Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 129 of 213
Found at i:37657415 original size:11 final size:11
Alignment explanation
Indices: 37657399--37657428 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
37657389 GTTTATCATC
37657399 TTTTTTATGTT
1 TTTTTTATGTT
37657410 TTTTTTATGTT
1 TTTTTTATGTT
37657421 TTTTTTAT
1 TTTTTTAT
37657429 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTATGTT
Found at i:37657434 original size:12 final size:11
Alignment explanation
Indices: 37657384--37657436 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
37657374 AATCATATTC
37657384 TTTTTGTTTATCA
1 TTTTT-TTTAT-A
* *
37657397 TCTTTTTTATG
1 TTTTTTTTATA
*
37657408 TTTTTTTTATG
1 TTTTTTTTATA
37657419 TTTTTTTTATAA
1 TTTTTTTTAT-A
37657431 TTTTTT
1 TTTTTT
37657437 AACATAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 20 0.57
12 11 0.31
13 4 0.11
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:37659402 original size:24 final size:24
Alignment explanation
Indices: 37659375--37659425 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
37659365 GGATAAAAGT
37659375 GGATATTGAGAGTATGAGAGGAAG
1 GGATATTGAGAGTATGAGAGGAAG
* *
37659399 GGATTTTGAGAGTATGAGCGGAAG
1 GGATATTGAGAGTATGAGAGGAAG
37659423 GGA
1 GGA
37659426 AGATAGACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.22
Consensus pattern (24 bp):
GGATATTGAGAGTATGAGAGGAAG
Found at i:37663347 original size:19 final size:19
Alignment explanation
Indices: 37663323--37663361 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37663313 GGGTGGGAAT
37663323 TTGGAAGACCAAAATTCTA
1 TTGGAAGACCAAAATTCTA
37663342 TTGGAAGACCAAAATTCTA
1 TTGGAAGACCAAAATTCTA
37663361 T
1 T
37663362 ATTTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
TTGGAAGACCAAAATTCTA
Found at i:37671162 original size:101 final size:101
Alignment explanation
Indices: 37670987--37671189 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
37670977 AAATTTTTGT
37670987 TAATGTCAGATAAAGATAACTAATTTTTCCTAAACCTCACAAGGATACAAGGCTGTTTATTTACT
1 TAATGTCAGATAAAGATAACTAATTTTTCCTAAACCTCACAAGGATACAAGGCTGTTTATTTACT
37671052 AGGGCTCTCTGCACATCTTTTTTTGTTGCCTTCAAA
66 AGGGCTCTCTGCACATCTTTTTTTGTTGCCTTCAAA
37671088 TAATGTCAGATAAAGATAACTAATTTTTCCTAAACCTCACAAGGATACAAGGCTGTTTATTTACT
1 TAATGTCAGATAAAGATAACTAATTTTTCCTAAACCTCACAAGGATACAAGGCTGTTTATTTACT
37671153 AGGGCTCTCTGCACATCTTTTTTTGTTGCCTTCAAA
66 AGGGCTCTCTGCACATCTTTTTTTGTTGCCTTCAAA
37671189 T
1 T
37671190 TTTTTTCTCT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (101 bp):
TAATGTCAGATAAAGATAACTAATTTTTCCTAAACCTCACAAGGATACAAGGCTGTTTATTTACT
AGGGCTCTCTGCACATCTTTTTTTGTTGCCTTCAAA
Found at i:37676528 original size:18 final size:18
Alignment explanation
Indices: 37676505--37676541 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37676495 TTTAAAAATA
37676505 CAACCTAAAATCATTCCC
1 CAACCTAAAATCATTCCC
37676523 CAACCTAAAATCATTCCC
1 CAACCTAAAATCATTCCC
37676541 C
1 C
37676542 CTTACAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (18 bp):
CAACCTAAAATCATTCCC
Found at i:37677738 original size:13 final size:13
Alignment explanation
Indices: 37677720--37677753 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
37677710 TGCAAATTAG
37677720 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
37677733 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
*
37677746 GAAAAGAA
1 AAAAAGAA
37677754 GAAGAGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:37677751 original size:9 final size:9
Alignment explanation
Indices: 37677721--37677753 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
37677711 GCAAATTAGA
37677721 AAAAGAAAG
1 AAAAGAAAG
*
37677730 AAAAAAAAG
1 AAAAGAAAG
37677739 -AAAGAAAG
1 AAAAGAAAG
37677747 AAAAGAA
1 AAAAGAA
37677754 GAAGAGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:37678917 original size:42 final size:44
Alignment explanation
Indices: 37678851--37678938 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
37678841 TATGTGATTG
*
37678851 ATATTGAAATGGCCAAGATGAGAAATG-AATATGAGATGAT-AA
1 ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
* * * * *
37678893 ATATTGAATTGGCTAATATTAGAAATGCGATATGAAATGATGAA
1 ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
37678937 AT
1 AT
37678939 GAGATGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 23 0.61
43 11 0.29
44 4 0.11
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (44 bp):
ATATTGAAATGGCCAAGATGAGAAATGCAATATGAAATGATGAA
Found at i:37681696 original size:20 final size:20
Alignment explanation
Indices: 37681653--37681696 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
37681643 TGTTGTTTTG
* * *
37681653 GTATTGATACCTATGTGCTA
1 GTATCGATACCTACGTACTA
*
37681673 GTATCGATACCTACGTACTT
1 GTATCGATACCTACGTACTA
37681693 GTAT
1 GTAT
37681697 TGGAAATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
GTATCGATACCTACGTACTA
Found at i:37683649 original size:22 final size:24
Alignment explanation
Indices: 37683599--37683649 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
37683589 TGAGCTAAGT
*
37683599 AAAAAAATAATATTTTTAAATAATT
1 AAAAAAATAATATTTTT-AATAATG
37683624 AAAAAAATAATATTTTT-A-AATG
1 AAAAAAATAATATTTTTAATAATG
37683646 AAAA
1 AAAA
37683650 TATTGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 1 0.04
25 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAAAATAATATTTTTAATAATG
Found at i:37688481 original size:12 final size:12
Alignment explanation
Indices: 37688464--37688495 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37688454 CTTGTGTTTG
37688464 ATGTTTAGTTGA
1 ATGTTTAGTTGA
37688476 ATGTTTAGTTGA
1 ATGTTTAGTTGA
*
37688488 ATGCTTAG
1 ATGTTTAG
37688496 ATGTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (12 bp):
ATGTTTAGTTGA
Found at i:37690679 original size:22 final size:24
Alignment explanation
Indices: 37690630--37690680 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
37690620 TAAATTGCAA
*
37690630 ACTTTGAATCAACTAGGAAAAAACAC
1 ACTTTCAATCAACTAGG--AAAACAC
37690656 ACTTTCAATCAACTAGGAAAACAC
1 ACTTTCAATCAACTAGGAAAACAC
37690680 A
1 A
37690681 AAACAAGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (24 bp):
ACTTTCAATCAACTAGGAAAACAC
Found at i:37692638 original size:30 final size:30
Alignment explanation
Indices: 37692592--37692650 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
37692582 TCTGAGCTTT
37692592 GGGGAAAAAGTGTAATTATGCAAAAGTTTA
1 GGGGAAAAAGTGTAATTATGCAAAAGTTTA
* * * *
37692622 GGGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGGAAAAAGTGTAATTATGCAAAAGTTT
37692651 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
GGGGAAAAAGTGTAATTATGCAAAAGTTTA
Found at i:37693390 original size:12 final size:12
Alignment explanation
Indices: 37693373--37693422 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
37693363 ATGAGTTATT
37693373 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
37693385 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
37693397 TAAGTGAGTAAG
1 TAAGTAAGCAAG
*
37693409 TAAG-AAGCGAG
1 TAAGTAAGCAAG
37693420 TAA
1 TAA
37693423 AGATTCTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.50, C:0.06, G:0.26, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:37700044 original size:50 final size:51
Alignment explanation
Indices: 37699981--37700088 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 51
37699971 GCAGATAAAT
* * * **
37699981 TGCCAC-TGATAACACTTTGT-GCACAAACCACCACTGGTATGTAGGTATAC
1 TGCCACTTGATAACACTTTATAG-ACAAACCACCACTGATATGAAAATATAC
* * *
37700031 TGCCACTTG-TAACATTTTATAGACCAACCATCACTGATATGAAAATATAC
1 TGCCACTTGATAACACTTTATAGACAAACCACCACTGATATGAAAATATAC
37700081 TGCCACTT
1 TGCCACTT
37700089 ACTTCCATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
50 45 0.94
51 3 0.06
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (51 bp):
TGCCACTTGATAACACTTTATAGACAAACCACCACTGATATGAAAATATAC
Found at i:37703474 original size:12 final size:12
Alignment explanation
Indices: 37703441--37703475 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
37703431 TGAGACAAGA
37703441 TATTCTTTAAAT
1 TATTCTTTAAAT
*
37703453 TACTCTTTTAAAT
1 TATTC-TTTAAAT
37703466 TATTCTTTAA
1 TATTCTTTAA
37703476 GTAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:37703620 original size:21 final size:23
Alignment explanation
Indices: 37703573--37703620 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
37703563 AAAGTAGGCT
* *
37703573 ATATATTATTTTTTTGTAATATT
1 ATATATTATTTTTATGTAATATC
37703596 ATATATTATTTTTAT-TAAT-TC
1 ATATATTATTTTTATGTAATATC
37703617 ATAT
1 ATAT
37703621 TTTAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 4 0.17
23 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATATTATTTTTATGTAATATC
Found at i:37703673 original size:21 final size:21
Alignment explanation
Indices: 37703572--37703738 Score: 77
Period size: 21 Copynumber: 8.2 Consensus size: 21
37703562 TAAAGTAGGC
* *
37703572 TATATATTATTTTTTTGTAATAT
1 TATATATTATTATTAT-TAA-AT
*
37703595 TATATATTATTTTTATT-AAT
1 TATATATTATTATTATTAAAT
* * * *
37703615 TCATATTTTAATAATTGTTATAT
1 T-ATATATT-ATTATTATTAAAT
*
37703638 TA-AGA--A-TATTATTAAAT
1 TATATATTATTATTATTAAAT
*
37703655 TATATATTATTATTGTTAAAT
1 TATATATTATTATTATTAAAT
*
37703676 TATAT-TTA--A-TAATAAAT
1 TATATATTATTATTATTAAAT
* * **
37703693 T-TAT-TAAAATATGGTTAAAT
1 TATATAT-TATTATTATTAAAT
*
37703713 TATTTATTATTATTATTAAAT
1 TATATATTATTATTATTAAAT
37703734 TATAT
1 TATAT
37703739 TTAATAATAA
Statistics
Matches: 106, Mismatches: 25, Indels: 28
0.67 0.16 0.18
Matches are distributed among these distances:
16 4 0.04
17 18 0.17
18 4 0.04
19 1 0.01
20 13 0.12
21 39 0.37
22 9 0.08
23 18 0.17
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (21 bp):
TATATATTATTATTATTAAAT
Found at i:37703714 original size:58 final size:60
Alignment explanation
Indices: 37703593--37703748 Score: 203
Period size: 58 Copynumber: 2.6 Consensus size: 60
37703583 TTTTTGTAAT
* ** *
37703593 ATTATATATTATTTTTATT-AATTCATATTTTAATAAT-TGTTATATTAAGAATATTATTAA
1 ATTATATATTATTATTATTAAATT-ATA-TTTAATAATAAATTATATTAAGAATATGATTAA
* *
37703653 ATTATATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAA-AATATGGTTAA
1 ATTATATATTATTATTATTAAATTATATTTAATAATAAATTATATTAAGAATATGATTAA
*
37703711 ATTATTTATTATTATTATTAAATTATATTTAATAATAA
1 ATTATATATTATTATTATTAAATTATATTTAATAATAA
37703749 TCCTATTAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
58 45 0.52
59 15 0.17
60 22 0.26
61 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (60 bp):
ATTATATATTATTATTATTAAATTATATTTAATAATAAATTATATTAAGAATATGATTAA
Found at i:37703940 original size:16 final size:16
Alignment explanation
Indices: 37703919--37703956 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37703909 AATTGAATTG
37703919 CTATTACAGTTCTATT
1 CTATTACAGTTCTATT
*
37703935 CTATTACAGTTTTATT
1 CTATTACAGTTCTATT
*
37703951 CCATTA
1 CTATTA
37703957 TAGTGAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:37714103 original size:28 final size:28
Alignment explanation
Indices: 37714050--37714104 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
37714040 AACCCACTGG
*
37714050 ATATTTTTTTAAATTTTTATTGGATTTC
1 ATATTTTTTTAAATTTTTACTGGATTTC
* *
37714078 ATATTTTTTTGATTTTTTGACT-GATTT
1 ATATTTTTTTAAATTTTT-ACTGGATTT
37714105 TTTTGCGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (28 bp):
ATATTTTTTTAAATTTTTACTGGATTTC
Found at i:37720599 original size:30 final size:29
Alignment explanation
Indices: 37720556--37720612 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
37720546 TCGAGCTTTG
37720556 GGGAAAAAGTATAACTATGCAAAAGTTTA
1 GGGAAAAAGTATAACTATGCAAAAGTTTA
* * *
37720585 GGGACAAAATTATAATTTTGCAAAAGTT
1 GGGA-AAAAGTATAACTATGCAAAAGTT
37720613 CGAGTCAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (29 bp):
GGGAAAAAGTATAACTATGCAAAAGTTTA
Found at i:37721070 original size:50 final size:49
Alignment explanation
Indices: 37720960--37721138 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
37720950 TTATGAGAGG
* * * * **
37720960 TCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACCGAGATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAAC
** * * *
37721010 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGTAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATGAGAAC
* * * * *
37721060 TCTCATGTAAGACCATATCTGGGATATGGCATTTGCA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATGAGAAC
37721108 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
37721139 TTTCGCATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 31 0.30
50 69 0.67
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATGAGAAC
Found at i:37725804 original size:40 final size:40
Alignment explanation
Indices: 37725759--37725835 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
37725749 AGCTTTTGGG
37725759 CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
1 CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
37725799 CAATATATTTTAAGTCATGGTAACTTTATAAAAACAT
1 CAATATATTTTAAGTCATGGTAACTTTATAAAAACAT
37725836 ATTATTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (40 bp):
CAATATATTTTAAGTCATGGTAACTTTATAAAAACATGAT
Found at i:37725936 original size:31 final size:31
Alignment explanation
Indices: 37725894--37725985 Score: 96
Period size: 35 Copynumber: 2.7 Consensus size: 31
37725884 GTCATGGTAA
37725894 CTTT-AATACATGATCAATATATTTAAAACT
1 CTTTAAATACATGATCAATATATTTAAAACT
*
37725924 CTTTAAATACATGAAACATATTATAATTTAAAACT
1 CTTTAAATACATG-ATCA-A-TAT-ATTTAAAACT
37725959 CTTTATAAATACATATGATCAATATAT
1 C-TT-TAAATAC--ATGATCAATATAT
37725986 GTACGTATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
30 4 0.08
31 8 0.16
32 3 0.06
33 1 0.02
34 3 0.06
35 13 0.25
36 5 0.10
37 8 0.16
38 3 0.06
39 3 0.06
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (31 bp):
CTTTAAATACATGATCAATATATTTAAAACT
Found at i:37729084 original size:14 final size:14
Alignment explanation
Indices: 37729061--37729100 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37729051 ACAGAAAAGT
*
37729061 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
37729075 AAATCATTTTACGG
1 AAAACATTTTACAG
37729089 AAAACATTTTAC
1 AAAACATTTTAC
37729101 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:37729086 original size:34 final size:35
Alignment explanation
Indices: 37729026--37729092 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
37729016 CAAACACCAA
* **
37729026 AAAATATTTTCCAGTATGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37729061 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37729093 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37736832 original size:49 final size:49
Alignment explanation
Indices: 37736737--37736866 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
37736727 TATTGAGGTT
*
37736737 ATGAGAGGTCCACGTAAGACCATGTCTGGGACATGGCATTGACACCGAG
1 ATGAGAGGTCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
* * * *
37736786 ATGAGAGGTCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
** * *
37736835 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTC-CACGTAAGACCATGTCTGGGA
37736867 TATGACATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 52 0.75
50 17 0.25
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCACGTAAGACCATGTCTGGGACATGGCATGGACACCGAG
Found at i:37737155 original size:20 final size:20
Alignment explanation
Indices: 37737130--37737179 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
37737120 TGAGTTATTT
37737130 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
37737150 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
*
37737170 AAGAAAGCAA
1 AAGTAAGCAA
37737180 AGACCATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.58, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:37756440 original size:40 final size:40
Alignment explanation
Indices: 37756409--37756618 Score: 262
Period size: 40 Copynumber: 5.3 Consensus size: 40
37756399 GGACTAAGAT
* * *
37756409 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATATTAAA-TCCGGGTTAAGTC
* *
37756449 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* *
37756489 CCGAAGGCATTCATGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* *
37756529 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* * * * * *
37756569 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
37756608 CCGAAGGCATT
1 CCGAAGGCATT
37756619 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 35 0.22
40 118 0.76
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
Found at i:37756638 original size:79 final size:80
Alignment explanation
Indices: 37756357--37756653 Score: 212
Period size: 80 Copynumber: 3.7 Consensus size: 80
37756347 TGAATGCTGT
* ** * * **
37756357 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGAATAAATCCGGGTTAAG-TCCCGAAGGCATT
** * *
37756420 TGTGCGAGATAC-AAATT
64 CATGCGAGTTACTAAA-A
* * * * ** *
37756437 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGAATAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
37756501 ATGCGAGTTATTAAAT
65 ATGCGAGTTACTAAAA
* ** * * * *
37756517 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGAATAAATCCGGGTTAAGTCCCGAAGGCATTCA
*
37756581 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
37756596 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGATATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-ATAAATCCGGGTTAAGTCCCGAAGG
37756654 TACGTGATTT
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 15 0.08
79 46 0.25
80 110 0.60
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGAATAAATCCGGGTTAAGTCCCGAAGGCATTCA
TGCGAGTTACTAAAA
Found at i:37764003 original size:40 final size:40
Alignment explanation
Indices: 37763972--37764181 Score: 271
Period size: 40 Copynumber: 5.3 Consensus size: 40
37763962 GGACTAAGAT
* * *
37763972 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATATTAAA-TCCGGGTTAAGTC
* *
37764012 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
*
37764052 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* *
37764092 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* * * * * *
37764132 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
37764171 CCGAAGGCATT
1 CCGAAGGCATT
37764182 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.22
40 120 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
Found at i:37764135 original size:120 final size:120
Alignment explanation
Indices: 37763919--37764181 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
37763909 TTGAATGCTG
* *
37763919 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* * *
37763983 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
37764039 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
37764102 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
37764158 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37764182 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 37 0.31
120 74 0.62
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:37770076 original size:13 final size:13
Alignment explanation
Indices: 37770058--37770084 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37770048 ACCTAAGACA
37770058 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
37770071 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
37770084 T
1 T
37770085 AGTCGTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.44, T:0.33
Consensus pattern (13 bp):
TGGGCGTGTGCCT
Found at i:37770091 original size:13 final size:13
Alignment explanation
Indices: 37770060--37770093 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37770050 CTAAGACATG
*
37770060 GGCGTGTGCCTTG
1 GGCGTGTGCCTTA
37770073 GGCGTGTGCCTTA
1 GGCGTGTGCCTTA
*
37770086 GTCGTGTG
1 GGCGTGTG
37770094 AGGCACACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.44, T:0.32
Consensus pattern (13 bp):
GGCGTGTGCCTTA
Found at i:37772835 original size:17 final size:17
Alignment explanation
Indices: 37772815--37772847 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37772805 ATCTTGCATA
37772815 ACAAGGAAATTTGCAAT
1 ACAAGGAAATTTGCAAT
37772832 ACAAGGAAATTTGCAA
1 ACAAGGAAATTTGCAA
37772848 AGAAGAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (17 bp):
ACAAGGAAATTTGCAAT
Found at i:37790268 original size:36 final size:35
Alignment explanation
Indices: 37790227--37790297 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
37790217 TTTTATTATA
* *
37790227 AATATAATATTAATTATTATTTAATATTAAATAATT
1 AATATAATATTAAGTATTATATAAT-TTAAATAATT
* * *
37790263 AATATATTTTTTAGTATTATATAATTTAAATAATT
1 AATATAATATTAAGTATTATATAATTTAAATAATT
37790298 TTTAATATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 10 0.33
36 20 0.67
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (35 bp):
AATATAATATTAAGTATTATATAATTTAAATAATT
Found at i:37790280 original size:26 final size:26
Alignment explanation
Indices: 37790235--37790315 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
37790225 TAAATATAAT
*
37790235 ATTAAT-TATTATTTAATATTAAATA
1 ATTAATATATTTTTTAATATTAAATA
* *
37790260 ATTAATATATTTTTTAGTATTATATA
1 ATTAATATATTTTTTAATATTAAATA
* *
37790286 ATTTAA-ATAATTTTTAATATGAATATA
1 A-TTAATATATTTTTTAATATTAA-ATA
37790313 ATT
1 ATT
37790316 TTAATAACTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 6 0.13
26 32 0.70
27 8 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATATATTTTTTAATATTAAATA
Found at i:37790299 original size:27 final size:26
Alignment explanation
Indices: 37790228--37790379 Score: 100
Period size: 27 Copynumber: 5.8 Consensus size: 26
37790218 TTTATTATAA
* *
37790228 ATATAATATTAATTATTATTTAATATT
1 ATATAAT-TTAATAATTTTTTAATATT
* *
37790255 AAATAA-TTAATATATTTTTTAGTATT
1 ATATAATTTAATA-ATTTTTTAATATT
*
37790281 ATATAATTTAAATAA-TTTTTAATATGA
1 ATATAATTT-AATAATTTTTTAATAT-T
*
37790308 ATATAATTTTAATAA-CTTTTAACTATT
1 ATATAA-TTTAATAATTTTTTAA-TATT
* * *
37790335 ATTTAATTT--T-ATTATTTAATATAG
1 ATATAATTTAATAATTTTTTAATAT-T
* *
37790359 ATATGATTTAATAAATTTTTA
1 ATATAATTTAATAATTTTTTA
37790380 TTTTTATTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 22
0.71 0.12 0.16
Matches are distributed among these distances:
23 4 0.04
24 13 0.13
25 5 0.05
26 29 0.30
27 36 0.37
28 10 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (26 bp):
ATATAATTTAATAATTTTTTAATATT
Found at i:37791766 original size:20 final size:20
Alignment explanation
Indices: 37791743--37791785 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37791733 AACTATTCAA
** *
37791743 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
37791763 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
37791783 ATA
1 ATA
37791786 CGTTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:37798974 original size:28 final size:28
Alignment explanation
Indices: 37798911--37799092 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
37798901 ATATTAAGTC
*
37798911 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
37798938 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
37798966 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
37798994 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
37799022 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37799050 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
37799079 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37799093 CAATCTCATG
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 104 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37804924 original size:37 final size:37
Alignment explanation
Indices: 37804874--37804952 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37804864 TTATTACGAA
* * *
37804874 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
37804911 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37804948 GTCTT
1 GTCTT
37804953 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37805142 original size:47 final size:47
Alignment explanation
Indices: 37805071--37805389 Score: 478
Period size: 47 Copynumber: 6.7 Consensus size: 47
37805061 CCCTTCGGGA
* * * * * *
37805071 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37805118 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37805165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37805212 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37805259 CTTCTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37805306 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37805355 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
