Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2617
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: 133427
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Found at i:550 original size:14 final size:15
Alignment explanation
Indices: 525--554 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
515 TTGTGACAAA
525 TAATTGAGTAATATT
1 TAATTGAGTAATATT
540 TAATT-AGTAATATT
1 TAATTGAGTAATATT
554 T
1 T
555 CATTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAATTGAGTAATATT
Found at i:1474 original size:14 final size:14
Alignment explanation
Indices: 1457--1510 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
1447 TATATTTGAT
1457 ATATTATAATATAA
1 ATATTATAATATAA
* *
1471 ATA-TA-ATTATAT
1 ATATTATAATATAA
1483 ATATTATAATATAA
1 ATATTATAATATAA
* *
1497 ATATAATTATATAA
1 ATATTATAATATAA
1511 CTCGATGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 8 0.25
13 4 0.12
14 20 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATTATAATATAA
Found at i:1488 original size:26 final size:26
Alignment explanation
Indices: 1455--1509 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1445 TTTATATTTG
1455 ATATATTATAATATAAATATAATTAT
1 ATATATTATAATATAAATATAATTAT
1481 ATATATTATAATATAAATATAATTAT
1 ATATATTATAATATAAATATAATTAT
1507 ATA
1 ATA
1510 ACTCGATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATTATAATATAAATATAATTAT
Found at i:12482 original size:52 final size:52
Alignment explanation
Indices: 12415--12842 Score: 332
Period size: 52 Copynumber: 8.2 Consensus size: 52
12405 CAATGAGCTA
* * * *
12415 ATTCAAGGCCAGCAACATTGGACTTGAAGATGAGAAGAATGCCAATATGCTA
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAAGAATGCCAATATGCTG
* * *
12467 ATTCAAGGCTAGCAACATTGGACTTAAAAATGATAAGAATGCCAATGTACTG
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAAGAATGCCAATATGCTG
* ** * * * ** * **
12519 ATTCAAGGCTAGTGATATTGGGCTAAAAAATGATAAGGGTGCCAATGTATTG
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAAGAATGCCAATATGCTG
* * * * *
12571 ATTCAAGTCCAGCAACATTGGGCTTAACAATGATATA-AGTGCCAATATGCTA
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATA-AGAATGCCAATATGCTG
* * ** * * * *
12623 ATTCAAGTCCAGCAATATCAGACTTAAAGATGACAATG-GTGCCAATGTGCTG
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAA-GAATGCCAATATGCTG
* * *
12675 ATTCAAGGCCAGCGACATTAGACTTAAAAATAAT-AGAAGTGCCAATATGCTG
1 ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAAGAA-TGCCAATATGCTG
** * * * *
12727 ATTCAAGGCCA--ATGATGTGGAACTTAAAGATGATAA-AGGTGCCTATGTGCTG
1 ATTCAAGGCCAGCAACAT-TGG-ACTTAAAAATGATAAGA-ATGCCAATATGCTG
* * **
12779 TTTCAAGGCCA-AAGACATTGGACTTAAAAATGAT-AGAAGTGCCAATATGCAA
1 ATTCAAGGCCAGCA-ACATTGGACTTAAAAATGATAAGAA-TGCCAATATGCTG
12831 ATTCAAGGCCAG
1 ATTCAAGGCCAG
12843 TGAGAATTGG
Statistics
Matches: 298, Mismatches: 64, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
50 3 0.01
51 5 0.02
52 282 0.95
53 6 0.02
54 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (52 bp):
ATTCAAGGCCAGCAACATTGGACTTAAAAATGATAAGAATGCCAATATGCTG
Found at i:12587 original size:104 final size:104
Alignment explanation
Indices: 12415--12845 Score: 438
Period size: 104 Copynumber: 4.1 Consensus size: 104
12405 CAATGAGCTA
** * * * * * * *
12415 ATTCAAGGCCAGCAACATTGGACTTGAAGATGA-GAAGAATGCCAATATGCTAATTCAAGGCTAG
1 ATTCAAGGCCAGTGATATTGGACTTAAAGATGATAAAG-GTGCCAATGTGCTGATTCAAGGCCAG
* *
12479 CAACATTGGACTTAAAAATGATAAGAA-TGCCAATGTACTG
65 CAACATTGGACTTAAAAATGAT-AGAAGTGCCAATATGCTG
* * * * * ** *
12519 ATTCAAGGCTAGTGATATTGGGCTAAAAAATGATAAGGGTGCCAATGTATTGATTCAAGTCCAGC
1 ATTCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* * * *
12584 AACATTGGGCTTAACAATGATATAAGTGCCAATATGCTA
66 AACATTGGACTTAAAAATGATAGAAGTGCCAATATGCTG
* ** ** * *
12623 ATTCAAGTCCAGCAATATCAGACTTAAAGATGACAATGGTGCCAATGTGCTGATTCAAGGCCAGC
1 ATTCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* * *
12688 GACATTAGACTTAAAAATAATAGAAGTGCCAATATGCTG
66 AACATTGGACTTAAAAATGATAGAAGTGCCAATATGCTG
* * * *
12727 ATTCAAGGCCAATGAT-GTGGAACTTAAAGATGATAAAGGTGCCTATGTGCTGTTTCAAGGCCA-
1 ATTCAAGGCCAGTGATATTGG-ACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAG
* **
12790 AAGACATTGGACTTAAAAATGATAGAAGTGCCAATATGCAA
65 CA-ACATTGGACTTAAAAATGATAGAAGTGCCAATATGCTG
12831 ATTCAAGGCCAGTGA
1 ATTCAAGGCCAGTGA
12846 GAATTGGATT
Statistics
Matches: 261, Mismatches: 62, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
103 4 0.02
104 255 0.98
105 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (104 bp):
ATTCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
AACATTGGACTTAAAAATGATAGAAGTGCCAATATGCTG
Found at i:12990 original size:32 final size:30
Alignment explanation
Indices: 12906--13030 Score: 116
Period size: 30 Copynumber: 4.2 Consensus size: 30
12896 GTTGCCATCG
12906 ACTTGTGGGCTTT-AAAAGAG-TGCCACTA
1 ACTTGTGGGCTTTAAAAAGAGATGCCACTA
*
12934 ACTTGTGGGCTTTGAAAAA-TGATGCCACTA
1 ACTTGTGGGCTTT-AAAAAGAGATGCCACTA
*
12964 ACTTGCGTGGGCTTTAAAAAGAGATGCTA-TA
1 ACTT--GTGGGCTTTAAAAAGAGATGCCACTA
* * * * *
12995 GAGTTGTGGACTTTGAAAA-AGTTGCCACCA
1 -ACTTGTGGGCTTTAAAAAGAGATGCCACTA
13025 ACTTGT
1 ACTTGT
13031 ATGAGCTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
28 13 0.16
29 12 0.15
30 29 0.37
31 7 0.09
32 18 0.23
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTAAAAAGAGATGCCACTA
Found at i:13028 original size:61 final size:60
Alignment explanation
Indices: 12910--13029 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 60
12900 CCATCGACTT
* *
12910 GTGGGCTTTAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAATGATGCCACTAACTTGC
1 GTGGGCTTTAAAAGAGTGCCACTAACTTGTGGACTTTGAAAAATGATGCCACCAACTTGC
* * *
12970 GTGGGCTTTAAAAAGAGATGCTA-TAGAGTTGTGGACTTTGAAAAA-GTTGCCACCAACTTG
1 GTGGGCTTT-AAAAGAG-TGCCACTA-ACTTGTGGACTTTGAAAAATGATGCCACCAACTTG
13030 TATGAGCTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 9 0.17
61 22 0.42
62 21 0.40
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (60 bp):
GTGGGCTTTAAAAGAGTGCCACTAACTTGTGGACTTTGAAAAATGATGCCACCAACTTGC
Found at i:13491 original size:14 final size:14
Alignment explanation
Indices: 13468--13513 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
13458 TGTGATGGTA
13468 ATGT-GAATGCATG
1 ATGTGGAATGCATG
13481 ATGTGGAATGCATG
1 ATGTGGAATGCATG
*
13495 ATGTTGAATGCATG
1 ATGTGGAATGCATG
13509 ATGTG
1 ATGTG
13514 AAGTCTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (14 bp):
ATGTGGAATGCATG
Found at i:29158 original size:22 final size:20
Alignment explanation
Indices: 29133--29174 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
29123 AAATAATACG
*
29133 AATATAATATAAATATATAAAA
1 AATATAAAATAAA-ATA-AAAA
29155 AATATAAAATAAAATAAAAA
1 AATATAAAATAAAATAAAAA
29175 TAATTACCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AATATAAAATAAAATAAAAA
Found at i:29174 original size:11 final size:12
Alignment explanation
Indices: 29133--29177 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
29123 AAATAATACG
*
29133 AATATAATAT-A
1 AATATAAAATAA
*
29144 AATATATAA-AA
1 AATATAAAATAA
29155 AATATAAAATAA
1 AATATAAAATAA
29167 AATA-AAAATAA
1 AATATAAAATAA
29178 TTACCGCACG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATATAAAATAA
Found at i:36873 original size:2 final size:2
Alignment explanation
Indices: 36860--36904 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
36850 TAATGCATTC
* *
36860 AT AT AT AC AT AT AT AT AT AT AT AT AT GT 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
36902 AT A
1 AT A
36905 ATTGGTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38189 original size:4 final size:4
Alignment explanation
Indices: 38180--38207 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38170 TTTTGTTTAG
38180 AGAA AGAA AGAA AGAA AGAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA
38208 GATGACAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:38769 original size:2 final size:2
Alignment explanation
Indices: 38762--38788 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38752 GTTGAAGGTG
38762 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
38789 GTGGCTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:39065 original size:19 final size:19
Alignment explanation
Indices: 39029--39067 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39019 TAAGAAAAAA
*
39029 ATTATTTTTTTATTTTTTT
1 ATTATTTTTTTATATTTTT
39048 ATTA-TTTTTTATCATTTTT
1 ATTATTTTTTTAT-ATTTTT
39067 A
1 A
39068 ATGAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTATTTTTTTATATTTTT
Found at i:39603 original size:16 final size:16
Alignment explanation
Indices: 39539--39637 Score: 78
Period size: 16 Copynumber: 6.1 Consensus size: 16
39529 AACATACATG
*
39539 TATA-TATTTTAAAATA
1 TATATTATTTTAATA-A
39555 TATATTATTTTTAATAA
1 TATATTA-TTTTAATAA
* *
39572 TAAATTA-TTAACATAA
1 TATATTATTTTA-ATAA
*
39588 TTTATTATTTTAATAAA
1 TATATTATTTTAAT-AA
* *
39605 AATATTA-TTTAAAAA
1 TATATTATTTTAATAA
*
39620 AATATTATTTTAATAA
1 TATATTATTTTAATAA
39636 TA
1 TA
39638 AATTGTAACA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
15 12 0.18
16 28 0.42
17 19 0.29
18 7 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATTATTTTAATAA
Found at i:39603 original size:32 final size:31
Alignment explanation
Indices: 39546--39641 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
39536 ATGTATATAT
*
39546 TTTAAAATATATATTATTTTTAATAATAAATTA
1 TTTAAAA-AAATATTA-TTTTAATAATAAATTA
** *
39579 -TTAACATAATTTATTATTTTAATAAAAATATTA
1 TTTAA-A-AAAATATTATTTTAATAATAA-ATTA
39612 TTTAAAAAAATATTATTTTAATAATAAATT
1 TTTAAAAAAATATTATTTTAATAATAAATT
39642 GTAACATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
31 3 0.06
32 33 0.61
33 13 0.24
34 5 0.09
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTAAAAAAATATTATTTTAATAATAAATTA
Found at i:39622 original size:15 final size:16
Alignment explanation
Indices: 39590--39640 Score: 68
Period size: 15 Copynumber: 3.1 Consensus size: 16
39580 TAACATAATT
39590 TATTATTTTAATAAAAA
1 TATTA-TTTAATAAAAA
39607 TATTATTTAA-AAAAA
1 TATTATTTAATAAAAA
39622 TATTATTTTAATAATAAA
1 TATTA-TTTAATAA-AAA
39640 T
1 T
39641 TGTAACATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.32
16 10 0.32
17 7 0.23
18 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATTTAATAAAAA
Found at i:40085 original size:23 final size:22
Alignment explanation
