Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 111 of 250
Found at i:35668994 original size:50 final size:49
Alignment explanation
Indices: 35668876--35669060 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 49
35668866 TGAGGTCGCA
* * *
35668876 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* * **
35668927 TGTGTAGTACTAGGTGCAGGCTTCTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
35668977 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* * *
35669026 TGTGTAGTACTAAGTGCATGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
35669061 AATAGCTTCG
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 37 0.33
50 41 0.36
51 30 0.27
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:35678130 original size:30 final size:30
Alignment explanation
Indices: 35678096--35678162 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
35678086 ACCCCAAGGG
* *
35678096 ACACACTATCGTGCAACATAGCCGTGTATC
1 ACACACGACCGTGCAACATAGCCGTGTATC
* * *
35678126 ACACACGGCCGTGCAACATAGTCGTGTGTC
1 ACACACGACCGTGCAACATAGCCGTGTATC
35678156 ACACACG
1 ACACACG
35678163 GCTAAGACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.19
Consensus pattern (30 bp):
ACACACGACCGTGCAACATAGCCGTGTATC
Found at i:35678163 original size:30 final size:30
Alignment explanation
Indices: 35678105--35678164 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
35678095 GACACACTAT
35678105 CGTGCAACATAGCCGTGTATCACACACGGC
1 CGTGCAACATAGCCGTGTATCACACACGGC
* *
35678135 CGTGCAACATAGTCGTGTGTCACACACGGC
1 CGTGCAACATAGCCGTGTATCACACACGGC
35678165 TAAGACACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (30 bp):
CGTGCAACATAGCCGTGTATCACACACGGC
Found at i:35680640 original size:20 final size:20
Alignment explanation
Indices: 35680615--35680654 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35680605 GCATCGATAC
35680615 GTGAAACACATCATGAATCT
1 GTGAAACACATCATGAATCT
35680635 GTGAAACACATCATGAATCT
1 GTGAAACACATCATGAATCT
35680655 TTTCTAGTTC
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:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
GTGAAACACATCATGAATCT
Found at i:35683065 original size:34 final size:34
Alignment explanation
Indices: 35683022--35683092 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
35683012 TAGCAAACCC
**
35683022 TCTATCGGTCAACTCTTGCAACTGGGACTTTAAT
1 TCTATCGGTCAACTCTTGCAACTAAGACTTTAAT
35683056 TCTATCGGTCAACTCTTGCAACTAAGACTTTAAT
1 TCTATCGGTCAACTCTTGCAACTAAGACTTTAAT
35683090 TCT
1 TCT
35683093 TTTAATTCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (34 bp):
TCTATCGGTCAACTCTTGCAACTAAGACTTTAAT
Found at i:35690897 original size:20 final size:20
Alignment explanation
Indices: 35690858--35690897 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35690848 CGAAATTGTC
*
35690858 AACAAAAAACCAGAGAAAAT
1 AACAAAAAACCAAAGAAAAT
* *
35690878 AACAATAAACCAAAGCAAAT
1 AACAAAAAACCAAAGAAAAT
35690898 TAAGGAGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.17, G:0.07, T:0.07
Consensus pattern (20 bp):
AACAAAAAACCAAAGAAAAT
Found at i:35694479 original size:20 final size:21
Alignment explanation
Indices: 35694451--35694489 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35694441 TGGGCCCGTA
35694451 AGCCCATTG-GGCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
*
35694471 AGCCTATTGAGGCCCAATT
1 AGCCCATTGAGGCCCAATT
35694490 ACCAAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:35696556 original size:19 final size:18
Alignment explanation
Indices: 35696521--35696564 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
35696511 ATACATAAAG
35696521 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
35696538 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
35696557 TACTAATT
1 TAATAATT
35696565 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:35698418 original size:14 final size:14
Alignment explanation
Indices: 35698395--35698424 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35698385 CTAGAATCAG
35698395 ATTAAAACATATTT
1 ATTAAAACATATTT
*
35698409 ATTAACACATATTT
1 ATTAAAACATATTT
35698423 AT
1 AT
35698425 GAGCTGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAAAACATATTT
Found at i:35698529 original size:20 final size:21
Alignment explanation
Indices: 35698504--35698542 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35698494 AAAAGGATAA
35698504 AATTGAGCTCAA-TGAGCTAG
1 AATTGAGCTCAATTGAGCTAG
*
35698524 AATTGAGCTGAATTGAGCT
1 AATTGAGCTCAATTGAGCT
35698543 CCATTGAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (21 bp):
AATTGAGCTCAATTGAGCTAG
Found at i:35698538 original size:10 final size:10
Alignment explanation
Indices: 35698504--35698542 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
35698494 AAAAGGATAA
*
35698504 AATTGAGCTC
1 AATTGAGCTG
35698514 AA-TGAGCTAG
1 AATTGAGCT-G
35698524 AATTGAGCTG
1 AATTGAGCTG
35698534 AATTGAGCT
1 AATTGAGCT
35698543 CCATTGAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 6 0.23
10 14 0.54
11 6 0.23
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (10 bp):
AATTGAGCTG
Found at i:35698548 original size:10 final size:10
Alignment explanation
Indices: 35698504--35698550 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
35698494 AAAAGGATAA
35698504 AATTGAGCTC
1 AATTGAGCTC
*
35698514 AA-TGAGCTAG
1 AATTGAGCT-C
*
35698524 AATTGAGCTG
1 AATTGAGCTC
35698534 AATTGAGCTC
1 AATTGAGCTC
*
35698544 CATTGAG
1 AATTGAG
35698551 TTGGAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 6 0.19
10 20 0.62
11 6 0.19
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (10 bp):
AATTGAGCTC
Found at i:35704187 original size:48 final size:48
Alignment explanation
Indices: 35704131--35704250 Score: 240
Period size: 48 Copynumber: 2.5 Consensus size: 48
35704121 TAGTTCGAGC
35704131 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAAGGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAAGGAGATTA
35704179 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAAGGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAAGGAGATTA
35704227 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
35704251 TGTTTGTAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAAGGAGATTA
Found at i:35705686 original size:21 final size:20
Alignment explanation
Indices: 35705649--35705689 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
35705639 TGGAAAAGAT
35705649 TTTAGCAAAATTAAACATAA
1 TTTAGCAAAATTAAACATAA
35705669 TTTA-CAACAATTATAACATAA
1 TTTAGCAA-AATTA-AACATAA
35705690 ATAAACTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 9 0.47
21 7 0.37
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (20 bp):
TTTAGCAAAATTAAACATAA
Found at i:35709686 original size:40 final size:40
Alignment explanation
Indices: 35709627--35709703 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
35709617 TAATTATTGT
* *
35709627 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
1 TTGAATGCACATACATGCCCCTATTAGTACTTCGGTACCC
*
35709667 TTGAATGCACATACATGCCCCTATTAGTACTTTGGTA
1 TTGAATGCACATACATGCCCCTATTAGTACTTCGGTA
35709704 ACCCGAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (40 bp):
TTGAATGCACATACATGCCCCTATTAGTACTTCGGTACCC
Found at i:35712522 original size:20 final size:21
Alignment explanation
Indices: 35712497--35712535 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35712487 TCCTTGAAAC
*
35712497 AGGGC-ACATGCCTGTGTGGA
1 AGGGCAACATGCCCGTGTGGA
35712517 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCGTGTG
35712536 ATCACTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGA
Found at i:35713986 original size:45 final size:45
Alignment explanation
Indices: 35713812--35713978 Score: 235
Period size: 45 Copynumber: 3.7 Consensus size: 45
35713802 TCGCGAGGCT
*******
35713812 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCGCAACACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-ATTGTGGC
* *
35713858 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTATTGTGGC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTGTGGC
*
35713903 GATGCATGTCCCAGGCATGTCTTACACTAGCTCTCATATTGTGGC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTGTGGC
35713948 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
35713979 ACACATATCA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
45 73 0.68
46 35 0.32
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATTGTGGC
Found at i:35720098 original size:46 final size:46
Alignment explanation
Indices: 35719885--35720098 Score: 187
Period size: 46 Copynumber: 4.6 Consensus size: 46
35719875 GTCCCAGCCA
* * * ** * *
35719885 ATGTCCCAGATAGGTCTTACACTAGCTTGTCCATCGTGAGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGC-TCT-CATATTAAGGCCGATGC
* * * * *
35719933 ATGTCCTAGACATGTCTTACACTAGTTCTCATCTCAACGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATATTAAGGCCGATGC
* * *
35719979 ATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCAGGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CATAT-T-AAGGCCGATGC
* * * * *
35720027 ATATCCCATACATGTCTTACACTAGCTCTCATATTATGGCCGTTTC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATATTAAGGCCGATGC
*
35720073 ATGTCGCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
35720099 ACACATATCA
Statistics
Matches: 134, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.52
47 3 0.02
48 59 0.44
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATATTAAGGCCGATGC
Found at i:35720107 original size:94 final size:94
Alignment explanation
Indices: 35719928--35720107 Score: 225
Period size: 94 Copynumber: 1.9 Consensus size: 94
35719918 TCGTGAGGCT
* * * *
35719928 GATGCATGTCCTAGACATGTCTTACACTAGTTCTCATCTCAACGCCGATGCATGTCCCAGACATG
1 GATGCATATCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAGACATG
* **
35719993 TCTTACACTGGCTTAAATATCTCAGGGCC
66 TCTTACACTAGCACAAATATCTCAGGGCC
* * ** * * *
35720022 GATGCATATCCCATACATGTCTTACACTAGCTCTCATATTATGGCCGTTTCATGTCGCAGACATG
