Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 106 of 214
Found at i:31673452 original size:40 final size:40
Alignment explanation
Indices: 31673391--31673637 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
31673381 CGGAATTTAG
* * * *
31673391 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
31673431 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
31673471 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
31673511 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
31673551 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
31673591 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
31673631 CCGGATA
1 CCGGATA
31673638 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:31682957 original size:16 final size:15
Alignment explanation
Indices: 31682932--31682965 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31682922 AACGTTGATA
*
31682932 ATAATTAATATATATT
1 ATAATAAATATA-ATT
31682948 ATAATAAATATAATT
1 ATAATAAATATAATT
31682963 ATA
1 ATA
31682966 TACTAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:31701427 original size:42 final size:41
Alignment explanation
Indices: 31701368--31701504 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 41
31701358 TGATTCCCCC
31701368 AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGA
1 AAGGGGTTGCTAAGTGCTGATCCCACCGTA-TTTAAATGTGA
*
31701410 AAGGGGTTGCTAAGTGCTGATTCC-CC------AAAT-T-A
1 AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTAAATGTGA
** *
31701442 CTGGTGGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTG-
1 AAGG-GGTTGCTAAGTGCTGATCCCACCGTAT-TTAAATGTGA
31701484 AAGGGGTTGCTAAGTGCTGAT
1 AAGGGGTTGCTAAGTGCTGAT
31701505 TCCCCGAATC
Statistics
Matches: 77, Mismatches: 7, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
32 3 0.04
33 20 0.26
34 5 0.06
41 23 0.30
42 26 0.34
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTAAATGTGA
Found at i:31701456 original size:33 final size:33
Alignment explanation
Indices: 31701414--31701536 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
31701404 ATGTGAAAGG
31701414 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
* *
31701447 GGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTGA-AGG-
1 GGTTGCTAAGTGCTGATTCC--C----C--AAAT-T-ACTGGT
* *
31701488 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
31701521 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
31701537 ATCCACCGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
31 1 0.01
32 2 0.03
33 38 0.53
35 2 0.03
39 2 0.03
41 23 0.32
42 3 0.04
43 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
Found at i:31701525 original size:74 final size:73
Alignment explanation
Indices: 31701266--31701544 Score: 345
Period size: 74 Copynumber: 3.8 Consensus size: 73
31701256 GAATACGAAG
* * *
31701266 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGGTGCTAAGTGCTGATTCCACCGTATCCT
1 GGGGTTGCTAAGTGCTGATTCCCCAA-TCACTGGTGGTTGCTAAGTGCTGATCCCACCGTAT-CT
* * *
31701331 TGAATATAAAA
64 TAAATGT-GAA
* * *
31701342 GGGGTTTGCTAAGTGTTGATTCCCC---CA-AGG-GGTTGCTAAGTGCTGATCCCACCGTATTTT
1 GGGG-TTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
31701402 AAATGTGAAA
65 AAATGTG-AA
* *
31701412 GGGGTTGCTAAGTGCTGATTCCCCAAATTACTGGTGGTTGCTAAGTGCTGATCCCATCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
31701477 AAATGTGAA
65 AAATGTGAA
31701486 GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTG-ATCCCACCG
31701545 ATAACGGATA
Statistics
Matches: 178, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
69 19 0.11
70 12 0.07
71 25 0.14
72 2 0.01
73 3 0.02
74 57 0.32
75 37 0.21
76 4 0.02
77 19 0.11
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (73 bp):
GGGGTTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
AATGTGAA
Found at i:31708005 original size:33 final size:33
Alignment explanation
Indices: 31707963--31708182 Score: 191
Period size: 33 Copynumber: 6.5 Consensus size: 33
31707953 ATACGAAGGG
31707963 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
31707996 GGTTGCTAAGTGTTGATTCCACCGTATCCTTGAATATAAATGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--C-T---CAT---TGGT
* *
31708040 GGATGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
31708067 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * * *
31708100 GGTTGCTAAGTGCTGATTCCTCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
31708133 GGTTGCTAAGTGCTGATTCCCCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
31708166 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
31708183 CCCACCGTAT
Statistics
Matches: 156, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
27 17 0.11
28 5 0.03
30 1 0.01
31 2 0.01
32 3 0.02
33 97 0.62
34 3 0.02
35 1 0.01
37 2 0.01
38 1 0.01
41 2 0.01
42 2 0.01
43 1 0.01
44 19 0.12
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:31716087 original size:21 final size:22
Alignment explanation
Indices: 31716055--31716115 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
31716045 TATGAAATAT
31716055 GAAAATAAATATATAAAAAT-TCA
1 GAAAA-AAATATATAAAAATCT-A
* *
31716078 G-AAAACATATGTATAAAATCTA
1 GAAAAAAATATATA-AAAATCTA
31716100 GAAAAAAATATATAAA
1 GAAAAAAATATATAAA
31716116 TTATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 12 0.39
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
GAAAAAAATATATAAAAATCTA
Found at i:31716512 original size:15 final size:15
Alignment explanation
Indices: 31716492--31716520 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31716482 GTCAATGATC
31716492 AGTCAACAACTAGTT
1 AGTCAACAACTAGTT
31716507 AGTCAACAACTAGT
1 AGTCAACAACTAGT
31716521 CAAAGTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
AGTCAACAACTAGTT
Found at i:31716561 original size:21 final size:21
Alignment explanation
Indices: 31716537--31716589 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
31716527 CAATAGTATT
31716537 TTTTAATATTTAAATATTTAA
1 TTTTAATATTTAAATATTTAA
***
31716558 TTTT-ATAATTTTTTTATTTAA
1 TTTTAAT-ATTTAAATATTTAA
*
31716579 ATTTAATATTT
1 TTTTAATATTT
31716590 TTATTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATATTTAAATATTTAA
Found at i:31716590 original size:21 final size:21
Alignment explanation
Indices: 31716551--31716591 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31716541 AATATTTAAA
*
31716551 TATTTAATTTTATAATTTTTT
1 TATTTAATTTAATAATTTTTT
31716572 TATTTAAATTTAAT-ATTTTT
1 TATTT-AATTTAATAATTTTT
31716592 ATTTTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTAATTTAATAATTTTTT
Found at i:31736882 original size:61 final size:61
Alignment explanation
Indices: 31736808--31736947 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 61
31736798 ATCAGTTTGA
* * * * ** * *
31736808 TCCTAAATATAAAAAGTTCAACAAATTTAGCTCTTAA-AGTTTACAAAATTTTTCATTTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATA-TTTACAAAATTAATAAATTTAG
* * * * *
31736869 TTCTAATTCTAAAAAATTCAATAAATTTGGCCCTCAATATTTACAAAATTAATAAATTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
31736930 TCCTAACTCTAAAAAGTT
1 TCCTAACTCTAAAAAGTT
31736948 AAAAATATTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
61 62 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (61 bp):
TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
Found at i:31740543 original size:45 final size:45
Alignment explanation
Indices: 31740479--31740571 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
31740469 ACAGATACTT
* * * *
31740479 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
*
31740524 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTTC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
31740569 GGT
1 GGT
31740572 TCACATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
Found at i:31740638 original size:51 final size:50
Alignment explanation
Indices: 31740568--31740763 Score: 205
Period size: 51 Copynumber: 3.9 Consensus size: 50
31740558 CAATCATGTT
* * *
31740568 CGGTTCACATAGTAGCCTGCACATAGTACTAGACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
31740619 CGGTACACGTAGTAACCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
** ** * *
31740670 CGGTATGCATAGTAGCCTGCACATAGTACTACACTTGCGACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* **
31740720 TGGTACATGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
31740764 CACTTTCACT
Statistics
Matches: 115, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 37 0.32
51 74 0.64
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:31740751 original size:101 final size:101
Alignment explanation
Indices: 31740575--31740759 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
31740565 GTTCGGTTCA
* *
31740575 CATAGTAGCCTGCACATAGTACTAGACATGTGACCATTACCATCCGGTACACGTAGTAACCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGGTACACGTAGTAACCTGCA
31740640 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
