTT-TGATCTGCTCCACTACTGCTTAGGGAGACAAAA
* * * * *
91030913 TCTACAATCTTCAGTTTGTTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAGCCTACTC
1 TCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
* * *
91030978 CCCTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTTGGGAAGATA
66 CCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
* * *
91031043 AGATTCTCCATTTTTGATTTGCTCCACTACTACTTAGGGAGACAAAA
131 AGATTCACCA-TTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAA
* * * ***
91031090 TCTACAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTATAATCTTTAGTTTGCTC
1 TCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
* *
91031155 CCTTGCTGCCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
66 CCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
* ** * * * * * *
91031220 AGATTCCCCGCCTTTGATCTGCTCCATTGCT-ATATCAAGGAGATAATA
131 AGATTCACC-ATTTTGATCTGCTCCACTACTGCT-T-AGGGAGACAAAA
*
91031268 TCTATAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
1 TCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
** * *
91031333 CCTTGCTAGATCAGAGAGATAAGGCTAGTGGCTAAATTTTGCTCCCCTGCTACCTTGGGAAGATA
66 CCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
*
91031398 AGATTCACCATTTTCGATCTGCTCCACTACTGCTTAGAGAGACAAAA
131 AGATTCACCATTTT-GATCTGCTCCACTACTGCTTAGGGAGACAAAA
91031445 TCTA
1 TCTA
91031449 ACTTCACCAT
Statistics
Matches: 463, Mismatches: 67, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
176 1 0.00
177 309 0.67
178 152 0.33
179 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
TCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
CCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTGGGAAGATA
AGATTCACCATTTTGATCTGCTCCACTACTGCTTAGGGAGACAAAA
Found at i:91031353 original size:44 final size:45
Alignment explanation
Indices: 91031238--91031355 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 45
91031228 CGCCTTTGAT
* * * * **
91031238 CTGCTCCATTGCTATATCA-AGGAGATAATATCTATAATCTTCAGT
1 CTGCTCCCTTGCTACATCAGA-GAGATAAGATCTACAATCTTCAAC
* *
91031283 CTGCTTCCTTGCTACCTCAG-GAAGATAAGA-CTACAATCTTCAAC
1 CTGCTCCCTTGCTACATCAGAG-AGATAAGATCTACAATCTTCAAC
*
91031327 CTGCTCCCTTGCTAGATCAGAGAGATAAG
1 CTGCTCCCTTGCTACATCAGAGAGATAAG
91031356 GCTAGTGGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
44 36 0.61
45 23 0.39
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (45 bp):
CTGCTCCCTTGCTACATCAGAGAGATAAGATCTACAATCTTCAAC
Found at i:91035758 original size:24 final size:24
Alignment explanation
Indices: 91035726--91035774 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
91035716 CTTAACCAGT
*
91035726 TGTTCTTGCATTTGTGTTTGCATC
1 TGTTCTTGCATTTCTGTTTGCATC
* *
91035750 TGTTCTTGCGTTTCTTTTTGCATC
1 TGTTCTTGCATTTCTGTTTGCATC
91035774 T
1 T
91035775 ATTCCAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.18, G:0.18, T:0.57
Consensus pattern (24 bp):
TGTTCTTGCATTTCTGTTTGCATC
Found at i:91038160 original size:23 final size:21
Alignment explanation
Indices: 91038133--91038182 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
91038123 AGTAATATAC
* *
91038133 AAAATAATTTACATTAATTTAA
1 AAAATAATATACA-TAAATTAA
91038155 ATAAATAATATACATAAATTAA
1 A-AAATAATATACATAAATTAA
91038177 AAAATA
1 AAAATA
91038183 GCGTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 11 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATATACATAAATTAA
Found at i:91038206 original size:13 final size:13
Alignment explanation
Indices: 91038188--91038212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91038178 AAATAGCGTA
91038188 ATATAAATAATAT
1 ATATAAATAATAT
91038201 ATATAAATAATA
1 ATATAAATAATA
91038213 ATGTATAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:91042358 original size:117 final size:116
Alignment explanation
Indices: 91042149--91042374 Score: 344
Period size: 117 Copynumber: 1.9 Consensus size: 116
91042139 ATCACCAGGA
* * * *
91042149 GCCATAGCCCAGCTATGGTCTTACATATAAACACTATCGTGATCTAACCATGGTATTATGTTTAT
1 GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTTAT
*
91042214 AGTGTCATAACCCAGTTATGGTCTTATCCGTCAATTCATCCTTTACATTAAT
66 AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCAT-CTTTACATTAAT
* * * *
91042266 GCCATAGCCCAGCTATGCTCTTGCATATAAACACTGCCATGGTCTAACCATGGTCTTACGTTTAT
1 GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTTAT
* *
91042331 AGTGCCATAACCCAGTTATGGTTTTATCTGTCAATTCATCTTTA
66 AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCATCTTTA
91042375 GCCACAAAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
116 5 0.05
117 93 0.95
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (116 bp):
GCCATAGCCCAGCTATGCTCTTACATATAAACACTACCATGATCTAACCATGGTATTACGTTTAT
AGTGCCATAACCCAGTTATGGTCTTATCCGTCAATTCATCTTTACATTAAT
Found at i:91045837 original size:49 final size:48
Alignment explanation
Indices: 91045736--91045906 Score: 141
Period size: 49 Copynumber: 3.5 Consensus size: 48
91045726 GCCGACGCCA
* * ** *
91045736 TGTCCCAGACATGGTCTTACACTGGCTAT--TACGTCAAAGTCGATGCCA
1 TGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAAGTCGATG-CG
* *
91045784 TGTCCCAGACAGGTCTTACATTGACTTTCATATATCAAAGTCGATGTTG
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAAGTCGATG-CG
* * * * * * **
91045833 TGTCCCAGGCTGGTCGTACACTGGCTTTTATCTAT-AGGTGTCGATGCG
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCA-AAGTCGATGCG
91045881 ATGTCCCAGACAGGTCTTACACTGAC
1 -TGTCCCAGACAGGTCTTACACTGAC