1 GATGCATATCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAGACATG
*
35720087 TCTTACACTAGCACACATATC
66 TCTTACACTAGCACAAATATC
35720108 ACCCAATATT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (94 bp):
GATGCATATCCCAGACATGTCTTACACTAGCTCTCATATCAACGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACAAATATCTCAGGGCC
Found at i:35721938 original size:20 final size:20
Alignment explanation
Indices: 35721913--35721950 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35721903 GTAACATATA
35721913 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
35721933 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
35721951 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:35730244 original size:20 final size:20
Alignment explanation
Indices: 35730219--35730256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35730209 GTAATATATA
35730219 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
35730239 TCATGATCTCAGATCACA
1 TCATGAACTCAGACCACA
35730257 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.11, T:0.21
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:35736833 original size:13 final size:12
Alignment explanation
Indices: 35736815--35736848 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
35736805 TATACAAGTT
35736815 AAAAAAATTCGA
1 AAAAAAATTCGA
35736827 AAAAAAATTCGA
1 AAAAAAATTCGA
35736839 AAACAAAATT
1 AAA-AAAATT
35736849 GAAGTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:35737906 original size:13 final size:12
Alignment explanation
Indices: 35737875--35737906 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
35737865 TTGAGAGAAC
35737875 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35737887 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35737899 TTGAAAAA
1 TTGAAAAA
35737907 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:35737930 original size:12 final size:12
Alignment explanation
Indices: 35737908--35737932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35737898 TTTGAAAAAC
35737908 AAAAAGAAAATG
1 AAAAAGAAAATG
35737920 AAAAAGAAAATG
1 AAAAAGAAAATG
35737932 A
1 A
35737933 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:35737939 original size:18 final size:18
Alignment explanation
Indices: 35737899--35737952 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
35737889 GAAAAAGCCT
* *
35737899 TTGAAAAACAAAAAGAAA
1 TTGAAAAAGAAAATGAAA
* *
35737917 ATGAAAAAGAAAATGAGA
1 TTGAAAAAGAAAATGAAA
*
35737935 TTGAAAAAGAGAATGAAA
1 TTGAAAAAGAAAATGAAA
35737953 AAGAGTTTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.13
Consensus pattern (18 bp):
TTGAAAAAGAAAATGAAA
Found at i:35737964 original size:30 final size:30
Alignment explanation
Indices: 35737908--35738006 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
35737898 TTTGAAAAAC
**
35737908 AAAAAGAAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGAG
* ***
35737938 AAAAAGAGAATGAAAAAGAGTTTGAGAGAG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGAG
** * * *
35737968 AAAAAGAATGTGAACAAGAAAA-AAGAGTGG
1 AAAAAGAAAATGAAAAAGAAAATGAGAG-AG
35737998 AAAAAGAAA
1 AAAAAGAAA
35738007 TTGAGATAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
29 4 0.08
30 48 0.92
ACGTcount: A:0.64, C:0.01, G:0.24, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAAGAAAATGAGAGAG
Found at i:35738004 original size:18 final size:19
Alignment explanation
Indices: 35737968--35738006 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
35737958 TTTGAGAGAG
*
35737968 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
35737987 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
35738005 AA
1 AA
35738007 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:35740019 original size:30 final size:30
Alignment explanation
Indices: 35739938--35740030 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
35739928 TCATTTTCAA
* *
35739938 CTTACGAGCTAAACCTTAGCTCAACTTCAG
1 CTTAGGAGCTAAACCTTAGCTCAACTTTAG
** * *
35739968 CTTAGGAATTTAACCTCAGCTCAACTTTAG
1 CTTAGGAGCTAAACCTTAGCTCAACTTTAG
* *
35739998 CTTATGG-GCTAAAGCTTAGCTC-ATTTTAG
1 CTTA-GGAGCTAAACCTTAGCTCAACTTTAG
35740027 CTTA
1 CTTA
35740031 AACCCGATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 10 0.20
30 38 0.76
31 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (30 bp):
CTTAGGAGCTAAACCTTAGCTCAACTTTAG
Found at i:35741716 original size:12 final size:12
Alignment explanation
Indices: 35741699--35741744 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
35741689 TATACAAGTT
35741699 AAAAAAAATTCG
1 AAAAAAAATTCG
*
35741711 AAAAAAAATTCT
1 AAAAAAAATTCG
* *
35741723 AAAAAGAATTAG
1 AAAAAAAATTCG
35741735 AAAAAAAATT
1 AAAAAAAATT
35741745 GAAGTGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:35741725 original size:24 final size:24
Alignment explanation
Indices: 35741698--35741744 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35741688 TTATACAAGT
*
35741698 TAAAAAAAATTCGAAAAAAAATTC
1 TAAAAAAAATTAGAAAAAAAATTC
*
35741722 TAAAAAGAATTAGAAAAAAAATT
1 TAAAAAAAATTAGAAAAAAAATT
35741745 GAAGTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (24 bp):
TAAAAAAAATTAGAAAAAAAATTC
Found at i:35743035 original size:43 final size:43
Alignment explanation
Indices: 35742987--35743157 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
35742977 GATACCAAGA
* *
35742987 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
35743030 TGTGATTGCATGTAAGACCATTTCTGAGACATTGGCATCGCTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * *
35743074 T-CGATTTA-GTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGA-TTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
35743115 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
35743158 GAGCATTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 85 0.83
44 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:35745697 original size:23 final size:24
Alignment explanation
Indices: 35745653--35745697 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
35745643 CAAGTCTTAC
*
35745653 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
35745677 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
35745698 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:35746085 original size:27 final size:27
Alignment explanation
Indices: 35746055--35746218 Score: 195
Period size: 27 Copynumber: 6.1 Consensus size: 27
35746045 GTAATACAGA
**
35746055 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTTCGGT
*
35746082 CATTTTACCTTATAAGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTTCGGT
* * * *
35746109 CATTTTAACCTATGAGGGTATTTTGTT
1 CATTTTACCCTATAAGGGTATTTCGGT
* * *
35746136 CATTTTAACCTATGAGGGTATTTTGGT
1 CATTTTACCCTATAAGGGTATTTCGGT
35746163 CATTTTACCCTAT-AGAGGTATTTCGGT
1 CATTTTACCCTATAAG-GGTATTTCGGT
* * *
35746190 CATTTTACCATATAGGGGTATTTCAGT
1 CATTTTACCCTATAAGGGTATTTCGGT
35746217 CA
1 CA
35746219 CCATTTCGGC
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 118 0.98
28 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATAAGGGTATTTCGGT
Found at i:35746088 original size:54 final size:53
Alignment explanation
Indices: 35746026--35746218 Score: 215
Period size: 54 Copynumber: 3.6 Consensus size: 53
35746016 GGGCAAATCC
* * * * *
35746026 GTCATTTTACCTCACAAGGGTAATACAGACATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCT-ATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * *
35746080 GTCATTTTACCTTATAAGGGTATTTCGGTCATTTTAACCTATGAGGGTATTTTG
1 GTCATTTTACC-TATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * * * *
35746134 TTCATTTTAACCTATGAGGGTATTTTGGTCATTTTACCCTATAGAGGTATTTCG
1 GTCATTTT-ACCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
35746188 GTCATTTTACCATATAGGGGTATTTCAGTCA
1 GTCATTTTACC-TATAAGGGTATTTCGGTCA
35746219 CCATTTCGGC
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.03
54 108 0.94
55 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (53 bp):
GTCATTTTACCTATAAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
Found at i:35746149 original size:81 final size:81
Alignment explanation
Indices: 35746055--35746212 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
35746045 GTAATACAGA
* * *
35746055 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATA-AGGGTATTTCGGTCATTTTAACC
1 CATTTTAACCTATGAGGGTATTTCGGTCATTTTACCCTATAGA-GGTATTTCGGTCATTTT-ACC
35746119 -TAT-GAGGGTATTTTGTT
64 ATATAG-GGGTATTTTGTT
*
35746136 CATTTTAACCTATGAGGGTATTTTGGTCATTTTACCCTATAGAGGTATTTCGGTCATTTTACCAT
1 CATTTTAACCTATGAGGGTATTTCGGTCATTTTACCCTATAGAGGTATTTCGGTCATTTTACCAT
35746201 ATAGGGGTATTT
66 ATAGGGGTATTT
35746213 CAGTCACCAT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
80 3 0.04
81 65 0.93
82 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (81 bp):
CATTTTAACCTATGAGGGTATTTCGGTCATTTTACCCTATAGAGGTATTTCGGTCATTTTACCAT
ATAGGGGTATTTTGTT
Found at i:35754374 original size:16 final size:16
Alignment explanation
Indices: 35754353--35754392 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
35754343 CCAAACTTTT
* *
35754353 GACTTTTGGGTATTTC
1 GACTTTTCGGCATTTC
35754369 GACTTTTCGGCATTTC
1 GACTTTTCGGCATTTC
*
35754385 GACATTTC
1 GACTTTTC
35754393 AGTTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (16 bp):
GACTTTTCGGCATTTC
Found at i:35758413 original size:28 final size:29
Alignment explanation
Indices: 35758381--35758506 Score: 166
Period size: 29 Copynumber: 4.4 Consensus size: 29
35758371 CCTGTATCTA
*
35758381 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAAGCCCAAATCATATTTATATG
35758409 GCCCATTAAGCCC-AATCATATTTATATG
1 GCCCATTAAGCCCAAATCATATTTATATG
* ** *
35758437 GCCCATTAGGCCCAAATCACCTATATATG
1 GCCCATTAAGCCCAAATCATATTTATATG
* *
35758466 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAAGCCCAAATCATATTTATATG
*
35758495 GCCCGTTAAGCC
1 GCCCATTAAGCC
35758507 TAGTCCCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 39 0.44
29 49 0.56
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