* * * * *
31740677 CATAGTAGCCTGCACATAGTACTACACTTGCGACC-TATCATTCTGGTACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGGTACACGTAGTAACCTGCA
31740741 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31740760 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGGTACACGTAGTAACCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTATG
Found at i:31749714 original size:9 final size:9
Alignment explanation
Indices: 31749700--31749737 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
31749690 TGAGTTTCAA
31749700 AAAAAAATC
1 AAAAAAATC
31749709 AAAAAAATC
1 AAAAAAATC
31749718 --AAAAATC
1 AAAAAAATC
*
31749725 AAAAAAATG
1 AAAAAAATC
31749734 AAAA
1 AAAA
31749738 TGAAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:31749723 original size:16 final size:16
Alignment explanation
Indices: 31749702--31749737 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
31749692 AGTTTCAAAA
31749702 AAAAATCAAAAAAATC
1 AAAAATCAAAAAAATC
*
31749718 AAAAATCAAAAAAATG
1 AAAAATCAAAAAAATC
31749734 AAAA
1 AAAA
31749738 TGAAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAATCAAAAAAATC
Found at i:31750678 original size:47 final size:46
Alignment explanation
Indices: 31750608--31750697 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
31750598 AAGGAGAGGG
** *
31750608 GACCAAGGTGAAAACCCGTAAAGGACGCTTTGATTCCTAAAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCC-AAAAAAAAA
* * * *
31750655 GACCAATGTGAAAACTCACAAAGGGCGTTTTGAGTCCAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAA
31750698 TAATAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 6 0.17
47 30 0.83
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAAAAA
Found at i:31753057 original size:45 final size:45
Alignment explanation
Indices: 31752015--31753035 Score: 1459
Period size: 45 Copynumber: 22.7 Consensus size: 45
31752005 TTGAAAACAA
* * ** *
31752015 CAGATCTTGTCTTCTTGTATTGGTAATGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752060 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752105 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
31752150 AAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
31752195 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
31752240 CAGACCTTGTCTTCCTGTATTGGCAGCGAAGAAGATCGAAGCTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
31752285 CAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** *
31752330 CAGATCTTGTCTTCCTATATTGGCAATGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
**
31752375 CAGATCTTGTCTT-CTAGTATTGGCAGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATCGAAGATAG
*
31752420 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
31752465 CAAATCTTGCCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
31752510 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
31752555 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGAAGATCGTAGTTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752600 CAAATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
**
31752645 CAGATCTTGTCTTCCTGTATTGATAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** * *
31752690 CAGATCTTGTCTTCCTGTACTGTTAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
31752735 CATATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCGAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752780 CAGATCTTGTATTCCTATATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752825 CAGATCTTGTCTTTCTGTATTAGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
31752870 CAGATCTTGTCTTCCTGTATTGGCAACGAAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* **
31752915 CAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
31752960 TAGATTTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAATATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
31753005 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
31753036 CAAATTGAAT
Statistics
Matches: 875, Mismatches: 99, Indels: 4
0.89 0.10 0.00
Matches are distributed among these distances:
44 2 0.00
45 871 1.00
46 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:31762246 original size:138 final size:138
Alignment explanation
Indices: 31761993--31762274 Score: 537
Period size: 138 Copynumber: 2.0 Consensus size: 138
31761983 AAATTTCTCT
*
31761993 AAACATTCATTTGTTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
1 AAAC-TTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
*
31762058 TTTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGT
65 TTTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGT
31762123 ATTGAATGA
130 ATTGAATGA
31762132 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
1 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
31762197 TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
66 TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
31762262 TTGAATGA
131 TTGAATGA
31762270 AAACT
1 AAACT
31762275 GAACACCAGG
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 137 0.97
139 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (138 bp):
AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
TTGAATGA
Found at i:31764311 original size:20 final size:20
Alignment explanation
Indices: 31764286--31764323 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31764276 ACCCCCTTTA
31764286 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
31764306 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
31764324 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:31768852 original size:20 final size:20
Alignment explanation
Indices: 31768827--31768866 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31768817 CAAGAAACGT
31768827 TAGGATGATTACGCCATGAA
1 TAGGATGATTACGCCATGAA
31768847 TAGGATGATTACGCCATGAA
1 TAGGATGATTACGCCATGAA
31768867 GGATTGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
TAGGATGATTACGCCATGAA
Found at i:31770687 original size:19 final size:19
Alignment explanation
Indices: 31770659--31770707 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
31770649 TAAGAGCTAA
*
31770659 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
31770678 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
31770697 G-GATGATGAGA
1 GAGA-GATGAGA
31770708 AATGAGCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.16
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:31772533 original size:16 final size:16
Alignment explanation
Indices: 31772509--31772543 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31772499 CAAGCCATAA
*
31772509 GGTTGAATAAAATGCT
1 GGTTAAATAAAATGCT
*
31772525 GGTTAAATAAAATGTT
1 GGTTAAATAAAATGCT
31772541 GGT
1 GGT
31772544 GTTGCGACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (16 bp):
GGTTAAATAAAATGCT
Found at i:31774666 original size:37 final size:38
Alignment explanation
Indices: 31774610--31774696 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
31774600 TTAAATTTAA
31774610 TATTAAGATAATCAATTTAATATTAAA-TTAATA-AAATAC
1 TATTAAGATAA-CAATTTAA-ATTAAATTTAATATAAA-AC
* *
31774649 TATTAAGATAA-ATTTTAAATTAAATTTAATATTAAAC
1 TATTAAGATAACAATTTAAATTAAATTTAATATAAAAC
*
31774686 TATTAAAATAA
1 TATTAAGATAA
31774697 TATTATTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
36 6 0.14
37 24 0.56
38 2 0.05
39 11 0.26
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (38 bp):
TATTAAGATAACAATTTAAATTAAATTTAATATAAAAC
Found at i:31774673 original size:68 final size:69
Alignment explanation
Indices: 31774556--31774683 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 69
31774546 ACTTAACCAC
* *
31774556 TTTAATATTAAATTAATATAATATTTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
31774621 TCAA
66 TCAA
* * *
31774625 TTTAATATTAAATTAATAAAATA-CTATTAAGATAAATTTTAAATTAAATTTAATATTAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAA
31774684 ACTATTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 32 0.59
69 22 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (69 bp):
TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
TCAA
Found at i:31784290 original size:20 final size:22
Alignment explanation
Indices: 31784263--31784318 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
31784253 CCTAATCAGT
*
31784263 ATACGACACATAAGTGCCT-GA
1 ATACGACACATAAGTGCCTAAA
*
31784284 A-ACGACACACAAAGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
31784306 ATACGACACATAA
1 ATACGACACATAA
31784319 AGTGTCTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 8 0.28
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:31784300 original size:21 final size:22
Alignment explanation
Indices: 31784263--31784327 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
31784253 CCTAATCAGT
*
31784263 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
*
31784284 A-ACGACACACAAAGTGCCTAAA
1 ATACGACACACAAAGTGCCT-GA
* *
31784306 ATACGACACATAAAGTGTCTGA
