Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1195
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: 269935
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:6556 original size:33 final size:32
Alignment explanation
Indices: 6519--6586 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
6509 CGTTACAAGC
* **
6519 CAATGTATCGATATATTTTATGATATATCGATA
1 CAATGTATCGATACATACTATG-TATATCGATA
*
6552 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTATATCGATA
6584 CAA
1 CAA
6587 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTATATCGATA
Found at i:6665 original size:20 final size:21
Alignment explanation
Indices: 6616--6670 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
6606 CTGCCAATGA
**
6616 CTTGTATCGATACATTCTTTT
1 CTTGTATCGATACATTCTAGT
**
6637 CAAGTATCGATACATT-TAGT
1 CTTGTATCGATACATTCTAGT
6657 CTTGTATCGATACA
1 CTTGTATCGATACA
6671 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTGTATCGATACATTCTAGT
Found at i:7884 original size:16 final size:16
Alignment explanation
Indices: 7865--7919 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
7855 TGTACATTCT
7865 TGAATATGTAA-ATACA
1 TGAATATG-AATATACA
* *
7881 TGAATTTGAATATTCA
1 TGAATATGAATATACA
7897 TGAACTATGAATATACA
1 TGAA-TATGAATATACA
7914 TGAATA
1 TGAATA
7920 GTATTAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 17 0.52
17 14 0.42
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (16 bp):
TGAATATGAATATACA
Found at i:7940 original size:71 final size:71
Alignment explanation
Indices: 7808--7940 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 71
7798 TATAAATATT
* * * * * *
7808 CATGAATTTGAGTATTCATGAATCATGTATATACGTAAATGGTAATATGTACATTCTTGAATATG
1 CATGAATTTGAATATTCATGAATCATGAATATACATAAATAGTAATAAGTACATTCATGAATATG
7873 TAAATA
66 TAAATA
* * *
7879 CATGAATTTGAATATTCATGAA-CTATGAATATACATGAATAGTATTAAGTATATTCATGAAT
1 CATGAATTTGAATATTCATGAATC-ATGAATATACATAAATAGTAATAAGTACATTCATGAAT
7941 TATATACATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 1 0.02
71 51 0.98
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (71 bp):
CATGAATTTGAATATTCATGAATCATGAATATACATAAATAGTAATAAGTACATTCATGAATATG
TAAATA
Found at i:12464 original size:18 final size:17
Alignment explanation
Indices: 12424--12468 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
12414 AAAATTGATT
*
12424 ACAAAATCTTTTAGCCA
1 ACAAAATATTTTAGCCA
*
12441 ACAAAAATATTTTAGCTA
1 AC-AAAATATTTTAGCCA
*
12459 ATAAAATATT
1 ACAAAATATT
12469 ATGTAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
ACAAAATATTTTAGCCA
Found at i:19199 original size:231 final size:231
Alignment explanation
Indices: 18796--19261 Score: 842
Period size: 231 Copynumber: 2.0 Consensus size: 231
18786 TGAATGTTAG
*
18796 TCATACTACTAATATAGGAAAACCTTATATCATTAAACTAAGTGATTAGTTTGCATTATTAACTA
1 TCATACTACTAATATAGGAAAACCTTATATCATTAAACCAAGTGATTAGTTTGCATTATTAACTA
*
18861 ATATATGCCACATCCAAGCTGCTTGGCTCTAGGGCATATACTAACATATGACATGCTATGTGAAC
66 ATATATGCCACATCCAAGCTGCTTGGCTCTAGGGCATATAATAACATATGACATGCTATGTGAAC
* *
18926 TTCATTTAGTATTTCAATTAAGTGTTTATGAAAAAGTTCTCATGTGTCAATTGTATAACTAATTG
131 TCCATTTAGTATTTCAATTAAGTGTTTATGAAAAAGTTCTCATGTATCAATTGTATAACTAATTG
18991 TTTGACTTATGATACTATGTTGTCTTCTGTTAATCA
196 TTTGACTTATGATACTATGTTGTCTTCTGTTAATCA
*
19027 TCATACTACTAATATAGGAAAACCTTATATCATTGAACCAAGTGATTAGTTTGCATTATTAACTA
1 TCATACTACTAATATAGGAAAACCTTATATCATTAAACCAAGTGATTAGTTTGCATTATTAACTA
* * **
19092 ATATATGCCACATCCAAGTTGCTTGGCTTTAGGGCATATAATAACATATGGTATGCTATGTGAAC
66 ATATATGCCACATCCAAGCTGCTTGGCTCTAGGGCATATAATAACATATGACATGCTATGTGAAC
*
19157 TCCATTTAGTATTTCAATTAAGTGTTTATGAAAAAGTTCTCATGTATCTATTGTATAACTAATTG
131 TCCATTTAGTATTTCAATTAAGTGTTTATGAAAAAGTTCTCATGTATCAATTGTATAACTAATTG
19222 TTTGACTTATGATACTATGTTGTCTTCTGTTAATCA
196 TTTGACTTATGATACTATGTTGTCTTCTGTTAATCA
19258 TCAT
1 TCAT
19262 GCTTTCATTT
Statistics
Matches: 225, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 225 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (231 bp):
TCATACTACTAATATAGGAAAACCTTATATCATTAAACCAAGTGATTAGTTTGCATTATTAACTA
ATATATGCCACATCCAAGCTGCTTGGCTCTAGGGCATATAATAACATATGACATGCTATGTGAAC
TCCATTTAGTATTTCAATTAAGTGTTTATGAAAAAGTTCTCATGTATCAATTGTATAACTAATTG
TTTGACTTATGATACTATGTTGTCTTCTGTTAATCA
Found at i:22206 original size:21 final size:21
Alignment explanation
Indices: 22180--22237 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
22170 AATCATAAAT
*
22180 AAAATAAAT-AAAACTAATTTA
1 AAAATAAATAAAAACTAA-TAA
* *
22201 AAAATAACTAAAAATTAATAA
1 AAAATAAATAAAAACTAATAA
*
22222 AAAATAAATGAAAACT
1 AAAATAAATAAAAACT
22238 TTTAAGACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATAAATAAAAACTAATAA
Found at i:22213 original size:30 final size:31
Alignment explanation
Indices: 22165--22223 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
22155 ATTAATATAC
**
22165 AATTTAATCATAAAT-AAAATAAATAAAACT
1 AATTTAAAAATAAATAAAAATAAATAAAACT
* *
22195 AATTTAAAAATAACTAAAAATTAATAAAA
1 AATTTAAAAATAAATAAAAATAAATAAAA
22224 AATAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (31 bp):
AATTTAAAAATAAATAAAAATAAATAAAACT
Found at i:22235 original size:10 final size:10
Alignment explanation
Indices: 22174--22235 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
22164 CAATTTAATC
22174 ATAAAT-AAA
1 ATAAATAAAA
22183 ATAAATAAAA
1 ATAAATAAAA
* *
22193 CTAATTTAAAA
1 ATAA-ATAAAA
*
22204 ATAACTAAAA
1 ATAAATAAAA
*
22214 ATTAATAAAAA
1 ATAAAT-AAAA
22225 ATAAATGAAAA
1 ATAAAT-AAAA
22236 CTTTTAAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 6 0.14
10 15 0.36
11 21 0.50
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:22235 original size:11 final size:10
Alignment explanation
Indices: 22174--22235 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
22164 CAATTTAATC
22174 ATAAAT-AAA
1 ATAAATAAAA
22183 ATAAATAAAA
1 ATAAATAAAA
* *
22193 CTAATTTAAAA
1 ATAA-ATAAAA
*
22204 ATAACTAAAA
1 ATAAATAAAA
*
22214 ATTAATAAAAA
1 ATAAAT-AAAA
*
22225 ATAAATGAAA
1 ATAAATAAAA
22235 A
1 A
22236 CTTTTAAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
9 6 0.14
10 19 0.45
11 17 0.40
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:23367 original size:31 final size:31
Alignment explanation
Indices: 23311--23369 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
23301 TTGTAGGCTA
* * **
23311 ATTTTGGGATATTTTCATGTGTTTTAGACGC
1 ATTTTGGCATATTTTCAAGCATTTTAGACGC
23342 ATTTTGGCATATTTTCAAGCATTTTAGA
1 ATTTTGGCATATTTTCAAGCATTTTAGA
23370 TTCTTTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (31 bp):
ATTTTGGCATATTTTCAAGCATTTTAGACGC
Found at i:24668 original size:17 final size:18
Alignment explanation
Indices: 24631--24671 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24621 TGATCTTTTT
*
24631 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAATAAA
*
24649 ATTAAAATTTTT-ATAGA
1 ATTAAAATTTTTAATAAA
24666 ATTAAA
1 ATTAAA
24672 GTAATGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAAATTTTTAATAAA
Found at i:25249 original size:15 final size:15
Alignment explanation
Indices: 25231--25267 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25221 ATAAATAATT
25231 AAATAAT-TAAATAA
1 AAATAATGTAAATAA
25245 AAA-ATATGTAAATAA
1 AAATA-ATGTAAATAA
25260 AAATAATG
1 AAATAATG
25268 ATAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.05
14 5 0.25
15 13 0.65
16 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATAATGTAAATAA
Found at i:25596 original size:12 final size:12
Alignment explanation
Indices: 25579--25620 Score: 66
Period size: 12 Copynumber: 3.3 Consensus size: 12
25569 CAGCCGAGGT
25579 GCAATGAAGAAA
1 GCAATGAAGAAA
25591 GCAATGAAGCAAA
1 GCAATGAAG-AAA
25604 TGCAATGAAGAAA
1 -GCAATGAAGAAA
25617 GCAA
1 GCAA
25621 ACGGCAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.46
13 6 0.21
14 9 0.32
ACGTcount: A:0.55, C:0.12, G:0.24, T:0.10
Consensus pattern (12 bp):
GCAATGAAGAAA
Found at i:25728 original size:30 final size:30
Alignment explanation
Indices: 25692--25758 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
25682 TAATTAAAGT
25692 AATCAAGATGCTGCAATGAAGACAAAAACG
1 AATCAAGATGCTGCAATGAAGACAAAAACG
* *
25722 AATCAAGATGCTGTAATGAAGACAAAAATG
1 AATCAAGATGCTGCAATGAAGACAAAAACG
25752 AATCAAG
1 AATCAAG
25759 CAACAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.16
Consensus pattern (30 bp):
AATCAAGATGCTGCAATGAAGACAAAAACG
Found at i:31075 original size:21 final size:21
Alignment explanation
Indices: 31051--31123 Score: 128
Period size: 21 Copynumber: 3.5 Consensus size: 21
31041 GTGGAAACAA
31051 GCTCCAAACAAGTCAAAAACG
1 GCTCCAAACAAGTCAAAAACG
31072 GCTCCAAACAAGTCAAAAACG
1 GCTCCAAACAAGTCAAAAACG
31093 GCTCCAAACAAGTCAAAAACG
1 GCTCCAAACAAGTCAAAAACG
* *
31114 GATACAAACA
1 GCTCCAAACA
31124 TAATCATTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.49, C:0.27, G:0.14, T:0.10
Consensus pattern (21 bp):
GCTCCAAACAAGTCAAAAACG
Found at i:32812 original size:18 final size:17
Alignment explanation
Indices: 32791--32825 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32781 GCAAATAATA
32791 AGAAAAAAGAAAAAAATG
1 AGAAAAAA-AAAAAAATG
*
32809 AGAAAATAAAAAAAATG
1 AGAAAAAAAAAAAAATG
32826 CAATATTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AGAAAAAAAAAAAAATG
Found at i:35829 original size:20 final size:20
Alignment explanation
Indices: 35803--35897 Score: 145
Period size: 20 Copynumber: 4.8 Consensus size: 20
35793 AATTTGCCTG
35803 CATGTATCGATACATTGAAT
1 CATGTATCGATACATTGAAT
* *
35823 AATGTATTGATACATTGAAT
1 CATGTATCGATACATTGAAT
*
35843 CATGTATCAATACATTGAAT
1 CATGTATCGATACATTGAAT
*
35863 CATGTATCAATACATTGAAT
1 CATGTATCGATACATTGAAT
*
35883 CATGTATTGATACAT
1 CATGTATCGATACAT
35898 CTGGGTAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:36682 original size:61 final size:61
Alignment explanation
Indices: 36576--36703 Score: 179
Period size: 61 Copynumber: 2.1 Consensus size: 61
36566 AAAGATGATG
* **
36576 AAGATGAGAAGAGTGATAAAGATGCCAATATGCTAATTCGGGGCCAGCGATATTGGGCTTA
1 AAGATGAAAAGAGTGATAAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
* *
36637 AAGATGAAAAG-GATGATAAA-AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGATGAAAAGAG-TGATAAAGA-TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
36698 AAGATG
1 AAGATG
36704 CGAAGAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (61 bp):
AAGATGAAAAGAGTGATAAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
Found at i:36878 original size:49 final size:49
Alignment explanation
Indices: 36658--37440 Score: 632
Period size: 52 Copynumber: 15.8 Consensus size: 49
36648 GATGATAAAA
* * *
36658 GTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG
* ** * * * **
36709 AATATCAATGTGCTGATTCACGGCCAGCAACATTAAACTTGAAA-ATGAGAAG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGAT--GAAG
* * * * * ** * *
36761 AATGCTAATGTGCTGATTCAAGGCCCGTGACATTGGGTTTAGGAATGTTAAAG
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAG
* * * *
36814 ATGCCAATATGCTGATTCAAGGCTAGCGATATCGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * * * *
36863 GTGCCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
36912 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA---TGAAG
* * * **
36964 GTGCCAATATGCTGATTTAAAGCTAGCGACATTGGGTTTAGAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--AAAGATG---AAG
* *
37018 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
*
37061 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * * *
37113 GCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * ** * *
37162 GTGCCAATGTGCTGATTCAAGCCCAATGACATTAGACTTAAAGATGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
37211 GTGCCAATATGCTGATTCAATGCTAGCGACATTGGACTTAAAGATGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA---TGAAG
* * *
37263 GTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTT--A-A--AA-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
37306 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAG
* * *
37358 GCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
37401 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
37441 GAAGGAAATG
Statistics
Matches: 593, Mismatches: 103, Indels: 78
0.77 0.13 0.10
Matches are distributed among these distances:
43 112 0.19
44 2 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 2 0.00
49 169 0.28