GCCCATTAAGCCCAAATCATATTTATATG
Found at i:35758740 original size:16 final size:16
Alignment explanation
Indices: 35758719--35758754 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
35758709 TTAGCCAAAC
35758719 TTTCAAATTTTCAGTA
1 TTTCAAATTTTCAGTA
*
35758735 TTTCAATTTTTCAGTA
1 TTTCAAATTTTCAGTA
35758751 TTTC
1 TTTC
35758755 GGCACTTCGA
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:0.25, C:0.14, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTCAAATTTTCAGTA
Found at i:35760426 original size:27 final size:27
Alignment explanation
Indices: 35760383--35760512 Score: 119
Period size: 27 Copynumber: 4.9 Consensus size: 27
35760373 GTAAATAAAT
* * *
35760383 CATTTTACCTTA-CAGGGGTATTACGA
1 CATTTTACCCTATGAGGGGTATTTCGA
*
35760409 CATTTTACCCTATGA-GGGTATTTCGGT
1 CATTTTACCCTATGAGGGGTATTTC-GA
35760436 CATTTTACCCTAT-AGGGGTATTTCGA
1 CATTTTACCCTATGAGGGGTATTTCGA
* *
35760462 TCATTTTGCCCTATGA--GGTATTTCAGT
1 -CATTTTACCCTATGAGGGGTATTTC-GA
* *
35760489 TATTTTACCCTATG-GAGGTATTTC
1 CATTTTACCCTATGAGGGGTATTTC
35760513 AGTCACCATT
Statistics
Matches: 87, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
26 41 0.47
27 45 0.52
28 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
CATTTTACCCTATGAGGGGTATTTCGA
Found at i:35760482 original size:53 final size:53
Alignment explanation
Indices: 35760382--35760512 Score: 176
Period size: 53 Copynumber: 2.5 Consensus size: 53
35760372 GGTAAATAAA
* * * *
35760382 TCATTTTACCTTACAGGGGTATTACGACATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGACATTTTACCCTATGAGGGTATTTCAG
*
35760435 TCATTTTACCCTATAGGGGTATTTCGATCATTTTGCCCTATGA-GGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCGA-CATTTTACCCTATGAGGGTATTTCAG
*
35760488 TTATTTTACCCTAT-GGAGGTATTTC
1 TCATTTTACCCTATAGG-GGTATTTC
35760513 AGTCACCATT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
52 2 0.03
53 54 0.77
54 14 0.20
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (53 bp):
TCATTTTACCCTATAGGGGTATTTCGACATTTTACCCTATGAGGGTATTTCAG
Found at i:35760514 original size:27 final size:26
Alignment explanation
Indices: 35760409--35760517 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
35760399 GGTATTACGA
*
35760409 CATTTTACCCTATGAGGGTATTTCGGT
1 CATTTTACCCTATGA-GGTATTTCAGT
*
35760436 CATTTTACCCTATAGGGGTATTTC-GAT
1 CATTTTACCCTAT-GAGGTATTTCAG-T
*
35760463 CATTTTGCCCTATGAGGTATTTCAGT
1 CATTTTACCCTATGAGGTATTTCAGT
*
35760489 TATTTTACCCTATGGAGGTATTTCAGT
1 CATTTTACCCTAT-GAGGTATTTCAGT
35760516 CA
1 CA
35760518 CCATTTCGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 22 0.31
27 49 0.68
28 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (26 bp):
CATTTTACCCTATGAGGTATTTCAGT
Found at i:35768866 original size:40 final size:40
Alignment explanation
Indices: 35768811--35768951 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
35768801 TTATTTGATG
35768811 TGGAATTGTATCCGGGCTTAAAGA-CCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGAGCC-GCAGGCTTCGTGC
* *
35768851 TGGAACTGTATCCGGGCTTAAAGAGCCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGAGCCGCAGGCTTCGTGC
* * *
35768891 TGGAATTGTATCCGGGCTTAAAGATCCACAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGAGCCGCAGGCTTCGTGC
*
35768931 TAGAA-TGTCATCCGGG-TTAAA
1 TGGAATTGT-ATCCGGGCTTAAA
35768952 AACCTGCAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
39 8 0.09
40 81 0.89
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGAGCCGCAGGCTTCGTGC
Found at i:35776918 original size:40 final size:40
Alignment explanation
Indices: 35776863--35776975 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
35776853 TTATTTGATG
*
35776863 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
*
35776903 TGGAATTGTATCCGGGCTTAAAGATCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
35776943 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCTGCAGGCT
35776976 GTGCTAGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.25
40 50 0.75
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
Found at i:35786225 original size:40 final size:40
Alignment explanation
Indices: 35786122--35786320 Score: 271
Period size: 40 Copynumber: 5.0 Consensus size: 40
35786112 ATGATAACCA
* * *
35786122 GGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
35786162 GGCTAAG-CCCGAAGGCATCTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
35786201 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
35786241 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ATCCG
* * *
35786281 GGCTAAGTCCCAAAGGCATTTGAGCAAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
35786321 ACTAAATTCC
Statistics
Matches: 144, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
39 37 0.26
40 106 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:35786333 original size:119 final size:119
Alignment explanation
Indices: 35786115--35786335 Score: 286
Period size: 119 Copynumber: 1.9 Consensus size: 119
35786105 TATTCGGATG
* * *
35786115 ATAACCAGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCAAAGGCAT
* * * *
35786180 CTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 CTGAGCAAGTTACTATATCCGGACTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
35786234 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCAAAGGC
1 ATAACCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAG-CCCAAAGGC
* *
35786298 ATTTGAGCAAG-TAGCTATATCC-GACTAAATTCCGAAGG
64 ATCTGAGCAAGTTA-CTATATCCGGACTAAATCCCGAAGG
35786336 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 61 0.70
120 26 0.30
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (119 bp):
ATAACCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCAAAGGCAT
CTGAGCAAGTTACTATATCCGGACTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35804763 original size:43 final size:43
Alignment explanation
Indices: 35804675--35804787 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
35804665 TGTGATAACA
* **
35804675 TGTAAGACCAT-TCTGGGACATTGGCATTGTATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGCAATTACG
**
35804717 TGTAAGACCATGTCTGGGACATTGGCATCGTTATT-CAATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTGCAATTACG
* *
35804760 TGTAAGACCTTGT-TGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
35804788 AATATGTGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 25 0.40
43 33 0.53
44 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGCAATTACG
Found at i:35804806 original size:42 final size:42
Alignment explanation
Indices: 35804664--35804810 Score: 111
Period size: 42 Copynumber: 3.5 Consensus size: 42
35804654 GGTTACCGAG
* **
35804664 ATGTGATAACATGTAAGACCATT-CTGGGACATTGGCAT-TGT
1 ATGTGATAACATGTAAGACC-TTGTTGGGACATTGGCATCAAT
* * * **
35804705 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATAACATGTAAGACCTTGT-TGGGACATTGGCATCAAT
* **** *
35804749 AT-TCAATTTTGTGTAAGACCTTGTTGGGACAGTGGCATCAAT
1 ATGT-GATAACATGTAAGACCTTGTTGGGACATTGGCATCAAT
35804791 ATGTGATAACATGTAAGACC
1 ATGTGATAACATGTAAGACC
35804811 ATATTTGGGA
Statistics
Matches: 82, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.02
42 46 0.56
43 32 0.39
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATAACATGTAAGACCTTGTTGGGACATTGGCATCAAT
Found at i:35810974 original size:27 final size:27
Alignment explanation
Indices: 35810950--35811311 Score: 196
Period size: 27 Copynumber: 13.4 Consensus size: 27
35810940 AGAATTACTG
* *
35810950 AAATACCCTTGGTTTACAAAGTTA-CT
1 AAATACCCTTGGTTTACAAAATTACCA
*
35810976 GAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* *
35811003 AAAGACCCTT-GATTAGCAAAATTACCA
1 AAATACCCTTGGTTTA-CAAAATTACCA
* ** *
35811030 AAATACCCTTGATTTTTAAAATTTCCA
1 AAATACCCTTGGTTTACAAAATTACCA
* * **
35811057 AAATACCTTTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* ** ***
35811084 AAATACCCCTAATTTGTGAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
** **
35811111 AAATACCCTTAATTTGTAAAATTA-CA
1 AAATACCCTTGGTTTACAAAATTACCA
* ** * *
35811137 AAATATCCC-TGATTTGGAAAATAACCG
1 AAATA-CCCTTGGTTTACAAAATTACCA
* * ** **
35811164 AAAGACCCTTGATTTGGAAAATTATAA
1 AAATACCCTTGGTTTACAAAATTACCA
* *
35811191 AAATACCCTTGATTTACAAAATTA-TA
1 AAATACCCTTGGTTTACAAAATTACCA
* *
35811217 GAAATACCCTTGACTTTCAAAAAATTA-CA
1 -AAATACCCTTG-GTTT-ACAAAATTACCA
* * * *
35811246 GAAATACCATTGGTTTGCAAAATTATCG
1 -AAATACCCTTGGTTTACAAAATTACCA
* ** * *
35811274 AAATACCCTTTGTTTGTAGATTTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
*
35811301 AAACACCCTTG
1 AAATACCCTTG
35811312 TAGGGTGAAA
Statistics
Matches: 273, Mismatches: 53, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
26 49 0.18
27 195 0.71
28 9 0.03
29 20 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACCA
Found at i:35811051 original size:54 final size:54
Alignment explanation
Indices: 35810977--35811311 Score: 250
Period size: 54 Copynumber: 6.2 Consensus size: 54
35810967 AAAGTTACTG
* * *
35810977 AATACCCTTGGTTTACAAAATTACCAAAAGACCCTTGATTAGCAAAATTACCAA
1 AATACCCTTGATTTACAAAATTACCAAAAGACCCTTGATTTGTAAAATTACCAA
** * * *
35811031 AATACCCTTGATTTTTAAAATTTCCAAAATA-CCTTTAGTTTGTAAAATTACCAA
1 AATACCCTTGATTTACAAAATTACCAAAAGACCCTTGA-TTTGTAAAATTACCAA
* * *** * *
35811085 AATACCCCTAATTTGTGAAATTACCAAAATACCCTTAATTTGTAAAATTA-CAA
1 AATACCCTTGATTTACAAAATTACCAAAAGACCCTTGATTTGTAAAATTACCAA
** * * * **
35811138 AATATCCC-TGATTTGGAAAATAACCGAAAGACCCTTGATTTGGAAAATTATAAA
1 AATA-CCCTTGATTTACAAAATTACCAAAAGACCCTTGATTTGTAAAATTACCAA
* * **
35811192 AATACCCTTGATTTACAAAATTA-TAGAAATACCCTTGACTTTCAAAAAATTA-CAGA
1 AATACCCTTGATTTACAAAATTACCA-AAAGACCCTTGA-TTT-GTAAAATTACCA-A
* * * * * * * *
35811248 AATACCATTGGTTTGCAAAATTATCGAAATACCCTTTG-TTTGTAGATTTACCAA
1 AATACCCTTGATTTACAAAATTACCAAAAGACCC-TTGATTTGTAAAATTACCAA
*
35811302 AACACCCTTG
1 AATACCCTTG
35811312 TAGGGTGAAA
Statistics
Matches: 226, Mismatches: 43, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
53 49 0.22
54 124 0.55
55 14 0.06
56 36 0.16
57 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AATACCCTTGATTTACAAAATTACCAAAAGACCCTTGATTTGTAAAATTACCAA