91045907 ACACAACAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
47 14 0.14
48 13 0.13
49 70 0.72
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (48 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAAGTCGATGCG
Found at i:91045980 original size:46 final size:44
Alignment explanation
Indices: 91045924--91046042 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 44
91045914 AAGCTAACGC
*
91045924 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-CGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGCGATG
*
91045970 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT-G-CGATG
*
91046016 CATGTCCCAGACATGTCTTCCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
91046043 ACACATATCA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 5 0.08
44 1 0.02
46 60 0.91
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGCGATG
Found at i:91057490 original size:20 final size:20
Alignment explanation
Indices: 91057449--91057490 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
91057439 ATTTCATTTA
*
91057449 TTGCATTTAGATTAATTCAT
1 TTGCATTTAGATTAATTAAT
91057469 TTGCATTTA-ATTAATTTAAT
1 TTGCATTTAGATTAA-TTAAT
91057489 TT
1 TT
91057491 AACACCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTGCATTTAGATTAATTAAT
Found at i:91058619 original size:43 final size:43
Alignment explanation
Indices: 91058566--91058648 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
91058556 ATTTATAAGT
91058566 AAGTTTTAACTTTTCGCCTATTAATTATAAATTTATTTAGTCA
1 AAGTTTTAACTTTTCGCCTATTAATTATAAATTTATTTAGTCA
91058609 AAGTTTTAACTTTTCGCCTATTAATTATAAATTTATTTAG
1 AAGTTTTAACTTTTCGCCTATTAATTATAAATTTATTTAG
91058649 CCACAAACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (43 bp):
AAGTTTTAACTTTTCGCCTATTAATTATAAATTTATTTAGTCA
Found at i:91063068 original size:103 final size:102
Alignment explanation
Indices: 91062915--91063119 Score: 340
Period size: 103 Copynumber: 2.0 Consensus size: 102
91062905 AGTGAAAGAG
* *
91062915 AAAAATGGAAGAATATGAGAGAAAATCCGACATTTTGTTTTACAACAAGTA-GGAGAAGATACCG
1 AAAAATGGAAGAATATGAGAAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACCG
*
91062979 CAAGTATTACAACATTTTGCTAAAAAGCCCGACTCATT
66 CAAGTATTACAACATTTT-CTAAAAAGCCCGAATCATT
* *
91063017 AAAAATGGAAGAATATGAGAAAAAAATCCCACATTTTGTTTTATAGCAAGTATGGAGAAGATACC
1 AAAAATGGAAGAATATGAG-AAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACC
91063082 GCAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
65 GCAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
91063120 CCTTATTTAG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
102 19 0.20
103 46 0.48
104 31 0.32
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (102 bp):
AAAAATGGAAGAATATGAGAAAAAATCCCACATTTTGTTTTACAACAAGTATGGAGAAGATACCG
CAAGTATTACAACATTTTCTAAAAAGCCCGAATCATT
Found at i:91064450 original size:21 final size:22
Alignment explanation
Indices: 91064426--91064475 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
91064416 TTTAAAAAAA
*
91064426 TTGTGGG-CCTTTTTCAATTTT
1 TTGTGGGACCTTTTTAAATTTT
91064447 TTGTGGGATCCTTTTTAAATTTT
1 TTGTGGGA-CCTTTTTAAATTTT
91064470 TATGTG
1 T-TGTG
91064476 AATTAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
23 14 0.56
24 4 0.16
ACGTcount: A:0.14, C:0.10, G:0.20, T:0.56
Consensus pattern (22 bp):
TTGTGGGACCTTTTTAAATTTT
Found at i:91071651 original size:15 final size:15
Alignment explanation
Indices: 91071623--91071659 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
91071613 TAATAAGAAT
91071623 GATAA-GAAAACCAA
1 GATAATGAAAACCAA
*
91071637 GATAATGAAATCCAA
1 GATAATGAAAACCAA
91071652 GAT-ATGAA
1 GATAATGAA
91071660 GCTATACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (15 bp):
GATAATGAAAACCAA
Found at i:91072540 original size:80 final size:80
Alignment explanation
Indices: 91072446--91072605 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
91072436 ACAGGTGAAG
* *
91072446 GCATGAAGGTCGTAAAGCCTCAAAATTTAACTTTCATATATACACACGTATAACGTAACATTTAT
1 GCATGAAGATCGTAAAGCCTCAAAATTTAACTTTCATATATACACACGTATAACATAACATTTAT
91072511 CATCAACATAATCAT
66 CATCAACATAATCAT
*
91072526 GCATGAAGATCGTAAAGCCTCAAAATTTGACTTTCATATATACACACGTATAACATAACATTTAT
1 GCATGAAGATCGTAAAGCCTCAAAATTTAACTTTCATATATACACACGTATAACATAACATTTAT
91072591 CATCAACATAATCAT
66 CATCAACATAATCAT
91072606 TATAATCATT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
GCATGAAGATCGTAAAGCCTCAAAATTTAACTTTCATATATACACACGTATAACATAACATTTAT
CATCAACATAATCAT
Found at i:91077522 original size:106 final size:106
Alignment explanation
Indices: 91077337--91077541 Score: 392
Period size: 106 Copynumber: 1.9 Consensus size: 106
91077327 ACAAAAATTG
91077337 TTATAAGATGAAGTTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATTAAATAAACTAGA
1 TTATAAGATGAAGTTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATTAAATAAACTAGA
*
91077402 ACATATTTTGAATTCTGTACAATGAAAAATTTGAACATAGT
66 ACATATTTTGAATTCTATACAATGAAAAATTTGAACATAGT
91077443 TTATAAGATGAAGTTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATTAAATAAACTAGA
1 TTATAAGATGAAGTTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATTAAATAAACTAGA
*
91077508 ACATATTTTGAATTCTATACAATGAGAAATTTGA
66 ACATATTTTGAATTCTATACAATGAAAAATTTGA
91077542 TTTGTAGTGA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (106 bp):
TTATAAGATGAAGTTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATTAAATAAACTAGA
ACATATTTTGAATTCTATACAATGAAAAATTTGAACATAGT