50 3 0.01
51 5 0.01
52 248 0.42
53 8 0.01
54 40 0.07
55 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
Found at i:37075 original size:43 final size:44
Alignment explanation
Indices: 37014--37445 Score: 330
Period size: 43 Copynumber: 9.1 Consensus size: 44
37004 GAAAGATGAC
* * *
37014 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
* *
37057 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGAC-T-----T-A
* *
37108 CAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-A
* * * *
37154 AGGTGAAGGTGCCAATGTGCTGATTCAAGCCCAATGACATTAGACTTA
1 A----AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
* * *
37202 AAGATGAAAGTGCCAATATGCTGATTCAATGCTAGCGACATTGGACTTAAA
1 AA-A-G---GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT--A
* *
37253 GATGGTGAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTA
1 -A-----AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
* *
37303 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATATGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGAC-----T-T-A
* *
37353 CAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
* *
37397 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
*
37441 GAAGG
1 AAAGG
37446 AAATGCCACC
Statistics
Matches: 314, Mismatches: 39, Indels: 71
0.74 0.09 0.17
Matches are distributed among these distances:
43 110 0.35
44 8 0.03
45 2 0.01
46 4 0.01
47 1 0.00
48 3 0.01
49 71 0.23
50 2 0.01
51 5 0.02
52 105 0.33
55 1 0.00
56 1 0.00
57 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (44 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
Found at i:37129 original size:95 final size:95
Alignment explanation
Indices: 36961--37253 Score: 358
Period size: 95 Copynumber: 3.0 Consensus size: 95
36951 AAAGATGGTG
* * * * **
36961 AAGGTGCCAATATGCTGATTTAAAGCTAGCGACATTGGGTTTAGAAAGATGACAAAGGCGCCAAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--AAAGATGACAAAGGCGCCAAT
37026 ATGCTGATTCAAGGCCAGCGATATTGGACTTA
64 ATGCTGATTCAAGGCCAGCGATATTGGACTTA
37058 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
*
37123 GCTGATTCAAGGCCAACGATATTGGACTTAAA
66 GCTGATTCAAGGCCAGCGATATTGGACTT--A
* ** * *
37155 GGTGAAGGTGCCAATGTGCTGATTCAAGCCCAATGACATTAGACTTAAAGATG--AAA-GTGCCA
1 ----AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCA
* * *
37217 ATATGCTGATTCAATGCTAGCGACATTGGACTTA
62 ATATGCTGATTCAAGGCCAGCGATATTGGACTTA
37251 AAG
1 AAG
37254 ATGGTGAAGG
Statistics
Matches: 174, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
92 3 0.02
95 51 0.29
96 1 0.01
97 37 0.21
98 34 0.20
99 3 0.02
101 45 0.26
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (95 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:37339 original size:95 final size:94
Alignment explanation
Indices: 37115--37440 Score: 395
Period size: 95 Copynumber: 3.4 Consensus size: 94
37105 TGACAAAGGC
* *
37115 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-AAA-GGTGAAGGTGCCAATGTGCTGAT
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAATGGTGAAGGTGCCAATATGCTGAT
* * * *
37178 TCAAGCCCAATGACATTAGACTTAAAGATGAAAGT
66 TCAAGGCCAACGATATTGGACTT----A--AAAGT
* * * *
37213 GCCAATATGCTGATTCAATGCTAGCGACATTGGACTTAAAGATGGTGAAGGTGCCAATATGTTGA
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAA-ATGGTGAAGGTGCCAATATGCTGA
37278 TTCAAGGCCAACGATATTGGACTTAAAAGT
65 TTCAAGGCCAACGATATTGGACTTAAAAGT
* * *** *
37308 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAATATGACAAAGGCGCCAATATGCTGA
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAA-ATGGTGAAGGTGCCAATATGCTGA
*
37373 TTCAAGGCCAACGATATTGGACTTAAAGGT
65 TTCAAGGCCAACGATATTGGACTTAAAAGT
* *
37403 GCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTA
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
37441 GAAGGAAATG
Statistics
Matches: 203, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
95 126 0.62
97 1 0.00
98 33 0.16
99 2 0.01
100 1 0.00
101 40 0.20
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (94 bp):
GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAATGGTGAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGACTTAAAAGT
Found at i:37490 original size:32 final size:32
Alignment explanation
Indices: 37449--37598 Score: 205
Period size: 32 Copynumber: 4.7 Consensus size: 32
37439 TAGAAGGAAA
*
37449 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
* * *
37481 TGTCACCAACTTGTGTGGGCTTTAAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
*
37513 TGCCACCAACTTGTGT-GGCTTTA-AAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAA-AGGGT
* *
37544 TGCCACCAACTTGCGTGGACTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
*
37576 TGCCACCAACTTGTATGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
37599 GAAGAAAGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
30 2 0.02
31 27 0.26
32 73 0.70
33 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
Found at i:37534 original size:63 final size:64
Alignment explanation
Indices: 37449--37598 Score: 207
Period size: 63 Copynumber: 2.4 Consensus size: 64
37439 TAGAAGGAAA
* * *
37449 TGCCACCAACTTGTGTGGGCTTTTGAAAG-GGTTGTCACCAACTTGTGTGGGCTTTAAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTT-AAAGAGGTTGCCACCAACTTGCGTGGACTTTAAAAAAGGT
* *
37513 TGCCACCAACTTGTGT-GGC-TTTAAAGAAGGTTGCCACCAACTTGCGTGGACTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAG-AGGTTGCCACCAACTTGCGTGGACTTTAAAAAAGGT
*
37576 TGCCACCAACTTGTATGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
37599 GAAGAAAGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 4 0.05
62 3 0.04
63 48 0.63
64 19 0.25
65 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTTAAAGAGGTTGCCACCAACTTGCGTGGACTTTAAAAAAGGT
Found at i:38050 original size:94 final size:93
Alignment explanation
Indices: 37845--38638 Score: 634
Period size: 94 Copynumber: 8.6 Consensus size: 93
37835 AAAAGAAAAA
* * * * *** *
37845 GGTGCCATGCAGTTGTGGACTTAAAAGGAATAAGGTGCCACGAAGTTCTGGACTTTTGGAGAAAA
1 GGTGCCACGAAGTTGTGGACTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAA
* **
37910 AAAGGTGCCACGAAATTGTAAGCTTTAAAG
64 AAGGGTGCCACGAAATTGTGGGCTTTAAAG
*
37940 GGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGAAGTTGTGGACTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
38005 AGGGTGTCACGAAATTGTGGGCTTTAAAG
65 AGGGTGCCACGAAATTGTGGGCTTTAAAG
*
38034 GGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAA
1 GGTGCCACGAAGTTGTGGACTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
38099 AAGGTGCCA-TAGAATTGTGGGCTTTAAAG
65 AGGGTGCCACGA-AATTGTGGGCTTTAAAG
* * *
38128 GGTGCCACGGAA-TTATGGGCTTTAAA-G----GGTGCCACGGAGTTGTGGACTT-------AAA
1 GGTGCCAC-GAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
38180 AGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAA
65 AGGGTGCCACGAAATTGTGGGCTTT-----AAAG
* * *
38214 AGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGAAGTTGTGGACTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
38279 TGGGTGCCACGAAATTGTGGGCTTTAAAG
65 AGGGTGCCACGAAATTGTGGGCTTTAAAG
* * * *
38308 GGTGTCACGGAA-TTGTGGGCTTTAAA-G----GGTACCACGGAGTTGTGGACTTAAAAGG-AAA
1 GGTGCCAC-GAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
38366 A-GGTGCCAC-AGAGTTGTGGACTTAAAAGG
65 AGGGTGCCACGA-AATTGTGGGCTTTAAA-G
* * * *
38395 AAAAAAGGTGCCACGAAATTGTGGGCTTTAAA-G----GGTGCCACGGAGTTGTGGACTTAAAAA
1 ------GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
38455 GAAAAA--GTGCCACGAAGTTGTGGACTTAAAAG
60 GAAAAAGGGTGCCACGAAATTGTGGGCTTTAAAG
* * * *
38487 GAAAATGTGCCACGGAGTTGTGGGCTTTAAA-G----TGTGCCA-GGAGTTGTGGACTTAAAAGG
1 G-----GTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
38546 AAAAAGGGTGCCACGAAATTATGGGCTTTAAAT
61 AAAAAGGGTGCCACGAAATTGTGGGCTTTAAAG
** * * * *
38579 GGTATCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGG
1 GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
38639 GTGCCACAGA
Statistics
Matches: 583, Mismatches: 69, Indels: 96
0.78 0.09 0.13
Matches are distributed among these distances:
81 23 0.04
85 3 0.01
86 43 0.07
87 26 0.04
88 48 0.08
90 24 0.04
91 30 0.05
92 53 0.09
93 91 0.16
94 165 0.28
95 52 0.09
99 25 0.04
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (93 bp):
GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
GGGTGCCACGAAATTGTGGGCTTTAAAG
Found at i:38219 original size:32 final size:31
Alignment explanation
Indices: 37805--38867 Score: 615
Period size: 27 Copynumber: 34.7 Consensus size: 31
37795 CTTTTGGAGG
*
37805 GAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAA
* *
37839 GAAAAAGGTGCCATGCAGTTGTGGACTTAAAA
1 G-AAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
37871 GGAATAAGGTGCCACGAAGTTCTGGACTTTTGGAGAAA
1 -GAA-AAGGTGCCACGGAGTTGTGGAC--TT--A-AAA
* * * *
37909 -AAAAGGTGCCACGAAATTGT-AAGCTTTAAA
1 GAAAAGGTGCCACGGAGTTGTGGA-CTTAAAA
*
37939 G----GGTGCCACGAAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
37966 GGAACAAGGTGCCATGGAGTTGTGGACTTAAAA
1 -GAA-AAGGTGCCACGGAGTTGTGGACTTAAAA
* * * * *
37999 GGAAAAAGGGTGTCACGAAATTGTGGGCTTTAAA
1 -G-AAAA-GGTGCCACGGAGTTGTGGACTTAAAA
*
38033 G----GGTGCCACGAAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38060 GGAACAAGGTGCCACGGAGTTATGGACTTAAAA
1 -GAA-AAGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
38093 GGAAAAAAGGTGCCATAGAATTGTGGGCTTTAAA
1 -G--AAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
38127 G----GGTGCCACGGAATTATGGGCTTTAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
38154 G----GGTGCCACGGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38181 G----GGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAA
*
38210 -AAAAAGTGCCACGGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38240 GGAACAAGGGGCCACGGAGTTGTGGACTTAAAA
1 -GAA-AAGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
38273 GGAAAATGGGTGCCACGAAATTGTGGGCTTTAAA
1 -GAAAA--GGTGCCACGGAGTTGTGGACTTAAAA
* * * *
38307 G----GGTGTCACGGAATTGTGGGCTTTAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38334 G----GGTACCACGGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38361 GGAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1 -GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
38393 GGAAAAAAGGTGCCACGAAATTGTGGGCTTTAAA
1 -G--AAAAGGTGCCACGGAGTTGTGGACTTAAAA
38427 G----GGTGCCACGGAGTTGTGGACTTAAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTT-AAAA
* *
38455 GAAAAAGTGCCACGAAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
38486 GGAAAATGTGCCACGGAGTTGTGGGCTTTAAA
1 -GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38518 G----TGTGCCA-GGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
38544 GGAAAAAGGGTGCCACGAAATTATGGGCTT----
1 -G-AAAA-GGTGCCACGGAGTTGTGGACTTAAAA
* * **
38574 TAAATGGTATCACGGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
38605 GGAAAAGGTGCCACGGAGTTATGGGCTTTAAA
1 -GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
38637 G----GGTGCCACAGAGTTATGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
38664 GAAAAAGGTGCCACGAAGTTGTGCACTTAAAA
1 G-AAAAGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
38696 GGAAAAGGTGCCGTGGAGTTATGGGCTT---T
1 -GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38725 TAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
38756 GGAAAAGGTACCACGAAGTTGTGGACTTAAAA
1 -GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
38788 G----GGTGCCACGAAGTTGTGGGCTTTGAAAA
1 GAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAA
*
38817 GAAAAAGGTGCCACGGTGTTGTGGACTT---A
1 G-AAAAGGTGCCACGGAGTTGTGGACTTAAAA
*
38846 G-AAGGGTGCCACGGAGTTGTGG
1 GAAAAGGTGCCACGGAGTTGTGG
38868 GTTTTGAAAA
Statistics
Matches: 822, Mismatches: 126, Indels: 169
0.74 0.11 0.15
Matches are distributed among these distances:
26 16 0.02
27 259 0.32
28 37 0.05
29 11 0.01
30 7 0.01
31 9 0.01
32 195 0.24
33 121 0.15
34 135 0.16
35 26 0.03
36 2 0.00
37 1 0.00
38 3 0.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.22
Consensus pattern (31 bp):
GAAAAGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:38237 original size:59 final size:59
Alignment explanation
Indices: 38002--38905 Score: 480
Period size: 59 Copynumber: 15.0 Consensus size: 59
37992 CTTAAAAGGA
* * * *
38002 AAAAGGGTGTCACGAAATTGTGGGCTTT-AAAG----GGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
* * ** * *
38056 AAAAGGAACAAGGTGCCACGGAGTTATGGAC-TTAAAAGGAAAAAAGGTGCCATAGAATTGTGGG