Indices: 40052--40094 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
40042 TTATTATAAT
*
40052 ATTTTTAAATATTAATATAATTA
1 ATTTTTAAATAATAA-ATAATTA
*
40075 ATTTTTTAATAATAAATAAT
1 ATTTTTAAATAATAAATAAT
40095 ATCACTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTAAATAATAAATAATTA
Found at i:41160 original size:16 final size:16
Alignment explanation
Indices: 41127--41160 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41117 TATTCTAAGT
*
41127 TTATTTTGTAATTCAA
1 TTATTTTGTAATTAAA
*
41143 TTATTTTGTACTTAAA
1 TTATTTTGTAATTAAA
41159 TT
1 TT
41161 CTAGCAGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTATTTTGTAATTAAA
Found at i:42228 original size:22 final size:22
Alignment explanation
Indices: 42170--42229 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
42160 GTAATACATT
*
42170 AATTATTATTATTAATATGTATAA
1 AATTATTTTTA-TAA-ATGTATAA
*
42194 AATT-TATTTATAAAT-TATGAA
1 AATTATTTTTATAAATGTAT-AA
42215 AATTATTTTTATAAA
1 AATTATTTTTATAAA
42230 AAATAATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 8 0.26
22 12 0.39
23 4 0.13
24 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
AATTATTTTTATAAATGTATAA
Found at i:42379 original size:4 final size:4
Alignment explanation
Indices: 42370--42394 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
42360 CAAAAGTTTC
42370 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
42395 CCCCCTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:43902 original size:2 final size:2
Alignment explanation
Indices: 43895--43943 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
43885 CGTCATGCAT
43895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43937 TA TA TA T
1 TA TA TA T
43944 CTTAAGCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44713 original size:20 final size:20
Alignment explanation
Indices: 44685--44722 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44675 TATAATTAAA
44685 TTTAAATAAAATA-TATTAT
1 TTTAAATAAAATACTATTAT
44704 TTTAATATAAAATACTATT
1 TTTAA-ATAAAATACTATT
44723 TTAAGTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATAAAATACTATTAT
Found at i:44884 original size:46 final size:43
Alignment explanation
Indices: 44812--44951 Score: 156
Period size: 46 Copynumber: 3.1 Consensus size: 43
44802 TGTCACTAAT
* * *
44812 AAAATTTTATATCAAATTAAAATAAATTAATTAAGAGGTAATTAA
1 AAAATTTTATAT-TAATTAAATTAAATTAATTAAGAGATAA-TAA
* *
44857 AGTAATTTTATATTTAATTAAATTAAATTAATTAAGAAATAGATAA
1 A-AAATTTTATA-TTAATTAAATTAAATTAATTAAGAGATA-ATAA
44903 AAAAGTTTTATCA-TAATTAAATTAAATTAATTAAGAGATAAATAA
1 AAAA-TTTTAT-ATTAATTAAATTAAATTAATTAAGAGAT-AATAA
44948 AAAA
1 AAAA
44952 ATTAAATTCT
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
45 36 0.44
46 43 0.52
47 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (43 bp):
AAAATTTTATATTAATTAAATTAAATTAATTAAGAGATAATAA
Found at i:44935 original size:45 final size:43
Alignment explanation
Indices: 44808--44951 Score: 150
Period size: 45 Copynumber: 3.2 Consensus size: 43
44798 CATGTGTCAC
* * *
44808 TAAT-AAAATTTTATATCA-AATTAAAATAAATTAATTAAGAGG
1 TAATAAAAAATTT-TATCATAATTAAATTAAATTAATTAAGAGA
* *
44850 TAATTAAAGTAATTTTAT-ATTTAATTAAATTAAATTAATTAAGAAA
1 TAA-TAAA-AAATTTTATCA--TAATTAAATTAAATTAATTAAGAGA
44896 TAGATAAAAAAGTTTTATCATAATTAAATTAAATTAATTAAGAGA
1 TA-ATAAAAAA-TTTTATCATAATTAAATTAAATTAATTAAGAGA
44941 TAAATAAAAAA
1 T-AATAAAAAA
44952 ATTAAATTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.04
43 2 0.02
44 5 0.06
45 39 0.46
46 34 0.40
47 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (43 bp):
TAATAAAAAATTTTATCATAATTAAATTAAATTAATTAAGAGA
Found at i:48743 original size:152 final size:152
Alignment explanation
Indices: 48371--49063 Score: 824
Period size: 152 Copynumber: 4.5 Consensus size: 152
48361 GCTAAGTTTA
* * * * * * * *
48371 AGAAAAATTACAAAAATGCCTTTAGAGGATACCTTTGACATAAAAGTACCGGATACTCCTAAAGG
1 AGAAAAATTACGAAAATGCCCTTAG-GGATACCTTCGACGTGAAAGTGCCCGATACCCCTAAAGG
* * * * *
48436 ACTTAAAAGGATTAGATGGGATGAACCTATCATAAATGTTCACCTTTGGCATAAAAGCGAACTCG
65 ACTTAAAAGGATTAGATGGGATGAACCTATCTTGAATGTTCACCTTTGGCATAAAAGCGGACCCA
* * *
48501 GTGATGACCTAGAACTTGATTCT
130 GTGACGACCTAGGACTTGGTTCT
* * * *
48524 AGAAAAATTATGAAAATGCCCTTAGAGATACCTTCGATGTGAAAGTGGCCGATACCCCTAAAGGA
1 AGAAAAATTACGAAAATGCCCTTAGGGATACCTTCGACGTGAAAGTGCCCGATACCCCTAAAGGA
* * *
48589 CTTAAAAAGATTAGAT-GGATGAACCTATCCTGAATGTTCACCTTTGGCATAAAAACGGACCCAG
66 CTTAAAAGGATTAGATGGGATGAACCTATCTTGAATGTTCACCTTTGGCATAAAAGCGGACCCAG
48653 TGACGACCTAGGACTTGGTTCT
131 TGACGACCTAGGACTTGGTTCT
*
48675 A-AAACTATTACGAAAATG-CCTATAGGGAATACCTTCGACGTGAAAGTGCCCGATACCCCTAAA
1 AGAAA-AATTACGAAAATGCCCT-TAGGG-ATACCTTCGACGTGAAAGTGCCCGATACCCCTAAA
* * * * * *
48738 CGACTTAAAAAGAATTAAATAGGATGAGCCTATCTTGAATGTCCACCTTTGGCATAAAAGCGGAC
63 GGACTT-AAAAGGATTAGATGGGATGAACCTATCTTGAATGTTCACCTTTGGCATAAAAGCGGAC
* *
48803 TCAGTGACGACCTAAGACTTGGTTCT
127 CCAGTGACGACCTAGGACTTGGTTCT
* * ** * * *
48829 ATAAAAATTATGAAAATGCCCTTAGGGGATA-CTTACGGTGTGAAAGTACCCGATACTCTTAAAG
1 AGAAAAATTACGAAAATGCCCTTA-GGGATACCTT-CGACGTGAAAGTGCCCGATACCCCTAAAG
*
48893 GACTTAAAAGGATTAGATGGGATGAACCTATCTTGAATG-TCTACATTTGGCATAAAAGCGGACC
64 GACTTAAAAGGATTAGATGGGATGAACCTATCTTGAATGTTC-ACCTTTGGCATAAAAGCGGACC
* *
48957 CGGTGACGACCTAGGACTT-GTTCC
128 CAGTGACGACCTAGGACTTGGTTCT
* ***
48981 ATAAAAATTACGAAAATGACCC-TAGGGGATACCTTCGACGTGAAAGTGTTTGATACCCCTAAAG
1 AGAAAAATTACGAAAATG-CCCTTA-GGGATACCTTCGACGTGAAAGTGCCCGATACCCCTAAAG
*
49045 GACTTAGAAGGATTAGATG
64 GACTTAAAAGGATTAGATG
49064 TGAGAGAATG
Statistics
Matches: 463, Mismatches: 65, Indels: 25
0.84 0.12 0.05
Matches are distributed among these distances:
150 6 0.01
151 77 0.17
152 154 0.33
153 108 0.23
154 109 0.24
155 9 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (152 bp):
AGAAAAATTACGAAAATGCCCTTAGGGATACCTTCGACGTGAAAGTGCCCGATACCCCTAAAGGA
CTTAAAAGGATTAGATGGGATGAACCTATCTTGAATGTTCACCTTTGGCATAAAAGCGGACCCAG
TGACGACCTAGGACTTGGTTCT
Found at i:51849 original size:164 final size:164
Alignment explanation
Indices: 51369--52059 Score: 795
Period size: 165 Copynumber: 4.2 Consensus size: 164
51359 ATGGGAGTTT
* * * ** * * * *
51369 AATAACAATATTAGATGGATTTTAAAAATTTTAAATCGAGAAAAATTCTCCCGAAAAGATTTAAG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTC-CCCAAAAAAATTTAAG
* *
51434 GAGTAGAAAACTCCGTATTTCGAAAATAAGAAGAATTCAAGGAAAAAAA-TGAAAAACTCATGAA
65 GAGTAGAAAACTCCGTTTTTCGAAAATAAG-AGAATTCAA-GAAAAAAATTCAAAAACTCATGAA
* *
51498 AATGAATGAATTTTTAAAAACAGATTTAATATAAAATA
128 AATGAATGAATTTTT-AAAACTGATTTAATATGAAATA
* * *
51536 AATAATAATATTTTATGAATTTTAAAAATTAAAAACCAATAAAAATTCCCTCAAAAAAATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCC-CAAAAAAATTTAAG
** * * *
51601 GAGTAGAAAACTCTATTTTTCGAAAATAGGAGAACTTCAAG--GAAAATTTAAAAACTCATGAAA
65 GAGTAGAAAACTCCGTTTTTCGAAAATAAGAGAA-TTCAAGAAAAAAATTCAAAAACTCATGAAA
* *
51664 ATGAATGAATTTTTTAAAACTGACTTATTATGAAATA
129 ATGAATGAA-TTTTTAAAACTGATTTAATATGAAATA
*
51701 AATAATAATATTTGAAGAATTTT-AAAATT-AAAACCAAGAAAAATCTCCCCAAAAAAATTTAAG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-TCCCCAAAAAAATTTAAG
* *
51764 AAGTAGAAAACTCCGTTTTTTGAAAATAAGAGAATTTCAA-AAAAAAATTCAAAAACTCATGAAA
65 GAGTAGAAAACTCCGTTTTTCGAAAATAAGAGAA-TTCAAGAAAAAAATTCAAAAACTCATGAAA
*
51828 ATGAATGAATTTTTCAAAACTGATTTATTATGAAATA
129 ATGAATGAATTTTT-AAAACTGATTTAATATGAAATA
* ** *
51865 AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAA-TCCCTTTGAAAAAATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCC--CAAAAAAATTTAA
* * * * * * * * * * *
51929 GGAGTAGAAAACTCTGTTTTTCAAAAACAAAAAAATTCAAGGAAAAAATTCAATAGCCCCTAAAA
64 GGAGTAGAAAACTCCGTTTTTCGAAAATAAGAGAATTCAAGAAAAAAATTCAAAAACTCATGAAA
* * *
51994 ATGAATGAATTGTTAAAATTAATTTAATAT-AAATTA
129 ATGAATGAATTTTTAAAACTGATTTAATATGAAA-TA
*
52030 AATAATAATATTTGATGAATTTTGAAAATT
1 AATAATAATATTTGATGAATTTTAAAAATT
52060 TTAAATCATC
Statistics
Matches: 452, Mismatches: 58, Indels: 30
0.84 0.11 0.06
Matches are distributed among these distances:
163 66 0.15
164 93 0.21
165 118 0.26
166 94 0.21
167 81 0.18
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (164 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCAAAAAAATTTAAGG
AGTAGAAAACTCCGTTTTTCGAAAATAAGAGAATTCAAGAAAAAAATTCAAAAACTCATGAAAAT
GAATGAATTTTTAAAACTGATTTAATATGAAATA
Found at i:52034 original size:329 final size:330
Alignment explanation
Indices: 51407--52059 Score: 872
Period size: 329 Copynumber: 2.0 Consensus size: 330
51397 TTTTAAATCG
* * *
51407 AGAAAAATTCTCCCGAAAAGATTTAAGGAGTAGAAAACTCCGTATTTCGAAAATAAGAAGAATTC
1 AGAAAAATTCTCCCAAAAAAATTTAAGAAGTAGAAAACTCCGTATTTCGAAAATAAGAAGAATTC
*
51472 AAGGAAAAAAATGAAAAACTCATGAAAATGAATGAATTTTTAAAAACAGATTTAATATAAAATAA
66 AA-GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTAAAAACAGATTTAATATAAAATAA
* * *
51537 ATAATAATATTTTATGAATTTTAAAAATTAAAAACCAATAAAAATTCCCTCAAAAAAATTTATGG
130 ATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCTCAAAAAAATTTACGG
* * * * * * * *
51602 AGTAGAAAACTCTATTTTTCGAAAATAGGAGAACTTCAAGGAAAATTTAAAAACTCATGAAAATG
195 AGTAGAAAACTCTATTTTTCAAAAACAGAAAAAATTCAAGGAAAATTCAAAAACCCATAAAAATG
* * *
51667 AATGAATTTTTTAAAACTGACTTATTATGAAATAAATAATAATATTTGAAGAATTTT-AAAATTA
260 AATGAATTTGTTAAAACTAACTTAATATGAAATAAATAATAATATTTGAAGAATTTTGAAAATTA
51731 AAACCA
325 AAACCA
* *
51737 AGAAAAA-TCTCCCCAAAAAAATTTAAGAAGTAGAAAACTCCGTTTTTTGAAAATAAG-AGAATT
1 AGAAAAATTCT-CCCAAAAAAATTTAAGAAGTAGAAAACTCCGTATTTCGAAAATAAGAAGAA-T
* * * *
51800 TCAA-AAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTCAAAACTGATTTATTATGAAAT
64 TCAAGAAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTTTAAAAACAGATTTAATATAAAAT
* **
51864 AAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAA-TCCCTTTGAAAAAATTTA
128 AAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCC-TCAAAAAAATTTA
* * * *
51928 CGGAGTAGAAAACTCTGTTTTTCAAAAACA-AAAAAATTCAAGGAAAAAATTCAATAGCCCCTAA
192 CGGAGTAGAAAACTCTATTTTTCAAAAACAGAAAAAATTCAAGG--AAAATTCAAAAACCCATAA
* * *
51992 AAATGAATGAA-TTGTTAAAATTAATTTAATAT-AAATTAAATAATAATATTTGATGAATTTTGA
255 AAATGAATGAATTTGTTAAAACTAACTTAATATGAAA-TAAATAATAATATTTGAAGAATTTTGA
52055 AAATT
319 AAATT
52060 TTAAATCATC
Statistics
Matches: 281, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
328 24 0.09
329 174 0.62
330 83 0.30
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (330 bp):
AGAAAAATTCTCCCAAAAAAATTTAAGAAGTAGAAAACTCCGTATTTCGAAAATAAGAAGAATTC
AAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTAAAAACAGATTTAATATAAAATAAA
TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCCTCAAAAAAATTTACGGA
GTAGAAAACTCTATTTTTCAAAAACAGAAAAAATTCAAGGAAAATTCAAAAACCCATAAAAATGA
ATGAATTTGTTAAAACTAACTTAATATGAAATAAATAATAATATTTGAAGAATTTTGAAAATTAA
AACCA
Found at i:60299 original size:60 final size:61
Alignment explanation
Indices: 60235--60354 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
60225 CGAAAGTACA
* * * *
60235 AAATATTTAATAATA-TAAAAATAAAATAGCAAATAAATTGTCATTATAATATCTTTGTCG
1 AAATATTTAATAATATTAAAAATAAAACAACAAATAAATTGTCATAATAATATCTCTGTCG
*
60295 AAATATTTAATGATATTAAAAATAAAACAACAAATAAATTGTCATAATAATATCTCTGTC
1 AAATATTTAATAATATTAAAAATAAAACAACAAATAAATTGTCATAATAATATCTCTGTC
60355 ACAAATTAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 14 0.26
61 40 0.74
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (61 bp):
AAATATTTAATAATATTAAAAATAAAACAACAAATAAATTGTCATAATAATATCTCTGTCG
Found at i:61788 original size:203 final size:203
Alignment explanation
Indices: 61439--61851 Score: 826
Period size: 203 Copynumber: 2.0 Consensus size: 203
61429 GATACAATAT
61439 ACCTAATTGATCTAACAGAACTGAATGACAAAAAAAATTAGAAAAATATCCACAAAAAGTGAGTG
1 ACCTAATTGATCTAACAGAACTGAATGACAAAAAAAATTAGAAAAATATCCACAAAAAGTGAGTG
61504 CCACGTAAAGAGCATTTTTAAGCCAATTCATGACAGACAATAACCTACTTGAGTCCAATCCATCG
66 CCACGTAAAGAGCATTTTTAAGCCAATTCATGACAGACAATAACCTACTTGAGTCCAATCCATCG
61569 ATATTTGATTGCTACATGATGGATGCAATTGCAATCTCAAAGAGACTCAACACCAAAGTTAGATT
131 ATATTTGATTGCTACATGATGGATGCAATTGCAATCTCAAAGAGACTCAACACCAAAGTTAGATT
61634 TATTCAAA
196 TATTCAAA
61642 ACCTAATTGATCTAACAGAACTGAATGACAAAAAAAATTAGAAAAATATCCACAAAAAGTGAGTG
1 ACCTAATTGATCTAACAGAACTGAATGACAAAAAAAATTAGAAAAATATCCACAAAAAGTGAGTG
61707 CCACGTAAAGAGCATTTTTAAGCCAATTCATGACAGACAATAACCTACTTGAGTCCAATCCATCG
66 CCACGTAAAGAGCATTTTTAAGCCAATTCATGACAGACAATAACCTACTTGAGTCCAATCCATCG
61772 ATATTTGATTGCTACATGATGGATGCAATTGCAATCTCAAAGAGACTCAACACCAAAGTTAGATT
131 ATATTTGATTGCTACATGATGGATGCAATTGCAATCTCAAAGAGACTCAACACCAAAGTTAGATT
61837 TATTCAAA
196 TATTCAAA
61845 ACCTAAT
1 ACCTAAT
61852 ATTCACTTGA
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 210 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (203 bp):
ACCTAATTGATCTAACAGAACTGAATGACAAAAAAAATTAGAAAAATATCCACAAAAAGTGAGTG
CCACGTAAAGAGCATTTTTAAGCCAATTCATGACAGACAATAACCTACTTGAGTCCAATCCATCG
ATATTTGATTGCTACATGATGGATGCAATTGCAATCTCAAAGAGACTCAACACCAAAGTTAGATT
TATTCAAA
Found at i:63935 original size:74 final size:74
Alignment explanation
Indices: 63755--63938 Score: 215
Period size: 74 Copynumber: 2.5 Consensus size: 74
63745 GGGTAGAACC
* * * * * * *
63755 AATAGTATGAAAGCAAGTAGATGACTTAGGTAGAACCAATAGTTTGCAGATATATTGACGACCTG
1 AATAGTCTGAAAGCAAGAAGATGACTTAGGTGGAACCAACAGTATGAAGATATATTGACAACCTG
* *
63820 GGTGGAACA
66 AGTGAAACA
** * * *
63829 AATAGTCTGAAAGTGAGAAGACGACTTAGGTGGAATCAACAGTATGAAGATGTATTGACAACCTG
1 AATAGTCTGAAAGCAAGAAGATGACTTAGGTGGAACCAACAGTATGAAGATATATTGACAACCTG
63894 AGTGAAACA
66 AGTGAAACA
* * *
63903 AATAGTCTTAAAGCAAGAAGATAACTTGGGTGGAAC
1 AATAGTCTGAAAGCAAGAAGATGACTTAGGTGGAAC
63939 TATCAGTCTG
Statistics
Matches: 89, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
74 89 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (74 bp):
AATAGTCTGAAAGCAAGAAGATGACTTAGGTGGAACCAACAGTATGAAGATATATTGACAACCTG
AGTGAAACA
Found at i:64421 original size:13 final size:13
Alignment explanation
Indices: 64403--64427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64393 ATATTGCTTA
64403 GTATCGATACATT
1 GTATCGATACATT
64416 GTATCGATACAT
1 GTATCGATACAT
64428 GTTCTTGATA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:64445 original size:32 final size:33
Alignment explanation
Indices: 64385--64446 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
64375 ACCTAGATGC
64385 ATCGATACATATTGCTTAGTATCGATACATTGT
1 ATCGATACATATTGCTTAGTATCGATACATTGT
*
64418 ATCGATACATGTT-CTT-GATATCGATACAT
1 ATCGATACATATTGCTTAG-TATCGATACAT
64447 CATGAATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 14 0.52
33 12 0.44
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (33 bp):
ATCGATACATATTGCTTAGTATCGATACATTGT
Found at i:64555 original size:24 final size:24
Alignment explanation
Indices: 64508--64579 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
64498 TTGATACATT
* **
64508 ACTGTTCATCACTGTTCACATATC
1 ACTGTTCATCATTGTTCATGTATC
*
64532 ACTGTTCATCATTGTTAATGTATC
1 ACTGTTCATCATTGTTCATGTATC
* *
64556 ACTATTCATTATTGTTCATGTATC
1 ACTGTTCATCATTGTTCATGTATC
64580 GATACAGTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (24 bp):
ACTGTTCATCATTGTTCATGTATC
Found at i:64592 original size:13 final size:13
Alignment explanation
Indices: 64574--64598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64564 TTATTGTTCA
64574 TGTATCGATACAG
1 TGTATCGATACAG
64587 TGTATCGATACA
1 TGTATCGATACA
64599 TTATGAATAG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:64692 original size:20 final size:20
Alignment explanation
Indices: 64649--64692 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
64639 TTCAAATGCA
*
64649 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAGGAAT
64669 TGTATCGATACA-TAGGAAT
1 TGTATCGATACATTAGGAAT
64688 GTGTA
1 -TGTA
64693 AGTGCGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTAGGAAT
Found at i:65988 original size:52 final size:51
Alignment explanation
Indices: 65872--66010 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 51
65862 TTCTGGAAAA
*
65872 AAAATGTATCGATACATT-TTTATTGTATCGATACGTTCTAGATTTTGATC
1 AAAATGTATCGATACATTCTTTATTGTATCGATACATTCTAGATTTTGATC
* * * * * *
65922 CAAATGTATCGATACATTCTTTATTGTATTGATACATTTTGGGTTTTTGTTC
1 AAAATGTATCGATACATTCTTTATTGTATCGATACATTCT-AGATTTTGATC
* * *
65974 AAAATGTATTGATACATTCTTCAATGTATCGATACAT
1 AAAATGTATCGATACATTCTTTATTGTATCGATACAT
66011 CCAATTCAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 17 0.23
51 18 0.24
52 40 0.53
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (51 bp):
AAAATGTATCGATACATTCTTTATTGTATCGATACATTCTAGATTTTGATC
Found at i:66982 original size:33 final size:33
Alignment explanation
Indices: 66945--67011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
66935 TTCAACGATT
66945 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
66978 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
67011 T
1 T
67012 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:66983 original size:13 final size:13
Alignment explanation
Indices: 66965--66989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66955 CATAAAATGT
66965 TGTATCGATACAA
1 TGTATCGATACAA
66978 TGTATCGATACA
1 TGTATCGATACA
66990 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67070 original size:13 final size:13
Alignment explanation
Indices: 67052--67076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67042 ATTACTCAAA
67052 TGTATCGATACAT
1 TGTATCGATACAT
67065 TGTATCGATACA
1 TGTATCGATACA
67077 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67156 original size:52 final size:52
Alignment explanation
Indices: 67085--67225 Score: 255
Period size: 52 Copynumber: 2.7 Consensus size: 52
67075 CACTGATCTT
*
67085 TGTATCGATACATTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
67137 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
67189 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATTATAAAATGTATCGATACATGCAG
67226 TAACTCTTCA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:74492 original size:17 final size:17
Alignment explanation
Indices: 74459--74492 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
74449 TAATCTTCAC
*
74459 AAAAAAAAGATGCAAAA
1 AAAAAAAAGATGAAAAA
74476 AAAAAAAAGA-GAAAAA
1 AAAAAAAAGATGAAAAA
74492 A
1 A
74493 CCCCTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGATGAAAAA
Found at i:75446 original size:30 final size:31
Alignment explanation
Indices: 75410--75491 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
75400 ATACCTTTTT
75410 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
75440 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
75471 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
75492 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:75533 original size:61 final size:62
Alignment explanation
Indices: 75468--76180 Score: 626
Period size: 61 Copynumber: 11.0 Consensus size: 62
75458 GCATTTTTTC
* *
75468 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * * *
75529 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
75591 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
*
75653 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC-----
75717 CT
61 CT
*
75719 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACC--
75784 TTTCT
61 ---CT
* * *
75789 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAACCCACGACTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT-AAAGCCCACAACTCCGTGGCACCC
75854 -
62 T
* *
75854 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCA-C--C--
75919 CT
61 CT
* * * *
75921 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-CCT
** * *
75985 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C--C
76049 T
62 T
* * * **
76050 TCCTTCTAAGCCCACAACTCCATGGCA-C-----CCTTTT-AAGCCCATAACTCCGTGGCACTTT
1 T--TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* *
76108 TTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
1 TTT-A-----AAGCCCACAACTCCGTGGCACC--TTTTTCCTTTTAAAGCCCACAACTCCGTGGC
*
76173 ACTCT
58 ACCCT
76178 TTT
1 TTT
76181 TCCCTTTTAA
Statistics
Matches: 562, Mismatches: 48, Indels: 75
0.82 0.07 0.11
Matches are distributed among these distances:
56 3 0.01
58 3 0.01
60 3 0.01
61 137 0.24
62 94 0.17
63 48 0.09
64 34 0.06
65 6 0.01
66 9 0.02
67 30 0.05
68 72 0.13
69 10 0.02
70 56 0.10
71 57 0.10
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:75575 original size:34 final size:33
Alignment explanation
Indices: 75445--76213 Score: 560
Period size: 34 Copynumber: 23.6 Consensus size: 33
75435 GTCTCAAAGT
* * *
75445 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
75476 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
75509 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
75537 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
* *
75571 CCACAACTCCGTGGCAC---CTT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