1 ATACGACACACAAAGTGCCTGA
31784328 TTGGCAAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.22
21 9 0.25
22 3 0.08
23 16 0.44
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:31784681 original size:26 final size:25
Alignment explanation
Indices: 31784650--31784699 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31784640 TAGTTCAATA
31784650 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
31784676 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
31784700 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:31784973 original size:22 final size:22
Alignment explanation
Indices: 31784945--31784989 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
31784935 CTCGTGTCTA
31784945 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
31784967 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
31784989 C
1 C
31784990 CTTTCTTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.38, G:0.04, T:0.53
Consensus pattern (22 bp):
CTCCTCGTCCACTTTTTCTTTT
Found at i:31800596 original size:16 final size:16
Alignment explanation
Indices: 31800571--31800607 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31800561 ATCACGATCT
*
31800571 TTACTTTCTTCTTTAC
1 TTACTCTCTTCTTTAC
*
31800587 TTACTCTCTTGTTTAC
1 TTACTCTCTTCTTTAC
31800603 TTACT
1 TTACT
31800608 TGCTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.03, T:0.59
Consensus pattern (16 bp):
TTACTCTCTTCTTTAC
Found at i:31802667 original size:11 final size:11
Alignment explanation
Indices: 31802644--31802672 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31802634 TGAAGATGGT
31802644 TGTTTTG-GCA
1 TGTTTTGAGCA
31802654 TGTTTTGAGCA
1 TGTTTTGAGCA
31802665 TGTTTTGA
1 TGTTTTGA
31802673 ATAGGTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (11 bp):
TGTTTTGAGCA
Found at i:31802982 original size:21 final size:21
Alignment explanation
Indices: 31802946--31802988 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
31802936 GGTGTGTGAA
31802946 ATAGCACACAAGCATGT-AAG
1 ATAGCACACAAGCATGTCAAG
31802966 ATAGTCACAC-AGCCATGTCAAG
1 ATAG-CACACAAG-CATGTCAAG
31802988 A
1 A
31802989 ACCACACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (21 bp):
ATAGCACACAAGCATGTCAAG
Found at i:31811183 original size:27 final size:27
Alignment explanation
Indices: 31811153--31811330 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
31811143 ATATTGAGCC
* *
31811153 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
31811180 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31811207 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31811235 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31811262 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
31811289 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
31811316 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31811331 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31811265 original size:55 final size:54
Alignment explanation
Indices: 31811153--31811330 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
31811143 ATATTGAGCC
* * * * *
31811153 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
31811207 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
31811262 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
31811316 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31811331 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:31819189 original size:27 final size:27
Alignment explanation
Indices: 31819159--31819336 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
31819149 ATATTGAGCC
* *
31819159 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
31819186 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31819213 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31819241 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31819268 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
31819295 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
31819322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31819337 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31819271 original size:55 final size:54
Alignment explanation
Indices: 31819159--31819336 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
31819149 ATATTGAGCC
* * * * *
31819159 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
31819213 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
31819268 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
31819322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31819337 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:31821493 original size:28 final size:27
Alignment explanation
Indices: 31821430--31821581 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
31821420 ATATTAAGTC
* * *
31821430 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
31821457 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
31821485 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
31821512 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
31821540 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
31821567 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31821582 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31821514 original size:55 final size:55
Alignment explanation
Indices: 31821430--31821581 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
31821420 ATATTAAGTC
* * *
31821430 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
31821485 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
31821540 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
31821582 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:31822074 original size:12 final size:12
Alignment explanation
Indices: 31822057--31822082 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31822047 ATGGCATACT
31822057 TATGTATATATA
1 TATGTATATATA
31822069 TATGTATATATA
1 TATGTATATATA
31822081 TA
1 TA
31822083 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:31822350 original size:17 final size:17
Alignment explanation
Indices: 31822328--31822363 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
31822318 AACACTTAAT
31822328 TTCCACCACATAAACAC
1 TTCCACCACATAAACAC
31822345 TTCCACCACATAAACAC
1 TTCCACCACATAAACAC
31822362 TT
1 TT
31822364 GGCCGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (17 bp):
TTCCACCACATAAACAC
Found at i:31823842 original size:17 final size:17
Alignment explanation
Indices: 31823820--31823852 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31823810 ACATATATGG
*
31823820 ATTGAATCCCAAAATTT
1 ATTGAAACCCAAAATTT
31823837 ATTGAAACCCAAAATT
1 ATTGAAACCCAAAATT
31823853 AACAAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTGAAACCCAAAATTT
Found at i:31825357 original size:24 final size:24
Alignment explanation
Indices: 31825328--31825382 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
31825318 GGATAGGAAA
* *
31825328 GAAAAAAATAAGTTAGGGATTTAGG
1 GAAAAAACTAAGCTAGGGATTT-GG
31825353 GAAAAAACTAAGCTAGGGATTTGG
1 GAAAAAACTAAGCTAGGGATTTGG
*
31825377 GTAAAA
1 GAAAAA
31825383 TGATTTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (24 bp):
GAAAAAACTAAGCTAGGGATTTGG
Found at i:31827329 original size:24 final size:25
Alignment explanation
Indices: 31827289--31827335 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
31827279 AAATTTTGGA
*
31827289 AAGAATTTTTCAGAAAC-ACTTTTG
1 AAGAATTCTTCAGAAACAACTTTTG
31827313 AAGAATTCCTTCA-AAACAACTTT
1 AAGAATT-CTTCAGAAACAACTTT
31827336 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (25 bp):
AAGAATTCTTCAGAAACAACTTTTG
Found at i:31838266 original size:19 final size:19
Alignment explanation
Indices: 31838242--31838284 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
31838232 CACGTTCAAA
* *
31838242 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
31838261 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
31838279 ATTTTA
1 ATTTTA
31838285 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:31838519 original size:41 final size:43
Alignment explanation
Indices: 31838411--31838519 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
31838401 AAATATTCGT
* *
31838411 GGCGTTTATGGGGAAAACGCTGCTATTGTTGTTATACCTTTATC
1 GGCGTTTATGGGAAAAACGC-GCTATTGTTATTATACCTTTATC
* *
31838455 GGAGTTTA-GGGAAAAATGACGCTA-T-TTATT-TACCTTTCA-C
1 GGCGTTTATGGGAAAAACG-CGCTATTGTTATTATACCTTT-ATC
31838495 GGCGTTTATGGGAAAAACGTCGCTA
1 GGCGTTTATGGGAAAAACG-CGCTA
31838520 ACACTGCTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
40 15 0.27
41 19 0.35
42 1 0.02
43 12 0.22
44 8 0.15
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
GGCGTTTATGGGAAAAACGCGCTATTGTTATTATACCTTTATC
Found at i:31846612 original size:70 final size:70
Alignment explanation
Indices: 31846532--31846673 Score: 250
Period size: 70 Copynumber: 2.0 Consensus size: 70