1 AAAA-G-----GGTGCCACGGAGTTGTGGGCTTTAAAA-G--AAAAGGTGCCACGGAGTTGTGGA
38120 CTT
57 CTT
* * *
38123 TAAAGGGTGCCACGGAATTATGGGCTTT-AAAG----GGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
*
38177 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-AAAAAGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAGGTGCCACGGAGTTGTGGACTT
* * * * *
38236 AAAAGGAACAAGGGGCCACGGAGTTGTGGAC-TTAAAAGGAAAATGGGTGCCACGAAATTGTGGG
1 AAAA-G-----GGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAA--GGTGCCACGGAGTTGTGGA
38300 CTT
57 CTT
* * * *
38303 TAAAGGGTGTCACGGAATTGTGGGCTTT-AAAG----GGTACCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
* * * * *
38357 AAAAGGAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAAGGTGCCACGAAATTGTGGGC
1 AAAA-G----GGTGCCACGGAGTTGTGGGCTTTAAAA-G--AAAAGGTGCCACGGAGTTGTGGAC
38421 TT
58 TT
* * * * *
38423 TAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
*
38482 AAAAGGAAAATGTGCCACGGAGTTGTGGGCTTT-AAAG----TGTGCCA-GGAGTTGTGGACTT
1 AAAAGG-----GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
* * * * **
38540 AAAAGGAAAAAGGGTGCCACGAAATTATGGGCTTT-----AAATGGTATCACGGAGTTGTGGACT
1 -------AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACT
38600 T
59 T
* * *
38601 AAAAGGAAAAGGTGCCACGGAGTTATGGGCTTT-AAAG----GGTGCCACAGAGTTATGGACTT
1 AAAA-G----GGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
* ** ** * *
38660 AAAAGAAAAAGGTGCCACGAAGTTGTGCAC-TTAAAAGGAAAAGGTGCCGTGGAGTTATGGGCTT
1 AAAAG-----GGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAGGTGCCACGGAGTTGTGGAC--
38724 TT
58 TT
* * *
38726 AAAA-GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAGGTACCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAGGTGCCACGGAGTTGTGGACTT
* *
38784 AAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGTGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTTGTGGACTT
* * * * **
38845 AGAAGGGTGCCACGGAGTTGTGGGTTTTGAAAAGAAAAAGGTACCATGGAGGCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAAG-AAAAGGTGCCACGGAGTTGTGGACTT
38906 GGATAAGAGA
Statistics
Matches: 668, Mismatches: 97, Indels: 163
0.72 0.10 0.18
Matches are distributed among these distances:
54 72 0.11
55 3 0.00
56 3 0.00
58 24 0.04
59 164 0.25
60 93 0.14
61 155 0.23
62 9 0.01
63 8 0.01
64 38 0.06
65 29 0.04
66 29 0.04
67 41 0.06
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (59 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:38256 original size:180 final size:181
Alignment explanation
Indices: 37806--38545 Score: 726
Period size: 180 Copynumber: 4.0 Consensus size: 181
37796 TTTTGGAGGG
* * *
37806 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGCAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-AAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * * *** * **
37871 GGAATAAGGTGCCACGAAGTTCTGGACTTTTGGAGAAAAAAAGGTGCCACGAAATTGTAAGCTTT
65 GGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAAGGTGCCACGAAATTGTGGGCTTT
* * *
37936 AAAGGGTGCCAC-GAAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTT
129 AAAGGGTGCCACGGAA-TTGTGGGCTTTAAA-G-----GGTGCCACGGAGTTGTGGACTT
* * * *
37995 AAAAGGAAAAAGGGTGTCACGAAATTGTGGGCTTT------AAAGGGTGCCACGAAGTTGTGGAC
1 -------AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCACGAAGTTGTGGAC
* *
38054 TTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAGGTGCCA-TAGAATTGTG
59 TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACGA-AATTGTG
*
38118 GGCTTTAAAGGGTGCCACGGAATTATGGGCTTTAAAGGGTGCCACGGAGTTGTGGACTT
123 GGCTTTAAAGGGTGCCACGGAATTGTGGGCTTTAAAGGGTGCCACGGAGTTGTGGACTT
*
38177 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAAA-GTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAG
* **
38241 GAACAAGGGGCCACGGAGTTGTGGACTTAAAAGGAAAATGGGTGCCACGAAATTGTGGGCTTTAA
66 GAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACGAAATTGTGGGCTTTAA
* *
38306 AGGGTGTCACGGAATTGTGGGCTTTAAAGGGTACCACGGAGTTGTGGACTT
131 AGGGTGCCACGGAATTGTGGGCTTTAAAGGGTGCCACGGAGTTGTGGACTT
* * * * *
38357 AAAAGGAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAAGGTGCCACGAAATTGTGGGC
1 AAAA-G----GGTGCCACGGAGTTGTGGGCTTTGAAA--AAAAAAGGTGCCACGAAGTTGTGGAC
* * *
38421 TTTAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAA-GTGCCACGAAGTTGTGG
59 TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACGAAATTGTGG
* * * *
38478 ACTTAAAAGGAAAATGTGCCACGGAGTTGTGGGCTTTAAAGTGTGCCA-GGAGTTGTGGACTT
124 GCTTTAAAGG-----GTGCCACGGAATTGTGGGCTTTAAAGGGTGCCACGGAGTTGTGGACTT
38540 AAAAGG
1 AAAAGG
38546 AAAAAGGGTG
Statistics
Matches: 470, Mismatches: 52, Indels: 62
0.80 0.09 0.11
Matches are distributed among these distances:
175 25 0.05
178 1 0.00
179 24 0.05
180 138 0.29
181 31 0.07
182 22 0.05
183 18 0.04
184 34 0.07
185 18 0.04
186 7 0.01
187 23 0.05
188 51 0.11
189 54 0.11
196 24 0.05
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (181 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAG
GAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCACGAAATTGTGGGCTTTAA
AGGGTGCCACGGAATTGTGGGCTTTAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:38439 original size:93 final size:91
Alignment explanation
Indices: 38245--38850 Score: 436
Period size: 93 Copynumber: 6.7 Consensus size: 91
38235 TAAAAGGAAC
* * *
38245 AAGGG-GCCACGGAGTTGTGGACTTAAAAGGAAAATGGGTGCCACGAAATTGTGGGCTTTAAA-G
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA--GGTGCCACGAAGTTGTGGACTTAAAAGG
*
38308 ----GGTGTCACGGAATTGTGGGCTTTA
64 AAAAGGTGCCACGGAATTGTGGGCTTTA
*
38332 AAGGGTACCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC-AGAGTTGTGGACTTAAAAGGA
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGG-
*
38396 AAAAAGGTGCCACGAAATTGTGGGCTTTA
64 -AAAAGGTGCCACGGAATTGTGGGCTTTA
* *
38425 AAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGTGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
* *
38490 AATGTGCCACGGAGTTGTGGGCTTTA
66 AAGGTGCCACGGAATTGTGGGCTTTA
* * * * *
38516 AAGTGTGCCA-GGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACGAAATTATGGGCTTTAAATG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAA-GGTGCCACGAAGTTGTGGAC-TTAAAAG
* * * *
38580 G--TA--T--CACGGAGTTGTGGACTTAA
63 GAAAAGGTGCCACGGAATTGTGGGCTTTA
* * * *
38603 AAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAA-G----GGTGCCAC-AGAGTTATGGACTTAA
1 AA-G----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGA-AGTTGTGGACTTAA
* ** *
38662 AAGAAAAAGGTGCCAC-GAAGTTGTGCACTTAA
60 AAGGAAAAGGTGCCACGGAA-TTGTGGGCTTTA
** * * ** *
38694 AAGGAAAAGGTGCCGTGGAGTTATGGGCTT----TTAAAAGGTGCCACGGAGTTGTGGACTTAAA
1 AA-G----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAA
* * *
38755 AGGAAAAGGTACCAC-GAAGTTGTGGACTTAA
61 AGGAAAAGGTGCCACGGAA-TTGTGGGCTTTA
* * * ** *
38786 AAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGTGTTGTGGACTTAGAAGG
1 AAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
38851 GTGCCACGGA
Statistics
Matches: 431, Mismatches: 49, Indels: 72
0.78 0.09 0.13
Matches are distributed among these distances:
85 8 0.02
86 37 0.09
87 42 0.10
88 31 0.07
89 2 0.00
90 21 0.05
91 82 0.19
92 75 0.17
93 132 0.31
94 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (91 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
AAGGTGCCACGGAATTGTGGGCTTTA
Found at i:38542 original size:151 final size:148
Alignment explanation
Indices: 37971--38850 Score: 705
Period size: 151 Copynumber: 5.8 Consensus size: 148
37961 TAAAAGGAAC
* * * * *
37971 AAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGGGTGTCACGAAATTGTGGGCTTTAAAGGG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAA-GGTGCCACGAAGTTGTGGACTTAAAAGGG
* * * *
38036 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAA
64 TGCCACGGAGTTGTGGGCTTTAAA-G----AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
* *
38101 GGTGCCA-TAGAATTGTGGGCTTTAA
124 GGTGCCACGA-AATTATGGGCTTTAA
* * * * * *
38126 AGGGTGCCACGGAATTATGGGCTTTAAA-G----GGTGCCACGGAGTTGTGGACTTAAAAGGGTG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTG
* * * *
38186 CCACGGAGTTGTGGGCTTTGAAAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGG-AACAAGGG
66 CCACGGAGTTGTGGGCTTT----AAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGT
* * * * *
38250 GCCACGGAGTTGTGGACTTAAAAGGAA
127 GCCACGAAATTATGGGCTT-----TAA
* * * * * * *
38277 AATGGGTGCCACGAAATTGTGGGCTTTAAA-G----GGTGTCACGGAA-TTGTGGGCTTTAAAGG
1 AA--GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCAC-GAAGTTGTGGACTTAAAAGG
* * * *
38336 GTACCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAA
63 GTGCCACGGAGTTGTGGGCTTTAAA-G---AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
*
38401 GGTGCCACGAAATTGTGGGCTTTAA
124 GGTGCCACGAAATTATGGGCTTTAA
* * *
38426 AGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGTGCCACGAAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG---
* *
38491 ATGTGCCACGGAGTTGTGGGCTTTAAAG-TGTGCCA-GGAGTTGTGGACTTAAAAGGAAAAAGGG
63 --GTGCCACGGAGTTGTGGGCTTTAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGG
38554 TGCCACGAAATTATGGGCTTTAA
126 TGCCACGAAATTATGGGCTTTAA
* ** * * * *
38577 ATGGTATCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGGGTG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTG
* * * * * *
38642 CCACAGAGTTATGGACTTAAAAGAAAAAGGTGCCACGAAGTTGTGCACTTAAAAGG--AAAAGGT
66 CCACGGAGTTGTGGGCTTTAAAG----AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGT
** * *
38705 GCCGTGGAGTTATGGGCTTTTAA
127 GCCACGAAATTATGGGC-TTTAA
*
38728 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTACCACGAAGTTGTGGACTTAAAAGGGTG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTG
* * *
38793 CCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGTGTTGTGGACTTAGAAGG
66 CCACGGAGTTGTGGGCTTT--AAAG----AGGTGCCACGGAGTTGTGGACTTAAAAGG
38851 GTGCCACGGA
Statistics
Matches: 590, Mismatches: 97, Indels: 78
0.77 0.13 0.10
Matches are distributed among these distances:
146 42 0.07
147 49 0.08
148 43 0.07
149 6 0.01
150 19 0.03
151 189 0.32
152 47 0.08
153 125 0.21
154 25 0.04
155 22 0.04
156 1 0.00
157 22 0.04
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (148 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTG
CCACGGAGTTGTGGGCTTTAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCA
CGAAATTATGGGCTTTAA
Found at i:38616 original size:119 final size:118
Alignment explanation
Indices: 38465--38680 Score: 353
Period size: 119 Copynumber: 1.8 Consensus size: 118
38455 GAAAAAGTGC
* * * *
38465 CACGAAGTTGTGGACTTAAAAGGAAAATGTGCCACGGAGTTGTGGGCTTTAAAGTGTGCCA-GGA
1 CACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGGGTGCCACAGA
*
38529 GTTGTGGACTTAAAAGGAAAAAGGGTGCCACGAAATTATGGGCTTTAAATGGTAT
66 GTTATGGACTTAAAA-GAAAAA-GGTGCCACGAAATTATGGGCTTTAAATGGTAT
*
38584 CACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGGGTGCCACAGA
1 CACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGGGTGCCACAGA
38649 GTTATGGACTTAAAAGAAAAAGGTGCCACGAA
66 GTTATGGACTTAAAAGAAAAAGGTGCCACGAA
38681 GTTGTGCACT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
118 11 0.12
119 63 0.70
120 16 0.18
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (118 bp):
CACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTAAAGGGTGCCACAGA
GTTATGGACTTAAAAGAAAAAGGTGCCACGAAATTATGGGCTTTAAATGGTAT
Found at i:38698 original size:91 final size:92
Alignment explanation
Indices: 38579--38789 Score: 325
Period size: 92 Copynumber: 2.3 Consensus size: 92
38569 GGCTTTAAAT
* * *
38579 GGTATCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGC-TTTAAAGGGTGC
1 GGTACCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTTAAAAGGTGC
38643 CACAGAGTTATGGACTTAAAAGAAAAA
66 CACAGAGTTATGGACTTAAAAGAAAAA
* * **
38670 GGTGCCACGAAGTTGTGCACTTAAAAGGAAAAGGTGCCGTGGAGTTATGGGCTTTTAAAAGGTGC
1 GGTACCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTTAAAAGGTGC
* * *
38735 CACGGAGTTGTGGACTTAAAAGGAAAA
66 CACAGAGTTATGGACTTAAAAGAAAAA
38762 GGTACCACGAAGTTGTGGACTTAAAAGG
1 GGTACCACGAAGTTGTGGACTTAAAAGG
38790 GTGCCACGAA
Statistics
Matches: 107, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 46 0.43
92 61 0.57
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (92 bp):
GGTACCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGGCTTTTAAAAGGTGC
CACAGAGTTATGGACTTAAAAGAAAAA