75599 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
75633 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
75660 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
75694 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
75727 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
75764 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
75798 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAAC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
75835 CCACGACTCCGTGGCAC-----TCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
75862 CCACAACTCCGTGGCACCTTCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
75896 CCACAACTCCGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
75930 CCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
75964 CCACGACTCCGTGGCAC--TCTT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
75993 CCACAACTCCGTGGCACTCTTTTTC-CTCCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCT-TTAAGC
*
76027 CCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
* *
76061 CCACAACTCCATGGCAC-----CCT-TTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* *
76088 CCATAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
76122 CCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTCTC-TTT-AAGC
* *
76158 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGC
76193 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
76214 CTCCCTTCCT
Statistics
Matches: 614, Mismatches: 62, Indels: 120
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.00
27 65 0.11
28 44 0.07
29 23 0.04
31 24 0.04
32 16 0.03
33 59 0.10
34 252 0.41
35 46 0.07
36 43 0.07
37 41 0.07
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:75664 original size:27 final size:27
Alignment explanation
Indices: 75626--75677 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
75616 TTTTTTCATC
*
75626 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
75653 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
75678 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:76110 original size:27 final size:27
Alignment explanation
Indices: 76051--76104 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
76041 CACTCTTTTT
*
76051 CCTTCTAAGCCCACAACTCCATGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCAC
* *
76078 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCAC
76105 TTTTTTCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.41, G:0.13, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCATGGCAC
Found at i:76155 original size:165 final size:160
Alignment explanation
Indices: 75440--76233 Score: 644
Period size: 165 Copynumber: 4.9 Consensus size: 160
75430 ATTTTGTCTC
* * * *
75440 AAAGTCCACGACTCAGTGGCA-TTTTTTCTTTAAAGCCCACAACTCCGTGGCACCTTGT-TCCTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGCCCACAACTCCGTGGCACCTT-TCT-CTT
* * * *
75503 TT-AAGTCCACAACTCCGTGGCAC-C-CTTT-TAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
64 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTTTTC--
* *
75563 CTT-T-AAGTCCACAACTCCGTGGCA-CCTTTTT
127 CTTCTAAAGCCCACAACTCCGTGGCATCCCTTTT
* * * *
75594 AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C---C-CGT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-T-TTTAAGCCCACAACTCCGTGGCACCTTTCTCTT
75654 TT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTT
64 TTAAAGCCCACAACTCCGTGGCACTCTTTTTC---TT-AAGCCCACAACTCCGTGGCACTCTTTT
* *
75716 T-CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
125 TCCTTCTAAAGCCCACAACTCCGTGGCA-------TCCCTTTT
*
75758 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCT-TTT-AAGCCCACAACTCCGTGGCAC-C--TTTC
* * * *
75823 TCTTTTCAAAACCCACGACTCCGTGGCACTC---TT-TAAAGCCCACAACTCCGTGGCAC-CTTC
60 TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTT
* * *
75883 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
124 TTCCTTCTAAAGCCCACAACTCCGTGGCA---TC-CCTTTT
* * * *
75924 CAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCA-C--TCT-T
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT--AAGCCCACAACTCCGTGGCACCTTTCTCT
*
75985 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCTAAGCCCACAACTCTGTGGCACTCTTTT
63 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CT--TAAGCCCACAACTCCGTGGCACTCTTTT
*
76050 TCCTTCT-AAGCCCACAACTCCATGGCA-CCCTTTT
125 TCCTTCTAAAGCCCACAACTCCGTGGCATCCCTTTT
* * *
76084 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTC-T-TTTAAGCCCACAACTCCGTGGCACC---TTTCT
*
76148 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCT
61 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT--C--TTAAGCCCACAACTCCGTGGCACTCT
*
76212 TTCTCCCTTCCTAAAGCCCACA
122 TT-TTCCTT-CTAAAGCCCACA
76234 CAAGTCGGTG
Statistics
Matches: 529, Mismatches: 51, Indels: 106
0.77 0.07 0.15
Matches are distributed among these distances:
151 25 0.05
152 3 0.01
154 20 0.04
155 8 0.02
156 21 0.04
157 46 0.09
158 64 0.12
159 6 0.01
160 11 0.02
161 3 0.01
163 1 0.00
164 13 0.02
165 128 0.24
166 89 0.17
167 3 0.01
168 36 0.07
169 25 0.05
172 1 0.00
173 6 0.01
175 19 0.04
176 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (160 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCTTTT
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
TAAAGCCCACAACTCCGTGGCATCCCTTTT
Found at i:76219 original size:34 final size:34
Alignment explanation
Indices: 76077--76220 Score: 164
Period size: 36 Copynumber: 4.1 Consensus size: 34
76067 CTCCATGGCA
*
76077 CCCTTTTAAGCCCATAACTCCGTGGCA-CTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
* * * *
76110 TCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTT
1 CCCT-TTTAAGCCCACAACTCCGTGGCATC-TTTTT
**
76146 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCA-TCTTTTT
* *
76182 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTCT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
76216 CCCTT
1 CCCTT
76221 CCTAAAGCCC
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.02
34 32 0.34
35 23 0.24
36 36 0.38
37 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.11, T:0.38
Consensus pattern (34 bp):
CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTT
Found at i:76227 original size:71 final size:70
Alignment explanation
Indices: 76084--76233 Score: 196
Period size: 71 Copynumber: 2.1 Consensus size: 70
76074 GCACCCTTTT
* * **
76084 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
76149 TTTTA
66 TTCTA
* *
76154 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATC-TTTCTC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTTCTC
76217 CCTTCCTA
64 CCTT-CTA
76225 AAGCCCACA
1 AAGCCCACA
76234 CAAGTCGGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
70 29 0.41
71 41 0.59
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:76261 original size:33 final size:35
Alignment explanation
Indices: 76218--76287 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
76208 ATCTTTCTCC
76218 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
76252 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
76286 CT
1 CT
76288 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:76351 original size:49 final size:49
Alignment explanation
Indices: 76287--76858 Score: 731
Period size: 49 Copynumber: 11.8 Consensus size: 49
76277 GCAACCCTTC
* * * * *
76287 TAAGCCCAATATAGCTGGTCTTGAATCAGCATATTGGCATCTTCATGTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
76336 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
76379 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * * *
76431 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
76480 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
76529 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
76577 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
76626 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
76674 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
76723 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
76766 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
76818 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
76859 CTTTTTCATC
Statistics
Matches: 466, Mismatches: 37, Indels: 39
0.86 0.07 0.07
Matches are distributed among these distances:
43 76 0.16
45 2 0.00
48 92 0.20
49 212 0.45
50 5 0.01
52 79 0.17
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:76610 original size:97 final size:96
Alignment explanation
Indices: 76287--76853 Score: 799
Period size: 97 Copynumber: 5.9 Consensus size: 96
76277 GCAACCCTTC
* * * * *
76287 TAAGCCCAATATAGCTGGTCTTGAATCAGCATATTGGCATCTTCATGTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
76352 GGCCTTGACTCAGCACATTGGCA--C--CTT
66 GGCCTTGAATCAGCACATTGGCACTCATCTT
* * * *
76379 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTA
*
76444 GCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA-C-TCATCTT
* *
76480 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
76545 GGCCTTGAATCAGCACATTGGCACCTCATCTT
66 GGCCTTGAATCAGCACATTGGCA-CTCATCTT
* *
76577 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
76642 GGCCTTGAATCAGCACATTGGCACCTCATCTT
66 GGCCTTGAATCAGCACATTGGCA-CTCATCTT
* * *
76674 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
76739 GGCCTTGAATCAGCACATTGGCA--C--CTT
66 GGCCTTGAATCAGCACATTGGCACTCATCTT
* * *
76766 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTA
76831 GCTGGCCTTGAATCAGCACATTG
63 GCTGGCCTTGAATCAGCACATTG
76854 ACATCCTTTT
Statistics
Matches: 439, Mismatches: 24, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
92 77 0.18
94 5 0.01
95 80 0.18
97 191 0.44
98 43 0.10
99 3 0.01
101 40 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (96 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACTCATCTT
Found at i:77005 original size:48 final size:48
Alignment explanation
Indices: 76934--77505 Score: 822
Period size: 48 Copynumber: 11.9 Consensus size: 48
76924 TTTCTCATCT
*
76934 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
76982 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
*
77031 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
77079 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 -TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77128 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