37805390 AGAATCCTAA
Statistics
Matches: 254, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 207 0.81
49 46 0.18
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37805149 original size:25 final size:25
Alignment explanation
Indices: 37805121--37805199 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37805111 ACTCGGCCCT
37805121 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37805146 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37805168 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37805193 ATCACAT
1 ATCACAT
37805200 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37809304 original size:40 final size:40
Alignment explanation
Indices: 37809231--37809450 Score: 198
Period size: 40 Copynumber: 5.5 Consensus size: 40
37809221 AGCATGATTA
* * *
37809231 CTCTTCGG-ACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATG
* *** *
37809270 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATG
*
37809310 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATG
* * * * *
37809350 CTCCTC-GAGACTTAGCCCGGATTTAGTAACTTGCACCAATG
1 CTCTTCGGA-ACTTAGCCCGGATATA-TCACTAGCACGAATG
* * * *
37809391 C-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAATG
*
37809431 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGAACTTAGCCCGGA
37809451 CATCATTCGA
Statistics
Matches: 145, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
39 9 0.06
40 116 0.80
41 20 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:37809799 original size:29 final size:29
Alignment explanation
Indices: 37809760--37809838 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
37809750 CTTAATAATC
*
37809760 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
37809790 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
37809819 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37809839 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:37809881 original size:43 final size:43
Alignment explanation
Indices: 37809820--37810008 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
37809810 TGCATTTCAA
37809820 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
37809863 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
37809906 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
37809949 GCCCGCACATTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
37809992 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
37810009 TGAAAACCAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:37811938 original size:35 final size:37
Alignment explanation
Indices: 37811867--37811943 Score: 122
Period size: 35 Copynumber: 2.1 Consensus size: 37
37811857 TTATTACGAA
*
37811867 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
*
37811904 GTCTTACCCGGACA-AATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
37811939 GTCTT
1 GTCTT
37811944 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 20 0.53
36 4 0.11
37 14 0.37
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
Found at i:37812138 original size:25 final size:25
Alignment explanation
Indices: 37812110--37812188 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
37812100 ACTCGACCCT
37812110 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
37812135 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
37812157 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37812182 ATCACAT
1 ATCACAT
37812189 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37812281 original size:49 final size:47
Alignment explanation
Indices: 37812060--37812331 Score: 375
Period size: 47 Copynumber: 5.7 Consensus size: 47
37812050 CCCTTCGGGA
* * * * * * *
37812060 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37812107 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37812154 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37812201 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37812248 CTTATCACATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37812297 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
37812332 AGAATCCTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 160 0.78
49 45 0.22
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37815089 original size:39 final size:39
Alignment explanation
Indices: 37815030--37815106 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
37815020 GTCACAGGGA
* *
37815030 CTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG
1 CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGG
*
37815069 CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
1 CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
37815107 ATCTTAGTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGG
Found at i:37820546 original size:14 final size:15
Alignment explanation
Indices: 37820519--37820547 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37820509 AAAATATAAA
37820519 AATAAAAATAAAACT
1 AATAAAAATAAAACT
37820534 AATAAAAA-AAAACT
1 AATAAAAATAAAACT
37820548 TTGCGGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAATAAAACT
Found at i:37820931 original size:27 final size:26
Alignment explanation
Indices: 37820883--37820942 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
37820873 GCGAGGCTGC
*
37820883 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
37820910 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
37820936 CAGATAT
1 CAGATAT
37820943 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37821639 original size:26 final size:27
Alignment explanation
Indices: 37821596--37821743 Score: 155
Period size: 26 Copynumber: 5.7 Consensus size: 27
37821586 TGCCCCACAA
* * * *
37821596 GGGTATCTCAGTAATTCTGTCCTATAG
1 GGGTATTTCGGTAATTCTATCCTACAG
* * *
37821623 GGGTATTT-GGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTATCCTACAG
*
37821649 GGGTATTTCAGTAATTCTAT-CTACAG
1 GGGTATTTCGGTAATTCTATCCTACAG
*
37821675 GGGTATTTCGGTAATTCTACCCTACA-
1 GGGTATTTCGGTAATTCTATCCTACAG
* *
37821701 GGGTATTTC-ATAATTCTACCCT--AG
1 GGGTATTTCGGTAATTCTATCCTACAG
37821725 GGGTATTTCGGTAATTCTA
1 GGGTATTTCGGTAATTCTA
37821744 CAACTTATCC
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.01
24 9 0.09
25 20 0.20
26 52 0.51
27 20 0.20
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTATCCTACAG
Found at i:37821649 original size:53 final size:53
Alignment explanation
Indices: 37821578--37821744 Score: 209
Period size: 53 Copynumber: 3.2 Consensus size: 53
37821568 GGGGCAAAAT
* * * *
37821578 GGTAATTTTGCCCCACAAGGGTATCTCAGTAATTCTGTCCTATAGGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT-TCCTATAGGGGTATTTC
* *
37821631 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTAT-CTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT-TCCTATAGGGGTATTTC
* *
37821684 GGTAATTCTACCCTAC-AGGGTATTTCA-TAATTCTACC-CTAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTTCCTATAGGGGTATTTC
37821734 GGTAATTCTAC
1 GGTAATTCTAC
37821745 AACTTATCCA
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 22 0.22
51 8 0.08
52 24 0.24
53 47 0.47
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTTCCTATAGGGGTATTTC
Found at i:37834872 original size:18 final size:17
Alignment explanation
Indices: 37834827--37834932 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
37834817 AAAGCTTCCA
*
37834827 TTTTAGAAAACTTCCAT
1 TTTTAGAAAACTTTCAT
**
37834844 TCCTA-AAAACTTTCTAT
1 TTTTAGAAAACTTTC-AT
* *
37834861 TTTTTGAAAACTTATTAT
1 TTTTAGAAAACTT-TCAT
* **
37834879 TTTTAGTAATTTTTCAT
1 TTTTAGAAAACTTTCAT
* *
37834896 TTTT-GGAAACTTTAAT
1 TTTTAGAAAACTTTCAT
37834912 TTTTAGAAAACTTTCAT
1 TTTTAGAAAACTTTCAT
37834929 TTTT
1 TTTT
37834933 CGTCATTTTC
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
16 20 0.30
17 28 0.42
18 18 0.27
19 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTTAGAAAACTTTCAT
Found at i:37838958 original size:15 final size:15
Alignment explanation
Indices: 37838938--37838968 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37838928 AATAAAACGT
37838938 TGGTTTAATGATAAA
1 TGGTTTAATGATAAA
37838953 TGGTTTAATGATAAA
1 TGGTTTAATGATAAA
37838968 T
1 T
37838969 TTAATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (15 bp):
TGGTTTAATGATAAA
Found at i:37843936 original size:16 final size:16
Alignment explanation
Indices: 37843906--37843947 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
37843896 AATGTCAAGC
*
37843906 TCAATCATAG-TCAAA
1 TCAATCATAGAGCAAA
37843921 -CATATCATAGAGCAAA
1 TCA-ATCATAGAGCAAA
37843937 TCAATCATAGA
1 TCAATCATAGA
37843948 TAACATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 7 0.30
16 12 0.52
17 2 0.09
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (16 bp):
TCAATCATAGAGCAAA
Found at i:37844023 original size:27 final size:26
Alignment explanation
Indices: 37843993--37844452 Score: 409
Period size: 27 Copynumber: 17.1 Consensus size: 26
37843983 GGGTATAATA
37843993 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* * *
37844020 GTCATTTTACCTTGTGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* ** * *
37844047 GTCATTCTACTTTAAGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
*
37844074 ATCATTTTA-CCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37844100 GTCAATTTACCTTATAAGGGGTATTTTG
1 GTCATTTTACCCTAT--GGGGTATTTCG
*
37844128 GTCATTTTACCCTATGCGGGTATTTTG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
37844155 GTCATTTTATCCTACGGGAGTATTTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* * * *
37844182 GTCATTATACCGTAGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGTATTTCG
*
37844208 GTCATTATACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
37844235 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37844262 GTCATTTTATCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
*
37844289 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
37844316 ATCATTTTACCCTATGGATGTATTTCA
1 GTCATTTTACCCTATGG-GGTATTTCG
* *
37844343 GTCGTTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
37844370 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*** * *
37844397 GTCATTTTATGTTTTAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
37844424 ATTATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
37844451 GT
1 GT
37844453 GCAAATATCA
Statistics
Matches: 352, Mismatches: 68, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 46 0.13
27 275 0.78
28 31 0.09
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:37844121 original size:81 final size:80
Alignment explanation
Indices: 37843994--37844405 Score: 463
Period size: 81 Copynumber: 5.1 Consensus size: 80
37843984 GGTATAATAG
* * **
37843994 TCATTTTACCCTATGGGGATATTTCGGTCATTTTACCTTGTGGGGGTATTTCAGTCATTCTACTT
1 TCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCTTATAGGGGTATTTCAGTCATTCTACCC
* * *
37844059 TAAGAGGGTATTTCAA
65 TATGGGGGTATTTCGA
* ** *
37844075 TCATTTTA-CCTATAGGGGTATTTCGGTCAATTTACCTTATAAGGGGTATTTTGGTCATTTTACC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCTTAT-AGGGGTATTTCAGTCATTCTACC
* * *
37844139 CTATGCGGGTATTTTGG
64 CTATGGGGGTATTTCGA
* * * * * *
37844156 TCATTTTATCCTACGGGAGTATTTCGGTCATTATACCGTA-GGGGGTATTTCAGTCATTATACCC
1 TCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCTTATAGGGGTATTTCAGTCATTCTACCC
*
37844220 TATGGGGGTATTTCGG
65 TATGGGGGTATTTCGA
* *
37844236 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTATCTTAT-GAGGGTATTTCAGTCATTCTACC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCTTATAG-GGGTATTTCAGTCATTCTACC
37844300 CTATGGGGGTATTTCGA
64 CTATGGGGGTATTTCGA
* * * *
37844317 TCATTTTACCCTATGGATGTATTTCAGTCGTTTTACCTTATAGGGGTATTTC-GATCATTTTACC
1 TCATTTTACCCTATGG-GGTATTTCGGTCATTTTACCTTATAGGGGTATTTCAG-TCATTCTACC
* *
37844381 CTATGGGGGTATTTTGG
64 CTATGGGGGTATTTCGA
37844398 TCATTTTA
1 TCATTTTA
37844406 TGTTTTAGGG
Statistics
Matches: 282, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
80 93 0.33
81 165 0.59
82 24 0.09
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCTTATAGGGGTATTTCAGTCATTCTACCCT