Found at i:38759 original size:60 final size:58
Alignment explanation
Indices: 38666--38867 Score: 233
Period size: 60 Copynumber: 3.4 Consensus size: 58
38656 ACTTAAAAGA
* ** * *
38666 AAAAGGTGCCACGAAGTTGTGCACTTAAAAGGAAAAGGTGCCGTGGAGTTATGGGCTTTT
1 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGAC--TT
* * *
38726 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTACCACGAAGTTGTGGACTT
1 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* * *
38784 AAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGTGTTGTGGACTT
1 AAAA-GGTGCCACGAAGTTGTGGAC-TT-AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
* *
38845 AGAAGGGTGCCACGGAGTTGTGG
1 A-AAAGGTGCCACGAAGTTGTGG
38868 GTTTTGAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
58 6 0.05
59 18 0.15
60 50 0.41
61 46 0.38
62 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.22
Consensus pattern (58 bp):
AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:38824 original size:61 final size:61
Alignment explanation
Indices: 38724--38890 Score: 241
Period size: 61 Copynumber: 2.8 Consensus size: 61
38714 TTATGGGCTT
* *
38724 TTAAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGGTACCACGAAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTACCACGAAGTTGTGGAC
* * **
38782 TTAAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGTGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTACCACGAAGTTGTGGAC
* *
38843 TTAGAAGGGTGCCACGGAGTTGTGGGTTTTGAAAAGAAAAAGGTACCA
1 TTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTACCA
38891 TGGAGGCGTG
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 6 0.06
59 18 0.19
60 2 0.02
61 70 0.73
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (61 bp):
TTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTACCACGAAGTTGTGGAC
Found at i:38986 original size:30 final size:30
Alignment explanation
Indices: 38897--39116 Score: 230
Period size: 30 Copynumber: 7.3 Consensus size: 30
38887 ACCATGGAGG
* * * *
38897 CGTGGACTTGGATAAGAGAGGCCACTAAGT
1 CGTGGACTTTGAAAAGAGATGCCACTGAGT
* * * *
38927 CGTAGACTTTGGAAAG-GGTGCCACAGAGT
1 CGTGGACTTTGAAAAGAGATGCCACTGAGT
*
38956 CGTGGACTTAGAAAAGAGATGCCACTGAGT
1 CGTGGACTTTGAAAAGAGATGCCACTGAGT
**
38986 CGTGGACTTTGGGAAGAGATGCCACTGAGT
1 CGTGGACTTTGAAAAGAGATGCCACTGAGT
* *
39016 CGTGGACCTTGGGAAAAGAGATGCCACTGAAT
1 CGTGGA-CTT-TGAAAAGAGATGCCACTGAGT
*
39048 CGTGGACTTTGAGAAGAGATGCCACTGAGT
1 CGTGGACTTTGAAAAGAGATGCCACTGAGT
* * *
39078 CGTAGACTTT-AAGAAG-GGTGCCACAGAGT
1 CGTGGACTTTGAA-AAGAGATGCCACTGAGT
*
39107 CGTGGGCTTT
1 CGTGGACTTT
39117 TGGAAAAAGA
Statistics
Matches: 157, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
29 42 0.27
30 86 0.55
31 6 0.04
32 23 0.15
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (30 bp):
CGTGGACTTTGAAAAGAGATGCCACTGAGT
Found at i:39044 original size:62 final size:60
Alignment explanation
Indices: 38897--39121 Score: 258
Period size: 59 Copynumber: 3.8 Consensus size: 60
38887 ACCATGGAGG
* * * * * * *
38897 CGTGGACTTGGATAAGAGAGGCCACTAAGTCGTAGACTTTGGAAAG-GGTGCCACAGAGT
1 CGTGGACTTGGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGT
*
38956 CGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGT
1 CGTGGACTTGGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGT
* *
39016 CGTGGACCTTGGGAAAAGAGATGCCACTGAATCGTGGACTTTGAGAAGAGATGCCACTGAGT
1 CGTGGA-CTT-GGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGT
* * * * * *
39078 CGTAGACTT-TAAGAAG-GGTGCCACAGAGTCGTGGGCTTTTGGAA
1 CGTGGACTTGGAA-AAGAGATGCCACTGAGTCGTGGACTTTGGGAA
39122 AAAGAGATTT
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
59 64 0.45
60 20 0.14
61 6 0.04
62 53 0.37
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (60 bp):
CGTGGACTTGGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGT
Found at i:43311 original size:19 final size:19
Alignment explanation
Indices: 43287--43336 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
43277 AACAATACAT
43287 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
43306 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
43325 TGTATCGATACA
1 TGTATCGATACA
43337 GTTACAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:44026 original size:18 final size:17
Alignment explanation
Indices: 43971--44026 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
43961 TTTTTTTGAT
43971 TTTGTGTTTTTTTCTT--
1 TTTGT-TTTTTTTCTTAC
*
43987 TTTCTTTTTTTTTCTTATC
1 TTT-GTTTTTTTTCTTA-C
44006 TTTGTTTTTTTTCTTGAC
1 TTTGTTTTTTTTCTT-AC
44024 TTT
1 TTT
44027 TTCATCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 13 0.39
17 1 0.03
18 15 0.45
19 4 0.12
ACGTcount: A:0.04, C:0.11, G:0.07, T:0.79
Consensus pattern (17 bp):
TTTGTTTTTTTTCTTAC
Found at i:44027 original size:33 final size:33
Alignment explanation
Indices: 43951--44028 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
43941 TTGATTTTGC
43951 CTTTGCAC-TTTTTTTTTGATTTTGTGTTTTTTT
1 CTTTG-ACTTTTTTTTTTGATTTTGTGTTTTTTT
** *
43984 CTTTTTCTTTTTTTTTCTTATCTTTGT-TTTTTTT
1 CTTTGACTTTTTTTTT-TGAT-TTTGTGTTTTTTT
44018 C-TTGACTTTTT
1 CTTTGACTTTTT
44029 CATCATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 1 0.03
33 20 0.54
34 11 0.30
35 5 0.14
ACGTcount: A:0.05, C:0.12, G:0.08, T:0.76
Consensus pattern (33 bp):
CTTTGACTTTTTTTTTTGATTTTGTGTTTTTTT
Found at i:49947 original size:35 final size:35
Alignment explanation
Indices: 49901--49970 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
49891 TGGACTTGTT
49901 TTAATCATGATTCCAGACCTGGAAATTAAATTTAC
1 TTAATCATGATTCCAGACCTGGAAATTAAATTTAC
*
49936 TTAATCATGATTCCGGACCTGGAAATTAAATTTAC
1 TTAATCATGATTCCAGACCTGGAAATTAAATTTAC
49971 CCCAAGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (35 bp):
TTAATCATGATTCCAGACCTGGAAATTAAATTTAC
Found at i:51129 original size:20 final size:20
Alignment explanation
Indices: 51103--51177 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
51093 AATTTGCCTG
51103 CATGTATCGATACATTGAAT
1 CATGTATCGATACATTGAAT
*
51123 GATGTATCGATACATTGAAT
1 CATGTATCGATACATTGAAT
*
51143 TATGTATCGATACATTGAAT
1 CATGTATCGATACATTGAAT
51163 CATGTATCGATACAT
1 CATGTATCGATACAT
51178 CTGGGTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:51707 original size:60 final size:58
Alignment explanation
Indices: 51611--51802 Score: 183
Period size: 59 Copynumber: 3.2 Consensus size: 58
51601 TGCTCATATA
** * * *
51611 AAGTCATTGTTTA-GTTTGTTATTTTTATCCAGGCCATTTCATTGAATTTTGGTTTTGCCT
1 AAGTCATTGTTTAGGTTT-TT-GGTTTATCCAAGCCATTT-ATTGAGTCTTGGTTTTGCCT
* * *
51671 AAGTCATTGTTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTTGAGTCCT-ATTTTGCTT
1 AAGTCATTGTTTAGGTTTTTGGTTT-ATCCAAGCCATTTA-TTGAGTCTTGGTTTTGCCT
* * * * *
51730 AAATCGTTGTTTAGGTTTCTGGTTTAGTCCAAGCCATTTAATTGAGTCTTGGTTTCGCCC
1 AAGTCATTGTTTAGGTTTTTGGTTTA-TCCAAGCCATTT-ATTGAGTCTTGGTTTTGCCT
51790 AAGTCATT-TTTAG
1 AAGTCATTGTTTAG
51803 ATATCTGGTT
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
58 1 0.01
59 58 0.54
60 45 0.42
61 4 0.04
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (58 bp):
AAGTCATTGTTTAGGTTTTTGGTTTATCCAAGCCATTTATTGAGTCTTGGTTTTGCCT
Found at i:51802 original size:59 final size:59
Alignment explanation
Indices: 51634--51812 Score: 191
Period size: 59 Copynumber: 3.0 Consensus size: 59
51624 GTTTGTTATT
* * * * *
51634 TTTATCCAGGCCATTTCATTGAATTTTGGTTTTGCCTAAGTCATTGTTTAGGTTTTTGG
1 TTTATCCAAGCCATTTAATTGAGTCTTGGTTTTGCCTAAGTCATTGTTTAGGTTTCTGG
* * * * * *
51693 TTTCATCCAAGCCATTTAGTTGAGTCCT-ATTTTGCTTAAATCGTTGTTTAGGTTTCTGG
1 TTT-ATCCAAGCCATTTAATTGAGTCTTGGTTTTGCCTAAGTCATTGTTTAGGTTTCTGG
* * * *
51752 TTTAGTCCAAGCCATTTAATTGAGTCTTGGTTTCGCCCAAGTCATT-TTTAGATATCTGG
1 TTTA-TCCAAGCCATTTAATTGAGTCTTGGTTTTGCCTAAGTCATTGTTTAGGTTTCTGG
51811 TT
1 TT
51813 CGATCTAAAC
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
58 1 0.01
59 66 0.69
60 29 0.30
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (59 bp):
TTTATCCAAGCCATTTAATTGAGTCTTGGTTTTGCCTAAGTCATTGTTTAGGTTTCTGG
Found at i:52212 original size:65 final size:65
Alignment explanation
Indices: 51996--53328 Score: 389
Period size: 65 Copynumber: 20.9 Consensus size: 65
51986 GCAGGTTTCG
* * * * * * **
51996 CCCTAGTCAA-CCTTTTTCAATTTAGGTTTTATCTTACTTACCTTTAGTTGACTATATTGGTTTT
1 CCCTGGTCAATCCTTTTT-AACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTT
52060 A
65 A
* * * * * * ** *
52061 TCTTGGTTAA--CTTTTTCAACTTAGG-TTCTGTTCTAGTTACCTTTAGCAGACTATATCAATTT
1 CCCTGGTCAATCCTTTTT-AACTTAGGTTTC-ATCCTAGTCACCTTTAGTTGACTATATCAGTTT
*
52123 TG
64 TA
** * * **
52125 CCCCAGTTAA-CTCTTCTCGACTTAGGCTTT-ATCCTAGTCACCTTTAGTTGACTATATCAGTTT
1 CCCTGGTCAATC-CTTTTTAACTTAGG-TTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTT
52188 TA
64 TA
* * ** * * * * * *
52190 CCCTGGTCAATTCTTTTTGACTTAGGTTTCGCCCTGGTCACCCTTAGTTGATTCGTAT-GGTTTC
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACT-ATATCAGTTTT
52254 A
65 A
* ** * ** * * *
52255 TTCC-GACCAACTCCTTTTTGACTTAAATTTCATTCTAGTCACCATTAGTTGACTATATCGGTTT
1 -CCCTGGTCAA-TCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTT
*
52319 CA
64 TA
** * * ** * *
52321 CTTTGGTCAA-CCTTTTTTTACTTAAGTTTTGTCTTA-TCACCTGTAGTTGACTATAAT-AGTTT
1 CCCTGGTCAATCC-TTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTAT-ATCAGTTT
*
52383 TG
64 TA
* ** * * * * * ** *
52385 CACTTATCAATCCTTTTCAACTTAGGTTTCATCCTAGTTACTTTTAGTTAATTATATTGGTTTCA
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTTA
* * * * * * *** *
52450 CCTTGGTCAACCCTATTCAACTTAGGTTTCATCCTAGTCACCTTTAGTTAAATATATCAACGTCA
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTTA
* * * ** * * * * * *
52515 CTCTAGTCAACCCTTTTCGACTTAGATTTCATCTTAGCCACCTTTAGTTAACTATA-AAGGTTTC
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCA-GTTTT
52579 A
65 A
* * * * ** * * * * * *
52580 CCTTGGTCAACCCTTTTCAATTTAAATTTC-GCCTTGGTCACCCTTAGTTAATCCATAT-GGTTT
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCC-TAGTCACCTTTAGTTGA-CTATATCAGTTT
52643 TA
64 TA
* * * * *
52645 -TCTCGGTCAA-CTTTATTTGACTTAGG-TT--T--T-GTCA----TAG-TCATTATATC-GATT
1 CCCT-GGTCAATCCTT-TTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAG-TT
*
52696 TTG
63 TTA
* ** * *
52699 CCCTAGTCAA-CCGTTTTCGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATATCAGTTTC
1 CCCTGGTCAATCC-TTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTT
52763 A
65 A
* * ** ** * * * *
52764 CCTTGGTCAACCCTTTTCGACTTAGGTTTTGTGCTAGTCACCTTTAGTTTACTATAT--GGTTCA
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTTA
* * ** * * ** *
52827 TCTTAATCAA-CTTTTGTTTA-TTAGGTTTTGTCTTAGTCACCTTTAGTTGACTATATC-GATTT
1 CCCTGGTCAATCCTTT-TTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAG-TTT
**
52889 CG
64 TA
* * * * *
52891 CTCTGGTCTGGTCAA-CCTTTTTTGACTTAGGTTCCGTCTTATTCACCTTTAGTTGACTATATCA
1 C-C----CTGGTCAATCC-TTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCA
*
52955 GTTTTG
60 GTTTTA
* * * * * *
52961 CCCTAGTCATAT-TTTTTTGACTTAGGTTTCATCTTAGTCACCTTTAGTTGACTATATTAATTTT
1 CCCTGGTCA-ATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTT
53025 -
65 A
* * * * * *
53025 GCCTCGGTTAA-CCTTTTTTGACTTAGGTGTCATCCTTGTCACCTTTAGTTGACTATATCAATTT
1 CCCT-GGTCAATCC-TTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTT
53089 TA
64 TA
* * * ** *
53091 CCCTAGTCAA-CC-TTTT-AC----G---AAT--TAGTCACCTTTAGTTGACTATGTTGGTTTTG
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTTA
* * * * * ** *
53144 CCCTAGTCAAT-CTTTTTCGACTTAAGTTTCGTCCTAGTCACTTTTAGTTGACTAT-TTGGTTTC
1 CCCTGGTCAATCCTTTTT-AACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTT
53207 A
65 A
* * ** * * * * **
53208 CCCTGCTCAACCCTTTTCGACTTAAGTTTCGTCTTAGTCA-CTTGTAATTGACTATATTGGTTTT
1 CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTT-TAGTTGACTATATCAGTTTT
53272 A
65 A
** * ** * ** *
53273 TTCTGGTCAA-CCTTTTTCGACTTAGGTTTTGTCCTAGTTAATTTTAGTTCACTATA
1 CCCTGGTCAATCCTTTTT-AACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATA
53329 CAGGTTTCAT
Statistics
Matches: 963, Mismatches: 230, Indels: 150
0.72 0.17 0.11
Matches are distributed among these distances:
53 41 0.04
54 26 0.03
55 11 0.01
56 2 0.00
57 1 0.00
58 1 0.00
59 5 0.01
60 6 0.01
62 39 0.04
63 24 0.02
64 165 0.17
65 520 0.54
66 67 0.07
67 2 0.00
69 10 0.01
70 42 0.04
71 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (65 bp):
CCCTGGTCAATCCTTTTTAACTTAGGTTTCATCCTAGTCACCTTTAGTTGACTATATCAGTTTTA