77176 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 -TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77225 TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
77271 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77316 TTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 ---T-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77368 TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
77414 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77459 TTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 ---T-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
77506 ACATCCTTTT
Statistics
Matches: 475, Mismatches: 28, Indels: 38
0.88 0.05 0.07
Matches are distributed among these distances:
43 78 0.16
45 2 0.00
48 180 0.38
49 138 0.29
50 2 0.00
52 75 0.16
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:77132 original size:97 final size:96
Alignment explanation
Indices: 76934--77505 Score: 822
Period size: 97 Copynumber: 5.9 Consensus size: 96
76924 TTTCTCATCT
*
76934 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
* * * *
76999 ATCGCTGGCCTTGAATCAGCATATTGGCATCA
66 GTAGCTGGCCTTGAATCAGCACATTGGCA-CC
*
77031 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAA
77096 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
65 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77128 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAA
77193 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
65 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
77225 TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAAT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
* * *
77285 ATAGCTGGCCTTGAATCAGCATATCGGCACC
66 GTAGCTGGCCTTGAATCAGCACATTGGCACC
* *
77316 TTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTC
1 ---T-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTC
77381 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA--
62 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
77414 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTC
77476 CAATGTAGCTGGCCTTGAATCAGCACATTG
62 CAATGTAGCTGGCCTTGAATCAGCACATTG
77506 ACATCCTTTT
Statistics
Matches: 439, Mismatches: 22, Indels: 30
0.89 0.04 0.06
Matches are distributed among these distances:
91 81 0.18
93 2 0.00
94 2 0.00
95 83 0.19
97 188 0.43
98 44 0.10
100 39 0.09
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:77290 original size:43 final size:43
Alignment explanation
Indices: 77181--77461 Score: 328
Period size: 43 Copynumber: 6.1 Consensus size: 43
77171 GCACCTTCAT
77181 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
77229 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
77272 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
*
77322 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
77372 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
77415 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
77458 CTTT
1 CTTT
77462 TCCATCTTTA
Statistics
Matches: 208, Mismatches: 11, Indels: 33
0.83 0.04 0.13
Matches are distributed among these distances:
43 89 0.43
48 79 0.38
50 2 0.01
52 36 0.17
57 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:77366 original size:143 final size:144
Alignment explanation
Indices: 76938--77505 Score: 882
Period size: 143 Copynumber: 3.9 Consensus size: 144
76928 TCATCTTCAT
* *
76938 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATATCG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CA-CTTTAAGTCCAATATAG
* ** *
77003 CTGGCCTTGAATCAGCATATTGGCA--TCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
63 CTGGCCTTGAATCAGCATATCGGCACCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
77066 GCACATTGGCACCTTCAT
128 GCACATTGGCACC-TCAC
*
77084 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CA-CTTTAAGTCCAATATAG
* * *
77149 CTGGCCTTGACTCAGCACATTGGCACC--TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
63 CTGGCCTTGAATCAGCATATCGGCACCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
77212 GCACATTGGCACCTCAC
128 GCACATTGGCACCTCAC
77229 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAGCTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCACTTTAAGTCCAATATAGCTG
*
77292 GCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGC
66 GCCTTGAATCAGCATATCGGCACCTTTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
77357 ACATTGGCACCTCAC
130 ACATTGGCACCTCAC
77372 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAGCTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCACTTTAAGTCCAATATAGCTG
*
77435 GCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGC
66 GCCTTGAATCAGCATATCGGCACCTTTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
77500 ACATTG
130 ACATTG
77506 ACATCCTTTT
Statistics
Matches: 404, Mismatches: 13, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
140 40 0.10
142 3 0.01
143 184 0.46
145 45 0.11
146 132 0.33
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (144 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCACTTTAAGTCCAATATAGCTG
GCCTTGAATCAGCATATCGGCACCTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
CATTGGCACCTCAC
Found at i:77545 original size:56 final size:52
Alignment explanation
Indices: 77415--77553 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
77405 ACATTGGCAC
* *
77415 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
77467 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
77523 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
77554 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:78349 original size:33 final size:33
Alignment explanation
Indices: 78312--78378 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
78302 TTCAACGATT
78312 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
78345 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
78378 T
1 T
78379 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:78350 original size:13 final size:13
Alignment explanation
Indices: 78332--78356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78322 CATAAAATGT
78332 TGTATCGATACAA
1 TGTATCGATACAA
78345 TGTATCGATACA
1 TGTATCGATACA
78357 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78437 original size:13 final size:13
Alignment explanation
Indices: 78419--78443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78409 ATTACTCAAA
78419 TGTATCGATACAT
1 TGTATCGATACAT
78432 TGTATCGATACA
1 TGTATCGATACA
78444 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:78545 original size:52 final size:52
Alignment explanation
Indices: 78452--78623 Score: 303
Period size: 52 Copynumber: 3.3 Consensus size: 52
78442 CACTGATCTT
78452 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTTAAAA
*
78503 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTTAAAA
*
78555 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTAAAA
78607 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
78624 TAACTCTTCA
Statistics
Matches: 116, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
51 19 0.16
52 95 0.82
53 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTTAAAA
Found at i:81909 original size:20 final size:21
Alignment explanation
Indices: 81884--81922 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
81874 TTTTAACAGC
81884 CCATGTT-CATGCATTTTATG
1 CCATGTTCCATGCATTTTATG
81904 CCATGTTCCATGCATTTTA
1 CCATGTTCCATGCATTTTA
81923 ACATGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (21 bp):
CCATGTTCCATGCATTTTATG
Found at i:84812 original size:19 final size:20
Alignment explanation
Indices: 84765--84817 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
84755 ATTTCAACGA
84765 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
* *
84785 ATTGCATCGATACAT-AAAT
1 TTTGTATCGATACATAAAAT
84804 TTTGTATCGATACA
1 TTTGTATCGATACA
84818 ATTTAAGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:98297 original size:1 final size:1
Alignment explanation
Indices: 98291--98342 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
98281 CGTCCTCCAC
* * * * *
98291 AAAAAAAAAAAAGAAAAAAAACAAAACAAAACAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
98343 GGTCTGGATG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:99815 original size:28 final size:29
Alignment explanation
Indices: 99778--99864 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
99768 TCACCCTTCA
99778 AAAGCCCACAA-TCAGTGGCATCTTTTTC
1 AAAGCCCACAACTCAGTGGCATCTTTTTC
* * *
99806 AAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAACTCAGTGGCATCTTTTTC
* * *
99835 AAAGTCCATAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCAGTGGCA-TCTTTTTC
99865 TTTTTAAAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.22
29 32 0.64
30 7 0.14
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
AAAGCCCACAACTCAGTGGCATCTTTTTC
Found at i:99913 original size:36 final size:35
Alignment explanation
Indices: 99835--99983 Score: 153
Period size: 35 Copynumber: 4.3 Consensus size: 35
99825 CATCTTTTCC
* * *
99835 AAAGTCCATAACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
99870 AAAGCCCACAACTCCGTGGCACGCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* *
99906 AAAGCCCACAACTCTGTGGCAC-CTTGTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * **
99939 -AAGTCCACAACTTCGTGGCA-TCTTTCACCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCC-TTTT
99974 AAAGCCCACA
1 AAAGCCCACA
99984 CAAGTCGGTG
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
32 20 0.21
33 5 0.05
34 1 0.01
35 35 0.37
36 34 0.36
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:99956 original size:68 final size:71
Alignment explanation
Indices: 99835--99983 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 71
99825 CATCTTTTCC
* * * **
99835 AAAGTCCATAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACGCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCA-GCTTTCAC
99900 CC-TTTT
65 CCTTTTT
* * * *
99906 AAAGCCCACAACTCTGTGGCAC-CTTGTTC-TTTT-AAGTCCACAACTTCGTGGCATCTTTCACC
1 AAAGCCCACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCAGCTTTCACC
99968 CTTTTT
66 CTTTTT
99974 AAAGCCCACA
1 AAAGCCCACA
99984 CAAGTCGGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
67 7 0.10
68 32 0.47
69 4 0.06
70 6 0.09
71 19 0.28