ATGGGGGTATTTCGA
Found at i:37844420 original size:81 final size:81
Alignment explanation
Indices: 37843993--37844450 Score: 450
Period size: 81 Copynumber: 5.7 Consensus size: 81
37843983 GGGTATAATA
* * *
37843993 GTCATTTTACCCTAT-GGGGATATTTCGGTCATTTTACCTTGTGGGGGTATTTC-AGTCATTCTA
1 GTCATTTTACCTTATAGGGG-TATTTCGGTCATTTTACCTTAT-GGGGTATTTCGAGTCATTTTA
** * * *
37844056 CTTTAAGAGGGTATTTCA
64 CCCTATGGGGGTATTTCG
* * *
37844074 ATCATTTTACC-TATAGGGGTATTTCGGTCAATTTACCTTATAAGGGGTATTTTG-GTCATTTTA
1 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCTTAT--GGGGTATTTCGAGTCATTTTA
* *
37844137 CCCTATGCGGGTATTTTG
64 CCCTATGGGGGTATTTCG
* * * * *
37844155 GTCATTTTATCC-TA-CGGGAGTATTTCGGTCATTATACCGTAGGGGGTATTTC-AGTCATTATA
1 GTCATTTTA-CCTTATAGGG-GTATTTCGGTCATTTTACCTTATGGGGTATTTCGAGTCATTTTA
37844217 CCCTATGGGGGTATTTCG
64 CCCTATGGGGGTATTTCG
* * *
37844235 GTCATTTTACCTTATGGGGGTATTTCGGTCATTTTATCTTATGAGGGTATTTC-AGTCATTCTAC
1 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCTTATG-GGGTATTTCGAGTCATTTTAC
37844299 CCTATGGGGGTATTTCG
65 CCTATGGGGGTATTTCG
* * * * *
37844316 ATCATTTTACCCTAT-GGATGTATTTCAGTCGTTTTACCTTATAGGGGTATTTCGA-TCATTTTA
1 GTCATTTTACCTTATAGG-GGTATTTCGGTCATTTTACCTTAT-GGGGTATTTCGAGTCATTTTA
*
37844379 CCCTATGGGGGTATTTTG
64 CCCTATGGGGGTATTTCG
** * ** * *
37844397 GTCATTTTATGTTTTAGGGGTATTTCAATTATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCTTATG-GGGTATTTCG
37844451 GTGCAAATAT
Statistics
Matches: 317, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 90 0.28
81 198 0.62
82 27 0.09
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCTTATGGGGTATTTCGAGTCATTTTACC
CTATGGGGGTATTTCG
Found at i:37847356 original size:27 final size:27
Alignment explanation
Indices: 37847336--37847926 Score: 641
Period size: 27 Copynumber: 22.0 Consensus size: 27
37847326 GGGTATAACA
37847336 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37847363 GTCATTTTACCCTATGGGGGTTTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** * *
37847390 GTTATCCTACCCTATAGCGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37847417 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37847443 GTCATTTTACCCTATGCGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37847470 GTCATTTTATCCTACGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
37847497 GTCATTAGACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
37847524 GTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37847551 ATCATTTTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
37847578 GTCATTTTACCCTATTAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37847605 GTCATTCTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37847631 GTCATTTTACCCTATGGGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37847658 GTCATTTTACCCTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37847685 GTCATTTAATCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
37847712 ATTAGTCTA-CCTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37847738 GTCATTTTATCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
37847765 ATTATTCTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
37847792 ATTATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
37847819 GTCATTTTACCTTATGGGGCTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
**
37847846 GTCA-TTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
37847872 GTCATTCTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
37847899 GTCATTTTACCCTGTGGGGGCATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
37847926 G
1 G
37847927 CCCAACGTGG
Statistics
Matches: 462, Mismatches: 98, Indels: 8
0.81 0.17 0.01
Matches are distributed among these distances:
26 87 0.19
27 375 0.81
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:37847493 original size:80 final size:79
Alignment explanation
Indices: 37847336--37847917 Score: 639
Period size: 80 Copynumber: 7.2 Consensus size: 79
37847326 GGGTATAACA
* * * *
37847336 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTTTTTCGGTTATCCTACC
1 GTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACC
* *
37847401 CTATAGCGGTATTTCG
64 CTATGGGGGTATTTCG
* * *
37847417 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGCGGGTATTTTGGTCATTTTATCC
1 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTCGGTCATTCTACCC
* *
37847482 TACGGGAGTATTTCG
65 TATGGGGGTATTTCG
** * * * * *
37847497 GTCATTAGACCCTATGGGGGTATTTCGGTCATTCTACCCTATAAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACC
*
37847562 CTGTGGGGGTATTTCG
64 CTATGGGGGTATTTCG
* * *
37847578 GTCATTTTACCCTATTAGGGTATTTCAGTCATTCTACCCTATGGGGTATTTCGGTCATTTTACCC
1 GTCATTTTACCCTA-TGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCC
*
37847643 TATGGGTGTATTTCG
65 TATGGGGGTATTTCG
* * * * *
37847658 GTCATTTTACCCTATGGGGATATTTCAGTCATTTAATCCTATGGGGTTATTTCGATTAGTCTA-C
1 GTCATTTTACCCTATGGGG-TATTTCAGTCATTTTACCCTATGGGG-TATTTCGGTCATTCTACC
* *
37847722 CTATGGGGATATTTCA
64 CTATGGGGGTATTTCG
* * * * * * *
37847738 GTCATTTTATCCTATGGGGTTATTTC-GATTATTCTACCTTATAGGGGTATTTCGATTATTCTAT
1 GTCATTTTACCCTATGGGG-TATTTCAG-TCATTTTACCCTAT-GGGGTATTTCGGTCATTCTAC
37847802 CCTATGGGGGTATTTCG
63 CCTATGGGGGTATTTCG
* * *
37847819 GTCATTTTACCTTATGGGGCTATTTTAGTCA-TTTACCCTATAAGGGTATTTCGGTCATTCTACC
1 GTCATTTTACCCTATGGGG-TATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACC
* *
37847883 TTATGGGGGTATTTCA
64 CTATGGGGGTATTTCG
*
37847899 GTCATTTTACCCTGTGGGG
1 GTCATTTTACCCTATGGGG
37847918 GCATTTCGGC
Statistics
Matches: 425, Mismatches: 66, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
79 6 0.01
80 256 0.60
81 161 0.38
82 2 0.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (79 bp):
GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCT
ATGGGGGTATTTCG
Found at i:37847519 original size:107 final size:105
Alignment explanation
Indices: 37847336--37847926 Score: 603
Period size: 107 Copynumber: 5.5 Consensus size: 105
37847326 GGGTATAACA
* * * **
37847336 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTTTTTCGGTTATCCTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTCGGTCATTATACC
* *
37847401 CTATAGCGGTATTTCGGTCATTTTACCCTATGGGGTATTTC
65 CTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTC
* * * *
37847442 AGTCATTTTACCCTATGCGGGTATTTTGGTCATTTTATCCTACGGGAGTATTTCGGTCATTAGAC
1 -GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTATGGG-GTATTTCGGTCATTATAC
* *
37847507 CCTATGGGGGTATTTCGGTCATTCTACCCTATAAGGGTATTTC
64 CCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTC
* * * * *
37847550 GATCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTATTAGGGTATTTCAGTCATTCTAC
1 G-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTA-TGGGGTATTTCGGTCATTATAC
37847615 CCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGTGTATTTC
64 CCTATGGGGGTATTTCGGTCATTTTACCCTATGGG-GTATTTC
* * * * * * *
37847657 GGTCATTTTACCCTATGGGGATATTTCAGTCATTTAATCCTATGGGGTTATTTCGATTAGTCTA-
1 -GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTATGGGG-TATTTCGGTCATTATAC
* * *
37847721 CCTATGGGGATATTTCAGTCATTTTATCCTATGGGGTTATTTC
64 CCTATGGGGGTATTTCGGTCATTTTACCCTATGGGG-TATTTC
* * * * * * * *
37847764 GATTATTCTACCTTATAGGGGTATTTCGATTATTCTATCCTATGGGGGTATTTCGGTCATTTTAC
1 G-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTCGGTCATTATAC
* * ** *
37847829 CTTATGGGGCTATTTTAGTCA-TTTACCCTATAAGGGTATTTC
64 CCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTC
* * * * * *
37847871 GGTCATTCTACCTTATGGGGGTATTTCAGTCATTTTACCCTGTGGGGGCATTTCGG
1 -GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTCGG
37847927 CCCAACGTGG
Statistics
Matches: 405, Mismatches: 65, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
106 16 0.04
107 295 0.73
108 92 0.23
109 2 0.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (105 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCCTATGGGGTATTTCGGTCATTATACCC
TATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTC
Found at i:37847547 original size:134 final size:133
Alignment explanation
Indices: 37847325--37847926 Score: 656
Period size: 134 Copynumber: 4.5 Consensus size: 133
37847315 TCATCTCCTA
** *
37847325 AGGGTATAACAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTTTTTCG
1 AGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
37847390 GTTATCCTACCCTATAGCGGTATTTCGGTCATTTTACCCTATGGGG-TATTTCAGTCATTTTACC
65 GTCATTCTACCCTATAG-GGTATTTCGGTCATTTTACCCTATGGGGCTATTTCAGTCATTTTACC
37847454 CTATG
129 CTATG
* ** * * **
37847459 CGGGTATTTTGGTCATTTTATCCTACGGGAGTATTTCGGTCATTAGACCCTATGGGGGTATTTCG
1 AGGGTATTTCAGTCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * * *
37847524 GTCATTCTACCCTATAAGGGTATTTCGATCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACC
65 GTCATTCTACCCTAT-AGGGTATTTCGGTCATTTTACCCTATGGGGCTATTTCAGTCATTTTACC
*
37847589 CTATT
129 CTATG
* *
37847594 AGGGTATTTCAGTCATTCTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGTGTATTTCGG
1 AGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
* * * * * * * * *
37847659 TCATTTTACCCTATGGGGATATTTCAGTCATTTAATCCTATGGGGTTATTTC-GATTAGTCTA-C
66 TCATTCTACCCTATAGGG-TATTTCGGTCATTTTACCCTATGGGGCTATTTCAG-TCATTTTACC
37847722 CTATG
129 CTATG
* * * * * *
37847727 -GGGATATTTCAGTCATTTTATCCTATGGGGTTATTTCGATTATTCTACCTTATAGGGGTATTTC
1 AGGG-TATTTCAGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * * * * *
37847791 GATTATTCTATCCTATGGGGGTATTTCGGTCATTTTACCTTATGGGGCTATTTTAGTCA-TTTAC
64 GGTCATTCTACCCTAT-AGGGTATTTCGGTCATTTTACCCTATGGGGCTATTTCAGTCATTTTAC
*
37847855 CCTATA
128 CCTATG
* * * * * *
37847861 AGGGTATTTCGGTCATTCTACCTTATGGGGGTATTTCAGTCATTTTACCCTGTGGGGGCATTTCG
1 AGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
37847926 G
65 G
37847927 CCCAACGTGG
Statistics
Matches: 385, Mismatches: 71, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
132 3 0.01
133 39 0.10
134 285 0.74
135 58 0.15
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (133 bp):
AGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGG
TCATTCTACCCTATAGGGTATTTCGGTCATTTTACCCTATGGGGCTATTTCAGTCATTTTACCCT
ATG
Found at i:37853504 original size:7 final size:7
Alignment explanation
Indices: 37853492--37853516 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37853482 AATAACTGTA
37853492 CAATGTC
1 CAATGTC
37853499 CAATGTC
1 CAATGTC
37853506 CAATGTC
1 CAATGTC
37853513 CAAT
1 CAAT
37853517 TACAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (7 bp):
CAATGTC
Found at i:37856261 original size:27 final size:27
Alignment explanation
Indices: 37856231--37856408 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37856221 ATATTGAGTC
* * * *
37856231 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37856258 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37856285 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37856313 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37856340 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37856367 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37856394 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37856409 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37856370 original size:82 final size:81
Alignment explanation
Indices: 37856252--37856407 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37856242 TGCTATATAA
* *
37856252 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37856317 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37856334 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37856398 CACTTAGTGC
65 CACTTAGTGC
37856408 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37866536 original size:95 final size:95
Alignment explanation
Indices: 37866373--37866556 Score: 296
Period size: 95 Copynumber: 1.9 Consensus size: 95
37866363 CCCACATGGC
* * * *
37866373 CACACCCACACCACCACATAGCCGTGTCTTACGCAGGGCTGCACCTTTGTCAGACACATGGCTGT
1 CACACCCACACCACCACACAGCCGTGTCTTACGCAGGGATGCACCTTTGTCAGACACACGGCTAT
37866438 GTCTCGCATACAGCCAACCACACGGCCGGT
66 GTCTCGCATACAGCCAACCACACGGCCGGT
* * * *
37866468 CACACCCACATCACCATACAGCCGTGTCTTGCGCAGGGATGCACCTTTGTCAGATACACGGCTAT
1 CACACCCACACCACCACACAGCCGTGTCTTACGCAGGGATGCACCTTTGTCAGACACACGGCTAT