31846522 CAAAATAATT
*
31846532 GTTAGTGCAAGAAAATC-TGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAA
1 GTTAGAGCAAGAAAA-CGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAA
31846596 ATTTCA
65 ATTTCA
*
31846602 GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATATAACAATTCAAA
1 GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAAA
31846667 TTTCA
66 TTTCA
31846672 GT
1 GT
31846674 CAGCTTGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
69 1 0.01
70 68 0.99
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.30
Consensus pattern (70 bp):
GTTAGAGCAAGAAAACGTGGGTTCAAATATGCTAAGATTGTGAAGAAATTATAGAACAATTCAAA
TTTCA
Found at i:31847066 original size:23 final size:23
Alignment explanation
Indices: 31847040--31847129 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
31847030 GAAAAGTTAA
31847040 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
31847063 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
31847086 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
31847105 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
31847128 AA
1 AA
31847130 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:31851607 original size:23 final size:23
Alignment explanation
Indices: 31851581--31851670 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
31851571 GAAAAGTTAA
31851581 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
31851604 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
31851627 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
31851646 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
31851669 AA
1 AA
31851671 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:31851659 original size:42 final size:42
Alignment explanation
Indices: 31851600--31851683 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
31851590 GAGACTTGAA
31851600 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
31851642 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
31851684 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:31852167 original size:6 final size:6
Alignment explanation
Indices: 31852156--31852195 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
31852146 AGAGCCTCGA
31852156 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
31852196 GATTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:31854391 original size:13 final size:13
Alignment explanation
Indices: 31854373--31854399 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31854363 CATTTTTAAG
31854373 TCATTTTCATTTT
1 TCATTTTCATTTT
31854386 TCATTTTCATTTT
1 TCATTTTCATTTT
31854399 T
1 T
31854400 GAGAAAACCA
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:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:31854450 original size:6 final size:6
Alignment explanation
Indices: 31854427--31854473 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
31854417 TTTCAAATAA
31854427 TTTCAT TTCTCTAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-TC-AT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
31854474 AGAGAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 31 0.79
7 4 0.10
8 4 0.10
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:31854523 original size:75 final size:76
Alignment explanation
Indices: 31854373--31854517 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 76
31854363 CATTTTTAAG
* * *
31854373 TCATTTTCATTTTTCATTTTCATTTTTGAGAAAACCACATTCATTTTCAAATAATTTCATTTCTC
1 TCATTTTCATTTTTCATTTTCATTTTAGAGAAAACCACATTCATTTCCAAATAATTTCATTTATC
*
31854438 TATTTTCATTT
66 CATTTTCATTT
*
31854449 TCATTTTCA-TTTTCATTTTCATTTTAGAG-AAA-TA-A-TCATTTCCAAAT-ATTTCAAATTTA
1 TCATTTTCATTTTTCATTTTCATTTTAGAGAAAACCACATTCATTTCCAAATAATTTC--ATTTA
31854508 TCCATTTTCA
64 TCCATTTTCA
31854518 CCATTTCTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
70 5 0.08
71 11 0.18
72 14 0.23
73 1 0.02
74 3 0.05
75 19 0.31
76 9 0.15
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.52
Consensus pattern (76 bp):
TCATTTTCATTTTTCATTTTCATTTTAGAGAAAACCACATTCATTTCCAAATAATTTCATTTATC
CATTTTCATTT
Found at i:31855397 original size:30 final size:30
Alignment explanation
Indices: 31855363--31855425 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
31855353 ACTTAACAAG
31855363 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
31855393 CAAATGCCTTTAAAATAATATCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
31855423 CAA
1 CAA
31855426 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:31855480 original size:22 final size:22
Alignment explanation
Indices: 31855455--31855497 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31855445 TATCCAAACA
31855455 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
31855477 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
31855498 AATAGGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:31855501 original size:11 final size:11
Alignment explanation
Indices: 31855462--31855502 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
31855452 ACAATAACAA
31855462 CAAAATAGTAG
1 CAAAATAGTAG
* *
31855473 CAACATAATAG
1 CAAAATAGTAG
*
31855484 TAAAATAGTAG
1 CAAAATAGTAG
31855495 CAAAATAG
1 CAAAATAG
31855503 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:31861130 original size:37 final size:36
Alignment explanation
Indices: 31861089--31861272 Score: 141
Period size: 37 Copynumber: 5.2 Consensus size: 36
31861079 GCTTAGCTTG
31861089 GCTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
31861126 GCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
* ** * * * * * *
31861163 ACTAACCTTTAATCA-T-CAGTTGGGAACGT-ACGTCC
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAAC-TCA
**
31861198 GC-AAGCT---ATTTC-GGAGTTGCGAGCTTAACTCA
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAACTCA
*
31861230 ACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
*
31861267 TCTAAC
1 GCTAAC
31861273 CTTTAATCAT
Statistics
Matches: 113, Mismatches: 23, Indels: 22
0.72 0.15 0.14
Matches are distributed among these distances:
31 2 0.02
32 14 0.12
33 4 0.04
34 6 0.05
35 14 0.12
36 4 0.04
37 63 0.56
38 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (36 bp):
GCTAACTCAAATAACTGGAGTTGCGAGCTTAACTCA
Found at i:31861289 original size:104 final size:104
Alignment explanation
Indices: 31861109--31861296 Score: 340
Period size: 104 Copynumber: 1.8 Consensus size: 104
31861099 ATAACTGGAG
* *
31861109 GTTGCGAGCTTAACTCAGCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCAACTAACCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
31861174 ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
66 ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
*
31861213 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCATCTAACCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
*
31861278 ATCATTAGTTGGGAACGTA
66 ATCATCAGTTGGGAACGTA
31861297 AGTGTAACAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (104 bp):
GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
ATCATCAGTTGGGAACGTACGTCCGCAAGCTATTTCGGA
Found at i:31861993 original size:6 final size:6
Alignment explanation
Indices: 31861973--31862013 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
31861963 TATGCAAATT
*
31861973 AAAAAG -AAAAG --AAAG AAAAAG AAAAAG AAAAAG AGAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
31862014 GAGAGGAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 22 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31862500 original size:9 final size:9
Alignment explanation
Indices: 31862480--31862522 Score: 77
Period size: 9 Copynumber: 4.7 Consensus size: 9
31862470 TTGTGTTGTA
31862480 TTAATGTATT
1 TTAAT-TATT
31862490 TTAATTATT
1 TTAATTATT
31862499 TTAATTATT
1 TTAATTATT
31862508 TTAATTATT
1 TTAATTATT
31862517 TTAATT
1 TTAATT
31862523 TCGTAGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 28 0.85
10 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTAATTATT
Found at i:31864678 original size:6 final size:6
Alignment explanation
Indices: 31864669--31864700 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
31864659 TGCTGATGCA
31864669 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
31864701 ATAGTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTGTT
Found at i:31866864 original size:26 final size:25
Alignment explanation
Indices: 31866828--31866902 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
31866818 GTAGCTTCGG
31866828 AGAGCCGTTAATCGAGAAGCTCACAA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
31866854 AGAGCCTTTAATCGAAAAGCTCACGA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
31866880 AGAGCCATATATCGAGACGCTCA
1 AGAGCCTTA-ATCGAGAAGCTCA
31866903 TAAGAGCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAGCCTTAATCGAGAAGCTCACAA
Found at i:31868557 original size:20 final size:20