Found at i:53465 original size:40 final size:40
Alignment explanation
Indices: 53414--53995 Score: 217
Period size: 40 Copynumber: 14.6 Consensus size: 40
53404 GCTTTATACG
* * * *
53414 ATCAACTCTTCTCACCTGTTGACTTATCGATTTCATCCCT
1 ATCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * *
53454 ATCAACCCTTCTCATATGTTAACTTGTC-AGTTTTATCTC-
1 ATCAACCCTTCTCATCTGTTGACTTGTCGA-TTTTATCCCT
* * * * **
53493 AGTCAGCCCTTTTCACCTGTTGACTTATCGATTTTAT-TTT
1 A-TCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * *
53533 AGTCAACCCTTCTCATTTGTTAACTTGTC-AGTTTTAT-CTT
1 A-TCAACCCTTCTCATCTGTTGACTTGTCGA-TTTTATCCCT
* ** * *
53573 AATCAACCCTTCTCAGT-TGTTGACTTGT-TAGTTTCGTCTCG
1 -ATCAACCCTTCTCA-TCTGTTGACTTGTCGA-TTTTATCCCT
* * ** *
53614 ATCAACCCTTCTTATTTGTTGACTTGTCGATTTCGTCCCA
1 ATCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * * * * *
53654 ATCAACCTTTCTCATCTCTTGACTTGTTGGTTTTATCTCA
1 ATCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * * * * *
53694 ATCAACCTTTTTCATTTGTTGACTTATCGGTTTTGTCCCT
1 ATCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * * * * * *
53734 ATCAACCCTTATCACCTATTAACTTGT-TAGTTTTATCTCG
1 ATCAACCCTTCTCATCTGTTGACTTGTCGA-TTTTATCCCT
* * * * * * *
53774 GTTAACCTTTCTCACCTGTTGACTTTTCAATTTCT-TCTC-
1 ATCAACCCTTCTCATCTGTTGACTTGTCGATTT-TATCCCT
* * * * * * *
53813 AGTCAACCTTTCTCATTTGTTAACTTGTTGGTTTTGTCCCA
1 A-TCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * * * *
53854 ATCAACCTTTCTCAT-TTTTCAACTTATC-AGTTTCAT-CCT
1 ATCAACCCTTCTCATCTGTT-GACTTGTCGA-TTTTATCCCT
* * * * * * *
53893 GGTCAACCCCTT-TTATCTGTTGAATTATTGATTTCATCTC-
1 -ATCAA-CCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
* * * *
53933 AACAGATCCTTCTCAGCTGTTGACTTGTCGA-CTTA-CCCT
1 ATCA-ACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
*
53972 AGTCAACCCTTCTCATTTGTTGAC
1 A-TCAACCCTTCTCATCTGTTGAC
53996 GTATTGGTTT
Statistics
Matches: 406, Mismatches: 108, Indels: 57
0.71 0.19 0.10
Matches are distributed among these distances:
38 2 0.00
39 36 0.09
40 352 0.87
41 16 0.04
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (40 bp):
ATCAACCCTTCTCATCTGTTGACTTGTCGATTTTATCCCT
Found at i:53619 original size:80 final size:80
Alignment explanation
Indices: 53414--53886 Score: 303
Period size: 80 Copynumber: 5.9 Consensus size: 80
53404 GCTTTATACG
* * * * * * * *
53414 ATCAACTCTTCTCACCTGTTGACTT-ATCGATTTCATCCCTATCAACCCTTCTCATATGTTAACT
1 ATCAACCCTTCTCACTTGTTGACTTGTTAG-TTTTATCTCGATCAACCCTTCTCATTTGTTAACT
53478 TGTCAGTTTTATCTCA
65 TGTCAGTTTTATCTCA
* * * * * * **
53494 GTCAGCCCTTTTCACCTGTTGACTT-ATCGATTTTAT-TTTAGTCAACCCTTCTCATTTGTTAAC
1 ATCAACCCTTCTCACTTGTTGACTTGTTAG-TTTTATCTCGA-TCAACCCTTCTCATTTGTTAAC
*
53557 TTGTCAGTTTTATCTTA
64 TTGTCAGTTTTATCTCA
* ** * *
53574 ATCAACCCTTCTCAGTTGTTGACTTGTTAGTTTCGTCTCGATCAACCCTTCTTATTTGTTGACTT
1 ATCAACCCTTCTCACTTGTTGACTTGTTAGTTTTATCTCGATCAACCCTTCTCATTTGTTAACTT
** *
53639 GTC-GATTTCGTCCCA
66 GTCAG-TTTTATCTCA
* * * * * * *
53654 ATCAACCTTTCTCA-TCTCTTGACTTGTTGGTTTTATCTCAATCAACCTTTTTCATTTGTTGACT
1 ATCAACCCTTCTCACT-TGTTGACTTGTTAGTTTTATCTCGATCAACCCTTCTCATTTGTTAACT
* * * * *
53718 TATCGGTTTTGTCCCT
65 TGTCAGTTTTATCTCA
* * * * * * * ** *
53734 ATCAACCCTTATCACCTATTAACTTGTTAGTTTTATCTCGGTTAACCTTTCTCACCTGTTGACTT
1 ATCAACCCTTCTCACTTGTTGACTTGTTAGTTTTATCTCGATCAACCCTTCTCATTTGTTAACTT
* *
53799 TTCAATTTCT-TCTCA
66 GTCAGTTT-TATCTCA
* * * * * * * * *
53814 GTCAACCTTTCTCATTTGTTAACTTGTTGGTTTTGTCCCAATCAACCTTTCTCATTT-TTCAACT
1 ATCAACCCTTCTCACTTGTTGACTTGTTAGTTTTATCTCGATCAACCCTTCTCATTTGTT-AACT
*
53878 TATCAGTTT
65 TGTCAGTTT
53887 CATCCTGGTC
Statistics
Matches: 312, Mismatches: 72, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
79 6 0.02
80 300 0.96
81 6 0.02
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.45
Consensus pattern (80 bp):
ATCAACCCTTCTCACTTGTTGACTTGTTAGTTTTATCTCGATCAACCCTTCTCATTTGTTAACTT
GTCAGTTTTATCTCA
Found at i:53623 original size:120 final size:118
Alignment explanation
Indices: 53454--53750 Score: 281
Period size: 120 Copynumber: 2.5 Consensus size: 118
53444 TTTCATCCCT
* * *
53454 ATCAACCCTTCTCATATGTTAACTTGTCAGTTTTATCTCAGTCAGCCCTTTTCACCTGTTGACTT
1 ATCAACCCTTCTCAT-TGTTGACTTGTCAGTTTTGTCTCA-TCAACCCTTTTCACCTGTTGACTT
* *** * * * *
53519 ATCGATTTTATTTTAGTCAACCCTTCTCATTTGTTAACTTGTCAGTTTTATCTTA
64 ATCGATTTCATCCCAATCAACCCTTCTCATCTCTTAACTTGTCAGTTTTATCTCA
* * **
53574 ATCAACCCTTCTCAGTTGTTGACTTGTTAGTTTCGTCTCGATCAACCCTTCTT-ATTTGTTGACT
1 ATCAACCCTTCTCA-TTGTTGACTTGTCAGTTTTGTCTC-ATCAACCCTT-TTCACCTGTTGACT
* * * * **
53638 TGTCGATTTCGTCCCAATCAACCTTTCTCATCTCTTGACTTGTTGGTTTTATCTCA
63 TATCGATTTCATCCCAATCAACCCTTCTCATCTCTTAACTTGTCAGTTTTATCTCA
* * * * * *
53694 ATCAACCTTTTTCATTTGTTGACTTATCGGTTTTGTCCCTATCAACCCTTATCACCT
1 ATCAACCCTTCTCA-TTGTTGACTTGTCAGTTTTGTCTC-ATCAACCCTTTTCACCT
53751 ATTAACTTGT
Statistics
Matches: 140, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
119 1 0.01
120 135 0.96
121 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (118 bp):
ATCAACCCTTCTCATTGTTGACTTGTCAGTTTTGTCTCATCAACCCTTTTCACCTGTTGACTTAT
CGATTTCATCCCAATCAACCCTTCTCATCTCTTAACTTGTCAGTTTTATCTCA
Found at i:53915 original size:120 final size:120
Alignment explanation
Indices: 53655--53900 Score: 266
Period size: 120 Copynumber: 2.0 Consensus size: 120
53645 TTCGTCCCAA
* * ** * *
53655 TCAACCTTTCTCATCTCTTGACTTGTT-GGTTT-TATCTCAATCAACCTTTTTCATTTGTTGACT
1 TCAACCTTTCTCACCTGTTGACTT-TTCAATTTCT-TCTCAATCAACCTTTCTCATTTGTTAACT
* * * *
53718 TATCGGTTTTGTCCCTATCAACCCTTATCACCTATTAACTTGTTAGTTTTATCTCGG
64 TATCGGTTTTGTCCCAATCAACCCTTATCACCTATTAACTTATCAGTTTCATCTCGG
* * *
53775 TTAACCTTTCTCACCTGTTGACTTTTCAATTTCTTCTCAGTCAACCTTTCTCATTTGTTAACTTG
1 TCAACCTTTCTCACCTGTTGACTTTTCAATTTCTTCTCAATCAACCTTTCTCATTTGTTAACTTA
* * * * *
53840 TTGGTTTTGTCCCAATCAACCTTTCTCA-TTTTTCAACTTATCAGTTTCATC-CTGG
66 TCGGTTTTGTCCCAATCAACCCTTATCACCTATT-AACTTATCAGTTTCATCTC-GG
53895 TCAACC
1 TCAACC
53901 CCTTTTATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
119 6 0.06
120 96 0.93
121 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.46
Consensus pattern (120 bp):
TCAACCTTTCTCACCTGTTGACTTTTCAATTTCTTCTCAATCAACCTTTCTCATTTGTTAACTTA
TCGGTTTTGTCCCAATCAACCCTTATCACCTATTAACTTATCAGTTTCATCTCGG
Found at i:54100 original size:40 final size:41
Alignment explanation
Indices: 54055--54144 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 41
54045 TTTGTCCTAG
*
54055 TCAACCTCTGTAACTT-GTTGACTTGT-CGATTTCATCTC-A
1 TCAACCTCTCTAA-TTCGTTGACTTGTACGATTTCATCTCGA
* * * *
54094 TTCAACCTTTCTCATTCGTTGACTTGTATGGTTTCATCTCGA
1 -TCAACCTCTCTAATTCGTTGACTTGTACGATTTCATCTCGA
54136 TCAACCTCT
1 TCAACCTCT
54145 TAAGTTTCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
39 2 0.05
40 20 0.49
41 18 0.44
42 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (41 bp):
TCAACCTCTCTAATTCGTTGACTTGTACGATTTCATCTCGA
Found at i:55175 original size:13 final size:14
Alignment explanation
Indices: 55157--55186 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
55147 AAGTTTTATA
55157 TTTTGTAA-ATTTT
1 TTTTGTAAGATTTT
55170 TTTTGTAAGATTTT
1 TTTTGTAAGATTTT
55184 TTT
1 TTT
55187 CAACTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (14 bp):
TTTTGTAAGATTTT
Found at i:56398 original size:31 final size:32
Alignment explanation
Indices: 56338--56398 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
56328 TCCTAGGCTA
**
56338 ATTTTGAGATATTTTCAAAGTGTTTTAGATGC
1 ATTTTGAGATATTTTCAAAGCATTTTAGATGC
56370 ATTTTGATGA-ATTTTC-AAGCATTTTAGAT
1 ATTTTGA-GATATTTTCAAAGCATTTTAGAT
56399 TGTTTGGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 11 0.42
32 13 0.50
33 2 0.08
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (32 bp):
ATTTTGAGATATTTTCAAAGCATTTTAGATGC
Found at i:70238 original size:19 final size:18
Alignment explanation
Indices: 70214--70279 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
70204 AATTTCCAAA
70214 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
70233 TGTATCGA-A-ACAA---
1 TGTATCGATACATAAGTT
70246 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGT-T
70265 TGTATCGATACATAA
1 TGTATCGATACATAA
70280 TTAGCTACTG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
13 8 0.21
14 1 0.03
15 3 0.08
17 3 0.08
18 1 0.03
19 23 0.59
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:70253 original size:32 final size:32
Alignment explanation
Indices: 70212--70272 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
70202 AAAATTTCCA
*
70212 AATGTATCGATACATAAGTTTTGTATCGAAAC
1 AATGTATCGATACATAAGTATTGTATCGAAAC
70244 AATGTATCGATACATAAGTATTGTATCGA
1 AATGTATCGATACATAAGTATTGTATCGA
70273 TACATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGAAAC
Found at i:70337 original size:13 final size:13
Alignment explanation
Indices: 70319--70344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70309 CATTTTTCTG
70319 TGTATCGATACAT
1 TGTATCGATACAT
70332 TGTATCGATACAT
1 TGTATCGATACAT
70345 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70341 original size:33 final size:33
Alignment explanation
Indices: 70299--70365 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
70289 GCCAAGGAAA
***
70299 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
70332 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
70365 T
1 T
70366 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:72767 original size:51 final size:52
Alignment explanation
Indices: 72695--73081 Score: 206
Period size: 52 Copynumber: 7.4 Consensus size: 52
72685 AATTCTCTGC
* * * *
72695 AATCAGGGATATTCCATCTCCGATTTTATTTTC-AAAACACCAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCTAT
* * *
72746 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAAACACAAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAATTTTCT-AT
* ** ** * * *
72800 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATT-TTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAA-----TT-TTCTAT
* * * * ***
72857 GA--GGGGATATTCCAACCCCTG-CTTTATTCTT--AAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCC-GATTTTATT-TTCAAAAACACCAATTTTCT-AT
* * * * *
72906 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAA-TTTTCTAT
* *
72958 AATCGGGGATACTCCAACCCCGATTTTATTTT-TAAAACACCAATTTTCTTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTC-TAT
* * * * * *
73010 AATTGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCT-AT
*
73063 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
73082 TCGTTATTTC
Statistics
Matches: 253, Mismatches: 57, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 3 0.01
50 2 0.01
51 62 0.25
52 80 0.32
53 36 0.14
54 38 0.15
55 16 0.06
56 1 0.00
57 7 0.03
58 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCTAT
Found at i:72807 original size:54 final size:51
Alignment explanation
Indices: 72685--73080 Score: 166
Period size: 51 Copynumber: 7.5 Consensus size: 51
72675 TGAGTTTCTC
* * * * * *
72685 AATTCTCTGCAATCAGGGATATTCCATCTCCGATTTTATTTTCAAAACACC
1 AATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACA
*
72736 AATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAAAACACA
1 AATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTTC---AAAACACA
* ** * * * *
72790 AATTTT-TCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAACCCCGT
1 AATTTTCT-ACAATCGGGGATACTCCAACTCCGATT--T--T-----ATTTTCAAAACAC-A
* * * * * * **
72850 TATTTT-T--GA--GGGGATATTCCAACCCCTG-CTTTATTCTT-AAAATATT
1 AATTTTCTACAATCGGGGATACTCCAACTCC-GATTTTATT-TTCAAAACACA
* * * *
72896 GA-TTTCTCATAATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTA
1 AATTTTCT-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACAC-A
* * * * *
72948 ATTTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACC
1 AATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACA
** * * * *
72999 AATTTTCTTTTAATTGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACC
1 AATTTTC-TACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACA
* *
73052 AATTTTTTCACAATCGAGGATACTCCAAC
1 AATTTTCT-ACAATCGGGGATACTCCAAC
73081 CTCGTTATTT
Statistics
Matches: 258, Mismatches: 56, Indels: 60
0.69 0.15 0.16
Matches are distributed among these distances:
45 3 0.01
46 3 0.01
47 4 0.02
48 1 0.00
49 2 0.01
50 2 0.01
51 68 0.26
52 66 0.26
53 38 0.15
54 36 0.14
55 17 0.07
56 2 0.01
57 2 0.01
59 4 0.02
60 6 0.02