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (71 bp):
AAAGCCCACAACTCCGTGGCACTCTTGTTCTTTTTAAAGCCCACAACTCCGTGGCAGCTTTCACC
CTTTTT
Found at i:100080 original size:33 final size:32
Alignment explanation
Indices: 99973--100305 Score: 485
Period size: 33 Copynumber: 10.3 Consensus size: 32
99963 TCACCCTTTT
*
99973 TAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 TAAAGCCCACACAAGTCGGTGGCAACCTTCTC
100005 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
*
100038 -AAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
*
100070 TAAAGCCCACACAAGTCGGTGGCCACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGG-CAACCTTCTC
*
100103 TAAAGCCCATACAAGTCGGTGGCAAACCTTCTC
1 TAAAGCCCACACAAGTCGGTGGC-AACCTTCTC
*
100136 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
1 TAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
* *
100169 TAAAGCCCACACAAGTTGGTGGCAACCATTCTT
1 TAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
100202 TAAAGCCCACACAAGTCGGTGGCAACTCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAAC-CTTCTC
100235 -AAAGCCCACACAAGTCGGTGGCAACCTTCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTC-TC
* *
100267 CAAAGCCCACACAAGTCGGTGGCAACCCT-TC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTCTC
100298 T-AAGCCCA
1 TAAAGCCCA
100306 ATATCGCTGG
Statistics
Matches: 278, Mismatches: 13, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
30 7 0.03
31 8 0.03
32 85 0.31
33 173 0.62
34 5 0.02
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (32 bp):
TAAAGCCCACACAAGTCGGTGGCAACCTTCTC
Found at i:100356 original size:49 final size:49
Alignment explanation
Indices: 100298--100865 Score: 703
Period size: 49 Copynumber: 11.7 Consensus size: 49
100288 GCAACCCTTC
* *
100298 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
100347 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CGT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
100390 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
100439 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
100488 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
100537 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
100586 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* * * * *
100638 TAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
100687 TAAGT-CGATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
100735 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
100778 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
100830 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
100866 ACATCTTTTT
Statistics
Matches: 444, Mismatches: 56, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
43 78 0.18
45 2 0.00
48 39 0.09
49 242 0.55
50 2 0.00
51 1 0.00
52 80 0.18
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:100539 original size:98 final size:98
Alignment explanation
Indices: 100298--100931 Score: 819
Period size: 98 Copynumber: 6.5 Consensus size: 98
100288 GCAACCCTTC
* *
100298 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
100363 GGCCTTGAATCAGCATATTGG------CACCGT
66 GGCCTTGAATCAGCACATTGGCACCTTCACCAT
100390 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
100455 GGCCTTGAATCAGCACATTGGCACCTTCACCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCACCAT
* *
100488 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATATTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
100553 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTTCACCAT
* *
100586 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTA
* *
100651 GCTGGCTTTGAATCAGCACATTGGCACCTTCACCTT
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCACCAT
* * * *
100687 TAAGT-CGATATAGCTGGCCTTGAATCAACATATTGGCACCTTCT-TTTTTAAGTCCAATGTAGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATGTAGC
100750 TGGCCTTGAATCAGCACATTGGCACC-T-----T
65 TGGCCTTGAATCAGCACATTGGCACCTTCACCAT
* *
100778 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAATGTA
* * *
100843 GCTGGCCTTGAATCAGCACATTGACATCTTTTTACTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA-C-CTTCAC-CA---T
* * * * *
100885 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
100932 ACTTTTCTCA
Statistics
Matches: 482, Mismatches: 34, Indels: 40
0.87 0.06 0.07
Matches are distributed among these distances:
91 6 0.01
92 117 0.24
93 2 0.00
95 40 0.08
96 2 0.00
97 42 0.09
98 139 0.29
99 5 0.01
100 32 0.07
101 55 0.11
104 3 0.01
106 3 0.01
107 36 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTCACCAT
Found at i:100819 original size:43 final size:43
Alignment explanation
Indices: 100733--100821 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
100723 CACCTTCTTT
*
100733 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
*
100776 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
100819 TTT
1 TTT
100822 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:100851 original size:95 final size:91
Alignment explanation
Indices: 100681--100865 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 91
100671 TTGGCACCTT
*
100681 CACCTTTAAGTCGATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTTTTTAAGTCCAATG
1 CACCTTTAAGTCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTTTTTAAGTCCAATG
100746 TAGCTGGCCTTGAATCAGCACATTGG
66 TAGCTGGCCTTGAATCAGCACATTGG
* *
100772 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCCATCTTTAAGTT
1 CACCTTTAAGT-CAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTT---T-TTTAAGTC
100836 CAATGTAGCTGGCCTTGAATCAGCACATTG
61 CAATGTAGCTGGCCTTGAATCAGCACATTG
100866 ACATCTTTTT
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 13 0.15
92 35 0.41
94 1 0.01
95 37 0.43
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (91 bp):
CACCTTTAAGTCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTTTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGG
Found at i:100884 original size:247 final size:243
Alignment explanation
Indices: 100293--100923 Score: 735
Period size: 247 Copynumber: 2.6 Consensus size: 243
100283 CGGTGGCAAC
* * * * *
100293 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * *
100358 TAGCTGGCCTTGAATCAGCATATTG--G-------CACCGTTAAGTCCAATATCGCTGGCCTTGA
66 TAGCTGGCCTTGAATCAGCACATTGACGCCTTTCTCATCTTTAAGTCCAATATCGCTGGCCTTGA
* * * *
100414 ATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
131 ATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGGCAC
* * *
100479 CTTCACCATTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
196 CTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
100527 CCTTTATATTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
1 CC----T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
* * * * *
100592 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGC
61 CAATATAGCTGGCCTTGAATCAGCACATTGACGCCTTTCTCATCTTTAAGTCCAATATCGCTGGC
* * * *
100657 TTTGAATCAGCACATTGGCACCTTCACCTTTAAGT-CGATATAGCTGGCCTTGAATCAACATATT
126 CTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATT
**** *
100721 GGCACCTTCTTTTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
191 GGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
100774 CC-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCA
1 CCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCA
* * * * *
100838 ATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTACTCATCTTTAAGCCCAATATCGTTGG
63 ATATAGCTGGCCTTGAATCAGCACATTGAC-GC-CTTT-CTCATCTTTAAGTCCAATATCGCTGG
* *
100903 CCATGAATCAACATATTGGCA
125 CCTTGAATCAGCATATTGGCA
100924 TCTTTATCAC
Statistics
Matches: 334, Mismatches: 43, Indels: 27
0.83 0.11 0.07
Matches are distributed among these distances:
234 2 0.01
238 1 0.00
239 80 0.24
241 42 0.13
243 2 0.01
244 39 0.12
245 1 0.00
246 3 0.01
247 111 0.33
248 53 0.16
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (243 bp):
CCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACGCCTTTCTCATCTTTAAGTCCAATATCGCTGGCCTTGA
ATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGGCAC
CTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:100910 original size:55 final size:53
Alignment explanation
Indices: 100775--100928 Score: 193
Period size: 55 Copynumber: 2.9 Consensus size: 53
100765 ACATTGGCAC
*
100775 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCCAT
* * * *
100827 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTACTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTT-C-CAT
* * * * *
100882 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
100929 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 1 0.01
55 41 0.48
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCCAT
Found at i:101887 original size:13 final size:13
Alignment explanation
Indices: 101869--101893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101859 ATTACTCAAA
101869 TGTATCGATACAT
1 TGTATCGATACAT
101882 TGTATCGATACA
1 TGTATCGATACA
101894 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101958 original size:52 final size:52
Alignment explanation
Indices: 101902--102030 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
101892 CACTGATCTT
*
101902 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATATATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
101954 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
102006 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
102031 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:108318 original size:22 final size:21
Alignment explanation
Indices: 108307--108358 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
108297 ATAAGAAATG
108307 CAAAGCACAAAAAAAGGAAAA
1 CAAAGCACAAAAAAAGGAAAA
*
108328 CAAAGCACAAAAAAA-CAAAA
1 CAAAGCACAAAAAAAGGAAAA
108348 CAAA--ACAAAAA
1 CAAAGCACAAAAA
108359 TCAAATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.23
20 8 0.27
21 15 0.50
ACGTcount: A:0.75, C:0.17, G:0.08, T:0.00
Consensus pattern (21 bp):
CAAAGCACAAAAAAAGGAAAA
Found at i:108341 original size:20 final size:21
Alignment explanation
Indices: 108307--108358 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
108297 ATAAGAAATG
**
108307 CAAAGCACAAAAAAAGGAAAA
1 CAAAGCACAAAAAAAACAAAA
108328 CAAAGCAC-AAAAAAACAAAA
1 CAAAGCACAAAAAAAACAAAA
108348 CAAA--ACAAAAA
1 CAAAGCACAAAAA
108359 TCAAATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 14 0.50