Alignment explanation
Indices: 31868532--31868570 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31868522 TGAGTTATTT
31868532 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
31868552 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
31868571 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:31868638 original size:66 final size:66
Alignment explanation
Indices: 31868566--31868699 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
31868556 AAGAGAGTAA
31868566 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
31868631 T
66 T
31868632 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
31868697 T
66 T
31868698 GT
1 GT
31868700 TGTTATTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (66 bp):
GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
T
Found at i:31870297 original size:21 final size:21
Alignment explanation
Indices: 31870273--31870312 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31870263 GTAAATTTAG
*
31870273 ATCAATTTAATACAATTCATA
1 ATCAATTCAATACAATTCATA
*
31870294 ATCAATTCAATTCAATTCA
1 ATCAATTCAATACAATTCA
31870313 CATCTTAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
ATCAATTCAATACAATTCATA
Found at i:31876778 original size:16 final size:17
Alignment explanation
Indices: 31876747--31876780 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31876737 TTTAAATTCA
31876747 GAATAAATTGTGTCTTT
1 GAATAAATTGTGTCTTT
*
31876764 GAATCAATT-TGTCTTT
1 GAATAAATTGTGTCTTT
31876780 G
1 G
31876781 GCTTCATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (17 bp):
GAATAAATTGTGTCTTT
Found at i:31879171 original size:26 final size:26
Alignment explanation
Indices: 31879125--31879174 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
31879115 TGCATTGTCC
*
31879125 CTAATGCAAAAGAAAATTAAAAACTA
1 CTAATGCAAAAGAAAAATAAAAACTA
*
31879151 CTAATG-AAAATAAACAATAAAAAC
1 CTAATGCAAAAGAAA-AATAAAAAC
31879175 GTAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (26 bp):
CTAATGCAAAAGAAAAATAAAAACTA
Found at i:31894912 original size:18 final size:18
Alignment explanation
Indices: 31894879--31894917 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
31894869 TTAATTAAAC
31894879 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
31894898 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
31894915 AAA
1 AAA
31894918 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:31895998 original size:16 final size:15
Alignment explanation
Indices: 31895924--31895998 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 15
31895914 AACGTATTGT
*
31895924 ATTGAATTGAATTGTG
1 ATTGAATTGAA-AGTG
* *
31895940 ATTAAATTGGAA-TG
1 ATTGAATTGAAAGTG
31895954 ATTTGAATTGAAAGT-
1 A-TTGAATTGAAAGTG
31895969 A-TG-A--GAAAGTG
1 ATTGAATTGAAAGTG
31895980 ATTGAATTGAAATGTG
1 ATTGAATTGAAA-GTG
31895996 ATT
1 ATT
31895999 CGGAAACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
10 6 0.13
11 1 0.02
12 3 0.07
13 3 0.07
14 3 0.07
15 14 0.30
16 16 0.35
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (15 bp):
ATTGAATTGAAAGTG
Found at i:31915496 original size:40 final size:40
Alignment explanation
Indices: 31915419--31915560 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
31915409 AAACCAAGTA
** * *
31915419 CCTTCGGGGTTTAGCCC-GATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
31915458 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
31915498 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
31915538 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
31915561 CATCCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.16
40 81 0.84
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:31918611 original size:27 final size:26
Alignment explanation
Indices: 31918574--31918739 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
31918564 AGCATGGCTG
** *
31918574 CCAGAACAGATAATGTAACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31918600 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
31918628 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
31918655 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
31918682 CCAGAGCAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
31918709 CCAGATCAGATATTTATGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
31918736 CCAG
1 CCAG
31918740 GACGCTTCCT
Statistics
Matches: 126, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.06
27 101 0.80
28 18 0.14
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31918633 original size:54 final size:54
Alignment explanation
Indices: 31918574--31918739 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
31918564 AGCATGGCTG
** *
31918574 CCAGAACAGATA-ATGTAACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
31918628 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * ** *
31918682 CCAGAGCAGATATATGTGGCAGAGCCACCAGATCAGATATTTATGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
31918736 CCAG
1 CCAG
31918740 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 86 0.83
55 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:31918709 original size:81 final size:81
Alignment explanation
Indices: 31918574--31918739 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
31918564 AGCATGGCTG
*
31918574 CCAGAACAGATAATGTAACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 CCAGAACAGATAATGTAACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
*
31918639 ATATGTGGCAGAGCCA
66 ATATATGGCAGAGCCA
* ** * *
31918655 CCAGATCAGATAATCGTGGCAGAGCCACCAGA-GCAGATATAT-GTGGCAGAGCCACCAGATCAG
1 CCAGAACAGATAAT-GTAACAGAGCCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGAACAG
* *
31918718 ATATTTATGGCATAGCCA
64 ATATATATGGCAGAGCCA
31918736 CCAG
1 CCAG
31918740 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (81 bp):
CCAGAACAGATAATGTAACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
ATATATGGCAGAGCCA
Found at i:31920353 original size:26 final size:26
Alignment explanation
Indices: 31920322--31920427 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
31920312 TGAAATGTCC
31920322 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
31920348 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
31920374 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
31920400 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31920426 AT
1 AT
31920428 TAATTTGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31920949 original size:5 final size:5
Alignment explanation
Indices: 31920939--31920966 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31920929 CTATGTGTTC
31920939 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
31920967 TTACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:31938259 original size:91 final size:91
Alignment explanation
Indices: 31938101--31938277 Score: 309
Period size: 91 Copynumber: 1.9 Consensus size: 91
31938091 TAATCTGAAT
* * *
31938101 GCCTAAATGTGGGCGTAAGATCATTAAGGCCGGCCATGAGCGATCTCCTGGCCTAAGGCCGAGTT
1 GCCTAAACGTGGGCGTAAGATCATTAAGGCCGGCCATGAGCGATCTCCTAGCCTAAGGCCGAATT
*
31938166 GGGCCTTGGTGGGCCAAAACGGGAAC
66 GGGCCATGGTGGGCCAAAACGGGAAC
*
31938192 GCCTAAACGTGGGCGTAAGATCATTACGGCCGGCCATGAGCGATCTCCTAGCCTAAGGCCGAATT
1 GCCTAAACGTGGGCGTAAGATCATTAAGGCCGGCCATGAGCGATCTCCTAGCCTAAGGCCGAATT
31938257 GGGCCATGGTGGGCCAAAACG
66 GGGCCATGGTGGGCCAAAACG
31938278 AGCTGTGTGG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.18
Consensus pattern (91 bp):
GCCTAAACGTGGGCGTAAGATCATTAAGGCCGGCCATGAGCGATCTCCTAGCCTAAGGCCGAATT
GGGCCATGGTGGGCCAAAACGGGAAC
Found at i:31938924 original size:34 final size:34
Alignment explanation
Indices: 31938866--31938930 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
31938856 TTATCGACAC
* *
31938866 TGTAATGGGCTAAGGTCCACACTGATACTGATAT
1 TGTAATGGGCTAAGGCCCACACTGAAACTGATAT
31938900 TGTAATGGGCTAAGGCCCTA-ACTGAAACTGA
1 TGTAATGGGCTAAGGCCC-ACACTGAAACTGA
31938931 ACTGTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (34 bp):
TGTAATGGGCTAAGGCCCACACTGAAACTGATAT
Found at i:31945980 original size:17 final size:17
Alignment explanation
Indices: 31945960--31946005 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
31945950 AAATGGGCCG
* *
31945960 TGTGGGCCCCACGATTA
1 TGTGAGCCCCACGAGTA
*
31945977 TGTGAGCCCCACGGGTA
1 TGTGAGCCCCACGAGTA
31945994 TGTGAGCCCCAC
1 TGTGAGCCCCAC
31946006 ATAGGTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (17 bp):
TGTGAGCCCCACGAGTA
Found at i:31961819 original size:40 final size:40
Alignment explanation
Indices: 31961789--31961998 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
31961779 GGACTAAGAT
* * * **
31961789 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
31961829 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
31961869 TCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
31961909 CCGAAGGCATTCGTGCGAGTTGTTAAATCCAGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