62 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
AATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACA
Found at i:72871 original size:28 final size:27
Alignment explanation
Indices: 72804--72875 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
72794 TTTCACAATC
*
72804 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
* **
72831 GGGGATACTCCAACCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTAATCAT-A
*
72859 GGGGATATTCCAACCCC
1 GGGGATACTCCAACCCC
72876 TGCTTTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:73073 original size:53 final size:52
Alignment explanation
Indices: 72906--73081 Score: 228
Period size: 52 Copynumber: 3.4 Consensus size: 52
72896 GATTTCTCAT
* * *
72906 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTTCAC
* **
72958 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCTT-TT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTT-TTCAC
* * * *
73010 AATTGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACCAATTTTTTCAC
*
73063 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
73082 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
52 74 0.71
53 30 0.29
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTTCAC
Found at i:73092 original size:31 final size:28
Alignment explanation
Indices: 73064--73140 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
73054 TTTTTTCACA
*
73064 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
73092 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
73120 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
73141 ACTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:73183 original size:264 final size:263
Alignment explanation
Indices: 72694--73191 Score: 757
Period size: 264 Copynumber: 1.9 Consensus size: 263
72684 CAATTCTCTG
* * *
72694 CAATCAGGGATATTCCATCTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
1 CAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
* *
72759 CCAACTCCGATTTTATTTTCAAAAAAACACAAATTTTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
** ** * **
72824 AATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATATTCCAACCCCTGCTTTATTCTTA
131 AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCTGCTTTATTCCCA
72889 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
72954 CCA
261 CCA
* * * *
72957 CAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCTTTTAATTGGGGATAC
1 CAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTC-TATAATCGGGGATAC
* * * *
73022 TCCAGCTCCGATTTTATTTCCAAAAACAC-CAATTTTTTCACAATCGAGGATACTCCAACCTCGT
65 TCCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGT
*
73086 TATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCC-GACTTTATTC
130 TA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCTG-CTTTATTC
*
73150 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
73192 TTATTTTCGA
Statistics
Matches: 210, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
263 79 0.38
264 131 0.62
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (263 bp):
CAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCTGCTTTATTCCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
CCA
Found at i:73273 original size:78 final size:79
Alignment explanation
Indices: 73094--73296 Score: 230
Period size: 78 Copynumber: 2.6 Consensus size: 79
73084 GTTATTTCAT
** *
73094 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
73159 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
73173 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCTCGA-TTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
73236 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
73251 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
73297 ATTATTATCT
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 3 0.03
78 58 0.56
79 42 0.41
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:76159 original size:18 final size:19
Alignment explanation
Indices: 76122--76163 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
76112 GCTCATAAGG
76122 TTATATTATGACATTACAA
1 TTATATTATGACATTACAA
76141 TTATATTATGACA-TACAA
1 TTATATTATGACATTACAA
76159 TTATA
1 TTATA
76164 AGATAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (19 bp):
TTATATTATGACATTACAA
Found at i:78690 original size:16 final size:16
Alignment explanation
Indices: 78671--78712 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
78661 AGCCCGAATA
78671 CGAAAGAACCCGAACC
1 CGAAAGAACCCGAACC
*
78687 CGAAAGAACTCGAACC
1 CGAAAGAACCCGAACC
**
78703 TAAAAGAACC
1 CGAAAGAACC
78713 TGAGACTGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.48, C:0.31, G:0.17, T:0.05
Consensus pattern (16 bp):
CGAAAGAACCCGAACC
Found at i:79155 original size:16 final size:16
Alignment explanation
Indices: 79136--79176 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
79126 AACAAACTCA
*
79136 AACCCGAATAAGCCCG
1 AACCCGAACAAGCCCG
*
79152 AACCCGAACGAGCCCG
1 AACCCGAACAAGCCCG
*
79168 AACTCGAAC
1 AACCCGAAC
79177 CTGCCCTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.39, G:0.20, T:0.05
Consensus pattern (16 bp):
AACCCGAACAAGCCCG
Found at i:85409 original size:19 final size:19
Alignment explanation
Indices: 85362--85429 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
85352 AAATAATAAA
*
85362 AAATT-TAATTATAA-AAT
1 AAATTATAATTATAATATT
*
85379 AAATTTTAATTATAATATT
1 AAATTATAATTATAATATT
* *
85398 ATATTATAATTATTAT-TT
1 AAATTATAATTATAATATT
85416 AAATTTATAATTAT
1 AAA-TTATAATTAT
85430 TTTTTAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
17 5 0.12
18 13 0.30
19 25 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTATAATTATAATATT
Found at i:85444 original size:19 final size:19
Alignment explanation
Indices: 85378--85435 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
85368 AATTATAAAA
*
85378 TAAATTT-TAATTATAATAT
1 TAAATTTATAATTATTAT-T
*
85397 TATA-TTATAATTATTATT
1 TAAATTTATAATTATTATT
*
85415 TAAATTTATAATTATTTTT
1 TAAATTTATAATTATTATT
85434 TA
1 TA
85436 GTGTTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.18
19 27 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAATTTATAATTATTATT
Found at i:85607 original size:14 final size:14
Alignment explanation
Indices: 85588--85631 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
85578 TTAATAAAAT
85588 TATTTTTATATTAA
1 TATTTTTATATTAA
85602 TATTTTTATA--AA
1 TATTTTTATATTAA
85614 TA-TTTTATAATTAA
1 TATTTTTAT-ATTAA
85628 -ATTT
1 TATTT
85632 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 1 0.04
14 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTTATATTAA
Found at i:85637 original size:25 final size:25
Alignment explanation
Indices: 85591--85638 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
85581 ATAAAATTAT
**
85591 TTTTATATTAATATTTTTATAAATA
1 TTTTATATTAATATTTAAATAAATA
85616 TTTTATAATTAA-ATTTAAATAAA
1 TTTTAT-ATTAATATTTAAATAAA
85639 AATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTATATTAATATTTAAATAAATA
Found at i:86177 original size:10 final size:10
Alignment explanation
Indices: 86164--86188 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
86154 TTGATATTAC
86164 TTAATATATA
1 TTAATATATA
86174 TTAATATATA
1 TTAATATATA
86184 TTAAT
1 TTAAT
86189 TTGTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAATATATA
Found at i:86240 original size:18 final size:18
Alignment explanation
Indices: 86217--86255 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
86207 GATTTTTGAA
86217 TTTTATTT-TTAAAATTTT
1 TTTTATTTATT-AAATTTT
*
86235 TTTTATTTATTTAATTTT
1 TTTTATTTATTAAATTTT
86253 TTT
1 TTT
86256 AATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTATTAAATTTT
Found at i:86282 original size:24 final size:25
Alignment explanation
Indices: 86255--86301 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
86245 TTAATTTTTT
*
86255 TAATAAATTTTTA-ATTTTTATTCA
1 TAATAAATTTTTATAATTTTATTCA
* *
86279 TAATTATTTTTTATAATTTTATT
1 TAATAAATTTTTATAATTTTATT
86302 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TAATAAATTTTTATAATTTTATTCA
Found at i:87970 original size:14 final size:15
Alignment explanation
Indices: 87939--87978 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
87929 TTATAGGCTT
87939 TAAACTAATTACCTC
1 TAAACTAATTACCTC
87954 TAAACTAATTA-CTC
1 TAAACTAATTACCTC
87968 TAAACCTAATT
1 TAAA-CTAATT
87979 CCACATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAACTAATTACCTC
Found at i:88021 original size:32 final size:33
Alignment explanation
Indices: 87954--88017 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 33
87944 TAATTACCTC
* * *
87954 TAAACTAATTACTCTAAACCTAATTCCACATAA
1 TAAACTAATTACTATAAACCTAATTACACAAAA
*
87987 TAAAC-AATTACTATCAA-CTAATTACACAAAA
1 TAAACTAATTACTATAAACCTAATTACACAAAA
88018 ATAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 12 0.44
32 10 0.37
33 5 0.19
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (33 bp):
TAAACTAATTACTATAAACCTAATTACACAAAA
Found at i:93492 original size:52 final size:52
Alignment explanation
Indices: 93341--93471 Score: 253
Period size: 52 Copynumber: 2.5 Consensus size: 52
93331 CCCGAAATAT
93341 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
93393 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
*
93445 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
93472 AAGATCAGTG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
Found at i:93558 original size:19 final size:18
Alignment explanation
Indices: 93534--93631 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
93524 TAGCTTAAAT
93534 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
93553 TGTATCAATAC--A--T-
1 TGTATCGATACAAACTTA
93566 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
93585 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
93598 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
93618 TGTATCGATACAAA
1 TGTATCGATACAAA
93632 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:93572 original size:32 final size:32
Alignment explanation
Indices: 93532--93629 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
93522 AGTAGCTTAA
* *
93532 ATTGTATCGATACAAAACTTATGTATCAATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
93564 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
93596 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
93629 A
1 A
93630 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:93603 original size:13 final size:13
Alignment explanation
Indices: 93553--93609 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
93543 ACAAAACTTA
*
93553 TGTATCAATACAT
1 TGTATCGATACAT
93566 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
93584 ATGTATCGATACAT
1 -TGTATCGATACAT
93598 TGTATCGATACA
1 TGTATCGATACA
93610 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:94806 original size:92 final size:92
Alignment explanation
Indices: 94533--95257 Score: 1144
Period size: 92 Copynumber: 7.8 Consensus size: 92
94523 GCGCCAATAC
* * *
94533 GCTGATTCAAGGCTAGCGACATTGGACTTACAAGATGACAAAGGTGCCAATATGTTGATTCAAGG
1 GCTGATTCAAGGCCAGCTACATTGGACTTA-AAGAT---AAAGGTGCCAATATGCTGATTCAAGG
**
94598 CCAGCGATATTGGACTTAAAGGTGCCAATGT
62 CCAGCGATATTGGACTTGGAGGTGCCAATGT
* * *
94629 GCTGATTCAAGGCCAGCAACATTGGATTTAAAGATGACAAATGTGCCAATATGCTGATTCAAGGC
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGC
94694 CAGCGATATTGGACTTGGAGGTGCCAATGT
63 CAGCGATATTGGACTTGGAGGTGCCAATGT
*
94724 GCCGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
94789 CGATATTGGACTTGGAGGTGCCAATGT
66 CGATATTGGACTTGGAGGTGCCAATGT
*
94816 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTTAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
94881 CGATATTGGACTTGGAGGTGCCAATGT
66 CGATATTGGACTTGGAGGTGCCAATGT
* * *
94908 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAATGTGCCAATATGCTGATTGAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
* * *
94973 CAATATTGGGCTTAGAGGTGCCAATGT
66 CGATATTGGACTTGGAGGTGCCAATGT
* * *
95000 ACTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
* *
95065 CTATATTGGACTTGAAGGTGCCAATGT
66 CGATATTGGACTTGGAGGTGCCAATGT
* *
95092 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
* **
95157 TGATATTGGACTTAAAGGTGCCAATGT
66 CGATATTGGACTTGGAGGTGCCAATGT
*
95184 GCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
95249 CGATATTGG