21 8 0.29
ACGTcount: A:0.75, C:0.17, G:0.08, T:0.00
Consensus pattern (21 bp):
CAAAGCACAAAAAAAACAAAA
Found at i:109862 original size:60 final size:58
Alignment explanation
Indices: 109719--110498 Score: 345
Period size: 60 Copynumber: 13.1 Consensus size: 58
109709 TAACCTTTTT
* * * *
109719 AAAGTCCACAACT-TAGTGGCA-CTTTTCTTAGAAGTCCACGAA-TTTGTGGCAACCTTCTTTT
1 AAAGTCCACAACTCT-GTGGCACCTTTT-TTA-AAGTCCA-TAACTTCGTGGCAA--TCCTTTC
* *
109780 AAAGTCCACAACTCCGTGGCACCCTTTTTTAAAGTCCATAACTTCATGGCAATCCTTCTC
1 AAAGTCCACAACTCTGTGGCA-CCTTTTTTAAAGTCCATAACTTCGTGGCAATCCTT-TC
* ** * * *
109840 AAAGTCTATGACTCTGTGGCACCTTTTTTCAAAGTTCATAACTCCGTGGTAATCCTTCTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTT-AAAGTCCATAACTTCGTGGCAATCCTT-TC
* * * * ** * * **
109900 AAAGTCCACAACTTTGTGTCAACC-TTCTCAAAGTCCATAACTTTATCGCACCTTTTTTC
1 AAAGTCCACAACTCTGTGGC-ACCTTTTTTAAAGTCCATAACTTCGTGGCA-ATCCTTTC
* * *
109959 AAAGTCCACAACTTTGTGGCACCTTTTTCAAAGTCCATGAC-TCTGTGGCAA--CTTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTTAAAGTCCATAACTTC-GTGGCAATCCTTTC
* * * *
110015 AAAGTCCATAACTCAGTGGCACCTTTCTTAAATGTCCACAACTT-GTGGCAACTCTCTTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTTAAA-GTCCATAACTTCGTGGCAA-TC-CTTTC
* * *
110075 AAAGTCCACAACTCTGTGGCACCTTTTTTCAAAGTCCACAACTCCGTGGCAACTTTCTTT-
1 AAAGTCCACAACTCTGTGGCACCTTTTTT-AAAGTCCATAACTTCGTGGCAA--TCCTTTC
* * * * * * * **
110135 AAAGTCCATAACT-TCGTGGCTCC-TTTTCAAAGTCCATGATTTTGTGGCACCTTTTTTC
1 AAAGTCCACAACTCT-GTGGCACCTTTTTTAAAGTCCATAACTTCGTGGCA-ATCCTTTC
* * * * * * * * **
110193 AAAGTCCAGAACACTATAGCACCCTTTTAAAAATCCATGACTTTATGGC-A-CCTTTTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTTAAAGTCCATAACTTCGTGGCAATCC--TTTC
* * * ** * * *
110251 AAAGTCCATAACTCTATGGCA-CTTTTTTCATAGTCCACGAC-TCTATGGTAA-CCTTTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTT-AAAGTCCATAACTTC-GTGGCAATCC-TTTC
* * ** * * * * *
110309 AAAGTCTACGACTCAATGTCACCTTTCTTAAAAGTCTATGAC-TCTGTGGCAACCGTCTTTC
1 AAAGTCCACAACTCTGTGGCACCTTT-TTTAAAGTCCATAACTTC-GTGGCAATC--CTTTC
* * * **** ** *
110370 AAAGTTCACAACT-TCATGGCACCTTTTTTCAAAGTCCATAACCTCACAACACCATTTTTTT
1 AAAGTCCACAACTCT-GTGGCACCTTTTTT-AAAGTCCATAACTTCGTGGCA--ATCCTTTC
* * * * * * *
110431 AAAGTCTAAAACTTTGTGGCACCCTTCTTTAAAGTCCACAACTCCATGGCAATCCTCTTC
1 AAAGTCCACAACTCTGTGGCA-CCTTTTTTAAAGTCCATAACTTCGTGGCAATCCT-TTC
110491 AAAGTCCA
1 AAAGTCCA
110499 TAAAAAAATG
Statistics
Matches: 550, Mismatches: 127, Indels: 85
0.72 0.17 0.11
Matches are distributed among these distances:
56 38 0.07
57 18 0.03
58 92 0.17
59 121 0.22
60 141 0.26
61 119 0.22
62 15 0.03
63 6 0.01
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (58 bp):
AAAGTCCACAACTCTGTGGCACCTTTTTTAAAGTCCATAACTTCGTGGCAATCCTTTC
Found at i:110250 original size:88 final size:88
Alignment explanation
Indices: 109927--110411 Score: 385
Period size: 88 Copynumber: 5.5 Consensus size: 88
109917 GTCAACCTTC
* * * * * *
109927 TCAAAGTCCATAACTTTATCGCACCTTTTTTCAAAGTCCACAACTTTGTGGCACCTTTTTCAAAG
1 TCAAAGTCCACAAC-TCATGGCACCTTTCTTAAAAGTCCATAACTTTGTGGCACCTTTTTCAAAG
* *
109992 TCCATGACTCTGTGGCAAC---TT
65 TCCATAACTCTGTGGCACCTTTTT
* * * *
110013 TCAAAGTCCATAACTCAGTGGCACCTTTCTTAAATGTCCACAAC-TTGTGGCAACTCTCTTTCAA
1 TCAAAGTCCACAACTCA-TGGCACCTTTCTTAAAAGTCCATAACTTTGTGGC-AC-CTTTTTCAA
*
110077 AGTCCACAACTCTGTGGCACCTTTTT
63 AGTCCATAACTCTGTGGCACCTTTTT
* * * * *
110103 TCAAAGTCCACAACTCCGTGGCAACTTTCTTTAAAGTCCATAACTTCGTGGCTCC-TTTTCAAAG
1 TCAAAGTCCACAACT-CATGGCACCTTTCTTAAAAGTCCATAACTTTGTGGCACCTTTTTCAAAG
* * *
110167 TCCATGATTTTGTGGCACCTTTTT
65 TCCATAACTCTGTGGCACCTTTTT
* * * * * * *
110191 TCAAAGTCCAGAACACTATAGCACCCTT-TTAAAAATCCATGACTTTATGGCACCTTTTTCAAAG
1 TCAAAGTCCACAACTC-ATGGCACCTTTCTTAAAAGTCCATAACTTTGTGGCACCTTTTTCAAAG
*
110255 TCCATAACTCTATGGCA-CTTTTT
65 TCCATAACTCTGTGGCACCTTTTT
* * * * ** *** * *
110278 TCATAGTCCACGACTCTATGGTAACCTTT-TT-AAAGTCTACGACTCAATGTCACCTTTCTTAAA
1 TCAAAGTCCACAACTC-ATGG-CACCTTTCTTAAAAGTCCATAACTTTGTGGCACCTTT-TTCAA
* * * *
110341 AGTCTATGACTCTGTGGCAACCGTCTT
63 AGTCCATAACTCTGTGGC-ACCTTTTT
* * *
110368 TCAAAGTTCACAACTTCATGGCACCTTTTTTCAAAGTCCATAAC
1 TCAAAGTCCACAAC-TCATGGCACCTTTCTTAAAAGTCCATAAC
110412 CTCACAACAC
Statistics
Matches: 318, Mismatches: 64, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
85 9 0.03
86 38 0.12
87 89 0.28
88 96 0.30
89 8 0.03
90 60 0.19
91 18 0.06
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (88 bp):
TCAAAGTCCACAACTCATGGCACCTTTCTTAAAAGTCCATAACTTTGTGGCACCTTTTTCAAAGT
CCATAACTCTGTGGCACCTTTTT
Found at i:110298 original size:58 final size:58
Alignment explanation
Indices: 109711--110407 Score: 312
Period size: 59 Copynumber: 11.8 Consensus size: 58
109701 TAGTAGAGTA
* * *
109711 ACCTTTTT-AAAGTCCACAACT-TAGTGGCACTTTTCTT-AGAAGTCCACGAATTTGTGGC
1 ACCTTTTTCAAAGTCCATAACTCTA-TGGCACTTTT-TTCA-AAGTCCACGACTCTGTGGC
* * ** ** *
109769 AACCTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTT-AAAGTCCATAACT-TCATGGC
1 -ACCTT-TTTCAAAGTCCATAACTCTATGGCA--CTTTTTTCAAAGTCCACGACTCT-GTGGC
* * * * * ** * *
109830 AATCC-TTCTCAAAGTCTATGACTCTGTGGCACCTTTTTTCAAAGTTCATAACTCCGTGGTA
1 -A-CCTTTTTCAAAGTCCATAACTCTATGGCA-CTTTTTTCAAAGTCCACGACTCTGTGG-C
* * * * * * * ** * * *
109891 ATCC-TTCTCAAAGTCCACAACTTTGTGTCAAC-CTTCTCAAAGTCCATAACTTTATCGC
1 A-CCTTTTTCAAAGTCCATAACTCTATGGC-ACTTTTTTCAAAGTCCACGACTCTGTGGC
* * * * *
109949 ACCTTTTTTCAAAGTCCACAACTTTGTGGCACCTTTTTCAAAGTCCATGACTCTGTGGC
1 ACC-TTTTTCAAAGTCCATAACTCTATGGCACTTTTTTCAAAGTCCACGACTCTGTGGC
* * *
110008 AAC--TTTCAAAGTCCATAACTC-AGTGGCACCTTTCTT-AAATGTCCACAACT-TGTGGC
1 ACCTTTTTCAAAGTCCATAACTCTA-TGGCA-CTTTTTTCAAA-GTCCACGACTCTGTGGC
* * * * *
110064 AACTCTCTTTCAAAGTCCACAACTCTGTGGCACCTTTTTTCAAAGTCCACAACTCCGTGGC
1 -AC-CTTTTTCAAAGTCCATAACTCTATGGCA-CTTTTTTCAAAGTCCACGACTCTGTGGC
* * * * * * * *
110125 AACTTTCTTTAAAGTCCATAACT-TCGTGGCTC-CTTTTCAAAGTCCATGATTTTGTGGC
1 ACCTTT-TTCAAAGTCCATAACTCT-ATGGCACTTTTTTCAAAGTCCACGACTCTGTGGC
* * * ** * * * * *
110183 ACCTTTTTTCAAAGTCCAGAACACTATAGCACCCTTTTAAAAATCCATGACTTTATGGC
1 ACC-TTTTTCAAAGTCCATAACTCTATGGCACTTTTTTCAAAGTCCACGACTCTGTGGC
* * *
110242 ACCTTTTTCAAAGTCCATAACTCTATGGCACTTTTTTCATAGTCCACGACTCTATGGTA
1 ACCTTTTTCAAAGTCCATAACTCTATGGCACTTTTTTCAAAGTCCACGACTCTGTGG-C
* ** * * * * * *
110301 ACCTTTTT-AAAGTCTACGACTCAATGTCACCTTTCTTAAAAGTCTATGACTCTGTGGC
1 ACCTTTTTCAAAGTCCATAACTCTATGGCA-CTTTTTTCAAAGTCCACGACTCTGTGGC
* * *
110359 AACCGTCTTTCAAAGTTCACAACT-TCATGGCACCTTTTTTCAAAGTCCA
1 -ACC-TTTTTCAAAGTCCATAACTCT-ATGGCA-CTTTTTTCAAAGTCCA
110408 TAACCTCACA
Statistics
Matches: 499, Mismatches: 104, Indels: 68
0.74 0.15 0.10
Matches are distributed among these distances:
56 30 0.06
57 16 0.03
58 103 0.21
59 142 0.28
60 126 0.25
61 72 0.14
62 5 0.01
63 5 0.01
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (58 bp):
ACCTTTTTCAAAGTCCATAACTCTATGGCACTTTTTTCAAAGTCCACGACTCTGTGGC
Found at i:110481 original size:30 final size:29
Alignment explanation
Indices: 109711--110501 Score: 312
Period size: 30 Copynumber: 26.7 Consensus size: 29
109701 TAGTAGAGTA
*
109711 ACCTT-TTTAAAGTCCACAACT-TAGTGGC
1 ACCTTCTTTAAAGTCCATAACTCT-GTGGC
* * *
109739 A-CTTTTCTTAGAAGTCCACGAA-TTTGTGGC
1 ACCTTCT-TTA-AAGTCCA-TAACTCTGTGGC
* *
109769 AACCTTCTTTTAAAGTCCACAACTCCGTGGC
1 -ACCTTC-TTTAAAGTCCATAACTCTGTGGC
* *
109800 ACCCTTTTTTAAAGTCCATAACT-TCATGGC
1 A-CCTTCTTTAAAGTCCATAACTCT-GTGGC
* * *
109830 AATCCTTC-TCAAAGTCTATGACTCTGTGGC
1 -A-CCTTCTTTAAAGTCCATAACTCTGTGGC
* * * *
109860 ACCTTTTTTCAAAGTTCATAACTCCGTGGTA
1 ACCTTCTTT-AAAGTCCATAACTCTGTGG-C
* * * *
109891 ATCCTTC-TCAAAGTCCACAACTTTGTGTC
1 A-CCTTCTTTAAAGTCCATAACTCTGTGGC
* * * *
109920 AACCTTC-TCAAAGTCCATAACTTTATCGC
1 -ACCTTCTTTAAAGTCCATAACTCTGTGGC
* * *
109949 ACCTTTTTTCAAAGTCCACAACTTTGTGGC
1 ACCTTCTTT-AAAGTCCATAACTCTGTGGC
*
109979 ACCTT-TTTCAAAGTCCATGACTCTGTGGC
1 ACCTTCTTT-AAAGTCCATAACTCTGTGGC
* * *
110008 AAC-T-TTCAAAGTCCATAACTCAGTGGC
1 ACCTTCTTTAAAGTCCATAACTCTGTGGC
*
110035 ACCTT-TCTTAAATGTCCACAACT-TGTGGC
1 ACCTTCT-TTAAA-GTCCATAACTCTGTGGC
* *
110064 AACTCTCTTTCAAAGTCCACAACTCTGTGGC
1 ACCT-TCTTT-AAAGTCCATAACTCTGTGGC
* * *
110095 ACCTTTTTTCAAAGTCCACAACTCCGTGGC
1 ACCTTCTTT-AAAGTCCATAACTCTGTGGC
*
110125 AACTTTCTTTAAAGTCCATAACT-TCGTGGC
1 -ACCTTCTTTAAAGTCCATAACTCT-GTGGC
* * * * *
110155 TCCTT-TTCAAAGTCCATGATTTTGTGGC
1 ACCTTCTTTAAAGTCCATAACTCTGTGGC
* * * * *
110183 ACCTTTTTTCAAAGTCCAGAACACTATAGC
1 ACCTTCTTT-AAAGTCCATAACTCTGTGGC
* * * * *
110213 ACCCTT-TTAAAAATCCATGACTTTATGGC
1 A-CCTTCTTTAAAGTCCATAACTCTGTGGC
*
110242 ACCTT-TTTCAAAGTCCATAACTCTATGGC
1 ACCTTCTTT-AAAGTCCATAACTCTGTGGC
* * ** * *
110271 A-CTTTTTTCATAGTCCACGACTCTATGGTA
1 ACCTTCTTT-AAAGTCCATAACTCTGTGG-C
* ** ** *
110301 ACCTT-TTTAAAGTCTACGACTCAATGTC
1 ACCTTCTTTAAAGTCCATAACTCTGTGGC
* * *
110329 ACCTTTCTTAAAAGTCTATGACTCTGTGGC
1 ACC-TTCTTTAAAGTCCATAACTCTGTGGC
* * * *
110359 AACCGTCTTTCAAAGTTCACAACT-TCATGGC
1 -ACCTTCTTT-AAAGTCCATAACTCT-GTGGC
* ****
110390 ACCTTTTTTCAAAGTCCATAAC-CTCACAAC
1 ACCTTCTTT-AAAGTCCATAACTCT-GTGGC
* * * *
110420 ACCATTTTTTTAAAGTCTAAAACTTTGTGGC
1 ACC--TTCTTTAAAGTCCATAACTCTGTGGC
* **
110451 ACCCTTCTTTAAAGTCCACAACTCCATGGC
1 A-CCTTCTTTAAAGTCCATAACTCTGTGGC
*
110481 AATCC-TCTTCAAAGTCCATAA
1 -A-CCTTCTTTAAAGTCCATAA
110502 AAAAATGGAA
Statistics
Matches: 588, Mismatches: 127, Indels: 94
0.73 0.16 0.12
Matches are distributed among these distances:
27 23 0.04
28 50 0.09
29 140 0.24
30 268 0.46
31 87 0.15
32 19 0.03
33 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (29 bp):
ACCTTCTTTAAAGTCCATAACTCTGTGGC
Found at i:110799 original size:65 final size:64
Alignment explanation
Indices: 110667--110799 Score: 149
Period size: 65 Copynumber: 2.1 Consensus size: 64
110657 ATAGCAACAC
** ** *
110667 TTTTAAAAGCTCACATAAATTGGTGGTAACCATTTCAAAAGCCCATGCAAGTTAGTGCCATCCT
1 TTTTAAAAGCTCACATAAATTGGTGACAACCATTTCAAAAGCCCACACAAGTTAGAGCCATCCT
* * * * * * *
110731 TTTTCAAAGCTCACATAAGTTGTTGACAACCCTTTTCAAAAGCCCACACAAGTTGGAGGCATCTT
1 TTTTAAAAGCTCACATAAATTGGTGACAA-CCATTTCAAAAGCCCACACAAGTTAGAGCCATCCT
110796 TTTT
1 TTTT
110800 TTAAAGCCCA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
64 24 0.43
65 32 0.57
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (64 bp):
TTTTAAAAGCTCACATAAATTGGTGACAACCATTTCAAAAGCCCACACAAGTTAGAGCCATCCT
Found at i:110888 original size:32 final size:32
Alignment explanation
Indices: 110802--110888 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