Found at i:35811194 original size:80 final size:80
Alignment explanation
Indices: 35810950--35811226 Score: 263
Period size: 80 Copynumber: 3.4 Consensus size: 80
35810940 AGAATTACTG
* * * ** **
35810950 AAATACCCTTGGTTTACAAAGTTACTGAATACCCTTG-GTTTACAAAATTACCAAAAGACCCTTG
1 AAATACCCTTGATTTATAAAATTACAAAATACCC-TGAGTTTGGAAAATTACCAAAAGACCCTTG
* *
35811014 ATTAGCAAAATTACCA
65 ATTTGGAAAATTACCA
* * * * * * * *
35811030 AAATACCCTTGATTTTTAAAATTTCCAAAATACCTTTAGTTTGTAAAATTACCAAAATACCCCTA
1 AAATACCCTTGATTTATAAAA-TTACAAAATACCCTGAGTTTGGAAAATTACCAAAAGACCCTTG
35811095 ATTTGTG-AAATTACCA
65 ATTTG-GAAAATTACCA
* * * *
35811111 AAATACCCTTAATTTGTAAAATTACAAAATATCCCTGA-TTTGGAAAATAACCGAAAGACCCTTG
1 AAATACCCTTGATTTATAAAATTACAAAATA-CCCTGAGTTTGGAAAATTACCAAAAGACCCTTG
**
35811175 ATTTGGAAAATTATAA
65 ATTTGGAAAATTACCA
* *
35811191 AAATACCCTTGATTTACAAAATTATAGAAATACCCT
1 AAATACCCTTGATTTATAAAATTACA-AAATACCCT
35811227 TGACTTTCAA
Statistics
Matches: 158, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
79 1 0.01
80 85 0.54
81 72 0.46
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATACCCTTGATTTATAAAATTACAAAATACCCTGAGTTTGGAAAATTACCAAAAGACCCTTGA
TTTGGAAAATTACCA
Found at i:35811609 original size:41 final size:41
Alignment explanation
Indices: 35811549--35811673 Score: 187
Period size: 41 Copynumber: 3.0 Consensus size: 41
35811539 GGAGGAAGAA
* *
35811549 ATTGAGGATCGCATAGTTGCTTGACGACCGTGGATCCACGG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
35811590 ATTGAGGATCGCATGGTTGCTTGACGACCGTGAATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
35811631 ATTAAGGATCGCATGGTTGCTTGATGATCGTGGATTCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
35811672 AT
1 AT
35811674 GGCTTTTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:35811865 original size:22 final size:22
Alignment explanation
Indices: 35811813--35811877 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
35811803 GCCAATTATT
*
35811813 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
35811835 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
35811857 CTGATTATGGATGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
35811878 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:35814854 original size:27 final size:26
Alignment explanation
Indices: 35814817--35814931 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
35814807 ATTGGTTTAC
* *
35814817 AAAATTACCAAAATACCCTCGATTAGA
1 AAAATTACCAAAATACCCT-GATTTGT
*
35814844 AAAATTACCAAAATACTCCTAATTTGT
1 AAAATTACCAAAATAC-CCTGATTTGT
* **
35814871 GAAATTACTGAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* *
35814898 AAAATTACCAAAATACCCTTGATATGG
1 AAAATTACCAAAATACCC-TGATTTGT
35814925 AAAATTA
1 AAAATTA
35814932 TTGAAAGACC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 69 0.93
28 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:35814930 original size:54 final size:55
Alignment explanation
Indices: 35814817--35814937 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 55
35814807 ATTGGTTTAC
** *
35814817 AAAATTACCAAAATACCCTCGATTAGAAAAATTACCAAAATACTCCTAATTTGTG
1 AAAATTACTGAAATACCCTCGATTAGAAAAATTACCAAAATACTCCTAATATGTG
* * * *
35814872 -AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATAC-CCTTGATATG-G
1 AAAATTACTGAAATACCCTCGATTAGAAAAATTACCAAAATACTCC-TAATATGTG
*
35814925 AAAATTATTGAAA
1 AAAATTACTGAAA
35814938 GACCTATAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.05
54 53 0.95
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (55 bp):
AAAATTACTGAAATACCCTCGATTAGAAAAATTACCAAAATACTCCTAATATGTG
Found at i:35816298 original size:27 final size:27
Alignment explanation
Indices: 35815782--35816284 Score: 695
Period size: 27 Copynumber: 18.7 Consensus size: 27
35815772 TTAGTTTACC
35815782 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
35815809 AAATTACTAAAA-ACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35815835 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35815862 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35815889 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35815916 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35815943 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
35815970 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
35815997 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35816024 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35816051 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35816078 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35816105 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35816132 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
35816159 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35816186 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35816213 AAATTACCAAAATACCCCT-ATTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35816239 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
35816266 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
35816285 AATTTATGAA
Statistics
Matches: 419, Mismatches: 55, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
26 45 0.11
27 374 0.89
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:35816362 original size:27 final size:26
Alignment explanation
Indices: 35815782--35816380 Score: 473
Period size: 27 Copynumber: 22.3 Consensus size: 26
35815772 TTAGTTTACC
*
35815782 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* * * *
35815809 AAATTACTAAAA-ACCCTTGGTTTATA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
35815835 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* * **
35815862 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
35815889 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
* * * * *
35815916 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
35815943 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* * * **
35815970 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-CGATTTGTA
*
35815997 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* * *
35816024 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC--CGATTTGTA
*
35816051 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATA-CCCCGATTTGTA
*
35816078 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
*
35816105 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* *
35816132 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
*
35816159 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GATTTGTA
* *
35816186 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* *
35816213 AAATTACCAAAATACCCCTATTTTTA
1 AAATTACCAAAATACCCCGATTTGTA
* *
35816239 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCGA-TTTGTA
* * *
35816266 AAATTACCAAAATACCCCTAATTTATG
1 AAATTACCAAAATACCCC-GATTTGTA
*** **
35816293 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
**** *
35816320 AAATTTTTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
* *
35816347 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCC-GATTTGTA
*
35816374 GAATTAC
1 AAATTAC
35816381 TGTTTTACCC
Statistics
Matches: 479, Mismatches: 75, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
26 51 0.11
27 422 0.88
28 6 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATTTGTA
Found at i:35816443 original size:27 final size:27
Alignment explanation
Indices: 35816286--35816445 Score: 103
Period size: 27 Copynumber: 5.9 Consensus size: 27
35816276 AATACCCCTA
*
35816286 ATTTATGAAATTATTGAAATACCCTCG
1 ATTTATAAAATTATTGAAATACCCTCG
** * *
35816313 ACCTGTAAAATTTTTGAAATACCCTCG
1 ATTTATAAAATTATTGAAATACCCTCG
* * **
35816340 ACTTGTAAAATTA-CCAAAGTACCC-CTG
1 ATTTATAAAATTATTGAAA-TACCCTC-G
* * ***
35816367 ATTTATAGAATTACTGTTTTACCCTCG
1 ATTTATAAAATTATTGAAATACCCTCG
* **
35816394 ATTTACAAAATTACCTT--TTTACCCTCG
1 ATTTATAAAATTA--TTGAAATACCCTCG
35816421 ATTTATAAAATTATTGAAATACCCT
1 ATTTATAAAATTATTGAAATACCCT
35816446 TGTAGGGTAG
Statistics
Matches: 102, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
25 2 0.02
26 4 0.04
27 94 0.92
28 1 0.01
29 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (27 bp):
ATTTATAAAATTATTGAAATACCCTCG
Found at i:35816444 original size:54 final size:54
Alignment explanation
Indices: 35816318--35816445 Score: 123
Period size: 54 Copynumber: 2.4 Consensus size: 54
35816308 CCTCGACCTG
* **
35816318 TAAAATTTTTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTGATTTA
1 TAAAATTATTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCTGATTTA
* * *** * ****
35816372 TAGAATTACTGTTTTACCCTCGATTTACAAAATTACCTTTTTA-CCCTCGATTTA
1 TAAAATTATTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCT-GATTTA
35816426 TAAAATTATTGAAATACCCT
1 TAAAATTATTGAAATACCCT
35816446 TGTAGGGTAG
Statistics
Matches: 55, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (54 bp):
TAAAATTATTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCTGATTTA
Found at i:35816502 original size:27 final size:27
Alignment explanation
Indices: 35816436--35816673 Score: 282
Period size: 27 Copynumber: 8.9 Consensus size: 27
35816426 TAAAATTATT
*
35816436 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
35816463 G-AATACCCTTGTAGAGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACC
35816489 GAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
35816516 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
35816543 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
35816570 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
35816597 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* * * *
35816624 AAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
35816651 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAAT
35816674 TACCATTTTA
Statistics
Matches: 185, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 27 0.15
27 158 0.85
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACC
Found at i:35816577 original size:81 final size:81
Alignment explanation
Indices: 35816436--35816648 Score: 311
Period size: 81 Copynumber: 2.6 Consensus size: 81
35816426 TAAAATTATT
* * ** * * * **
35816436 GAAATACCCTTGTAGGGTAGAAATAC-CGAATACCCTTGTAGAGTAGAAATACTGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
35816500 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
*
35816516 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
35816581 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
* *
35816597 GAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTA
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA
35816649 TCGAGATACC
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 24 0.20
81 96 0.80
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
GTAGGGTAGAAATACC
Found at i:35816971 original size:33 final size:32
Alignment explanation
Indices: 35816922--35816985 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
35816912 CTCGCTGCAA
* *
35816922 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
35816955 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
35816986 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:35816999 original size:27 final size:26
Alignment explanation
Indices: 35816947--35817006 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35816937 ACATATATAT
*
35816947 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
35816973 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
35817000 ATATCTG
1 ATATCTG
35817007 GCAGCCTCAT
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:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:35817134 original size:6 final size:6
Alignment explanation
Indices: 35817125--35817296 Score: 104
Period size: 6 Copynumber: 27.8 Consensus size: 6
35817115 TTGCATTCAC
* *
35817125 ATTCTG ATTCCG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
35817175 ATTCTA ATTCTG GTTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
35817224 ATTGTG -TTACCTA ATTCTG ATTCTG ATTTTG AATT-TG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG -ATTCTG ATTCTG AT--TCTG
*
35817274 ATTCTG ATTCTA ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
35817297 CATTTTAATT
Statistics
Matches: 128, Mismatches: 21, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
5 12 0.09
6 93 0.73
7 16 0.12
8 7 0.05
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:35817158 original size:19 final size:19
Alignment explanation
Indices: 35817153--35817223 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
35817143 TTACCTGATA
*
35817153 CTGATTCTGATTCTGTTAC
1 CTGATTCTAATTCTGTTAC
35817172 CTGATTCTAATTCTGGTT--
1 CTGATTCTAATTCT-GTTAC
35817190 CTGATTCTAATTCTGTTAC
1 CTGATTCTAATTCTGTTAC
* *
35817209 CTGATACTGATTCTG
1 CTGATTCTAATTCTG
35817224 ATTGTGTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.07
18 14 0.30
19 26 0.57
20 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (19 bp):
CTGATTCTAATTCTGTTAC
Found at i:35817184 original size:25 final size:25
Alignment explanation
Indices: 35817125--35817291 Score: 100
Period size: 25 Copynumber: 6.7 Consensus size: 25
35817115 TTGCATTCAC
*
35817125 ATTCTGATTCCGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
35817150 ATACTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
35817175 ATTCTAATTCTGGTTCTGATT--CTA
1 ATTCTGATTCTGATTCTG-TTACCTG
*
35817199 ATTCTG-TTACCTGATACTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
* *
35817224 ATTGTG-TTACCTAATTCTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
* *
35817249 ATTTTGAATT-TGATTCTGTCACCTG
1 ATTCTG-ATTCTGATTCTGTTACCTG
*
35817274 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTGATTCTG
35817292 ATTCTCATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
23 3 0.03
24 17 0.15
25 92 0.79
26 2 0.02
27 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:35817194 original size:37 final size:37
Alignment explanation
Indices: 35817153--35817223 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
35817143 TTACCTGATA
* *
35817153 CTGATTCTGATTCTGTTACCTGATTCTAATTCTGGTT
1 CTGATTCTAATTCTGTTACCTGATACTAATTCTGGTT
*
35817190 CTGATTCTAATTCTGTTACCTGATACTGATTCTG
1 CTGATTCTAATTCTGTTACCTGATACTAATTCTG
35817224 ATTGTGTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGATTCTAATTCTGTTACCTGATACTAATTCTGGTT
Found at i:35817223 original size:62 final size:62
Alignment explanation
Indices: 35817126--35817317 Score: 228
Period size: 62 Copynumber: 3.1 Consensus size: 62
35817116 TGCATTCACA
* *
35817126 TTCTGATTCCGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTGATTCTAATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTGG
* * * *
35817188 TTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTGTGTTACCTAATTCTGATTCTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTGG
* * * * * * *
35817250 TTTTGAATT-TGATTCTGTCACCTGATTCTGATTCTAATTCTGATT--CTCATTTTAATTCTAG
1 TTCTG-ATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG-TTACCTAATTCTAATTCTGG
35817311 TTCTGAT
1 TTCTGAT
35817318 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
60 2 0.02
61 15 0.14
62 88 0.80
63 5 0.05
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (62 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTGG
Found at i:35817250 original size:37 final size:37
Alignment explanation
Indices: 35817196--35817296 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 37
35817186 GGTTCTGATT
* * *
35817196 CTAATTCTG-TTACCTGATACTGATTCTGATTGTGTTAC
1 CTAATTCTGATT--CTGATTCTGATTCTGATTCTGTCAC
*
35817234 CTAATTCTGATTCTGATTTTGAATT-TGATTCTGTCAC
1 CTAATTCTGATTCTGATTCTG-ATTCTGATTCTGTCAC
* *
35817271 CTGATTCTGATTCTAATTCTGATTCT
1 CTAATTCTGATTCTGATTCTGATTCT
35817297 CATTTTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
36 3 0.06
37 36 0.68
38 12 0.23
39 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.48
Consensus pattern (37 bp):
CTAATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
Found at i:35817291 original size:12 final size:12
Alignment explanation
Indices: 35817274--35817317 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
35817264 CTGTCACCTG
35817274 ATTCTGATTCTA
1 ATTCTGATTCTA
*
35817286 ATTCTGATTCTC
1 ATTCTGATTCTA
* *
35817298 ATTTTAATTCTA
1 ATTCTGATTCTA
*
35817310 GTTCTGAT
1 ATTCTGAT
35817318 AATGTTTCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:35818387 original size:41 final size:41
Alignment explanation
Indices: 35818342--35818421 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
35818332 CGGAGGAAGA
*
35818342 AATTGAGGATCGCATGGTTGCTTGACTATCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
35818383 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
35818422 TCGGTGGCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
Found at i:35818620 original size:22 final size:22
Alignment explanation
Indices: 35818566--35818630 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
35818556 GCCAATTATT
*
35818566 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
35818588 CT-ACATCTGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
35818610 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
35818631 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:35821452 original size:28 final size:29
Alignment explanation
Indices: 35821405--35821459 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
35821395 ACAAGGGTTT
35821405 TCACACAGCCAAGCACACGCCCGTGTCCC
1 TCACACAGCCAAGCACACGCCCGTGTCCC
* *
35821434 TCACACGGCCTAG-ACACGCCCGTGTC
1 TCACACAGCCAAGCACACGCCCGTGTC
35821460 ATCGCCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.22, C:0.45, G:0.20, T:0.13
Consensus pattern (29 bp):
TCACACAGCCAAGCACACGCCCGTGTCCC
Found at i:35831955 original size:28 final size:28
Alignment explanation
Indices: 35831923--35832006 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
35831913 ACAATCCGGT
*
35831923 ACACGTAGTAGCATGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
* *
35831951 ACACGT-G-A-CCT-CAC-CA-T-CTGAT
1 ACACGTAGTAGCCTGCACTTAGTACT-AC
35831973 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
35832001 ACACGT
1 ACACGT
35832007 GATCAAAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 4 0.09
25 5 0.12
26 4 0.09
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
ACACGTAGTAGCCTGCACTTAGTACTAC
Found at i:35832105 original size:50 final size:50
Alignment explanation
Indices: 35831879--35832106 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 50
35831869 CTGATACGCA
* * * *
35831879 TAGTAGCCTACACTTAGTACTACACATGCGAC-CAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTACTGTACACG
* * * *
35831928 TAGTAGCATGCACTTAGTACTACACACGTGACCTCACCA-T-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACAGTACTG-TACACG
* * * * *
35831978 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-ACT--GTACACG
* * *
35832029 TAGTAGCCTGAACTTAGTACTACACATGCGACTTAACAGTATTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTACTGTACACG
35832079 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
35832107 TGTATTCACA
Statistics
Matches: 151, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 29 0.19
50 71 0.47
51 36 0.24
52 7 0.05
53 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTACTGTACACG
Found at i:35837751 original size:40 final size:39
Alignment explanation
Indices: 35837667--35837851 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
35837657 TTGAATGATG
* * * *
35837667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35837707 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
35837747 TCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTGCTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
35837786 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
35837827 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
35837852 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35837803 original size:79 final size:81
Alignment explanation