66 CGATATTGG
95258 GCTTAGAAGG
Statistics
Matches: 590, Mismatches: 39, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
92 470 0.80
95 93 0.16
96 27 0.05
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTGGACTTGGAGGTGCCAATGT
Found at i:95487 original size:98 final size:99
Alignment explanation
Indices: 95301--95625 Score: 449
Period size: 98 Copynumber: 3.3 Consensus size: 99
95291 TTAGAGAGGG
* * * * * * * *
95301 AAAAAGATGCCATGGAGTTGTAGACTTAAAAGGAAAAAAGAATACCACGGAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG-AACAAG-GTGCCACGGAGTTGTGGACTTTAA
*
95366 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
64 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* *
95401 AAAAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGGTGCCACGGAGTCGTGGAC-TTAAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAA
95465 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
*
95499 AAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGG-GTTGTGGACTTTAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCAC-GGAGTTGTGGACTTTAAA
*
95563 AGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAA
65 A-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* * *
95599 GAAAAGATGCCACTGAGTCGTGGACTT
1 AAAAAGGTGCCACGGAGTCGTGGACTT
95626 TGGAAAGATA
Statistics
Matches: 202, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
97 13 0.06
98 92 0.46
99 13 0.06
100 84 0.42
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (99 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAA
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
Found at i:95674 original size:27 final size:27
Alignment explanation
Indices: 95636--95688 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
95626 TGGAAAGATA
* *
95636 TGCCACTGAGTTGTGGGCTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
95663 TGCCACAGAGTTGTGGACTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGG
95689 AAAAGAGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:95699 original size:33 final size:33
Alignment explanation
Indices: 95302--95711 Score: 310
Period size: 33 Copynumber: 12.7 Consensus size: 33
95292 TAGAGAGGGA
* *
95302 AAAAGA-TGCCATGGAGTTGTAGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
95334 AAAAAAGAATACCACGGAGTTGTGGGCTTTAAAAAG
1 --AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
95370 AAAA-AGGTGCCACGGAGTTGTGGGCTTTGAAA--
1 AAAAGA-GTGCCACGGAGTTGTGGAC-TTAAAAGG
**
95402 AAAAG-GTGCCACGGAGTCATGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
95434 AACAAG-GTGCCACGGAGTCGTGGACTTAAAAGG
1 AA-AAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
95467 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 -AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
95502 --AAG-GTGCCACGGAGTCGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
95532 AACAAG-GTGCCACAGG-GTTGTGGACTTTAAAAGGG
1 AA-AAGAGTGCCAC-GGAGTTGTGGAC-TTAAAA-GG
**
95567 AAAAAGAGTGCCACGGAGTTGTGGACTTTGAA-G
1 -AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
95600 AAAAGA-TGCCACTGAGTCGTGGACTT---TGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
95629 -AAAGATATGCCACTGAGTTGTGGGCTTAAAA-G
1 AAAAGA-GTGCCACGGAGTTGTGGACTTAAAAGG
*
95661 ----G-GTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
95689 AAAAGAGTGCCATGGAGTTGTGG
1 AAAAGAGTGCCACGGAGTTGTGG
95712 GCTTTGCAGA
Statistics
Matches: 312, Mismatches: 31, Indels: 67
0.76 0.08 0.16
Matches are distributed among these distances:
27 22 0.07
28 6 0.02
29 6 0.02
30 26 0.08
31 51 0.16
32 17 0.05
33 67 0.21
34 60 0.19
35 28 0.09
36 29 0.09
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:95732 original size:32 final size:32
Alignment explanation
Indices: 95371--95911 Score: 354
Period size: 31 Copynumber: 17.1 Consensus size: 32
95361 TTTAAAAAGA
* * * *
95371 AAAAGG-TGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
* * **
95402 AAAAGG-TGCCACGGAGTCATGGACTTAAAAGG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAA-G
* **
95434 AACAAGG-TGCCACGGAGTCGTGGACTTAAAAGG
1 AA-AAGGATGCCACTGAGTCGTGGACTTTGAA-G
* * * *
95467 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAAG
* **
95499 AAGAAGG-TGCCACGGAGTCGTGGACTTAAAAGG
1 AA-AAGGATGCCACTGAGTCGTGGACTTTGAA-G
* * * *
95532 AACAAGG-TGCCACAGGGTTGTGGACTTTAAAAGGG
1 AA-AAGGATGCCACTGAGTCGTGGACTTT-GAA--G
* * *
95567 AAAAAGAGTGCCACGGAGTTGTGGACTTTGAAG
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAAG
95600 AAAA-GATGCCACTGAGTCGTGGACTTTG--G
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
* * *
95629 -AAAGATATGCCACTGAGTTGTGGGC-TT----
1 AAAAG-GATGCCACTGAGTCGTGGACTTTGAAG
* * * **
95656 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAA-G
* * *
95689 AAAA-GAGTGCCA-TGGAGTTGTGGGCTTTGCAG
1 AAAAGGA-TGCCACT-GAGTCGTGGACTTTGAAG
*
95721 AAAAGGATGCCACTAAGTCGTGGACTTTG-AG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
**
95752 ACAAAATATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGGATGCCACTGAGTCGTGGACTTTGAAG
*
95785 AAAAGAATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
*
95817 AAAAGGATGCCACTGAGTCATGGACTTTG-AG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
* * *
95848 AAGA-GATTACCACTGAGTCATGGACTTTG-AG
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAAG
*
95879 AAGA-GATTGCCACTGAGTCGTGGACTTT-AAG
1 AAAAGGA-TGCCACTGAGTCGTGGACTTTGAAG
95910 AA
1 AA
95912 GGTATTTGAA
Statistics
Matches: 426, Mismatches: 56, Indels: 56
0.79 0.10 0.10
Matches are distributed among these distances:
27 16 0.04
28 8 0.02
29 3 0.01
30 19 0.04
31 126 0.30
32 113 0.27
33 90 0.21
34 26 0.06
35 6 0.01
36 19 0.04
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (32 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:95795 original size:64 final size:63
Alignment explanation
Indices: 95441--95911 Score: 311
Period size: 64 Copynumber: 7.4 Consensus size: 63
95431 AGGAACAAGG
* ** * * * * *
95441 TGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA-AAAGAAG
1 TGCCACTGAGTCGTGGACTTTGAA-G-AAAAGAATGCCACTGAGTCGTGGACTTTGAGAAA-AAT
*
95505 G
63 A
* ** * * * * *
95506 TGCCACGGAGTCGTGGACTTAAAAGGAACAAG-GTGCCACAGGGTTGTGGACTTTAAAAGGGAAA
1 TGCCACTGAGTCGTGGACTTTGAA-GAA-AAGAATGCCACTGAGTCGTGGACTTT----GAGAAA
*
95570 AAGA
60 AATA
* * *
95574 GTGCCACGGAGTTGTGGACTTTGAAGAAAAG-ATGCCACTGAGTCGTGGACTTTG-GAAAGATA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAAAATA
* * ** * * ** * *
95636 TGCCACTGAGTTGTGGGC-TT----AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTT-TGAGAAAAATA
* * * * *
95695 GTGCCA-TGGAGTTGTGGGCTTTGCAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAT
1 -TGCCACT-GAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGA-AAAAT
95759 A
63 A
**
95760 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTG-AGAAAAATA
* * * * * *
95824 TGCCACTGAGTCATGGACTTTG-AGAAGAGATTACCACTGAGTCATGGACTTTGAGAAGAGAT-
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAA-AAATA
95886 TGCCACTGAGTCGTGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
95912 GGTATTTGAA
Statistics
Matches: 336, Mismatches: 48, Indels: 47
0.78 0.11 0.11
Matches are distributed among these distances:
56 5 0.01
57 18 0.05
59 6 0.02
60 18 0.05
61 18 0.05
62 34 0.10
63 29 0.09
64 95 0.28
65 61 0.18
67 21 0.06
68 7 0.02
69 24 0.07
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAAAATA
Found at i:95864 original size:31 final size:31
Alignment explanation
Indices: 95575--95912 Score: 266
Period size: 32 Copynumber: 10.9 Consensus size: 31
95565 GGAAAAAGAG
* * *
95575 TGCCACGGAGTTGTGGACTTTGAAGAAAAGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
95606 TGCCACTGAGTCGTGGACTTTG-GAA-AGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
* * **
95635 ATGCCACTGAGTTGTGGGC-TT-A-AA-AGGG
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
* * ** * *
95663 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAG
1 TGCCACTGAGTCGTGGACTT-TGA-GAAGAGAT
* * *
95696 TGCCA-TGGAGTTGTGGGCTTTGCAGAAAAGGA-
1 TGCCACT-GAGTCGTGGACTTTG-AGAAGA-GAT
* *
95728 TGCCACTAAGTCGTGGACTTTGAGACA-AAAT
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
95759 ATGCCACTGAGTCGTGGACTTTGAAGAAAAGAA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
*
95792 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GAT
*
95824 TGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
* *
95855 TACCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
95886 TGCCACTGAGTCGTGGACTTTAAGAAG
1 TGCCACTGAGTCGTGGACTTTGAGAAG
95913 GTATTTGAAG
Statistics
Matches: 260, Mismatches: 27, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
27 16 0.06
28 8 0.03
29 5 0.02
30 20 0.08
31 83 0.32
32 97 0.37
33 31 0.12
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:96948 original size:15 final size:15
Alignment explanation
Indices: 96928--96981 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
96918 CTCATCGAGA
96928 TTTTCTATTTTGT-TT
1 TTTTCT-TTTTGTCTT
*
96943 TTTTCTTTTTCTCTT
1 TTTTCTTTTTGTCTT
*
96958 TTTT-TTTTTGTGTT
1 TTTTCTTTTTGTCTT
*
96972 GTTTCTTTTT
1 TTTTCTTTTT
96982 TGGAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 16 0.48
15 17 0.52
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTGTCTT
Found at i:96953 original size:21 final size:20
Alignment explanation
Indices: 96928--96966 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
96918 CTCATCGAGA
96928 TTTTCTATTTTGTTTTTTTCT
1 TTTTCTATTTT-TTTTTTTCT
*
96949 TTTTCTCTTTTTTTTTTT
1 TTTTCTATTTTTTTTTTT
96967 GTGTTGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTCTATTTTTTTTTTTCT
Found at i:97235 original size:12 final size:12
Alignment explanation
Indices: 97220--97255 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
97210 GCCTTTGCAC
97220 TTTTTTTGTGTT
1 TTTTTTTGTGTT
97232 TTTTTTTGT-TT
1 TTTTTTTGTGTT
97243 TGTTTTTTGTGTT
1 T-TTTTTTGTGTT
97256 CACTTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 17 0.77
13 2 0.09
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTGTT
Found at i:109232 original size:52 final size:52
Alignment explanation
Indices: 109082--109212 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
109072 CCCGAAATAT
* *
109082 GAAAATTTACCTGCATATATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
109134 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
*
109186 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
109213 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
Found at i:109239 original size:13 final size:13
Alignment explanation
Indices: 109221--109245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109211 CAAAGATCAG
109221 TGTATCGATACAA
1 TGTATCGATACAA
109234 TGTATCGATACA
1 TGTATCGATACA
109246 TTTGAATAAT
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:109330 original size:32 final size:32
Alignment explanation
Indices: 109286--109383 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
109276 AGTAGCTTAA
* * *
109286 ATTGTATTGATACAAAACTTATGTATCAATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
109318 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
109350 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
109383 A
1 A
109384 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:109357 original size:13 final size:13
Alignment explanation
Indices: 109307--109363 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
109297 ACAAAACTTA
*
109307 TGTATCAATACAT
1 TGTATCGATACAT
109320 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
109338 ATGTATCGATACAT
1 -TGTATCGATACAT
109352 TGTATCGATACA
1 TGTATCGATACA
109364 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:115114 original size:16 final size:16
Alignment explanation
Indices: 115081--115133 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
115071 ATTAATTTTT
*
115081 AATTATT-TATTAATAA
1 AATTATTATTTTAA-AA
115097 AATTATTATTTTAAAA
1 AATTATTATTTTAAAA
* *
115113 AATATATAATTTTAATA
1 AAT-TATTATTTTAAAA
115130 AATT
1 AATT
115134 TAGATTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTATTATTTTAAAA
Found at i:115603 original size:15 final size:15
Alignment explanation
Indices: 115579--115608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115569 ATACAACATT
*
115579 AAAATTATAAATATA
1 AAAATGATAAATATA
115594 AAAATGATAAATATA
1 AAAATGATAAATATA