Found at i:91079302 original size:43 final size:44
Alignment explanation
Indices: 91079238--91079373 Score: 168
Period size: 43 Copynumber: 3.1 Consensus size: 44
91079228 TTATCGAAAT
* *
91079238 ATGATATTCGAGCTTCGGGCCTAGCAGGCTATAATGTTGGTGAA
1 ATGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGAA
*
91079282 ATGATA-TCGGGCTCCGGGCCTAGCAGGCTATAATGTCGGTGAA
1 ATGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGAA
* * * * *
91079325 AT-ATTATTCGGGCCTTTGAGCCTAGCAGGTTATAATGCCTGTGAA
1 ATGA-TATTCGGG-CTTCGGGCCTAGCAGGCTATAATGTCGGTGAA
91079370 ATGA
1 ATGA
91079374 AATGTTATGT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 38 0.48
44 11 0.14
45 28 0.35
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (44 bp):
ATGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGAA
Found at i:91079759 original size:45 final size:45
Alignment explanation
Indices: 91079683--91079979 Score: 384
Period size: 45 Copynumber: 6.6 Consensus size: 45
91079673 TGTTGATTTG
* * *
91079683 ATTATTTGGGCCTTTGAGCCTTGCAGACTATGATGCCAGTGAAAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
* *
91079728 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
* *
91079773 ATTATTCGGGCCTTTGAGCCTAGCAGCCTATGATGTCAGTGAAAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
* *
91079818 ATTATTCGGGCCTTTGAGCATAGCAAGCTATGATGCCAGTGAAAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
* * * *
91079863 ATTATTCAGGCCTTTGAGCCTAGCAGGTTATGATGCCGGTGAGAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
* * * **
91079908 ACTATTCGAG-CTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAAT
1 ATTATTCGGGCCTTT-GAGCCTAGCAGGCTATGATGCCAGTGAAAT
*
91079953 GA-TAATCGGGCC-TTGAGCCTAGCAGGC
1 -ATTATTCGGGCCTTTGAGCCTAGCAGGC
91079980 GAAATGCCGG
Statistics
Matches: 221, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
44 17 0.08
45 202 0.91
46 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAAT
Found at i:91086442 original size:3 final size:3
Alignment explanation
Indices: 91086436--91086470 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
91086426 ATGATGATGA
* *
91086436 TGG TGG TGG TGG TGG TGG TGG TGA TGG TGA TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
91086471 ATAGTGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.60, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:91086471 original size:6 final size:6
Alignment explanation
Indices: 91086420--91086477 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
91086410 GATAGAGAAA
* * * * *
91086420 GTGATG ATGATG ATGATG GTGGTG GTGGTG GTGGTG GTGATG GTGATG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG
*
91086468 GTGATA GTGA
1 GTGATG GTGA
91086478 ATCAAACAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GTGATG
Found at i:91086865 original size:19 final size:18
Alignment explanation
Indices: 91086818--91086870 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
91086808 AAATATTTAA
* *
91086818 TAATTATATTTAAATATT
1 TAATTAAATTTATATATT
*
91086836 TAAATATAATTTATATATT
1 TAATTA-AATTTATATATT
91086855 CTAATTAAATTT-TATA
1 -TAATTAAATTTATATA
91086871 AATAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.31
19 15 0.52
20 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAAATTTATATATT
Found at i:91091957 original size:6 final size:6
Alignment explanation
Indices: 91091948--91091982 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
91091938 GGTAGCTGAA
*
91091948 ATATAT ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
91091983 TAGTAGAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (6 bp):
ATATAG
Found at i:91102801 original size:57 final size:57
Alignment explanation
Indices: 91102713--91102826 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
91102703 ACTAAAGACT
*
91102713 TTTCGGGCGTTACATATTCACTGTCAAGAAAATTACAGAGCTATTAATGGCATTCAA
1 TTTCGGGCATTACATATTCACTGTCAAGAAAATTACAGAGCTATTAATGGCATTCAA
* *
91102770 TTTCGGGCATTACATATTCATTGTCAAGAAAATTACAGAGCTATTAATGGTATTCAA
1 TTTCGGGCATTACATATTCACTGTCAAGAAAATTACAGAGCTATTAATGGCATTCAA
91102827 CTAAAAGTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (57 bp):
TTTCGGGCATTACATATTCACTGTCAAGAAAATTACAGAGCTATTAATGGCATTCAA
Found at i:91111205 original size:49 final size:49
Alignment explanation
Indices: 91111136--91111484 Score: 626
Period size: 49 Copynumber: 7.1 Consensus size: 49
91111126 GTACATAATA
91111136 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
91111185 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91111234 ATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
91111283 ATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91111332 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
91111381 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGCGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91111430 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
91111479 ATATAT
1 ATATAT
91111485 ATGTGGTAAA
Statistics
Matches: 289, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 289 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:91111437 original size:27 final size:27
Alignment explanation
Indices: 91111358--91111440 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
91111348 CTAATGGCCG
*
91111358 ATGTGATGAATGCGAAAGTGTATATAT
1 ATGTGATGAATGCGAAAATGTATATAT
* ** ***
91111385 ATGTGAT-AAGGC-CTAATG--GCCA-
1 ATGTGATGAATGCGAAAATGTATATAT