Indices: 35837667--35837851 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
35837657 TTGAATGATG
*
35837667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35837731 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
35837746 TTCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTG-CTAAATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAG-TGACCAAATCCGGACTAAGAT-CCGAAGGC
*
35837807 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
35837826 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35837852 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 57 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35837873 original size:79 final size:79
Alignment explanation
Indices: 35837720--35837874 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 79
35837710 GGACTAAGAT
* *** **
35837720 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTGCTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAA
35837785 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
35837799 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGGAGCT
*
35837863 ATATCC-GGTTAA
64 AAATCCGGGTTAA
35837875 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAA
ATCCGGGTTAAGTC
Found at i:35842630 original size:50 final size:50
Alignment explanation
Indices: 35842511--35842748 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
35842501 AGCTGAAGCT
* * * *
35842511 ATCTGATACGCATAGTAGCCTGCACTTAGCACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC
* * * *
35842560 ATCCGATACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC
* * * * *
35842610 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CC
* * *
35842661 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC
* *
35842710 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
35842749 CGTGTCTTCA
Statistics
Matches: 159, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 41 0.26
50 78 0.49
51 40 0.25
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC
Found at i:35844065 original size:13 final size:13
Alignment explanation
Indices: 35844047--35844071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35844037 CCAAGCACAC
35844047 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
35844060 GCCCGTGTCCCT
1 GCCCGTGTCCCT
35844072 CACACAACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:35845519 original size:47 final size:47
Alignment explanation
Indices: 35845441--35845798 Score: 572
Period size: 47 Copynumber: 7.6 Consensus size: 47
35845431 CCCTTCGGGA
* * * * * *
35845441 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
35845488 CCTATCACATATATACACTTTCATATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35845535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35845582 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35845629 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35845676 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35845725 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35845772 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35845799 TATTCAAATA
Statistics
Matches: 291, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 247 0.85
49 44 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35845762 original size:190 final size:188
Alignment explanation
Indices: 35845441--35845798 Score: 617
Period size: 190 Copynumber: 1.9 Consensus size: 188
35845431 CCCTTCGGGA
* * * *
35845441 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
35845506 TTTCATATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
35845571 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
* * * *
35845629 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
35845694 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
35845759 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
35845799 TATTCAAATA
Statistics
Matches: 159, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 47 0.30
190 112 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
Found at i:35848619 original size:79 final size:81
Alignment explanation
Indices: 35848508--35848689 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
35848498 GCTACTCGTT
* *
35848508 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
35848572 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
35848588 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35848651 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
35848668 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
35848690 AGACATCATT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 4 0.04
79 55 0.62
80 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:35848625 original size:39 final size:40
Alignment explanation
Indices: 35848508--35848689 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
35848498 GCTACTCGTT
*
35848508 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
35848548 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35848588 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
35848627 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35848668 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
35848690 AGACATCATT
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35853137 original size:40 final size:40
Alignment explanation
Indices: 35853105--35853494 Score: 658
Period size: 40 Copynumber: 9.8 Consensus size: 40
35853095 CCAGCATGAT
* * * *
35853105 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
35853145 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35853185 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35853225 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35853265 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35853305 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35853344 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35853383 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35853423 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35853463 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
35853495 CTCAATTCTC
Statistics
Matches: 333, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
39 77 0.23
40 256 0.77
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:35853458 original size:198 final size:200
Alignment explanation
Indices: 35853105--35853494 Score: 658
Period size: 198 Copynumber: 2.0 Consensus size: 200
35853095 CCAGCATGAT
* **
35853105 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
* *
35853170 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGA
35853235 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGC
131 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGC
35853300 ACGAA
196 ACGAA
* * * *
35853305 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
* *
35853368 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGA
*
35853433 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
131 GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
35853495 CTCAATTCTC
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 135 0.76
199 35 0.20
200 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (200 bp):
TGCTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGA
GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGC
ACGAA
Found at i:35854977 original size:47 final size:47
Alignment explanation
Indices: 35854906--35855216 Score: 505
Period size: 47 Copynumber: 6.6 Consensus size: 47
35854896 CCCTTCGGGA
* * * * * *
35854906 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35854953 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35855000 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35855047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35855094 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35855143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35855190 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35855217 TATTCAAATA
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 205 0.82
49 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35854984 original size:25 final size:25
Alignment explanation
Indices: 35854956--35855034 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35854946 ACTCGGCCCT
35854956 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35854981 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35855003 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35855028 ATCACAT
1 ATCACAT
35855035 CGGCCATTAG
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:35855162 original size:143 final size:141
Alignment explanation
Indices: 35854906--35855216 Score: 541
Period size: 143 Copynumber: 2.2 Consensus size: 141
35854896 CCCTTCGGGA
* * * * *
35854906 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
35854971 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
35855036 GGCCATTAGGC
131 GGCCATTAGGC
* *
35855047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
35855112 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
35855177 TCGGCCATTAGGC
129 TCGGCCATTAGGC
35855190 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35855217 TATTCAAATA
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 48 0.30
143 113 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:35878628 original size:42 final size:42
Alignment explanation
Indices: 35878581--35878695 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
35878571 ATTGAAATTC
*
35878581 CGTATAAGACCATATTTGGGATATGGCATTGGTATG-TGATTT
1 CGTATAAGACCATATTAGGGATATGGCATTGGTATGAT-ATTT
* * ** *
35878623 CGTATAAGACCATGTTAGGGACATGGGGTCGGTATGATATTT
1 CGTATAAGACCATATTAGGGATATGGCATTGGTATGATATTT
* * *
35878665 CATGTAAGACCATATCCA-GGATATGGCATTG
1 CGTATAAGACCATAT-TAGGGATATGGCATTG
35878696 ATACAGTACT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTATAAGACCATATTAGGGATATGGCATTGGTATGATATTT
Found at i:35882755 original size:40 final size:40