115609 TATATATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAAATGATAAATATA
Found at i:118020 original size:16 final size:15
Alignment explanation
Indices: 117971--118053 Score: 55
Period size: 16 Copynumber: 5.5 Consensus size: 15
117961 AAATTTAATT
117971 ATTTAAA-T-AAATA
1 ATTTAAATTAAAATA
* ** *
117984 ATTTAAATTTATCTC
1 ATTTAAATTAAAATA
117999 ATTTAAATTCAAAATA
1 ATTTAAATT-AAAATA
118015 ATTTAAATTTTAAAA-A
1 ATTTAAA--TTAAAATA
* *
118031 AATTAAATTAAATTAA
1 ATTTAAATTAAAAT-A
118047 ATTTAAA
1 ATTTAAA
118054 ATTATACAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
13 7 0.13
14 6 0.11
15 11 0.21
16 23 0.43
17 4 0.08
18 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTTAAATTAAAATA
Found at i:123642 original size:2 final size:2
Alignment explanation
Indices: 123635--123670 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
123625 TTAGTCACAG
123635 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
123671 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:123675 original size:2 final size:2
Alignment explanation
Indices: 123670--123702 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
123660 TCTCTCTCTC
123670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123703 TTGATCAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124863 original size:13 final size:14
Alignment explanation
Indices: 124831--124863 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
124821 ATGCACATCT
*
124831 GAAAAAAGAAAGGA
1 GAAAAAAGAAAGAA
124845 GAAAAAAGAAAGAA
1 GAAAAAAGAAAGAA
124859 GAAAA
1 GAAAA
124864 GTAGTAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAGAA
Found at i:135348 original size:29 final size:29
Alignment explanation
Indices: 135300--135361 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
135290 AAGTTTGCTA
** *
135300 AAAAATCTTTAAATTTTTTAAAAATATAT
1 AAAAATCTTTAAATGATTTAAAAATACAT
*
135329 AAAAATCTTTACATGATTTAAAAATACAT
1 AAAAATCTTTAAATGATTTAAAAATACAT
135358 AAAA
1 AAAA
135362 TACCCTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATCTTTAAATGATTTAAAAATACAT
Found at i:138907 original size:2 final size:2
Alignment explanation
Indices: 138900--138933 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
138890 GTATAGGTGA
138900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138934 CACTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140745 original size:27 final size:27
Alignment explanation
Indices: 140702--140754 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
140692 TTTTTAATAA
*
140702 TATTCTTTTTTTAAATAAAAAATTATT
1 TATTATTTTTTTAAATAAAAAATTATT
*
140729 TATTATTTTATTT-AATAAAACATTAT
1 TATTATTTT-TTTAAATAAAAAATTAT
140755 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTATTTTTTTAAATAAAAAATTATT
Found at i:140760 original size:27 final size:27
Alignment explanation
Indices: 140707--140760 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
140697 AATAATATTC
**
140707 TTTTTTTAAATAAAAAATTATTTATTA
1 TTTTTTTAAATAAAAAATTATCAATTA
*
140734 TTTTATTT-AATAAAACATTATCAATTA
1 TTTT-TTTAAATAAAAAATTATCAATTA
140761 AAAAGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTTTTAAATAAAAAATTATCAATTA
Found at i:141372 original size:24 final size:24
Alignment explanation
Indices: 141339--141387 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
141329 TTAATTTAAA
*
141339 TTTAAGTTTTT-TCAATTTTAAATT
1 TTTAAGTTTTTATCAA-ATTAAATT
*
141363 TTTAATTTTTTATCAAATTAAATT
1 TTTAAGTTTTTATCAAATTAAATT
141387 T
1 T
141388 GAAGAGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTAAGTTTTTATCAAATTAAATT
Found at i:145964 original size:2 final size:2
Alignment explanation
Indices: 145957--145988 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
145947 AATTGTAATA
*
145957 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145989 CTAAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:153342 original size:21 final size:21
Alignment explanation
Indices: 153316--153359 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
153306 GACTAAATGG
*
153316 GTGATTTGGTGGTTTACCATT
1 GTGATTTGATGGTTTACCATT
153337 GTGATTTGATGGTTTACCATT
1 GTGATTTGATGGTTTACCATT
153358 GT
1 GT
153360 TAACTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.27, T:0.48
Consensus pattern (21 bp):
GTGATTTGATGGTTTACCATT
Found at i:153384 original size:34 final size:34
Alignment explanation
Indices: 153336--153504 Score: 221
Period size: 34 Copynumber: 5.0 Consensus size: 34
153326 GGTTTACCAT
* * *
153336 TGTGATTTGATGGTTTACCATTGTTAACTAAATA
1 TGTGATTTGGTGGTTTGCCATTGTTGACTAAATA
* *
153370 TGTGATTTGGTGGTTTGCTATTGTTAACTAAATA
1 TGTGATTTGGTGGTTTGCCATTGTTGACTAAATA
*
153404 TGTGATTTGGTGGTTTGCTATTGTTGACTAAATA
1 TGTGATTTGGTGGTTTGCCATTGTTGACTAAATA
* * * * * *
153438 GGTGATTTGATGGTTTGTCATTATTGATTAAATG
1 TGTGATTTGGTGGTTTGCCATTGTTGACTAAATA
*
153472 GGTGATTTGGTGGTTTGCCATTGTTGACTAAAT
1 TGTGATTTGGTGGTTTGCCATTGTTGACTAAAT
153505 GGCTAAAAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 120 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.46
Consensus pattern (34 bp):
TGTGATTTGGTGGTTTGCCATTGTTGACTAAATA
Found at i:153886 original size:19 final size:19
Alignment explanation
Indices: 153858--153894 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
153848 GGTTGTCGAG
*
153858 GCACTATTCACGTATACAT
1 GCACTATTCACATATACAT
*
153877 GCACTGTTCACATATACA
1 GCACTATTCACATATACA
153895 ATTACTATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (19 bp):
GCACTATTCACATATACAT
Found at i:157024 original size:1 final size:1
Alignment explanation
Indices: 157018--157082 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
157008 AAATCTTCAC
* * ** * * * *
157018 TTTTTTTTTTTGTTTTTTTTTTTTTCTTTTTCCTTTTTTTTTGTTTTGTTTTTTTCTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
157083 CCAATTGCCA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:157058 original size:31 final size:34
Alignment explanation
Indices: 157020--157084 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
157010 ATCTTCACTT
157020 TTTTTTTTTG-TTT-TTTTTTT-TTTCTTTTTCC
1 TTTTTTTTTGTTTTGTTTTTTTCTTTCTTTTTCC
157051 TTTTTTTTTGTTTTGTTTTTTTCTTTCTTTTTCC
1 TTTTTTTTTGTTTTGTTTTTTTCTTTCTTTTTCC
157085 AATTGCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 10 0.32
32 3 0.10
33 7 0.23
34 11 0.35
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.85
Consensus pattern (34 bp):
TTTTTTTTTGTTTTGTTTTTTTCTTTCTTTTTCC
Found at i:168342 original size:34 final size:34
Alignment explanation
Indices: 168299--168449 Score: 248
Period size: 34 Copynumber: 4.4 Consensus size: 34
168289 ATGTGGGAGA
* **
168299 ATTGTTGACTAAATGAGTGATTTAGTGGTTTATC
1 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
*
168333 ATTGTTGACTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
*
168367 ATTGTTGACTAAATAAGTGATTTGGTGGTTTGCC
1 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
*
168401 ATTGTTGATTAAATGAGTGATTTGGTGGTTTGCC
1 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
168435 ATTGTTGACTAAATG
1 ATTGTTGACTAAATG
168450 GCTAAAAGAT
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 108 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.42
Consensus pattern (34 bp):
ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
Found at i:170383 original size:209 final size:209
Alignment explanation
Indices: 170023--170446 Score: 830
Period size: 209 Copynumber: 2.0 Consensus size: 209
170013 CTTAGATGGA
170023 ATGTTAAGGGATTGGGTCAGCTTTAACATCCTATCATTACTAGGAACTCATCCGAACTCATAATA
1 ATGTTAAGGGATTGGGTCAGCTTTAACATCCTATCATTACTAGGAACTCATCCGAACTCATAATA
*
170088 ATAATCTTTTCTTCATTATAGAGTCAAAAGTCTCATTACATAAACGTTCGAATATTGCAAAGAAA
66 ATAATCTTTGCTTCATTATAGAGTCAAAAGTCTCATTACATAAACGTTCGAATATTGCAAAGAAA
170153 TGGGGCTTTTGTTTTATTGATGGAGTTACTAGTCTGGGCAAAATTGAAGGTTTATTGCTTATGTG
131 TGGGGCTTTTGTTTTATTGATGGAGTTACTAGTCTGGGCAAAATTGAAGGTTTATTGCTTATGTG
170218 GACTGATAATATTG
196 GACTGATAATATTG
170232 ATGTTAAGGGATTGGGTCAGCTTTAACATCCTATCATTACTAGGAACTCATCCGAACTCATAATA
1 ATGTTAAGGGATTGGGTCAGCTTTAACATCCTATCATTACTAGGAACTCATCCGAACTCATAATA
*
170297 ATAATCTTTGCTTCATTATAGAGTTAAAAGTCTCATTACATAAACGTTCGAATATTGCAAAGAAA
66 ATAATCTTTGCTTCATTATAGAGTCAAAAGTCTCATTACATAAACGTTCGAATATTGCAAAGAAA
170362 TGGGGCTTTTGTTTTATTGATGGAGTTACTAGTCTGGGCAAAATTGAAGGTTTATTGCTTATGTG
131 TGGGGCTTTTGTTTTATTGATGGAGTTACTAGTCTGGGCAAAATTGAAGGTTTATTGCTTATGTG
170427 GACTGATAATATTG
196 GACTGATAATATTG
170441 ATGTTA
1 ATGTTA
170447 TTGTTGTTTA
Statistics
Matches: 213, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 213 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (209 bp):
ATGTTAAGGGATTGGGTCAGCTTTAACATCCTATCATTACTAGGAACTCATCCGAACTCATAATA
ATAATCTTTGCTTCATTATAGAGTCAAAAGTCTCATTACATAAACGTTCGAATATTGCAAAGAAA
TGGGGCTTTTGTTTTATTGATGGAGTTACTAGTCTGGGCAAAATTGAAGGTTTATTGCTTATGTG
GACTGATAATATTG
Found at i:172918 original size:20 final size:20
Alignment explanation
Indices: 172893--172953 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
172883 CATTTATTTA
172893 TATCGATACATATCAAAATG
1 TATCGATACATATCAAAATG
*
172913 TATCGATACA-ATGCACAATG
1 TATCGATACATAT-CAAAATG
* *
172933 TATCGATGCATCTCAAAATG
1 TATCGATACATATCAAAATG
172953 T
1 T
172954 GTCAATACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.91
21 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (20 bp):
TATCGATACATATCAAAATG
Found at i:174933 original size:19 final size:19
Alignment explanation
Indices: 174909--174976 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
174899 AATTCAACAA
174909 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
174928 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
174943 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
174960 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
174977 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:174948 original size:13 final size:13
Alignment explanation
Indices: 174930--174954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174920 ACATAAGTTT
174930 TGTATCGATACAA
1 TGTATCGATACAA
174943 TGTATCGATACA
1 TGTATCGATACA
174955 TAAGTATTGT
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:174952 original size:32 final size:32
Alignment explanation
Indices: 174911--174973 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
174901 TTCAACAATT
*
174911 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
174943 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
174974 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:175034 original size:13 final size:13
Alignment explanation
Indices: 175016--175041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
175006 CATTTTTCTG
175016 TGTATCGATACAT
1 TGTATCGATACAT
175029 TGTATCGATACAT
1 TGTATCGATACAT
175042 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:175038 original size:33 final size:33
Alignment explanation
Indices: 174996--175062 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
174986 GCCAAGGAAA
***
174996 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
175029 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
175062 T
1 T
175063 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:177549 original size:28 final size:28
Alignment explanation
Indices: 177517--177588 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
177507 TCACAGTCGA
* * **
177517 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
177545 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
177573 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
177589 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:177691 original size:79 final size:79
Alignment explanation
Indices: 177542--177746 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
177532 GTTATTTCAT
* * * *
177542 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAACAT
* * *
177607 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** * *
177621 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAAGCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAACAT
177686 CGATTTCTCACAAC
66 CGATTTCTCACAAC
* * * * *
177700 CGGGGATACTCTAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
177747 TTATTATCTC
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 104 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAACAT
CGATTTCTCACAAC
Done.