110792 TCTTTTTTTT
* * *
110802 AAAGCCCACACAAGTCGGTAGCAACCCCTTCC
1 AAAGCCCATACAAGTCGGTGGCAACCCCTTCA
* *
110834 AAAGCCCATATAAGTTGGTGGCAA-CCCTCTCA
1 AAAGCCCATACAAGTCGGTGGCAACCCCT-TCA
* *
110866 AAAGCCTATACAAGTCGATGGCA
1 AAAGCCCATACAAGTCGGTGGCA
110889 TCTCCTTCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.17
Consensus pattern (32 bp):
AAAGCCCATACAAGTCGGTGGCAACCCCTTCA
Found at i:111229 original size:113 final size:112
Alignment explanation
Indices: 111022--111231 Score: 271
Period size: 113 Copynumber: 1.9 Consensus size: 112
111012 TCCAATGCTG
* * * * * *
111022 CTAGCCTTGAGTCAACACATTAGCACTTGTCAAATATTTTTTCCTAAGCCTAATGTCGTTGGCTT
1 CTAGCCTTGAATCAACACATTAGCACTTGTCAAACACTCTTTCCAAAGCCTAATGTCGTTGGCCT
* * *
111087 TGAATTAGCATGTTTGCACCTTTACCATTTTTCTCAAGCCCAATCTCA
66 TGAATCAGCACGTTGGCACCTTTA-CATTTTTCTCAAGCCCAATCTCA
* *
111135 CTAGCCTTGAATCAACATATTAGCACTTGTCAAACCCTCTTTCCAAAGTCC-AATGTCGTTGGCC
1 CTAGCCTTGAATCAACACATTAGCACTTGTCAAACACTCTTTCCAAAG-CCTAATGTCGTTGGCC
111199 TTGAATCAGCACGTTGGCACTCTTGT-CATTTTT
65 TTGAATCAGCACGTTGGCAC-CTT-TACATTTTT
111232 GAGTCCAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 77 0.93
114 5 0.06
115 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (112 bp):
CTAGCCTTGAATCAACACATTAGCACTTGTCAAACACTCTTTCCAAAGCCTAATGTCGTTGGCCT
TGAATCAGCACGTTGGCACCTTTACATTTTTCTCAAGCCCAATCTCA
Found at i:111238 original size:52 final size:52
Alignment explanation
Indices: 111180--111499 Score: 234
Period size: 52 Copynumber: 6.1 Consensus size: 52
111170 CCTCTTTCCA
* * * *
111180 AAGTCCAATGTCGTTGGCCTTGAATCAGCACGTTGGCACTCTTGTCATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTT
* * * * *
111232 GAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACATTTTATCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-TCTTATCATCTTT
* * ** * * * * *
111285 AAATCTAATGTC-CTTAACCTTGATTCAGCACATTGGCATTCTTGTTACCTTT
1 AAGTCCAATGTCGC-TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTT
* * * * * * * *
111337 AAGAT-CAATATCACTGGCATTGAACCAACATATTGGTAC-CTTTATTATCTTT
1 AAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTC-TTATCATCTTT
* * * * *
111389 AAGTCCAATGTCGCTGGCCTTGAAACAACATATTGGCACCTTTTATCATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTCTTATCATCTTT
* * * *
111442 AAGTCTAATGTTGTTGGCCTTGAATCAGCACATTGGCAC-CTTTATCGTCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTC-TTATCATCTTT
*
111494 TAGTCC
1 AAGTCC
111500 TGTGTTACAT
Statistics
Matches: 203, Mismatches: 56, Indels: 18
0.73 0.20 0.06
Matches are distributed among these distances:
51 2 0.01
52 120 0.59
53 81 0.40
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (52 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTT
Found at i:111321 original size:105 final size:104
Alignment explanation
Indices: 111183--111493 Score: 284
Period size: 105 Copynumber: 3.0 Consensus size: 104
111173 CTTTCCAAAG
* ** * *
111183 TCCAATGTCGTTGGCCTTGAATCAGCACGTTGGCACTCTTGTCATTTTTGAGTCCAATATTGCTG
1 TCCAATGTCGCTAACCTTGAATCAGCACATTGGCACTCTTGTCATTTTTAAGTCCAATATTGCTG
*
111248 GCCTTGAATCAGCATATTGGCACATTTTATCATCTTTAAA
66 GCCTTGAATCAGCATATTGGCAC-CTTTATCATCTTTAAA
* * * * ** **
111288 TCTAATGTC-CTTAACCTTGATTCAGCACATTGGCATTCTTGTTACCTTTAAGAT-CAATATCAC
1 TCCAATGTCGC-TAACCTTGAATCAGCACATTGGCACTCTTGTCATTTTTAAG-TCCAATATTGC
* * * * * *
111351 TGGCATTGAACCAACATATTGGTACCTTTATTATCTTTAAG
64 TGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAA
** * * * * * * * *
111392 TCCAATGTCGCTGGCCTTGAAACAACATATTGGCACCTTTTATCATTTTTAAGTCTAATGTTGTT
1 TCCAATGTCGCTAACCTTGAATCAGCACATTGGCA-CTCTTGTCATTTTTAAGTCCAATATTGCT
* *
111457 GGCCTTGAATCAGCACATTGGCACCTTTATCGTCTTT
65 GGCCTTGAATCAGCATATTGGCACCTTTATCATCTTT
111494 TAGTCCTGTG
Statistics
Matches: 156, Mismatches: 45, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
104 40 0.26
105 115 0.74
106 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (104 bp):
TCCAATGTCGCTAACCTTGAATCAGCACATTGGCACTCTTGTCATTTTTAAGTCCAATATTGCTG
GCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAA
Found at i:112275 original size:52 final size:51
Alignment explanation
Indices: 112140--112277 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 51
112130 TTTTGAAAGA
* * * * *
112140 AAATGTATTGATGCATT-TTTATTGTATTGATACATTTTGGGTTTTGATCC
1 AAATGTATTGATACATTCTTCATTGTATAGATACATTCTGGGTTTTGACCC
* * * *
112190 AAATGTATCGATACATTCTTCGTTGCATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATTGATACATTCTTCATTGTATAGATACATTCTGGG-TTTTGACCC
*
112242 AAATGTATTGATACATTCTTCAATGTATAGATACAT
1 AAATGTATTGATACATTCTTCATTGTATAGATACAT
112278 CCAGTTAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 15 0.21
51 19 0.26
52 39 0.53
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (51 bp):
AAATGTATTGATACATTCTTCATTGTATAGATACATTCTGGGTTTTGACCC
Found at i:115814 original size:20 final size:20
Alignment explanation
Indices: 115789--115840 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
115779 TACAAGCCAA
**
115789 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
*
115809 TGTATCAATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
115828 TGTATCGATACAA
1 TGTATCGATACAA
115841 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:115944 original size:20 final size:20
Alignment explanation
Indices: 115891--115946 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
115881 ACATCTTTTT
*
115891 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
115911 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
115930 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
115947 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:116768 original size:16 final size:16
Alignment explanation
Indices: 116744--116783 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
116734 AAGTACAATG
*
116744 CAAGTAAACACAAAGT
1 CAAGCAAACACAAAGT
116760 CAAGCAAACACAAAGT
1 CAAGCAAACACAAAGT
116776 CAAGCAAA
1 CAAGCAAA
116784 TACATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.07
Consensus pattern (16 bp):
CAAGCAAACACAAAGT
Found at i:117949 original size:21 final size:20
Alignment explanation
Indices: 117920--117962 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
117910 GACTAGTGTG
* *
117920 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
117941 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
117961 GG
1 GG
117963 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:118263 original size:20 final size:20
Alignment explanation
Indices: 118238--118282 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
118228 TGATGCTGGT
118238 TTTGAA-GAAAAACGAAGTAA
1 TTTGAAGGAAAAAC-AAGTAA
*
118258 TTTGAAGTGAAAAACAAGTAT
1 TTTGAAG-GAAAAACAAGTAA
118279 TTTG
1 TTTG
118283 CAAAAGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (20 bp):
TTTGAAGGAAAAACAAGTAA
Found at i:118412 original size:13 final size:13
Alignment explanation
Indices: 118394--118431 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
118384 ATAATCCCCC
118394 TGTATCGATACAG
1 TGTATCGATACAG
*
118407 TGTATCGATACAT
1 TGTATCGATACAG
118420 TGTATCGATACA
1 TGTATCGATACA
118432 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:124605 original size:20 final size:20
Alignment explanation
Indices: 124580--124631 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
124570 TACAAGCCAA
**
124580 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
124600 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
124619 TGTATCGATACAA
1 TGTATCGATACAA
124632 GTTTGGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:125669 original size:51 final size:51
Alignment explanation
Indices: 125576--125688 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
125566 AAAGAAAATG
** ** * *
125576 TATCGATGGATTTTGGGTTTTCGACCTAAATGTATCGATACATTTTTCATTA
1 TATCGATACATTTTGGGTTTTCGACCTAAACATATCGATACATTCTT-AATA
*
125628 TATCGATACATTTTGGGTTTT-GACCTAAACATATCGATACATTCTTAATG
1 TATCGATACATTTTGGGTTTTCGACCTAAACATATCGATACATTCTTAATA
125678 TATCGATACAT
1 TATCGATACAT
125689 GCAGGTAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 13 0.24
51 22 0.41
52 19 0.35
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (51 bp):
TATCGATACATTTTGGGTTTTCGACCTAAACATATCGATACATTCTTAATA
Found at i:128474 original size:20 final size:20
Alignment explanation
Indices: 128436--128476 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
128426 CCATTCTTCG
* *
128436 CCCCCCCCACCCCCCCCCAC
1 CCCCCCCCACCCACACCCAC
128456 CCCCCCCCACCCACACCCAC
1 CCCCCCCCACCCACACCCAC
128476 C
1 C
128477 TTCACCACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (20 bp):
CCCCCCCCACCCACACCCAC
Found at i:128476 original size:10 final size:10
Alignment explanation
Indices: 128436--128467 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
128426 CCATTCTTCG
128436 CCCCCCCCAC
1 CCCCCCCCAC
128446 CCCCCCCCAC
1 CCCCCCCCAC
128456 CCCCCCCCAC
1 CCCCCCCCAC
128466 CC
1 CC
128468 ACACCCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.91, G:0.00, T:0.00
Consensus pattern (10 bp):
CCCCCCCCAC
Found at i:129124 original size:15 final size:14
Alignment explanation
Indices: 129067--129143 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 14
129057 ACACAGCTTG
129067 CCGCTCCCCACCCCCC
1 CCGC-CCCCA-CCCCC
* *
129083 CCGACCACACCCGCC
1 CCGCCCCCACCC-CC
*
129098 ACGCCCCACACCGCCC
1 CCGCCCC-CACC-CCC
129114 CCGCCCCCACCCCC
1 CCGCCCCCACCCCC
*
129128 CCTCACCCCACCCCC
1 CCGC-CCCCACCCCC
129143 C
1 C
129144 ACTTGTCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
14 9 0.18
15 25 0.50
16 15 0.30
17 1 0.02
ACGTcount: A:0.13, C:0.77, G:0.08, T:0.03
Consensus pattern (14 bp):
CCGCCCCCACCCCC
Found at i:131027 original size:14 final size:15
Alignment explanation
Indices: 131004--131037 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
130994 AAATAATTTG
*
131004 ATTTTTTTA-TTTTT
1 ATTTTATTATTTTTT
131018 ATTTTATTATTTTTT
1 ATTTTATTATTTTTT
131033 ATTTT
1 ATTTT
131038 CAAAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
ATTTTATTATTTTTT
Found at i:131808 original size:1 final size:1
Alignment explanation
Indices: 131804--131835 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
131794 AAAAATTACT
131804 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
131836 ACAGAAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Done.