Alignment explanation
Indices: 35882671--35882854 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
35882661 TTGAATGCTG
* * * *
35882671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
35882710 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
35882751 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
35882791 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
35882831 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35882855 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:35882808 original size:80 final size:81
Alignment explanation
Indices: 35882671--35882851 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
35882661 TTGAATGCTG
* * *
35882671 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
35882735 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
35882751 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
35882812 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
35882831 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35882852 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:35882875 original size:39 final size:38
Alignment explanation
Indices: 35882752--35882901 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
35882742 GTTATTAATT
* ** * *
35882752 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
35882792 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
35882831 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
35882871 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
35882902 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:35896633 original size:40 final size:39
Alignment explanation
Indices: 35896596--35896772 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 39
35896586 ATATCCGGAC
*
35896596 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
35896636 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
35896676 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
35896716 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACC-GGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
35896754 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
35896773 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 16 0.13
39 19 0.16
40 82 0.69
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:35896686 original size:80 final size:78
Alignment explanation
Indices: 35896602--35896772 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 78
35896592 GGACTAAGAT
* *
35896602 CCGAAGGCATTTGTGCGAGATA-CAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAA-ATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
35896666 AAATCCGGGTTAAGTC
64 AAAACC-GGCTAAGTC
* * * * * *
35896682 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
35896747 AACCGGCTATGTC
66 AACCGGCTAAGTC
35896760 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35896773 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 19 0.24
79 18 0.23
80 39 0.50
81 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGCTAAGTC
Found at i:35898323 original size:21 final size:21
Alignment explanation
Indices: 35898298--35898361 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
35898288 CGTGAAAATT
35898298 TTTGAAAATGTGATAGGTTAA
1 TTTGAAAATGTGATAGGTTAA
* **
35898319 TTTG-AAGTG-GA-AAATT--
1 TTTGAAAATGTGATAGGTTAA
35898335 TTTGAAAATGTGATAGGTTAA
1 TTTGAAAATGTGATAGGTTAA
35898356 TTTGAA
1 TTTGAA
35898362 GTGGCCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 5 0.16
19 5 0.16
20 4 0.12
21 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.39
Consensus pattern (21 bp):
TTTGAAAATGTGATAGGTTAA
Found at i:35898332 original size:37 final size:37
Alignment explanation
Indices: 35898291--35898365 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
35898281 GGACTTACGT
35898291 GAAAATTTTTGAAAATGTGATAGGTTAATTTGAAGTG
1 GAAAATTTTTGAAAATGTGATAGGTTAATTTGAAGTG
35898328 GAAAATTTTTGAAAATGTGATAGGTTAATTTGAAGTG
1 GAAAATTTTTGAAAATGTGATAGGTTAATTTGAAGTG
35898365 G
1 G
35898366 CCAAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.37
Consensus pattern (37 bp):
GAAAATTTTTGAAAATGTGATAGGTTAATTTGAAGTG
Found at i:35899230 original size:47 final size:47
Alignment explanation
Indices: 35899079--35899218 Score: 241
Period size: 47 Copynumber: 3.0 Consensus size: 47
35899069 GTTGAATTTA
*
35899079 AAGCTTGTTAAA-TTGCTCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
35899125 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
35899172 AAGCTTGTTAAATTTGCCCTT-ATATTT-CGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
35899217 AA
1 AA
35899219 AGAAATTTTA
Statistics
Matches: 91, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
45 20 0.22
46 18 0.20
47 53 0.58
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:35900088 original size:45 final size:45
Alignment explanation
Indices: 35900024--35900192 Score: 158
Period size: 45 Copynumber: 3.9 Consensus size: 45
35900014 CGCACAGTAT
* *
35900024 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
1 TATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
*
35900068 CTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
1 -TATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
35900114 TA-TC-AGGCTTCGAGCCTAGCAGG-TGA-AATGCCGGTG-AATGA
1 TATTCGAGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTGAAATGA
** * * *
35900155 -ATTC-AGGTTTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 TATTCGA-GCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
35900193 TTTGATAAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
40 1 0.01
41 8 0.08
42 33 0.31
43 19 0.18
44 2 0.02
45 42 0.40
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:35903027 original size:39 final size:39
Alignment explanation
Indices: 35902961--35903190 Score: 310
Period size: 39 Copynumber: 5.9 Consensus size: 39
35902951 GGGACATACA
35902961 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
35903000 TAGTAACT-GCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGGATT
* *
35903039 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
35903078 TAGTAACTCGCAC-AATGCCTT-GGACTT-ACCCGGA-T
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
** *
35903113 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGATT
* * *
35903153 TAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCCGGA
35903191 CATCATTCGA
Statistics
Matches: 172, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
35 14 0.08
36 14 0.08
37 8 0.05
38 25 0.15
39 64 0.37
40 36 0.21
41 11 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATT
Found at i:35903127 original size:114 final size:118
Alignment explanation
Indices: 35902961--35903190 Score: 339
Period size: 114 Copynumber: 2.0 Consensus size: 118
35902951 GGGACATACA
35902961 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAGTAACTGCACAAATGCCTTCGGGA
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAGTAACTGCACAAATGCCTTC-GGA
* *
35903026 -CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGATT
65 TCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGATT
35903078 TAGTAACTCGCAC-AATGCCTT-GGACTT-ACCCGGA-TTAGTAACTCGCACAAATGCCTTCGGA
1 TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAGTAACT-GCACAAATGCCTTCGGA
** *
35903139 TCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 TCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
35903191 CATCATTCGA
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
113 12 0.12
114 46 0.44
115 25 0.24
116 8 0.08
117 13 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (118 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTAGTAACTGCACAAATGCCTTCGGAT
CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGATT
Found at i:35910805 original size:119 final size:121
Alignment explanation
Indices: 35910628--35910888 Score: 388
Period size: 119 Copynumber: 2.2 Consensus size: 121
35910618 CCACTCGTTT
* *
35910628 AAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
* * *
35910693 TTTAGTAACTGGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
66 TTTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCAC
*
35910748 AAATGGCTTCGGG-CTTAGCCCGAATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 AAATGCCTTCGGGACTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
** *
35910811 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCAC
65 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCAC
35910868 AAA-GCCTTCGGGACTTAGCCC
1 AAATGCCTTCGGGACTTAGCCC
35910889 AGACATCATT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
118 3 0.02
119 93 0.73
120 31 0.24
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (121 bp):
AAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCAC
Found at i:35910885 original size:40 final size:40
Alignment explanation
Indices: 35910628--35910888 Score: 359
Period size: 40 Copynumber: 6.5 Consensus size: 40
35910618 CCACTCGTTT
*
35910628 AAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
35910668 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
35910708 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
35910748 AAATGGCTTCGGG-CTTAGCCCGAATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
35910787 AAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * *
35910827 AAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
35910868 AAA-GCCTTCGGGACTTAGCCC
1 AAATGCCTTCGGGACTTAGCCC
35910889 AGACATCATT
Statistics
Matches: 198, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.20
40 144 0.73
41 15 0.08
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:35929207 original size:21 final size:21
Alignment explanation
Indices: 35929159--35929207 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
35929149 ATTCATTTCT
* *
35929159 CGGAATGCCCATTGAACCGTA
1 CGGAATCCCCATTGAAACGTA
**
35929180 CAAAATCCCCATTGAAACGTA
1 CGGAATCCCCATTGAAACGTA
*
35929201 TGGAATC
1 CGGAATC