91111407 ATGTGATGAATGCGAAAATGTATATAT
1 ATGTGATGAATGCGAAAATGTATATAT
91111434 ATGTGAT
1 ATGTGAT
91111441 AAGGCCTAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 10
0.62 0.21 0.16
Matches are distributed among these distances:
22 7 0.18
23 5 0.13
24 4 0.11
25 3 0.08
26 5 0.13
27 14 0.37
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (27 bp):
ATGTGATGAATGCGAAAATGTATATAT
Found at i:91111608 original size:37 final size:36
Alignment explanation
Indices: 91111553--91111639 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
91111543 AACTTAGAAA
91111553 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
91111591 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
91111628 TATGTCCGGGTA
1 TATGTCCGGGTA
91111640 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:91120620 original size:50 final size:50
Alignment explanation
Indices: 91120546--91120795 Score: 250
Period size: 50 Copynumber: 5.0 Consensus size: 50
91120536 TAACATGGTT
* * *
91120546 TTAGGTCACGTATGTAGTAGTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * ** * * *
91120596 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
*** * * ** *
91120647 TTCTATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTAATAGATGG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *** *
91120697 TTAGGTCACATGTGTAATACTAAGTGCAGGCTACTACGTGTATTGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * *
91120747 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
91120796 CTTCGGTTAC
Statistics
Matches: 157, Mismatches: 42, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
49 39 0.25
50 82 0.52
51 36 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:91120686 original size:101 final size:101
Alignment explanation
Indices: 91120551--91120732 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
91120541 TGGTTTTAGG
* * * * *
91120551 TCACGTATGTAGTAGTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTATGCAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGTTAGGTCACATGTGTAATAC
91120616 TAAGTGCAGGCTACTATGCATACCCGACAACTTCTA
66 TAAGTGCAGGCTACTATGCATACCCGACAACTTCTA
* * *
91120652 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTAATAGATGGTTAGGTCACATGTGTAATAC
1 TCACGTATGCAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGTTAGGTCACATGTGTAATAC
91120717 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
91120733 CGTGTATTGG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (101 bp):
TCACGTATGCAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGTTAGGTCACATGTGTAATAC
TAAGTGCAGGCTACTATGCATACCCGACAACTTCTA
Found at i:91120824 original size:150 final size:150
Alignment explanation
Indices: 91120546--91120827 Score: 363
Period size: 150 Copynumber: 1.9 Consensus size: 150
91120536 TAACATGGTT
* * *
91120546 TTAGGTCACGTATGTAGTAGTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGTCACATATGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
* * * *
91120611 AGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCTATCACGTGTGCAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTCTATCAAGGGTG-AGTAATAAGTGCAG
91120676 GCTACTACGTGTAATAGATGG
130 GCTACTACGTGTAATAGATGG
* *** *
91120697 TTAGGTCACATGTGTAATACTAAGTGCAGGCTACTACGTGTATTGGATTGTT-GGTCGCATGTGT
1 TTAGGTCACATATGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
* * * *
91120761 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGGT-TACAAGGGTG-GTAATATGTGC
66 AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTC--TAT-CAAGGGTGAGTAATAAGTGC
91120824 AGGC
128 AGGC
91120828 AATCGTGTAT
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
150 60 0.54
151 45 0.40
152 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
TTAGGTCACATATGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCATACCAGACAACTTCTATCAAGGGTGAGTAATAAGTGCAGG
CTACTACGTGTAATAGATGG
Found at i:91121917 original size:16 final size:16
Alignment explanation
Indices: 91121896--91121939 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
91121886 AGCCATGAGA
91121896 TGTGGCTTGTAATGCT
1 TGTGGCTTGTAATGCT
91121912 TGTGGCTTGTAATGCT
1 TGTGGCTTGTAATGCT
91121928 TGTGGCTTGTAA
1 TGTGGCTTGTAA
91121940 GCCTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (16 bp):
TGTGGCTTGTAATGCT
Found at i:91131555 original size:49 final size:49
Alignment explanation
Indices: 91131486--91131945 Score: 647
Period size: 49 Copynumber: 9.1 Consensus size: 49
91131476 GTACATAATA
91131486 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91131535 ATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
91131584 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
91131633 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
91131682 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91131731 ATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91131780 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGATAAG-GCCTA-
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGTG--TAT
* * * *
91131830 ATGGCCGACGTGATGAATG-TGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 AT-----A--T-ATG--TGAT-A-AGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
91131891 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
91131940 ATATAT
1 ATATAT
91131946 ATGTGGTAAA
Statistics
Matches: 378, Mismatches: 14, Indels: 38
0.88 0.03 0.09
Matches are distributed among these distances:
49 316 0.84
50 8 0.02
51 5 0.01
52 1 0.00
53 3 0.01