31961949 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
31961988 CCGAAGGCATT
1 CCGAAGGCATT
31961999 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 32 0.21
40 123 0.79
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:31963984 original size:40 final size:40
Alignment explanation
Indices: 31963886--31964148 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
31963876 TCCTCGTTCA
* * * * *
31963886 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31963925 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
31963965 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31964005 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31964045 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
31964085 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31964125 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31964149 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31964157 original size:41 final size:41
Alignment explanation
Indices: 31964080--31964157 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31964070 TTAGTATCTC
* * *
31964080 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31964121 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31964158 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31979531 original size:26 final size:26
Alignment explanation
Indices: 31979502--31979609 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
31979492 TGGTACAAAT
*
31979502 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
31979528 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
31979554 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
31979580 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
31979606 TGAT
1 TGAT
31979610 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:31981231 original size:27 final size:27
Alignment explanation
Indices: 31981191--31981337 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
31981181 AGGAAGCGTC
*
31981191 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
31981218 CTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
31981245 CTAGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
31981272 CTGGTAGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
31981299 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
*
31981327 CTGGTGACTCT
1 CTGGTGGCTCT
31981338 ATCACATTGT
Statistics
Matches: 99, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 88 0.89
28 11 0.11
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:31981350 original size:27 final size:27
Alignment explanation
Indices: 31981210--31981356 Score: 113
Period size: 27 Copynumber: 5.4 Consensus size: 27
31981200 ATGCCACAAA
* * *
31981210 TATCTGATCTGGTGGCTCTGCCAC-AT
1 TATCTGTTCTGGTGACTCTACCACGAT
* * * *
31981236 ATATCTGCTCTAGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGACTCTACCACGAT
* *
31981264 TATCTGATCTGGT-AGCTCTGCCAC-AT
1 TATCTGTTCTGGTGA-CTCTACCACGAT
* *
31981290 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGACTCTACCACGAT
*
31981318 TATCTGTATCTGGTGACTCTATCAC-AT
1 TATCTGT-TCTGGTGACTCTACCACGAT
*
31981345 TGTCTGTTCTGG
1 TATCTGTTCTGG
31981357 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
26 7 0.07
27 78 0.76
28 18 0.17
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
TATCTGTTCTGGTGACTCTACCACGAT
Found at i:31981351 original size:54 final size:54
Alignment explanation
Indices: 31981191--31981356 Score: 219
Period size: 54 Copynumber: 3.1 Consensus size: 54
31981181 AGGAAGCGTC
* * * * *
31981191 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
*
31981245 CTAGTGGCTCTGCCACGATTATCTGATCTGGT-AGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGA-CTCTGCCACATATATCTGTT
** *
31981299 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TGTCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
31981353 CTGG
1 CTGG
31981357 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
54 82 0.83
55 16 0.16
56 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:31981356 original size:81 final size:81
Alignment explanation
Indices: 31981191--31981365 Score: 201
Period size: 81 Copynumber: 2.2 Consensus size: 81
31981181 AGGAAGCGTC
* * *
31981191 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGCTCTAGTGGCTCT
1 CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGATCTAGTGACTCT
*
31981256 GCCACGATTATCTGAT
66 ACCACGATTATCTGAT
* * * *
31981272 CTGGTAGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTG-ATCTAGTGACT
* * *
31981336 CTATCAC-ATTGTCTGTT
64 CTACCACGATTATCTGAT
* *
31981353 CTGGCAGCCATGC
1 CTGGTAGCTATGC
31981366 TGCAAATTCT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 63 0.81
82 15 0.19
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (81 bp):
CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGATCTAGTGACTCT
ACCACGATTATCTGAT
Found at i:31984724 original size:45 final size:45
Alignment explanation
Indices: 31984660--31984842 Score: 140
Period size: 45 Copynumber: 4.1 Consensus size: 45
31984650 GAGTAGGTTA
** * * *
31984660 ATCATGATTCAAACAAGTAAGACCAT-AGTTGAAAGATGTTATGAC
1 ATCATGATTCAAATGAGTAAGACCATAACTT-AAAGACGCTATGAC
*
31984705 ATCATGATTCAAATGAGTAAGACCATAACTTAAAGACGCTATGGC
1 ATCATGATTCAAATGAGTAAGACCATAACTTAAAGACGCTATGAC
*** * * * *
31984750 ATCATGACGGAAGTGAGTAAGACCATGACTGAAAGACGTTAT-AGC
1 ATCATGATTCAAATGAGTAAGACCATAACTTAAAGACGCTATGA-C
* * * * *
31984795 ATTATG-GT-AAATAGGACTAAGACCATACCTGAAAGACGCTATGAC
1 ATCATGATTCAAAT--GAGTAAGACCATAACTTAAAGACGCTATGAC
31984840 ATC
1 ATC
31984843 CTTTGATAGT
Statistics
Matches: 110, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
43 3 0.03
45 103 0.94
46 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (45 bp):
ATCATGATTCAAATGAGTAAGACCATAACTTAAAGACGCTATGAC
Found at i:31986071 original size:27 final size:27
Alignment explanation
Indices: 31986037--31986106 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
31986027 TCGTAGGGCA
31986037 AATA-AGTCATTTTACCTTACAAGGGT
1 AATACAGTCATTTTACCTTACAAGGGT
*
31986063 AATACAGTCATTTTACCTTACAGGGGT
1 AATACAGTCATTTTACCTTACAAGGGT
31986090 AATAC-GATCATTTTACC
1 AATACAG-TCATTTTACC
31986107 CTATCGGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (27 bp):
AATACAGTCATTTTACCTTACAAGGGT
Found at i:31986197 original size:53 final size:54
Alignment explanation
Indices: 31986101--31986206 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 54
31986091 ATACGATCAT
* * * *
31986101 TTTACCCTATCGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTGGTCAA
1 TTTACCCTATCGGGGAATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCAA
*
31986155 TTTACCCTAT-GGGGAATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCA
1 TTTACCCTATCGGGGAATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCA
31986207 CCATTTCGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 37 0.79
54 10 0.21
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (54 bp):
TTTACCCTATCGGGGAATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCAA
Found at i:31986206 original size:27 final size:27
Alignment explanation
Indices: 31986069--31986206 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
31986059 GGGTAATACA
* ** * *
31986069 GTCATTTTACCTTACAGGGGTAATACG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
31986096 ATCATTTTACCCTATCGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
31986123 GTCATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
31986150 GTCAATTTACCCTAT-GGGGAATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
31986176 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
31986203 GTCA
1 GTCA
31986207 CCATTTCGGC
Statistics
Matches: 90, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 21 0.23
27 69 0.77
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:31991786 original size:46 final size:46
Alignment explanation
Indices: 31991691--31991812 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
31991681 TAAGAGCCAA
* *
31991691 TGTAAGACCATGTCTGGGACACAGCATCAGCATCGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACA-TGCATCGGCATCGAGACGAGTGCTAG
* *
31991739 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC-A-TAAGTTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGT--GCTAG
* * *
31991785 TGTAACACATGTTTGGGACATGTATCGG
1 TGTAAGACATGTCTGGGACATGCATCGG
31991813 TTATAAGATG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 43 0.66
47 13 0.20
48 7 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGTGCTAG
Found at i:31998818 original size:55 final size:55
Alignment explanation
Indices: 31998694--31998820 Score: 159
Period size: 55 Copynumber: 2.3 Consensus size: 55
31998684 TGAGCCTGCC
* *
31998694 AAAACAACACGGGCATGTGACACGCCCGTGTGGAAGAACCGTGGGCGAACATGTT
1 AAAACAACACGGGCGTGTGACACGCCCGCGTGGAAGAACCGTGGGCGAACATGTT
* * *