35929208 AAATAGGATC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (21 bp):
CGGAATCCCCATTGAAACGTA
Found at i:35929309 original size:43 final size:41
Alignment explanation
Indices: 35929238--35929356 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 41
35929228 CGAAAAACTC
*
35929238 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAA-TCAA
1 ATACAATGCC-ATGTCCCAGACAG-GGTCTTACACG-AAGTCAA
* *
35929280 ATATCGATGCCACTGTCTCAGACAGGGTCTTACACGAAGTCAA
1 ATA-CAATGCCA-TGTCCCAGACAGGGTCTTACACGAAGTCAA
* *
35929323 TTACAATGCCGATGTCCCAGACATGGTCTTACAC
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACAC
35929357 ATAAATCTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 32 0.49
43 32 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
ATACAATGCCATGTCCCAGACAGGGTCTTACACGAAGTCAA
Found at i:35929345 original size:42 final size:41
Alignment explanation
Indices: 35929238--35929411 Score: 129
Period size: 43 Copynumber: 4.1 Consensus size: 41
35929228 CGAAAAACTC
*
35929238 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACAATGCC-ATGTCCCAGACAG-GGTCTTACACGTAATCAA
* *
35929280 ATATCGATGCCACTGTCTCAGACAGGGTCTTACACG-AAGTCAA
1 ATA-CAATGCCA-TGTCCCAGACAGGGTCTTACACGTAA-TCAA
* * *
35929323 TTACAATGCCGATGTCCCAGACATGGTCTTACACATAAATCTCAA
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACACGT-AA--TCAA
* ** * * *
35929368 AT-CGATGCCAACATCCCAGACATGATCTTACACGAAATCAA
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACACGTAATCAA
35929409 ATA
1 ATA
35929412 TCAAAATCCT
Statistics
Matches: 106, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
41 6 0.06
42 32 0.30
43 34 0.32
44 29 0.27
45 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
ATACAATGCCATGTCCCAGACAGGGTCTTACACGTAATCAA
Found at i:35937259 original size:11 final size:11
Alignment explanation
Indices: 35937245--35937283 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
35937235 CAATATTGAT
35937245 ATGATATGCAC
1 ATGATATGCAC
*
35937256 ATGATATG--T
1 ATGATATGCAC
35937265 ATGATATGCAC
1 ATGATATGCAC
35937276 ATGATATG
1 ATGATATG
35937284 TAGGATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:35937269 original size:20 final size:20
Alignment explanation
Indices: 35937244--35937320 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
35937234 ACAATATTGA
35937244 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
35937264 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* * *
35937284 TAGGATATCCATATGATATG
1 TATGATATGCACATGATATG
*
35937304 TATGATATACACATGAT
1 TATGATATGCACATGAT
35937321 GTATTCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:35937400 original size:26 final size:26
Alignment explanation
Indices: 35937370--35937442 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
35937360 GAGGAAGTGC
*
35937370 AAAAGGGTTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
35937396 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
35937422 AAAAGGGCTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
35937443 ATTAAAAGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:35942648 original size:28 final size:28
Alignment explanation
Indices: 35942582--35942709 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
35942572 CATGAGATTG
* * **
35942582 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
35942611 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35942639 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
35942668 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35942696 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
35942710 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35942671 original size:57 final size:57
Alignment explanation
Indices: 35942582--35942709 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
35942572 CATGAGATTG
*
35942582 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
35942639 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
35942696 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
35942710 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:35952499 original size:28 final size:28
Alignment explanation
Indices: 35952467--35952594 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
35952457 ATAGTAAGTC
*
35952467 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
35952495 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
35952524 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
35952552 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
35952581 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35952595 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:35952557 original size:57 final size:57
Alignment explanation
Indices: 35952466--35952594 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
35952456 TATAGTAAGT
*
35952466 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
35952523 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
35952580 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
35952595 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:35954015 original size:6 final size:6
Alignment explanation
Indices: 35953999--35954110 Score: 68
Period size: 6 Copynumber: 18.0 Consensus size: 6
35953989 TAACCCATTA
* * * *
35953999 CAGAAT AAGAAT CAGAAT CAGAAT TAG-GT GACAGAAT TAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * *
35954048 CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT CAGTAT CAGGTAA- CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT
*
35954098 CAAAAAT CAGAAT
1 C-AGAAT CAGAAT
35954111 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 59 0.74
7 13 0.16
8 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:35954041 original size:31 final size:31
Alignment explanation
Indices: 35953998--35954110 Score: 156
Period size: 31 Copynumber: 3.6 Consensus size: 31
35953988 TTAACCCATT
* * *
35953998 ACAGAATAAGAATCAGAATCAGAATTAGGTG
1 ACAGAATAAGAATCAGAATCAGTATCAGGTA
*
35954029 ACAGAATTAGAATCAGAATCAGTATCAGGTA
1 ACAGAATAAGAATCAGAATCAGTATCAGGTA
35954060 ACAGAATCAA-AATCAGAATCAGTATCAGGTA
1 ACAGAAT-AAGAATCAGAATCAGTATCAGGTA
*
35954091 ACAGAATCAAAAATCAGAAT
1 ACAGAAT-AAGAATCAGAAT
35954111 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
31 65 0.87
32 10 0.13
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (31 bp):
ACAGAATAAGAATCAGAATCAGTATCAGGTA
Found at i:35954066 original size:19 final size:19
Alignment explanation
Indices: 35954042--35954099 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
35954032 GAATTAGAAT
35954042 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
35954061 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
35954073 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
35954092 CAGAATCA
1 CAGAATCA
35954100 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:35954329 original size:28 final size:28
Alignment explanation
Indices: 35954252--35954347 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
35954242 TTATCAAATA
* * *
35954252 TTGTGACAAAGTCACCAGATACAGAT-T
1 TTGTGGCAAAGCCACCAGAAACAGATAT
*
35954279 TTGTGGCAGAGCCACCAG-AACAGATAT
1 TTGTGGCAAAGCCACCAGAAACAGATAT
*
35954306 TTGTGGCATAGCCACCAGAAACAGATA-
1 TTGTGGCAAAGCCACCAGAAACAGATAT
*
35954333 ATGTGGCAAAGCCAC
1 TTGTGGCAAAGCCAC
35954348 TTAACAGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 6 0.10
27 46 0.77
28 8 0.13
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
TTGTGGCAAAGCCACCAGAAACAGATAT
Found at i:35954534 original size:22 final size:22
Alignment explanation
Indices: 35954506--35954570 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
35954496 GCAAATACGT
*
35954506 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
35954528 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
35954550 TTGACATAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
35954571 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:35955055 original size:27 final size:27
Alignment explanation
Indices: 35955024--35955190 Score: 221
Period size: 27 Copynumber: 6.2 Consensus size: 27
35955014 AGGCATCTCG
* *
35955024 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
35955051 GTAATTCTACCCTACAGTGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
35955078 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
35955105 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
35955132 GTAATTCTA-CCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
35955157 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
35955185 GTAATT
1 GTAATT
35955191 GTGACACCCC
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.01
26 22 0.17
27 102 0.81
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:35957861 original size:40 final size:40
Alignment explanation
Indices: 35957715--35957847 Score: 171
Period size: 40 Copynumber: 3.3 Consensus size: 40
35957705 GGGCTAAGTC
* * * *
35957715 CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGAT
*
35957755 TCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT
* *
35957795 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATG-T
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT
35957834 CCCGAAGGCATTTG
1 -CCGAAGGCATTTG
35957848 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.90
41 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGAT
Found at i:35958144 original size:47 final size:47
Alignment explanation
Indices: 35958075--35958286 Score: 334
Period size: 47 Copynumber: 4.5 Consensus size: 47
35958065 GGTTGGTAAG
35958075 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
35958122 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
35958169 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
35958216 GTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
35958263 GTGAAAGTGCATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
35958287 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 152 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Done.