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 3 0.01
59 1 0.00
60 5 0.01
61 8 0.02
62 24 0.06
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:91131822 original size:31 final size:31
Alignment explanation
Indices: 91131784--91131882 Score: 198
Period size: 31 Copynumber: 3.2 Consensus size: 31
91131774 GTGTATATAT
91131784 ATGTGATAAGGCCTAATGGCCGACGTGATGA
1 ATGTGATAAGGCCTAATGGCCGACGTGATGA
91131815 ATGTGATAAGGCCTAATGGCCGACGTGATGA
1 ATGTGATAAGGCCTAATGGCCGACGTGATGA
91131846 ATGTGATAAGGCCTAATGGCCGACGTGATGA
1 ATGTGATAAGGCCTAATGGCCGACGTGATGA
91131877 ATGTGA
1 ATGTGA
91131883 AAGTGTATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.23
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGACGTGATGA
Found at i:91132069 original size:37 final size:36
Alignment explanation
Indices: 91132014--91132100 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
91132004 AACTTGGAAA
91132014 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
91132052 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
91132089 TATGTCCGGGTA
1 TATGTCCGGGTA
91132101 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:91134853 original size:30 final size:30
Alignment explanation
Indices: 91134819--91134906 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
91134809 CTAGCTTATA
* *
91134819 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
91134849 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
91134879 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
91134907 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:91137301 original size:20 final size:21
Alignment explanation
Indices: 91137276--91137315 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91137266 CTCTTAAAAC
*
91137276 AGGGC-ACACGCCCTTGTGGA
1 AGGGCAACACGCCCGTGTGGA
91137296 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
91137316 TCATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:91138432 original size:46 final size:47
Alignment explanation
Indices: 91138362--91138583 Score: 242
Period size: 46 Copynumber: 4.8 Consensus size: 47
91138352 TTATTTGTGT
*
91138362 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A
*
91138408 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGATGT-
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
** * ** *
91138452 GTTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCAATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT--GTA
* * *
91138501 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATG-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--GATGTA
*
91138548 GCCAGTGTAAGACCATGTCAGGGACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
91138584 ATTATACCCT
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.07
45 14 0.09
46 54 0.36
47 32 0.21
48 7 0.05
49 31 0.21
50 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:91138565 original size:96 final size:92
Alignment explanation
Indices: 91138362--91138583 Score: 252
Period size: 96 Copynumber: 2.4 Consensus size: 92
91138352 TTATTTGTGT
* **
91138362 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATCAAAGCCAGTGTAAGACATGT
* * *
91138425 CTGGGACATGCATTGGCCTCGAGATGT
66 CTGGGACATGCATTCGACTCGAGATGA
** * ** *
91138452 GTTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCAATAGTCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATCAA-AGCCAGTGTAAGA-CAT
*
91138517 GTCTGGGACATGGCA-TCGACTTGATGGATGA
64 GTCTGGGACAT-GCATTCGACTCGA--GATGA
*
91138548 GCCAGTGTAAGACCATGTCAGGGACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
91138584 ATTATACCCT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
90 10 0.09
91 13 0.12
92 14 0.13
93 12 0.11
94 20 0.19
95 3 0.03
96 36 0.33
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATCAAAGCCAGTGTAAGACATGT
CTGGGACATGCATTCGACTCGAGATGA
Found at i:91140844 original size:46 final size:46
Alignment explanation
Indices: 91140794--91140967 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
91140784 ACATCTCGTA
* *
91140794 GCCGATGCATGTCCCAGACATGTCTTACATTGGCT-TACATCGCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCACGAG
* * * * * * *
91140840 GCCGATGCATGTCCTAGATATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCACGAG
* * * *
91140886 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCACGAG
91140934 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
91140968 ATACAAATAA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 55 0.52
47 27 0.26
48 23 0.22
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCACGAG
Found at i:91143632 original size:79 final size:81
Alignment explanation
Indices: 91143523--91143705 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
91143513 TACTCGTTCA
* * *
91143523 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GAATCTTAACCCGG
*
91143586 ATTTAGTAAC-TCGCACC
65 ATTTAGTAACTTAGCA-C
**
91143603 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGAATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAATCTTAACCCGGA
*
91143666 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
91143682 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
91143706 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 2 0.02
79 61 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:91143705 original size:40 final size:40
Alignment explanation
Indices: 91143521--91143705 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