31998749 AAAACAACACGGGCGT-TCGACACGCCCGCGTGGAA-CACTCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGT-GACACGCCCGCGTGGAAGAAC-CGTGGGCGAACATGTT
**
31998804 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
31998821 GGGCTTGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 3 0.05
55 59 0.95
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTGTGACACGCCCGCGTGGAAGAACCGTGGGCGAACATGTT
Found at i:32001954 original size:16 final size:16
Alignment explanation
Indices: 32001933--32001976 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
32001923 TATAGTGGTG
32001933 GAGTTAACGGATAGTA
1 GAGTTAACGGATAGTA
32001949 GAGTTAACGGATAGTA
1 GAGTTAACGGATAGTA
32001965 GAGTTAACGGAT
1 GAGTTAACGGAT
32001977 CTTTTCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (16 bp):
GAGTTAACGGATAGTA
Found at i:32005440 original size:46 final size:46
Alignment explanation
Indices: 32005345--32005466 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
32005335 TAAGAGCCAA
* *
32005345 TGTAAGACCATGTCTGGGACACAGCATCAGCATCGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACA-TGCATCGGCATCGAGACGAGTGCTAG
* *
32005393 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC-A-TAAGTTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGT--GCTAG
* * *
32005439 TGTAACACATGTTTGGGACATGTATCGG
1 TGTAAGACATGTCTGGGACATGCATCGG
32005467 TTATAAGATG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 43 0.66
47 13 0.20
48 7 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGTGCTAG
Found at i:32006729 original size:20 final size:21
Alignment explanation
Indices: 32006692--32006730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32006682 TTAAAAGGTT
*
32006692 ACACGGGCGTGTTGCCCTTTC
1 ACACAGGCGTGTTGCCCTTTC
32006713 ACACAGGCGTG-TGCCCTT
1 ACACAGGCGTGTTGCCCTT
32006731 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (21 bp):
ACACAGGCGTGTTGCCCTTTC
Found at i:32012461 original size:55 final size:55
Alignment explanation
Indices: 32012337--32012463 Score: 159
Period size: 55 Copynumber: 2.3 Consensus size: 55
32012327 TGAGCCTGCC
* *
32012337 AAAACAACACGGGCATGTGACACGCCCGTGTGGAAGAACCGTGGGCGAACATGTT
1 AAAACAACACGGGCGTGTGACACGCCCGCGTGGAAGAACCGTGGGCGAACATGTT
* * *
32012392 AAAACAACACGGGCGT-TCGACACGCCCGCGTGGAA-CACTCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGT-GACACGCCCGCGTGGAAGAAC-CGTGGGCGAACATGTT
**
32012447 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
32012464 GGGCTTGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 3 0.05
55 59 0.95
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTGTGACACGCCCGCGTGGAAGAACCGTGGGCGAACATGTT
Found at i:32015797 original size:15 final size:15
Alignment explanation
Indices: 32015777--32015811 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
32015767 TCAACTTGTA
32015777 ATGTTTGAAACTTTT
1 ATGTTTGAAACTTTT
32015792 ATGTTTGAAACTTTT
1 ATGTTTGAAACTTTT
32015807 ATGTT
1 ATGTT
32015812 CTTTTAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (15 bp):
ATGTTTGAAACTTTT
Found at i:32021055 original size:47 final size:46
Alignment explanation
Indices: 32021004--32021121 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 46
32020994 AAGTCGAAGT
*
32021004 CATGTCCCAGACATGGTCTTACACTGACTATCAT-T-TCGTA-GCCGACG
1 CATGTCCCAAACAT-GTCTTACACT-ACT-TCATGTCTCG-AGGCCGACG
* * * *
32021051 CATGTCCCATACATGTCTTACACTAGTTTATGTCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTACTTCATGTCTCGAGGCCGACG
32021097 CATGTCCCAAACATGTCTTACACTA
1 CATGTCCCAAACATGTCTTACACTA
32021122 GCACTCATCT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.05
45 4 0.06
46 43 0.68
47 13 0.21
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTACTTCATGTCTCGAGGCCGACG
Found at i:32021140 original size:46 final size:45
Alignment explanation
Indices: 32021044--32021168 Score: 117
Period size: 46 Copynumber: 2.7 Consensus size: 45
32021034 TCATTTCGTA
* * * * *
32021044 GCCGACGCATGTCCCATACATGTCTTACACTAGTTTATGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG-TCATATCTCAAG
*
32021090 GCCGATGCATGTCCCAAACATGTCTTACACTAG-CACTCATCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGTCA-T-ATCTCAAG
* **
32021136 GCCGATGCCCTGTAGCAAACATGGTCTTACACT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACT
32021169 GGCTTACACA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 43 0.65
47 11 0.17
48 10 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGTCATATCTCAAG
Found at i:32023314 original size:26 final size:27
Alignment explanation
Indices: 32023285--32023360 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
32023275 TACACATCGT
*
32023285 AAGGCAAAT-TAGTCATTTTACCTTAC
1 AAGGCAAATACAGTCATTTTACCTTAC
**
32023311 AAGGGTAATACAGTCATTTTACCTTAC
1 AAGGCAAATACAGTCATTTTACCTTAC
** ***
32023338 GGGGGTCATACAGTCATTTTACC
1 AAGGCAAATACAGTCATTTTACC
32023361 CTATGGGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 7 0.16
27 36 0.84
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (27 bp):
AAGGCAAATACAGTCATTTTACCTTAC
Found at i:32023368 original size:27 final size:27
Alignment explanation
Indices: 32023295--32023371 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
32023285 AAGGCAAATT
**
32023295 AGTCATTTTACCTTACAAGGGTAATAC
1 AGTCATTTTACCTTACGGGGGTAATAC
*
32023322 AGTCATTTTACCTTACGGGGGTCATAC
1 AGTCATTTTACCTTACGGGGGTAATAC
* *
32023349 AGTCATTTTACCCTATGGGGGTA
1 AGTCATTTTACCTTACGGGGGTA
32023372 TTTTGGTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
AGTCATTTTACCTTACGGGGGTAATAC
Found at i:32023380 original size:27 final size:27
Alignment explanation
Indices: 32023323--32023433 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
32023313 GGGTAATACA
* * * *
32023323 GTCATTTTACCTTACGGGGGTCA-TACA
1 GTCATTTTACCCTATGGGGGT-ATTTCG
*
32023350 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ***
32023377 GTCATTTTACACTA-CAAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
32023403 GTCATTTTGCCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
32023430 GTCA
1 GTCA
32023434 CCATTTCGGC
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 21 0.31
27 46 0.69
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:32023462 original size:81 final size:80
Alignment explanation
Indices: 32023377--32023619 Score: 378
Period size: 81 Copynumber: 3.0 Consensus size: 80
32023367 GGGTATTTTG
* * *
32023377 GTCATTTTACACTACAAGGTATTTCGGTCATTTTGCCCTATGGGGGTATTTCGGTCACCATTTCG
1 GTCATTTTAC-CTACAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCACCATTTCG
32023442 GCCTAACATGGCCCAA
65 GCCTAACATGGCCCAA
* * *
32023458 GTCATTTTACCCTACAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTTACCATTTCG
1 GTCATTTTA-CCTACAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCACCATTTCG
*
32023523 GCCTAACATTGCCCAA
65 GCCTAACATGGCCCAA
* *
32023539 GTCATTTTACCTTACAGGGCATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCACCATTTCG
1 GTCATTTTACC-TACAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCACCATTTCG
32023604 GCCTAACATGGCCCAA
65 GCCTAACATGGCCCAA
32023620 AACAGCCTAA
Statistics
Matches: 147, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
80 2 0.01
81 144 0.98
82 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (80 bp):
GTCATTTTACCTACAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCACCATTTCGG
CCTAACATGGCCCAA
Found at i:32023489 original size:26 final size:27
Alignment explanation
Indices: 32023457--32023512 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
32023447 ACATGGCCCA
32023457 AGTCATTTTACCCTA-CAGGGTATTTC
1 AGTCATTTTACCCTATCAGGGTATTTC
*
32023483 AGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATCAGGGTATTTC
32023510 AGT
1 AGT
32023513 TACCATTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACCCTATCAGGGTATTTC
Found at i:32023511 original size:27 final size:27
Alignment explanation
Indices: 32023295--32023512 Score: 99
Period size: 27 Copynumber: 8.1 Consensus size: 27
32023285 AAGGCAAATT
* ** * *
32023295 AGTCATTTTACCTTACAAGGGTAATAC
1 AGTCATTTTACCCTATGAGGGTATTTC
* * * *
32023322 AGTCATTTTACCTTACGGGGGTCA-TAC
1 AGTCATTTTACCCTATGAGGGT-ATTTC
* *
32023349 AGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGAGGGTATTTC
* * * *
32023376 GGTCATTTTACACTA-CAAGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTTC
* * *
32023402 GGTCATTTTGCCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTTC
* * ** * **
32023429 GGTCACCATTT-CGGCCTAACATGG---CCC
1 AGTCA--TTTTAC--CCTATGAGGGTATTTC
*
32023456 AAGTCATTTTACCCTA-CAGGGTATTTC
1 -AGTCATTTTACCCTATGAGGGTATTTC
32023483 AGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTTC
32023510 AGT
1 AGT
32023513 TACCATTTCG
Statistics
Matches: 148, Mismatches: 30, Indels: 26
0.73 0.15 0.13
Matches are distributed among these distances:
24 4 0.03
25 4 0.03
26 39 0.26
27 86 0.58
28 6 0.04
29 3 0.02
30 6 0.04
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