37866533 GTCTCGCATACAGCCAACCACACG
66 GTCTCGCATACAGCCAACCACACG
37866557 ACCGCCCACA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.18
Consensus pattern (95 bp):
CACACCCACACCACCACACAGCCGTGTCTTACGCAGGGATGCACCTTTGTCAGACACACGGCTAT
GTCTCGCATACAGCCAACCACACGGCCGGT
Found at i:37899472 original size:24 final size:24
Alignment explanation
Indices: 37899424--37899470 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
37899414 ACTGGTCATA
*
37899424 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
37899448 GAGAG-ATATGAGGAGAGAATATT
1 GAGAGAAT-TGAGGAG-GAATATT
37899471 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:37900188 original size:27 final size:27
Alignment explanation
Indices: 37900145--37900774 Score: 675
Period size: 27 Copynumber: 23.5 Consensus size: 27
37900135 CGATATCTAC
*
37900145 ACTGAAATACCCTCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37900172 ACTAAAATACCCCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
** * *
37900199 ACCAAAATACCCCTATAGGGTAGAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37900226 ACTGAAATACCCCCATAGGATAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37900253 ACCGAAATA-CCTCATAAGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37900279 ATTGAAATA-CCCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37900305 ACTGAAATACCCCAAAAGGAT-AAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
*
37900331 A-TCGAAATACCCTCATAGGGTAAAATG
1 ACT-GAAATACCCCCATAGGGTAAAATG
* *
37900358 ACTAAAATACCCCCATAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37900385 ACCGAAATACCCTCATATGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900412 A-TCGAAATACCCCAATAGGATAAAATG
1 ACT-GAAATACCCCCATAGGGTAAAATG
* *
37900439 ACTGAAATACCCTCATAGGGTAGAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900466 ACTGAAATAACCCCATAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900493 ACCGAAATACCTCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900520 ACCGAAATACCTCCATAGGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* ** *
37900547 ACCGAAATACCCCTGTAGGGTAAAATA
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37900574 ACTGTAATACCTCTATAGGGTAAAAT-
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900600 AATCGAAATACCCCCATAGGGTAAAATA
1 ACT-GAAATACCCCCATAGGGTAAAATG
* *
37900628 ACCGAAATACCCCCATAAGGTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
** * *
37900655 ACCAAAATACCCCCATAGGGAAAAATT
1 ACTGAAATACCCCCATAGGGTAAAATG
* *
37900682 AC-GAAATATCCCCATAGGTTAAAATG
1 ACTGAAATACCCCCATAGGGTAAAATG
* * *
37900708 A-TCAAAATAACCCTATAGGGTAAAATG
1 ACT-GAAATACCCCCATAGGGTAAAATG
*
37900735 A-TCGAAATACCCCCATAGGGTAAAATA
1 ACT-GAAATACCCCCATAGGGTAAAATG
**
37900762 ACTGTTATACCCC
1 ACTGAAATACCCC
37900775 TAGTAGATAA
Statistics
Matches: 506, Mismatches: 86, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.00
26 86 0.17
27 415 0.82
28 4 0.01
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
ACTGAAATACCCCCATAGGGTAAAATG
Found at i:37901028 original size:26 final size:25
Alignment explanation
Indices: 37900996--37901069 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
37900986 CTTTGCCACA
37900996 AATACTGTTACTAGCAGCTTTGCTGC
1 AATACTGTTACT-GCAGCTTTGCTGC
* *
37901022 AATACTGATACTGGTAGCTCTT-CTGC
1 AATACTGTTACT-GCAGCT-TTGCTGC
* *
37901048 AATGCTATTACTGACAGCTTTG
1 AATACTGTTACTG-CAGCTTTG
37901070 TTGCGATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 3 0.08
26 33 0.87
27 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (25 bp):
AATACTGTTACTGCAGCTTTGCTGC
Found at i:37901206 original size:28 final size:28
Alignment explanation
Indices: 37901158--37901353 Score: 254
Period size: 28 Copynumber: 7.0 Consensus size: 28
37901148 TATTGCACTG
*
37901158 CACTGTTACTGTATTGGGCTAAGGCCAA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
* *
37901186 CATTGATT-CTGTATTGGGCTAAGGTCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
37901214 CACTGTTACTGTATTCGGATAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
37901242 CACTGATT-CTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
37901270 CACTAATT-CTGTATTGGGCTAATGCCCA
1 CACT-GTTACTGTATTGGGCTAAGGCCCA
*
37901298 CACTGTTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
37901326 CACTGTTACTGTATTGGGCTAAGACCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
37901354 TACTATACTA
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.03
28 137 0.94
29 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:37907090 original size:21 final size:19
Alignment explanation
Indices: 37907053--37907127 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
37907043 AATCATATCT
37907053 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
37907072 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
* *
37907093 TCTAAGATTGCATATGATA
1 TCCAAGATTGCATATCATA
*
37907112 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
37907128 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:37907570 original size:44 final size:44
Alignment explanation
Indices: 37907499--37908048 Score: 481
Period size: 44 Copynumber: 12.5 Consensus size: 44
37907489 ACCAGTATGG
* * * * * *
37907499 GAAGACAAAATCTGCTACCTTTC-ATCTATTTCATGCCGACACAT
1 GAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATACAT
* *
37907543 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
37907585 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* *
37907630 GAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* ***
37907674 GAAGACAAGATCTGCTTTCTTCGATCTACTT-A-GCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TACAT
*
37907719 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
37907763 GAAGACAAGATCTGGTATCTTTGATTTACTTCACACCAATAGAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
37907807 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
37907851 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCC-ATCAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT-A-CAT
* * *
37907894 GGGAACATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * *
37907940 GATGACAAGATCTGGTATATTTGATCTACTTCACGCAAATACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * * *
37907984 GTAGGCAAG-GCTAG-TATCTTTGATCTGCTTCACTGTCAGTACAA
1 GAAGACAAGATCT-GCTATCTTCGATCTACTTCAC-GCCAATACAT
*
37908028 GAAGGCAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
37908049 TAACCTGCTC
Statistics
Matches: 411, Mismatches: 75, Indels: 39
0.78 0.14 0.07
Matches are distributed among these distances:
41 2 0.00
42 45 0.11
43 24 0.06
44 223 0.54
45 104 0.25
46 3 0.01
47 8 0.02
48 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:37907692 original size:89 final size:89
Alignment explanation
Indices: 37907543--37907971 Score: 596
Period size: 89 Copynumber: 4.9 Consensus size: 89
37907533 GCCGACACAT
* * *
37907543 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
37907606 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
37907630 GAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37907695 CGATCTACTTAGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
37907719 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * * *
37907784 TGATTTACTTC-ACACCAATA-GAT
66 CGATCTACTTCGCCACCAGTATG-G
* *
37907807 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37907872 CGATCTACTTCGCCATCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * * * * *
37907896 GAACATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGATGACAAGATCTGGTATATT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
37907961 TGATCTACTTC
66 CGATCTACTTC
37907972 ACGCAAATAC
Statistics
Matches: 299, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
87 28 0.09
88 76 0.25
89 194 0.65
90 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:37907837 original size:177 final size:177
Alignment explanation
Indices: 37907543--37908048 Score: 653
Period size: 177 Copynumber: 2.9 Consensus size: 177
37907533 GCCGACACAT
* * ** *
37907543 GAAGACAAGATCTGCTTTCTGCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * * *
37907606 CGATCTACTTCGCCACCAGTATG-GGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAAT
66 TGATCTACTTC-ACACCAATA-GAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAT
37907670 ACATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
129 ACATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
*
37907719 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGGTATCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * *
37907784 TGATTTACTTCACACCAATAGATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATAC
66 TGATCTACTTCACACCAATAGAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
* *
37907849 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATGG
131 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
* * * * *
37907896 GAACATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGATGACAAGATCTGGTATATT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
* * * * * * * * *
37907961 TGATCTACTTCACGCAAATACAGGTAGGCAAG-GCTAG-TATCTTTGATCTGCTTCACTGTCAGT
66 TGATCTACTTCACACCAATAGAGGAAGACAAGATCT-GCTATCTTTGATCTACTTCAC-GCCAAT
* * *
37908024 ACAAGAAGGCAAGATCTGCTATCTT
129 ACATGAAGACAAGATCTGCTTTCTT
37908049 TAACCTGCTC
Statistics
Matches: 289, Mismatches: 36, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
176 50 0.17
177 202 0.70
178 37 0.13
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (177 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGGTATCTT
TGATCTACTTCACACCAATAGAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCTTTCTTCGATCTACTTAGCCACCAGTATGG
Found at i:37908082 original size:88 final size:88
Alignment explanation
Indices: 37907981--37909376 Score: 1976
Period size: 88 Copynumber: 15.9 Consensus size: 88
37907971 CACGCAAATA
* * * * * *
37907981 CAGGTAGGCAAGGCTAGTATCTTTGATCTGCTTCACTGTC-AGTACAAGAAGGCAAGATCTGCTA
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTA
*
37908045 TCTTTAACCTGCTCCACTACAACC
65 TCTTCAACCTGCTCCACTACAACC
* * * ** * *
37908069 CAGGGTGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATAGGAAGCCAAGATCTACTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
**
37908134 CTTCAACCTG---CACTAGGACC
66 CTTCAACCTGCTCCACTACAACC
* * * * *
37908154 CAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGCCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37908219 CTTCAACCTACTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * *
37908242 CAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTACTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
* *
37908307 CTTCAACCTACTCCACTACGACC
66 CTTCAACCTGCTCCACTACAACC
* * * * *
37908330 CAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTGTC-AGTACAAGAAGGCAAGATCTTCTA
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTA
*
37908394 TCTTCAACTTGCTCCACTACAACC
65 TCTTCAACCTGCTCCACTACAACC
* *
37908418 CAGGGAGGCAAGGCTGGTATGTTCGATTTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37908483 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* *
37908506 TAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37908571 CTTCAACCTACTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * *
37908594 CAAGGAGGCAAGGCTGGTATCTTTGATCTTCTTCGCTGTCGATGTAGGAAGACAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37908659 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37908682 CAGGGCGACAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGAAAGATCTGCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37908747 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* *
37908770 CAGGGAGGCAAGGCTGGTATCTTCGATCTTCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37908835 CTTCAACCTGCTCCACTATAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37908858 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATGCAAGAAGGCAAGATCTACTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37908923 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* ** * * *
37908946 CAAGGAGGCAAGATTGGTATCTTCGATCTGTTTCGCTGTCGATGCAGGAAGGCAAGATCTTCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37909011 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * * *
37909034 TAGGGAGGCAAGACTGGTATCTTCGATCTGCTTCACTGTCGATGTAGGAAGACAAGATCTGTTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
*
37909099 CTTCAACCTGCTTCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * *
37909122 TAGGGAGGTAAGGCTGGTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
37909187 CTTCAACCTGCTCCACTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * *
37909210 CAGGGAGGCAAGGCTGGTATCTTCGATCTTCTTCGCTGTCGATGCAAGAAGACAAGATCTGCTAC
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
* *
37909275 CTTCAACCTGCTTCGCTACAACC
66 CTTCAACCTGCTCCACTACAACC
* * * * * *
37909298 TAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCGCCGTC-AGTACAGGAAGACAAGATCTGTTA
1 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTA
*
37909362 TTTTCAACCTGCTCC
65 TCTTCAACCTGCTCC
37909377 GCTGCAAACC
Statistics
Matches: 1176, Mismatches: 125, Indels: 14
0.89 0.10 0.01
Matches are distributed among these distances:
85 78 0.07
87 2 0.00
88 1095 0.93
89 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (88 bp):
CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
CTTCAACCTGCTCCACTACAACC
Found at i:37908137 original size:45 final size:45
Alignment explanation
Indices: 37907629--37908574 Score: 151
Period size: 44 Copynumber: 21.5 Consensus size: 45
37907619 CACCAGTATG
* * * * * **
37907629 GGAAGACAAGATCTACTATCTTTGATCTACTTCAC-GCCAATACA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * *** * **
37907673 TGAAGACAAGATCTGCTTTCTTCGATCTACTT-AGCCACCAGTATG
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCA-CTGTCGGTACA
* * **
37907718 GGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GTCAATACA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * * ** ** *
37907762 TGAAGACAAGATCTGGTATCTTTGATTTACTTCAC-ACCAATAGA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * **
37907806 TGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-G-CTAATACA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTC-GGTACA
* * * * * ** * **
37907850 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATG
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* ** * **
37907895 GGAA-CATAAGATCTGCTATCTTCGATCTAATTCAC-GCCAATACA
1 GGAAGC-CAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * * * **
37907939 TGATGACAAGATCTGGTATATTTGATCTACTTCAC-G-CAAATACA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTC-GGTACA
* * * * *
37907983 GGTAGGCAAG-GCTAG-TATCTTTGATCTGCTTCACTGTCAGTACA
1 GGAAGCCAAGATCT-GCTATCTTCGATCTGCTTCACTGTCGGTACA
* * ** * * * ****
37908027 AGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAACCCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
** * * * *
37908071 GGGTGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGGTATA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * *
37908115 GGAAGCCAAGATCTACTATCTTC-AAC--CTGCAC--TAGG-ACCCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTA--CA
* * * *
37908156 GGGAGGCAAGGT-TGGTATCTTCGATCTGCTTCACTGTCGGTACA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * ****
37908200 GGAAGCCAAGATCTGCTATCTTCAACCTACTCCACT-ACAACCCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * * *
37908244 GGGAGGCAAG-GCTAG-TATCTTCGATCTGCTTCGCTATCGATGCA
1 GGAAGCCAAGATCT-GCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * * * ***
37908288 GGAAGGCAAGATCTACTATCTTCAACCTACTCCACT-ACGACCCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * *
37908332 GGGAGGCAAG-GCTAG-TATCTTCGATCTGCTTCACTGTCAGTACA
1 GGAAGCCAAGATCT-GCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * * ****
37908376 AGAAGGCAAGATCTTCTATCTTC-AACTTGCTCCACT-ACAACCCA
1 GGAAGCCAAGATCTGCTATCTTCGATC-TGCTTCACTGTCGGTACA
* * * * * * * * *
37908420 GGGAGGCAAG-GCTGGTATGTTCGATTTGCTTCGCTGTCGATGCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
* * * * * *
37908464 GGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-AC--AACCTA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTA-C-A
* * * * * *
37908508 GGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATGCA
1 GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
*
37908552 GGAAGGCAAGATCTGCTATCTTC
1 GGAAGCCAAGATCTGCTATCTTC
37908575 AACCTACTCC
Statistics
Matches: 660, Mismatches: 199, Indels: 85
0.70 0.21 0.09
Matches are distributed among these distances:
39 1 0.00
40 11 0.02
41 12 0.02
42 5 0.01
43 117 0.18
44 332 0.50
45 179 0.27
46 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (45 bp):
GGAAGCCAAGATCTGCTATCTTCGATCTGCTTCACTGTCGGTACA
Found at i:37917303 original size:21 final size:21
Alignment explanation
Indices: 37917265--37917319 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
37917255 AATCATATCT
37917265 TCCAAGATTG--TATATCATA
1 TCCAAGATTGCATATATCATA
*
37917284 TCCAAGATTGCATGTATCATA
1 TCCAAGATTGCATATATCATA
*
37917305 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
37917320 CCTTGAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 10 0.32
21 21 0.68
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:37923347 original size:75 final size:76
Alignment explanation
Indices: 37923215--37923408 Score: 205
Period size: 75 Copynumber: 2.6 Consensus size: 76
37923205 CAATCGTCGG
* * * *
37923215 TATACCCGACTAGCGCTAGGTGCAAATACCGTTGGTTTGTCCAACTATAGCTAGGCTCACATTCA
1 TATACCCGACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCA
37923280 ATATCATC-GA
66 ATATCATCAGA
* * ** * * * *
37923290 TATATCCGACTAGCGTTGGGTGCAAACATTGTTTGTTTATCCAACTAGAGTTGGGCTCACTTTCA
1 TATACCCGACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCA
* *
37923355 ATATCGTCAGC
66 ATATCATCAGA
*
37923366 TA-ACCCGACTAGCGCTGGGCGCAAACTACTC-TGTGGTTTATCC
1 TATACCCGACTAGCGCTGGGTGCAAAC-AC-CGT-TGGTTTATCC
37923409 GCTAGGCACC
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
75 81 0.85
76 5 0.05
77 9 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (76 bp):
TATACCCGACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTAGGCTCACATTCA
ATATCATCAGA
Found at i:37924471 original size:30 final size:30
Alignment explanation
Indices: 37924435--37924501 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
37924425 GTGTCTTACT
37924435 CGTGTGAGTCACACGGCCTAGCCACATGGC
1 CGTGTGAGTCACACGGCCTAGCCACATGGC
* *
37924465 CTTGTGAGTCACACGGCCTGGCCACATGGC
1 CGTGTGAGTCACACGGCCTAGCCACATGGC
37924495 CGTGTGA
1 CGTGTGA
37924502 CCCCTATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.19
Consensus pattern (30 bp):
CGTGTGAGTCACACGGCCTAGCCACATGGC
Found at i:37926983 original size:24 final size:24
Alignment explanation
Indices: 37926952--37927008 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
37926942 CCAAATTTTT
37926952 TTCATTTTCATT-TTCCTTT-TCTTG
1 TTCATTTTCATTCTT--TTTCTCTTG
*
37926976 TTCTTTTTCATTCTTTTTCTCTTG
1 TTCATTTTCATTCTTTTTCTCTTG
37927000 TTCATTTTC
1 TTCATTTTC
37927009 TCTTGACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.07, C:0.21, G:0.04, T:0.68
Consensus pattern (24 bp):
TTCATTTTCATTCTTTTTCTCTTG
Found at i:37927878 original size:11 final size:11
Alignment explanation
Indices: 37927858--37927894 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
37927848 TTTCATTCAT
*
37927858 CATCCTTCAAG
1 CATCCATCAAG
37927869 CATCCATCAAG
1 CATCCATCAAG
*
37927880 CCTCCATCAAG
1 CATCCATCAAG
37927891 CATC
1 CATC
37927895 ATTCTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.41, G:0.08, T:0.22
Consensus pattern (11 bp):
CATCCATCAAG
Found at i:37930375 original size:40 final size:39
Alignment explanation
Indices: 37930277--37930499 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
37930267 TCCTCGTTCA
* * * * *
37930277 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
37930316 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
37930355 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
37930395 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
37930435 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
37930476 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37930500 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:37930499 original size:120 final size:119
Alignment explanation
Indices: 37930277--37930499 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
37930267 TCCTCGTTCA
* * * *
37930277 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
37930342 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
37930396 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
37930460 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
37930500 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37956845 original size:28 final size:28
Alignment explanation
Indices: 37956803--37956869 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
37956793 CTATTCAGTA
* *
37956803 ACAGT-ACAATGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
37956830 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
37956858 ACAGTAACAGTG
1 ACAGTAACAGTG
37956870 CAATAATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:37957209 original size:27 final size:27
Alignment explanation
Indices: 37957185--37957760 Score: 301
Period size: 27 Copynumber: 21.3 Consensus size: 27
37957175 AGAGGTATAA
* *
37957185 CAGTCATTTTACCTTATGGGAGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
* *
37957212 CGGTCATTTTACCGTACGGGGGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
* * **
37957239 CAATCATTTTACCCTATAAGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
* * * * *
37957266 CAATCATTTTACCCTATGGGGGTGTTT
1 CAGTCATTTTACCGTACGGGAGTATTT
* *
37957293 C-GATCATTTTACCCTATAGGG-GTATTT
1 CAG-TCATTTTACCGTA-CGGGAGTATTT
* * *
37957320 CAATCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* *
37957347 CAGTCATTTTAGTC-TAC-TGAGGTATTT
1 CAGTCATTTTA-CCGTACGGGA-GTATTT
* *
37957374 CGGTCATTTTACCCTACGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* * *
37957401 CGGTCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
** * * *
37957428 TGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
37957455 CAGTCATTTTAACC-TACGAGG-GTATTT
1 CAGTCATTTT-ACCGTACG-GGAGTATTT
** * *
37957482 TGGTTATTTTACCCTACAGGG-GTATTT
1 CAGTCATTTTACCGTAC-GGGAGTATTT
* * *
37957509 CTGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
*
37957536 CAGTCATTTTACCCTACGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
* *
37957563 CAGTCATTTTACCCTATGAGG-GTATTT
1 CAGTCATTTTACCGTACG-GGAGTATTT
** * * *
37957590 TGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCGTACGGGAGTATTT
37957617 CAGTCATTTTAACC-TACGAGG-GTATTT
1 CAGTCATTTT-ACCGTACG-GGAGTATTT
** * *
37957644 TGGTTATTTTACCCTACAGGG-GTATTT
1 CAGTCATTTTACCGTAC-GGGAGTATTT
* * *
37957671 CTGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
* *
37957698 CAGTCATTTTACCCTATAGGG-GTATTT
1 CAGTCATTTTACCGTA-CGGGAGTATTT
** * *
37957725 TGGTCATTTTACTC-TATGGGGGTATTT
1 CAGTCATTTTAC-CGTACGGGAGTATTT
*
37957752 CGGTCATTT
1 CAGTCATTT
37957761 ATTGACCTCT
Statistics
Matches: 466, Mismatches: 56, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.00
26 18 0.04
27 427 0.92
28 19 0.04
29 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCGTACGGGAGTATTT
Found at i:37957246 original size:54 final size:53
Alignment explanation
Indices: 37957185--37957760 Score: 668
Period size: 54 Copynumber: 10.7 Consensus size: 53
37957175 AGAGGTATAA
* *
37957185 CAGTCATTTTACCTTATGGGAGTATTTCGGTCATTTTACCGTACGGGGGTATTT
1 CAGTCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * ** * *
37957239 CAATCATTTTACCCTATAAGGGTATTTCAATCATTTTACCCTATGGGGGTGTTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** * *
37957293 C-GATCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** * *
37957347 CAGTCATTTTAGTCTACTGAGGTATTTCGGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTA-TGGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * *
37957401 CGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * * *
37957455 CAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTACCCTACAGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * *
37957509 CTGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* *
37957563 CAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * * * *
37957617 CAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTACCCTACAGGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
* * **
37957671 CTGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
** *
37957725 TGGTCATTTTACTCTATGGGGGTATTTCGGTCATTT
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTT
37957761 ATTGACCTCT
Statistics
Matches: 453, Mismatches: 61, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.01
54 444 0.98
55 6 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTACGGGGGTATTT
Found at i:37957300 original size:81 final size:81
Alignment explanation
Indices: 37957185--37957760 Score: 705
Period size: 81 Copynumber: 7.1 Consensus size: 81
37957175 AGAGGTATAA
* * * * * **
37957185 CAGTCATTTTACCTTATGGGAGTATTTCGGTCATTTTACCGTACGGGGGTATTTCAATCATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTA
*
37957250 CCCTATAAGGGTATTT
66 CCCTATGAGGGTATTT
* * * **
37957266 CAATCATTTTACCCTATGGGGGTGTTTC-GATCATTTTACCCTA-TAGGGGTATTTCAATCATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTACGA-GGGTATTTCGGTCATTT
37957329 TACCCTATGAGGGTATTT
64 TACCCTATGAGGGTATTT
** * *
37957347 CAGTCATTTTAGTCTACT-GAGGTATTTCGGTCATTTTACCCTACGAGGGTATTTCGGTCATTTT
1 CAGTCATTTTACCCTA-TGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTT
37957411 ACCCTATGAGGGTATTT
65 ACCCTATGAGGGTATTT
** * * *
37957428 TGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTA
*
37957493 CCCTA-CAGGGGTATTT
66 CCCTATGA-GGGTATTT
* * *
37957509 CTGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTA
37957574 CCCTATGAGGGTATTT
66 CCCTATGAGGGTATTT
** * * *
37957590 TGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTACGAGGGTATTTTGGTTATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTA
*
37957655 CCCTA-CAGGGGTATTT
66 CCCTATGA-GGGTATTT
* * * *
37957671 CTGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA-TAGGGGTATTTTGGTCATTTT
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGA-GGGTATTTCGGTCATTTT
* *
37957735 ACTCTATGGGGGTATTT
65 ACCCTATGAGGGTATTT
*
37957752 CGGTCATTT
1 CAGTCATTT
37957761 ATTGACCTCT
Statistics
Matches: 432, Mismatches: 52, Indels: 22
0.85 0.10 0.04
Matches are distributed among these distances:
80 5 0.01
81 423 0.98
82 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTA
CCCTATGAGGGTATTT
Found at i:37969323 original size:50 final size:50
Alignment explanation
Indices: 37969247--37969537 Score: 266
Period size: 50 Copynumber: 5.9 Consensus size: 50
37969237 CATTTGGGTA
* * * *
37969247 AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGTACCCAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
* * *
37969297 AAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
* *
37969347 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
** * * * * *
37969397 GAA-AGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCA-CGATAT
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
* ** * * * * **
37969446 GAGAACTCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AGAT
** * * *
37969496 AA-ACATCCCATGTAAGACCATATATGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
37969538 TGTTATTATC
Statistics
Matches: 198, Mismatches: 39, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 69 0.35
50 124 0.63
51 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
Found at i:37969420 original size:100 final size:100
Alignment explanation
Indices: 37969247--37969432 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 100
37969237 CATTTGGGTA
* *
37969247 AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGTACCCAGATAAGAGGTCCCAAGTA
1 AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCAAGTA
37969312 AGACCATGTCTGGGACATGGCGTTGACACCGAGAT
66 AGACCATGTCTGGGACATGGCGTTGACACCGAGAT
* * **
37969347 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGATGAA-AGGTCCCCCGT
1 AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGCACCAAGAT-AAGAGGTCCCAAGT
*
37969411 AAGACCATGTTTGGGACATGGC
65 AAGACCATGTCTGGGACATGGC
37969433 ATGGGCACGA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 76 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (100 bp):
AAGAGGTCTCATGTAAGACCAGGTCTGGGACATGGCGTTGGCACCAAGATAAGAGGTCCCAAGTA
AGACCATGTCTGGGACATGGCGTTGACACCGAGAT
Found at i:37969536 original size:49 final size:47
Alignment explanation
Indices: 37969356--37969537 Score: 157
Period size: 49 Copynumber: 3.7 Consensus size: 47
37969346 TAAGAGGTCT
* * ** *
37969356 CATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGATGAAAGGTCC
1 CATGTAAGACCATATCTGGGACATGGCATTGGCAGTAAGA--AAA-CTCC
** * * * * *
37969406 CCCGTAAGACCATGTTTGGGACATGGCATGGGCACGATATGAGAACTCC
1 CATGTAAGACCATATCTGGGACATGGCATTGGCA-G-TAAGAAAACTCC
* *
37969455 CATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACATCC
1 CATGTAAGACCATATCTGGGACATGGCATTGGCAGTA-AGAAAAC-TCC
* *
37969504 CATGTAAGACCATATATGGGACATGGCTTTGGCA
1 CATGTAAGACCATATCTGGGACATGGCATTGGCA
37969538 TGTTATTATC
Statistics
Matches: 105, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
47 2 0.02
48 6 0.06
49 63 0.60
50 31 0.30
52 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
CATGTAAGACCATATCTGGGACATGGCATTGGCAGTAAGAAAACTCC
Found at i:37975584 original size:42 final size:42
Alignment explanation
Indices: 37975515--37975596 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 42
37975505 TTAAATTCAT
*
37975515 TAAGTTATATTATTTTCAAATTTTGATACATCAAGTAATGCCAC
1 TAAGTTATATTA-TTTCAAATTTTGATACAT-AAGCAATGCCAC
37975559 TAAGTTATATTA-TTCAAATTTTGATACATAAGCAATGC
1 TAAGTTATATTATTTCAAATTTTGATACATAAGCAATGC
37975597 TATTTCCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 8 0.22
42 17 0.46
44 12 0.32
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (42 bp):
TAAGTTATATTATTTCAAATTTTGATACATAAGCAATGCCAC
Found at i:37975621 original size:20 final size:20
Alignment explanation
Indices: 37975588--37975638 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
37975578 TTTGATACAT
* * *
37975588 AAGCAATGCTATTTCCATAC
1 AAGCAATACAATTTCCATAA
*
37975608 AAGCAATACAATTTTCATAA
1 AAGCAATACAATTTCCATAA
*
37975628 AAGTAATACAA
1 AAGCAATACAA
37975639 AAAGTCCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (20 bp):
AAGCAATACAATTTCCATAA
Found at i:37981501 original size:117 final size:117
Alignment explanation
Indices: 37981310--37981653 Score: 417
Period size: 117 Copynumber: 3.0 Consensus size: 117
37981300 TAAAAAATGT
* * * * ** *
37981310 GCCCAACACTCATCGACATGTAGTCAAAGTAACCATTTGGCACCCAATGCCTCATTAGAACGTCC
1 GCCCAACACTCATCGACACGTAGT-AGAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
* *
37981375 GAAGTAATTAGTTTGCGCCTAGCGCTCATTGGTATAACTGAAGTAAATATTAC
65 GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
* *
37981428 GCCCAACACTCATCGACACGTAGTTGAGTAACCATTTGACACCTAGTGCCTCATCGGAACGTCTG
1 GCCCAACACTCATCGACACGTAGTAGAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTG
* * * **
37981493 AAGTAATTAGTTTGCACCTAGCGCTCATCGGTATAACCAAAGTAAAAATTGT
66 AAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
* * * * * *
37981545 G-CC--TA-GCATCGAGACGTAGTCGAAGTAACCATTTGGCAGCTAGTGCCTCATCGGAATGTCT
1 GCCCAACACTCATCGACACGTAGTAG-AGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCT
* * *
37981606 GAAGTAATTAGTTTGTGTCTAGCGCTCATCGATATAACCGAAGTAAAT
65 GAAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAAT
37981654 GTTGTGCCTA
Statistics
Matches: 196, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
113 14 0.07
114 78 0.40
116 2 0.01
117 79 0.40
118 23 0.12
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (117 bp):
GCCCAACACTCATCGACACGTAGTAGAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTG
AAGTAATTAGTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTAC
Found at i:37981615 original size:114 final size:114
Alignment explanation
Indices: 37981320--37981664 Score: 422
Period size: 114 Copynumber: 3.0 Consensus size: 114
37981310 GCCCAACACT
* * * * ** *
37981320 CATCGACATGTAGTCAAAGTAACCATTTGGCACCCAATGCCTCATTAGAACGTCCGAAGTAATTA
1 CATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTGAAGTAATTA
* * ** * *
37981385 GTTTGCGCCTAGCGCTCATTGGTATAACTGAAGTAAATATTACGCCCAACACT
66 GTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTGTG-CC--TA-G
* *
37981438 CATCGACACGTAGTTG-AGTAACCATTTGACACCTAGTGCCTCATCGGAACGTCTGAAGTAATTA
1 CATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTGAAGTAATTA
* * *
37981502 GTTTGCACCTAGCGCTCATCGGTATAACCAAAGTAAAAATTGTGCCTAG
66 GTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTGTGCCTAG
* * *
37981551 CATCGAGACGTAGTCGAAGTAACCATTTGGCAGCTAGTGCCTCATCGGAATGTCTGAAGTAATTA
1 CATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTGAAGTAATTA
* * * *
37981616 GTTTGTGTCTAGCGCTCATCGATATAACCGAAGTAAATGTTGTGCCTAG
66 GTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTGTGCCTAG
37981665 TACTCATCGG
Statistics
Matches: 196, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
113 14 0.07
114 88 0.45
116 2 0.01
117 79 0.40
118 13 0.07
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (114 bp):
CATCGACACGTAGTCGAAGTAACCATTTGGCACCTAGTGCCTCATCGGAACGTCTGAAGTAATTA
GTTTGCGCCTAGCGCTCATCGGTATAACCGAAGTAAATATTGTGCCTAG
Found at i:37982015 original size:3 final size:3
Alignment explanation
Indices: 37982009--37982037 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37981999 CTTCTGTTAT
37982009 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
37982038 TCCATTCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:37984118 original size:19 final size:19
Alignment explanation
Indices: 37984080--37984118 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
37984070 TTCGATAATC
37984080 AATCTCAAACTTAACATTTT
1 AATCTCAAAC-TAACATTTT
37984100 AATCTCAAA-TAATCATTTT
1 AATCTCAAACTAA-CATTTT
37984119 CAATTTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 6 0.33
20 9 0.50
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (19 bp):
AATCTCAAACTAACATTTT
Found at i:37986008 original size:50 final size:50
Alignment explanation
Indices: 37985933--37986175 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
37985923 ATTTGGGTAA
*
37985933 AGAGGTCCCATGTAAGACCATGTCTGGTACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
37985983 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
37986033 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37986083 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
37986133 AGAACATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37986176 TGTTATTATC
Statistics
Matches: 179, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 144 0.80
51 35 0.20
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37989684 original size:42 final size:42
Alignment explanation
Indices: 37989637--37989863 Score: 293
Period size: 42 Copynumber: 5.5 Consensus size: 42
37989627 CAGTGCCTAT
37989637 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
37989679 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
37989721 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
37989763 CAGGCTTAATGCGGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
37989804 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGTCTAG
*
37989845 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAA
37989864 TCTGTTTAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
40 5 0.03
41 59 0.36
42 101 0.61
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:37991155 original size:12 final size:12
Alignment explanation
Indices: 37991138--37991167 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37991128 GGACACACGG
37991138 CCGTGTCCTAAC
1 CCGTGTCCTAAC
*
37991150 CCGTGTCCTCAC
1 CCGTGTCCTAAC
37991162 CCGTGT
1 CCGTGT
37991168 AACTCTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTAAC
Found at i:37994377 original size:21 final size:21
Alignment explanation
Indices: 37994353--37994394 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37994343 GAAATTAAAG
*
37994353 TGTTTTACTTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
37994374 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACTTTAATT
37994395 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTAATT
Found at i:37998475 original size:21 final size:21
Alignment explanation
Indices: 37998429--37998480 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
37998419 AGGAGAAGAG
37998429 AAAAAT-AAAAGTGAAAAGGA
1 AAAAATGAAAAGTGAAAAGGA
*
37998449 AGAAAATGAAAA-TGAAAAAGGC
1 A-AAAATGAAAAGTG-AAAAGGA
*
37998471 AAAAAGGAAA
1 AAAAATGAAA
37998481 GCGAGAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 11 0.41
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.08
Consensus pattern (21 bp):
AAAAATGAAAAGTGAAAAGGA
Found at i:37998579 original size:36 final size:33
Alignment explanation
Indices: 37998514--37998580 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
37998504 GTGAATGAAG
*
37998514 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
37998547 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
37998581 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:38007620 original size:41 final size:40
Alignment explanation
Indices: 38007571--38007825 Score: 246
Period size: 41 Copynumber: 6.3 Consensus size: 40
38007561 TGGTACAAAA
* *
38007571 GTGC-ATTCATGGGTATCAAAGTACAAATAGGGGAACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* * *
38007611 GTGCAATTCAGGGGTATCAAAGTACTAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
38007652 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGAACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* * * * **
38007693 ATTCAATTTAGGGGTACTAAAGTACAAA-AAGGGACACGCAT
1 GTGCAATTCAGGGGTAC-AAAGTACAAACAGGGGA-ACATAT
** * * *
38007734 GTGCAATTCAAAGGTACCGAAGTACAAA-TGGGGCACATAT
1 GTGCAATTCAGGGGTA-CAAAGTACAAACAGGGGAACATAT
* * *
38007774 GTGCAATTCAGTGGTACAGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACA-AAGTACAAACAGGGGAACATAT
*
38007815 ATGCAATTCAG
1 GTGCAATTCAG
38007826 CAATATTATT
Statistics
Matches: 177, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 37 0.21
41 138 0.78
42 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
GTGCAATTCAGGGGTACAAAGTACAAACAGGGGAACATAT
Found at i:38007673 original size:82 final size:81
Alignment explanation
Indices: 38007571--38007825 Score: 325
Period size: 82 Copynumber: 3.1 Consensus size: 81
38007561 TGGTACAAAA
* *
38007571 GTGC-ATTCATGGGTATCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTATCAAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTA-CAAAGTA
*
38007635 CTAACAGGGGCACGTAT
65 CAAACAGGGGCACGTAT
* * * *
38007652 GTGCAATTCAGGGGTACCAAAGTACAAACAGGGGAACATATATTCAATTTAGGGGTACTAAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTAC-AAAGTA
* * *
38007717 CAAAAAGGGACACGCAT
65 CAAACAGGGGCACGTAT
** * * *
38007734 GTGCAATTCAAAGGTACCGAAGTACAAAT-GGGGCACATATGTGCAATTCAGTGGTACAGAAGTA
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTACA-AAGTA
38007798 CAAACAGGGGCACGTAT
65 CAAACAGGGGCACGTAT
*
38007815 ATGCAATTCAG
1 GTGCAATTCAG
38007826 CAATATTATT
Statistics
Matches: 147, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 56 0.38
82 90 0.61
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (81 bp):
GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGAACATATGTGCAATTCAGGGGTACAAAGTAC
AAACAGGGGCACGTAT
Found at i:38007685 original size:20 final size:20
Alignment explanation
Indices: 38007619--38007685 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
38007609 ATGTGCAATT
* *
38007619 CAGGGGTATCAAAGTACTAA
1 CAGGGGTACCAAAGTACAAA
* ** * * *
38007639 CAGGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAA-A
38007660 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
38007680 CAGGGG
1 CAGGGG
38007686 AACATATATT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:38010510 original size:26 final size:28
Alignment explanation
Indices: 38010470--38010523 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
38010460 AAACAGTCAG
38010470 TTTACCCTAT-GGGGGTATTTCGATAAT
1 TTTACCCTATCGGGGGTATTTCGATAAT
*
38010497 TTTA-CCTATCGGGGGTATTTCGGTAAT
1 TTTACCCTATCGGGGGTATTTCGATAAT
38010524 AAAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (28 bp):
TTTACCCTATCGGGGGTATTTCGATAAT
Found at i:38013322 original size:78 final size:78
Alignment explanation
Indices: 38013212--38013567 Score: 615
Period size: 78 Copynumber: 4.6 Consensus size: 78
38013202 AACTAATAGT
* * *
38013212 GGATAATATATGTATATACATGTATAAGTTCTTGAATTTAGTTAAAAGTCTGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
*
38013277 TATATATAAGGTTC
65 TATATATAAAGTTC
*
38013291 GGATATATATGTATATTCATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
38013356 ATATATAAAGTTC
66 ATATATAAAGTTC
*
38013369 GGAAATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
38013434 ATATATAAAGTTC
66 ATATATAAAGTTC
*
38013447 GGATATATATGTATCTACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
38013512 ATATATAAAGTTC
66 ATATATAAAGTTC
* *
38013525 GGATATATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
38013568 TGTTGAATGT
Statistics
Matches: 265, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 14 0.05
78 247 0.93
79 4 0.02
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:38013905 original size:78 final size:76
Alignment explanation
Indices: 38013739--38013930 Score: 208
Period size: 78 Copynumber: 2.5 Consensus size: 76
38013729 ATATTGAGTA
* * * *
38013739 TAAGTATGAAATTATATATGTATATGTTAAATTCGAAAATGTATGTGTATACAAGTATAAGTACT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTACT
38013804 TATTTCGAATG
66 TATTTCGAATG
* * * *
38013815 TAAGTATAAAATTATATATGTATATATGTTAGATTCGAATATGTATATATGTACATGTATAAGTT
1 TAAGTATGAAATTATATATG--TATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTA
* *
38013880 TTTGTATT-GAAATG
64 CTTAT-TTCG-AATG
** * *
38013894 -GGGTATGAAATTATATAGGTATATGTGAGATTCGAAT
1 TAAGTATGAAATTATATATGTATATGTTAGATTCGAAT
38013931 GTTAAATGTA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
76 36 0.37
78 55 0.57
79 6 0.06
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (76 bp):
TAAGTATGAAATTATATATGTATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTACT
TATTTCGAATG
Found at i:38014369 original size:41 final size:41
Alignment explanation
Indices: 38014267--38014506 Score: 306
Period size: 41 Copynumber: 5.8 Consensus size: 41
38014257 TTTTTCAGAC
** *
38014267 TATAAGTCC-AGCAGGCTAAAAGCTGGTG-TACTGAATCAGGT
1 TATAAG-CCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGT
* * *
38014308 TTTAAAACCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
1 TAT-AAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
38014350 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
* *
38014391 TATAAGCCTAGCAGGATAAGTGCCGGTGATCTAAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
38014432 TATAAGCCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-T
* *
38014474 T-TAAGCCTAACAGGCTAAGTGCCAGTGAATCTG
1 TATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
38014507 TTTAAATTAA
Statistics
Matches: 177, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
41 139 0.79
42 37 0.21
43 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
Found at i:38014713 original size:34 final size:34
Alignment explanation
Indices: 38014675--38014751 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
38014665 GTTGGATATA
* * *
38014675 TATATGTATGCATTCAGCATATGTGGATT-ATAAG
1 TATATATATGCATTCAGCACATGT-AATTGATAAG
* *
38014709 TATATATGTGCATTCGGCACATGTAATTGATAAG
1 TATATATATGCATTCAGCACATGTAATTGATAAG
*
38014743 TATAAATAT
1 TATATATAT
38014752 ATGCTTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (34 bp):
TATATATATGCATTCAGCACATGTAATTGATAAG
Found at i:38014787 original size:40 final size:40
Alignment explanation
Indices: 38014738--38014819 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
38014728 CATGTAATTG
*
38014738 ATAAGTATAAATATATGCTTTTGGCATATGTATTTGAATA
1 ATAAGTATAAATATATGCTTTTGGCATATGCATTTGAATA
*
38014778 ATAATTATAAATATATGCTTTTGGCATATGCATTTGAATA
1 ATAAGTATAAATATATGCTTTTGGCATATGCATTTGAATA
38014818 AT
1 AT
38014820 TATATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (40 bp):
ATAAGTATAAATATATGCTTTTGGCATATGCATTTGAATA
Found at i:38014829 original size:37 final size:38
Alignment explanation
Indices: 38014738--38014829 Score: 132
Period size: 40 Copynumber: 2.4 Consensus size: 38
38014728 CATGTAATTG
* *
38014738 ATAAGTATAAATATATGCTTTTGGCATATGTATTTGAATA
1 ATAATTATAAATATATGCTTTTGGCATATGCATTTG-A-A
38014778 ATAATTATAAATATATGCTTTTGGCATATGCATTTG-A
1 ATAATTATAAATATATGCTTTTGGCATATGCATTTGAA
*
38014815 ATAATTATATATATA
1 ATAATTATAAATATA
38014830 ACTGCATTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 15 0.31
40 34 0.69
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (38 bp):
ATAATTATAAATATATGCTTTTGGCATATGCATTTGAA
Found at i:38016789 original size:25 final size:25
Alignment explanation
Indices: 38016752--38016830 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
38016742 TGAACCTCTA
*
38016752 ACCTCCTTACCACACCTGTGACACC
1 ACCTCCTTGCCACACCTGTGACACC
38016777 ACCTCCTTGCCACACCTGTGACACC
1 ACCTCCTTGCCACACCTGTGACACC
* *
38016802 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTGCCACACCTGTGACACC
38016827 ACCT
1 ACCT
38016831 TGCCACTACA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.19, C:0.48, G:0.11, T:0.22
Consensus pattern (25 bp):
ACCTCCTTGCCACACCTGTGACACC
Found at i:38023517 original size:17 final size:18
Alignment explanation
Indices: 38023497--38023539 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
38023487 CCAAAAATAA
*
38023497 TAATATTTTAA-TAAATT
1 TAATATTTAAATTAAATT
38023514 TAATA-TTAAATTAAATT
1 TAATATTTAAATTAAATT
*
38023531 AAATATTTA
1 TAATATTTA
38023540 TCTTGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATATTTAAATTAAATT
Found at i:38023606 original size:67 final size:66
Alignment explanation
Indices: 38023513--38023743 Score: 246
Period size: 67 Copynumber: 3.5 Consensus size: 66
38023503 TTTAATAAAT
38023513 TTAATATTAAATTAAA-TTAAATATTTATCTTGATAATATTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTAAATTTAAA-ATTTATCTT-ATAATATTTATTAATTTAATATTAAAGTGATT
38023577 ACC
64 ACC
** *
38023580 TTAATATTAAATTAAATTTAAAATTTATCTTATAGATAAATATT-CTATTAAT-TT-AA-TAGA-
1 TTAATATTAAATTAAATTTAAAATTTATCTTATA-ATATTTATTAAT-TTAATATTAAAGT-GAT
38023640 T---
63 TACC
* * * *
38023641 TTAATATTAAATTTAATCTAATACTTATTCTTATAAGTATCTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAAAATTTA-TCTTATAA-TAT-TTATTAATTTAATATTAAAGTGAT
*
38023706 CACC
63 TACC
*
38023710 TTAATATTAAATTAAATTTAATATTTATCTTATA
1 TTAATATTAAATTAAATTTAAAATTTATCTTATA
38023744 TATAAATATT
Statistics
Matches: 135, Mismatches: 14, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
61 24 0.18
62 9 0.07
63 9 0.07
64 5 0.04
65 8 0.06
66 7 0.05
67 37 0.27
68 12 0.09
69 24 0.18
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (66 bp):
TTAATATTAAATTAAATTTAAAATTTATCTTATAATATTTATTAATTTAATATTAAAGTGATTAC
C
Found at i:38023696 original size:130 final size:127
Alignment explanation
Indices: 38023503--38023833 Score: 490
Period size: 130 Copynumber: 2.6 Consensus size: 127
38023493 ATAATAATAT
* * *
38023503 TTTAATAAATTTAATATTAAATTAAATTAAATATTTATCTTGATAA-TATTTATTAATTTAATAT
1 TTTAATAGATTTAATATTAAATTTAATT-AATACTTATCTT-ATAAGTATTTATTAATTTAATAT
38023567 TAAAGTGATTACCTTAATATTAAATTAAATTTAAAATTTATCTTATAGATAAATATTCTATTAA
64 TAAAGTGATTACCTTAATATTAAATTAAATTTAAAATTTATCTTATAGATAAATATTCTATTAA
38023631 TTTAATAGATTTAATATTAAATTTAATCTAATACTTATTCTTATAAGTATCTTATTAATTTAATA
1 TTTAATAGATTTAATATTAAATTTAAT-TAATACTTA-TCTTATAAGTAT-TTATTAATTTAATA
* * *
38023696 TTAAAGTGATCACCTTAATATTAAATTAAATTTAATATTTATCTTATATATAAATATTCTATTAA
63 TTAAAGTGATTACCTTAATATTAAATTAAATTTAAAATTTATCTTATAGATAAATATTCTATTAA
* * *
38023761 TTTAATAGATTTAATATT-AATTTAATATAATACTTA--TAATAAGCATTAGATTAATTTAATAT
1 TTTAATAGATTTAATATTAAATTTAAT-TAATACTTATCTTATAAGTATT-TATTAATTTAATAT
38023823 TAAAGTGATTA
64 TAAAGTGATTA
38023834 AGTTTGATCT
Statistics
Matches: 187, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
125 1 0.01
126 31 0.17
128 36 0.19
129 25 0.13
130 94 0.50
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (127 bp):
TTTAATAGATTTAATATTAAATTTAATTAATACTTATCTTATAAGTATTTATTAATTTAATATTA
AAGTGATTACCTTAATATTAAATTAAATTTAAAATTTATCTTATAGATAAATATTCTATTAA
Done.