91143511 GCTACTCGTT
*
91143521 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
91143561 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
91143601 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
91143640 CAAATGCCTTC-GAATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
91143681 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
91143706 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.26
40 81 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:91157213 original size:2 final size:2
Alignment explanation
Indices: 91157206--91157237 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
91157196 TTATTTTATT
91157206 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91157238 GATTACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:91169286 original size:36 final size:35
Alignment explanation
Indices: 91169246--91169355 Score: 87
Period size: 36 Copynumber: 2.9 Consensus size: 35
91169236 TTTAGACAAT
91169246 TTATTAAATTTTAATAAAAAT-ATAAAAATTAAAAAA
1 TTATTAAATTTT-ATAAAAATAATAAAAATT-AAAAA
*
91169282 TTATTAAAAAATATTTTTTTATAAAAATAATAAAAAAGTAAAAA
1 TTATT----AA-A---TTTTATAAAAATAAT-AAAAATTAAAAA
* *
91169326 TTATAAAATTTTATAAAAATCATAAAAATT
1 TTATTAAATTTTATAAAAATAATAAAAATT
91169356 TTTAATGAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 21
0.71 0.05 0.25
Matches are distributed among these distances:
35 6 0.10
36 19 0.32
39 1 0.02
40 4 0.07
41 1 0.02
43 8 0.13
44 15 0.25
45 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (35 bp):
TTATTAAATTTTATAAAAATAATAAAAATTAAAAA
Found at i:91169344 original size:19 final size:20
Alignment explanation
Indices: 91169320--91169357 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
91169310 AATAAAAAAG
*
91169320 TAAAAATTAT-AAAATTTTA
1 TAAAAATCATAAAAATTTTA
91169339 TAAAAATCATAAAAATTTT
1 TAAAAATCATAAAAATTTT
91169358 TAATGAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATCATAAAAATTTTA
Found at i:91169531 original size:17 final size:17
Alignment explanation
Indices: 91169502--91169552 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
91169492 ACTTTATAAA
91169502 ATTTTATAA-TTTTTATT
1 ATTTT-TAATTTTTTATT
* * *
91169519 ATTTTTATTTTTTTCTA
1 ATTTTTAATTTTTTATT
*
91169536 ATTTTTAATATTTTATT
1 ATTTTTAATTTTTTATT
91169553 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 2 0.08
17 24 0.92
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTAATTTTTTATT
Found at i:91169538 original size:26 final size:25
Alignment explanation
Indices: 91169503--91169565 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
91169493 CTTTATAAAA
*
91169503 TTTTATAATTTTTATTATTTTTATTT
1 TTTTATAATTTTTAATA-TTTTATTT
*
91169529 TTTTCTAATTTTTAATATTTTATTT
1 TTTTATAATTTTTAATATTTTATTT
*
91169554 TTATTAAAATTT
1 TT-TTATAATTT
91169566 AATAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATAATTTTTAATATTTTATTT
Found at i:91169540 original size:25 final size:26
Alignment explanation
Indices: 91169503--91169602 Score: 55
Period size: 26 Copynumber: 3.8 Consensus size: 26
91169493 CTTTATAAAA
*
91169503 TTTTATAA-TTTTTATTATTTTTATTT
1 TTTTATAATTTTTTA-AATTTTTATTT
*
91169529 TTTTCTAA-TTTTT-AATATTTTATTT
1 TTTTATAATTTTTTAAAT-TTTTATTT
* ** * **
91169554 TTATTAAAATTTAATAAATTTATA-GA
1 TT-TTATAATTTTTTAAATTTTTATTT
*
91169580 TTTTATAGATTTTTTTAATTTTT
1 TTTTATA-ATTTTTTAAATTTTT
91169603 TTTAATTTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
24 2 0.04
25 14 0.25
26 29 0.53
27 7 0.13
28 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTATAATTTTTTAAATTTTTATTT
Found at i:91169566 original size:24 final size:25
Alignment explanation
Indices: 91169521--91169569 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
91169511 TTTTTATTAT
* **
91169521 TTTTATTTTTTTCTAATTTTTAATA
1 TTTTATTTTTATCTAAAATTTAATA
91169546 TTTTATTTTTAT-TAAAATTTAATA
1 TTTTATTTTTATCTAAAATTTAATA
91169570 AATTTATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATTTTTATCTAAAATTTAATA
Found at i:91173457 original size:29 final size:30
Alignment explanation
Indices: 91173410--91173477 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
91173400 TGGCCTAGGA
* *
91173410 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
91173440 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
91173470 GAAAATAT
1 GTAAATAT
91173478 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:91175804 original size:39 final size:40
Alignment explanation
Indices: 91175704--91175838 Score: 245
Period size: 40 Copynumber: 3.4 Consensus size: 40
91175694 TCCAATTTCT
91175704 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
1 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
*
91175744 AGCATAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
1 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
*
91175784 AGCAC-AAGCCTGCGGGATTTAACCCGGATATCTATTGCC
1 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
91175823 AGCACAAAGCCTGCGG
1 AGCACAAAGCCTGCGG
91175839 ACTATAAGTC
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.42
40 53 0.58
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
Found at i:91177727 original size:46 final size:46
Alignment explanation
Indices: 91177674--91177842 Score: 225
Period size: 46 Copynumber: 3.7 Consensus size: 46
91177664 GTGCTCTCTA
** *
91177674 ATATGAAATACGTAAGACCATGGTTGAAAGATACCATGGT-AGTCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACT-TG