AGTCATTTTACCCTATGAGGGTATTTC
Found at i:32026095 original size:13 final size:13
Alignment explanation
Indices: 32026077--32026119 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
32026067 GTGCAGAGGA
32026077 CACATGGCCAGAT
1 CACATGGCCAGAT
*
32026090 CACATGGCTAGAT
1 CACATGGCCAGAT
* *
32026103 CACACGCCCAGAT
1 CACATGGCCAGAT
32026116 CACA
1 CACA
32026120 CGCCCATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.19, T:0.14
Consensus pattern (13 bp):
CACATGGCCAGAT
Found at i:32026120 original size:13 final size:13
Alignment explanation
Indices: 32026084--32026125 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32026074 GGACACATGG
* *
32026084 CCAGATCACATGG
1 CCAGATCACACGC
*
32026097 CTAGATCACACGC
1 CCAGATCACACGC
32026110 CCAGATCACACGC
1 CCAGATCACACGC
32026123 CCA
1 CCA
32026126 TGGGCTGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.40, G:0.17, T:0.12
Consensus pattern (13 bp):
CCAGATCACACGC
Found at i:32028399 original size:68 final size:65
Alignment explanation
Indices: 32028186--32028437 Score: 203
Period size: 68 Copynumber: 3.8 Consensus size: 65
32028176 CATAATTTTG
* * * * *
32028186 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACTCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTCG
32028247 TA
64 TA
* * * * * * *
32028249 GCTCTCTTGTCTAGATGGTGTCCTTCCCTAGAACCACGCATGCGACCTAGCTACATATA-TCCCG
1 GCTCTCTTGTCTACATGGTGTAC--ACATAGTACCACCCATGCGACCTAGCTACATATATTCTCG
32028313 TA
64 TA
*
32028315 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
32028380 GTA
63 GTA
* * * ** *
32028383 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
32028438 CCATCTGCAT
Statistics
Matches: 153, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 26 0.17
65 23 0.15
66 31 0.20
67 4 0.03
68 49 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:32042155 original size:40 final size:40
Alignment explanation
Indices: 32042110--32042301 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
32042100 TATAACCACA
** *
32042110 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * *
32042150 CGCACAAATGTCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
32042190 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
32042230 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
32042270 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
32042302 TCATTCAAAT
Statistics
Matches: 118, Mismatches: 34, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:32042230 original size:80 final size:80
Alignment explanation
Indices: 32042081--32042302 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
32042071 AACCCAAGTT
* * * * *
32042081 TCTTCGGAAT-TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTA
1 TCTTCGG-ATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATA
*
32042144 GTAACTCGCACAAATG
65 GCAACTCGCACAAATG
* *
32042160 TCTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAG
1 TCTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAG
32042225 CAACTCGCACAAATG
66 CAACTCGCACAAATG
* *
32042240 CCTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
32042303 CATTCAAATG
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
78 2 0.02
79 11 0.09
80 116 0.90
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TCTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAG
CAACTCGCACAAATG
Found at i:32056399 original size:48 final size:48
Alignment explanation
Indices: 32056313--32056628 Score: 410
Period size: 48 Copynumber: 6.7 Consensus size: 48
32056303 ACAATGCCTC
* * *
32056313 ATGCTGATGACATGTCCCAGAAATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
32056361 ATGCCAATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * * * *
32056409 ATGTCAATGCGATGTCCTAGACATGGTCTTACACTAGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
32056457 ATGCCGATGCTATGTCTCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
32056505 ATGCCGATGCCATGTCCCAGACATTGTCTTACACTGACTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * * *
32056553 ATGCCGATGCCATGTCCCAAACATGGTCTTATA-TGG----GATCAC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
32056595 ATGCCGATGCCATGTCCCAGATATGGTCTTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
32056629 GGTTACACAT
Statistics
Matches: 236, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 30 0.13
43 4 0.02
47 2 0.01
48 200 0.85
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:32061494 original size:16 final size:17
Alignment explanation
Indices: 32061470--32061516 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
32061460 TGCCAAGTTC
32061470 ATGCATATCATAACAAA
1 ATGCATATCATAACAAA
* **
32061487 AT-CATATC-TAAGATT
1 ATGCATATCATAACAAA
32061502 ATGCATATCATAACA
1 ATGCATATCATAACA
32061517 CATGCATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (17 bp):
ATGCATATCATAACAAA
Found at i:32061521 original size:16 final size:16
Alignment explanation
Indices: 32061469--32061523 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
32061459 TTGCCAAGTT
32061469 CATGCATATCATAACAA
1 CATGCATATCATAAC-A
* *
32061486 AAT-CATATC-TAAGA
1 CATGCATATCATAACA
*
32061500 TTATGCATATCATAACA
1 -CATGCATATCATAACA
32061517 CATGCAT
1 CATGCAT
32061524 TGATTAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 18 0.60
17 6 0.20
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (16 bp):
CATGCATATCATAACA
Found at i:32068154 original size:4 final size:4
Alignment explanation
Indices: 32068147--32068194 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
32068137 ACTTGCTTGA
32068147 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
32068195 ATGCATGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:32080782 original size:41 final size:41
Alignment explanation
Indices: 32080725--32080809 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
32080715 GGAGAGAAAA
32080725 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
1 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
*
32080766 TCTGGAAATAAGAATCATTAATTATCCTAATTCTTTAATGT
1 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
32080807 TCT
1 TCT
32080810 CAATTGAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (41 bp):
TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
Found at i:32087652 original size:32 final size:32
Alignment explanation
Indices: 32087615--32087680 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
32087605 GCCAAGTTAG
*
32087615 CTTATACATACCATTATACAAAAATGATTTTA
1 CTTATACATACCATTATACAAAAATGAGTTTA
32087647 CTTATACATACCATTATACAAAAATGAGTTTA
1 CTTATACATACCATTATACAAAAATGAGTTTA
32087679 CT
1 CT
32087681 ATTTCTTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (32 bp):
CTTATACATACCATTATACAAAAATGAGTTTA
Found at i:32089619 original size:47 final size:48
Alignment explanation
Indices: 32089568--32089661 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 48
32089558 TAGTCTATCG
*
32089568 ATGTATACT-ACT-ATCTTTCACCACACTAATAGGCACATAAGTGCATC
1 ATGTATA-TAACTAATCTTTCACCACACTAATAGGCACACAAGTGCATC
* * *
32089615 ATGTATATAAAGTAATCTTTCACCACACTGATGGGCACACAAGTGCA
1 ATGTATAT-AACTAATCTTTCACCACACTAATAGGCACACAAGTGCA
32089662 AATAATAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 1 0.03
47 7 0.17
48 2 0.05
49 30 0.75
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (48 bp):
ATGTATATAACTAATCTTTCACCACACTAATAGGCACACAAGTGCATC
Found at i:32091829 original size:51 final size:51
Alignment explanation
Indices: 32091738--32091837 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
32091728 AGATATGTGG
* *
32091738 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATGGTGGATGTGATT-CATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATAGTGAATGTG-TTACATGTAA
32091789 CATCCGAGCTCGTTGAGAGGTAC-GAGTTCATTAGT-AATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGT-CTGAGTTCA-TAGTGAATGTGTTACATGT
32091838 TATGTGGTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
50 2 0.05
51 38 0.86
52 4 0.09
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCTGAGTTCATAGTGAATGTGTTACATGTAA
Found at i:32095561 original size:30 final size:30
Alignment explanation
Indices: 32095527--32095587 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32095517 TCCTTAACTC
32095527 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32095557 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32095587 A
1 A
32095588 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:32097902 original size:26 final size:26
Alignment explanation
Indices: 32097872--32097924 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
32097862 TAACTCATAA
*
32097872 TTAACAACACTTTAGCTAATTAATTT
1 TTAACAACACTTTAACTAATTAATTT
32097898 TTAACAACACTTTAACTAATTAATTT
1 TTAACAACACTTTAACTAATTAATTT
32097924 T
1 T
32097925 GACACATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAACAACACTTTAACTAATTAATTT
Done.