91177720 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACTTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACTTG
* * *
91177766 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATCGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACTTG
* * *
91177812 ACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGA
91177843 CACTATGGCA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 109 0.97
47 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACTTG
Found at i:91179162 original size:30 final size:30
Alignment explanation
Indices: 91179095--91179162 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
91179085 CACCCTTAAA
* * *
91179095 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
91179125 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
91179154 AGTATTTAC
1 A-TATTTAC
91179163 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:91179958 original size:105 final size:101
Alignment explanation
Indices: 91179844--91180034 Score: 251
Period size: 105 Copynumber: 1.9 Consensus size: 101
91179834 ACTCGTAATT
* * *
91179844 CCATAACCCAGTTATGGT-TTTATCATCAGG-ATGTCATAGCCCATCTATGGTCTTACACTTATA
1 CCATAACCCAGTTATGGTCTTT-TCA-CAGGAATGCCATAGCCCAACTATAGTCTTACA-TT-TA
91179907 CACATACTGCCATAGTCCAACCATGGTCTTACGTTCACGGTG
62 -A-ATACTGCCATAGTCCAACCATGGTCTTACGTTCACGGTG
*
91179949 CCATAACCCAGTTATGGTCTTTTCACTGGAATGCCATAGCCCAACTATAGTCTTACATTTAAATA
1 CCATAACCCAGTTATGGTCTTTTCACAGGAATGCCATAGCCCAACTATAGTCTTACATTTAAATA
* * *
91180014 TTGTCATGGTCCAACCATGGT
66 CTGCCATAGTCCAACCATGGT
91180035 TTTATCTGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
101 21 0.27
102 1 0.01
103 2 0.03
104 5 0.06
105 45 0.58
106 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (101 bp):
CCATAACCCAGTTATGGTCTTTTCACAGGAATGCCATAGCCCAACTATAGTCTTACATTTAAATA
CTGCCATAGTCCAACCATGGTCTTACGTTCACGGTG
Found at i:91180594 original size:14 final size:14
Alignment explanation
Indices: 91180575--91180603 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91180565 CCTAAAATCA
91180575 TTTTCTATTGAATT
1 TTTTCTATTGAATT
91180589 TTTTCTATTGAATT
1 TTTTCTATTGAATT
91180603 T
1 T
91180604 ACTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCTATTGAATT
Found at i:91180904 original size:39 final size:39
Alignment explanation
Indices: 91180850--91180969 Score: 240
Period size: 39 Copynumber: 3.1 Consensus size: 39
91180840 AATGGCTGTT
91180850 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
1 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
91180889 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
1 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
91180928 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
1 TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
91180967 TTT
1 TTT
91180970 AGTCTTTTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (39 bp):
TTTGGCTGAAGAAATGTGAAGATTTGTCTGGAATTTCAA
Found at i:91185846 original size:31 final size:31
Alignment explanation
Indices: 91185808--91185880 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
91185798 TGGTCTCTGC
91185808 TTAATTCAGTTGTCATAATTGAACTAGTTGA
1 TTAATTCAGTTGTCATAATTGAACTAGTTGA
91185839 TTAATTCAGTTGTCATAATTGAACTAGTTGA
1 TTAATTCAGTTGTCATAATTGAACTAGTTGA
91185870 TTAATTCAGTT
1 TTAATTCAGTT
91185881 TCTTCATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
TTAATTCAGTTGTCATAATTGAACTAGTTGA
Found at i:91187115 original size:32 final size:32
Alignment explanation
Indices: 91187079--91187141 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
91187069 TTTTAAATTT
* *
91187079 ATAAATTGATT-ATTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTT-AAATTAATAACTCATG
*
91187111 ATAAATTAATTAATTTAAATTGATAACTCAT
1 ATAAATTAATTAATTTAAATTAATAACTCAT
91187142 AATGATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTTAAATTAATAACTCATG
Found at i:91191405 original size:20 final size:19
Alignment explanation
Indices: 91191376--91191413 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
91191366 ATAATTGTTG
91191376 AATAGATATGTTTGCTATT
1 AATAGATATGTTTGCTATT
*
91191395 AATATGATATGTTTTCTAT
1 AATA-GATATGTTTGCTAT
91191414 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (19 bp):
AATAGATATGTTTGCTATT
Found at i:91199635 original size:12 final size:12
Alignment explanation
Indices: 91199618--91199647 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
91199608 TGGCGTCGAT
*
91199618 GCCGGATGGTTG
1 GCCGGATGGCTG
91199630 GCCGGATGGCTG
1 GCCGGATGGCTG
91199642 GCCGGA
1 GCCGGA
91199648 GTTCAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.50, T:0.17
Consensus pattern (12 bp):
GCCGGATGGCTG
Found at i:91200185 original size:3 final size:3
Alignment explanation
Indices: 91200179--91200560 Score: 132
Period size: 3 Copynumber: 125.3 Consensus size: 3
91200169 CATCATCATC
91200179 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * *
91200227 ATC CTC ATT AGC A-T ATT ATT ATT ATT TTT ACT ATT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** * ** * **
91200273 CACC ATT GCT ATT ATGT TTT AAC ATT ATT ATT TTCT ATT ATT ACCA ATGT
1 -ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT A-TT AT-T
* * * * * *
91200323 -TT A-T ATT ATT ATT ATTT ATT ATC AAT ATT AAT ATT ATC ATT GTC
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
91200367 GTT TTT ATT ACT ATC ATT ATT ATT ATTT ACT ATT GTTT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -ATT ATT ATT ATT
* ** * * * *
91200414 ATT ATC ACC ATT CCTT ACT ATT -TGCT ATT ATT ATT ATT ACT AGTT -TC
1 ATT ATT ATT ATT -ATT ATT ATT AT--T ATT ATT ATT ATT ATT A-TT ATT
* * * * * * * *
91200461 ATT ATT GTT ATC ACT ATT TTT ATT ACT ACTG A-T ATT ATT ACTC CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT
* * * * *
91200507 -TT ATT ATT AAT ATT ATT TTT ACT ATT ATC ATT ATT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
91200554 ATT ATT A
1 ATT ATT A
91200561 CCACCTTATT
Statistics
Matches: 266, Mismatches: 91, Indels: 44
0.66 0.23 0.11
Matches are distributed among these distances:
2 11 0.04
3 235 0.88
4 19 0.07
5 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:91200819 original size:17 final size:19
Alignment explanation
Indices: 91200783--91200819 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
91200773 ATATCTGTAT
*
91200783 TATTATTTCACTATTGTTA
1 TATTATTTCACTATTATTA
91200802 TATT-TTTCAC-ATTATTA
1 TATTATTTCACTATTATTA
91200819 T
1 T
91200820 TATCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTTCACTATTATTA
Found at i:91202034 original size:18 final size:20
Alignment explanation
Indices: 91202001--91202042 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
91201991 TAATTTCATG
*
91202001 TTATAAACACTATAAATAAA
1 TTATAAACACTATAAAAAAA
91202021 TTATAAA-A-TATAAAAAAA
1 TTATAAACACTATAAAAAAA
91202039 TTAT
1 TTAT
91202043 TTTATTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TTATAAACACTATAAAAAAA
Found at i:91203850 original size:17 final size:17
Alignment explanation
Indices: 91203816--91203850 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
91203806 TAATTGTGTG
* *
91203816 TATATATTATGTGTATA
1 TATATATTATATGCATA
91203833 TATATATTATATGCATA
1 TATATATTATATGCATA
91203850 T
1 T
91203851 CAGTGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
TATATATTATATGCATA
Found at i:91206136 original size:47 final size:47
Alignment explanation
Indices: 91206020--91206150 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 47
91206010 AATCTCACCT
* * *
91206020 ATAATGAACTCGGAACGCAACTCAAAGAGCTCGGGTG-TTCGAATCC
1 ATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGAATCC
* * *
91206066 ATAATGAACTCTGAACACAACTCAACGAGTTCGGATGCTT-GCATCC
1 ATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGAATCC
* *
91206112 ATAGGTGAACTCGGAATGCAACTCAACGAGTTCGGATGC
1 ATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
91206151 CTCATAATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 40 0.55
47 33 0.45
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (47 bp):
ATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGAATCC
Found at i:91208587 original size:30 final size:29
Alignment explanation
Indices: 91208545--91208602 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
91208535 AAAGATAACA
*
91208545 AGAAAACCGAATAAAGAAATCCAAGATAG
1 AGAAAACCGAATAAAGAAACCCAAGATAG
*
91208574 AGAAACCCAGAATAAAGAAACCCAAGATA
1 AGAAAACC-GAATAAAGAAACCCAAGATA
91208603 CGATACTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.59, C:0.17, G:0.16, T:0.09
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATAG
Found at i:91208592 original size:15 final size:15
Alignment explanation
Indices: 91208544--91208597 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
91208534 TAAAGATAAC
*
91208544 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
91208558 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
91208573 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
91208588 AAGAAACCCA
1 AAGAAACCCA
91208598 AGATACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 9 0.27
15 23 0.70
16 1 0.03
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:91210961 original size:31 final size:31
Alignment explanation
Indices: 91210920--91210983 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
91210910 CCTTTTCATA
* *
91210920 TTTCATATTTCATAACACTGGGTCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
91210951 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
91210982 TT
1 TT
91210984 ACTGTAAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:91211238 original size:24 final size:24
Alignment explanation
Indices: 91211174--91211315 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
91211164 GCTTTATCAT
*
91211174 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
91211199 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
91211222 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
91211245 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
91211269 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
91211293 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
91211316 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 40 0.36
24 64 0.58
25 7 0.06
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:91211287 original size:71 final size:71
Alignment explanation
Indices: 91211173--91211315 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
91211163 TGCTTTATCA
*
91211173 TATAACTGGAGGCCTAGCCTCTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG
91211238 CCCTTT
66 CCCTTT
* * *
91211244 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATA
91211307 AGCCCTTT
64 AGCCCTTT
91211315 T
1 T
91211316 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 20 0.30
71 46 0.70
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG
CCCTTT
Done.